Mercurial > repos > iuc > lineagespot
annotate test-data/SampleA_freebayes_ann.vcf @ 1:99494998688a draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 6a6a37f2574954dae65f9ec407fe38594ed37659
| author | iuc |
|---|---|
| date | Sun, 25 Feb 2024 09:49:20 +0000 |
| parents | 6ddf5a9ce4a5 |
| children |
| rev | line source |
|---|---|
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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1 ##fileformat=VCFv4.2 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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2 ##fileDate=20210401 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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3 ##source=freeBayes v1.3.2-dirty |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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4 ##reference=NC_045512.fasta |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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5 ##contig=<ID=NC_045512.2,length=29903> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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6 ##phasing=none |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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7 ##commandline="freebayes -f NC_045512.fasta -F 0.01 -C 1 --pooled-continuous L4_S1_L001_sorted_uniq.bam" |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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8 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of samples with data"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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9 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total read depth at the locus"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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10 ##INFO=<ID=DPB,Number=1,Type=Float,Description="Total read depth per bp at the locus; bases in reads overlapping / bases in haplotype"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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11 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Total number of alternate alleles in called genotypes"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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12 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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13 ##INFO=<ID=AF,Number=A,Type=Float,Description="Estimated allele frequency in the range (0,1]"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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14 ##INFO=<ID=RO,Number=1,Type=Integer,Description="Count of full observations of the reference haplotype."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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15 ##INFO=<ID=AO,Number=A,Type=Integer,Description="Count of full observations of this alternate haplotype."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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16 ##INFO=<ID=PRO,Number=1,Type=Float,Description="Reference allele observation count, with partial observations recorded fractionally"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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17 ##INFO=<ID=PAO,Number=A,Type=Float,Description="Alternate allele observations, with partial observations recorded fractionally"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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18 ##INFO=<ID=QR,Number=1,Type=Integer,Description="Reference allele quality sum in phred"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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19 ##INFO=<ID=QA,Number=A,Type=Integer,Description="Alternate allele quality sum in phred"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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20 ##INFO=<ID=PQR,Number=1,Type=Float,Description="Reference allele quality sum in phred for partial observations"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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21 ##INFO=<ID=PQA,Number=A,Type=Float,Description="Alternate allele quality sum in phred for partial observations"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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22 ##INFO=<ID=SRF,Number=1,Type=Integer,Description="Number of reference observations on the forward strand"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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23 ##INFO=<ID=SRR,Number=1,Type=Integer,Description="Number of reference observations on the reverse strand"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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24 ##INFO=<ID=SAF,Number=A,Type=Integer,Description="Number of alternate observations on the forward strand"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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25 ##INFO=<ID=SAR,Number=A,Type=Integer,Description="Number of alternate observations on the reverse strand"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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26 ##INFO=<ID=SRP,Number=1,Type=Float,Description="Strand balance probability for the reference allele: Phred-scaled upper-bounds estimate of the probability of observing the deviation between SRF and SRR given E(SRF/SRR) ~ 0.5, derived using Hoeffding's inequality"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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27 ##INFO=<ID=SAP,Number=A,Type=Float,Description="Strand balance probability for the alternate allele: Phred-scaled upper-bounds estimate of the probability of observing the deviation between SAF and SAR given E(SAF/SAR) ~ 0.5, derived using Hoeffding's inequality"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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28 ##INFO=<ID=AB,Number=A,Type=Float,Description="Allele balance at heterozygous sites: a number between 0 and 1 representing the ratio of reads showing the reference allele to all reads, considering only reads from individuals called as heterozygous"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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29 ##INFO=<ID=ABP,Number=A,Type=Float,Description="Allele balance probability at heterozygous sites: Phred-scaled upper-bounds estimate of the probability of observing the deviation between ABR and ABA given E(ABR/ABA) ~ 0.5, derived using Hoeffding's inequality"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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30 ##INFO=<ID=RUN,Number=A,Type=Integer,Description="Run length: the number of consecutive repeats of the alternate allele in the reference genome"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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31 ##INFO=<ID=RPP,Number=A,Type=Float,Description="Read Placement Probability: Phred-scaled upper-bounds estimate of the probability of observing the deviation between RPL and RPR given E(RPL/RPR) ~ 0.5, derived using Hoeffding's inequality"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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32 ##INFO=<ID=RPPR,Number=1,Type=Float,Description="Read Placement Probability for reference observations: Phred-scaled upper-bounds estimate of the probability of observing the deviation between RPL and RPR given E(RPL/RPR) ~ 0.5, derived using Hoeffding's inequality"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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33 ##INFO=<ID=RPL,Number=A,Type=Float,Description="Reads Placed Left: number of reads supporting the alternate balanced to the left (5') of the alternate allele"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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34 ##INFO=<ID=RPR,Number=A,Type=Float,Description="Reads Placed Right: number of reads supporting the alternate balanced to the right (3') of the alternate allele"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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35 ##INFO=<ID=EPP,Number=A,Type=Float,Description="End Placement Probability: Phred-scaled upper-bounds estimate of the probability of observing the deviation between EL and ER given E(EL/ER) ~ 0.5, derived using Hoeffding's inequality"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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36 ##INFO=<ID=EPPR,Number=1,Type=Float,Description="End Placement Probability for reference observations: Phred-scaled upper-bounds estimate of the probability of observing the deviation between EL and ER given E(EL/ER) ~ 0.5, derived using Hoeffding's inequality"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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37 ##INFO=<ID=DPRA,Number=A,Type=Float,Description="Alternate allele depth ratio. Ratio between depth in samples with each called alternate allele and those without."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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38 ##INFO=<ID=ODDS,Number=1,Type=Float,Description="The log odds ratio of the best genotype combination to the second-best."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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39 ##INFO=<ID=GTI,Number=1,Type=Integer,Description="Number of genotyping iterations required to reach convergence or bailout."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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40 ##INFO=<ID=TYPE,Number=A,Type=String,Description="The type of allele, either snp, mnp, ins, del, or complex."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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41 ##INFO=<ID=CIGAR,Number=A,Type=String,Description="The extended CIGAR representation of each alternate allele, with the exception that '=' is replaced by 'M' to ease VCF parsing. Note that INDEL alleles do not have the first matched base (which is provided by default, per the spec) referred to by the CIGAR."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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42 ##INFO=<ID=NUMALT,Number=1,Type=Integer,Description="Number of unique non-reference alleles in called genotypes at this position."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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43 ##INFO=<ID=MEANALT,Number=A,Type=Float,Description="Mean number of unique non-reference allele observations per sample with the corresponding alternate alleles."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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44 ##INFO=<ID=LEN,Number=A,Type=Integer,Description="allele length"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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45 ##INFO=<ID=MQM,Number=A,Type=Float,Description="Mean mapping quality of observed alternate alleles"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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46 ##INFO=<ID=MQMR,Number=1,Type=Float,Description="Mean mapping quality of observed reference alleles"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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47 ##INFO=<ID=PAIRED,Number=A,Type=Float,Description="Proportion of observed alternate alleles which are supported by properly paired read fragments"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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48 ##INFO=<ID=PAIREDR,Number=1,Type=Float,Description="Proportion of observed reference alleles which are supported by properly paired read fragments"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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49 ##INFO=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum depth in gVCF output block."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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50 ##INFO=<ID=END,Number=1,Type=Integer,Description="Last position (inclusive) in gVCF output record."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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51 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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52 ##FORMAT=<ID=GQ,Number=1,Type=Float,Description="Genotype Quality, the Phred-scaled marginal (or unconditional) probability of the called genotype"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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53 ##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood, log10-scaled likelihoods of the data given the called genotype for each possible genotype generated from the reference and alternate alleles given the sample ploidy"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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54 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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55 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Number of observation for each allele"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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56 ##FORMAT=<ID=RO,Number=1,Type=Integer,Description="Reference allele observation count"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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57 ##FORMAT=<ID=QR,Number=1,Type=Integer,Description="Sum of quality of the reference observations"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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58 ##FORMAT=<ID=AO,Number=A,Type=Integer,Description="Alternate allele observation count"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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59 ##FORMAT=<ID=QA,Number=A,Type=Integer,Description="Sum of quality of the alternate observations"> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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60 ##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum depth in gVCF output block."> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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61 ##SnpEffVersion="5.0 (build 2020-08-09 21:23), by Pablo Cingolani" |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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62 ##SnpEffCmd="SnpEff NC_045512.2 L4_S1_L001_freebayes.vcf " |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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63 ##INFO=<ID=ANN,Number=.,Type=String,Description="Functional annotations: 'Allele | Annotation | Annotation_Impact | Gene_Name | Gene_ID | Feature_Type | Feature_ID | Transcript_BioType | Rank | HGVS.c | HGVS.p | cDNA.pos / cDNA.length | CDS.pos / CDS.length | AA.pos / AA.length | Distance | ERRORS / WARNINGS / INFO' "> |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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64 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT unknown |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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65 NC_045512.2 32 . C A 3.56727E-5 . AB=0.0909091;ABP=19.0002;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=5.18177;EPPR=24.725;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=11.7097;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=340;RO=10;RPL=0;RPP=5.18177;RPPR=24.725;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=10;SRP=24.725;SRR=0;TYPE=snp;ANN=A|upstream_gene_variant|MODIFIER|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding||c.-234C>A|||||234| GT:DP:AD:RO:QR:AO:QA:GL 0/1:11:10,1:10:340:1:34:-0.0875811,0,-27.6188 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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66 NC_045512.2 117 . C A 2.06691E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=5.18177;EPPR=3.44459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=28.3774;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=19;QR=707;RO=20;RPL=0;RPP=5.18177;RPPR=46.4397;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=11;SRP=3.44459;SRR=9;TYPE=snp;ANN=A|upstream_gene_variant|MODIFIER|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding||c.-149C>A|||||149| GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:20,1:20:707:1:19:0,-4.42166,-62.044 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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67 NC_045512.2 123 . C A 1.76706E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=5.18177;EPPR=3.44459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=30.9102;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=705;RO=20;RPL=0;RPP=5.18177;RPPR=46.4397;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=11;SRP=3.44459;SRR=9;TYPE=snp;ANN=A|upstream_gene_variant|MODIFIER|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding||c.-143C>A|||||143| GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:20,1:20:705:1:8:0,-5.52163,-62.9622 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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68 NC_045512.2 161 . A T 2.12537E-6 . AB=0.0952381;ABP=32.8939;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=3.0103;EPPR=3.12459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.5301;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=718;RO=19;RPL=0;RPP=7.35324;RPPR=44.2683;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.12459;SRR=9;TYPE=snp;ANN=T|upstream_gene_variant|MODIFIER|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding||c.-105A>T|||||105| GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:19,2:19:718:2:76:-0.893181,0,-58.6313 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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69 NC_045512.2 204 . G T 2.12537E-6 . AB=0.0952381;ABP=32.8939;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=7.35324;EPPR=44.2683;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.5301;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=695;RO=19;RPL=1;RPP=3.0103;RPPR=3.12459;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.12459;SRR=9;TYPE=snp;ANN=T|upstream_gene_variant|MODIFIER|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding||c.-62G>T|||||62| GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:19,2:19:695:2:76:-0.893181,0,-56.5538 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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70 NC_045512.2 241 . C T 616.567 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=21;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=48.6112;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=33.7174;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=769;QR=0;RO=0;RPL=11;RPP=3.1137;RPPR=0;RPR=10;RUN=1;SAF=11;SAP=3.1137;SAR=10;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|upstream_gene_variant|MODIFIER|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding||c.-25C>T|||||25| GT:DP:AD:RO:QR:AO:QA:GL 1/1:21:0,21:0:0:21:769:-69.5268,-6.32163,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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71 NC_045512.2 328 . ACA ACCA 9.67365E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1I2M;DP=36;DPB=36.3333;DPRA=0;EPP=5.18177;EPPR=68.4099;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=59.6471;NS=1;NUMALT=1;ODDS=43.4814;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1233;RO=34;RPL=0;RPP=5.18177;RPPR=12.2071;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=24;SRP=15.5282;SRR=10;TYPE=ins;ANN=ACCA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.64dupC|p.Gln22fs|65/21291|65/21291|22/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:34,1:34:1233:1:38:0,-6.98864,-107.578 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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72 NC_045512.2 355 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=92.0407;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.7073;NS=1;NUMALT=1;ODDS=52.4278;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1555;RO=41;RPL=1;RPP=5.18177;RPPR=31.0276;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=32;SRP=31.0276;SRR=9;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.90C>T|p.Gly30Gly|90/21291|90/21291|30/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1555:1:38:0,-8.84599,-136.397 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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73 NC_045512.2 366 . C T 186.222 . AB=0.333333;ABP=13.1438;AC=1;AF=0.5;AN=2;AO=14;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=33.4109;EPPR=63.8115;GTI=0;LEN=1;MEANALT=1;MQM=59.1429;MQMR=60;NS=1;NUMALT=1;ODDS=42.8793;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=528;QR=1064;RO=28;RPL=0;RPP=33.4109;RPPR=7.97367;RPR=14;RUN=1;SAF=14;SAP=33.4109;SAR=0;SRF=18;SRP=7.97367;SRR=10;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.101C>T|p.Ser34Phe|101/21291|101/21291|34/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:28,14:28:1064:14:528:-35.1856,0,-83.4276 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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74 NC_045512.2 401 . CTTAA CTAA 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M1D3M;DP=37;DPB=36.6;DPRA=0;EPP=7.35324;EPPR=79.0118;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6571;NS=1;NUMALT=1;ODDS=40.215;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=61;QR=1319;RO=35;RPL=2;RPP=7.35324;RPPR=55.1877;RPR=0;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=32;SRP=55.1877;SRR=3;TYPE=del;ANN=CTAA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.138delT|p.Asp48fs|138/21291|138/21291|46/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:35,2:35:1319:2:61:0,-5.34435,-113.176 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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75 NC_045512.2 406 . AGA AA 1.27173E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D1M;DP=35;DPB=35.3333;DPRA=0;EPP=5.18177;EPPR=76.8404;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6471;NS=1;NUMALT=1;ODDS=44.6059;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=34;PRO=1;QA=34;QR=1277;RO=34;RPL=1;RPP=5.18177;RPPR=60.4905;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=32;SRP=60.4905;SRR=2;TYPE=del;ANN=AA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.142delG|p.Asp48fs|142/21291|142/21291|48/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1277:1:34:0,-7.47703,-111.792 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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76 NC_045512.2 421 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=5.18177;EPPR=53.0819;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6471;NS=1;NUMALT=1;ODDS=42.906;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1265;RO=34;RPL=0;RPP=5.18177;RPPR=76.8404;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=31;SRP=53.0819;SRR=3;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.156C>A|p.Gly52Gly|156/21291|156/21291|52/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1265:1:38:0,-6.73878,-110.313 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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77 NC_045512.2 442 . C G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=5.18177;EPPR=3.04477;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.619;NS=1;NUMALT=1;ODDS=89.6368;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=2254;RO=63;RPL=0;RPP=5.18177;RPPR=139.813;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=32;SRP=3.04477;SRR=31;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.177C>G|p.Gly59Gly|177/21291|177/21291|59/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:63,1:63:2254:1:7:0,-18.5659,-202.353 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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78 NC_045512.2 445 . T C 647.516 . AB=0.484375;ABP=3.14602;AC=1;AF=0.5;AN=2;AO=31;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=3.08035;EPPR=3.0761;GTI=0;LEN=1;MEANALT=1;MQM=59.2258;MQMR=60;NS=1;NUMALT=1;ODDS=149.096;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1087;QR=1196;RO=33;RPL=0;RPP=70.3259;RPPR=74.6689;RPR=31;RUN=1;SAF=16;SAP=3.08035;SAR=15;SRF=16;SRP=3.0761;SRR=17;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.180T>C|p.Val60Val|180/21291|180/21291|60/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:33,31:33:1196:31:1087:-78.8078,0,-88.6688 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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79 NC_045512.2 460 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=5.18177;EPPR=3.04477;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.619;NS=1;NUMALT=1;ODDS=89.6368;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=2266;RO=63;RPL=0;RPP=5.18177;RPPR=139.813;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=32;SRP=3.04477;SRR=31;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.195A>C|p.Glu65Asp|195/21291|195/21291|65/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:63,1:63:2266:1:7:0,-18.5659,-203.41 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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80 NC_045512.2 505 . T A 1.73301E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=5.18177;EPPR=139.813;GTI=0;LEN=1;MEANALT=1;MQM=48;MQMR=59.8095;NS=1;NUMALT=1;ODDS=84.1303;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=2312;RO=63;RPL=1;RPP=5.18177;RPPR=3.04477;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=31;SRP=3.04477;SRR=32;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.240T>A|p.Pro80Pro|240/21291|240/21291|80/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:63,1:63:2312:1:31:0,-16.1745,-205.204 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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81 NC_045512.2 541 . CGA CA 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M1D1M;DP=64;DPB=63.3333;DPRA=0;EPP=7.35324;EPPR=137.642;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6129;NS=1;NUMALT=1;ODDS=71.879;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2328;RO=62;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=31;SRP=3.0103;SRR=31;TYPE=del;ANN=CA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.277delG|p.Glu93fs|277/21291|277/21291|93/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:62,2:62:2328:2:76:0,-12.0511,-202.468 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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82 NC_045512.2 560 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=7.35324;EPPR=137.642;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6129;NS=1;NUMALT=1;ODDS=71.879;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2315;RO=62;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=31;SRP=3.0103;SRR=31;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.295C>T|p.Arg99Cys|295/21291|295/21291|99/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:62,2:62:2315:2:76:0,-12.0511,-201.298 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
83 NC_045512.2 577 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=5.18177;EPPR=3.04477;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.619;NS=1;NUMALT=1;ODDS=89.1762;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=2353;RO=63;RPL=1;RPP=5.18177;RPPR=131.265;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=31;SRP=3.04477;SRR=32;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.312T>G|p.Leu104Leu|312/21291|312/21291|104/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:63,1:63:2353:1:9:0,-18.3659,-211.033 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
84 NC_045512.2 578 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=5.18177;EPPR=3.32051;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.619;NS=1;NUMALT=1;ODDS=84.3418;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=30;QR=2356;RO=63;RPL=1;RPP=5.18177;RPPR=131.265;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=32;SRP=3.04477;SRR=31;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.313G>A|p.Gly105Ser|313/21291|313/21291|105/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:64:63,1:63:2356:1:30:0,-16.2664,-209.204 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
85 NC_045512.2 583 . CC TT,TC 601.468 . AB=0.09375,0.4375;ABP=94.755,5.18177;AC=0,1;AF=0,0.5;AN=2;AO=6,28;CIGAR=2X,1X1M;DP=64;DPB=64;DPRA=0,0;EPP=3.0103,3.0103;EPPR=3.0103;GTI=0;LEN=2,1;MEANALT=2,2;MQM=60,59.1429;MQMR=60;NS=1;NUMALT=2;ODDS=138.493;PAIRED=1,1;PAIREDR=1;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=218,1009;QR=1114;RO=30;RPL=6,28;RPP=16.0391,63.8115;RPPR=68.1545;RPR=0,0;RUN=1,1;SAF=3,14;SAP=3.0103,3.0103;SAR=3,14;SRF=15;SRP=3.0103;SRR=15;TYPE=complex,snp;ANN=TT|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.318_319delCCinsTT|p.Leu107Phe|318/21291|318/21291|106/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/2:64:30,6,28:30:1114:6,28:218,1009:-73.2231,-64.4502,-153.815,0,-73.3701,-82.7431 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
86 NC_045512.2 593 . C T 610.965 . AB=0.4375;ABP=5.18177;AC=1;AF=0.5;AN=2;AO=28;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=59.1429;MQMR=60;NS=1;NUMALT=1;ODDS=140.68;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1038;QR=1263;RO=36;RPL=28;RPP=63.8115;RPPR=81.1833;RPR=0;RUN=1;SAF=14;SAP=3.0103;SAR=14;SRF=18;SRP=3.0103;SRR=18;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.328C>T|p.His110Tyr|328/21291|328/21291|110/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:64:36,28:36:1263:28:1038:-74.3936,0,-94.685 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
87 NC_045512.2 643 . C T 202.452 . AB=0.358974;ABP=9.74743;AC=1;AF=0.5;AN=2;AO=14;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=33.4109;EPPR=57.2971;GTI=0;LEN=1;MEANALT=1;MQM=59.1429;MQMR=60;NS=1;NUMALT=1;ODDS=46.6162;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=532;QR=920;RO=25;RPL=14;RPP=33.4109;RPPR=13.5202;RPR=0;RUN=1;SAF=0;SAP=33.4109;SAR=14;SRF=7;SRP=13.5202;SRR=18;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.378C>T|p.Asn126Asn|378/21291|378/21291|126/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:39:25,14:25:920:14:532:-36.4501,0,-71.3774 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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88 NC_045512.2 657 . C T 154.161 . AB=0.28;ABP=24.0302;AC=1;AF=0.5;AN=2;AO=14;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=33.4109;EPPR=81.1833;GTI=0;LEN=1;MEANALT=1;MQM=59.1429;MQMR=60;NS=1;NUMALT=1;ODDS=35.4969;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=532;QR=1361;RO=36;RPL=14;RPP=33.4109;RPPR=3.0103;RPR=0;RUN=1;SAF=0;SAP=33.4109;SAR=14;SRF=18;SRP=3.0103;SRR=18;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.392C>T|p.Ala131Val|392/21291|392/21291|131/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:50:36,14:36:1361:14:532:-33.1387,0,-107.731 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
89 NC_045512.2 663 . G C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=5.18177;EPPR=105.24;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.7647;NS=1;NUMALT=1;ODDS=66.0771;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1930;RO=51;RPL=1;RPP=5.18177;RPPR=8.16222;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=10.206;SRR=32;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.398G>C|p.Gly133Ala|398/21291|398/21291|133/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:51,1:51:1930:1:38:0,-11.8563,-170.124 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
90 NC_045512.2 666 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=5.18177;EPPR=105.24;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.7647;NS=1;NUMALT=1;ODDS=66.0771;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1936;RO=51;RPL=0;RPP=5.18177;RPPR=10.206;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=12.5903;SRR=33;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.401A>T|p.His134Leu|401/21291|401/21291|134/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:51,1:51:1936:1:38:0,-11.8563,-170.663 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
91 NC_045512.2 682 . T C 342.715 . AB=0.346154;ABP=13.7006;AC=1;AF=0.5;AN=2;AO=18;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=33.8935;EPPR=76.8404;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6471;NS=1;NUMALT=1;ODDS=78.913;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=665;QR=1292;RO=34;RPL=6;RPP=7.35324;RPPR=23.7032;RPR=12;RUN=1;SAF=11;SAP=4.9405;SAR=7;SRF=8;SRP=23.7032;SRR=26;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.417T>C|p.Asp139Asp|417/21291|417/21291|139/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:52:34,18:34:1292:18:665:-44.5238,0,-100.888 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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92 NC_045512.2 721 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=7.35324;EPPR=94.401;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.7391;NS=1;NUMALT=1;ODDS=59.7474;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=39;QR=1691;RO=46;RPL=2;RPP=7.35324;RPPR=4.70971;RPR=0;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=19;SRP=6.03148;SRR=27;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.456T>G|p.Asp152Glu|456/21291|456/21291|152/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:46,2:46:1691:2:39:0,-10.7447,-148.746 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
93 NC_045512.2 724 . T G 3.40528E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=83.5666;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.7073;NS=1;NUMALT=1;ODDS=54.0345;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1474;RO=41;RPL=1;RPP=5.18177;RPPR=3.06326;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.48696;SRR=22;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.459T>G|p.Pro153Pro|459/21291|459/21291|153/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1474:1:31:0,-9.54381,-129.836 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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94 NC_045512.2 725 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=74.9036;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=48.3595;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=32;QR=1335;RO=37;RPL=1;RPP=5.18177;RPPR=3.5385;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.06899;SRR=18;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.460T>G|p.Tyr154Asp|460/21291|460/21291|154/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1335:1:32:0,-8.23983,-117.246 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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95 NC_045512.2 729 . A G 2.90829E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.623;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1342;RO=36;RPL=0;RPP=5.18177;RPPR=81.1833;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=3.0103;SRR=18;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.464A>G|p.Glu155Gly|464/21291|464/21291|155/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1342:1:38:0,-7.34084,-117.278 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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96 NC_045512.2 737 . C A 3.28521E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=3.06899;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=53.8841;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1332;RO=37;RPL=0;RPP=5.18177;RPPR=83.3548;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.06899;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.472C>A|p.Gln158Lys|472/21291|472/21291|158/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1332:1:8:0,-10.6391,-119.367 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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97 NC_045512.2 913 . C T 595.642 . AB=0.684211;ABP=14.2105;AC=1;AF=0.5;AN=2;AO=26;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.1502;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=935;QR=445;RO=12;RPL=26;RPP=59.4686;RPPR=29.068;RPR=0;RUN=1;SAF=13;SAP=3.0103;SAR=13;SRF=6;SRP=3.0103;SRR=6;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.648C>T|p.Ser216Ser|648/21291|648/21291|216/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:38:12,26:12:445:26:935:-73.017,0,-28.9551 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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98 NC_045512.2 924 . A T 3.28521E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=3.06899;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=53.8841;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1322;RO=37;RPL=1;RPP=5.18177;RPPR=83.3548;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=3.06899;SRR=19;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.659A>T|p.Asp220Val|659/21291|659/21291|220/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1322:1:8:0,-10.6391,-118.459 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
99 NC_045512.2 929 . A T 6.26083E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=3.06899;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=53.6539;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1298;RO=37;RPL=1;RPP=5.18177;RPPR=83.3548;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=3.06899;SRR=19;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.664A>T|p.Ile222Phe|664/21291|664/21291|222/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1298:1:9:0,-10.5391,-116.202 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
100 NC_045512.2 932 . G T 3.28521E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=3.06899;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=53.8841;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1322;RO=37;RPL=1;RPP=5.18177;RPPR=83.3548;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=3.06899;SRR=19;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.667G>T|p.Asp223Tyr|667/21291|667/21291|223/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1322:1:8:0,-10.6391,-118.464 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
101 NC_045512.2 946 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=47.41;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.5293;PAIRED=1;PAIREDR=0.93617;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1674;RO=47;RPL=0;RPP=5.18177;RPPR=5.27418;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=28;SRP=6.75262;SRR=19;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.681T>G|p.Gly227Gly|681/21291|681/21291|227/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1674:1:34:0,-11.0505,-147.539 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
102 NC_045512.2 949 . A G 1.43295E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=83.8559;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=68.3616;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1883;RO=52;RPL=0;RPP=5.18177;RPPR=4.51363;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=33;SRP=11.1951;SRR=19;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.684A>G|p.Val228Val|684/21291|684/21291|228/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1883:1:34:0,-12.5557,-166.334 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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103 NC_045512.2 954 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=107.408;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.4248;PAIRED=0;PAIREDR=0.942308;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=1958;RO=52;RPL=0;RPP=5.18177;RPPR=9.02361;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=33;SRP=11.1951;SRR=19;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.689G>T|p.Cys230Phe|689/21291|689/21291|230/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1958:1:12:0,-14.7546,-175.276 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
104 NC_045512.2 968 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=5.18177;EPPR=111.584;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.7103;PAIRED=1;PAIREDR=0.92;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1898;RO=50;RPL=1;RPP=5.18177;RPPR=14.1282;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=33;SRP=14.1282;SRR=17;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.703G>T|p.Glu235*|703/21291|703/21291|235/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:50,1:50:1898:1:38:0,-11.5553,-167.28 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
105 NC_045512.2 973 . T A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=5.18177;EPPR=111.584;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.7103;PAIRED=1;PAIREDR=0.92;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1897;RO=50;RPL=0;RPP=5.18177;RPPR=11.5225;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=11.5225;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.708T>A|p.His236Gln|708/21291|708/21291|236/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:50,1:50:1897:1:38:0,-11.5553,-167.19 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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106 NC_045512.2 998 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=5.18177;EPPR=111.584;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.7103;PAIRED=1;PAIREDR=0.92;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1892;RO=50;RPL=0;RPP=5.18177;RPPR=11.5225;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=11.5225;SRR=18;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.733T>C|p.Ser245Pro|733/21291|733/21291|245/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:50,1:50:1892:1:38:0,-11.5553,-166.741 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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107 NC_045512.2 1019 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=5.18177;EPPR=111.584;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.7103;PAIRED=1;PAIREDR=0.92;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1892;RO=50;RPL=0;RPP=5.18177;RPPR=11.5225;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=11.5225;SRR=18;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.754C>T|p.Gln252*|754/21291|754/21291|252/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:50,1:50:1892:1:38:0,-11.5553,-166.741 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
108 NC_045512.2 1026 . C T 6.48614E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=5.18177;EPPR=107.241;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=62.8949;PAIRED=1;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1730;RO=48;RPL=1;RPP=5.18177;RPPR=17.6677;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=33;SRP=17.6677;SRR=15;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.761C>T|p.Pro254Leu|761/21291|761/21291|254/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:48,1:48:1730:1:34:0,-11.3516,-152.571 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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109 NC_045512.2 1044 . C T 3.11712E-4 . AB=0.138462;ABP=76.807;AC=1;AF=0.5;AN=2;AO=9;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.25157;EPPR=3.16541;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=9.54195;PAIRED=0.888889;PAIREDR=0.892857;PAO=0;PQA=0;PQR=0;PRO=0;QA=334;QR=2013;RO=56;RPL=0;RPP=22.5536;RPPR=124.613;RPR=9;RUN=1;SAF=4;SAP=3.25157;SAR=5;SRF=29;SRP=3.16541;SRR=27;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.779C>T|p.Ala260Val|779/21291|779/21291|260/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:56,9:56:2013:9:334:-10.8453,0,-161.85 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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110 NC_045512.2 1069 . G A 8.67461E-8 . AB=0.123077;ABP=83.2212;AC=1;AF=0.5;AN=2;AO=8;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.0103;EPPR=3.0484;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=17.7288;PAIRED=1;PAIREDR=0.877193;PAO=0;PQA=0;PQR=0;PRO=0;QA=299;QR=2032;RO=57;RPL=0;RPP=20.3821;RPPR=126.784;RPR=8;RUN=1;SAF=4;SAP=3.0103;SAR=4;SRF=29;SRP=3.0484;SRR=28;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.804G>A|p.Gly268Gly|804/21291|804/21291|268/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:57,8:57:2032:8:299:-7.69887,0,-163.558 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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111 NC_045512.2 1076 . C T 8.85674E-4 . AB=0.138462;ABP=76.807;AC=1;AF=0.5;AN=2;AO=9;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.25157;EPPR=3.16541;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=8.49761;PAIRED=0.888889;PAIREDR=0.892857;PAO=0;PQA=0;PQR=0;PRO=0;QA=339;QR=2022;RO=56;RPL=0;RPP=22.5536;RPPR=124.613;RPR=9;RUN=1;SAF=4;SAP=3.25157;SAR=5;SRF=29;SRP=3.16541;SRR=27;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.811C>T|p.Pro271Ser|811/21291|811/21291|271/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:56,9:56:2022:9:339:-11.2989,0,-162.66 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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112 NC_045512.2 1126 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=5.18177;EPPR=141.985;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=90.0865;PAIRED=1;PAIREDR=0.890625;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2381;RO=64;RPL=1;RPP=5.18177;RPPR=3.0103;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=3.0103;SRR=32;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.861G>T|p.Arg287Ser|861/21291|861/21291|287/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,1:64:2381:1:11:0,-18.467,-213.416 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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113 NC_045512.2 1142 . C G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=5.18177;EPPR=141.985;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=90.0865;PAIRED=0;PAIREDR=0.90625;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2404;RO=64;RPL=0;RPP=5.18177;RPPR=3.14602;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=33;SRP=3.14602;SRR=31;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.877C>G|p.Leu293Val|877/21291|877/21291|293/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,1:64:2404:1:11:0,-18.467,-215.488 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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114 NC_045512.2 1153 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=7.35324;EPPR=139.813;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.2341;PAIRED=1;PAIREDR=0.888889;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2338;RO=63;RPL=1;RPP=3.0103;RPPR=3.04477;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=32;SRP=3.04477;SRR=31;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.888T>C|p.Phe296Phe|888/21291|888/21291|296/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:63,2:63:2338:2:76:0,-12.3521,-203.432 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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115 NC_045512.2 1193 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=5.18177;EPPR=3.14602;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=90.0865;PAIRED=0;PAIREDR=0.90625;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2417;RO=64;RPL=1;RPP=5.18177;RPPR=141.985;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=33;SRP=3.14602;SRR=31;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.928A>T|p.Asn310Tyr|928/21291|928/21291|310/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,1:64:2417:1:11:0,-18.467,-216.656 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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116 NC_045512.2 1205 . C T 0.0010911 . AB=0.138462;ABP=76.807;AC=1;AF=0.5;AN=2;AO=9;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.25157;EPPR=3.16541;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=8.289;PAIRED=0.888889;PAIREDR=0.892857;PAO=0;PQA=0;PQR=0;PRO=0;QA=340;QR=2079;RO=56;RPL=9;RPP=22.5536;RPPR=124.613;RPR=0;RUN=1;SAF=4;SAP=3.25157;SAR=5;SRF=29;SRP=3.16541;SRR=27;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.940C>T|p.Gln314*|940/21291|940/21291|314/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:56,9:56:2079:9:340:-11.3895,0,-167.79 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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117 NC_045512.2 1213 . C T 3.11242E-4 . AB=0.138462;ABP=76.807;AC=1;AF=0.5;AN=2;AO=9;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.25157;EPPR=3.16541;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=9.54346;PAIRED=0.888889;PAIREDR=0.892857;PAO=0;PQA=0;PQR=0;PRO=0;QA=334;QR=2086;RO=56;RPL=9;RPP=22.5536;RPPR=124.613;RPR=0;RUN=1;SAF=4;SAP=3.25157;SAR=5;SRF=29;SRP=3.16541;SRR=27;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.948C>T|p.Cys316Cys|948/21291|948/21291|316/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:56,9:56:2086:9:334:-10.8446,0,-168.42 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
118 NC_045512.2 1222 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=90.7773;PAIRED=0;PAIREDR=0.90625;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=2374;RO=64;RPL=1;RPP=5.18177;RPPR=141.985;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=3.0103;SRR=32;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.957T>C|p.Thr319Thr|957/21291|957/21291|319/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,1:64:2374:1:8:0,-18.767,-213.093 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
119 NC_045512.2 1224 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=90.7773;PAIRED=1;PAIREDR=0.890625;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=2363;RO=64;RPL=1;RPP=5.18177;RPPR=141.985;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=3.0103;SRR=32;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.959T>C|p.Leu320Pro|959/21291|959/21291|320/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,1:64:2363:1:8:0,-18.767,-212.104 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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120 NC_045512.2 1254 . C T 4.88136E-8 . AB=0.121951;ABP=53.9075;AC=1;AF=0.5;AN=2;AO=5;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=13.8677;EPPR=81.1833;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=18.3038;PAIRED=0.8;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=189;QR=1353;RO=36;RPL=5;RPP=13.8677;RPPR=22.5536;RPR=0;RUN=1;SAF=0;SAP=13.8677;SAR=5;SRF=9;SRP=22.5536;SRR=27;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.989C>T|p.Ser330Leu|989/21291|989/21291|330/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:36,5:36:1353:5:189:-5.03372,0,-109.719 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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121 NC_045512.2 1288 . C T 4.88136E-8 . AB=0.121951;ABP=53.9075;AC=1;AF=0.5;AN=2;AO=5;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=13.8677;EPPR=81.1833;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=18.3038;PAIRED=0.8;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=189;QR=1362;RO=36;RPL=5;RPP=13.8677;RPPR=22.5536;RPR=0;RUN=1;SAF=0;SAP=13.8677;SAR=5;SRF=9;SRP=22.5536;SRR=27;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1023C>T|p.Cys341Cys|1023/21291|1023/21291|341/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:36,5:36:1362:5:189:-5.03372,0,-110.53 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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122 NC_045512.2 1292 . T C 0.189044 . AB=0.170732;ABP=41.6201;AC=1;AF=0.5;AN=2;AO=7;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=18.2106;EPPR=76.8404;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=3.11248;PAIRED=1;PAIREDR=0.882353;PAO=0;PQA=0;PQR=0;PRO=0;QA=266;QR=1290;RO=34;RPL=0;RPP=18.2106;RPPR=60.4905;RPR=7;RUN=1;SAF=7;SAP=18.2106;SAR=0;SRF=2;SRP=60.4905;SRR=32;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1027T>C|p.Phe343Leu|1027/21291|1027/21291|343/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:34,7:34:1290:7:266:-11.9603,0,-104.054 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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123 NC_045512.2 1314 . C T 1.71007E-8 . AB=0.119048;ABP=55.9529;AC=1;AF=0.5;AN=2;AO=5;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=13.8677;EPPR=74.9036;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.0541;NS=1;NUMALT=1;ODDS=19.3527;PAIRED=0.8;PAIREDR=0.891892;PAO=0;PQA=0;PQR=0;PRO=0;QA=190;QR=1385;RO=37;RPL=5;RPP=13.8677;RPPR=19.9713;RPR=0;RUN=1;SAF=0;SAP=13.8677;SAR=5;SRF=9;SRP=24.1968;SRR=28;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1049C>T|p.Thr350Ile|1049/21291|1049/21291|350/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:42:37,5:37:1385:5:190:-4.82418,0,-111.803 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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124 NC_045512.2 1336 . T G 3.36083E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=27;DPB=27;DPRA=0;EPP=5.18177;EPPR=59.4686;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=58.6538;NS=1;NUMALT=1;ODDS=32.9924;PAIRED=1;PAIREDR=0.807692;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=908;RO=26;RPL=1;RPP=5.18177;RPPR=8.35546;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=9;SRP=8.35546;SRR=17;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1071T>G|p.Cys357Trp|1071/21291|1071/21291|357/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:26,1:26:908:1:34:0,-4.7289,-77.5254 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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125 NC_045512.2 1406 . G T 7.97288E-5 . AB=0.111111;ABP=26.6552;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=7.35324;EPPR=37.7539;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=10.9054;PAIRED=1;PAIREDR=0.9375;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=581;RO=16;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=8;SRP=3.0103;SRR=8;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1141G>T|p.Glu381*|1141/21291|1141/21291|381/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:18:16,2:16:581:2:75:-1.7018,0,-47.2006 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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126 NC_045512.2 1441 . C T 366.029 . AB=0.833333;ABP=20.3821;AC=1;AF=0.5;AN=2;AO=15;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=35.5824;EPPR=9.52472;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=2.41326;PAIRED=1;PAIREDR=0.666667;PAO=0;PQA=0;PQR=0;PRO=0;QA=567;QR=114;RO=3;RPL=7;RPP=3.15506;RPPR=3.73412;RPR=8;RUN=1;SAF=7;SAP=3.15506;SAR=8;SRF=2;SRP=3.73412;SRR=1;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1176C>T|p.Gly392Gly|1176/21291|1176/21291|392/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:18:3,15:3:114:15:567:-45.9537,0,-5.21381 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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127 NC_045512.2 1456 . T C 8.91572E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=5.18177;EPPR=39.9253;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=20.004;PAIRED=0;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=645;RO=17;RPL=1;RPP=5.18177;RPPR=3.13803;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=8;SRP=3.13803;SRR=9;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1191T>C|p.Leu397Leu|1191/21291|1191/21291|397/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:18:17,1:17:645:1:38:0,-1.62127,-54.5906 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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128 NC_045512.2 1534 . G T 3.33317E-5 . AB=0.111111;ABP=26.6552;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=11.7775;PAIRED=1;PAIREDR=0.9375;PAO=0;PQA=0;PQR=0;PRO=0;QA=71;QR=556;RO=16;RPL=2;RPP=7.35324;RPPR=37.7539;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=8;SRP=3.0103;SRR=8;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1269G>T|p.Trp423Cys|1269/21291|1269/21291|423/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:18:16,2:16:556:2:71:-1.32304,0,-44.9385 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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129 NC_045512.2 1580 . GTTGG GTTTGG 1.41193E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1I4M;DP=14;DPB=14.2;DPRA=0;EPP=5.18177;EPPR=31.2394;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.9391;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=37;QR=488;RO=13;RPL=0;RPP=5.18177;RPPR=7.18621;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=4;SRP=7.18621;SRR=9;TYPE=ins;ANN=GTTTGG|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1317dupT|p.Gly440fs|1318/21291|1318/21291|440/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:13,1:13:488:1:37:0,-0.516591,-40.5677 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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130 NC_045512.2 1601 . C T 1.77522E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=5.18177;EPPR=31.2394;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.7101;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=494;RO=13;RPL=0;RPP=5.18177;RPPR=7.18621;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=4;SRP=7.18621;SRR=9;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1336C>T|p.Leu446Phe|1336/21291|1336/21291|446/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:13,1:13:494:1:38:0,-0.417151,-41.0105 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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131 NC_045512.2 1609 . C T 1.77522E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=5.18177;EPPR=31.2394;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.7101;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=494;RO=13;RPL=0;RPP=5.18177;RPPR=7.18621;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=4;SRP=7.18621;SRR=9;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1344C>T|p.Asp448Asp|1344/21291|1344/21291|448/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:13,1:13:494:1:38:0,-0.417151,-41.0105 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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132 NC_045512.2 1684 . C T 0.895072 . AB=0.2;ABP=10.8276;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1.47459;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=73;QR=269;RO=8;RPL=0;RPP=7.35324;RPPR=20.3821;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=4;SRP=3.0103;SRR=4;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1419C>T|p.Ile473Ile|1419/21291|1419/21291|473/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:10:8,2:8:269:2:73:-3.9208,0,-21.5227 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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133 NC_045512.2 1759 . A T 1.58317 . AB=0.2;ABP=10.8276;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=7.35324;EPPR=20.3821;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=0.821324;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=304;RO=8;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=4;SRP=3.0103;SRR=4;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1494A>T|p.Ala498Ala|1494/21291|1494/21291|498/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:10:8,2:8:304:2:76:-4.20451,0,-24.7098 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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134 NC_045512.2 1841 . C T 1.58317 . AB=0.2;ABP=10.8276;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=0.821324;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=301;RO=8;RPL=2;RPP=7.35324;RPPR=20.3821;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=4;SRP=3.0103;SRR=4;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1576C>T|p.Gln526*|1576/21291|1576/21291|526/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:10:8,2:8:301:2:76:-4.20451,0,-24.4375 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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135 NC_045512.2 1883 . G A 1.32389E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=5.18177;EPPR=29.068;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=19.6087;PAIRED=1;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=444;RO=12;RPL=0;RPP=5.18177;RPPR=3.73412;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=7;SRP=3.73412;SRR=5;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1618G>A|p.Ala540Thr|1618/21291|1618/21291|540/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:13:12,1:12:444:1:11:0,-2.81339,-39.2047 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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136 NC_045512.2 1902 . C T 6.59366E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=5.18177;EPPR=29.068;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=13.398;PAIRED=1;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=456;RO=12;RPL=1;RPP=5.18177;RPPR=5.9056;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=8;SRP=5.9056;SRR=4;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1637C>T|p.Ser546Leu|1637/21291|1637/21291|546/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:13:12,1:12:456:1:38:0,-0.116121,-37.593 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
137 NC_045512.2 1943 . C T 6.59366E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=5.18177;EPPR=29.068;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=13.398;PAIRED=1;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=456;RO=12;RPL=0;RPP=5.18177;RPPR=3.73412;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=7;SRP=3.73412;SRR=5;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1678C>T|p.Arg560Cys|1678/21291|1678/21291|560/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:13:12,1:12:456:1:38:0,-0.116121,-37.593 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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138 NC_045512.2 2134 . A C 3.80095E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=23.1592;PAIRED=0;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=509;RO=14;RPL=1;RPP=5.18177;RPPR=33.4109;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=7;SRP=3.0103;SRR=7;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1869A>C|p.Lys623Asn|1869/21291|1869/21291|623/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:15:14,1:14:509:1:7:0,-3.81545,-45.4449 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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139 NC_045512.2 2166 . A C 3.80095E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=23.1592;PAIRED=1;PAIREDR=0.928571;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=482;RO=14;RPL=1;RPP=5.18177;RPPR=33.4109;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=7;SRP=3.0103;SRR=7;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.1901A>C|p.Lys634Thr|1901/21291|1901/21291|634/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:15:14,1:14:482:1:7:0,-3.81545,-42.9993 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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140 NC_045512.2 2659 . G T 103.718 . AB=0.4;ABP=4.31318;AC=1;AF=0.5;AN=2;AO=6;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=16.0391;EPPR=22.5536;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=23.882;PAIRED=1;PAIREDR=0.888889;PAO=0;PQA=0;PQR=0;PRO=0;QA=224;QR=342;RO=9;RPL=3;RPP=3.0103;RPPR=3.25157;RPR=3;RUN=1;SAF=3;SAP=3.0103;SAR=3;SRF=5;SRP=3.25157;SRR=4;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2394G>T|p.Lys798Asn|2394/21291|2394/21291|798/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:15:9,6:9:342:6:224:-16.0044,0,-26.6222 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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141 NC_045512.2 2714 . G C 0.00435058 . AB=0.133333;ABP=20.5268;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=7.35324;EPPR=31.2394;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=6.9055;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=494;RO=13;RPL=1;RPP=3.0103;RPPR=3.17734;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=7;SRP=3.17734;SRR=6;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2449G>C|p.Gly817Arg|2449/21291|2449/21291|817/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:15:13,2:13:494:2:76:-2.69936,0,-40.2923 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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142 NC_045512.2 2719 . TGC TC 198.79 . AB=0.6;ABP=4.31318;AC=1;AF=0.5;AN=2;AO=9;CIGAR=1M1D1M;DP=15;DPB=12;DPRA=0;EPP=22.5536;EPPR=16.0391;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=24.3031;PAIRED=0.888889;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=342;QR=226;RO=6;RPL=5;RPP=3.25157;RPPR=3.0103;RPR=4;RUN=1;SAF=5;SAP=3.25157;SAR=4;SRF=3;SRP=3.0103;SRR=3;TYPE=del;ANN=TC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2455delG|p.Ala819fs|2455/21291|2455/21291|819/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:15:6,9:6:226:9:342:-26.6222,0,-16.1872 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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143 NC_045512.2 2811 . T C 5.82418E-4 . AB=0.142857;ABP=10.7656;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1X;DP=7;DPB=7;DPRA=0;EPP=5.18177;EPPR=16.0391;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=8.91681;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=24;QR=228;RO=6;RPL=1;RPP=5.18177;RPPR=16.0391;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=16.0391;SRR=6;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2546T>C|p.Ile849Thr|2546/21291|2546/21291|849/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:7:6,1:6:228:1:24:-0.292681,0,-18.7778 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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144 NC_045512.2 2828 . G T 1.90019E-7 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=5.18177;EPPR=33.4109;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=16.9447;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=504;RO=14;RPL=0;RPP=5.18177;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=7;SRP=3.0103;SRR=7;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2563G>T|p.Glu855*|2563/21291|2563/21291|855/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:15:14,1:14:504:1:34:0,-1.11654,-42.2968 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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145 NC_045512.2 2873 . G T 2.35276E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=19;DPB=19;DPRA=0;EPP=5.18177;EPPR=33.8935;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=21.3362;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=682;RO=18;RPL=1;RPP=5.18177;RPPR=7.35324;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=11;SRP=4.9405;SRR=7;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2608G>T|p.Glu870*|2608/21291|2608/21291|870/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:19:18,1:18:682:1:38:0,-1.9223,-57.9181 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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146 NC_045512.2 2891 . GCA GCCA 2.35276E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1I2M;DP=19;DPB=19.3333;DPRA=0;EPP=5.18177;EPPR=33.8935;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=21.3362;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=677;RO=18;RPL=1;RPP=5.18177;RPPR=7.35324;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=11;SRP=4.9405;SRR=7;TYPE=ins;ANN=GCCA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2627dupC|p.Asp877fs|2628/21291|2628/21291|876/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:19:18,1:18:677:1:38:0,-1.9223,-57.4672 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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147 NC_045512.2 2942 . C T 8.20418E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=17.7846;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=67;QR=735;RO=20;RPL=0;RPP=7.35324;RPPR=46.4397;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.0103;SRR=10;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2677C>T|p.Leu893Leu|2677/21291|2677/21291|893/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:20,2:20:735:2:67:0,-0.260581,-60.1116 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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148 NC_045512.2 3037 . C T 682.489 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=22;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=42.4916;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=35.1036;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=831;QR=0;RO=0;RPL=12;RPP=3.40511;RPPR=0;RPR=10;RUN=1;SAF=11;SAP=3.0103;SAR=11;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2772C>T|p.Phe924Phe|2772/21291|2772/21291|924/7096|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:22:0,22:0:0:22:831:-75.1154,-6.62266,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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149 NC_045512.2 3061 . A G 1.70196E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=5.59539;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=26.2658;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=760;RO=21;RPL=1;RPP=5.18177;RPPR=32.8939;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=11;SRP=3.1137;SRR=10;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2796A>G|p.Glu932Glu|2796/21291|2796/21291|932/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:760:1:34:0,-3.22375,-65.3167 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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150 NC_045512.2 3073 . TGAAGAAGAAGAGT TGAAGAAGAGT 5.84477E-7 . AB=0.0909091;ABP=34.9902;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1M3D10M;DP=22;DPB=21.5714;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=15.8211;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=725;RO=20;RPL=2;RPP=7.35324;RPPR=46.4397;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.0103;SRR=10;TYPE=del;ANN=TGAAGAAGAGT|disruptive_inframe_deletion|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2817_2819delAGA|p.Glu940del|2817/21291|2817/21291|939/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:20,2:20:725:2:76:-0.592151,0,-58.9509 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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151 NC_045512.2 3105 . A G 4.70219E-7 . AB=0.0909091;ABP=34.9902;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=16.0386;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=700;RO=20;RPL=2;RPP=7.35324;RPPR=46.4397;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.0103;SRR=10;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2840A>G|p.Tyr947Cys|2840/21291|2840/21291|947/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:20,2:20:700:2:75:-0.497684,0,-56.6876 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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152 NC_045512.2 3110 . T C 5.9668E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=3.1137;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.0197;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=788;RO=21;RPL=1;RPP=5.18177;RPPR=48.6112;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=10;SRP=3.1137;SRR=11;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2845T>C|p.Tyr949His|2845/21291|2845/21291|949/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:788:1:9:0,-5.72266,-70.3482 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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153 NC_045512.2 3113 . G T 5.84477E-7 . AB=0.0909091;ABP=34.9902;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=15.8211;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=713;RO=20;RPL=2;RPP=7.35324;RPPR=46.4397;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.0103;SRR=10;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2848G>T|p.Gly950Cys|2848/21291|2848/21291|950/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:20,2:20:713:2:76:-0.592151,0,-57.8648 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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154 NC_045512.2 3118 . T A 2.44527E-7 . AB=0.0909091;ABP=34.9902;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=16.6925;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=72;QR=668;RO=20;RPL=2;RPP=7.35324;RPPR=46.4397;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.0103;SRR=10;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2853T>A|p.Thr951Thr|2853/21291|2853/21291|951/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:22:20,2:20:668:2:72:-0.213711,0,-53.7961 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
155 NC_045512.2 3244 . C A 4.31238E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=3.0103;EPPR=3.0761;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=33.1143;PAIRED=1;PAIREDR=0.969697;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1214;RO=33;RPL=0;RPP=7.35324;RPPR=74.6689;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=16;SRP=3.0761;SRR=17;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.2979C>A|p.Gly993Gly|2979/21291|2979/21291|993/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1214:2:75:0,-3.41571,-102.438 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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156 NC_045512.2 3267 . C T 1053.59 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=35;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=3.07234;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=53.1255;PAIRED=0.971429;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1304;QR=0;RO=0;RPL=0;RPP=79.0118;RPPR=0;RPR=35;RUN=1;SAF=17;SAP=3.07234;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3002C>T|p.Thr1001Ile|3002/21291|3002/21291|1001/7096|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:35:0,35:0:0:35:1304:-117.653,-10.5361,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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157 NC_045512.2 3462 . A C 1.99799E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=5.18177;EPPR=48.9587;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.1744;PAIRED=1;PAIREDR=0.96;PAO=0;PQA=0;PQR=0;PRO=0;QA=23;QR=925;RO=25;RPL=0;RPP=5.18177;RPPR=17.6895;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=7;SRP=13.5202;SRR=18;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3197A>C|p.Lys1066Thr|3197/21291|3197/21291|1066/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:25,1:25:925:1:23:0,-5.52687,-81.2678 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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158 NC_045512.2 3464 . C A 2.15924E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=53.2759;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.3424;PAIRED=1;PAIREDR=0.962963;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=982;RO=27;RPL=0;RPP=5.18177;RPPR=12.7417;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=9;SRP=9.52472;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3199C>A|p.His1067Asn|3199/21291|3199/21291|1067/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:982:1:34:0,-5.02993,-85.2914 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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159 NC_045512.2 3465 . A C 8.04008E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=7.35324;EPPR=59.4686;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=31.5855;PAIRED=1;PAIREDR=0.961538;PAO=0;PQA=0;PQR=0;PRO=0;QA=46;QR=954;RO=26;RPL=0;RPP=7.35324;RPPR=11.3621;RPR=2;RUN=1;SAF=2;SAP=7.35324;SAR=0;SRF=8;SRP=11.3621;SRR=18;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3200A>C|p.His1067Pro|3200/21291|3200/21291|1067/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:26,2:26:954:2:46:0,-4.05988,-81.806 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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160 NC_045512.2 3528 . A T 3.52281E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=5.18177;EPPR=70.3259;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.754;PAIRED=1;PAIREDR=0.967742;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1113;RO=31;RPL=1;RPP=5.18177;RPPR=3.08035;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=3.08035;SRR=15;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3263A>T|p.Asp1088Val|3263/21291|3263/21291|1088/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:31,1:31:1113:1:34:0,-6.23405,-97.0776 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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161 NC_045512.2 3529 . T G 2.61878E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=7.35324;EPPR=65.983;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.0666;PAIRED=0.5;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=39;QR=1050;RO=29;RPL=2;RPP=7.35324;RPPR=3.68421;RPR=0;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=16;SRP=3.68421;SRR=13;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3264T>G|p.Asp1088Glu|3264/21291|3264/21291|1088/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:29,2:29:1050:2:39:0,-5.62714,-91.105 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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162 NC_045512.2 3562 . G T 9.89491E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=29.1374;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1042;RO=30;RPL=0;RPP=7.35324;RPPR=68.1545;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=15;SRP=3.0103;SRR=15;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3297G>T|p.Val1099Val|3297/21291|3297/21291|1099/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:30,2:30:1042:2:75:0,-2.51262,-86.9511 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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163 NC_045512.2 3647 . ATTCA ATCA 1.19167E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M1D3M;DP=32;DPB=31.6;DPRA=0;EPP=7.35324;EPPR=68.1545;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=28.9199;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1121;RO=30;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=15;SRP=3.0103;SRR=15;TYPE=del;ANN=ATCA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3384delT|p.Gln1129fs|3384/21291|3384/21291|1128/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:30,2:30:1121:2:76:0,-2.41815,-93.9829 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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164 NC_045512.2 3728 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=5.18177;EPPR=3.08035;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.7382;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1142;RO=31;RPL=1;RPP=5.18177;RPPR=70.3259;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=3.08035;SRR=16;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3463G>T|p.Gly1155Cys|3463/21291|3463/21291|1155/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:31,1:31:1142:1:8:0,-8.83296,-102.283 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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165 NC_045512.2 4060 . A C 2.8418E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=5.18177;EPPR=42.621;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.046;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1077;RO=29;RPL=0;RPP=5.18177;RPPR=24.6501;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=26;SRP=42.621;SRR=3;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3795A>C|p.Pro1265Pro|3795/21291|3795/21291|1265/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:29,1:29:1077:1:34:0,-5.63199,-93.8409 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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166 NC_045512.2 4126 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=3.0103;EPPR=4.03458;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.9256;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1938;RO=53;RPL=0;RPP=7.35324;RPPR=93.5156;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=26;SRP=3.05127;SRR=27;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3861G>T|p.Val1287Val|3861/21291|3861/21291|1287/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:53,2:53:1938:2:75:0,-9.43631,-167.557 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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167 NC_045512.2 4142 . G A 6.61515E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=5.18177;EPPR=3.16006;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=82.7866;PAIRED=0;PAIREDR=0.982759;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=2071;RO=58;RPL=0;RPP=5.18177;RPPR=104.246;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=3.60933;SRR=31;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3877G>A|p.Glu1293Lys|3877/21291|3877/21291|1293/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:59:58,1:58:2071:1:7:0,-17.0608,-185.929 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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168 NC_045512.2 4163 . G T 5.12534E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=5.18177;EPPR=3.0484;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=75.203;PAIRED=1;PAIREDR=0.964912;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=2120;RO=57;RPL=1;RPP=5.18177;RPPR=118.251;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=3.35316;SRR=30;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.3898G>T|p.Val1300Phe|3898/21291|3898/21291|1300/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:57,1:57:2120:1:34:0,-14.0608,-187.646 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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169 NC_045512.2 4304 . A T 7.3231E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=5.18177;EPPR=3.93042;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=77.9416;PAIRED=1;PAIREDR=0.966102;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=2177;RO=59;RPL=0;RPP=5.18177;RPPR=106.394;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=30;SRP=3.0471;SRR=29;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4039A>T|p.Lys1347*|4039/21291|4039/21291|1347/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:60:59,1:59:2177:1:34:0,-14.6629,-192.771 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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170 NC_045512.2 4391 . C T 2.89298E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=50.3001;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.623;PAIRED=1;PAIREDR=0.944444;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1356;RO=36;RPL=1;RPP=5.18177;RPPR=27.1378;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=4;SRP=50.3001;SRR=32;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4126C>T|p.Arg1376*|4126/21291|4126/21291|1376/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1356:1:38:0,-7.34084,-118.536 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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171 NC_045512.2 4397 . A G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=50.3001;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.5403;PAIRED=1;PAIREDR=0.944444;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1364;RO=36;RPL=1;RPP=5.18177;RPPR=27.1378;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=4;SRP=50.3001;SRR=32;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4132A>G|p.Met1378Val|4132/21291|4132/21291|1378/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1364:1:34:0,-7.7392,-119.653 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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172 NC_045512.2 4404 . C A 2.89298E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=50.3001;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.623;PAIRED=1;PAIREDR=0.944444;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1342;RO=36;RPL=1;RPP=5.18177;RPPR=27.1378;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=4;SRP=50.3001;SRR=32;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4139C>A|p.Ala1380Glu|4139/21291|4139/21291|1380/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1342:1:38:0,-7.34084,-117.273 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
173 NC_045512.2 4751 . A C 1.35112E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=26.496;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1051;RO=28;RPL=0;RPP=7.35324;RPPR=63.8115;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=14;SRP=3.0103;SRR=14;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4486A>C|p.Thr1496Pro|4486/21291|4486/21291|1496/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:28,2:28:1051:2:75:0,-1.91056,-87.7804 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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174 NC_045512.2 4850 . A C 1.68301E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=7.35324;EPPR=63.8115;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=26.2785;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1064;RO=28;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=14;SRP=3.0103;SRR=14;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4585A>C|p.Lys1529Gln|4585/21291|4585/21291|1529/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:28,2:28:1064:2:76:0,-1.81609,-88.8561 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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175 NC_045512.2 4890 . C A 1.35112E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=26.496;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1050;RO=28;RPL=2;RPP=7.35324;RPPR=63.8115;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=14;SRP=3.0103;SRR=14;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4625C>A|p.Thr1542Asn|4625/21291|4625/21291|1542/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:28,2:28:1050:2:75:0,-1.91056,-87.6907 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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176 NC_045512.2 5014 . T G 9.40218E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=19;DPB=19;DPRA=0;EPP=5.18177;EPPR=42.0968;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=22.2535;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=640;RO=18;RPL=1;RPP=5.18177;RPPR=4.9405;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=4.9405;SRR=11;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4749T>G|p.Val1583Val|4749/21291|4749/21291|1583/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:19:18,1:18:640:1:34:0,-2.32066,-54.5285 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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177 NC_045512.2 5016 . T G 1.34597E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=5.18177;EPPR=29.6108;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=19.5921;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=575;RO=16;RPL=1;RPP=5.18177;RPPR=3.0103;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=3.55317;SRR=9;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4751T>G|p.Val1584Gly|4751/21291|4751/21291|1584/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:17:16,1:16:575:1:34:0,-1.7186,-48.6833 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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178 NC_045512.2 5037 . G A 40.1272 . AB=0.285714;ABP=8.59409;AC=1;AF=0.5;AN=2;AO=4;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=9.23953;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=146;QR=353;RO=10;RPL=0;RPP=11.6962;RPPR=24.725;RPR=4;RUN=1;SAF=2;SAP=3.0103;SAR=2;SRF=5;SRP=3.0103;SRR=5;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4772G>A|p.Gly1591Glu|4772/21291|4772/21291|1591/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:14:10,4:10:353:4:146:-9.28272,0,-27.8893 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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179 NC_045512.2 5172 . A G 3.56433E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=5.18177;EPPR=3.17734;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=20.9208;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=494;RO=13;RPL=1;RPP=5.18177;RPPR=31.2394;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=3.17734;SRR=6;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.4907A>G|p.His1636Arg|4907/21291|4907/21291|1636/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:13,1:13:494:1:11:0,-3.11442,-43.7078 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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180 NC_045512.2 5267 . A T 3.19931E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=5.18177;EPPR=55.1256;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=30.2968;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=892;RO=24;RPL=0;RPP=5.18177;RPPR=12.0581;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=12.0581;SRR=7;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5002A>T|p.Lys1668*|5002/21291|5002/21291|1668/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:24,1:24:892:1:34:0,-4.12684,-77.2009 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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181 NC_045512.2 5289 . A T 3.73074E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=29;DPB=29;DPRA=0;EPP=5.18177;EPPR=63.8115;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.7763;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1057;RO=28;RPL=0;RPP=5.18177;RPPR=18.2106;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=21;SRP=18.2106;SRR=7;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5024A>T|p.Tyr1675Phe|5024/21291|5024/21291|1675/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:28,1:28:1057:1:38:0,-4.9326,-91.6435 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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182 NC_045512.2 5360 . T C 1.21146E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.1273;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1551;RO=42;RPL=0;RPP=7.35324;RPPR=94.2121;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=21;SRP=3.0103;SRR=21;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5095T>C|p.Tyr1699His|5095/21291|5095/21291|1699/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:42,2:42:1551:2:75:0,-6.12498,-132.75 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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183 NC_045512.2 5367 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.9098;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1513;RO=42;RPL=0;RPP=7.35324;RPPR=94.2121;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=21;SRP=3.0103;SRR=21;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5102G>T|p.Arg1701Ile|5102/21291|5102/21291|1701/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:42,2:42:1513:2:76:0,-6.03051,-129.224 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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184 NC_045512.2 5368 . A G 1.12861E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=5.18177;EPPR=3.0608;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.8251;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1573;RO=43;RPL=0;RPP=5.18177;RPPR=96.3836;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=22;SRP=3.0608;SRR=21;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5103A>G|p.Arg1701Arg|5103/21291|5103/21291|1701/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:43,1:43:1573:1:9:0,-12.3453,-140.947 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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185 NC_045512.2 5376 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.9098;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1536;RO=42;RPL=0;RPP=7.35324;RPPR=94.2121;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=21;SRP=3.0103;SRR=21;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5111C>A|p.Ala1704Asp|5111/21291|5111/21291|1704/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:42,2:42:1536:2:76:0,-6.03051,-131.304 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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186 NC_045512.2 5388 . C A 798.742 . AB=0.727273;ABP=22.751;AC=1;AF=0.5;AN=2;AO=32;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.6329;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1212;QR=439;RO=12;RPL=0;RPP=72.4974;RPPR=29.068;RPR=32;RUN=1;SAF=16;SAP=3.0103;SAR=16;SRF=6;SRP=3.0103;SRR=6;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5123C>A|p.Ala1708Asp|5123/21291|5123/21291|1708/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:44:12,32:12:439:32:1212:-96.1364,0,-26.605 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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187 NC_045512.2 5489 . G T 1.21146E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=3.0103;EPPR=85.7331;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.1273;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1573;RO=42;RPL=2;RPP=7.35324;RPPR=3.21711;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=21;SRP=3.0103;SRR=21;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5224G>T|p.Asp1742Tyr|5224/21291|5224/21291|1742/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:42,2:42:1573:2:75:0,-6.12498,-134.726 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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188 NC_045512.2 5523 . A C 8.61891E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=5.18177;EPPR=3.0608;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.5948;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1575;RO=43;RPL=1;RPP=5.18177;RPPR=96.3836;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=21;SRP=3.0608;SRR=22;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5258A>C|p.Lys1753Thr|5258/21291|5258/21291|1753/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:43,1:43:1575:1:10:0,-12.2453,-141.027 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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189 NC_045512.2 5544 . C A 1.12861E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=5.18177;EPPR=3.0608;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.8251;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1552;RO=43;RPL=1;RPP=5.18177;RPPR=96.3836;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=21;SRP=3.0608;SRR=22;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5279C>A|p.Thr1760Lys|5279/21291|5279/21291|1760/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:43,1:43:1552:1:9:0,-12.3453,-139.057 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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190 NC_045512.2 5546 . A C 1.12861E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=5.18177;EPPR=3.0608;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.8251;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1541;RO=43;RPL=1;RPP=5.18177;RPPR=96.3836;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=21;SRP=3.0608;SRR=22;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5281A>C|p.Thr1761Pro|5281/21291|5281/21291|1761/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:43,1:43:1541:1:9:0,-12.3453,-138.068 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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191 NC_045512.2 5553 . A C 8.30273E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=5.18177;EPPR=3.0608;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=62.0553;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1557;RO=43;RPL=1;RPP=5.18177;RPPR=96.3836;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=21;SRP=3.0608;SRR=22;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5288A>C|p.Lys1763Thr|5288/21291|5288/21291|1763/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:43,1:43:1557:1:8:0,-12.4453,-139.607 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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192 NC_045512.2 5641 . A G 3.1823E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=68.1545;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.3995;PAIRED=1;PAIREDR=0.966667;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1067;RO=30;RPL=1;RPP=5.18177;RPPR=5.61607;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=12;SRP=5.61607;SRR=18;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5376A>G|p.Gln1792Gln|5376/21291|5376/21291|1792/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1067:1:34:0,-5.93302,-92.9399 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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193 NC_045512.2 5824 . T G 2.95401E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=33.1313;PAIRED=0;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=828;RO=22;RPL=1;RPP=5.18177;RPPR=50.7827;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=11;SRP=3.0103;SRR=11;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5559T>G|p.Leu1853Leu|5559/21291|5559/21291|1853/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:23:22,1:22:828:1:10:0,-5.92369,-73.8461 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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194 NC_045512.2 5852 . ATTAC ATAC,ACTAC 3.07172E-7 . AB=0.0869565,0.0434783;ABP=37.093,44.6459;AC=1,0;AF=0.5,0;AN=2;AO=2,1;CIGAR=1M1D3M,1M1X3M;DP=23;DPB=22.6;DPRA=0,0;EPP=3.0103,5.18177;EPPR=3.0103;GTI=0;LEN=1,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=16.4644;PAIRED=1,0;PAIREDR=1;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=75,9;QR=726;RO=20;RPL=2,1;RPP=7.35324,5.18177;RPPR=46.4397;RPR=0,0;RUN=1,1;SAF=1,1;SAP=3.0103,5.18177;SAR=1,0;SRF=10;SRP=3.0103;SRR=10;TYPE=del,snp;ANN=ATAC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5589delT|p.Thr1864fs|5589/21291|5589/21291|1863/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:23:20,2,1:20:726:2,1:75,9:-0.312765,0,-58.9375,-5.91932,-59.0435,-64.8871 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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195 NC_045512.2 5869 . C A 8.91572E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=5.18177;EPPR=24.5973;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=20.004;PAIRED=1;PAIREDR=0.941176;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=613;RO=17;RPL=1;RPP=5.18177;RPPR=9.26925;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=4.1599;SRR=10;TYPE=snp;ANN=A|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5604C>A|p.Tyr1868*|5604/21291|5604/21291|1868/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:18:17,1:17:613:1:38:0,-1.62127,-51.7006 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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196 NC_045512.2 5952 . T G 4.17411E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=5.18177;EPPR=46.4397;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=29.9892;PAIRED=1;PAIREDR=0.95;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=746;RO=20;RPL=1;RPP=5.18177;RPPR=3.0103;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=10;SRP=3.0103;SRR=10;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5687T>G|p.Leu1896Trp|5687/21291|5687/21291|1896/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:20,1:20:746:1:12:0,-5.12164,-66.269 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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197 NC_045512.2 5986 . C T 571.853 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=19;CIGAR=1X;DP=19;DPB=19;DPRA=0;EPP=3.12459;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=30.9448;PAIRED=0.947368;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=712;QR=0;RO=0;RPL=0;RPP=44.2683;RPPR=0;RPR=19;RUN=1;SAF=10;SAP=3.12459;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5721C>T|p.Phe1907Phe|5721/21291|5721/21291|1907/7096|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:19:0,19:0:0:19:712:-64.4128,-5.71957,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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198 NC_045512.2 6193 . A G 4.07431E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=5.18177;EPPR=65.983;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=36.1287;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1100;RO=29;RPL=1;RPP=5.18177;RPPR=15.6647;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=15.6647;SRR=8;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5928A>G|p.Thr1976Thr|5928/21291|5928/21291|1976/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:29,1:29:1100:1:38:0,-5.23363,-95.5115 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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199 NC_045512.2 6241 . G T 4.07431E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=5.18177;EPPR=65.983;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=36.1287;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1085;RO=29;RPL=1;RPP=5.18177;RPPR=15.6647;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=15.6647;SRR=8;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5976G>T|p.Trp1992Cys|5976/21291|5976/21291|1992/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:29,1:29:1085:1:38:0,-5.23363,-94.1611 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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200 NC_045512.2 6250 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=10.8184;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.5202;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=21;QR=1680;RO=47;RPL=0;RPP=5.18177;RPPR=41.8658;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=4.16534;SRR=26;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.5985C>A|p.Asn1995Lys|5985/21291|5985/21291|1995/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1680:1:21:0,-12.3495,-149.361 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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201 NC_045512.2 6279 . C T 5.28897E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=42.4488;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1441;RO=40;RPL=0;RPP=7.35324;RPPR=89.8692;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.0103;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6014C>T|p.Pro2005Leu|6014/21291|6014/21291|2005/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:40,2:40:1441:2:75:0,-5.52292,-122.849 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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202 NC_045512.2 6280 . A G 5.28897E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=42.4488;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1425;RO=40;RPL=0;RPP=7.35324;RPPR=89.8692;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.0103;SRR=20;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6015A>G|p.Pro2005Pro|6015/21291|6015/21291|2005/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:40,2:40:1425:2:75:0,-5.52292,-121.408 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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203 NC_045512.2 6359 . G T 2.78774E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=92.0407;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.9548;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1540;RO=41;RPL=1;RPP=5.18177;RPPR=3.06326;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6094G>T|p.Asp2032Tyr|6094/21291|6094/21291|2032/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1540:1:27:0,-9.94348,-136.18 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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204 NC_045512.2 6433 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=42.2313;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1451;RO=40;RPL=2;RPP=7.35324;RPPR=89.8692;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.0103;SRR=20;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6168C>T|p.Thr2056Thr|6168/21291|6168/21291|2056/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:40,2:40:1451:2:76:0,-5.42845,-123.655 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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205 NC_045512.2 6439 . G T 6.90097E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.6385;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1502;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6174G>T|p.Gln2058His|6174/21291|6174/21291|2058/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1502:1:11:0,-11.5433,-134.358 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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206 NC_045512.2 6447 . T G 1.49216E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.3292;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1457;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6182T>G|p.Val2061Gly|6182/21291|6182/21291|2061/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1457:1:8:0,-11.8433,-130.607 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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207 NC_045512.2 6455 . T G 1.03067E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.5595;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=1524;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6190T>G|p.Cys2064Gly|6190/21291|6190/21291|2064/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1524:1:7:0,-11.9433,-136.744 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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208 NC_045512.2 6593 . C A 1.37118E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.2645;PAIRED=0;PAIREDR=0.97561;PAO=0;PQA=0;PQR=0;PRO=0;QA=30;QR=1475;RO=41;RPL=0;RPP=5.18177;RPPR=92.0407;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6328C>A|p.Pro2110Thr|6328/21291|6328/21291|2110/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1475:1:30:0,-9.64369,-130.032 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
209 NC_045512.2 6643 . T C 6.90097E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=92.0407;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.6385;PAIRED=1;PAIREDR=0.95122;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1540;RO=41;RPL=1;RPP=5.18177;RPPR=3.48696;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.48696;SRR=22;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6378T>C|p.Gly2126Gly|6378/21291|6378/21291|2126/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1540:1:11:0,-11.5433,-137.782 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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210 NC_045512.2 6722 . A C,T 1.28098E-15 . AB=0,0;ABP=0,0;AC=0,0;AF=0,0;AN=2;AO=1,1;CIGAR=1X,1X;DP=42;DPB=42;DPRA=0,0;EPP=5.18177,5.18177;EPPR=29.2851;GTI=0;LEN=1,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=57.518;PAIRED=0,1;PAIREDR=0.975;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=11,10;QR=1508;RO=40;RPL=0,1;RPP=5.18177,5.18177;RPPR=16.9077;RPR=1,0;RUN=1,1;SAF=0,1;SAP=5.18177,5.18177;SAR=1,0;SRF=19;SRP=3.22745;SRR=21;TYPE=snp,snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6457A>C|p.Thr2153Pro|6457/21291|6457/21291|2153/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:40,1,1:40:1508:1,1:11,10:0,-11.3472,-134.903,-11.4472,-134.611,-134.993 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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211 NC_045512.2 6742 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.4278;PAIRED=0;PAIREDR=0.97561;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1504;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6477G>A|p.Arg2159Arg|6477/21291|6477/21291|2159/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1504:1:38:0,-8.84599,-131.839 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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212 NC_045512.2 6744 . GTTTA ATTTT 2.78774E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X3M1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=5;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.9548;PAIRED=0;PAIREDR=0.97561;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1521;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=20;SRP=3.06326;SRR=21;TYPE=complex;ANN=ATTTT|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6479_6483delGTTTAinsATTTT|p.CysLeu2160TyrPhe|6479/21291|6479/21291|2160/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1521:1:27:0,-9.94348,-134.474 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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213 NC_045512.2 6762 . C A 6.90097E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.6385;PAIRED=1;PAIREDR=0.95122;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1505;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6497C>A|p.Thr2166Asn|6497/21291|6497/21291|2166/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1505:1:11:0,-11.5433,-134.631 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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214 NC_045512.2 6828 . C T 1.7035E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=48.6112;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=26.2658;PAIRED=1;PAIREDR=0.904762;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=797;RO=21;RPL=1;RPP=5.18177;RPPR=48.6112;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=48.6112;SRR=21;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6563C>T|p.Ser2188Phe|6563/21291|6563/21291|2188/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:797:1:34:0,-3.22375,-68.6592 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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215 NC_045512.2 6839 . G T 9.29677E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=48.6112;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=31.5592;PAIRED=0;PAIREDR=0.952381;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=783;RO=21;RPL=1;RPP=5.18177;RPPR=48.6112;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=48.6112;SRR=21;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.6574G>T|p.Ala2192Ser|6574/21291|6574/21291|2192/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:783:1:11:0,-5.52266,-69.6938 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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216 NC_045512.2 7975 . G A 1.77522E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=5.18177;EPPR=31.2394;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.7101;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=493;RO=13;RPL=0;RPP=5.18177;RPPR=31.2394;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=13;SRP=31.2394;SRR=0;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.7710G>A|p.Leu2570Leu|7710/21291|7710/21291|2570/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:13,1:13:493:1:38:0,-0.417151,-40.9202 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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217 NC_045512.2 8252 . A C 5.07863E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=16;DPB=16;DPRA=0;EPP=5.18177;EPPR=35.5824;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=20.5668;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=24;QR=562;RO=15;RPL=0;RPP=5.18177;RPPR=20.5268;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=2;SRP=20.5268;SRR=13;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.7987A>C|p.Ile2663Leu|7987/21291|7987/21291|2663/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:16:15,1:15:562:1:24:0,-2.41659,-48.5206 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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218 NC_045512.2 8254 . AGA AA 5.06717E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D1M;DP=16;DPB=15.6667;DPRA=0;EPP=5.18177;EPPR=35.5824;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=18.2665;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=564;RO=15;RPL=0;RPP=5.18177;RPPR=20.5268;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=2;SRP=20.5268;SRR=13;TYPE=del;ANN=AA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.7990delG|p.Glu2664fs|7990/21291|7990/21291|2664/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:16:15,1:15:564:1:34:0,-1.41757,-47.7023 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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219 NC_045512.2 8335 . T G 1.26801E-7 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=16;DPB=16;DPRA=0;EPP=5.18177;EPPR=35.5824;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=17.3492;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=550;RO=15;RPL=0;RPP=5.18177;RPPR=10.1038;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=4;SRP=10.1038;SRR=11;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8070T>G|p.Ala2690Ala|8070/21291|8070/21291|2690/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:16:15,1:15:550:1:38:0,-1.01921,-46.0397 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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220 NC_045512.2 8339 . A T 1.66407E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=5.18177;EPPR=29.068;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.7748;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=32;QR=426;RO=12;RPL=1;RPP=5.18177;RPPR=3.73412;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=5;SRP=3.73412;SRR=7;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8074A>T|p.Ile2692Phe|8074/21291|8074/21291|2692/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:13:12,1:12:426:1:32:0,-0.714077,-35.4767 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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221 NC_045512.2 8340 . T G 6.15389E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=5.18177;EPPR=26.8965;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=18.0721;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=392;RO=11;RPL=1;RPP=5.18177;RPPR=3.20771;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=5;SRP=3.20771;SRR=6;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8075T>G|p.Ile2692Ser|8075/21291|8075/21291|2692/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:12:11,1:11:392:1:12:0,-2.41237,-34.4184 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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222 NC_045512.2 8375 . G T 0.293568 . AB=0.181818;ABP=12.6832;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=3.0103;EPPR=3.25157;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=2.66021;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=73;QR=302;RO=9;RPL=0;RPP=7.35324;RPPR=22.5536;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=4;SRP=3.25157;SRR=5;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8110G>T|p.Ala2704Ser|8110/21291|8110/21291|2704/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:11:9,2:9:302:2:73:-3.61977,0,-24.1879 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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223 NC_045512.2 8480 . C T 0.547656 . AB=0.181818;ABP=12.6832;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=7.35324;EPPR=22.5536;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=2.00695;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=337;RO=9;RPL=1;RPP=3.0103;RPPR=3.25157;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=4;SRP=3.25157;SRR=5;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8215C>T|p.Pro2739Ser|8215/21291|8215/21291|2739/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:11:9,2:9:337:2:76:-3.90348,0,-27.3727 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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224 NC_045512.2 8656 . T C 1.2603E-4 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=6;DPB=6;DPRA=0;EPP=5.18177;EPPR=13.8677;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=10.4475;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=190;RO=5;RPL=1;RPP=5.18177;RPPR=13.8677;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=13.8677;SRR=5;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8391T>C|p.Ser2797Ser|8391/21291|8391/21291|2797/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:6:5,1:5:190:1:12:0,-0.606186,-16.2674 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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225 NC_045512.2 8891 . A C 9.75095E-7 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=5.18177;EPPR=26.8965;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=15.3093;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=24;QR=352;RO=11;RPL=0;RPP=5.18177;RPPR=26.8965;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=11;SRP=26.8965;SRR=0;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8626A>C|p.Thr2876Pro|8626/21291|8626/21291|2876/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:12:11,1:11:352:1:24:0,-1.21247,-29.5902 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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226 NC_045512.2 8897 . A T 3.56285E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=5.18177;EPPR=39.9253;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=20.9213;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=633;RO=17;RPL=0;RPP=5.18177;RPPR=39.9253;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=39.9253;SRR=0;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8632A>T|p.Asn2878Tyr|8632/21291|8632/21291|2878/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:18:17,1:17:633:1:34:0,-2.01963,-53.9064 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
227 NC_045512.2 8966 . A G 9.29677E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=20.4855;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=31.5592;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=789;RO=21;RPL=0;RPP=5.18177;RPPR=48.6112;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=20.4855;SRR=4;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8701A>G|p.Lys2901Glu|8701/21291|8701/21291|2901/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:789:1:11:0,-5.52266,-70.2371 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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228 NC_045512.2 8975 . G T 2.27069E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=36.1894;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=67;QR=1245;RO=34;RPL=0;RPP=7.35324;RPPR=76.8404;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=17;SRP=3.0103;SRR=17;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8710G>T|p.Glu2904*|8710/21291|8710/21291|2904/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:34,2:34:1245:2:67:0,-4.475,-105.982 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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229 NC_045512.2 8991 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=3.07234;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=50.9354;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1296;RO=35;RPL=0;RPP=5.18177;RPPR=79.0118;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=18;SRP=3.07234;SRR=17;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8726C>A|p.Ala2909Glu|8726/21291|8726/21291|2909/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1296:1:9:0,-9.93708,-116.035 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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230 NC_045512.2 9041 . T C 2.59963E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=48.239;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.1814;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1308;RO=35;RPL=0;RPP=5.18177;RPPR=8.03571;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=3.07234;SRR=18;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8776T>C|p.Ser2926Pro|8776/21291|8776/21291|2926/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1308:1:34:0,-7.43817,-114.613 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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231 NC_045512.2 9049 . G T 1.87615E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=79.0118;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=50.4749;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1309;RO=35;RPL=0;RPP=5.18177;RPPR=3.07234;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=18;SRP=3.07234;SRR=17;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8784G>T|p.Lys2928Asn|8784/21291|8784/21291|2928/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1309:1:11:0,-9.73708,-117.004 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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232 NC_045512.2 9123 . G C 3.26967E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.2259;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1286;RO=34;RPL=2;RPP=7.35324;RPPR=76.8404;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=17;SRP=3.0103;SRR=17;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.8858G>C|p.Arg2953Pro|8858/21291|8858/21291|2953/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:34,2:34:1286:2:76:0,-3.62227,-108.822 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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233 NC_045512.2 9269 . G T 9.72896E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=5.18177;EPPR=26.8965;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=13.009;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=382;RO=11;RPL=1;RPP=5.18177;RPPR=12.6832;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=2;SRP=12.6832;SRR=9;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.9004G>T|p.Gly3002Cys|9004/21291|9004/21291|3002/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:12:11,1:11:382:1:34:0,-0.213449,-31.3145 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
234 NC_045512.2 10040 . T C 4.11236E-7 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=5.18177;EPPR=3.25157;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=16.1727;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=297;RO=9;RPL=1;RPP=5.18177;RPPR=22.5536;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=4;SRP=3.25157;SRR=5;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.9775T>C|p.Ser3259Pro|9775/21291|9775/21291|3259/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:10:9,1:9:297:1:9:0,-2.1103,-26.1442 |
|
6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
235 NC_045512.2 10168 . T G 1.04727E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=5.18177;EPPR=5.99147;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=83.0048;PAIRED=1;PAIREDR=0.779661;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=2057;RO=59;RPL=1;RPP=5.18177;RPPR=98.7391;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=30;SRP=3.0471;SRR=29;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.9903T>G|p.Cys3301Trp|9903/21291|9903/21291|3301/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:60:59,1:59:2057:1:12:0,-16.8618,-184.171 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
236 NC_045512.2 10169 . CCAAG CG,CTAAG,CCGAG 1.54596E-14 . AB=0,0,0;ABP=0,0,0;AC=0,0,0;AF=0,0,0;AN=2;AO=2,1,2;CIGAR=1M3D1M,1M1X3M,2M1X2M;DP=55;DPB=56;DPRA=0,0,0;EPP=3.0103,5.18177,3.0103;EPPR=3.70517;GTI=0;LEN=3,1,1;MEANALT=3,3,3;MQM=60,60,60;MQMR=60;NS=1;NUMALT=3;ODDS=56.5225;PAIRED=1,0,1;PAIREDR=0.76;PAO=0.25,0.25,1.25;PQA=8.5,8.5,42.5;PQR=110.5;PRO=3.25;QA=67,27,76;QR=1794;RO=50;RPL=0,0,0;RPP=7.35324,5.18177,7.35324;RPPR=111.584;RPR=2,1,2;RUN=1,1,1;SAF=1,1,1;SAP=3.0103,5.18177,3.0103;SAR=1,0,1;SRF=27;SRP=3.70517;SRR=23;TYPE=del,snp,snp;ANN=CTAAG|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.9905C>T|p.Pro3302Leu|9905/21291|9905/21291|3302/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:50,2,1,2:50:1794:2,1,2:67,27,76:0,-9.63806,-155.337,-12.9384,-153.812,-158.935,-8.81225,-149.705,-153.002,-154.527 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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237 NC_045512.2 10282 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=111.745;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=71.7867;PAIRED=0;PAIREDR=0.777778;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1943;RO=54;RPL=1;RPP=5.18177;RPPR=3.17115;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10017G>T|p.Arg3339Ser|10017/21291|10017/21291|3339/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1943:1:31:0,-13.4572,-172.017 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
238 NC_045512.2 10300 . GCAA TCAC 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X2M1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=111.745;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=74.3184;PAIRED=0;PAIREDR=0.777778;PAO=0;PQA=0;PQR=0;PRO=0;QA=20;QR=2010;RO=54;RPL=1;RPP=5.18177;RPPR=3.17115;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=complex;ANN=TCAC|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10035_10038delGCAAinsTCAC|p.MetGln3345IleHis|10035/21291|10035/21291|3345/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:2010:1:20:0,-14.5567,-179.154 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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239 NC_045512.2 10314 . T A 4.92735E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=3.0103;EPPR=4.03458;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.7081;PAIRED=1;PAIREDR=0.754717;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1976;RO=53;RPL=2;RPP=7.35324;RPPR=118.098;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=29;SRP=4.03458;SRR=24;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10049T>A|p.Leu3350His|10049/21291|10049/21291|3350/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:53,2:53:1976:2:76:0,-9.34184,-170.875 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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240 NC_045512.2 10323 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=3.6537;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=76.8511;PAIRED=0;PAIREDR=0.777778;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=2005;RO=54;RPL=1;RPP=5.18177;RPPR=120.27;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10058A>C|p.Lys3353Thr|10058/21291|10058/21291|3353/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:2005:1:9:0,-15.6567,-179.804 |
|
6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
241 NC_045512.2 10335 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=3.6537;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.6277;PAIRED=0;PAIREDR=0.777778;PAO=0;PQA=0;PQR=0;PRO=0;QA=23;QR=1968;RO=54;RPL=1;RPP=5.18177;RPPR=120.27;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10070C>A|p.Ala3357Asp|10070/21291|10070/21291|3357/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1968:1:23:0,-14.2567,-175.07 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
242 NC_045512.2 10344 . A C 1.28079E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=3.6537;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=75.4696;PAIRED=0;PAIREDR=0.777778;PAO=0;PQA=0;PQR=0;PRO=0;QA=15;QR=1964;RO=54;RPL=1;RPP=5.18177;RPPR=120.27;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10079A>C|p.Lys3360Thr|10079/21291|10079/21291|3360/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1964:1:15:0,-15.0567,-175.516 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
243 NC_045512.2 10352 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=3.6537;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=76.8511;PAIRED=0;PAIREDR=0.777778;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1966;RO=54;RPL=1;RPP=5.18177;RPPR=120.27;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10087A>C|p.Lys3363Gln|10087/21291|10087/21291|3363/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1966:1:9:0,-15.6567,-176.293 |
|
6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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244 NC_045512.2 10355 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=3.6537;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=76.8511;PAIRED=1;PAIREDR=0.759259;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1971;RO=54;RPL=1;RPP=5.18177;RPPR=120.27;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10090T>C|p.Tyr3364His|10090/21291|10090/21291|3364/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1971:1:9:0,-15.6567,-176.746 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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245 NC_045512.2 10358 . AA TC 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=2X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=3.6537;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=76.8511;PAIRED=0;PAIREDR=0.777778;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1937;RO=54;RPL=1;RPP=5.18177;RPPR=120.27;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=complex;ANN=TC|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10093_10094delAAinsTC|p.Lys3365Ser|10093/21291|10093/21291|3365/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1937:1:9:0,-15.6567,-173.683 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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246 NC_045512.2 10364 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=5.18177;EPPR=3.55317;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=84.7931;PAIRED=1;PAIREDR=0.796875;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=2326;RO=64;RPL=0;RPP=5.18177;RPPR=74.8046;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=39;SRP=9.66043;SRR=25;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10099G>T|p.Val3367Phe|10099/21291|10099/21291|3367/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:65:64,1:64:2326:1:34:0,-16.168,-206.182 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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247 NC_045512.2 10377 . C A 7.68684E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=5.18177;EPPR=15.1406;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=82.3261;PAIRED=1;PAIREDR=0.87931;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=2116;RO=58;RPL=1;RPP=5.18177;RPPR=41.348;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=33;SRP=5.40641;SRR=25;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10112C>A|p.Pro3371Gln|10112/21291|10112/21291|3371/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:59:58,1:58:2116:1:9:0,-16.8608,-189.785 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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248 NC_045512.2 10454 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=74.9036;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=48.5895;PAIRED=1;PAIREDR=0.891892;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1359;RO=37;RPL=1;RPP=5.18177;RPPR=10.1116;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=14;SRP=7.76406;SRR=23;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10189T>G|p.Phe3397Val|10189/21291|10189/21291|3397/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1359:1:31:0,-8.33969,-119.502 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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249 NC_045512.2 10548 . T G 2.08611E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=61.6401;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.6358;PAIRED=0;PAIREDR=0.962963;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1025;RO=27;RPL=0;RPP=5.18177;RPPR=3.09072;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=13;SRP=3.09072;SRR=14;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10283T>G|p.Met3428Arg|10283/21291|10283/21291|3428/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:1025:1:11:0,-7.32884,-91.4635 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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250 NC_045512.2 10602 . G T 2.08611E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=61.6401;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.6358;PAIRED=0;PAIREDR=0.962963;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=989;RO=27;RPL=0;RPP=5.18177;RPPR=3.09072;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=13;SRP=3.09072;SRR=14;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10337G>T|p.Gly3446Val|10337/21291|10337/21291|3446/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:989:1:11:0,-7.32884,-88.2152 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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251 NC_045512.2 10649 . A C 2.08611E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=27;DPB=27;DPRA=0;EPP=5.18177;EPPR=4.34659;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.2069;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=967;RO=26;RPL=1;RPP=5.18177;RPPR=59.4686;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=11;SRP=4.34659;SRR=15;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10384A>C|p.Thr3462Pro|10384/21291|10384/21291|3462/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:26,1:26:967:1:7:0,-7.42781,-86.6456 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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252 NC_045512.2 10672 . T G 1.34597E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=5.18177;EPPR=37.7539;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=19.5921;PAIRED=1;PAIREDR=0.875;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=606;RO=16;RPL=0;RPP=5.18177;RPPR=29.6108;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=1;SRP=29.6108;SRR=15;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10407T>G|p.Ala3469Ala|10407/21291|10407/21291|3469/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:17:16,1:16:606:1:34:0,-1.7186,-51.4813 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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253 NC_045512.2 10725 . C A 3.92939E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=5.18177;EPPR=44.2683;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=25.4284;PAIRED=0;PAIREDR=0.947368;PAO=0;PQA=0;PQR=0;PRO=0;QA=26;QR=722;RO=19;RPL=1;RPP=5.18177;RPPR=12.2676;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=5;SRP=12.2676;SRR=14;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10460C>A|p.Thr3487Asn|10460/21291|10460/21291|3487/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:20:19,1:19:722:1:26:0,-3.42077,-62.7132 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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254 NC_045512.2 10735 . T C 6.19167E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=5.18177;EPPR=44.2683;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=22.6712;PAIRED=1;PAIREDR=0.894737;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=712;RO=19;RPL=1;RPP=5.18177;RPPR=12.2676;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=5;SRP=12.2676;SRR=14;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10470T>C|p.Leu3490Leu|10470/21291|10470/21291|3490/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:20:19,1:19:712:1:38:0,-2.22333,-60.6137 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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255 NC_045512.2 11001 . C A 4.479E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=5.18177;EPPR=50.7827;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=27.6076;PAIRED=1;PAIREDR=0.954545;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=768;RO=22;RPL=0;RPP=5.18177;RPPR=17.2236;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=17.2236;SRR=5;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10736C>A|p.Thr3579Lys|10736/21291|10736/21291|3579/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:23:22,1:22:768:1:34:0,-3.52478,-66.0411 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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256 NC_045512.2 11002 . A C 5.28118E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=7.35324;EPPR=52.9542;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=27.437;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=47;QR=791;RO=23;RPL=0;RPP=7.35324;RPPR=18.9659;RPR=2;RUN=1;SAF=2;SAP=7.35324;SAR=0;SRF=18;SRP=18.9659;SRR=5;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10737A>C|p.Thr3579Thr|10737/21291|10737/21291|3579/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:23,2:23:791:2:47:0,-3.06093,-67.0399 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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257 NC_045512.2 11030 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=68.1545;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.3837;PAIRED=1;PAIREDR=0.966667;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1136;RO=30;RPL=0;RPP=5.18177;RPPR=31.9633;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=25;SRP=31.9633;SRR=5;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10765A>T|p.Thr3589Ser|10765/21291|10765/21291|3589/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1136:1:8:0,-8.53193,-101.747 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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258 NC_045512.2 11035 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=68.1545;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.3837;PAIRED=1;PAIREDR=0.966667;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1137;RO=30;RPL=0;RPP=5.18177;RPPR=31.9633;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=25;SRP=31.9633;SRR=5;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10770A>T|p.Ser3590Ser|10770/21291|10770/21291|3590/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1137:1:8:0,-8.53193,-101.836 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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259 NC_045512.2 11038 . T A 2.14262E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=59.7581;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.9404;PAIRED=1;PAIREDR=0.966667;PAO=0;PQA=0;PQR=0;PRO=0;QA=36;QR=1136;RO=30;RPL=0;RPP=5.18177;RPPR=31.9633;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=24;SRP=26.4622;SRR=6;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10773T>A|p.Leu3591Leu|10773/21291|10773/21291|3591/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1136:1:36:0,-5.73365,-98.9484 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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260 NC_045512.2 11047 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=68.1545;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.3837;PAIRED=1;PAIREDR=0.966667;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1132;RO=30;RPL=0;RPP=5.18177;RPPR=31.9633;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=25;SRP=31.9633;SRR=5;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10782A>C|p.Leu3594Phe|10782/21291|10782/21291|3594/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1132:1:8:0,-8.53193,-101.387 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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261 NC_045512.2 11074 . CTTTTTTTTGTATGA CTTTTTTTGTATGA,CTTTTTTTTTTATGA 32.7069 . AB=0.0344828,0.206897;ABP=57.5966,24.6501;AC=0,1;AF=0,0.5;AN=2;AO=1,6;CIGAR=1M1D13M,9M1X5M;DP=29;DPB=28.9333;DPRA=0,0;EPP=5.18177,8.80089;EPPR=34.9902;GTI=0;LEN=1,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=7.53051;PAIRED=1,1;PAIREDR=0.954545;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38,227;QR=823;RO=22;RPL=0,0;RPP=5.18177,16.0391;RPPR=50.7827;RPR=1,6;RUN=1,1;SAF=1,5;SAP=5.18177,8.80089;SAR=0,1;SRF=20;SRP=34.9902;SRR=2;TYPE=del,snp;ANN=CTTTTTTTGTATGA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10817delT|p.Leu3606fs|10817/21291|10817/21291|3606/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/2:29:22,1,6:22:823:1,6:38,227:-11.9855,-15.4914,-82.5863,0,-64.2769,-65.5874 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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262 NC_045512.2 11094 . C G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=5.18177;EPPR=3.40914;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=70.2452;PAIRED=0;PAIREDR=0.959184;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1679;RO=49;RPL=0;RPP=5.18177;RPPR=109.412;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=26;SRP=3.40914;SRR=23;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10829C>G|p.Ala3610Gly|10829/21291|10829/21291|3610/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:49,1:49:1679:1:8:0,-14.2515,-150.57 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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263 NC_045512.2 11127 . T G 1.11656E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=74.1156;PAIRED=0;PAIREDR=0.942308;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1951;RO=52;RPL=0;RPP=5.18177;RPPR=115.927;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=26;SRP=3.0103;SRR=26;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10862T>G|p.Met3621Arg|10862/21291|10862/21291|3621/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1951:1:9:0,-15.0546,-174.948 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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264 NC_045512.2 11148 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=7.18621;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=68.132;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=35;QR=1961;RO=52;RPL=0;RPP=5.18177;RPPR=83.8559;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=3.17734;SRR=27;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10883T>C|p.Phe3628Ser|10883/21291|10883/21291|3628/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1961:1:35:0,-12.456,-173.247 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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265 NC_045512.2 11152 . CAAACAT CAACAT 3.57126E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M1D5M;DP=53;DPB=52.7143;DPRA=0;EPP=7.35324;EPPR=55.1682;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=57.8816;PAIRED=1;PAIREDR=0.921569;PAO=0;PQA=0;PQR=0;PRO=0;QA=72;QR=1886;RO=51;RPL=1;RPP=3.0103;RPPR=15.3153;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=25;SRP=3.05288;SRR=26;TYPE=del;ANN=CAACAT|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10890delA|p.Lys3630fs|10890/21291|10890/21291|3630/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:51,2:51:1886:2:72:0,-9.11822,-163.168 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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266 NC_045512.2 11208 . C A 1.36065E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=99.2232;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.6551;PAIRED=0;PAIREDR=0.942308;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1950;RO=52;RPL=0;RPP=5.18177;RPPR=3.0103;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=26;SRP=3.0103;SRR=26;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10943C>A|p.Ala3648Asp|10943/21291|10943/21291|3648/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1950:1:11:0,-14.8546,-174.655 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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267 NC_045512.2 11234 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=63.3104;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=68.3616;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1919;RO=52;RPL=0;RPP=5.18177;RPPR=11.1951;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=26;SRP=3.0103;SRR=26;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10969G>A|p.Ala3657Thr|10969/21291|10969/21291|3657/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1919:1:34:0,-12.5557,-169.565 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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268 NC_045512.2 11242 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=5.68288;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.6551;PAIRED=0;PAIREDR=0.942308;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1915;RO=52;RPL=1;RPP=5.18177;RPPR=83.8559;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=26;SRP=3.0103;SRR=26;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10977G>T|p.Trp3659Cys|10977/21291|10977/21291|3659/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1915:1:11:0,-14.8546,-171.508 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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269 NC_045512.2 11261 . T G 1.36065E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=3.17734;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.6551;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1870;RO=52;RPL=1;RPP=5.18177;RPPR=115.927;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=3.17734;SRR=27;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10996T>G|p.Trp3666Gly|10996/21291|10996/21291|3666/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1870:1:11:0,-14.8546,-167.457 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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270 NC_045512.2 11262 . G A 5.89167E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=3.17734;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=69.7413;PAIRED=0;PAIREDR=0.942308;PAO=0;PQA=0;PQR=0;PRO=0;QA=28;QR=1853;RO=52;RPL=1;RPP=5.18177;RPPR=115.927;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=3.17734;SRR=27;TYPE=snp;ANN=A|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.10997G>A|p.Trp3666*|10997/21291|10997/21291|3666/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1853:1:28:0,-13.1549,-164.222 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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271 NC_045512.2 11269 . TA GT 1.36065E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=2X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=3.17734;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.6551;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1870;RO=52;RPL=1;RPP=5.18177;RPPR=115.927;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=3.17734;SRR=27;TYPE=complex;ANN=GT|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11004_11005delTAinsGT|p.AspMet3668GluLeu|11004/21291|11004/21291|3668/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1870:1:11:0,-14.8546,-167.46 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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272 NC_045512.2 11271 . TGGT CGGG 1.39076E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X2M1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=3.17734;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.1946;PAIRED=0;PAIREDR=0.942308;PAO=0;PQA=0;PQR=0;PRO=0;QA=13;QR=1883;RO=52;RPL=1;RPP=5.18177;RPPR=115.927;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=3.17734;SRR=27;TYPE=complex;ANN=CGGG|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11006_11009delTGGTinsCGGG|p.MetVal3669ThrGly|11006/21291|11006/21291|3669/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1883:1:13:0,-14.6546,-168.432 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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273 NC_045512.2 11276 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=3.17734;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=74.5761;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=1851;RO=52;RPL=1;RPP=5.18177;RPPR=115.927;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=3.17734;SRR=27;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11011G>T|p.Asp3671Tyr|11011/21291|11011/21291|3671/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1851:1:7:0,-15.2546,-166.142 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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274 NC_045512.2 11277 . ATAC TTCT 1.11656E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X1M2X;DP=53;DPB=53;DPRA=0;EPP=5.18177;EPPR=3.17734;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=74.1156;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1816;RO=52;RPL=1;RPP=5.18177;RPPR=115.927;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=3.17734;SRR=27;TYPE=complex;ANN=TTCT|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11012_11015delATACinsTTCT|p.AspThr3671ValLeu|11012/21291|11012/21291|3671/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:52,1:52:1816:1:9:0,-15.0546,-162.795 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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275 NC_045512.2 11287 . GTCTGGTTTTAAG GAAG,GTCTGGTTTTTAAG 655.65 . AB=0.681818,0.181818;ABP=15.6443,41.702;AC=1,1;AF=0.5,0.5;AN=2;AO=30,8;CIGAR=1M9D3M,6M1I7M;DP=44;DPB=23.8462;DPRA=0,0;EPP=4.16842,7.35324;EPPR=4.45795;GTI=0;LEN=9,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=12.3816;PAIRED=0.933333,0.875;PAIREDR=1;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=977,299;QR=220;RO=6;RPL=30,8;RPP=68.1545,20.3821;RPPR=16.0391;RPR=0,0;RUN=1,1;SAF=13,2;SAP=4.16842,7.35324;SAR=17,6;SRF=2;SRP=4.45795;SRR=4;TYPE=del,ins;ANN=GTCTGGTTTTTAAG|frameshift_variant&stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11031dupT|p.Lys3678fs|11032/21291|11032/21291|3678/7096|| GT:DP:AD:RO:QR:AO:QA:GL 1/2:44:6,30,8:6:220:30,8:977,299:-83.515,-6.50958,-15.4575,-60.8267,0,-76.4071 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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276 NC_045512.2 11308 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=57;DPB=57;DPRA=0;EPP=5.18177;EPPR=29.2231;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=73.8341;PAIRED=1;PAIREDR=0.946429;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1967;RO=56;RPL=0;RPP=5.18177;RPPR=33.4109;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.16541;SRR=27;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11043C>A|p.Asp3681Glu|11043/21291|11043/21291|3681/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:56,1:56:1967:1:34:0,-13.7598,-173.887 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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277 NC_045512.2 11324 . T C 9.58348E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=88.4369;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=60.612;PAIRED=1;PAIREDR=0.93617;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1724;RO=47;RPL=0;RPP=5.18177;RPPR=8.60069;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=5.27418;SRR=27;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11059T>C|p.Ser3687Pro|11059/21291|11059/21291|3687/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1724:1:38:0,-10.6522,-151.622 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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278 NC_045512.2 11369 . G T 6.14782E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=47;DPB=47;DPRA=0;EPP=5.18177;EPPR=102.898;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.2468;PAIRED=1;PAIREDR=0.934783;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1747;RO=46;RPL=1;RPP=5.18177;RPPR=3.76559;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.76559;SRR=25;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11104G>T|p.Asp3702Tyr|11104/21291|11104/21291|3702/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:46,1:46:1747:1:38:0,-10.3511,-153.7 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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279 NC_045512.2 11377 . T G 1.36214E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=5.18177;EPPR=98.5551;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.1244;PAIRED=1;PAIREDR=0.931818;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1650;RO=44;RPL=1;RPP=5.18177;RPPR=3.20771;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.20771;SRR=23;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11112T>G|p.Gly3704Gly|11112/21291|11112/21291|3704/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:44,1:44:1650:1:31:0,-10.4469,-145.676 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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280 NC_045512.2 11437 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=5.18177;EPPR=3.22745;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=57.5065;PAIRED=0;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1504;RO=40;RPL=0;RPP=5.18177;RPPR=89.8692;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.22745;SRR=19;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11172T>G|p.Gly3724Gly|11172/21291|11172/21291|3724/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1504:1:10:0,-11.3422,-134.644 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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281 NC_045512.2 11515 . T G 3.51075E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=5.18177;EPPR=89.8692;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=57.2763;PAIRED=0;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1511;RO=40;RPL=0;RPP=5.18177;RPPR=3.22745;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.22745;SRR=19;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11250T>G|p.Thr3750Thr|11250/21291|11250/21291|3750/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1511:1:11:0,-11.2422,-135.173 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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282 NC_045512.2 11516 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=7.35324;EPPR=87.6977;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=40.8938;PAIRED=1;PAIREDR=0.974359;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1423;RO=39;RPL=1;RPP=3.0103;RPPR=3.06598;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.06598;SRR=19;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11251G>A|p.Val3751Ile|11251/21291|11251/21291|3751/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:39,2:39:1423:2:76:0,-5.12742,-121.131 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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283 NC_045512.2 11586 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=5.18177;EPPR=18.709;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=86.2051;PAIRED=1;PAIREDR=0.934426;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=2258;RO=61;RPL=1;RPP=5.18177;RPPR=15.8611;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=41;SRP=18.709;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11321A>T|p.Asn3774Ile|11321/21291|11321/21291|3774/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2258:1:10:0,-17.6639,-202.456 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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284 NC_045512.2 11589 . C T 3.76714E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=5.18177;EPPR=15.8611;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=80.2224;PAIRED=0;PAIREDR=0.95082;PAO=0;PQA=0;PQR=0;PRO=0;QA=36;QR=2222;RO=61;RPL=0;RPP=5.18177;RPPR=18.709;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=41;SRP=18.709;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11324C>T|p.Thr3775Ile|11324/21291|11324/21291|3775/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2222:1:36:0,-15.0656,-196.615 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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285 NC_045512.2 11803 . T C 9.08766E-17 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=43.538;PAIRED=1;PAIREDR=0.925;PAO=0;PQA=0;PQR=0;PRO=0;QA=70;QR=1458;RO=40;RPL=2;RPP=7.35324;RPPR=89.8692;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.0103;SRR=20;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11538T>C|p.Gly3846Gly|11538/21291|11538/21291|3846/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:40,2:40:1458:2:70:0,-5.99593,-124.851 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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286 NC_045512.2 11808 . GTGGC TTGGT 9.40266E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X3M1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=5;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=57.4872;PAIRED=0;PAIREDR=0.95122;PAO=0;PQA=0;PQR=0;PRO=0;QA=16;QR=1496;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=complex;ANN=TTGGT|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11543_11547delGTGGCinsTTGGT|p.Gly3848Val|11543/21291|11543/21291|3848/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1496:1:16:0,-11.0433,-133.323 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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287 NC_045512.2 11824 . C A 1.79352E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.8687;PAIRED=0;PAIREDR=0.95122;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1525;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11559C>A|p.Ile3853Ile|11559/21291|11559/21291|3853/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1525:1:10:0,-11.6433,-136.532 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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288 NC_045512.2 11828 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=57.257;PAIRED=0;PAIREDR=0.95122;PAO=0;PQA=0;PQR=0;PRO=0;QA=17;QR=1546;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11563G>T|p.Val3855Leu|11563/21291|11563/21291|3855/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1546:1:17:0,-10.9433,-137.722 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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289 NC_045512.2 11833 . C T 4.46001E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.099;PAIRED=0;PAIREDR=0.95122;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1449;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11568C>T|p.Ala3856Ala|11568/21291|11568/21291|3856/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1449:1:9:0,-11.7433,-129.785 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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290 NC_045512.2 11840 . C T 4.46001E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.099;PAIRED=0;PAIREDR=0.95122;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1510;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11575C>T|p.Gln3859*|11575/21291|11575/21291|3859/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1510:1:9:0,-11.7433,-135.281 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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291 NC_045512.2 11854 . A G 1.67144E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=3.0103;EPPR=26.1727;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=21.6781;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=73;QR=908;RO=24;RPL=2;RPP=7.35324;RPPR=55.1256;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=4;SRP=26.1727;SRR=20;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11589A>G|p.Ser3863Ser|11589/21291|11589/21291|3863/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:24,2:24:908:2:73:0,-0.895676,-75.11 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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292 NC_045512.2 11880 . TAC TC 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D1M;DP=41;DPB=40.6667;DPRA=0;EPP=5.18177;EPPR=89.8692;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=51.0656;PAIRED=1;PAIREDR=0.975;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1520;RO=40;RPL=0;RPP=5.18177;RPPR=3.22745;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.22745;SRR=21;TYPE=del;ANN=TC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11616delA|p.Leu3872fs|11616/21291|11616/21291|3872/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1520:1:38:0,-8.54496,-133.284 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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293 NC_045512.2 11886 . C T 48.6984 . AB=0.219512;ABP=31.0276;AC=1;AF=0.5;AN=2;AO=9;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=22.5536;EPPR=72.4974;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=11.2132;PAIRED=1;PAIREDR=0.96875;PAO=0;PQA=0;PQR=0;PRO=0;QA=342;QR=1216;RO=32;RPL=9;RPP=22.5536;RPPR=7.35324;RPR=0;RUN=1;SAF=0;SAP=22.5536;SAR=9;SRF=20;SRP=7.35324;SRR=12;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11621C>T|p.Ser3874Leu|11621/21291|11621/21291|3874/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:32,9:32:1216:9:342:-18.7954,0,-97.3988 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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294 NC_045512.2 11896 . A G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=5.18177;EPPR=89.8692;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=51.0656;PAIRED=0;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1520;RO=40;RPL=0;RPP=5.18177;RPPR=3.22745;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.22745;SRR=21;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11631A>G|p.Gln3877Gln|11631/21291|11631/21291|3877/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1520:1:38:0,-8.54496,-133.284 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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295 NC_045512.2 11919 . C T 48.6984 . AB=0.219512;ABP=31.0276;AC=1;AF=0.5;AN=2;AO=9;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=22.5536;EPPR=72.4974;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=11.2132;PAIRED=1;PAIREDR=0.96875;PAO=0;PQA=0;PQR=0;PRO=0;QA=342;QR=1214;RO=32;RPL=9;RPP=22.5536;RPPR=7.35324;RPR=0;RUN=1;SAF=0;SAP=22.5536;SAR=9;SRF=20;SRP=7.35324;SRR=12;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11654C>T|p.Ser3885Phe|11654/21291|11654/21291|3885/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:41:32,9:32:1214:9:342:-18.7954,0,-97.2191 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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296 NC_045512.2 11928 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=5.18177;EPPR=89.8692;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=51.0656;PAIRED=1;PAIREDR=0.975;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1499;RO=40;RPL=1;RPP=5.18177;RPPR=3.0103;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=20;SRP=3.0103;SRR=20;TYPE=snp;ANN=A|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11663G>A|p.Trp3888*|11663/21291|11663/21291|3888/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1499:1:38:0,-8.54496,-131.397 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
297 NC_045512.2 11948 . C A 3.52281E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=5.18177;EPPR=61.9202;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.754;PAIRED=1;PAIREDR=0.967742;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1140;RO=31;RPL=1;RPP=5.18177;RPPR=14.8483;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=11.486;SRR=10;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11683C>A|p.His3895Asn|11683/21291|11683/21291|3895/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:31,1:31:1140:1:34:0,-6.23405,-99.5067 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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298 NC_045512.2 11984 . G T 3.95377E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=3.0103;EPPR=3.9754;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=36.8889;PAIRED=1;PAIREDR=0.972222;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1299;RO=36;RPL=0;RPP=7.35324;RPPR=81.1833;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.9754;SRR=16;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11719G>T|p.Ala3907Ser|11719/21291|11719/21291|3907/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:36,2:36:1299:2:76:0,-4.22433,-109.984 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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299 NC_045512.2 12244 . TGA TA 1.54744E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M1D1M;DP=40;DPB=39.3333;DPRA=0;EPP=7.35324;EPPR=8.7247;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=40.9438;PAIRED=1;PAIREDR=0.973684;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1417;RO=38;RPL=2;RPP=7.35324;RPPR=8.7247;RPR=0;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=10;SRP=21.525;SRR=28;TYPE=del;ANN=TA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11980delG|p.Asp3994fs|11980/21291|11980/21291|3994/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:38,2:38:1417:2:76:0,-4.82639,-120.603 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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300 NC_045512.2 12259 . A T 2.26316E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=5.18177;EPPR=5.3706;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.2448;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=874;RO=23;RPL=0;RPP=5.18177;RPPR=52.9542;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=9;SRP=5.3706;SRR=14;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.11994A>T|p.Gln3998His|11994/21291|11994/21291|3998/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:23,1:23:874:1:11:0,-6.12472,-77.8832 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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301 NC_045512.2 12410 . A T 1.70989E-6 . AB=0.0952381;ABP=32.8939;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=3.0103;EPPR=8.61041;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.7476;PAIRED=1;PAIREDR=0.947368;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=701;RO=19;RPL=2;RPP=7.35324;RPPR=44.2683;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=6;SRP=8.61041;SRR=13;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12145A>T|p.Ile4049Phe|12145/21291|12145/21291|4049/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:19,2:19:701:2:75:-0.798713,0,-57.0966 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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302 NC_045512.2 12419 . G T 2.15846E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=61.6401;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.3424;PAIRED=1;PAIREDR=0.962963;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=968;RO=27;RPL=0;RPP=5.18177;RPPR=3.09072;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=13;SRP=3.09072;SRR=14;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12154G>T|p.Ala4052Ser|12154/21291|12154/21291|4052/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:968:1:34:0,-5.02993,-84.0341 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
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303 NC_045512.2 12491 . G T 1.62542E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=5.18177;EPPR=46.4397;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=24.0087;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=760;RO=20;RPL=0;RPP=5.18177;RPPR=46.4397;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=46.4397;SRR=0;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12226G>T|p.Asp4076Tyr|12226/21291|12226/21291|4076/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:20,1:20:760:1:38:0,-2.52436,-64.9333 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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304 NC_045512.2 12674 . G C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=3.0103;EPPR=3.06598;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=40.8938;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1444;RO=39;RPL=2;RPP=7.35324;RPPR=87.6977;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.06598;SRR=19;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12409G>C|p.Val4137Leu|12409/21291|12409/21291|4137/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:39,2:39:1444:2:76:0,-5.12742,-123.031 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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305 NC_045512.2 12748 . T C 4.07431E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=5.18177;EPPR=65.983;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=36.1287;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1090;RO=29;RPL=0;RPP=5.18177;RPPR=12.0706;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=9;SRP=12.0706;SRR=20;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12483T>C|p.Thr4161Thr|12483/21291|12483/21291|4161/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:29,1:29:1090:1:38:0,-5.23363,-94.6098 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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306 NC_045512.2 12795 . G T 1.63938E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=51.9408;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.3995;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1092;RO=30;RPL=1;RPP=5.18177;RPPR=5.61607;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=10;SRP=10.2485;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12530G>T|p.Gly4177Val|12530/21291|12530/21291|4177/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1092:1:34:0,-5.93302,-95.187 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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307 NC_045512.2 12862 . T C 5.18713E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=5.18177;EPPR=18.6449;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=27.4565;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=23;QR=751;RO=20;RPL=0;RPP=5.18177;RPPR=13.8677;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=9;SRP=3.44459;SRR=11;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12597T>C|p.Ser4199Ser|12597/21291|12597/21291|4199/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:20,1:20:751:1:23:0,-4.02172,-65.6201 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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308 NC_045512.2 12864 . A T 2.12537E-6 . AB=0.0952381;ABP=32.8939;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=3.0103;EPPR=22.325;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.5301;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=717;RO=19;RPL=0;RPP=7.35324;RPPR=8.61041;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=9;SRP=3.12459;SRR=10;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12599A>T|p.Asp4200Val|12599/21291|12599/21291|4200/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:19,2:19:717:2:76:-0.893181,0,-58.5411 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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309 NC_045512.2 13010 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=5.18177;EPPR=34.5724;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=56.0711;PAIRED=0;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1481;RO=43;RPL=0;RPP=5.18177;RPPR=3.46479;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=25.2805;SRR=11;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12745A>C|p.Thr4249Pro|12745/21291|12745/21291|4249/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:43,1:43:1481:1:34:0,-9.84641,-130.176 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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310 NC_045512.2 13012 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=5.18177;EPPR=66.97;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=62.4981;PAIRED=1;PAIREDR=0.977273;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=1565;RO=44;RPL=0;RPP=5.18177;RPPR=12.6832;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=33;SRP=26.8965;SRR=11;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12747A>C|p.Thr4249Thr|12747/21291|12747/21291|4249/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:44,1:44:1565:1:12:0,-12.3464,-139.935 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
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311 NC_045512.2 13015 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=88.4369;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=62.2188;PAIRED=1;PAIREDR=0.957447;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1739;RO=47;RPL=0;RPP=5.18177;RPPR=23.3852;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=36;SRP=31.8863;SRR=11;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12750A>C|p.Val4250Val|12750/21291|12750/21291|4250/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1739:1:31:0,-11.35,-153.682 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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312 NC_045512.2 13022 . CAAGC CAAAGC 6.14782E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1I4M;DP=47;DPB=47.2;DPRA=0;EPP=5.18177;EPPR=102.898;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.2468;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1746;RO=46;RPL=0;RPP=5.18177;RPPR=30.2009;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=35;SRP=30.2009;SRR=11;TYPE=ins;ANN=CAAAGC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12759dupA|p.Ala4254fs|12760/21291|12760/21291|4254/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:46,1:46:1746:1:38:0,-10.3511,-153.61 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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313 NC_045512.2 13050 . C T 6.14782E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=47;DPB=47;DPRA=0;EPP=5.18177;EPPR=102.898;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.2468;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1721;RO=46;RPL=0;RPP=5.18177;RPPR=30.2009;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=35;SRP=30.2009;SRR=11;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12785C>T|p.Ala4262Val|12785/21291|12785/21291|4262/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:46,1:46:1721:1:38:0,-10.3511,-151.356 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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314 NC_045512.2 13088 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=5.18177;EPPR=8.46682;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=103.089;PAIRED=1;PAIREDR=0.961538;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2892;RO=78;RPL=1;RPP=5.18177;RPPR=96.662;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=36;SRP=4.01252;SRR=42;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12823G>T|p.Asp4275Tyr|12823/21291|12823/21291|4275/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:79:78,1:78:2892:1:38:0,-19.9841,-256.684 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
315 NC_045512.2 13090 . T A 8.10661E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.0103;EPPR=9.35551;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=92.4668;PAIRED=1;PAIREDR=0.961039;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=2841;RO=77;RPL=0;RPP=7.35324;RPPR=88.3181;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=35;SRP=4.39215;SRR=42;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12825T>A|p.Asp4275Glu|12825/21291|12825/21291|4275/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:79:77,2:77:2841:2:75:0,-16.661,-248.778 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
316 NC_045512.2 13118 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=71;DPB=71;DPRA=0;EPP=3.0103;EPPR=3.04177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=81.5914;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=2581;RO=69;RPL=0;RPP=7.35324;RPPR=152.842;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=35;SRP=3.04177;SRR=34;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12853G>T|p.Ala4285Ser|12853/21291|12853/21291|4285/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:71:69,2:69:2581:2:75:0,-14.2528,-225.389 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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317 NC_045512.2 13168 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=5.18177;EPPR=157.185;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=98.3068;PAIRED=0;PAIREDR=0.957746;PAO=0;PQA=0;PQR=0;PRO=0;QA=17;QR=2691;RO=71;RPL=0;RPP=5.18177;RPPR=3.04088;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=36;SRP=3.04088;SRR=35;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12903C>A|p.His4301Gln|12903/21291|12903/21291|4301/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2691:1:17:0,-19.9742,-240.697 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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318 NC_045512.2 13174 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=5.18177;EPPR=157.185;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=99.6883;PAIRED=0;PAIREDR=0.957746;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2694;RO=71;RPL=0;RPP=5.18177;RPPR=3.04088;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=36;SRP=3.04088;SRR=35;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12909T>G|p.Gly4303Gly|12909/21291|12909/21291|4303/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2694:1:11:0,-20.5742,-241.567 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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319 NC_045512.2 13190 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=5.18177;EPPR=157.185;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=99.6883;PAIRED=1;PAIREDR=0.943662;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2678;RO=71;RPL=1;RPP=5.18177;RPPR=3.04088;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=35;SRP=3.04088;SRR=36;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12925A>T|p.Thr4309Ser|12925/21291|12925/21291|4309/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2678:1:11:0,-20.5742,-240.128 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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320 NC_045512.2 13232 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=5.18177;EPPR=109.474;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=93.7066;PAIRED=1;PAIREDR=0.943662;PAO=0;PQA=0;PQR=0;PRO=0;QA=37;QR=2685;RO=71;RPL=1;RPP=5.18177;RPPR=8.17902;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=36;SRP=3.04088;SRR=35;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12967G>A|p.Gly4323Ser|12967/21291|12967/21291|4323/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2685:1:37:0,-17.9763,-238.162 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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321 NC_045512.2 13235 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=5.18177;EPPR=16.4979;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=95.3144;PAIRED=1;PAIREDR=0.943662;PAO=0;PQA=0;PQR=0;PRO=0;QA=30;QR=2650;RO=71;RPL=1;RPP=5.18177;RPPR=82.5596;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=36;SRP=3.04088;SRR=35;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12970G>A|p.Ala4324Thr|12970/21291|12970/21291|4324/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2650:1:30:0,-18.6746,-235.707 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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322 NC_045512.2 13238 . T A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=5.18177;EPPR=4.50892;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=99.6883;PAIRED=1;PAIREDR=0.943662;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2680;RO=71;RPL=1;RPP=5.18177;RPPR=124.399;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=35;SRP=3.04088;SRR=36;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.12973T>A|p.Ser4325Thr|12973/21291|12973/21291|4325/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2680:1:11:0,-20.5742,-240.31 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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323 NC_045512.2 13326 . CAACT CAAACT 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1I4M;DP=40;DPB=40.2;DPRA=0;EPP=5.18177;EPPR=85.5263;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.137;PAIRED=1;PAIREDR=0.947368;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1436;RO=38;RPL=0;RPP=5.18177;RPPR=69.0688;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=2;SRP=69.0688;SRR=36;TYPE=ins;ANN=CAAACT|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.13063dupA|p.Thr4355fs|13064/21291|13064/21291|4355/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:38,1:38:1436:1:38:0,-8.28774,-125.764 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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324 NC_045512.2 13384 . C G 3.19931E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=5.18177;EPPR=55.1256;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=30.2968;PAIRED=1;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=842;RO=24;RPL=1;RPP=5.18177;RPPR=26.1727;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=4;SRP=26.1727;SRR=20;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.13119C>G|p.Cys4373Trp|13119/21291|13119/21291|4373/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:24,1:24:842:1:34:0,-4.12684,-72.6983 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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325 NC_045512.2 13385 . G C 2.47418E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=5.18177;EPPR=44.2683;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=23.5885;PAIRED=1;PAIREDR=0.947368;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=674;RO=19;RPL=1;RPP=5.18177;RPPR=16.8392;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=4;SRP=16.8392;SRR=15;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|1/2|c.13120G>C|p.Gly4374Arg|13120/21291|13120/21291|4374/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:20:19,1:19:674:1:34:0,-2.62169,-57.5867 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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326 NC_045512.2 13605 . C A 7.3683E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=5.18177;EPPR=58.6;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=57.046;PAIRED=1;PAIREDR=0.975;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=1403;RO=40;RPL=0;RPP=5.18177;RPPR=34.2795;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=36;SRP=58.6;SRR=4;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13341C>A|p.Arg4447Arg|13341/21291|13341/21291|4447/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1403:1:12:0,-11.1422,-125.355 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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327 NC_045512.2 13690 . G T 1.34405E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=5.18177;EPPR=3.33068;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=85.9749;PAIRED=1;PAIREDR=0.967213;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2274;RO=61;RPL=0;RPP=5.18177;RPPR=135.47;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=3.33068;SRR=29;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13426G>T|p.Glu4476*|13426/21291|13426/21291|4476/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2274:1:11:0,-17.5639,-203.8 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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328 NC_045512.2 13724 . C T 1.34405E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=5.18177;EPPR=3.33068;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=85.9749;PAIRED=1;PAIREDR=0.967213;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2292;RO=61;RPL=0;RPP=5.18177;RPPR=135.47;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=3.33068;SRR=29;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13460C>T|p.Ala4487Val|13460/21291|13460/21291|4487/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2292:1:11:0,-17.5639,-205.418 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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329 NC_045512.2 13748 . A T 1.34405E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=5.18177;EPPR=3.0459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=85.9749;PAIRED=1;PAIREDR=0.967213;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2297;RO=61;RPL=0;RPP=5.18177;RPPR=118.668;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=3.33068;SRR=29;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13484A>T|p.Lys4495Met|13484/21291|13484/21291|4495/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2297:1:11:0,-17.5639,-205.865 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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330 NC_045512.2 13796 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=5.18177;EPPR=126.927;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=79.7642;PAIRED=1;PAIREDR=0.967213;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2317;RO=61;RPL=1;RPP=5.18177;RPPR=3.90025;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=3.33068;SRR=29;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13532T>C|p.Leu4511Pro|13532/21291|13532/21291|4511/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2317:1:38:0,-14.8666,-204.963 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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331 NC_045512.2 13835 . G A 3.76714E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=5.18177;EPPR=3.90025;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=80.2224;PAIRED=1;PAIREDR=0.967213;PAO=0;PQA=0;PQR=0;PRO=0;QA=36;QR=2306;RO=61;RPL=1;RPP=5.18177;RPPR=135.47;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=33;SRP=3.90025;SRR=28;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13571G>A|p.Arg4524Lys|13571/21291|13571/21291|4524/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:62:61,1:61:2306:1:36:0,-15.0656,-204.175 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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332 NC_045512.2 13932 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=83.3548;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.5097;PAIRED=1;PAIREDR=0.945946;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1404;RO=37;RPL=1;RPP=5.18177;RPPR=24.1968;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=9;SRP=24.1968;SRR=28;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13668T>G|p.Asp4556Glu|13668/21291|13668/21291|4556/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1404:1:27:0,-8.73936,-123.949 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
333 NC_045512.2 13971 . CTTAG CTAG,CTTG 3.76391E-14 . AB=0,0;ABP=0,0;AC=0,0;AF=0,0;AN=2;AO=2,1;CIGAR=1M1D3M,3M1D1M;DP=38;DPB=37.4;DPRA=0,0;EPP=7.35324,5.18177;EPPR=70.5741;GTI=0;LEN=1,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=37.8173;PAIRED=0.5,1;PAIREDR=0.971429;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76,38;QR=1299;RO=35;RPL=2,1;RPP=7.35324,5.18177;RPPR=16.9698;RPR=0,0;RUN=1,1;SAF=0,0;SAP=7.35324,5.18177;SAR=2,1;SRF=9;SRP=20.9405;SRR=26;TYPE=del,del;ANN=CTAG|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13709delT|p.Leu4570fs|13709/21291|13709/21291|4570/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:35,2,1:35:1299:2,1:76,38:0,-4.30303,-109.993,-7.41954,-107.478,-113.411 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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334 NC_045512.2 13983 . T G 3.56286E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=5.18177;EPPR=31.7504;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=20.9213;PAIRED=1;PAIREDR=0.882353;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=616;RO=17;RPL=1;RPP=5.18177;RPPR=4.1599;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=9;SRP=3.13803;SRR=8;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13719T>G|p.Arg4573Arg|13719/21291|13719/21291|4573/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:18:17,1:17:616:1:34:0,-2.01963,-52.3727 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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335 NC_045512.2 14038 . G A 3.36415E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=5.18177;EPPR=3.44459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=30.2194;PAIRED=1;PAIREDR=0.95;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=732;RO=20;RPL=0;RPP=5.18177;RPPR=46.4397;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=9;SRP=3.44459;SRR=11;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13774G>A|p.Gly4592Ser|13774/21291|13774/21291|4592/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:20,1:20:732:1:11:0,-5.22163,-65.104 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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336 NC_045512.2 14176 . A G 2.12537E-6 . AB=0.0952381;ABP=32.8939;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=3.0103;EPPR=4.03889;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.5301;PAIRED=1;PAIREDR=0.947368;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=710;RO=19;RPL=2;RPP=7.35324;RPPR=44.2683;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=8;SRP=4.03889;SRR=11;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.13912A>G|p.Thr4638Ala|13912/21291|13912/21291|4638/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:21:19,2:19:710:2:76:-0.893181,0,-57.9105 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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337 NC_045512.2 14269 . G A 2.90829E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=81.1833;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.623;PAIRED=1;PAIREDR=0.944444;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1368;RO=36;RPL=1;RPP=5.18177;RPPR=18.4519;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=26;SRP=18.4519;SRR=10;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14005G>A|p.Glu4669Lys|14005/21291|14005/21291|4669/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1368:1:38:0,-7.34084,-119.614 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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338 NC_045512.2 14290 . G T 6.2985E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=74.9036;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.9827;PAIRED=1;PAIREDR=0.945946;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1383;RO=37;RPL=1;RPP=5.18177;RPPR=19.9713;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=26;SRP=16.2152;SRR=11;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14026G>T|p.Asp4676Tyr|14026/21291|14026/21291|4676/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1383:1:38:0,-7.64187,-120.964 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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339 NC_045512.2 14327 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=3.0103;EPPR=3.19126;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.9691;PAIRED=1;PAIREDR=0.9375;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1782;RO=48;RPL=0;RPP=7.35324;RPPR=107.241;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=25;SRP=3.19126;SRR=23;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14063C>T|p.Pro4688Leu|14063/21291|14063/21291|4688/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:48,2:48:1782:2:76:0,-7.83669,-153.432 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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340 NC_045512.2 14407 . CCTACAAGT CT,CTTACAAGT 1314.95 . AB=0.28,0.72;ABP=24.0302,24.0302;AC=1,1;AF=0.5,0.5;AN=2;AO=14,36;CIGAR=1M7D1M,1M1X7M;DP=50;DPB=39.1111;DPRA=0,0;EPP=33.4109,81.1833;EPPR=0;GTI=0;LEN=7,1;MEANALT=2,2;MQM=60,60;MQMR=0;NS=1;NUMALT=2;ODDS=48.6802;PAIRED=0.928571,0.944444;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=518,1367;QR=0;RO=0;RPL=8,18;RPP=3.63072,3.0103;RPPR=0;RPR=6,18;RUN=1,1;SAF=8,18;SAP=3.63072,3.0103;SAR=6,18;SRF=0;SRP=0;SRR=0;TYPE=del,snp;ANN=CT|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14144_14150delCTACAAG|p.Pro4715fs|14144/21291|14144/21291|4715/7096|| GT:DP:AD:RO:QR:AO:QA:GL 1/2:50:0,14,36:0:0:14,36:518,1367:-154.858,-112.484,-108.27,-42.7461,0,-31.9091 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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341 NC_045512.2 14435 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=7.35324;EPPR=107.241;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.9691;PAIRED=1;PAIREDR=0.9375;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1765;RO=48;RPL=1;RPP=3.0103;RPPR=3.19126;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=25;SRP=3.19126;SRR=23;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14171A>T|p.Lys4724Ile|14171/21291|14171/21291|4724/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:48,2:48:1765:2:76:0,-7.83669,-151.894 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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342 NC_045512.2 14442 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=7.35324;EPPR=90.593;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.9691;PAIRED=1;PAIREDR=0.9375;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1805;RO=48;RPL=1;RPP=3.0103;RPPR=4.6389;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=25;SRP=3.19126;SRR=23;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14178T>C|p.Phe4726Phe|14178/21291|14178/21291|4726/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:48,2:48:1805:2:76:0,-7.83669,-155.498 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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343 NC_045512.2 14450 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=5.18177;EPPR=19.0083;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=69.7847;PAIRED=1;PAIREDR=0.938776;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1849;RO=49;RPL=1;RPP=5.18177;RPPR=45.5977;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=3.05462;SRR=24;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14186G>T|p.Gly4729Val|14186/21291|14186/21291|4729/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:49,1:49:1849:1:10:0,-14.0515,-165.672 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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344 NC_045512.2 14531 . C A 3.80608E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=5.18177;EPPR=52.9542;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.2448;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=872;RO=23;RPL=1;RPP=5.18177;RPPR=52.9542;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=52.9542;SRR=23;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14267C>A|p.Ser4756Tyr|14267/21291|14267/21291|4756/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:23,1:23:872:1:11:0,-6.12472,-77.7033 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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345 NC_045512.2 14549 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=83.3548;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.9631;PAIRED=1;PAIREDR=0.972973;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=1354;RO=37;RPL=0;RPP=5.18177;RPPR=10.1116;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=13;SRP=10.1116;SRR=24;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14285A>C|p.Glu4762Ala|14285/21291|14285/21291|4762/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1354:1:12:0,-10.2391,-120.954 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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346 NC_045512.2 14550 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=5.18177;EPPR=85.5263;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=50.87;PAIRED=1;PAIREDR=0.973684;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1385;RO=38;RPL=0;RPP=5.18177;RPPR=8.7247;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=14;SRP=8.7247;SRR=24;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14286A>C|p.Glu4762Asp|14286/21291|14286/21291|4762/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1385:1:27:0,-9.04039,-122.243 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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347 NC_045512.2 14553 . A C 1.30189E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=5.18177;EPPR=98.5551;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.0447;PAIRED=1;PAIREDR=0.977273;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1634;RO=44;RPL=0;RPP=5.18177;RPPR=3.79993;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.79993;SRR=24;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14289A>C|p.Leu4763Phe|14289/21291|14289/21291|4763/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:44,1:44:1634:1:27:0,-10.8466,-144.637 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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348 NC_045512.2 14594 . GTA GA 8.14122E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D1M;DP=40;DPB=39.6667;DPRA=0;EPP=5.18177;EPPR=87.6977;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=50.6212;PAIRED=1;PAIREDR=0.974359;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1445;RO=39;RPL=1;RPP=5.18177;RPPR=4.40227;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=22;SRP=4.40227;SRR=17;TYPE=del;ANN=GA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14331delT|p.Asn4778fs|14331/21291|14331/21291|4777/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1445:1:34:0,-8.64229,-126.939 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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349 NC_045512.2 14598 . T G 1.37871E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=79.0118;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.8709;PAIRED=1;PAIREDR=0.971429;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1275;RO=35;RPL=1;RPP=5.18177;RPPR=8.03571;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=22;SRP=8.03571;SRR=13;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14334T>G|p.Asn4778Lys|14334/21291|14334/21291|4778/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1275:1:31:0,-7.73763,-111.948 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
350 NC_045512.2 14667 . T G 1.65791E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=3.0103;EPPR=3.0608;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.2506;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1615;RO=43;RPL=0;RPP=7.35324;RPPR=96.3836;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=21;SRP=3.0608;SRR=22;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14403T>G|p.Thr4801Thr|14403/21291|14403/21291|4801/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:43,2:43:1615:2:76:0,-6.33154,-138.413 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
351 NC_045512.2 14672 . AACCC GACCT,AACCT 443.765 . AB=0.0444444,0.444444;ABP=84.1269,4.21667;AC=0,1;AF=0,0.5;AN=2;AO=2,20;CIGAR=1X3M1X,4M1X;DP=45;DPB=45;DPRA=0,0;EPP=3.0103,3.0103;EPPR=3.10471;GTI=0;LEN=5,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=102.181;PAIRED=1,1;PAIREDR=1;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=76,754;QR=858;RO=23;RPL=0,0;RPP=7.35324,46.4397;RPPR=52.9542;RPR=2,20;RUN=1,1;SAF=1,10;SAP=3.0103,3.0103;SAR=1,10;SRF=11;SRP=3.10471;SRR=12;TYPE=complex,snp;ANN=GACCT|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14408_14412delAACCCinsGACCT|p.Lys4803Arg|14408/21291|14408/21291|4803/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/2:45:23,2,20:23:858:2,20:76,754:-54.8669,-55.5573,-125.2,0,-64.0069,-64.2199 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
352 NC_045512.2 14694 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=5.18177;EPPR=3.20771;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.3544;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=30;QR=1654;RO=44;RPL=0;RPP=5.18177;RPPR=98.5551;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=21;SRP=3.20771;SRR=23;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14430C>T|p.Asp4810Asp|14430/21291|14430/21291|4810/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:44,1:44:1654:1:30:0,-10.5468,-146.133 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
353 NC_045512.2 14708 . C A 1.65791E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=7.35324;EPPR=96.3836;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.2506;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1631;RO=43;RPL=1;RPP=3.0103;RPPR=3.0608;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=21;SRP=3.0608;SRR=22;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14444C>A|p.Ala4815Asp|14444/21291|14444/21291|4815/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:43,2:43:1631:2:76:0,-6.33154,-139.85 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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354 NC_045512.2 14794 . G A 1.65791E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=3.0103;EPPR=3.0608;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.2506;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1619;RO=43;RPL=2;RPP=7.35324;RPPR=96.3836;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=21;SRP=3.0608;SRR=22;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14530G>A|p.Asp4844Asn|14530/21291|14530/21291|4844/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:43,2:43:1619:2:76:0,-6.33154,-138.77 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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355 NC_045512.2 14902 . ATTAA ATAA 1.31392E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D3M;DP=40;DPB=39.8;DPRA=0;EPP=5.18177;EPPR=79.2345;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.704;PAIRED=1;PAIREDR=0.974359;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1474;RO=39;RPL=1;RPP=5.18177;RPPR=4.40227;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=5.73856;SRR=23;TYPE=del;ANN=ATAA|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14640delT|p.Asn4881fs|14640/21291|14640/21291|4880/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1474:1:38:0,-8.24393,-129.148 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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356 NC_045512.2 14924 . T G 1.49624E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=5.18177;EPPR=61.9202;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=41.3638;PAIRED=1;PAIREDR=0.967742;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1110;RO=31;RPL=1;RPP=5.18177;RPPR=3.64073;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=3.08035;SRR=15;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14660T>G|p.Val4887Gly|14660/21291|14660/21291|4887/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:31,1:31:1110:1:27:0,-6.93318,-97.5053 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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357 NC_045512.2 14978 . G T 3.63991E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=3.0103;EPPR=3.08518;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=27.8156;PAIRED=1;PAIREDR=0.965517;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1087;RO=29;RPL=0;RPP=7.35324;RPPR=65.983;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=15;SRP=3.08518;SRR=14;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14714G>T|p.Arg4905Ile|14714/21291|14714/21291|4905/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:29,2:29:1087:2:75:0,-2.21159,-91.0197 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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358 NC_045512.2 14990 . A T 1.00355E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=3.0103;EPPR=3.08518;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.6172;PAIRED=1;PAIREDR=0.965517;PAO=0;PQA=0;PQR=0;PRO=0;QA=21;QR=1082;RO=29;RPL=0;RPP=7.35324;RPPR=65.983;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=15;SRP=3.08518;SRR=14;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14726A>T|p.Asp4909Val|14726/21291|14726/21291|4909/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:29,2:29:1082:2:21:0,-7.33694,-95.6944 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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359 NC_045512.2 15096 . T A 2.34019E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=26.4622;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=43.6929;PAIRED=1;PAIREDR=0.966667;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1132;RO=30;RPL=1;RPP=5.18177;RPPR=17.1973;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=3.29983;SRR=14;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14832T>A|p.Asn4944Lys|14832/21291|14832/21291|4944/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1132:1:11:0,-8.23193,-101.087 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
360 NC_045512.2 15173 . C T 7.79043E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=33;DPB=33;DPRA=0;EPP=5.18177;EPPR=64.083;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=41.1095;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1139;RO=32;RPL=0;RPP=5.18177;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=3.28173;SRR=15;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14909C>T|p.Ser4970Leu|14909/21291|14909/21291|4970/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:33:32,1:32:1139:1:34:0,-6.53508,-99.4146 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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361 NC_045512.2 15174 . A C 5.56019E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=34;DPB=34;DPRA=0;EPP=7.35324;EPPR=72.4974;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=41.0378;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=39;QR=1124;RO=32;RPL=0;RPP=7.35324;RPPR=3.28173;RPR=2;RUN=1;SAF=2;SAP=7.35324;SAR=0;SRF=17;SRP=3.28173;SRR=15;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14910A>C|p.Ser4970Ser|14910/21291|14910/21291|4970/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:34:32,2:32:1124:2:39:0,-6.53023,-97.7544 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
362 NC_045512.2 15175 . A C 9.77912E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=5.18177;EPPR=76.8404;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.4331;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1213;RO=34;RPL=0;RPP=5.18177;RPPR=4.03217;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=4.03217;SRR=15;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14911A>C|p.Ile4971Leu|14911/21291|14911/21291|4971/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1213:1:27:0,-7.83627,-106.772 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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363 NC_045512.2 15245 . T G 1.11955E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=34;DPB=34;DPRA=0;EPP=5.18177;EPPR=66.2462;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=42.466;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1219;RO=33;RPL=1;RPP=5.18177;RPPR=22.0271;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=24;SRP=17.8158;SRR=9;TYPE=snp;ANN=G|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.14981T>G|p.Leu4994*|14981/21291|14981/21291|4994/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:34:33,1:33:1219:1:34:0,-6.83611,-106.612 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
364 NC_045512.2 15269 . A C 9.53827E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=5.18177;EPPR=3.79993;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.8073;PAIRED=1;PAIREDR=0.977273;PAO=0;PQA=0;PQR=0;PRO=0;QA=15;QR=1589;RO=44;RPL=0;RPP=5.18177;RPPR=98.5551;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=24;SRP=3.79993;SRR=20;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15005A>C|p.Glu5002Ala|15005/21291|15005/21291|5002/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:44,1:44:1589:1:15:0,-12.0464,-141.784 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
365 NC_045512.2 15279 . C T 422.797 . AB=0.434783;ABP=4.70971;AC=1;AF=0.5;AN=2;AO=20;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=3.44459;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=97.3526;PAIRED=1;PAIREDR=0.961538;PAO=0;PQA=0;PQR=0;PRO=0;QA=739;QR=958;RO=26;RPL=0;RPP=46.4397;RPPR=59.4686;RPR=20;RUN=1;SAF=11;SAP=3.44459;SAR=9;SRF=13;SRP=3.0103;SRR=13;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15015C>T|p.His5005His|15015/21291|15015/21291|5005/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:26,20:26:958:20:739:-52.9896,0,-72.6862 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
366 NC_045512.2 15334 . A G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=7.35324;EPPR=98.5551;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=47.8099;PAIRED=1;PAIREDR=0.977273;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1626;RO=44;RPL=1;RPP=3.0103;RPPR=3.20771;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=23;SRP=3.20771;SRR=21;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15070A>G|p.Ile5024Val|15070/21291|15070/21291|5024/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:44,2:44:1626:2:75:0,-6.72704,-139.49 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
367 NC_045512.2 15355 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=92.2337;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.0927;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1679;RO=45;RPL=1;RPP=5.18177;RPPR=3.44459;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=23;SRP=3.05855;SRR=22;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15091G>T|p.Ala5031Ser|15091/21291|15091/21291|5031/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1679:1:11:0,-12.7474,-150.281 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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368 NC_045512.2 15374 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=92.2337;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.0927;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1657;RO=45;RPL=1;RPP=5.18177;RPPR=3.44459;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=23;SRP=3.05855;SRR=22;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15110G>T|p.Cys5037Phe|15110/21291|15110/21291|5037/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1657:1:11:0,-12.7474,-148.296 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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369 NC_045512.2 15401 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=92.2337;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.3229;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1669;RO=45;RPL=1;RPP=5.18177;RPPR=3.44459;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=23;SRP=3.05855;SRR=22;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15137G>T|p.Arg5046Ile|15137/21291|15137/21291|5046/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1669:1:10:0,-12.8474,-149.48 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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370 NC_045512.2 15406 . G T 1.41529E-12 . AB=0.0869565;ABP=71.1757;AC=1;AF=0.5;AN=2;AO=4;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=11.6962;EPPR=55.9529;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=28.7552;PAIRED=1;PAIREDR=0.97619;PAO=0;PQA=0;PQR=0;PRO=0;QA=152;QR=1534;RO=42;RPL=2;RPP=3.0103;RPPR=10.4553;RPR=2;RUN=1;SAF=2;SAP=3.0103;SAR=2;SRF=22;SRP=3.21711;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15142G>T|p.Ala5048Ser|15142/21291|15142/21291|5048/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:46:42,4:42:1534:4:152:-0.202515,0,-124.49 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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371 NC_045512.2 15412 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=3.44459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.7188;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=30;QR=1679;RO=45;RPL=1;RPP=5.18177;RPPR=100.727;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=24;SRP=3.44459;SRR=21;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15148G>A|p.Glu5050Lys|15148/21291|15148/21291|5050/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1679:1:30:0,-10.8478,-148.381 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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372 NC_045512.2 15414 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=3.05855;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.0927;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1674;RO=45;RPL=1;RPP=5.18177;RPPR=100.727;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=23;SRP=3.05855;SRR=22;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15150G>T|p.Glu5050Asp|15150/21291|15150/21291|5050/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1674:1:11:0,-12.7474,-149.833 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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373 NC_045512.2 15432 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=3.05855;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.5532;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1663;RO=45;RPL=1;RPP=5.18177;RPPR=100.727;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=23;SRP=3.05855;SRR=22;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15168T>G|p.Ser5056Arg|15168/21291|15168/21291|5056/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1663:1:9:0,-12.9474,-149.045 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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374 NC_045512.2 15461 . A T 1.51432E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=3.05855;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.7834;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1605;RO=45;RPL=1;RPP=5.18177;RPPR=100.727;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=23;SRP=3.05855;SRR=22;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15197A>T|p.Tyr5066Phe|15197/21291|15197/21291|5066/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1605:1:8:0,-13.0474,-143.921 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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375 NC_045512.2 15463 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=3.05855;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.3229;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1602;RO=45;RPL=1;RPP=5.18177;RPPR=100.727;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=23;SRP=3.05855;SRR=22;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15199G>T|p.Val5067Phe|15199/21291|15199/21291|5067/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1602:1:10:0,-12.8474,-143.45 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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376 NC_045512.2 15539 . TCAC TC,TCCC 0.0 . AB=0,0;ABP=0,0;AC=0,0;AF=0,0;AN=2;AO=1,1;CIGAR=1M2D1M,2M1X1M;DP=56;DPB=55.5;DPRA=0,0;EPP=5.18177,5.18177;EPPR=120.27;GTI=0;LEN=2,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=70.8934;PAIRED=1,1;PAIREDR=0.962963;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38,24;QR=2029;RO=54;RPL=0,0;RPP=5.18177,5.18177;RPPR=8.80089;RPR=1,1;RUN=1,1;SAF=1,1;SAP=5.18177,5.18177;SAR=0,0;SRF=33;SRP=8.80089;SRR=21;TYPE=del,snp;ANN=TC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15277_15278delAC|p.Thr5093fs|15277/21291|15277/21291|5093/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:56:54,1,1:54:2029:1,1:38,24:0,-13.0692,-179.13,-14.4666,-177.574,-180.39 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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377 NC_045512.2 15552 . TAATG TATG,TAATC 0.0 . AB=0,0;ABP=0,0;AC=0,0;AF=0,0;AN=2;AO=1,1;CIGAR=1M1D3M,4M1X;DP=53;DPB=52.8;DPRA=0,0;EPP=5.18177,5.18177;EPPR=113.755;GTI=0;LEN=1,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=66.9515;PAIRED=1,1;PAIREDR=0.960784;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=38,38;QR=1894;RO=51;RPL=1,0;RPP=5.18177,5.18177;RPPR=21.7871;RPR=0,1;RUN=1,1;SAF=0,1;SAP=5.18177,5.18177;SAR=1,0;SRF=36;SRP=21.7871;SRR=15;TYPE=del,snp;ANN=TATG|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15290delA|p.Asn5097fs|15290/21291|15290/21291|5097/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:53:51,1,1:51:1894:1,1:38,38:0,-12.236,-166.927,-12.236,-164.111,-166.927 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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378 NC_045512.2 15593 . A T 1.72677E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=5.18177;EPPR=3.12768;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=98.0539;PAIRED=1;PAIREDR=0.972973;PAO=0;PQA=0;PQR=0;PRO=0;QA=36;QR=2752;RO=74;RPL=0;RPP=5.18177;RPPR=163.699;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=36;SRP=3.12768;SRR=38;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15329A>T|p.Lys5110Met|15329/21291|15329/21291|5110/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:75:74,1:74:2752:1:36:0,-18.979,-244.296 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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379 NC_045512.2 15597 . T G 6.31357E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=5.18177;EPPR=3.12459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=107.474;PAIRED=0;PAIREDR=0.973684;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=2761;RO=76;RPL=0;RPP=5.18177;RPPR=168.042;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=37;SRP=3.12459;SRR=39;TYPE=snp;ANN=G|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15333T>G|p.Tyr5111*|15333/21291|15333/21291|5111/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:76,1:76:2761:1:7:0,-22.4793,-248.003 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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380 NC_045512.2 15600 . C A 1.93471E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=3;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=3.73412;EPPR=3.12768;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=84.8607;PAIRED=1;PAIREDR=0.959459;PAO=0;PQA=0;PQR=0;PRO=0;QA=90;QR=2662;RO=74;RPL=0;RPP=9.52472;RPPR=163.699;RPR=3;RUN=1;SAF=1;SAP=3.73412;SAR=2;SRF=36;SRP=3.12768;SRR=38;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15336C>A|p.Val5112Val|15336/21291|15336/21291|5112/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:74,3:74:2662:3:90:0,-14.7844,-231.406 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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381 NC_045512.2 15645 . A G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=5.18177;EPPR=122.159;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=101.944;PAIRED=0;PAIREDR=0.974026;PAO=0;PQA=0;PQR=0;PRO=0;QA=37;QR=2850;RO=77;RPL=1;RPP=5.18177;RPPR=11.1604;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=36;SRP=3.71532;SRR=41;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15381A>G|p.Arg5127Arg|15381/21291|15381/21291|5127/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:77,1:77:2850:1:37:0,-19.7825,-252.999 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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382 NC_045512.2 15736 . T G 6.31357E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=5.18177;EPPR=6.42261;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=107.926;PAIRED=1;PAIREDR=0.961039;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2875;RO=77;RPL=0;RPP=5.18177;RPPR=114.94;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=37;SRP=3.26411;SRR=40;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15472T>G|p.Phe5158Val|15472/21291|15472/21291|5158/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:77,1:77:2875:1:11:0,-22.3803,-257.85 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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383 NC_045512.2 15737 . T G 1.34102E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=5.18177;EPPR=3.0385;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=107.235;PAIRED=1;PAIREDR=0.961039;PAO=0;PQA=0;PQR=0;PRO=0;QA=14;QR=2864;RO=77;RPL=1;RPP=5.18177;RPPR=145.171;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=36;SRP=3.71532;SRR=41;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15473T>G|p.Phe5158Cys|15473/21291|15473/21291|5158/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:77,1:77:2864:1:14:0,-22.0803,-256.563 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
384 NC_045512.2 15741 . T A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=3.0103;EPPR=3.12459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=95.0347;PAIRED=1;PAIREDR=0.960526;PAO=0;PQA=0;PQR=0;PRO=0;QA=57;QR=2837;RO=76;RPL=2;RPP=7.35324;RPPR=159.471;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=36;SRP=3.46745;SRR=40;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15477T>A|p.Asn5159Lys|15477/21291|15477/21291|5159/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:78:76,2:76:2837:2:57:0,-18.0661,-250.12 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
385 NC_045512.2 15768 . G T 2.90829E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=5.18177;EPPR=3.46745;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=106.553;PAIRED=1;PAIREDR=0.960526;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2773;RO=76;RPL=1;RPP=5.18177;RPPR=168.042;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=36;SRP=3.46745;SRR=40;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15504G>T|p.Val5168Val|15504/21291|15504/21291|5168/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:76,1:76:2773:1:11:0,-22.0793,-248.675 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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386 NC_045512.2 15770 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=5.18177;EPPR=4.03889;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=106.783;PAIRED=0;PAIREDR=0.973684;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=2765;RO=76;RPL=1;RPP=5.18177;RPPR=168.042;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=35;SRP=4.03889;SRR=41;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15506C>T|p.Ala5169Val|15506/21291|15506/21291|5169/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:77:76,1:76:2765:1:10:0,-22.1793,-248.061 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
387 NC_045512.2 15873 . ATTTTGC ATTTGC 9.4175E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D5M;DP=57;DPB=56.8571;DPRA=0;EPP=5.18177;EPPR=124.613;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=72.9168;PAIRED=1;PAIREDR=0.892857;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2088;RO=56;RPL=1;RPP=5.18177;RPPR=25.3454;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=25.3454;SRR=40;TYPE=del;ANN=ATTTGC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15613delT|p.Cys5205fs|15613/21291|15613/21291|5205/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:56,1:56:2088:1:38:0,-13.3614,-184.374 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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388 NC_045512.2 15885 . A C 4.21917E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=5.18177;EPPR=89.8692;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=51.9828;PAIRED=1;PAIREDR=0.85;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1424;RO=40;RPL=1;RPP=5.18177;RPPR=6.48466;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=6.48466;SRR=24;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15621A>C|p.Gln5207His|15621/21291|15621/21291|5207/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:41:40,1:40:1424:1:34:0,-8.94332,-125.054 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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389 NC_045512.2 15976 . G T 2.08611E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=3.73412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.6358;PAIRED=0;PAIREDR=0.888889;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1026;RO=27;RPL=0;RPP=5.18177;RPPR=61.6401;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=3.73412;SRR=12;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15712G>T|p.Asp5238Tyr|15712/21291|15712/21291|5238/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:1026:1:11:0,-7.32884,-91.5534 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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390 NC_045512.2 15995 . G T 2.08611E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=61.6401;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.6358;PAIRED=0;PAIREDR=0.888889;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1024;RO=27;RPL=1;RPP=5.18177;RPPR=3.73412;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=3.73412;SRR=12;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15731G>T|p.Gly5244Val|15731/21291|15731/21291|5244/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:1024:1:11:0,-7.32884,-91.3736 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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391 NC_045512.2 16061 . A G 2.15846E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=5.02092;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.3424;PAIRED=1;PAIREDR=0.851852;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1013;RO=27;RPL=1;RPP=5.18177;RPPR=61.6401;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=5.02092;SRR=11;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15797A>G|p.Asn5266Ser|15797/21291|15797/21291|5266/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:1013:1:34:0,-5.02993,-88.0831 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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392 NC_045512.2 16078 . GTCTTTCA TTTTTTAC 9.28165E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X1M1X3M2X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=3.73412;GTI=0;LEN=8;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.4056;PAIRED=0;PAIREDR=0.888889;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=1005;RO=27;RPL=1;RPP=5.18177;RPPR=61.6401;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=3.73412;SRR=12;TYPE=complex;ANN=TTTTTTAC|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15814_15821delGTCTTTCAinsTTTTTTAC|p.ValPheHis5272PhePheThr|15814/21291|15814/21291|5272/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:1005:1:12:0,-7.22885,-89.5643 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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393 NC_045512.2 16158 . G T 7.48846E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=5.18177;EPPR=55.1256;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=29.3796;PAIRED=1;PAIREDR=0.958333;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=909;RO=24;RPL=0;RPP=5.18177;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=12;SRP=3.0103;SRR=12;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15894G>T|p.Met5298Ile|15894/21291|15894/21291|5298/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:24,1:24:909:1:38:0,-3.72848,-78.3336 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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394 NC_045512.2 16176 . T C 259.683 . AB=0.48;ABP=3.09716;AC=1;AF=0.5;AN=2;AO=12;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=29.068;EPPR=31.2394;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.7942;PAIRED=0.916667;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=454;QR=494;RO=13;RPL=6;RPP=3.0103;RPPR=3.17734;RPR=6;RUN=1;SAF=6;SAP=3.0103;SAR=6;SRF=7;SRP=3.17734;SRR=6;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15912T>C|p.Thr5304Thr|15912/21291|15912/21291|5304/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:13,12:13:494:12:454:-33.6837,0,-37.282 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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395 NC_045512.2 16217 . C A 1.06229E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=5.18177;EPPR=3.86001;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=35.1658;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=811;RO=23;RPL=0;RPP=5.18177;RPPR=52.9542;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=13;SRP=3.86001;SRR=10;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.15953C>A|p.Thr5318Lys|15953/21291|15953/21291|5318/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:23,1:23:811:1:7:0,-6.52472,-72.5979 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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396 NC_045512.2 16421 . A C 2.49957E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=5.18177;EPPR=44.6459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=30.5611;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=814;RO=23;RPL=0;RPP=5.18177;RPPR=3.10471;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=12;SRP=3.10471;SRR=11;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16157A>C|p.Gln5386Pro|16157/21291|16157/21291|5386/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:23,1:23:814:1:27:0,-4.52494,-70.8769 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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397 NC_045512.2 16479 . T C 1.32901E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=51.9408;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.4822;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1110;RO=30;RPL=0;RPP=5.18177;RPPR=7.64277;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=4.16842;SRR=13;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16215T>C|p.Phe5405Phe|16215/21291|16215/21291|5405/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1110:1:38:0,-5.53466,-96.4027 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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398 NC_045512.2 16493 . A T 2.41553E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=51.9408;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=43.6929;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1137;RO=30;RPL=0;RPP=5.18177;RPPR=7.64277;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=4.16842;SRR=13;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16229A>T|p.Asn5410Ile|16229/21291|16229/21291|5410/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1137:1:11:0,-8.23193,-101.536 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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399 NC_045512.2 16508 . G T 3.36083E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=27;DPB=27;DPRA=0;EPP=5.18177;EPPR=43.4331;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.9924;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=965;RO=26;RPL=1;RPP=5.18177;RPPR=24.391;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=15.0369;SRR=7;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16244G>T|p.Gly5415Val|16244/21291|16244/21291|5415/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:26,1:26:965:1:34:0,-4.7289,-83.7669 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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400 NC_045512.2 16536 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=3.06899;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.0421;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=16;QR=1355;RO=37;RPL=0;RPP=5.18177;RPPR=83.3548;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.06899;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16272C>A|p.Ser5424Arg|16272/21291|16272/21291|5424/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1355:1:16:0,-9.83916,-120.64 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
401 NC_045512.2 16596 . C A 6.99161E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=5.18177;EPPR=77.0689;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.784;PAIRED=0;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1440;RO=38;RPL=0;RPP=5.18177;RPPR=3.23888;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.0103;SRR=19;TYPE=snp;ANN=A|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16332C>A|p.Tyr5444*|16332/21291|16332/21291|5444/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1440:1:10:0,-10.7402,-128.887 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
402 NC_045512.2 16603 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=5.18177;EPPR=69.0688;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.5537;PAIRED=1;PAIREDR=0.973684;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1412;RO=38;RPL=1;RPP=5.18177;RPPR=3.23888;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=3.23888;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16339G>T|p.Ala5447Ser|16339/21291|16339/21291|5447/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1412:1:11:0,-10.6402,-126.264 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
403 NC_045512.2 16630 . C A 4.29279E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=7.35324;EPPR=59.4099;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.2225;PAIRED=1;PAIREDR=0.972973;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1367;RO=37;RPL=1;RPP=3.0103;RPPR=3.06899;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=18;SRP=3.06899;SRR=19;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16366C>A|p.Leu5456Ile|16366/21291|16366/21291|5456/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:37,2:37:1367:2:76:0,-4.52536,-116.103 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
404 NC_045512.2 16663 . G T 4.29279E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=7.35324;EPPR=59.4099;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.2225;PAIRED=1;PAIREDR=0.972973;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1327;RO=37;RPL=1;RPP=3.0103;RPPR=4.47751;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=18;SRP=3.06899;SRR=19;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16399G>T|p.Glu5467*|16399/21291|16399/21291|5467/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:37,2:37:1327:2:76:0,-4.52536,-112.495 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
405 NC_045512.2 16700 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=5.18177;EPPR=3.23888;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.784;PAIRED=1;PAIREDR=0.973684;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1396;RO=38;RPL=1;RPP=5.18177;RPPR=85.5263;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=3.23888;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16436G>T|p.Arg5479Leu|16436/21291|16436/21291|5479/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1396:1:10:0,-10.7402,-124.93 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
406 NC_045512.2 16710 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=5.18177;EPPR=3.23888;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=55.0142;PAIRED=1;PAIREDR=0.973684;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1369;RO=38;RPL=1;RPP=5.18177;RPPR=85.5263;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=3.23888;SRR=20;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16446G>T|p.Leu5482Leu|16446/21291|16446/21291|5482/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1369:1:9:0,-10.8402,-122.596 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
407 NC_045512.2 16718 . G T 1.50154E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=27;DPB=27;DPRA=0;EPP=5.18177;EPPR=19.3799;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.7464;PAIRED=1;PAIREDR=0.961538;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=970;RO=26;RPL=1;RPP=5.18177;RPPR=59.4686;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=6;SRP=19.3799;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16454G>T|p.Arg5485Ile|16454/21291|16454/21291|5485/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:26,1:26:970:1:9:0,-7.22781,-86.7148 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
408 NC_045512.2 16751 . C A 3.1823E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=59.7581;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.3995;PAIRED=1;PAIREDR=0.966667;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1095;RO=30;RPL=0;RPP=5.18177;RPPR=13.4334;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=10;SRP=10.2485;SRR=20;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16487C>A|p.Pro5496His|16487/21291|16487/21291|5496/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1095:1:34:0,-5.93302,-95.4585 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
409 NC_045512.2 16985 . C A 1.35112E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=7.35324;EPPR=63.8115;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=26.496;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1060;RO=28;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=14;SRP=3.0103;SRR=14;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16721C>A|p.Thr5574Asn|16721/21291|16721/21291|5574/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:28,2:28:1060:2:75:0,-1.91056,-88.5912 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
410 NC_045512.2 17078 . AGGGAC AGGGGAC 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1I5M;DP=42;DPB=42.1667;DPRA=0;EPP=5.18177;EPPR=92.0407;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.4278;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1552;RO=41;RPL=0;RPP=5.18177;RPPR=9.41879;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=26;SRP=9.41879;SRR=15;TYPE=ins;ANN=AGGGGAC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16817dupG|p.Pro5607fs|16818/21291|16818/21291|5606/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1552:1:38:0,-8.84599,-136.163 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
411 NC_045512.2 17103 . T A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=92.0407;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.4278;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1556;RO=41;RPL=1;RPP=5.18177;RPPR=11.961;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=11.961;SRR=14;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16839T>A|p.Ser5613Arg|16839/21291|16839/21291|5613/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1556:1:38:0,-8.84599,-136.522 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
412 NC_045512.2 17146 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=53.3238;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.5293;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1730;RO=47;RPL=1;RPP=5.18177;RPPR=23.3852;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=5.27418;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16882A>T|p.Ile5628Leu|16882/21291|16882/21291|5628/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1730:1:34:0,-11.0505,-152.569 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
413 NC_045512.2 17150 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=47;DPB=47;DPRA=0;EPP=5.18177;EPPR=25.858;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=60.164;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1696;RO=46;RPL=1;RPP=5.18177;RPPR=51.3492;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=6.03148;SRR=19;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16886T>G|p.Val5629Gly|16886/21291|16886/21291|5629/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:47:46,1:46:1696:1:34:0,-10.7495,-149.516 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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414 NC_045512.2 17183 . C A 1.52941E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=76.6209;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=2030;RO=54;RPL=0;RPP=5.18177;RPPR=120.27;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=3.0103;SRR=27;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.16919C>A|p.Ala5640Glu|16919/21291|16919/21291|5640/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:2030:1:10:0,-15.5567,-181.953 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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415 NC_045512.2 17298 . G A 4.95725E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=7.35324;EPPR=42.3836;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.7081;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1984;RO=53;RPL=1;RPP=3.0103;RPPR=21.0786;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=26;SRP=3.05127;SRR=27;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17034G>A|p.Gln5678Gln|17034/21291|17034/21291|5678/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:53,2:53:1984:2:76:0,-9.34184,-171.595 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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416 NC_045512.2 17437 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=5.18177;EPPR=109.412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=63.3438;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1832;RO=49;RPL=0;RPP=5.18177;RPPR=4.11819;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=22;SRP=4.11819;SRR=27;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17173G>T|p.Asp5725Tyr|17173/21291|17173/21291|5725/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:49,1:49:1832:1:38:0,-11.2542,-161.339 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
417 NC_045512.2 17442 . T G 7.21786E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=5.18177;EPPR=109.412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=69.3242;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=1838;RO=49;RPL=1;RPP=5.18177;RPPR=3.40914;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=23;SRP=3.40914;SRR=26;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17178T>G|p.Pro5726Pro|17178/21291|17178/21291|5726/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:49,1:49:1838:1:12:0,-13.8515,-164.484 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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418 NC_045512.2 17445 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=5.18177;EPPR=107.241;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=68.1884;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1771;RO=48;RPL=0;RPP=5.18177;RPPR=3.73412;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=22;SRP=3.73412;SRR=26;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17181T>C|p.Ala5727Ala|17181/21291|17181/21291|5727/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:48,1:48:1771:1:11:0,-13.6505,-158.56 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
419 NC_045512.2 17463 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=3.05855;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=62.0204;PAIRED=1;PAIREDR=0.977778;PAO=0;PQA=0;PQR=0;PRO=0;QA=20;QR=1582;RO=45;RPL=0;RPP=5.18177;RPPR=100.727;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=23;SRP=3.05855;SRR=22;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17199C>A|p.Arg5733Arg|17199/21291|17199/21291|5733/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1582:1:20:0,-11.8474,-140.648 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
420 NC_045512.2 17504 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=3.42611;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=66.8227;PAIRED=1;PAIREDR=0.957447;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1752;RO=47;RPL=0;RPP=5.18177;RPPR=105.07;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=22;SRP=3.42611;SRR=25;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17240A>T|p.Asn5747Ile|17240/21291|17240/21291|5747/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1752:1:11:0,-13.3494,-156.848 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
421 NC_045512.2 17506 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=3.0565;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.9888;PAIRED=0;PAIREDR=0.978723;PAO=0;PQA=0;PQR=0;PRO=0;QA=32;QR=1712;RO=47;RPL=0;RPP=5.18177;RPPR=105.07;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=23;SRP=3.0565;SRR=24;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17242T>C|p.Ser5748Pro|17242/21291|17242/21291|5748/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1712:1:32:0,-11.2501,-151.145 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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422 NC_045512.2 17531 . T G 3.33041E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=8.60069;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=62.4488;PAIRED=1;PAIREDR=0.957447;PAO=0;PQA=0;PQR=0;PRO=0;QA=30;QR=1766;RO=47;RPL=0;RPP=5.18177;RPPR=73.2828;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=22;SRP=3.42611;SRR=25;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17267T>G|p.Ile5756Arg|17267/21291|17267/21291|5756/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1766:1:30:0,-11.4499,-156.207 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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423 NC_045512.2 17659 . T A 9.86952E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=3.0103;EPPR=3.19912;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=51.8036;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=69;QR=1718;RO=46;RPL=2;RPP=7.35324;RPPR=102.898;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=22;SRP=3.19912;SRR=24;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17395T>A|p.Phe5799Ile|17395/21291|17395/21291|5799/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:46,2:46:1718:2:69:0,-7.89678,-148.339 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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424 NC_045512.2 17669 . G T 5.86201E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=3.42611;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=65.4412;PAIRED=1;PAIREDR=0.957447;PAO=0;PQA=0;PQR=0;PRO=0;QA=17;QR=1715;RO=47;RPL=1;RPP=5.18177;RPPR=105.07;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=22;SRP=3.42611;SRR=25;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17405G>T|p.Gly5802Val|17405/21291|17405/21291|5802/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1715:1:17:0,-12.7495,-152.92 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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425 NC_045512.2 17676 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=5.18177;EPPR=5.5839;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=71.0972;PAIRED=1;PAIREDR=0.962963;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1982;RO=54;RPL=0;RPP=5.18177;RPPR=73.9451;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=29;SRP=3.6537;SRR=25;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17412C>T|p.Ile5804Ile|17412/21291|17412/21291|5804/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:55:54,1:54:1982:1:34:0,-13.1577,-175.24 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
426 NC_045512.2 17696 . C T 1.16929E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=79.0118;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=47.4817;PAIRED=1;PAIREDR=0.942857;PAO=0;PQA=0;PQR=0;PRO=0;QA=24;QR=1323;RO=35;RPL=1;RPP=5.18177;RPPR=13.4954;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=11;SRP=13.4954;SRR=24;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17432C>T|p.Ala5811Val|17432/21291|17432/21291|5811/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1323:1:24:0,-8.43719,-116.965 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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427 NC_045512.2 17697 . A G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=79.0118;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.2642;PAIRED=0;PAIREDR=0.971429;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1303;RO=35;RPL=1;RPP=5.18177;RPPR=13.4954;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=11;SRP=13.4954;SRR=24;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17433A>G|p.Ala5811Ala|17433/21291|17433/21291|5811/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1303:1:38:0,-7.03981,-113.762 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
428 NC_045512.2 17707 . CCAC CC 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M2D1M;DP=36;DPB=35.5;DPRA=0;EPP=5.18177;EPPR=79.0118;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.2642;PAIRED=1;PAIREDR=0.942857;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1325;RO=35;RPL=0;RPP=5.18177;RPPR=16.9698;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=10;SRP=16.9698;SRR=25;TYPE=del;ANN=CC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17446_17447delCA|p.Gln5816fs|17446/21291|17446/21291|5816/7096||INFO_REALIGN_3_PRIME GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1325:1:38:0,-7.03981,-115.747 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
429 NC_045512.2 17723 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=79.0118;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.2642;PAIRED=1;PAIREDR=0.942857;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1326;RO=35;RPL=0;RPP=5.18177;RPPR=16.9698;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=10;SRP=16.9698;SRR=25;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17459T>C|p.Val5820Ala|17459/21291|17459/21291|5820/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1326:1:38:0,-7.03981,-115.837 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
430 NC_045512.2 17727 . A C 3.26967E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=7.35324;EPPR=76.8404;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=35.6122;PAIRED=1;PAIREDR=0.941176;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1290;RO=34;RPL=2;RPP=7.35324;RPPR=12.2071;RPR=0;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=11;SRP=12.2071;SRR=23;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17463A>C|p.Arg5821Ser|17463/21291|17463/21291|5821/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:34,2:34:1290:2:76:0,-3.62227,-109.182 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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431 NC_045512.2 17760 . A G 1.63863E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=44.7026;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.3995;PAIRED=1;PAIREDR=0.933333;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1038;RO=30;RPL=1;RPP=5.18177;RPPR=3.29983;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=11;SRP=7.64277;SRR=19;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17496A>G|p.Lys5832Lys|17496/21291|17496/21291|5832/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1038:1:34:0,-5.93302,-90.3224 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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432 NC_045512.2 17815 . G T 1.60035E-7 . AB=0.0869565;ABP=37.093;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=3.0103;EPPR=3.1137;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=17.1164;PAIRED=1;PAIREDR=0.952381;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=776;RO=21;RPL=0;RPP=7.35324;RPPR=48.6112;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.1137;SRR=11;TYPE=snp;ANN=T|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17551G>T|p.Gly5851*|17551/21291|17551/21291|5851/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:23:21,2:21:776:2:76:-0.291121,0,-63.2405 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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433 NC_045512.2 17859 . T C 1.60035E-7 . AB=0.0869565;ABP=37.093;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=7.35324;EPPR=48.6112;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=17.1164;PAIRED=1;PAIREDR=0.952381;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=792;RO=21;RPL=1;RPP=3.0103;RPPR=3.1137;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=10;SRP=3.1137;SRR=11;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17595T>C|p.Tyr5865Tyr|17595/21291|17595/21291|5865/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:23:21,2:21:792:2:76:-0.291121,0,-64.684 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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434 NC_045512.2 17931 . T A 3.46558E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=5.18177;EPPR=3.40511;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.9011;PAIRED=1;PAIREDR=0.954545;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=829;RO=22;RPL=1;RPP=5.18177;RPPR=50.7827;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=10;SRP=3.40511;SRR=12;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17667T>A|p.Ile5889Ile|17667/21291|17667/21291|5889/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:23:22,1:22:829:1:11:0,-5.82369,-73.8357 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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435 NC_045512.2 17985 . C T 1.32901E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=59.7581;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.4822;PAIRED=1;PAIREDR=0.9;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1139;RO=30;RPL=0;RPP=5.18177;RPPR=4.16842;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=5.61607;SRR=12;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17721C>T|p.Asp5907Asp|17721/21291|17721/21291|5907/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1139:1:38:0,-5.53466,-99.0189 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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436 NC_045512.2 18061 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=5.18177;EPPR=7.10075;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=57.6809;PAIRED=1;PAIREDR=0.906977;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1543;RO=43;RPL=1;RPP=5.18177;RPPR=39.8243;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=18;SRP=5.48477;SRR=25;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17797T>G|p.Phe5933Val|17797/21291|17797/21291|5933/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:44:43,1:43:1543:1:27:0,-10.5455,-136.449 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
437 NC_045512.2 18086 . C A 2.92764E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=3.0103;EPPR=3.0761;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.8968;PAIRED=1;PAIREDR=0.909091;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1222;RO=33;RPL=0;RPP=7.35324;RPPR=74.6689;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=17;SRP=3.0761;SRR=16;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17822C>A|p.Thr5941Asn|17822/21291|17822/21291|5941/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1222:2:76:0,-3.32124,-103.063 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
438 NC_045512.2 18088 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=5.18177;EPPR=3.26577;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.5772;PAIRED=1;PAIREDR=0.911765;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1256;RO=34;RPL=0;RPP=5.18177;RPPR=76.8404;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=18;SRP=3.26577;SRR=16;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17824G>A|p.Gly5942Arg|17824/21291|17824/21291|5942/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1256:1:9:0,-9.63605,-112.434 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
439 NC_045512.2 18092 . T C 2.92764E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=3.0103;EPPR=3.0761;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.8968;PAIRED=1;PAIREDR=0.909091;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1244;RO=33;RPL=0;RPP=7.35324;RPPR=74.6689;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=17;SRP=3.0761;SRR=16;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17828T>C|p.Leu5943Ser|17828/21291|17828/21291|5943/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1244:2:76:0,-3.32124,-105.045 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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440 NC_045512.2 18105 . G T 2.92764E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=3.0103;EPPR=3.0761;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.8968;PAIRED=1;PAIREDR=0.909091;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1252;RO=33;RPL=0;RPP=7.35324;RPPR=74.6689;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=17;SRP=3.0761;SRR=16;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17841G>T|p.Gln5947His|17841/21291|17841/21291|5947/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1252:2:76:0,-3.32124,-105.764 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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441 NC_045512.2 18221 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.1167;PAIRED=0;PAIREDR=0.941176;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1283;RO=34;RPL=1;RPP=5.18177;RPPR=76.8404;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=17;SRP=3.0103;SRR=17;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.17957A>C|p.Lys5986Thr|17957/21291|17957/21291|5986/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1283:1:11:0,-9.43605,-114.668 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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442 NC_045512.2 18342 . T G 3.39045E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=92.0407;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.0345;PAIRED=1;PAIREDR=0.97561;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1531;RO=41;RPL=1;RPP=5.18177;RPPR=7.30028;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=25;SRP=7.30028;SRR=16;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18078T>G|p.Val6026Val|18078/21291|18078/21291|6026/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1531:1:31:0,-9.54381,-134.971 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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443 NC_045512.2 18346 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=83.3548;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=47.8999;PAIRED=1;PAIREDR=0.972973;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1350;RO=37;RPL=1;RPP=5.18177;RPPR=12.9286;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=25;SRP=12.9286;SRR=12;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18082A>C|p.Thr6028Pro|18082/21291|18082/21291|6028/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1350:1:34:0,-8.04023,-118.396 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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444 NC_045512.2 18395 . CTGT CT 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M2D1M;DP=50;DPB=49;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=53.4044;PAIRED=1;PAIREDR=0.979167;PAO=0;PQA=0;PQR=0;PRO=0;QA=74;QR=1788;RO=48;RPL=0;RPP=7.35324;RPPR=107.241;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=24;SRP=3.0103;SRR=24;TYPE=del;ANN=CT|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18133_18134delGT|p.Val6045fs|18133/21291|18133/21291|6045/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:48,2:48:1788:2:74:0,-8.02573,-154.164 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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445 NC_045512.2 18411 . T A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=7.35324;EPPR=98.736;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.9691;PAIRED=1;PAIREDR=0.979167;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1786;RO=48;RPL=1;RPP=3.0103;RPPR=3.19126;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=24;SRP=3.0103;SRR=24;TYPE=snp;ANN=A|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18147T>A|p.Tyr6049*|18147/21291|18147/21291|6049/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:48,2:48:1786:2:76:0,-7.83669,-153.791 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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446 NC_045512.2 18468 . A G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=7.35324;EPPR=109.412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.3154;PAIRED=1;PAIREDR=0.959184;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1807;RO=49;RPL=1;RPP=3.0103;RPPR=3.05462;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=24;SRP=3.05462;SRR=25;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18204A>G|p.Gly6068Gly|18204/21291|18204/21291|6068/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:49,2:49:1807:2:76:0,-8.13772,-155.675 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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447 NC_045512.2 18483 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=7.35324;EPPR=109.412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.3154;PAIRED=1;PAIREDR=0.959184;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1849;RO=49;RPL=1;RPP=3.0103;RPPR=3.05462;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=24;SRP=3.05462;SRR=25;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18219C>T|p.His6073His|18219/21291|18219/21291|6073/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:49,2:49:1849:2:76:0,-8.13772,-159.457 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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448 NC_045512.2 18506 . G T 4.32464E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=5.18177;EPPR=111.584;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=71.3815;PAIRED=1;PAIREDR=0.96;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1885;RO=50;RPL=1;RPP=5.18177;RPPR=3.18402;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=24;SRP=3.18402;SRR=26;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18242G>T|p.Gly6081Val|18242/21291|18242/21291|6081/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:50,1:50:1885:1:9:0,-14.4525,-169.01 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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449 NC_045512.2 18556 . A C 7.05188E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=33;DPB=33;DPRA=0;EPP=5.18177;EPPR=24.9965;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.403;PAIRED=0;PAIREDR=0.96875;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1205;RO=32;RPL=1;RPP=5.18177;RPPR=72.4974;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=24.9965;SRR=25;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18292A>C|p.Thr6098Pro|18292/21291|18292/21291|6098/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:33:32,1:32:1205:1:11:0,-8.83399,-107.653 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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450 NC_045512.2 18619 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=57;DPB=57;DPRA=0;EPP=5.18177;EPPR=124.613;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=79.1275;PAIRED=0;PAIREDR=0.875;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2110;RO=56;RPL=1;RPP=5.18177;RPPR=4.40625;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=31;SRP=4.40625;SRR=25;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18355T>G|p.Ser6119Ala|18355/21291|18355/21291|6119/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:56,1:56:2110:1:11:0,-16.0587,-189.045 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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451 NC_045512.2 18659 . GTTGTC GTGTC 9.4328E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D4M;DP=57;DPB=56.8333;DPRA=0;EPP=5.18177;EPPR=116.082;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=72.9168;PAIRED=1;PAIREDR=0.857143;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2092;RO=56;RPL=1;RPP=5.18177;RPPR=8.59409;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=33;SRP=6.88793;SRR=23;TYPE=del;ANN=GTGTC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18397delT|p.Cys6133fs|18397/21291|18397/21291|6133/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:56,1:56:2092:1:38:0,-13.3614,-184.732 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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452 NC_045512.2 18668 . G A 9.44787E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=57;DPB=57;DPRA=0;EPP=5.18177;EPPR=71.4117;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=72.9168;PAIRED=1;PAIREDR=0.857143;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2008;RO=56;RPL=0;RPP=5.18177;RPPR=21.778;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=5.49198;SRR=24;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18404G>A|p.Cys6135Tyr|18404/21291|18404/21291|6135/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:57:56,1:56:2008:1:38:0,-13.3614,-177.179 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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453 NC_045512.2 18714 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=5.18177;EPPR=3.1419;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=91.217;PAIRED=0;PAIREDR=0.848485;PAO=0;PQA=0;PQR=0;PRO=0;QA=18;QR=2412;RO=66;RPL=0;RPP=5.18177;RPPR=146.327;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=34;SRP=3.1419;SRR=32;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18450C>A|p.Ala6150Ala|18450/21291|18450/21291|6150/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:66,1:66:2412:1:18:0,-18.369,-215.506 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
454 NC_045512.2 18754 . C T 1.26872E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=5.18177;EPPR=98.9499;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=86.6181;PAIRED=0;PAIREDR=0.848485;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2467;RO=66;RPL=1;RPP=5.18177;RPPR=7.74806;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=33;SRP=3.0103;SRR=33;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18490C>T|p.Pro6164Ser|18490/21291|18490/21291|6164/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:66,1:66:2467:1:38:0,-16.3717,-218.458 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
455 NC_045512.2 18758 . TTAT TT 1.50375E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M2D1M;DP=67;DPB=66;DPRA=0;EPP=7.35324;EPPR=104.067;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=75.9456;PAIRED=1;PAIREDR=0.830769;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2453;RO=65;RPL=1;RPP=3.0103;RPPR=5.71629;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=33;SRP=3.04371;SRR=32;TYPE=del;ANN=TT|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18496_18497delAT|p.Met6166fs|18496/21291|18496/21291|6166/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:65,2:65:2453:2:76:0,-12.9542,-213.781 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
456 NC_045512.2 18786 . TAC TC 1.50375E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M1D1M;DP=67;DPB=66.3333;DPRA=0;EPP=3.0103;EPPR=127.319;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=75.9456;PAIRED=1;PAIREDR=0.830769;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2445;RO=65;RPL=0;RPP=7.35324;RPPR=3.31097;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=33;SRP=3.04371;SRR=32;TYPE=del;ANN=TC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18523delA|p.Thr6175fs|18523/21291|18523/21291|6175/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:65,2:65:2445:2:76:0,-12.9542,-213.061 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
457 NC_045512.2 18795 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=5.18177;EPPR=121.454;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=92.8288;PAIRED=0;PAIREDR=0.848485;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2474;RO=66;RPL=0;RPP=5.18177;RPPR=3.53672;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=34;SRP=3.1419;SRR=32;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18531C>A|p.Asn6177Lys|18531/21291|18531/21291|6177/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:66,1:66:2474:1:11:0,-19.069,-221.783 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
458 NC_045512.2 18807 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=5.18177;EPPR=137.773;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=90.9868;PAIRED=0;PAIREDR=0.848485;PAO=0;PQA=0;PQR=0;PRO=0;QA=19;QR=2477;RO=66;RPL=0;RPP=5.18177;RPPR=3.0103;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=34;SRP=3.1419;SRR=32;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18543C>A|p.Asn6181Lys|18543/21291|18543/21291|6181/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:67:66,1:66:2477:1:19:0,-18.269,-221.252 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
459 NC_045512.2 18936 . T C 4.28528E-14 . AB=0.0909091;ABP=82.96;AC=1;AF=0.5;AN=2;AO=5;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=13.8677;EPPR=79.6198;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=35.9661;PAIRED=1;PAIREDR=0.9;PAO=0;PQA=0;PQR=0;PRO=0;QA=190;QR=1865;RO=50;RPL=0;RPP=13.8677;RPPR=24.0302;RPR=5;RUN=1;SAF=5;SAP=13.8677;SAR=0;SRF=16;SRP=17.0814;SRR=34;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18672T>C|p.Ile6224Ile|18672/21291|18672/21291|6224/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:55:50,5:50:1865:5:190:-0.910787,0,-151.552 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
460 NC_045512.2 18964 . T G 6.63211E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=5.18177;EPPR=90.593;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=62.8949;PAIRED=1;PAIREDR=0.895833;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1801;RO=48;RPL=1;RPP=5.18177;RPPR=7.5342;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=7.5342;SRR=29;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18700T>G|p.Cys6234Gly|18700/21291|18700/21291|6234/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:48,1:48:1801:1:34:0,-11.3516,-158.954 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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461 NC_045512.2 18978 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=5.18177;EPPR=77.0689;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.2602;PAIRED=1;PAIREDR=0.868421;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1362;RO=38;RPL=1;RPP=5.18177;RPPR=3.0103;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=18;SRP=3.23888;SRR=20;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18714A>C|p.Gln6238His|18714/21291|18714/21291|6238/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1362:1:34:0,-8.34126,-119.475 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
462 NC_045512.2 19036 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=5.18177;EPPR=3.23888;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.4815;PAIRED=1;PAIREDR=0.947368;PAO=0;PQA=0;PQR=0;PRO=0;QA=20;QR=1418;RO=38;RPL=0;RPP=5.18177;RPPR=85.5263;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=18;SRP=3.23888;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18772G>T|p.Gly6258Cys|18772/21291|18772/21291|6258/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1418:1:20:0,-9.74021,-125.908 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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463 NC_045512.2 19103 . C T 4.29279E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=7.35324;EPPR=74.9036;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.2225;PAIRED=1;PAIREDR=0.945946;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1401;RO=37;RPL=1;RPP=3.0103;RPPR=3.06899;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=17;SRP=3.5385;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18839C>T|p.Pro6280Leu|18839/21291|18839/21291|6280/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:37,2:37:1401:2:76:0,-4.52536,-119.165 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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464 NC_045512.2 19208 . A C 1.67554E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=53.2759;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=35.9522;PAIRED=1;PAIREDR=0.888889;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1005;RO=27;RPL=0;RPP=5.18177;RPPR=26.2531;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=6;SRP=21.1059;SRR=21;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18944A>C|p.Asp6315Ala|18944/21291|18944/21291|6315/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:1005:1:27:0,-5.72906,-88.0637 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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465 NC_045512.2 19220 . C G 3.73074E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=29;DPB=29;DPRA=0;EPP=5.18177;EPPR=63.8115;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.7763;PAIRED=1;PAIREDR=0.892857;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1056;RO=28;RPL=1;RPP=5.18177;RPPR=14.1779;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=8;SRP=14.1779;SRR=20;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18956C>G|p.Ala6319Gly|18956/21291|18956/21291|6319/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:28,1:28:1056:1:38:0,-4.9326,-91.5533 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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466 NC_045512.2 19227 . C T 3.39026E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=5.18177;EPPR=61.6401;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=33.4251;PAIRED=1;PAIREDR=0.888889;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1012;RO=27;RPL=1;RPP=5.18177;RPPR=12.7417;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=8;SRP=12.7417;SRR=19;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.18963C>T|p.Ser6321Ser|18963/21291|18963/21291|6321/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:1012:1:38:0,-4.63157,-87.5933 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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467 NC_045512.2 19284 . TGGTGGC TGTGGC 3.39026E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D5M;DP=28;DPB=27.8571;DPRA=0;EPP=5.18177;EPPR=61.6401;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=33.4251;PAIRED=1;PAIREDR=0.888889;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1005;RO=27;RPL=1;RPP=5.18177;RPPR=12.7417;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=8;SRP=12.7417;SRR=19;TYPE=del;ANN=TGTGGC|frameshift_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.19022delG|p.Gly6341fs|19022/21291|19022/21291|6341/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:28:27,1:27:1005:1:38:0,-4.63157,-86.9677 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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468 NC_045512.2 19295 . T G 1.12247E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=48.6112;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=31.329;PAIRED=0;PAIREDR=0.904762;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=732;RO=21;RPL=1;RPP=5.18177;RPPR=5.59539;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=8;SRP=5.59539;SRR=13;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.19031T>G|p.Leu6344Trp|19031/21291|19031/21291|6344/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:732:1:12:0,-5.42267,-64.9974 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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469 NC_045512.2 19437 . A T 0.00124347 . AB=0.125;ABP=22.5536;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=16;DPB=16;DPRA=0;EPP=7.35324;EPPR=33.4109;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=8.15826;PAIRED=1;PAIREDR=0.857143;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=532;RO=14;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=7;SRP=3.0103;SRR=7;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.19173A>T|p.Val6391Val|19173/21291|19173/21291|6391/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:16:14,2:14:532:2:76:-2.39833,0,-43.4088 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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470 NC_045512.2 19478 . G T 36.2105 . AB=0.25;ABP=11.6962;AC=1;AF=0.5;AN=2;AO=4;CIGAR=1X;DP=16;DPB=16;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=8.33754;PAIRED=1;PAIREDR=0.833333;PAO=0;PQA=0;PQR=0;PRO=0;QA=152;QR=449;RO=12;RPL=4;RPP=11.6962;RPPR=29.068;RPR=0;RUN=1;SAF=2;SAP=3.0103;SAR=2;SRF=6;SRP=3.0103;SRR=6;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.19214G>T|p.Gly6405Val|19214/21291|19214/21291|6405/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:16:12,4:12:449:4:152:-9.23341,0,-35.9409 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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471 NC_045512.2 19550 . C G 3.56727E-5 . AB=0.0909091;ABP=19.0002;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=5.18177;EPPR=24.725;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=11.7097;PAIRED=1;PAIREDR=0.9;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=372;RO=10;RPL=0;RPP=5.18177;RPPR=10.8276;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=2;SRP=10.8276;SRR=8;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.19286C>G|p.Ala6429Gly|19286/21291|19286/21291|6429/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:11:10,1:10:372:1:34:-0.0875811,0,-30.5188 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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472 NC_045512.2 19621 . A T 0.0495762 . AB=0.166667;ABP=8.80089;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1X;DP=6;DPB=6;DPRA=0;EPP=5.18177;EPPR=13.8677;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=4.46708;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=187;RO=5;RPL=0;RPP=5.18177;RPPR=13.8677;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=5;SRP=13.8677;SRR=0;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.19357A>T|p.Ser6453Cys|19357/21291|19357/21291|6453/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:6:5,1:5:187:1:38:-1.99109,0,-15.3865 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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473 NC_045512.2 19630 . A G 0.0495762 . AB=0.166667;ABP=8.80089;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1X;DP=6;DPB=6;DPRA=0;EPP=5.18177;EPPR=13.8677;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=4.46708;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=190;RO=5;RPL=0;RPP=5.18177;RPPR=13.8677;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=5;SRP=13.8677;SRR=0;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.19366A>G|p.Asn6456Asp|19366/21291|19366/21291|6456/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:6:5,1:5:190:1:38:-1.99109,0,-15.6613 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
474 NC_045512.2 20219 . T A 1.77522E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=5.18177;EPPR=31.2394;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.7101;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=494;RO=13;RPL=1;RPP=5.18177;RPPR=3.17734;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=6;SRP=3.17734;SRR=7;TYPE=snp;ANN=A|stop_gained|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.19955T>A|p.Leu6652*|19955/21291|19955/21291|6652/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:13,1:13:494:1:38:0,-0.417151,-41.0105 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
475 NC_045512.2 20498 . C G 1.07327E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=5.18177;EPPR=57.2971;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.52;NS=1;NUMALT=1;ODDS=31.6439;PAIRED=1;PAIREDR=0.96;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=946;RO=25;RPL=0;RPP=5.18177;RPPR=17.6895;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=17.6895;SRR=6;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20234C>G|p.Ser6745Cys|20234/21291|20234/21291|6745/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:25,1:25:946:1:34:0,-4.42787,-82.0243 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
476 NC_045512.2 20593 . A T 2.09141E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6842;NS=1;NUMALT=1;ODDS=40.4289;PAIRED=1;PAIREDR=0.921053;PAO=0;PQA=0;PQR=0;PRO=0;QA=72;QR=1379;RO=38;RPL=0;RPP=7.35324;RPPR=85.5263;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=19;SRP=3.0103;SRR=19;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20329A>T|p.Thr6777Ser|20329/21291|20329/21291|6777/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:38,2:38:1379:2:72:0,-5.20483,-117.526 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
477 NC_045512.2 20621 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=3.06598;GTI=0;LEN=1;MEANALT=1;MQM=48;MQMR=60;NS=1;NUMALT=1;ODDS=55.9148;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1469;RO=39;RPL=0;RPP=5.18177;RPPR=87.6977;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.06598;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20357A>T|p.Lys6786Ile|20357/21291|20357/21291|6786/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1469:1:11:0,-10.9413,-131.397 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
478 NC_045512.2 20696 . A C 9.08766E-17 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=79.2345;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6923;NS=1;NUMALT=1;ODDS=55.9147;PAIRED=0;PAIREDR=0.948718;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1454;RO=39;RPL=1;RPP=5.18177;RPPR=3.06598;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.06598;SRR=20;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20432A>C|p.Asn6811Thr|20432/21291|20432/21291|6811/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1454:1:11:0,-10.9412,-130.009 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
479 NC_045512.2 20726 . A G 1.54744E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=7.35324;EPPR=77.0689;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6842;NS=1;NUMALT=1;ODDS=39.5575;PAIRED=1;PAIREDR=0.921053;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1401;RO=38;RPL=1;RPP=3.0103;RPPR=3.23888;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=19;SRP=3.0103;SRR=19;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20462A>G|p.Glu6821Gly|20462/21291|20462/21291|6821/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:38,2:38:1401:2:76:0,-4.82639,-119.131 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
480 NC_045512.2 20732 . G T 2.26485E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=56.5176;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6923;NS=1;NUMALT=1;ODDS=53.8424;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=20;QR=1424;RO=39;RPL=1;RPP=5.18177;RPPR=5.73856;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.06598;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20468G>T|p.Cys6823Phe|20468/21291|20468/21291|6823/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1424:1:20:0,-10.0412,-126.428 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
481 NC_045512.2 20745 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=3.06598;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6923;NS=1;NUMALT=1;ODDS=56.3752;PAIRED=1;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1454;RO=39;RPL=1;RPP=5.18177;RPPR=87.6977;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.06598;SRR=20;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20481T>G|p.Asn6827Lys|20481/21291|20481/21291|6827/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1454:1:9:0,-11.1412,-130.218 |
|
6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
482 NC_045512.2 20766 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=3.06598;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6923;NS=1;NUMALT=1;ODDS=56.1449;PAIRED=0;PAIREDR=0.948718;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1442;RO=39;RPL=1;RPP=5.18177;RPPR=87.6977;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.06598;SRR=20;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20502A>C|p.Leu6834Phe|20502/21291|20502/21291|6834/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1442:1:10:0,-11.0412,-129.04 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
483 NC_045512.2 20772 . A G 2.58426E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=3.0103;EPPR=20.744;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=21.2424;PAIRED=1;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=907;RO=24;RPL=2;RPP=7.35324;RPPR=55.1256;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=5;SRP=20.744;SRR=19;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20508A>G|p.Lys6836Lys|20508/21291|20508/21291|6836/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:24,2:24:907:2:75:0,-0.706436,-74.8308 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
484 NC_045512.2 20789 . T G 5.7184E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=62.6327;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=50.2446;PAIRED=1;PAIREDR=0.942857;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=1268;RO=35;RPL=0;RPP=5.18177;RPPR=6.05036;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=14;SRP=6.05036;SRR=21;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20525T>G|p.Val6842Gly|20525/21291|20525/21291|6842/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1268:1:12:0,-9.63709,-113.219 |
|
6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
485 NC_045512.2 20988 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=5.18177;EPPR=68.4099;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.347;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1271;RO=34;RPL=1;RPP=5.18177;RPPR=3.0103;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=16;SRP=3.26577;SRR=18;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20724T>G|p.Thr6908Thr|20724/21291|20724/21291|6908/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1271:1:10:0,-9.53605,-113.685 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
486 NC_045512.2 21005 . C T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=5.18177;EPPR=68.4099;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.1167;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1289;RO=34;RPL=1;RPP=5.18177;RPPR=3.0103;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=16;SRP=3.26577;SRR=18;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20741C>T|p.Ala6914Val|20741/21291|20741/21291|6914/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1289:1:11:0,-9.43605,-115.207 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
487 NC_045512.2 21056 . A T 3.31339E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=3.0103;EPPR=3.0761;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=35.0778;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=66;QR=1194;RO=33;RPL=2;RPP=7.35324;RPPR=74.6689;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=16;SRP=3.0761;SRR=17;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20792A>T|p.Asp6931Val|20792/21291|20792/21291|6931/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1194:2:66:0,-4.26844,-101.489 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
488 NC_045512.2 21065 . CTAAAAATG CGAAAATG,CTAAAATG 429.131 . AB=0.0285714,0.571429;ABP=70.5741,4.56135;AC=0,1;AF=0,0.5;AN=2;AO=1,20;CIGAR=1M1D1X6M,2M1D6M;DP=35;DPB=32.6667;DPRA=0,0;EPP=5.18177,3.44459;EPPR=3.0103;GTI=0;LEN=8,1;MEANALT=2,2;MQM=60,60;MQMR=60;NS=1;NUMALT=2;ODDS=63.1396;PAIRED=1,1;PAIREDR=1;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=8,707;QR=512;RO=14;RPL=1,20;RPP=5.18177,46.4397;RPPR=33.4109;RPR=0,0;RUN=1,1;SAF=1,9;SAP=5.18177,3.44459;SAR=0,11;SRF=7;SRP=3.0103;SRR=7;TYPE=complex,del;ANN=GAAAATG|frameshift_variant&synonymous_variant|HIGH|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20802_20803delTAinsG|p.Lys6935fs|20802/21291|20802/21291|6934/7096||INFO_REALIGN_3_PRIME GT:DP:AD:RO:QR:AO:QA:GL 0/2:35:14,1,20:14:512:1,20:8,707:-53.6158,-57.4243,-98.9672,0,-41.7054,-36.0848 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
489 NC_045512.2 21132 . A G 2.92095E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=5.18177;EPPR=52.9542;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=28.0341;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=873;RO=23;RPL=1;RPP=5.18177;RPPR=10.6577;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=10.6577;SRR=16;TYPE=snp;ANN=G|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20868A>G|p.Gln6956Gln|20868/21291|20868/21291|6956/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:23,1:23:873:1:38:0,-3.42745,-75.096 |
|
6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
490 NC_045512.2 21168 . G A 1.70196E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=8.07707;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=26.2658;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=762;RO=21;RPL=1;RPP=5.18177;RPPR=8.07707;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=8.07707;SRR=14;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.20904G>A|p.Lys6968Lys|20904/21291|20904/21291|6968/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:762:1:34:0,-3.22375,-65.5064 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
491 NC_045512.2 21304 . C T 0.00630843 . AB=0.142857;ABP=18.5208;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=3.0103;EPPR=14.5915;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=6.53369;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=72;QR=453;RO=12;RPL=2;RPP=7.35324;RPPR=5.9056;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=6;SRP=3.0103;SRR=6;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.21040C>T|p.Arg7014Cys|21040/21291|21040/21291|7014/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:14:12,2:12:453:2:72:-2.62195,0,-36.9048 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
492 NC_045512.2 21395 . A G 4.75505E-7 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=5.18177;EPPR=33.4109;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=16.0274;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=532;RO=14;RPL=0;RPP=5.18177;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=7;SRP=3.0103;SRR=7;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF1ab|GU280_gp01|transcript|GU280_gp01|protein_coding|2/2|c.21131A>G|p.Asp7044Gly|21131/21291|21131/21291|7044/7096|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:15:14,1:14:532:1:38:0,-0.718181,-44.428 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
493 NC_045512.2 21661 . A C 1.2418E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=5.18177;EPPR=44.2683;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=24.278;PAIRED=1;PAIREDR=0.894737;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=652;RO=19;RPL=0;RPP=5.18177;RPPR=4.03889;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=11;SRP=4.03889;SRR=8;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.99A>C|p.Thr33Thr|99/3822|99/3822|33/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:20:19,1:19:652:1:31:0,-2.92115,-55.8954 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
494 NC_045512.2 21735 . T G 5.71063E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=10.5174;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=50.2446;PAIRED=1;PAIREDR=0.885714;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=1235;RO=35;RPL=1;RPP=5.18177;RPPR=30.3709;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=3.56868;SRR=19;TYPE=snp;ANN=G|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.173T>G|p.Phe58Cys|173/3822|173/3822|58/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1235:1:12:0,-9.63709,-110.233 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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495 NC_045512.2 21764 . ATACATGTCTC AGCTC,ATCTA,ATCTC 389.593 . AB=0.0322581,0.0322581,0.580645;ABP=61.9202,61.9202,4.76149;AC=0,0,1;AF=0,0,0.5;AN=2;AO=1,1,18;CIGAR=1M6D1X3M,1M6D3M1X,1M6D4M;DP=31;DPB=20.0909;DPRA=0,0,0;EPP=5.18177,5.18177,3.0103;EPPR=4.78696;GTI=0;LEN=5,5,6;MEANALT=3,3,3;MQM=60,60,60;MQMR=60;NS=1;NUMALT=3;ODDS=46.8485;PAIRED=0,0,1;PAIREDR=0.818182;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=10,18,640;QR=411;RO=11;RPL=0,0,0;RPP=5.18177,5.18177,42.0968;RPPR=26.8965;RPR=1,1,18;RUN=1,1,1;SAF=0,0,9;SAP=5.18177,5.18177,3.0103;SAR=1,1,9;SRF=7;SRP=4.78696;SRR=4;TYPE=complex,complex,del;ANN=GCTC|missense_variant&disruptive_inframe_deletion|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.203_209delTACATGTinsG|p.Ile68_Val70delinsSer|203/3822|203/3822|68/1273||INFO_REALIGN_3_PRIME GT:DP:AD:RO:QR:AO:QA:GL 0/3:31:11,1,1,18:11:411:1,1,18:10,18,640:-49.0321,-51.7568,-85.1206,-51.0326,-84.1088,-84.398,0,-33.2732,-32.5465,-28.4338 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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496 NC_045512.2 21776 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=3.29983;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=43.9232;PAIRED=0;PAIREDR=0.9;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1111;RO=30;RPL=0;RPP=5.18177;RPPR=68.1545;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=3.29983;SRR=14;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.214G>A|p.Gly72Arg|214/3822|214/3822|72/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1111:1:10:0,-8.33193,-99.2969 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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497 NC_045512.2 21801 . A C 202.492 . AB=0.354839;ABP=8.68415;AC=1;AF=0.5;AN=2;AO=11;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=4.78696;EPPR=3.44459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.6255;PAIRED=0.818182;PAIREDR=0.9;PAO=0;PQA=0;PQR=0;PRO=0;QA=417;QR=736;RO=20;RPL=0;RPP=26.8965;RPPR=46.4397;RPR=11;RUN=1;SAF=7;SAP=4.78696;SAR=4;SRF=9;SRP=3.44459;SRR=11;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.239A>C|p.Asp80Ala|239/3822|239/3822|80/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:31:20,11:20:736:11:417:-28.5504,0,-57.2326 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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498 NC_045512.2 21904 . C A 2.34019E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=43.6929;PAIRED=0;PAIREDR=0.9;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1129;RO=30;RPL=1;RPP=5.18177;RPPR=68.1545;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=3.0103;SRR=15;TYPE=snp;ANN=A|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.342C>A|p.Thr114Thr|342/3822|342/3822|114/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1129:1:11:0,-8.23193,-100.817 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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499 NC_045512.2 21910 . C A 2.34019E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=43.6929;PAIRED=0;PAIREDR=0.9;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1121;RO=30;RPL=1;RPP=5.18177;RPPR=68.1545;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=3.0103;SRR=15;TYPE=snp;ANN=A|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.348C>A|p.Ser116Ser|348/3822|348/3822|116/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1121:1:11:0,-8.23193,-100.093 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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500 NC_045512.2 21990 . TTTATTAC TTTAC 759.795 . AB=0.875;ABP=42.0968;AC=1;AF=0.5;AN=2;AO=28;CIGAR=1M3D4M;DP=32;DPB=21.5;DPRA=0;EPP=55.4358;EPPR=11.6962;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.4431;PAIRED=0.928571;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1057;QR=152;RO=4;RPL=11;RPP=5.80219;RPPR=11.6962;RPR=17;RUN=1;SAF=16;SAP=4.25114;SAR=12;SRF=0;SRP=11.6962;SRR=4;TYPE=del;ANN=TTTAC|disruptive_inframe_deletion|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.432_434delTTA|p.Tyr145del|432/3822|432/3822|144/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:32:4,28:4:152:28:1057:-85.8083,0,-4.41693 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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501 NC_045512.2 22084 . T C 4.31238E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=3.0103;EPPR=3.60252;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=33.1143;PAIRED=1;PAIREDR=0.939394;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1227;RO=33;RPL=0;RPP=7.35324;RPPR=74.6689;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=15;SRP=3.60252;SRR=18;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.522T>C|p.Pro174Pro|522/3822|522/3822|174/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1227:2:75:0,-3.41571,-103.609 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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502 NC_045512.2 22088 . C A 2.92764E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=3.0103;EPPR=3.60252;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.8968;PAIRED=1;PAIREDR=0.939394;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1214;RO=33;RPL=0;RPP=7.35324;RPPR=74.6689;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=15;SRP=3.60252;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.526C>A|p.Leu176Ile|526/3822|526/3822|176/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1214:2:76:0,-3.32124,-102.343 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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503 NC_045512.2 22096 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=5.18177;EPPR=3.26577;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.347;PAIRED=0;PAIREDR=0.970588;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1263;RO=34;RPL=0;RPP=5.18177;RPPR=76.8404;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=16;SRP=3.26577;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.534C>A|p.Asp178Glu|534/3822|534/3822|178/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1263:1:10:0,-9.53605,-112.968 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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504 NC_045512.2 22133 . G A 2.72423E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=7.35324;EPPR=66.2462;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=34.4214;PAIRED=1;PAIREDR=0.939394;PAO=0;PQA=0;PQR=0;PRO=0;QA=69;QR=1233;RO=33;RPL=1;RPP=3.0103;RPPR=3.0761;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=15;SRP=3.60252;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.571G>A|p.Glu191Lys|571/3822|571/3822|191/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1233:2:69:0,-3.98339,-104.715 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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505 NC_045512.2 22194 . A G 2.92919E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=7.35324;EPPR=58.3499;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.8968;PAIRED=1;PAIREDR=0.939394;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1247;RO=33;RPL=1;RPP=3.0103;RPPR=3.0761;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=15;SRP=3.60252;SRR=18;TYPE=snp;ANN=G|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.632A>G|p.Asn211Ser|632/3822|632/3822|211/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:33,2:33:1247:2:76:0,-3.32124,-105.315 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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506 NC_045512.2 22248 . TG GT 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=2X;DP=35;DPB=35;DPRA=0;EPP=5.18177;EPPR=4.03217;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.1167;PAIRED=1;PAIREDR=0.941176;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1270;RO=34;RPL=1;RPP=5.18177;RPPR=76.8404;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=4.03217;SRR=19;TYPE=complex;ANN=GT|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.686_687delTGinsGT|p.Leu229Cys|686/3822|686/3822|229/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:35:34,1:34:1270:1:11:0,-9.43605,-113.5 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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507 NC_045512.2 22267 . C A 1.32901E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=13.4334;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.4822;PAIRED=1;PAIREDR=0.933333;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1108;RO=30;RPL=1;RPP=5.18177;RPPR=44.7026;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=12;SRP=5.61607;SRR=18;TYPE=snp;ANN=A|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.705C>A|p.Ile235Ile|705/3822|705/3822|235/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1108:1:38:0,-5.53466,-96.2304 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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508 NC_045512.2 22304 . T C 1.62542E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=5.18177;EPPR=46.4397;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=24.0087;PAIRED=1;PAIREDR=0.9;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=758;RO=20;RPL=1;RPP=5.18177;RPPR=24.2907;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=3;SRP=24.2907;SRR=17;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.742T>C|p.Tyr248His|742/3822|742/3822|248/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:20,1:20:758:1:38:0,-2.52436,-64.7532 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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509 NC_045512.2 22535 . T A 8.91572E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=5.18177;EPPR=18.4661;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=20.004;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=642;RO=17;RPL=0;RPP=5.18177;RPPR=6.20364;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=14;SRP=18.4661;SRR=3;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.973T>A|p.Ser325Thr|973/3822|973/3822|325/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:18:17,1:17:642:1:38:0,-1.62127,-54.3198 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
510 NC_045512.2 22801 . G T 2.20891E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=5.18177;EPPR=4.88226;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.5862;NS=1;NUMALT=1;ODDS=39.3463;PAIRED=1;PAIREDR=0.965517;PAO=0;PQA=0;PQR=0;PRO=0;QA=24;QR=1064;RO=29;RPL=1;RPP=5.18177;RPPR=42.621;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=3.08518;SRR=14;TYPE=snp;ANN=T|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1239G>T|p.Gly413Gly|1239/3822|1239/3822|413/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:29,1:29:1064:1:24:0,-6.63101,-93.6329 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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511 NC_045512.2 22893 . A G 3.36816E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=5.18177;EPPR=29.6108;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.25;NS=1;NUMALT=1;ODDS=18.6749;PAIRED=1;PAIREDR=0.9375;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=607;RO=16;RPL=1;RPP=5.18177;RPPR=16.582;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=4;SRP=11.6962;SRR=12;TYPE=snp;ANN=G|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1331A>G|p.Lys444Arg|1331/3822|1331/3822|444/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:17:16,1:16:607:1:38:0,-1.32024,-51.138 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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512 NC_045512.2 23063 . A T 179.773 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=6;CIGAR=1X;DP=6;DPB=6;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=12.9229;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=227;QR=0;RO=0;RPL=6;RPP=16.0391;RPPR=0;RPR=0;RUN=1;SAF=3;SAP=3.0103;SAR=3;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1501A>T|p.Asn501Tyr|1501/3822|1501/3822|501/1273|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:6:0,6:0:0:6:227:-20.7938,-1.80618,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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513 NC_045512.2 23125 . A C 1.72869E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=7.35324;EPPR=46.4397;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=28.5702;PAIRED=1;PAIREDR=0.85;PAO=0;PQA=0;PQR=0;PRO=0;QA=24;QR=692;RO=20;RPL=0;RPP=7.35324;RPPR=24.2907;RPR=2;RUN=1;SAF=2;SAP=7.35324;SAR=0;SRF=17;SRP=24.2907;SRR=3;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1563A>C|p.Pro521Pro|1563/3822|1563/3822|521/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:20,2:20:692:2:24:0,-4.34267,-60.3218 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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514 NC_045512.2 23137 . T C 2.92095E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=5.18177;EPPR=52.9542;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=28.0341;PAIRED=1;PAIREDR=0.869565;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=873;RO=23;RPL=1;RPP=5.18177;RPPR=37.093;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=37.093;SRR=2;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1575T>C|p.Cys525Cys|1575/3822|1575/3822|525/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:23,1:23:873:1:38:0,-3.42745,-75.096 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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515 NC_045512.2 23205 . G C 6.06637E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=5.18177;EPPR=46.8017;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=29.6085;PAIRED=0;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=37;QR=910;RO=24;RPL=0;RPP=5.18177;RPPR=32.3252;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=26.1727;SRR=4;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1643G>C|p.Gly548Ala|1643/3822|1643/3822|548/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:24,1:24:910:1:37:0,-3.82792,-78.5231 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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516 NC_045512.2 23212 . T C 9.54179E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=3.0103;EPPR=44.6459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=19.9361;PAIRED=1;PAIREDR=0.869565;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=859;RO=23;RPL=0;RPP=7.35324;RPPR=37.093;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=30.2953;SRR=3;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1650T>C|p.Gly550Gly|1650/3822|1650/3822|550/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:23,2:23:859:2:75:0,-0.405406,-70.5117 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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517 NC_045512.2 23233 . A C 1.79352E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.8687;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1476;RO=41;RPL=0;RPP=5.18177;RPPR=92.0407;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1671A>C|p.Lys557Asn|1671/3822|1671/3822|557/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1476:1:10:0,-11.6433,-132.116 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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518 NC_045512.2 23236 . GT CG 4.46001E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=2X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.099;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1498;RO=41;RPL=0;RPP=5.18177;RPPR=92.0407;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=complex;ANN=CG|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1674_1675delGTinsCG|p.LysPhe558AsnVal|1674/3822|1674/3822|558/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1498:1:9:0,-11.7433,-134.201 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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519 NC_045512.2 23249 . CA AC 4.46001E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=2X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.099;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1508;RO=41;RPL=0;RPP=5.18177;RPPR=92.0407;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=complex;ANN=AC|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1687_1688delCAinsAC|p.Gln563Thr|1687/3822|1687/3822|563/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1508:1:9:0,-11.7433,-135.101 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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520 NC_045512.2 23252 . C A 4.46001E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.099;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1501;RO=41;RPL=0;RPP=5.18177;RPPR=92.0407;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1690C>A|p.Gln564Lys|1690/3822|1690/3822|564/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1501:1:9:0,-11.7433,-134.468 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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521 NC_045512.2 23257 . T G 1.03067E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.5595;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=1523;RO=41;RPL=0;RPP=5.18177;RPPR=92.0407;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=snp;ANN=G|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1695T>G|p.Phe565Leu|1695/3822|1695/3822|565/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1523:1:7:0,-11.9433,-136.652 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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522 NC_045512.2 23258 . G T 6.90097E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.6385;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1498;RO=41;RPL=0;RPP=5.18177;RPPR=92.0407;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=T|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1696G>T|p.Gly566Cys|1696/3822|1696/3822|566/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1498:1:11:0,-11.5433,-133.998 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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523 NC_045512.2 23264 . G T 5.78596E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=56.1058;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=22;QR=1526;RO=41;RPL=0;RPP=5.18177;RPPR=83.5666;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=snp;ANN=T|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1702G>T|p.Asp568Tyr|1702/3822|1702/3822|568/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1526:1:22:0,-10.4433,-135.42 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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524 NC_045512.2 23270 . GC TA,GA 1246.7 . AB=0,0;ABP=0,0;AC=0,2;AF=0,1;AN=2;AO=1,41;CIGAR=2X,1M1X;DP=42;DPB=42;DPRA=0,0;EPP=5.18177,3.06326;EPPR=0;GTI=0;LEN=2,1;MEANALT=2,2;MQM=60,60;MQMR=0;NS=1;NUMALT=2;ODDS=54.2645;PAIRED=0,0.829268;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=30,1525;QR=0;RO=0;RPL=0,1;RPP=5.18177,83.5666;RPPR=0;RPR=1,40;RUN=1,1;SAF=0,21;SAP=5.18177,3.06326;SAR=1,20;SRF=0;SRP=0;SRR=0;TYPE=complex,snp;ANN=GA|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1709C>A|p.Ala570Asp|1709/3822|1709/3822|570/1273|| GT:DP:AD:RO:QR:AO:QA:GL 2/2:42:0,1,41:0:0:1,41:30,1525:-137.224,-134.827,-134.526,-12.3422,-9.64369,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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525 NC_045512.2 23295 . A C 4.46001E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=92.0407;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=59.099;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1545;RO=41;RPL=0;RPP=5.18177;RPPR=3.06326;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1733A>C|p.Asp578Ala|1733/3822|1733/3822|578/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1545:1:9:0,-11.7433,-138.431 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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526 NC_045512.2 23310 . A G 6.9085E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=83.5666;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.6385;PAIRED=1;PAIREDR=0.804878;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1528;RO=41;RPL=0;RPP=5.18177;RPPR=3.48696;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=snp;ANN=G|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1748A>G|p.Glu583Gly|1748/3822|1748/3822|583/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1528:1:11:0,-11.5433,-136.7 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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527 NC_045512.2 23329 . A C 6.9085E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=83.5666;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.6385;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1519;RO=41;RPL=0;RPP=5.18177;RPPR=3.48696;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1767A>C|p.Pro589Pro|1767/3822|1767/3822|589/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1519:1:11:0,-11.5433,-135.886 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
528 NC_045512.2 23356 . A C 1.79352E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=83.5666;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.8687;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1550;RO=41;RPL=0;RPP=5.18177;RPPR=3.48696;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.06326;SRR=20;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1794A>C|p.Ile598Ile|1794/3822|1794/3822|598/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1550:1:10:0,-11.6433,-138.781 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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529 NC_045512.2 23374 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=3.0103;EPPR=3.22745;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=42.2313;PAIRED=1;PAIREDR=0.8;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1499;RO=40;RPL=2;RPP=7.35324;RPPR=81.4005;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.0103;SRR=20;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1812T>C|p.Thr604Thr|1812/3822|1812/3822|604/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:40,2:40:1499:2:76:0,-5.42845,-127.981 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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530 NC_045512.2 23386 . T G 6.90097E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=42;DPB=42;DPRA=0;EPP=5.18177;EPPR=3.06326;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.6385;PAIRED=0;PAIREDR=0.829268;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1524;RO=41;RPL=1;RPP=5.18177;RPPR=92.0407;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06326;SRR=21;TYPE=snp;ANN=G|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1824T>G|p.Val608Val|1824/3822|1824/3822|608/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:42:41,1:41:1524:1:11:0,-11.5433,-136.342 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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531 NC_045512.2 23403 . A G,T 1091.29 . AB=0,0;ABP=0,0;AC=2,0;AF=1,0;AN=2;AO=40,1;CIGAR=1X,1X;DP=41;DPB=41;DPRA=0,0;EPP=3.22745,5.18177;EPPR=0;GTI=0;LEN=1,1;MEANALT=2,2;MQM=60,60;MQMR=0;NS=1;NUMALT=2;ODDS=57.5065;PAIRED=0.85,0;PAIREDR=0;PAO=0,0;PQA=0,0;PQR=0;PRO=0;QA=1365,10;QR=0;RO=0;RPL=40,1;RPP=89.8692,5.18177;RPPR=0;RPR=0,0;RUN=1,1;SAF=19,1;SAP=3.22745,5.18177;SAR=21,0;SRF=0;SRP=0;SRR=0;TYPE=snp,snp;ANN=G|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1841A>G|p.Asp614Gly|1841/3822|1841/3822|614/1273|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:41:0,40,1:0:0:40,1:1365,10:-123.016,-12.0412,0,-122.423,-11.3422,-122.122 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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532 NC_045512.2 23431 . T A 1.62542E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=5.18177;EPPR=46.4397;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=24.0087;PAIRED=1;PAIREDR=0.75;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=758;RO=20;RPL=1;RPP=5.18177;RPPR=46.4397;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=46.4397;SRR=20;TYPE=snp;ANN=A|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1869T>A|p.Ala623Ala|1869/3822|1869/3822|623/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:21:20,1:20:758:1:38:0,-2.52436,-64.7533 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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533 NC_045512.2 23445 . A C 7.32844E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=7.35324;EPPR=63.8115;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=29.4076;PAIRED=1;PAIREDR=0.785714;PAO=0;PQA=0;PQR=0;PRO=0;QA=68;QR=1030;RO=28;RPL=0;RPP=7.35324;RPPR=18.2106;RPR=2;RUN=1;SAF=2;SAP=7.35324;SAR=0;SRF=7;SRP=18.2106;SRR=21;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1883A>C|p.Gln628Pro|1883/3822|1883/3822|628/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:28,2:28:1030:2:68:0,-2.57297,-86.5537 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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534 NC_045512.2 23446 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=5.18177;EPPR=70.3259;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=41.3638;PAIRED=1;PAIREDR=0.806452;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1125;RO=31;RPL=0;RPP=5.18177;RPPR=11.486;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=10;SRP=11.486;SRR=21;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1884A>C|p.Gln628His|1884/3822|1884/3822|628/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:31,1:31:1125:1:27:0,-6.93318,-98.8556 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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535 NC_045512.2 23450 . A C 1.37871E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=79.0118;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=45.8709;PAIRED=1;PAIREDR=0.828571;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1287;RO=35;RPL=0;RPP=5.18177;RPPR=4.56135;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=15;SRP=4.56135;SRR=20;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1888A>C|p.Thr630Pro|1888/3822|1888/3822|630/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1287:1:31:0,-7.73763,-113.025 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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536 NC_045512.2 23469 . A C 5.28897E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=81.1833;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=51.8338;PAIRED=0;PAIREDR=0.861111;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1358;RO=36;RPL=1;RPP=5.18177;RPPR=3.25157;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=17;SRP=3.25157;SRR=19;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1907A>C|p.Tyr636Ser|1907/3822|1907/3822|636/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1358:1:11:0,-10.0381,-121.412 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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537 NC_045512.2 23521 . T G 3.36083E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=27;DPB=27;DPRA=0;EPP=5.18177;EPPR=59.4686;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=32.9924;PAIRED=0;PAIREDR=0.807692;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=950;RO=26;RPL=1;RPP=5.18177;RPPR=8.35546;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=17;SRP=8.35546;SRR=9;TYPE=snp;ANN=G|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.1959T>G|p.Ala653Ala|1959/3822|1959/3822|653/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:27:26,1:26:950:1:34:0,-4.7289,-82.4166 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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538 NC_045512.2 23571 . T C 5.28144E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=3.07234;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6571;NS=1;NUMALT=1;ODDS=51.3959;PAIRED=1;PAIREDR=0.942857;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=1273;RO=35;RPL=0;RPP=5.18177;RPPR=79.0118;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=17;SRP=3.07234;SRR=18;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2009T>C|p.Ile670Thr|2009/3822|2009/3822|670/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1273:1:7:0,-10.1371,-114.156 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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539 NC_045512.2 23604 . C A 239.33 . AB=0.361111;ABP=9.04217;AC=1;AF=0.5;AN=2;AO=13;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=31.2394;EPPR=52.9542;GTI=0;LEN=1;MEANALT=1;MQM=59.0769;MQMR=60;NS=1;NUMALT=1;ODDS=55.1078;PAIRED=1;PAIREDR=0.913043;PAO=0;PQA=0;PQR=0;PRO=0;QA=480;QR=868;RO=23;RPL=6;RPP=3.17734;RPPR=3.10471;RPR=7;RUN=1;SAF=6;SAP=3.17734;SAR=7;SRF=11;SRP=3.10471;SRR=12;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2042C>A|p.Pro681His|2042/3822|2042/3822|681/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:23,13:23:868:13:480:-32.6775,0,-67.6063 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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540 NC_045512.2 23606 . C A 1.56708E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=7.35324;EPPR=76.8404;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6471;NS=1;NUMALT=1;ODDS=34.4434;PAIRED=1;PAIREDR=0.941176;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1258;RO=34;RPL=1;RPP=3.0103;RPPR=3.26577;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=16;SRP=3.26577;SRR=18;TYPE=snp;ANN=A|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2044C>A|p.Arg682Arg|2044/3822|2044/3822|682/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:34,2:34:1258:2:75:0,-3.71674,-106.363 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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541 NC_045512.2 23656 . A C 1.86862E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=5.18177;EPPR=79.0118;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.6571;NS=1;NUMALT=1;ODDS=50.4749;PAIRED=0;PAIREDR=0.971429;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1321;RO=35;RPL=1;RPP=5.18177;RPPR=3.56868;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=16;SRP=3.56868;SRR=19;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2094A>C|p.Ser698Ser|2094/3822|2094/3822|698/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:36:35,1:35:1321:1:11:0,-9.73708,-118.05 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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542 NC_045512.2 23664 . C T 538.189 . AB=0.638889;ABP=9.04217;AC=1;AF=0.5;AN=2;AO=23;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=52.9542;EPPR=31.2394;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.0769;NS=1;NUMALT=1;ODDS=57.7969;PAIRED=0.913043;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=848;QR=493;RO=13;RPL=11;RPP=3.10471;RPPR=3.17734;RPR=12;RUN=1;SAF=11;SAP=3.10471;SAR=12;SRF=6;SRP=3.17734;SRR=7;TYPE=snp;ANN=T|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2102C>T|p.Ala701Val|2102/3822|2102/3822|701/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:13,23:13:493:23:848:-65.8013,0,-33.8453 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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543 NC_045512.2 23709 . C T 249.204 . AB=0.361111;ABP=9.04217;AC=1;AF=0.5;AN=2;AO=13;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=3.17734;EPPR=3.10471;GTI=0;LEN=1;MEANALT=1;MQM=59.0769;MQMR=60;NS=1;NUMALT=1;ODDS=57.3813;PAIRED=1;PAIREDR=0.913043;PAO=0;PQA=0;PQR=0;PRO=0;QA=491;QR=838;RO=23;RPL=13;RPP=31.2394;RPPR=52.9542;RPR=0;RUN=1;SAF=6;SAP=3.17734;SAR=7;SRF=11;SRP=3.10471;SRR=12;TYPE=snp;ANN=T|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2147C>T|p.Thr716Ile|2147/3822|2147/3822|716/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:36:23,13:23:838:13:491:-33.6648,0,-64.8978 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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544 NC_045512.2 23766 . C T 218.163 . AB=0.631579;ABP=5.8675;AC=1;AF=0.5;AN=2;AO=12;CIGAR=1X;DP=19;DPB=19;DPRA=0;EPP=29.068;EPPR=18.2106;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=58.2857;NS=1;NUMALT=1;ODDS=21.2039;PAIRED=0.916667;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=456;QR=266;RO=7;RPL=12;RPP=29.068;RPPR=18.2106;RPR=0;RUN=1;SAF=0;SAP=29.068;SAR=12;SRF=0;SRP=18.2106;SRR=7;TYPE=snp;ANN=T|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2204C>T|p.Ser735Leu|2204/3822|2204/3822|735/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:19:7,12:7:266:12:456:-35.6707,0,-18.5476 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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545 NC_045512.2 23820 . T C 2.92096E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=5.18177;EPPR=52.9542;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=59.4783;NS=1;NUMALT=1;ODDS=28.0341;PAIRED=1;PAIREDR=0.956522;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=874;RO=23;RPL=1;RPP=5.18177;RPPR=18.9659;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=5;SRP=18.9659;SRR=18;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2258T>C|p.Leu753Ser|2258/3822|2258/3822|753/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:24:23,1:23:874:1:38:0,-3.42745,-75.151 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
546 NC_045512.2 24394 . A C 8.51412E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=5.18177;EPPR=37.7539;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=24.6553;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=578;RO=16;RPL=0;RPP=5.18177;RPPR=3.55317;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=7;SRP=3.55317;SRR=9;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2832A>C|p.Ala944Ala|2832/3822|2832/3822|944/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:17:16,1:16:578:1:12:0,-3.91752,-51.153 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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547 NC_045512.2 24506 . T G 741.097 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=26;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=40.6488;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=925;QR=0;RO=0;RPL=0;RPP=59.4686;RPPR=0;RPR=26;RUN=1;SAF=13;SAP=3.0103;SAR=13;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=G|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2944T>G|p.Ser982Ala|2944/3822|2944/3822|982/1273|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:26:0,26:0:0:26:925:-83.5559,-7.82678,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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548 NC_045512.2 24511 . T A 3.21218E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=21.0249;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=853;RO=24;RPL=0;RPP=7.35324;RPPR=55.1256;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=12;SRP=3.0103;SRR=12;TYPE=snp;ANN=A|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2949T>A|p.Arg983Arg|2949/3822|2949/3822|983/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:24,2:24:853:2:76:0,-0.611969,-69.861 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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549 NC_045512.2 24536 . CAAAT AAAAG 1.64468E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X3M1X;DP=26;DPB=26;DPRA=0;EPP=5.18177;EPPR=3.09716;GTI=0;LEN=5;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=35.0953;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=19;QR=939;RO=25;RPL=0;RPP=5.18177;RPPR=57.2971;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=13;SRP=3.09716;SRR=12;TYPE=complex;ANN=AAAAG|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.2974_2978delCAAATinsAAAAG|p.GlnIle992LysSer|2974/3822|2974/3822|992/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:25,1:25:939:1:19:0,-5.92681,-82.9292 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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550 NC_045512.2 24620 . G T 1.4036E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=5.18177;EPPR=57.2971;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=36.9373;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=948;RO=25;RPL=1;RPP=5.18177;RPPR=3.09716;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=12;SRP=3.09716;SRR=13;TYPE=snp;ANN=T|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3058G>T|p.Ala1020Ser|3058/3822|3058/3822|1020/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:25,1:25:948:1:11:0,-6.72678,-84.5385 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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551 NC_045512.2 24672 . C T 1.15872E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=5.18177;EPPR=3.09716;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.3978;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=936;RO=25;RPL=1;RPP=5.18177;RPPR=57.2971;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=12;SRP=3.09716;SRR=13;TYPE=snp;ANN=T|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3110C>T|p.Ser1037Leu|3110/3822|3110/3822|1037/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:25,1:25:936:1:9:0,-6.92678,-83.6596 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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552 NC_045512.2 24700 . C G 1.29812E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=5.18177;EPPR=49.8093;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.046;PAIRED=1;PAIREDR=0.896552;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1029;RO=29;RPL=0;RPP=5.18177;RPPR=3.08518;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=16;SRP=3.68421;SRR=13;TYPE=snp;ANN=G|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3138C>G|p.Gly1046Gly|3138/3822|3138/3822|1046/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:29,1:29:1029:1:34:0,-5.63199,-89.5189 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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553 NC_045512.2 24776 . G A 1.08534E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=5.18177;EPPR=31.4368;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=60.4259;PAIRED=1;PAIREDR=0.931818;PAO=0;PQA=0;PQR=0;PRO=0;QA=21;QR=1621;RO=44;RPL=0;RPP=5.18177;RPPR=19.0002;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.20771;SRR=23;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3214G>A|p.Glu1072Lys|3214/3822|3214/3822|1072/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:45:44,1:44:1621:1:21:0,-11.4464,-144.064 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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554 NC_045512.2 24788 . A C 6.55441E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=8.60069;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=67.5135;PAIRED=0;PAIREDR=0.93617;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1692;RO=47;RPL=0;RPP=5.18177;RPPR=47.41;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=4.16534;SRR=26;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3226A>C|p.Thr1076Pro|3226/3822|3226/3822|1076/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1692:1:8:0,-13.6494,-151.753 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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555 NC_045512.2 24795 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=3.51141;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=56.6054;PAIRED=0;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1431;RO=39;RPL=0;RPP=5.18177;RPPR=87.6977;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=21;SRP=3.51141;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3233C>A|p.Ala1078Asp|3233/3822|3233/3822|1078/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1431:1:8:0,-11.2412,-128.275 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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556 NC_045512.2 24849 . T C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=43.6001;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.231;PAIRED=1;PAIREDR=0.897436;PAO=0;PQA=0;PQR=0;PRO=0;QA=27;QR=1453;RO=39;RPL=0;RPP=5.18177;RPPR=9.74743;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06598;SRR=19;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3287T>C|p.Val1096Ala|3287/3822|3287/3822|1096/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1453:1:27:0,-9.34142,-128.353 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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557 NC_045512.2 24870 . T G 9.08766E-17 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=87.6977;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=55.9147;PAIRED=0;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1482;RO=39;RPL=1;RPP=5.18177;RPPR=3.06598;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06598;SRR=19;TYPE=snp;ANN=G|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3308T>G|p.Phe1103Cys|3308/3822|3308/3822|1103/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1482:1:11:0,-10.9412,-132.564 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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558 NC_045512.2 24902 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=87.6977;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=56.1449;PAIRED=0;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1478;RO=39;RPL=1;RPP=5.18177;RPPR=3.06598;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06598;SRR=19;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3340A>C|p.Ile1114Leu|3340/3822|3340/3822|1114/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1478:1:10:0,-11.0412,-132.305 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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559 NC_045512.2 24914 . G C 1227.52 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=40;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=81.4005;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=60.0569;PAIRED=0.9;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1498;QR=0;RO=0;RPL=22;RPP=3.87889;RPPR=0;RPR=18;RUN=1;SAF=21;SAP=3.22745;SAR=19;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=C|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3352G>C|p.Asp1118His|3352/3822|3352/3822|1118/1273|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40:0:0:40:1498:-135.101,-12.0412,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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560 NC_045512.2 24949 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=5.18177;EPPR=3.06598;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.0727;PAIRED=0;PAIREDR=0.923077;PAO=0;PQA=0;PQR=0;PRO=0;QA=19;QR=1463;RO=39;RPL=1;RPP=5.18177;RPPR=87.6977;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.06598;SRR=19;TYPE=snp;ANN=C|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3387A>C|p.Val1129Val|3387/3822|3387/3822|1129/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:40:39,1:39:1463:1:19:0,-10.1412,-130.057 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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561 NC_045512.2 25010 . G A 1.67105E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=5.18177;EPPR=70.3259;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.8368;PAIRED=1;PAIREDR=0.967742;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1177;RO=31;RPL=1;RPP=5.18177;RPPR=4.76149;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=13;SRP=4.76149;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3448G>A|p.Glu1150Lys|3448/3822|3448/3822|1150/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:31,1:31:1177:1:38:0,-5.83569,-102.436 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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562 NC_045512.2 25231 . C A 5.04454E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=29;DPB=29;DPRA=0;EPP=3.0103;EPPR=3.09072;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=25.1787;PAIRED=1;PAIREDR=0.962963;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=995;RO=27;RPL=2;RPP=7.35324;RPPR=61.6401;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=13;SRP=3.09072;SRR=14;TYPE=snp;ANN=A|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3669C>A|p.Gly1223Gly|3669/3822|3669/3822|1223/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:27,2:27:995:2:75:0,-1.60953,-82.7372 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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563 NC_045512.2 25238 . GCCAT GCAT 5.04454E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1M1D3M;DP=29;DPB=28.6;DPRA=0;EPP=3.0103;EPPR=3.09072;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=25.1787;PAIRED=1;PAIREDR=0.962963;PAO=0;PQA=0;PQR=0;PRO=0;QA=75;QR=1014;RO=27;RPL=2;RPP=7.35324;RPPR=61.6401;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=13;SRP=3.09072;SRR=14;TYPE=del;ANN=GCAT|frameshift_variant|HIGH|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3678delC|p.Ile1227fs|3678/3822|3678/3822|1226/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:27,2:27:1014:2:75:0,-1.60953,-84.4545 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
564 NC_045512.2 25252 . G A 243.786 . AB=0.413793;ABP=4.88226;AC=1;AF=0.5;AN=2;AO=12;CIGAR=1X;DP=29;DPB=29;DPRA=0;EPP=3.0103;EPPR=3.13803;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=56.1338;PAIRED=1;PAIREDR=0.941176;PAO=0;PQA=0;PQR=0;PRO=0;QA=452;QR=634;RO=17;RPL=12;RPP=29.068;RPPR=39.9253;RPR=0;RUN=1;SAF=6;SAP=3.0103;SAR=6;SRF=8;SRP=3.13803;SRR=9;TYPE=snp;ANN=A|synonymous_variant|LOW|S|GU280_gp02|transcript|GU280_gp02|protein_coding|1/1|c.3690G>A|p.Val1230Val|3690/3822|3690/3822|1230/1273|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:29:17,12:17:634:12:452:-32.2991,0,-48.6654 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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565 NC_045512.2 25606 . GCAC GC 0.608654 . AB=0.333333;ABP=3.73412;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1M2D1M;DP=3;DPB=2.5;DPRA=0;EPP=5.18177;EPPR=7.35324;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1.9186;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=71;RO=2;RPL=0;RPP=5.18177;RPPR=7.35324;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=2;SRP=7.35324;SRR=0;TYPE=del;ANN=GC|frameshift_variant|HIGH|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.216_217delAC|p.Ser74fs|216/828|216/828|72/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:3:2,1:2:71:1:34:-2.49582,0,-5.83881 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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566 NC_045512.2 25784 . G T 1.58317 . AB=0.2;ABP=10.8276;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=7.35324;EPPR=20.3821;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=0.821324;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=303;RO=8;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=4;SRP=3.0103;SRR=4;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.392G>T|p.Trp131Leu|392/828|392/828|131/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:10:8,2:8:303:2:76:-4.20451,0,-24.619 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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567 NC_045512.2 25805 . C A 1.58317 . AB=0.2;ABP=10.8276;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=7.35324;EPPR=20.3821;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=0.821324;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=304;RO=8;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=4;SRP=3.0103;SRR=4;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.413C>A|p.Pro138Gln|413/828|413/828|138/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:10:8,2:8:304:2:76:-4.20451,0,-24.7098 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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568 NC_045512.2 25904 . C T 3.56727E-5 . AB=0.0909091;ABP=19.0002;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=5.18177;EPPR=3.87889;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=11.7097;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=353;RO=10;RPL=0;RPP=5.18177;RPPR=16.9077;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=5;SRP=3.0103;SRR=5;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.512C>T|p.Ser171Leu|512/828|512/828|171/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:11:10,1:10:353:1:34:-0.0875811,0,-28.7936 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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569 NC_045512.2 25905 . A C 4.66965E-4 . AB=0.111111;ABP=14.8328;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1X;DP=9;DPB=9;DPRA=0;EPP=5.18177;EPPR=12.7819;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=9.13775;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=295;RO=8;RPL=0;RPP=5.18177;RPPR=7.35324;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=3;SRP=4.09604;SRR=5;TYPE=snp;ANN=C|synonymous_variant|LOW|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.513A>C|p.Ser171Ser|513/828|513/828|171/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:9:8,1:8:295:1:34:-0.689641,0,-24.1931 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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570 NC_045512.2 26010 . C T 50.7908 . AB=0.75;ABP=5.18177;AC=1;AF=0.5;AN=2;AO=3;CIGAR=1X;DP=4;DPB=4;DPRA=0;EPP=9.52472;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=2.09996;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=114;QR=38;RO=1;RPL=0;RPP=9.52472;RPPR=5.18177;RPR=3;RUN=1;SAF=3;SAP=9.52472;SAR=0;SRF=1;SRP=5.18177;SRR=0;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.618C>T|p.Tyr206Tyr|618/828|618/828|206/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:4:1,3:1:38:3:114:-9.42823,0,-2.59315 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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571 NC_045512.2 26172 . G T 6.62674E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=8;DPB=8;DPRA=0;EPP=5.18177;EPPR=3.32051;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=13.3929;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=257;RO=7;RPL=1;RPP=5.18177;RPPR=18.2106;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=3;SRP=3.32051;SRR=4;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.780G>T|p.Met260Ile|780/828|780/828|260/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:8:7,1:7:257:1:10:0,-1.40824,-22.4823 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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572 NC_045512.2 26173 . G T 6.62674E-6 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=8;DPB=8;DPRA=0;EPP=5.18177;EPPR=3.32051;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=13.3929;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=248;RO=7;RPL=1;RPP=5.18177;RPPR=18.2106;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=3;SRP=3.32051;SRR=4;TYPE=snp;ANN=T|stop_gained|HIGH|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.781G>T|p.Glu261*|781/828|781/828|261/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:8:7,1:7:248:1:10:0,-1.40824,-21.6609 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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573 NC_045512.2 26203 . A C 2.41692E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=5.18177;EPPR=57.5966;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.7355;PAIRED=1;PAIREDR=0.965517;PAO=0;PQA=0;PQR=0;PRO=0;QA=31;QR=1048;RO=29;RPL=0;RPP=5.18177;RPPR=30.0414;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=25;SRP=36.0317;SRR=4;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.811A>C|p.Thr271Pro|811/828|811/828|271/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:30:29,1:29:1048:1:31:0,-5.93145,-91.5268 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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574 NC_045512.2 26208 . C A 1.66952E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=5.18177;EPPR=70.3259;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.8368;PAIRED=1;PAIREDR=0.967742;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1160;RO=31;RPL=0;RPP=5.18177;RPPR=40.0654;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=27;SRP=40.0654;SRR=4;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF3a|GU280_gp03|transcript|GU280_gp03|protein_coding|1/1|c.816C>A|p.Ser272Arg|816/828|816/828|272/275|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:31,1:31:1160:1:38:0,-5.83569,-100.907 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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575 NC_045512.2 26305 . CTTGC CTGC 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1D3M;DP=60;DPB=59.8;DPRA=0;EPP=5.18177;EPPR=3.34154;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=77.0244;PAIRED=1;PAIREDR=0.966102;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2181;RO=59;RPL=1;RPP=5.18177;RPPR=106.394;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=28;SRP=3.34154;SRR=31;TYPE=del;ANN=CTGC|frameshift_variant|HIGH|E|GU280_gp04|transcript|GU280_gp04|protein_coding|1/1|c.63delT|p.Ala22fs|63/228|63/228|21/75|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:60:59,1:59:2181:1:38:0,-14.2645,-192.739 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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576 NC_045512.2 26346 . T C 5.12534E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=5.18177;EPPR=3.0484;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=75.203;PAIRED=1;PAIREDR=0.964912;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=2140;RO=57;RPL=0;RPP=5.18177;RPPR=126.784;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=28;SRP=3.0484;SRR=29;TYPE=snp;ANN=C|synonymous_variant|LOW|E|GU280_gp04|transcript|GU280_gp04|protein_coding|1/1|c.102T>C|p.Leu34Leu|102/228|102/228|34/75|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:57,1:57:2140:1:34:0,-14.0608,-189.445 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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577 NC_045512.2 26349 . T C 5.72593E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=5.18177;EPPR=60.9543;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=77.7335;PAIRED=1;PAIREDR=0.964912;PAO=0;PQA=0;PQR=0;PRO=0;QA=23;QR=2138;RO=57;RPL=0;RPP=5.18177;RPPR=16.763;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=28;SRP=3.0484;SRR=29;TYPE=snp;ANN=C|synonymous_variant|LOW|E|GU280_gp04|transcript|GU280_gp04|protein_coding|1/1|c.105T>C|p.Thr35Thr|105/228|105/228|35/75|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:57,1:57:2138:1:23:0,-15.1598,-190.365 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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578 NC_045512.2 26416 . G T 475.296 . AB=0.37931;ABP=10.3484;AC=1;AF=0.5;AN=2;AO=22;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=42.4916;EPPR=72.7387;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=109.441;PAIRED=1;PAIREDR=0.944444;PAO=0;PQA=0;PQR=0;PRO=0;QA=836;QR=1359;RO=36;RPL=10;RPP=3.40511;RPPR=3.25157;RPR=12;RUN=1;SAF=11;SAP=3.0103;SAR=11;SRF=18;SRP=3.0103;SRR=18;TYPE=snp;ANN=T|missense_variant|MODERATE|E|GU280_gp04|transcript|GU280_gp04|protein_coding|1/1|c.172G>T|p.Val58Phe|172/228|172/228|58/75|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:58:36,22:36:1359:22:836:-58.1059,0,-105.143 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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579 NC_045512.2 26590 . T A 7.06671E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=33;DPB=33;DPRA=0;EPP=5.18177;EPPR=64.083;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=46.403;PAIRED=1;PAIREDR=0.90625;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1157;RO=32;RPL=0;RPP=5.18177;RPPR=7.35324;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=21;SRP=9.79615;SRR=11;TYPE=snp;ANN=A|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.68T>A|p.Val23Glu|68/669|68/669|23/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:33:32,1:32:1157:1:11:0,-8.83399,-103.331 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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580 NC_045512.2 26695 . G A 4.11803E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=7.35324;EPPR=81.1833;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.8506;PAIRED=1;PAIREDR=0.944444;PAO=0;PQA=0;PQR=0;PRO=0;QA=67;QR=1363;RO=36;RPL=1;RPP=3.0103;RPPR=3.9754;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=20;SRP=3.9754;SRR=16;TYPE=snp;ANN=A|stop_gained|HIGH|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.173G>A|p.Trp58*|173/669|173/669|58/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:36,2:36:1363:2:67:0,-5.0763,-116.599 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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581 NC_045512.2 26736 . AGAA TGAC 1.44199E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X2M1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=83.3548;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=51.5816;PAIRED=0;PAIREDR=0.972973;PAO=0;PQA=0;PQR=0;PRO=0;QA=18;QR=1397;RO=37;RPL=1;RPP=5.18177;RPPR=3.5385;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.5385;SRR=17;TYPE=complex;ANN=TGAC|stop_gained|HIGH|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.214_217delAGAAinsTGAC|p.ArgIle72*|214/669|214/669|72/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1397:1:18:0,-9.63917,-124.221 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
582 NC_045512.2 26758 . GAA TAC 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X1M1X;DP=38;DPB=38;DPRA=0;EPP=5.18177;EPPR=66.922;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.7329;PAIRED=0;PAIREDR=0.972973;PAO=0;PQA=0;PQR=0;PRO=0;QA=13;QR=1394;RO=37;RPL=1;RPP=5.18177;RPPR=5.88603;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=3.5385;SRR=17;TYPE=complex;ANN=TAC|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.236_238delGAAinsTAC|p.GlyIle79ValLeu|236/669|236/669|79/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:38:37,1:37:1394:1:13:0,-10.1391,-124.451 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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583 NC_045512.2 26803 . G T 2.85555E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=3.25157;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.2943;PAIRED=1;PAIREDR=0.972222;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1326;RO=36;RPL=1;RPP=5.18177;RPPR=81.1833;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=19;SRP=3.25157;SRR=17;TYPE=snp;ANN=T|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.281G>T|p.Ser94Ile|281/669|281/669|94/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1326:1:9:0,-10.2381,-118.734 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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584 NC_045512.2 26830 . T C 3.36816E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=5.18177;EPPR=37.7539;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=18.6749;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=608;RO=16;RPL=1;RPP=5.18177;RPPR=37.7539;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=37.7539;SRR=16;TYPE=snp;ANN=C|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.308T>C|p.Phe103Ser|308/669|308/669|103/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:17:16,1:16:608:1:38:0,-1.32024,-51.2631 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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585 NC_045512.2 26859 . A G 1.36409E-12 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=48.6112;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=28.7963;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=23;QR=797;RO=21;RPL=1;RPP=5.18177;RPPR=15.5221;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=5;SRP=15.5221;SRR=16;TYPE=snp;ANN=G|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.337A>G|p.Asn113Asp|337/669|337/669|113/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:797:1:23:0,-4.32275,-69.7582 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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586 NC_045512.2 26885 . C T 4.25981E-11 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=48.6112;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=25.3485;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=797;RO=21;RPL=1;RPP=5.18177;RPPR=15.5221;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=5;SRP=15.5221;SRR=16;TYPE=snp;ANN=T|synonymous_variant|LOW|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.363C>T|p.Asn121Asn|363/669|363/669|121/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:797:1:38:0,-2.82539,-68.2609 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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587 NC_045512.2 27032 . T C 2.43458E-5 . AB=0.0833333;ABP=21.1059;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=5.18177;EPPR=26.8965;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=12.0917;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=417;RO=11;RPL=0;RPP=5.18177;RPPR=3.20771;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=5;SRP=3.20771;SRR=6;TYPE=snp;ANN=C|synonymous_variant|LOW|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.510T>C|p.Val170Val|510/669|510/669|170/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:12:11,1:11:417:1:38:-0.184909,0,-34.2699 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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588 NC_045512.2 27126 . G T 2.44993E-8 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=5.18177;EPPR=4.78696;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=18.9932;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=414;RO=11;RPL=1;RPP=5.18177;RPPR=26.8965;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=4;SRP=4.78696;SRR=7;TYPE=snp;ANN=T|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.604G>T|p.Gly202Cys|604/669|604/669|202/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:12:11,1:11:414:1:8:0,-2.81236,-36.8111 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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589 NC_045512.2 27143 . C A 3.1823E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=59.7581;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.3995;PAIRED=1;PAIREDR=0.733333;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1036;RO=30;RPL=0;RPP=5.18177;RPPR=17.1973;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=23;SRP=21.5402;SRR=7;TYPE=snp;ANN=A|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.621C>A|p.Asn207Lys|621/669|621/669|207/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1036:1:34:0,-5.93302,-90.1485 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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590 NC_045512.2 27144 . A C 2.53593E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=7.35324;EPPR=68.1545;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=37.514;PAIRED=1;PAIREDR=0.733333;PAO=0;PQA=0;PQR=0;PRO=0;QA=43;QR=1025;RO=30;RPL=0;RPP=7.35324;RPPR=21.5402;RPR=2;RUN=1;SAF=2;SAP=7.35324;SAR=0;SRF=23;SRP=21.5402;SRR=7;TYPE=snp;ANN=C|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.622A>C|p.Thr208Pro|622/669|622/669|208/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:32:30,2:30:1025:2:43:0,-5.54848,-88.4685 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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591 NC_045512.2 27161 . C A 1.29584E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=5.18177;EPPR=107.241;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.9777;PAIRED=0;PAIREDR=0.854167;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1799;RO=48;RPL=0;RPP=5.18177;RPPR=55.3066;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=41;SRP=55.3066;SRR=7;TYPE=snp;ANN=A|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.639C>A|p.Ser213Arg|639/669|639/669|213/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:48,1:48:1799:1:38:0,-10.9532,-158.376 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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592 NC_045512.2 27171 . A G 1.29584E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=5.18177;EPPR=107.241;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=61.9777;PAIRED=1;PAIREDR=0.833333;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1811;RO=48;RPL=0;RPP=5.18177;RPPR=55.3066;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=41;SRP=55.3066;SRR=7;TYPE=snp;ANN=G|missense_variant|MODERATE|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.649A>G|p.Ile217Val|649/669|649/669|217/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:48,1:48:1811:1:38:0,-10.9532,-159.455 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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593 NC_045512.2 27191 . A T 3.07984E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=5.18177;EPPR=107.241;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=68.1884;PAIRED=0;PAIREDR=0.854167;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1821;RO=48;RPL=0;RPP=5.18177;RPPR=55.3066;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=41;SRP=55.3066;SRR=7;TYPE=snp;ANN=T|stop_lost&splice_region_variant|HIGH|M|GU280_gp05|transcript|GU280_gp05|protein_coding|1/1|c.669A>T|p.Ter223Tyrext*?|669/669|669/669|223/222|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:49:48,1:48:1821:1:11:0,-13.6505,-163.053 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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594 NC_045512.2 27196 . C G 1.64239E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=5.18177;EPPR=109.412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=63.3438;PAIRED=1;PAIREDR=0.836735;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1846;RO=49;RPL=1;RPP=5.18177;RPPR=63.6786;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=43;SRP=63.6786;SRR=6;TYPE=snp;ANN=G|upstream_gene_variant|MODIFIER|ORF6|GU280_gp06|transcript|GU280_gp06|protein_coding||c.-6C>G|||||6| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:49,1:49:1846:1:38:0,-11.2542,-162.603 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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595 NC_045512.2 27201 . G T 1.64239E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=5.18177;EPPR=109.412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=63.3438;PAIRED=1;PAIREDR=0.836735;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1858;RO=49;RPL=0;RPP=5.18177;RPPR=57.2971;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=42;SRP=57.2971;SRR=7;TYPE=snp;ANN=T|upstream_gene_variant|MODIFIER|ORF6|GU280_gp06|transcript|GU280_gp06|protein_coding||c.-1G>T|||||1| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:49,1:49:1858:1:38:0,-11.2542,-163.683 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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596 NC_045512.2 27206 . T C 1.97993E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=5.18177;EPPR=111.584;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=64.7103;PAIRED=1;PAIREDR=0.84;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1895;RO=50;RPL=0;RPP=5.18177;RPPR=59.2949;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=43;SRP=59.2949;SRR=7;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF6|GU280_gp06|transcript|GU280_gp06|protein_coding|1/1|c.5T>C|p.Phe2Ser|5/186|5/186|2/61|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:50,1:50:1895:1:38:0,-11.5553,-167.011 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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597 NC_045512.2 27212 . T A 1.64239E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=5.18177;EPPR=109.412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=63.3438;PAIRED=1;PAIREDR=0.836735;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1826;RO=49;RPL=0;RPP=5.18177;RPPR=63.6786;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=43;SRP=63.6786;SRR=6;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF6|GU280_gp06|transcript|GU280_gp06|protein_coding|1/1|c.11T>A|p.Leu4His|11/186|11/186|4/61|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:50:49,1:49:1826:1:38:0,-11.2542,-160.808 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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598 NC_045512.2 27217 . G T 2.77291E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=5.18177;EPPR=84.1269;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=57.882;PAIRED=1;PAIREDR=0.822222;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1659;RO=45;RPL=0;RPP=5.18177;RPPR=100.727;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=43;SRP=84.1269;SRR=2;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF6|GU280_gp06|transcript|GU280_gp06|protein_coding|1/1|c.16G>T|p.Asp6Tyr|16/186|16/186|6/61|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:46:45,1:45:1659:1:38:0,-10.0501,-145.779 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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599 NC_045512.2 27337 . G T 2.85084E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=7.35324;EPPR=155.459;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=93.6103;PAIRED=1;PAIREDR=0.897436;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2943;RO=78;RPL=1;RPP=3.0103;RPPR=3.45573;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=43;SRP=4.79202;SRR=35;TYPE=snp;ANN=T|stop_gained|HIGH|ORF6|GU280_gp06|transcript|GU280_gp06|protein_coding|1/1|c.136G>T|p.Glu46*|136/186|136/186|46/61|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:78,2:78:2943:2:76:0,-16.8676,-257.847 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
600 NC_045512.2 27361 . G T 8.03175E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=5.18177;EPPR=174.557;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=110.904;PAIRED=1;PAIREDR=0.898734;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=2968;RO=79;RPL=1;RPP=5.18177;RPPR=4.35716;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=43;SRP=4.35716;SRR=36;TYPE=snp;ANN=T|stop_gained|HIGH|ORF6|GU280_gp06|transcript|GU280_gp06|protein_coding|1/1|c.160G>T|p.Glu54*|160/186|160/186|54/61|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:79,1:79:2968:1:10:0,-23.0824,-266.31 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
601 NC_045512.2 27423 . A T 1.06982E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=5.18177;EPPR=4.35716;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=111.134;PAIRED=0;PAIREDR=0.911392;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=2940;RO=79;RPL=1;RPP=5.18177;RPPR=174.557;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=43;SRP=4.35716;SRR=36;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF7a|GU280_gp07|transcript|GU280_gp07|protein_coding|1/1|c.30A>T|p.Ile10Ile|30/366|30/366|10/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:80:79,1:79:2940:1:9:0,-23.1824,-263.898 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
602 NC_045512.2 27476 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=5.18177;EPPR=69.0688;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.5537;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=1443;RO=38;RPL=1;RPP=5.18177;RPPR=77.0689;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=3;SRP=61.5258;SRR=35;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF7a|GU280_gp07|transcript|GU280_gp07|protein_coding|1/1|c.83C>A|p.Thr28Lys|83/366|83/366|28/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:39:38,1:38:1443:1:11:0,-10.6402,-129.057 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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603 NC_045512.2 27530 . T G 2.17147E-10 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=3;CIGAR=1X;DP=29;DPB=29;DPRA=0;EPP=9.52472;EPPR=59.4686;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=23.7194;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=89;QR=884;RO=26;RPL=3;RPP=9.52472;RPPR=51.1168;RPR=0;RUN=1;SAF=0;SAP=9.52472;SAR=3;SRF=1;SRP=51.1168;SRR=25;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF7a|GU280_gp07|transcript|GU280_gp07|protein_coding|1/1|c.137T>G|p.Phe46Cys|137/366|137/366|46/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:29:26,3:26:884:3:89:0,-0.42483,-71.5687 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
604 NC_045512.2 27531 . T G 1.27668E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=5.18177;EPPR=48.6112;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=31.329;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=12;QR=696;RO=21;RPL=1;RPP=5.18177;RPPR=40.3389;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=1;SRP=40.3389;SRR=20;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF7a|GU280_gp07|transcript|GU280_gp07|protein_coding|1/1|c.138T>G|p.Phe46Leu|138/366|138/366|46/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:22:21,1:21:696:1:12:0,-5.42267,-61.7502 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
605 NC_045512.2 27758 . G T 28.9582 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=1;CIGAR=1X;DP=1;DPB=1;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=5.99146;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=0;RO=0;RPL=1;RPP=5.18177;RPPR=0;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|stop_lost&splice_region_variant|HIGH|ORF7a|GU280_gp07|transcript|GU280_gp07|protein_coding|1/1|c.365G>T|p.Ter122Leuext*?|365/366|365/366|122/121|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:1:0,1:0:0:1:38:-3.79727,-0.30103,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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606 NC_045512.2 27841 . G T 2.35057E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=34;DPB=34;DPRA=0;EPP=5.18177;EPPR=66.2462;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=41.5487;PAIRED=1;PAIREDR=0.878788;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1235;RO=33;RPL=1;RPP=5.18177;RPPR=74.6689;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=32;SRP=66.2462;SRR=1;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF7b|GU280_gp08|transcript|GU280_gp08|protein_coding|1/1|c.86G>T|p.Trp29Leu|86/132|86/132|29/43|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:34:33,1:33:1235:1:38:0,-6.43775,-107.65 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
607 NC_045512.2 27880 . ACG AG 106.243 . AB=0.2;ABP=53.8228;AC=1;AF=0.5;AN=2;AO=13;CIGAR=1M1D1M;DP=65;DPB=60.6667;DPRA=0;EPP=3.17734;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=24.4634;PAIRED=0.923077;PAIREDR=0.865385;PAO=0;PQA=0;PQR=0;PRO=0;QA=483;QR=1851;RO=52;RPL=0;RPP=31.2394;RPPR=115.927;RPR=13;RUN=1;SAF=7;SAP=3.17734;SAR=6;SRF=26;SRP=3.0103;SRR=26;TYPE=del;ANN=AG|frameshift_variant|HIGH|ORF7b|GU280_gp08|transcript|GU280_gp08|protein_coding|1/1|c.126delC|p.His42fs|126/132|126/132|42/43|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:65:52,13:52:1851:13:483:-24.247,0,-147.281 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
608 NC_045512.2 27890 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=5.18177;EPPR=3.04371;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=88.9249;PAIRED=0;PAIREDR=0.876923;PAO=0;PQA=0;PQR=0;PRO=0;QA=22;QR=2360;RO=65;RPL=0;RPP=5.18177;RPPR=144.156;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=33;SRP=3.04371;SRR=32;TYPE=snp;ANN=T|upstream_gene_variant|MODIFIER|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding||c.-4G>T|||||4| GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:65,1:65:2360:1:22:0,-17.668,-210.425 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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609 NC_045512.2 27920 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=74.5896;PAIRED=1;PAIREDR=0.859375;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2388;RO=64;RPL=0;RPP=7.35324;RPPR=141.985;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=32;SRP=3.0103;SRR=32;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.27C>A|p.Ile9Ile|27/366|27/366|9/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:64,2:64:2388:2:76:0,-12.6532,-207.93 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
610 NC_045512.2 27944 . C T 111.113 . AB=0.19697;ABP=55.6521;AC=1;AF=0.5;AN=2;AO=13;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=31.2394;EPPR=93.5156;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=25.5848;PAIRED=0.923077;PAIREDR=0.849057;PAO=0;PQA=0;PQR=0;PRO=0;QA=494;QR=1957;RO=53;RPL=7;RPP=3.17734;RPPR=5.01789;RPR=6;RUN=1;SAF=7;SAP=3.17734;SAR=6;SRF=26;SRP=3.05127;SRR=27;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.51C>T|p.His17His|51/366|51/366|17/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:66:53,13:53:1957:13:494:-24.9398,0,-156.512 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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611 NC_045512.2 27972 . C T 2074.42 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=66;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=121.454;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=96.1006;PAIRED=0.863636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2494;QR=0;RO=0;RPL=32;RPP=3.1419;RPPR=0;RPR=34;RUN=1;SAF=33;SAP=3.0103;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|stop_gained|HIGH|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.79C>T|p.Gln27*|79/366|79/366|27/121|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66:0:0:66:2494:-224.681,-19.868,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
612 NC_045512.2 27998 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=7.35324;EPPR=109.412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=80.3403;PAIRED=0;PAIREDR=0.890625;PAO=0;PQA=0;PQR=0;PRO=0;QA=56;QR=2396;RO=64;RPL=0;RPP=7.35324;RPPR=4.23175;RPR=2;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=33;SRP=3.14602;SRR=31;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.105C>A|p.Asp35Glu|105/366|105/366|35/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:64,2:64:2396:2:56:0,-14.5486,-210.548 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
613 NC_045512.2 28014 . T A 1.16329E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=3.0103;EPPR=52.0041;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=74.5896;PAIRED=1;PAIREDR=0.859375;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2391;RO=64;RPL=2;RPP=7.35324;RPPR=25.9465;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=32;SRP=3.0103;SRR=32;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.121T>A|p.Phe41Ile|121/366|121/366|41/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:64,2:64:2391:2:76:0,-12.6532,-208.2 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
614 NC_045512.2 28016 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=5.18177;EPPR=43.9342;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=91.4576;PAIRED=0;PAIREDR=0.876923;PAO=0;PQA=0;PQR=0;PRO=0;QA=11;QR=2432;RO=65;RPL=0;RPP=5.18177;RPPR=35.1147;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=33;SRP=3.04371;SRR=32;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.123C>A|p.Phe41Leu|123/366|123/366|41/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:65,1:65:2432:1:11:0,-18.768,-218.004 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
615 NC_045512.2 28043 . A T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=74.5896;PAIRED=1;PAIREDR=0.859375;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=2358;RO=64;RPL=2;RPP=7.35324;RPPR=141.985;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=32;SRP=3.0103;SRR=32;TYPE=snp;ANN=T|synonymous_variant|LOW|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.150A>T|p.Gly50Gly|150/366|150/366|50/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:64,2:64:2358:2:76:0,-12.6532,-205.239 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
616 NC_045512.2 28048 . G T 2005.51 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=66;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=96.1006;PAIRED=0.863636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2469;QR=0;RO=0;RPL=66;RPP=146.327;RPPR=0;RPR=0;RUN=1;SAF=33;SAP=3.0103;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.155G>T|p.Arg52Ile|155/366|155/366|52/121|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:66:0,66:0:0:66:2469:-222.438,-19.868,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
617 NC_045512.2 28077 . GTGG TTGA 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X2M1X;DP=66;DPB=66;DPRA=0;EPP=5.18177;EPPR=3.04371;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=90.997;PAIRED=1;PAIREDR=0.861538;PAO=0;PQA=0;PQR=0;PRO=0;QA=13;QR=2271;RO=65;RPL=1;RPP=5.18177;RPPR=144.156;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=32;SRP=3.04371;SRR=33;TYPE=complex;ANN=TTGA|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.184_187delGTGGinsTTGA|p.ValAsp62LeuAsn|184/366|184/366|62/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:66:65,1:65:2271:1:13:0,-18.568,-203.328 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
|
618 NC_045512.2 28087 . C A 1.28381E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=5.18177;EPPR=73.4498;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=74.2857;PAIRED=1;PAIREDR=0.877193;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2115;RO=57;RPL=1;RPP=5.18177;RPPR=19.8106;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=25;SRP=4.877;SRR=32;TYPE=snp;ANN=A|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.194C>A|p.Ala65Asp|194/366|194/366|65/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:58:57,1:57:2115:1:38:0,-13.6625,-186.803 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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619 NC_045512.2 28111 . A G 1843.24 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=59;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=114.344;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=86.3965;PAIRED=0.881356;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2233;QR=0;RO=0;RPL=34;RPP=5.99147;RPPR=0;RPR=25;RUN=1;SAF=27;SAP=3.93042;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.218A>G|p.Tyr73Cys|218/366|218/366|73/121|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:59:0,59:0:0:59:2233:-201.207,-17.7608,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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620 NC_045512.2 28121 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=5.18177;EPPR=112.183;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=75.6549;PAIRED=0;PAIREDR=0.896552;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=2196;RO=58;RPL=1;RPP=5.18177;RPPR=5.40641;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=3.60933;SRR=31;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.228C>A|p.Ile76Ile|228/366|228/366|76/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:59:58,1:58:2196:1:38:0,-13.9635,-194.082 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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621 NC_045512.2 28160 . T G 4.77691E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=5.18177;EPPR=97.0649;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=72.9786;PAIRED=1;PAIREDR=0.862745;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1869;RO=51;RPL=0;RPP=5.18177;RPPR=5.09662;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=3.3935;SRR=24;TYPE=snp;ANN=G|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.267T>G|p.Asn89Lys|267/366|267/366|89/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:52:51,1:51:1869:1:8:0,-14.8536,-167.662 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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622 NC_045512.2 28166 . G A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=5.18177;EPPR=14.0512;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=100.149;PAIRED=1;PAIREDR=0.887324;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=2570;RO=71;RPL=0;RPP=5.18177;RPPR=40.4758;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=27;SRP=11.8491;SRR=44;TYPE=snp;ANN=A|synonymous_variant|LOW|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.273G>A|p.Gln91Gln|273/366|273/366|91/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:72:71,1:71:2570:1:9:0,-20.7742,-230.62 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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623 NC_045512.2 28230 . G T 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=54;DPB=54;DPRA=0;EPP=5.18177;EPPR=3.05127;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=70.6488;PAIRED=0;PAIREDR=0.962264;PAO=0;PQA=0;PQR=0;PRO=0;QA=30;QR=1989;RO=53;RPL=1;RPP=5.18177;RPPR=118.098;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=26;SRP=3.05127;SRR=27;TYPE=snp;ANN=T|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.337G>T|p.Asp113Tyr|337/366|337/366|113/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:54:53,1:53:1989:1:30:0,-13.2561,-176.261 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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624 NC_045512.2 28237 . G C 1.5522E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=54;DPB=54;DPRA=0;EPP=7.35324;EPPR=51.2838;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.3588;PAIRED=1;PAIREDR=0.942308;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1895;RO=52;RPL=1;RPP=3.0103;RPPR=16.5402;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=26;SRP=3.0103;SRR=26;TYPE=snp;ANN=C|missense_variant|MODERATE|ORF8|GU280_gp09|transcript|GU280_gp09|protein_coding|1/1|c.344G>C|p.Arg115Pro|344/366|344/366|115/121|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:54:52,2:52:1895:2:76:0,-9.04081,-163.585 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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625 NC_045512.2 28262 . G T 1.5369E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=2;CIGAR=1X;DP=54;DPB=54;DPRA=0;EPP=7.35324;EPPR=99.2232;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=58.3588;PAIRED=1;PAIREDR=0.942308;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=1937;RO=52;RPL=1;RPP=3.0103;RPPR=3.67845;RPR=1;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=26;SRP=3.0103;SRR=26;TYPE=snp;ANN=T|upstream_gene_variant|MODIFIER|N|GU280_gp10|transcript|GU280_gp10|protein_coding||c.-12G>T|||||12| GT:DP:AD:RO:QR:AO:QA:GL 0/0:54:52,2:52:1937:2:76:0,-9.04081,-167.369 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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626 NC_045512.2 28270 . TAAAATG TAAATG 1662.37 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=54;CIGAR=1M1D5M;DP=54;DPB=46.2857;DPRA=0;EPP=103.541;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=79.4651;PAIRED=0.944444;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2012;QR=0;RO=0;RPL=25;RPP=3.6537;RPPR=0;RPR=29;RUN=1;SAF=27;SAP=3.0103;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=del;ANN=TAAATG|frameshift_variant&start_lost|HIGH|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.1delA|p.Met1fs|1/1260|1/1260|1/419||INFO_REALIGN_3_PRIME GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54:0:0:54:2012:-181.332,-16.2556,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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627 NC_045512.2 28280 . GAT CTA 1683.06 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=54;CIGAR=3X;DP=54;DPB=54;DPRA=0;EPP=103.541;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=79.4651;PAIRED=0.944444;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2035;QR=0;RO=0;RPL=25;RPP=3.6537;RPPR=0;RPR=29;RUN=1;SAF=27;SAP=3.0103;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=complex;ANN=CTA|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.7_9delGATinsCTA|p.Asp3Leu|7/1260|7/1260|3/419|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:54:0,54:0:0:54:2035:-183.402,-16.2556,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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628 NC_045512.2 28349 . A C 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=54;DPB=54;DPRA=0;EPP=5.18177;EPPR=3.05127;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=75.9437;PAIRED=0;PAIREDR=0.962264;PAO=0;PQA=0;PQR=0;PRO=0;QA=7;QR=1959;RO=53;RPL=1;RPP=5.18177;RPPR=118.098;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=26;SRP=3.05127;SRR=27;TYPE=snp;ANN=C|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.76A>C|p.Ser26Arg|76/1260|76/1260|26/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:54:53,1:53:1959:1:7:0,-15.5556,-175.864 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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629 NC_045512.2 28372 . TGGGGCGCGA TGGGCGCGA,TGGGTCGCGA,TGGGGCGCTA 8.14122E-16 . AB=0,0,0;ABP=0,0,0;AC=0,0,0;AF=0,0,0;AN=2;AO=1,2,1;CIGAR=1M1D8M,4M1X5M,8M1X1M;DP=51;DPB=50.9;DPRA=0,0,0;EPP=5.18177,3.0103,5.18177;EPPR=3.42611;GTI=0;LEN=1,1,1;MEANALT=3,3,3;MQM=60,60,60;MQMR=60;NS=1;NUMALT=3;ODDS=52.5891;PAIRED=0,1,0;PAIREDR=1;PAO=0,0,0;PQA=0,0,0;PQR=0;PRO=0;QA=35,75,20;QR=1688;RO=47;RPL=1,2,1;RPP=5.18177,7.35324,5.18177;RPPR=105.07;RPR=0,0,0;RUN=1,1,1;SAF=0,1,1;SAP=5.18177,3.0103,5.18177;SAR=1,1,0;SRF=22;SRP=3.42611;SRR=25;TYPE=del,snp,snp;ANN=TGGGCGCGA|frameshift_variant|HIGH|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.103delG|p.Ala35fs|103/1260|103/1260|35/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:51:47,1,2,1:47:1688:1,2,1:35,75,20:0,-11.2923,-148.717,-7.95497,-142.874,-145.119,-12.6911,-147.522,-144.226,-150.069 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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630 NC_045512.2 28435 . C A 9.58348E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=5.18177;EPPR=88.4369;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=60.612;PAIRED=0;PAIREDR=0.957447;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=1781;RO=47;RPL=0;RPP=5.18177;RPPR=8.60069;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=20;SRP=5.27418;SRR=27;TYPE=snp;ANN=A|synonymous_variant|LOW|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.162C>A|p.Thr54Thr|162/1260|162/1260|54/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:48:47,1:47:1781:1:38:0,-10.6522,-156.758 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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631 NC_045512.2 28461 . A C 1.10297E-14 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=43;DPB=43;DPRA=0;EPP=5.18177;EPPR=94.2121;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=54.7078;PAIRED=1;PAIREDR=0.928571;PAO=0;PQA=0;PQR=0;PRO=0;QA=34;QR=1493;RO=42;RPL=1;RPP=5.18177;RPPR=3.83753;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.83753;SRR=23;TYPE=snp;ANN=C|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.188A>C|p.Asp63Ala|188/1260|188/1260|63/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:43:42,1:42:1493:1:34:0,-9.54538,-131.258 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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632 NC_045512.2 28494 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=3.25157;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.5245;PAIRED=0;PAIREDR=0.944444;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1268;RO=36;RPL=0;RPP=5.18177;RPPR=81.1833;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.25157;SRR=17;TYPE=snp;ANN=G|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.221T>G|p.Ile74Ser|221/1260|221/1260|74/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1268:1:8:0,-10.3381,-113.603 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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633 NC_045512.2 28501 . C A 1.81047E-16 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=3.25157;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.064;PAIRED=0;PAIREDR=0.944444;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=1335;RO=36;RPL=0;RPP=5.18177;RPPR=81.1833;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.25157;SRR=17;TYPE=snp;ANN=A|synonymous_variant|LOW|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.228C>A|p.Thr76Thr|228/1260|228/1260|76/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1335:1:10:0,-10.1381,-119.443 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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634 NC_045512.2 28627 . A G 4.1589E-15 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=32.2045;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=49.3011;PAIRED=1;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=22;QR=1363;RO=36;RPL=1;RPP=5.18177;RPPR=18.4519;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=19;SRP=3.25157;SRR=17;TYPE=snp;ANN=G|synonymous_variant|LOW|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.354A>G|p.Glu118Glu|354/1260|354/1260|118/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1363:1:22:0,-8.93818,-120.762 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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635 NC_045512.2 28648 . T G 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=5.18177;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=52.5245;PAIRED=1;PAIREDR=0.916667;PAO=0;PQA=0;PQR=0;PRO=0;QA=8;QR=1362;RO=36;RPL=1;RPP=5.18177;RPPR=81.1833;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=18;SRP=3.0103;SRR=18;TYPE=snp;ANN=G|synonymous_variant|LOW|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.375T>G|p.Ala125Ala|375/1260|375/1260|125/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:37:36,1:36:1362:1:8:0,-10.3381,-122.073 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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636 NC_045512.2 28719 . G A 7.6429E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=5.18177;EPPR=55.1256;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=29.3796;PAIRED=1;PAIREDR=0.958333;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=908;RO=24;RPL=0;RPP=5.18177;RPPR=16.0391;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=6;SRP=16.0391;SRR=18;TYPE=snp;ANN=A|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.446G>A|p.Arg149His|446/1260|446/1260|149/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:25:24,1:24:908:1:38:0,-3.72848,-78.2437 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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637 NC_045512.2 28739 . G T 36.6325 . AB=0.24;ABP=17.6895;AC=1;AF=0.5;AN=2;AO=6;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=16.0391;EPPR=44.2683;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=8.43473;PAIRED=1;PAIREDR=0.947368;PAO=0;PQA=0;PQR=0;PRO=0;QA=228;QR=721;RO=19;RPL=6;RPP=16.0391;RPPR=5.8675;RPR=0;RUN=1;SAF=0;SAP=16.0391;SAR=6;SRF=7;SRP=5.8675;SRR=12;TYPE=snp;ANN=T|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.466G>T|p.Ala156Ser|466/1260|466/1260|156/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:25:19,6:19:721:6:228:-13.3592,0,-57.6973 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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638 NC_045512.2 28767 . C A 0.0 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=5.18177;EPPR=26.4622;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=44.1534;PAIRED=1;PAIREDR=0.966667;PAO=0;PQA=0;PQR=0;PRO=0;QA=9;QR=1120;RO=30;RPL=0;RPP=5.18177;RPPR=4.16842;RPR=1;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=21.5402;SRR=23;TYPE=snp;ANN=A|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.494C>A|p.Thr165Lys|494/1260|494/1260|165/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:31:30,1:30:1120:1:9:0,-8.43193,-100.207 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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639 NC_045512.2 28771 . ATTGC ATTTGC 1.96799E-13 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1M1I4M;DP=26;DPB=26.2;DPRA=0;EPP=5.18177;EPPR=13.5202;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=30.7266;PAIRED=1;PAIREDR=0.96;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=889;RO=25;RPL=1;RPP=5.18177;RPPR=3.79203;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=7;SRP=13.5202;SRR=18;TYPE=ins;ANN=ATTTGC|frameshift_variant|HIGH|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.500dupT|p.Leu167fs|501/1260|501/1260|167/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:26:25,1:25:889:1:38:0,-4.02951,-76.5246 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
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changeset
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640 NC_045512.2 28881 . GGG AAC 423.825 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=14;CIGAR=3X;DP=14;DPB=14;DPRA=0;EPP=33.4109;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=24.0133;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=529;QR=0;RO=0;RPL=7;RPP=3.0103;RPPR=0;RPR=7;RUN=1;SAF=7;SAP=3.0103;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=complex;ANN=AAC|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.608_610delGGGinsAAC|p.ArgGly203LysArg|608/1260|608/1260|203/419|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:14:0,14:0:0:14:529:-47.9547,-4.21442,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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641 NC_045512.2 28923 . C A 0.0150634 . AB=0.142857;ABP=18.5208;AC=1;AF=0.5;AN=2;AO=2;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=5.6623;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=76;QR=448;RO=12;RPL=2;RPP=7.35324;RPPR=29.068;RPR=0;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=6;SRP=3.0103;SRR=6;TYPE=snp;ANN=A|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.650C>A|p.Ala217Asp|650/1260|650/1260|217/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/1:14:12,2:12:448:2:76:-3.00039,0,-36.4527 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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642 NC_045512.2 28942 . G T 7.11169E-9 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=5.18177;EPPR=3.17734;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=20.2301;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=14;QR=476;RO=13;RPL=1;RPP=5.18177;RPPR=31.2394;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=6;SRP=3.17734;SRR=7;TYPE=snp;ANN=T|synonymous_variant|LOW|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.669G>T|p.Leu223Leu|669/1260|669/1260|223/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:14:13,1:13:476:1:14:0,-2.81443,-41.7784 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
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changeset
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643 NC_045512.2 28977 . C T 400.315 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=14;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=24.0133;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=503;QR=0;RO=0;RPL=14;RPP=33.4109;RPPR=0;RPR=0;RUN=1;SAF=7;SAP=3.0103;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;ANN=T|missense_variant|MODERATE|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.704C>T|p.Ser235Phe|704/1260|704/1260|235/419|| GT:DP:AD:RO:QR:AO:QA:GL 1/1:14:0,14:0:0:14:503:-45.6037,-4.21442,0 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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644 NC_045512.2 29438 . C T 5.172E-5 . AB=0;ABP=0;AC=0;AF=0;AN=2;AO=1;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=5.18177;EPPR=3.25157;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=11.3382;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=30;QR=336;RO=9;RPL=0;RPP=5.18177;RPPR=22.5536;RPR=1;RUN=1;SAF=1;SAP=5.18177;SAR=0;SRF=4;SRP=3.25157;SRR=5;TYPE=snp;ANN=T|stop_gained|HIGH|N|GU280_gp10|transcript|GU280_gp10|protein_coding|1/1|c.1165C>T|p.Gln389*|1165/1260|1165/1260|389/419|| GT:DP:AD:RO:QR:AO:QA:GL 0/0:10:9,1:9:336:1:30:0,-0.0107335,-27.5939 |
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6ddf5a9ce4a5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lineagespot commit 0bc6ed15054577af1089d55ef9aa1071d122eb6b
iuc
parents:
diff
changeset
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645 NC_045512.2 29682 . TAATC TATC 0.1631 . AB=0.2;ABP=6.91895;AC=1;AF=0.5;AN=2;AO=1;CIGAR=1M1D3M;DP=5;DPB=4.8;DPRA=0;EPP=5.18177;EPPR=11.6962;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=3.26311;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=38;QR=151;RO=4;RPL=1;RPP=5.18177;RPPR=11.6962;RPR=0;RUN=1;SAF=0;SAP=5.18177;SAR=1;SRF=0;SRP=11.6962;SRR=4;TYPE=del;ANN=TATC|downstream_gene_variant|MODIFIER|S|GU280_gp02|transcript|GU280_gp02|protein_coding||c.*4300delA|||||4300| GT:DP:AD:RO:QR:AO:QA:GL 0/1:5:4,1:4:151:1:38:-2.29212,0,-12.4528 |