Mercurial > repos > bgruening > repeat_masker

annotate test-data/small_dfam_up.fasta.stats @ 12:39b40a9a6296 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit 2f2463888c41a99aec46d4da0eb0ac66cbc20889"
author iuc
date Fri, 27 Aug 2021 09:16:08 +0000
parents 72aade318318
children 7563ea7a922d
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rev   line source
10
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
diff changeset
1 ==================================================
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
diff changeset
2 file name: rm_input.fasta
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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3 sequences: 1
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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4 total length: 14220 bp (14220 bp excl N/X-runs)
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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5 GC level: 39.94 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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6 bases masked: 378 bp ( 2.66 %)
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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7 ==================================================
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
diff changeset
8 number of length percentage
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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9 elements* occupied of sequence
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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10 --------------------------------------------------
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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11 SINEs: 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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12 Alu/B1 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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13 B2-B4 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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14 IDs 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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15 MIRs 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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16
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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17 LINEs: 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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18 LINE1 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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19 LINE2 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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20 L3/CR1 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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21
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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22 LTR elements: 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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23 ERVL 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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24 ERVL-MaLRs 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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25 ERV_classI 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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26 ERV_classII 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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27
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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28 DNA elements: 0 0bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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29 hAT-Charlie 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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30 TcMar-Tigger 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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31
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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32 Unclassified: 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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33
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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34 Total interspersed repeats: 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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35
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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36
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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37 Small RNA: 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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38
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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39 Satellites: 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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40 Simple repeats: 7 378 bp 2.66 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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41 Low complexity: 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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42 ==================================================
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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43
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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44 * most repeats fragmented by insertions or deletions
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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45 have been counted as one element
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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46 Runs of >=20 X/Ns in query were excluded in % calcs
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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47
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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48
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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49 The query species was assumed to be rodent
11
72aade318318 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit c4bf14b461856220df4b4bbdbb4b9bbad1ff8749"
iuc
parents: 10
diff changeset
50 RepeatMasker version 4.1.2-p1 , default mode
72aade318318 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit c4bf14b461856220df4b4bbdbb4b9bbad1ff8749"
iuc
parents: 10
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51
10
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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52 run with rmblastn version 2.10.0+
11
72aade318318 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit c4bf14b461856220df4b4bbdbb4b9bbad1ff8749"
iuc
parents: 10
diff changeset
53 FamDB: CONS-_