Mercurial > repos > bgruening > repeat_masker

annotate test-data/small_dfam.fasta.stats @ 15:ba6d2c32f797 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit 7a5f368a5859e659aa36d0358bb96ca12574e2cc
author iuc
date Mon, 24 Apr 2023 10:41:00 +0000
parents 7563ea7a922d
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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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
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2 file name: rm_input.fasta
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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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
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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
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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
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6 bases masked: 449 bp ( 3.16 %)
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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7 ==================================================
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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8 number of length percentage
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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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
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10 --------------------------------------------------
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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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 ALUs 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 MIRs 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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14
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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15 LINEs: 1 71 bp 0.50 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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16 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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17 LINE2 1 71 bp 0.50 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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18 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
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19
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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20 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
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21 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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22 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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23 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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24 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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25
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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26 DNA elements: 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 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
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28 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
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29
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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30 Unclassified: 0 0 bp 0.00 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
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bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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32 Total interspersed repeats: 71 bp 0.50 %
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
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33
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
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bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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35 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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36
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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37 Satellites: 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 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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39 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
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40 ==================================================
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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41
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
parents:
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42 * 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
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43 have been counted as one element
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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44 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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45
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
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46
bfc70c8cc5ca "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 69abffb867af7c4329eaa513201bd6626ac39cbf"
iuc
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47 The query species was assumed to be human
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7563ea7a922d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit 7a5f368a5859e659aa36d0358bb96ca12574e2cc
iuc
parents: 11
diff changeset
48 RepeatMasker version 4.1.5 , default mode
7563ea7a922d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit 7a5f368a5859e659aa36d0358bb96ca12574e2cc
iuc
parents: 11
diff changeset
49
7563ea7a922d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit 7a5f368a5859e659aa36d0358bb96ca12574e2cc
iuc
parents: 11
diff changeset
50 run with rmblastn version 2.13.0+
7563ea7a922d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit 7a5f368a5859e659aa36d0358bb96ca12574e2cc
iuc
parents: 11
diff changeset
51 FamDB: CONS-Dfam_3.7