Mercurial > repos > bgruening > repeat_masker
annotate test-data/small.fasta.stats @ 8:ade773848c3d draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit b0aaae4488b95b54eaf85010f999b2638dfadd3e"
author | iuc |
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date | Thu, 23 Jan 2020 04:40:29 -0500 |
parents | 04f5c3d7448e |
children | 438f65cb1d14 |
rev | line source |
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3
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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1 ================================================== |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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2 file name: dataset_12.dat |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
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3 sequences: 1 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
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4 total length: 14220 bp (14220 bp excl N/X-runs) |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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5 GC level: 39.94 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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6 bases masked: 378 bp ( 2.66 %) |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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7 ================================================== |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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8 number of length percentage |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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9 elements* occupied of sequence |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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10 -------------------------------------------------- |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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11 SINEs: 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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12 ALUs 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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13 MIRs 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
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14 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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15 LINEs: 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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16 LINE1 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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17 LINE2 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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18 L3/CR1 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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19 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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20 LTR elements: 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
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changeset
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21 ERVL 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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22 ERVL-MaLRs 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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23 ERV_classI 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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24 ERV_classII 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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25 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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26 DNA elements: 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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27 hAT-Charlie 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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28 TcMar-Tigger 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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29 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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30 Unclassified: 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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31 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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32 Total interspersed repeats: 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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33 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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34 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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35 Small RNA: 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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36 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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37 Satellites: 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
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38 Simple repeats: 8 378 bp 2.66 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
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39 Low complexity: 0 0 bp 0.00 % |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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40 ================================================== |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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41 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
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42 * most repeats fragmented by insertions or deletions |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
changeset
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43 have been counted as one element |
4
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
3
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44 Runs of >=20 X/Ns in query were excluded in % calcs |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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45 |
3
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
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46 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
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47 The query species was assumed to be homo |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
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48 RepeatMasker Combined Database: Dfam_Consensus-20170127 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
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49 |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
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50 run with rmblastn version 2.2.27+ |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
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51 The query was compared to unclassified sequences in ".../dataset_2.dat" |
bdfc22c1c3e3
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 8dacb4321122d92df0983e0794cf23572be03224
iuc
parents:
diff
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52 |