Mercurial > repos > bgruening > repeat_masker
annotate test-data/small_repbase.fasta.stats @ 4:04f5c3d7448e draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
author | iuc |
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date | Fri, 04 May 2018 07:59:50 -0400 |
parents | |
children | 438f65cb1d14 |
rev | line source |
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4
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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1 ================================================== |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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2 file name: rm_input.fasta |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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changeset
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3 sequences: 1 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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4 total length: 14220 bp (14220 bp excl N/X-runs) |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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5 GC level: 39.94 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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6 bases masked: 378 bp ( 2.66 %) |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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7 ================================================== |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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8 number of length percentage |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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9 elements* occupied of sequence |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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10 -------------------------------------------------- |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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11 Retroelements 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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changeset
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12 SINEs: 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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changeset
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13 Penelope 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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14 LINEs: 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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changeset
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15 CRE/SLACS 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
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16 L2/CR1/Rex 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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17 R1/LOA/Jockey 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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18 R2/R4/NeSL 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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19 RTE/Bov-B 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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20 L1/CIN4 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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21 LTR elements: 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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22 BEL/Pao 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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23 Ty1/Copia 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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24 Gypsy/DIRS1 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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25 Retroviral 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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26 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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27 DNA transposons 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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changeset
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28 hobo-Activator 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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29 Tc1-IS630-Pogo 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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30 En-Spm 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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31 MuDR-IS905 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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32 PiggyBac 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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33 Tourist/Harbinger 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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34 Other (Mirage, 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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35 P-element, Transib) |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
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36 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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37 Rolling-circles 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
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38 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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39 Unclassified: 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
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40 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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41 Total interspersed repeats: 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
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42 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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43 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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44 Small RNA: 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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45 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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46 Satellites: 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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47 Simple repeats: 7 378 bp 2.66 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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48 Low complexity: 0 0 bp 0.00 % |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
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49 ================================================== |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
changeset
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50 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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51 * most repeats fragmented by insertions or deletions |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
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52 have been counted as one element |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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53 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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54 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
diff
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55 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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changeset
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56 The query species was assumed to be anopheles genus |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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57 RepeatMasker Combined Database: Dfam_Consensus-20170127 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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58 |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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59 run with rmblastn version 2.2.27+ |
04f5c3d7448e
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit cbba6947f1380751e1db3fa5b043af630523fd86
iuc
parents:
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60 |