Mercurial > repos > yating-l > hubarchivecreator_test
comparison hub-archive-creator/trf_simpleRepeat.as @ 6:9193fe3ee73f draft default tip
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| author | yating-l |
|---|---|
| date | Thu, 22 Dec 2016 15:59:24 -0500 |
| parents | |
| children |
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| 5:48d7b2dddae6 | 6:9193fe3ee73f |
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| 1 table simpleRepeat | |
| 2 "Describes the Simple Tandem Repeats" | |
| 3 ( | |
| 4 string chrom; "Reference sequence chromosome or scaffold" | |
| 5 uint chromStart; "Start position in chromosome" | |
| 6 uint chromEnd; "End position in chromosome" | |
| 7 string name; "Simple Repeats tag name" | |
| 8 uint period; "Length of repeat unit" | |
| 9 float copyNum; "Mean number of copies of repeat" | |
| 10 uint consensusSize; "Length of consensus sequence" | |
| 11 uint perMatch; "Percentage Match" | |
| 12 uint perIndel; "Percentage Indel" | |
| 13 uint score; "Alignment Score = 2*match-7*mismatch-7*indel; minscore=50" | |
| 14 uint A; "Percent of A's in repeat unit" | |
| 15 uint C; "Percent of C's in repeat unit" | |
| 16 uint G; "Percent of G's in repeat unit" | |
| 17 uint T; "Percent of T's in repeat unit" | |
| 18 float entropy; "Entropy" | |
| 19 lstring sequence; "Sequence of repeat unit element" | |
| 20 ) |