Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: scaffold_3746 Parameters: 2 7 7 80 10 50 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 17395 ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32 Found at i:4815 original size:24 final size:22 Alignment explanation
Indices: 4787--4834 Score: 60 Period size: 23 Copynumber: 2.1 Consensus size: 22 4777 TTAAAACTCC 4787 TTCTAAAGAAAACTCAAGAGAAAA 1 TTCT-AAGAAAACTCAA-AGAAAA * * 4811 TTCTAGGAGAACTCAAAGAAAA 1 TTCTAAGAAAACTCAAAGAAAA 4833 TT 1 TT 4835 TTCACTCAAC Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 22 8 0.36 23 10 0.45 24 4 0.18 ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21 Consensus pattern (22 bp): TTCTAAGAAAACTCAAAGAAAA Found at i:13058 original size:24 final size:25 Alignment explanation
Indices: 13031--13081 Score: 59 Period size: 24 Copynumber: 2.1 Consensus size: 25 13021 TTTCAGATTT * * 13031 GTTTAAGTGCAGAATTCTCT-TTGA 1 GTTTAACTCCAGAATTCTCTCTTGA ** 13055 GTTTTTCTCCAGAATTCTCTCTTGA 1 GTTTAACTCCAGAATTCTCTCTTGA 13080 GT 1 GT 13082 CTTCTTTAGA Statistics Matches: 22, Mismatches: 4, Indels: 1 0.81 0.15 0.04 Matches are distributed among these distances: 24 16 0.73 25 6 0.27 ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45 Consensus pattern (25 bp): GTTTAACTCCAGAATTCTCTCTTGA Found at i:13092 original size:24 final size:24 Alignment explanation
Indices: 13040--13086 Score: 69 Period size: 24 Copynumber: 2.0 Consensus size: 24 13030 TGTTTAAGTG * 13040 CAGAATTCTCTTTGAGTTTTTCTC 1 CAGAATTCTCTTTGAGTTCTTCTC 13064 CAGAATTCTCTCTTGAG-TCTTCT 1 CAGAATTCTCT-TTGAGTTCTTCT 13087 TTAGAAGTTG Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 24 16 0.76 25 5 0.24 ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47 Consensus pattern (24 bp): CAGAATTCTCTTTGAGTTCTTCTC Done.