Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Scaffold2656 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: 10389 ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34 Found at i:164 original size:22 final size:23 Alignment explanation
Indices: 139--184 Score: 60 Period size: 23 Copynumber: 2.0 Consensus size: 23 129 CAACCAAACC 139 AATTCA-ACATATTT-TCAAGATA 1 AATTCATACATATTTAT-AAGATA * 161 AATTCATGCATATTTATAAGATA 1 AATTCATACATATTTATAAGATA 184 A 1 A 185 CGTCATCACA Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 22 6 0.29 23 14 0.67 24 1 0.05 ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37 Consensus pattern (23 bp): AATTCATACATATTTATAAGATA Found at i:190 original size:23 final size:23 Alignment explanation
Indices: 146--190 Score: 56 Period size: 23 Copynumber: 2.0 Consensus size: 23 136 ACCAATTCAA * 146 CATATTTTCAAGATAAATTCATG 1 CATATTTTCAAGATAAAGTCATG * 169 CATATTTAT-AAGATAACGTCAT 1 CATATTT-TCAAGATAAAGTCAT 191 CACATACCCA Statistics Matches: 19, Mismatches: 2, Indels: 2 0.83 0.09 0.09 Matches are distributed among these distances: 23 18 0.95 24 1 0.05 ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38 Consensus pattern (23 bp): CATATTTTCAAGATAAAGTCATG Found at i:7792 original size:22 final size:23 Alignment explanation
Indices: 7767--7812 Score: 60 Period size: 23 Copynumber: 2.0 Consensus size: 23 7757 CAACCAAACC 7767 AATTCA-ACATATTT-TCAAGATA 1 AATTCATACATATTTAT-AAGATA * 7789 AATTCATGCATATTTATAAGATA 1 AATTCATACATATTTATAAGATA 7812 A 1 A 7813 CGTCATCACA Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 22 6 0.29 23 14 0.67 24 1 0.05 ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37 Consensus pattern (23 bp): AATTCATACATATTTATAAGATA Found at i:7818 original size:23 final size:23 Alignment explanation
Indices: 7774--7818 Score: 56 Period size: 23 Copynumber: 2.0 Consensus size: 23 7764 ACCAATTCAA * 7774 CATATTTTCAAGATAAATTCATG 1 CATATTTTCAAGATAAAGTCATG * 7797 CATATTTAT-AAGATAACGTCAT 1 CATATTT-TCAAGATAAAGTCAT 7819 CACATACCCA Statistics Matches: 19, Mismatches: 2, Indels: 2 0.83 0.09 0.09 Matches are distributed among these distances: 23 18 0.95 24 1 0.05 ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38 Consensus pattern (23 bp): CATATTTTCAAGATAAAGTCATG Found at i:10379 original size:13 final size:13 Alignment explanation
Indices: 10361--10389 Score: 58 Period size: 13 Copynumber: 2.2 Consensus size: 13 10351 ATTTTACCAA 10361 TTTCTTCAATAAT 1 TTTCTTCAATAAT 10374 TTTCTTCAATAAT 1 TTTCTTCAATAAT 10387 TTT 1 TTT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 16 1.00 ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59 Consensus pattern (13 bp): TTTCTTCAATAAT Done.