Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Scaffold1269 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: 53968 ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33 Found at i:1958 original size:18 final size:18 Alignment explanation
Indices: 1935--1975 Score: 82 Period size: 18 Copynumber: 2.3 Consensus size: 18 1925 GTAGTTAGGA 1935 CGTGTAACAAACTGAGGT 1 CGTGTAACAAACTGAGGT 1953 CGTGTAACAAACTGAGGT 1 CGTGTAACAAACTGAGGT 1971 CGTGT 1 CGTGT 1976 GGATCAAATT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 18 23 1.00 ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24 Consensus pattern (18 bp): CGTGTAACAAACTGAGGT Found at i:3756 original size:17 final size:17 Alignment explanation
Indices: 3734--3768 Score: 52 Period size: 17 Copynumber: 2.1 Consensus size: 17 3724 TCTTTATGTT * 3734 ATATAAATATTATAATA 1 ATATAAATATAATAATA * 3751 ATATAATTATAATAATA 1 ATATAAATATAATAATA 3768 A 1 A 3769 CATTATTTAC Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 17 16 1.00 ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40 Consensus pattern (17 bp): ATATAAATATAATAATA Found at i:5410 original size:28 final size:28 Alignment explanation
Indices: 5351--5476 Score: 164 Period size: 28 Copynumber: 4.5 Consensus size: 28 5341 ACGGAGTCCA * * * 5351 CCACAAAGGC-TAATCTTTCATAGCTCA 1 CCACAAAGGCTTATTCTTTCATAGTTCG * * * 5378 TCACAAAGGTTTATTCCTTCATAGTTCG 1 CCACAAAGGCTTATTCTTTCATAGTTCG * 5406 CCACAAAGGCTTATTCTTTCATAGTTTG 1 CCACAAAGGCTTATTCTTTCATAGTTCG * * 5434 CCACAAAGGTTTATTCTTTCATTGTTCG 1 CCACAAAGGCTTATTCTTTCATAGTTCG 5462 CCACAAAGGCTTATT 1 CCACAAAGGCTTATT 5477 ATTTATTGAT Statistics Matches: 84, Mismatches: 14, Indels: 1 0.85 0.14 0.01 Matches are distributed among these distances: 27 8 0.10 28 76 0.90 ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36 Consensus pattern (28 bp): CCACAAAGGCTTATTCTTTCATAGTTCG Found at i:5439 original size:56 final size:56 Alignment explanation
Indices: 5351--5476 Score: 182 Period size: 56 Copynumber: 2.3 Consensus size: 56 5341 ACGGAGTCCA * * 5351 CCACAAAGGC-TAATCTTTCATAGCTCATCACAAAGGTTTATTCCTTCATAGTTCG 1 CCACAAAGGCTTATTCTTTCATAGCTCACCACAAAGGTTTATTCCTTCATAGTTCG * ** * * 5406 CCACAAAGGCTTATTCTTTCATAGTTTGCCACAAAGGTTTATTCTTTCATTGTTCG 1 CCACAAAGGCTTATTCTTTCATAGCTCACCACAAAGGTTTATTCCTTCATAGTTCG 5462 CCACAAAGGCTTATT 1 CCACAAAGGCTTATT 5477 ATTTATTGAT Statistics Matches: 63, Mismatches: 7, Indels: 1 0.89 0.10 0.01 Matches are distributed among these distances: 55 10 0.16 56 53 0.84 ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36 Consensus pattern (56 bp): CCACAAAGGCTTATTCTTTCATAGCTCACCACAAAGGTTTATTCCTTCATAGTTCG Found at i:7496 original size:20 final size:20 Alignment explanation
Indices: 7471--7513 Score: 59 Period size: 20 Copynumber: 2.1 Consensus size: 20 7461 ATTTTAGTTA 7471 TTTTAAAAGAAAATTTAAAT 1 TTTTAAAAGAAAATTTAAAT * * * 7491 TTTTAAAATAAAGTTTTAAT 1 TTTTAAAAGAAAATTTAAAT 7511 TTT 1 TTT 7514 GTTTTCAACT Statistics Matches: 20, Mismatches: 3, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 20 20 1.00 ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49 Consensus pattern (20 bp): TTTTAAAAGAAAATTTAAAT Found at i:7645 original size:154 final size:152 Alignment explanation
Indices: 7462--7834 Score: 493 Period size: 152 Copynumber: 2.4 Consensus size: 152 7452 TTTTATTTTA * * 7462 TTTTAGTTATTTTAAAAGAAAATTTAAATTTTTAAAATAAAGTTTTAATTTTGTTTTCAACTATT 1 TTTTAGTCATTTT-AAAGAAAATTTAAATTTTTAAAACAAAGTTTTAATTTT-TTTT-AACTATT * * * * * * * 7527 TCAAAGTAAAAGCTTTAATCTTTAAGAAAAATAGTGTTTTTTTTT-AAATAAAA-GAGAAAGTTT 63 TAAAAATAAAAACTTCAAACTTTAAGAAAAATAGTATTTTTTTTTAAAAAAAAAGGAGAAAGTTT 7590 AGATTTTGAAAAATAAAAATATAG-T 128 AGATTTTGAAAAATAAAAATAT-GTT * * * * 7615 TTTTAGTCATTTTAAAGGAAATTGTAAAATTTCAAAACAAAGTTTT-ATTTTTTTTGAAACTATG 1 TTTTAGTCATTTTAAAGAAAATT-TAAATTTTTAAAACAAAGTTTTAATTTTTTTT--AACTATT * * 7679 TAAAAATAAAAACTTCAAACTTTAATAAAATTAGTATTTTTTTTTAAAAAAAAAGGAGAAAGTTT 63 TAAAAATAAAAACTTCAAACTTTAAGAAAAATAGTATTTTTTTTTAAAAAAAAAGGAGAAAGTTT 7744 AGATTTTGAAAAATAAAAATATGTTT 128 AGATTTTGAAAAATAAAAATATG-TT 7770 TTTTAAGTCATTTTAAAGAAAAGTTTAAATTTTTAAAACAAAGTTTTAATTTTTTTTAACTATTT 1 TTTT-AGTCATTTTAAAGAAAA-TTTAAATTTTTAAAACAAAGTTTTAATTTTTTTTAACTATTT 7835 TGAAATAAGC Statistics Matches: 191, Mismatches: 20, Indels: 16 0.84 0.09 0.07 Matches are distributed among these distances: 151 4 0.02 152 57 0.30 153 39 0.20 154 32 0.17 155 12 0.06 156 36 0.19 157 11 0.06 ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43 Consensus pattern (152 bp): TTTTAGTCATTTTAAAGAAAATTTAAATTTTTAAAACAAAGTTTTAATTTTTTTTAACTATTTAA AAATAAAAACTTCAAACTTTAAGAAAAATAGTATTTTTTTTTAAAAAAAAAGGAGAAAGTTTAGA TTTTGAAAAATAAAAATATGTT Found at i:7824 original size:21 final size:20 Alignment explanation
Indices: 7780--7823 Score: 63 Period size: 20 Copynumber: 2.2 Consensus size: 20 7770 TTTTAAGTCA 7780 TTTTAAAGAAAAGTTTAAAT 1 TTTTAAAGAAAAGTTTAAAT * 7800 TTTTAAA-ACAAAGTTTTAAT 1 TTTTAAAGA-AAAGTTTAAAT 7820 TTTT 1 TTTT 7824 TTTAACTATT Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 19 1 0.05 20 21 0.95 ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48 Consensus pattern (20 bp): TTTTAAAGAAAAGTTTAAAT Found at i:7857 original size:154 final size:151 Alignment explanation
Indices: 7410--7885 Score: 468 Period size: 154 Copynumber: 3.1 Consensus size: 151 7400 AAAGTTGTAA * * * ** * 7410 TTTTTTTTAAAAAAAACAG--AGTTTAGATTTTTATAAATAATATTTTAT-TTTATTTTAGTTAT 1 TTTTTTTTAAAAAAAAGAGAAAGTTTAGATTTTGAAAAATAA-A-AATATGTTT-TTTTAGTCAT * * * * 7472 TTTAAAAGAAAATTTAAATTTTTAAAATAAAGTTTTAATTTTGTTTTCAACTATTTCAAAGTAAA 63 TTT-AAAGAAAATTTAAATTTTTAAAACAAAGTTTTAATTTT-TTTTAAACTATTTTAAAAT-AA * * * 7537 AGC-TTTAATCTTTAAGAAAAATAGTGT 125 AGCTTTTACT-TTTAACAAAAATAGTAT * 7564 TTTTTTTTAAATAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATAG--TTTTTAGTCATTT 1 TTTTTTTTAAAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATAT-GTTTTTTTAGTCATTT * * * * * * 7627 TAAAGGAAATTGTAAAATTTCAAAACAAAGTTTT-ATTTTTTTTGAAACTATGTAAAAATAAAAA 65 TAAAGAAAATT-TAAATTTTTAAAACAAAGTTTTAATTTTTTTT-AAACTATTTTAAAAT-AAAG ** * * 7691 CTTCAAAC-TTTAATAAAATTAGTAT 127 CTT-TTACTTTTAACAAAAATAGTAT 7716 TTTTTTTTAAAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCAT 1 TTTTTTTT-AAAAAAAA-GAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTT-AGTCAT * 7781 TTTAAAGAAAAGTTTAAATTTTTAAAACAAAGTTTTAATTTTTTTT-AACTATTTTGAAAT-AAG 63 TTTAAAGAAAA-TTTAAATTTTTAAAACAAAGTTTTAATTTTTTTTAAACTATTTTAAAATAAAG * * 7844 CTTTTGACTTTTAACAAAACTAATAT 127 CTTTT-ACTTTTAACAAAAATAGTAT * * 7870 TTTTTTCTAAATAAAA 1 TTTTTTTTAAAAAAAA 7886 CTTTGATTTT Statistics Matches: 268, Mismatches: 37, Indels: 35 0.79 0.11 0.10 Matches are distributed among these distances: 151 4 0.01 152 52 0.19 153 54 0.20 154 75 0.28 155 17 0.06 156 55 0.21 157 11 0.04 ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44 Consensus pattern (151 bp): TTTTTTTTAAAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTCATTTT AAAGAAAATTTAAATTTTTAAAACAAAGTTTTAATTTTTTTTAAACTATTTTAAAATAAAGCTTT TACTTTTAACAAAAATAGTAT Found at i:8412 original size:21 final size:21 Alignment explanation
Indices: 8388--8429 Score: 66 Period size: 21 Copynumber: 2.0 Consensus size: 21 8378 TTTATTCACA 8388 CTTGTATAATTTTTATTTATT 1 CTTGTATAATTTTTATTTATT * * 8409 CTTGTTTCATTTTTATTTATT 1 CTTGTATAATTTTTATTTATT 8430 TTCATGTCTA Statistics Matches: 19, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 21 19 1.00 ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69 Consensus pattern (21 bp): CTTGTATAATTTTTATTTATT Found at i:8442 original size:22 final size:23 Alignment explanation
Indices: 8396--8453 Score: 59 Period size: 22 Copynumber: 2.7 Consensus size: 23 8386 CACTTGTATA * * 8396 ATTTTTATTTA--TTCTTGTTTC 1 ATTTTTATTTATTTTCATGTCTC 8417 ATTTTTATTTATTTTCATGTCT- 1 ATTTTTATTTATTTTCATGTCTC * * 8439 ATTTATATTTTTTTT 1 ATTTTTATTTATTTT 8454 ACACATTCCC Statistics Matches: 31, Mismatches: 4, Indels: 3 0.82 0.11 0.08 Matches are distributed among these distances: 21 11 0.35 22 13 0.42 23 7 0.23 ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72 Consensus pattern (23 bp): ATTTTTATTTATTTTCATGTCTC Found at i:8828 original size:27 final size:27 Alignment explanation
Indices: 8787--8839 Score: 97 Period size: 27 Copynumber: 2.0 Consensus size: 27 8777 TTTACATTTG 8787 GATTTAGGTTAGTCCTTAAGATCTTAA 1 GATTTAGGTTAGTCCTTAAGATCTTAA * 8814 GATTTAGGTTCGTCCTTAAGATCTTA 1 GATTTAGGTTAGTCCTTAAGATCTTA 8840 CCTACCATTT Statistics Matches: 25, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 27 25 1.00 ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42 Consensus pattern (27 bp): GATTTAGGTTAGTCCTTAAGATCTTAA Found at i:10636 original size:358 final size:357 Alignment explanation
Indices: 9980--10693 Score: 1410 Period size: 358 Copynumber: 2.0 Consensus size: 357 9970 ATTTGTTCAT 9980 TTCATTTACTTATCCTTTTTTAATATGAATTCCAATGTGTTTGTTTATTCTTTTATCGATAAAAT 1 TTCATTTACTTATCCTTTTTTAATATGAATTCCAATGTGTTTGTTTATTCTTTTATCGATAAAAT 10045 TGATTAATGTGTATGTCGGTTGTACCGTCGTGGGCGGCTATAATTATAATTCATGTTGCATTTTG 66 TGATTAATGTGTATGTCGGTTGTACCGTCGTGGGCGGCTATAATTATAATTCATGTTGCATTTTG 10110 CTTTCGATCCTACACCCGAGCCTATCCCGTTTAGGAGGAGTAGCCTTAGGCTTTCATGTGACAAT 131 CTTTCGATCCTACACCCGAGCCTATCCCGTTTAGGAGGAGTAGCCTTAGGCTTTCATGTGACAAT 10175 ATGTCACCACATAAGTTTAAGGACTACTCCATGGTTAAGATGGACATAGATGTTCATGTAGCAAA 196 ATGTCACCACATAAGTTTAAGGACTACTCCATGGTTAAGATGGACATAGATGTTCATGTAGCAAA 10240 TGCTACCATGTACACTATGAAAGTCTCACCACTCAAGGGCCAACCCTTTTTAAAAGGGGAACGCA 261 TGCTACCATGTACACTATGAAAGTCTCACCACTCAAGGGCCAACCCTTTTTAAAAGGGGAACGCA * 10305 TCCCTATGGGTGTCATATTTAAGTCTTGGGTG 326 TCCCTATAGGTGTCATATTTAAGTCTTGGGTG 10337 TTCATTTACTTATCCTTTTTTAATATGAATTCCAATGTGTTTGTTTATTCTTTTATCGATAAAAT 1 TTCATTTACTTATCCTTTTTTAATATGAATTCCAATGTGTTTGTTTATTCTTTTATCGATAAAAT 10402 TGATTAATGTGTATGTCGGTTGTACCGTCGTGGGGCGGCTATAATTATAATTCATGTTGCATTTT 66 TGATTAATGTGTATGTCGGTTGTACCGTCGT-GGGCGGCTATAATTATAATTCATGTTGCATTTT 10467 GCTTTCGATCCTACACCCGAGCCTATCCCGTTTAGGAGGAGTAGCCTTAGGCTTTCATGTGACAA 130 GCTTTCGATCCTACACCCGAGCCTATCCCGTTTAGGAGGAGTAGCCTTAGGCTTTCATGTGACAA 10532 TATGTCACCACATAAGTTTAAGGACTACTCCATGGTTAAGATGGACATAGATGTTCATGTAGCAA 195 TATGTCACCACATAAGTTTAAGGACTACTCCATGGTTAAGATGGACATAGATGTTCATGTAGCAA 10597 ATGCTACCATGTACACTATGAAAGTCTCACCACTCAAGGGCCAACCCTTTTTAAAAGGGGAACGC 260 ATGCTACCATGTACACTATGAAAGTCTCACCACTCAAGGGCCAACCCTTTTTAAAAGGGGAACGC 10662 ATCCCTATAGGTGTCATATTTAAGTCTTGGGT 325 ATCCCTATAGGTGTCATATTTAAGTCTTGGGT 10694 TCCCCGTGCA Statistics Matches: 355, Mismatches: 1, Indels: 1 0.99 0.00 0.00 Matches are distributed among these distances: 357 96 0.27 358 259 0.73 ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35 Consensus pattern (357 bp): TTCATTTACTTATCCTTTTTTAATATGAATTCCAATGTGTTTGTTTATTCTTTTATCGATAAAAT TGATTAATGTGTATGTCGGTTGTACCGTCGTGGGCGGCTATAATTATAATTCATGTTGCATTTTG CTTTCGATCCTACACCCGAGCCTATCCCGTTTAGGAGGAGTAGCCTTAGGCTTTCATGTGACAAT ATGTCACCACATAAGTTTAAGGACTACTCCATGGTTAAGATGGACATAGATGTTCATGTAGCAAA TGCTACCATGTACACTATGAAAGTCTCACCACTCAAGGGCCAACCCTTTTTAAAAGGGGAACGCA TCCCTATAGGTGTCATATTTAAGTCTTGGGTG Found at i:22388 original size:42 final size:42 Alignment explanation
Indices: 22323--22730 Score: 525 Period size: 42 Copynumber: 9.8 Consensus size: 42 22313 AAGGAAAACA * * * 22323 TTCATTGCATCTAGAGACACAGGTATGGAGGTCCATTCACTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT * *** * * 22365 TTCATTGCATTTAAAGACCCAGGTGTTTTGATCCGTTCACTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT * 22407 TTCATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTCACTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT * 22449 TTCATTGCATTTAGAGACCCAGGTGTGGGGGTCCATTCACTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT *** * * 22491 TTCATTGCATTTAGAGACCCAGGTGTTTTGATCCGTTCACTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT * 22533 TTCATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTCACTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT * * * * 22575 TTCATTGCATTTAGAGACCCAGGTCTGGAGGTTCGTTCATTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT * * 22617 TTAATTGCATTTAGAGACCCAGGTGTGGAGGTTCATTCACTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT * * * * 22659 TTCATTGCATTTAGAGACCCAAGTGTGGAGGTACGTTTACTT 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT * * * 22701 TTC-TAG--TTTAGAGGCCCAGGTGTAGAGGTC 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTC 22731 TATTTACGTT Statistics Matches: 318, Mismatches: 48, Indels: 3 0.86 0.13 0.01 Matches are distributed among these distances: 39 20 0.06 41 2 0.01 42 296 0.93 ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35 Consensus pattern (42 bp): TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT Found at i:22548 original size:126 final size:126 Alignment explanation
Indices: 22323--22730 Score: 579 Period size: 126 Copynumber: 3.3 Consensus size: 126 22313 AAGGAAAACA * * * * 22323 TTCATTGCATCTAGAGACACAGGTATGGAGGTCCATTCACTTTTCATTGCATTTAAAGACCCAGG 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG 22388 TGTTTTGATCCGTTCACTTTTCATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTCACTT 66 TGTTTTGATCCGTTCACTTTTCATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTCACTT * 22449 TTCATTGCATTTAGAGACCCAGGTGTGGGGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG 22514 TGTTTTGATCCGTTCACTTTTCATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTCACTT 66 TGTTTTGATCCGTTCACTTTTCATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTCACTT * * * * * 22575 TTCATTGCATTTAGAGACCCAGGTCTGGAGGTTCGTTCATTTTTAATTGCATTTAGAGACCCAGG 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG *** * * * * * * * * 22640 TGTGGAGGTTCATTCACTTTTCATTGCATTTAGAGACCCAAGTGTGGAGGTACGTTTACTT 66 TGTTTTGATCCGTTCACTTTTCATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTCACTT * * * 22701 TTC-TAG--TTTAGAGGCCCAGGTGTAGAGGTC 1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTC 22731 TATTTACGTT Statistics Matches: 255, Mismatches: 27, Indels: 3 0.89 0.09 0.01 Matches are distributed among these distances: 123 20 0.08 125 2 0.01 126 233 0.91 ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35 Consensus pattern (126 bp): TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG TGTTTTGATCCGTTCACTTTTCATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTCACTT Found at i:22729 original size:39 final size:38 Alignment explanation
Indices: 22626--22749 Score: 131 Period size: 39 Copynumber: 3.1 Consensus size: 38 22616 TTTAATTGCA * * 22626 TTTAGAGACCCAGGTGTGGAGGTTCATTCACTTTTCATTG 1 TTTAGAGACCCAGGTGTGGAGG-TCATTTACTTTTC-TAG * * 22666 CATTTAGAGACCCAAGTGTGGAGGTACGTTTACTTTTCTAG 1 --TTTAGAGACCCAGGTGTGGAGGT-CATTTACTTTTCTAG * * * 22707 TTTAGAGGCCCAGGTGTAGAGGTCTATTTACGTTTCTAG 1 TTTAGAGACCCAGGTGTGGAGGTC-ATTTACTTTTCTAG 22746 TTTA 1 TTTA 22750 CTTTTCATTT Statistics Matches: 71, Mismatches: 9, Indels: 7 0.82 0.10 0.08 Matches are distributed among these distances: 38 1 0.01 39 36 0.51 41 3 0.04 42 31 0.44 ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37 Consensus pattern (38 bp): TTTAGAGACCCAGGTGTGGAGGTCATTTACTTTTCTAG Found at i:23752 original size:159 final size:155 Alignment explanation
Indices: 23499--23922 Score: 615 Period size: 159 Copynumber: 2.7 Consensus size: 155 23489 AAAAGTTTTG * * * 23499 ATTTTTTTTTTAAAAAAA-GAGAAAGTTTAGATTTTCACAAAT---AATTTTTTTTTTAGTTATT 1 ATTTTTTTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATTTTTTTTTTAGTCATT * * 23560 TTAAAGGAAA-TGTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTTCAAAGTAA 66 TTAAAGGAAAGT-TTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTTCAAAATAA * * 23624 AAGCTTTAATCTTTAAGAAAAATAAT 130 AAGCTTCAATCTTTAAGAAAAACAAT 23650 ATTTTTTTATTTAAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTTAGT 1 ATTTTTTT-TTT-AAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAAT-T-TTTTTTTTAGT * * 23715 CATTTTAAAGGAAAGTTTAAAATTTTAAAATAAAGTTTTGATTTTTTTTTTCAACTATTTCAAAA 62 CATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTTCAAAA * 23780 TAAAAGCTTCAATCTTTAAGAAAAACAGTGT 127 TAAAAGCTTCAATCTTTAAGAAAAACA--AT * * * 23811 GTTTTTTTTTTTAAATAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATTTGTTTTTTTAAGTCA 1 ATTTTTTTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATTT-TTTTTTT-AGTCA 23876 TTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTT 64 TTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTT 23923 AACTATTTAG Statistics Matches: 246, Mismatches: 14, Indels: 18 0.88 0.05 0.06 Matches are distributed among these distances: 151 8 0.03 152 3 0.01 153 7 0.03 154 22 0.09 157 4 0.02 158 9 0.04 159 181 0.74 160 4 0.02 161 8 0.03 ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45 Consensus pattern (155 bp): ATTTTTTTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATTTTTTTTTTAGTCATT TTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTTCAAAATAAA AGCTTCAATCTTTAAGAAAAACAAT Found at i:24490 original size:25 final size:24 Alignment explanation
Indices: 24462--24508 Score: 60 Period size: 24 Copynumber: 1.9 Consensus size: 24 24452 TCACTTGCAT 24462 TTATACA-TTATATATTTAATGTTAA 1 TTATACACTT-TAT-TTTAATGTTAA * 24487 TTATGCACTTTATTTTAATGTT 1 TTATACACTTTATTTTAATGTT 24509 TTATATTTAT Statistics Matches: 20, Mismatches: 1, Indels: 3 0.83 0.04 0.12 Matches are distributed among these distances: 24 9 0.45 25 9 0.45 26 2 0.10 ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55 Consensus pattern (24 bp): TTATACACTTTATTTTAATGTTAA Found at i:24539 original size:21 final size:21 Alignment explanation
Indices: 24514--24561 Score: 69 Period size: 21 Copynumber: 2.3 Consensus size: 21 24504 ATGTTTTATA 24514 TTTATTCACACTTATATAATT 1 TTTATTCACACTTATATAATT * ** 24535 TTTATTTATTCTTATATAATT 1 TTTATTCACACTTATATAATT 24556 TTTATT 1 TTTATT 24562 TATTTTCATG Statistics Matches: 24, Mismatches: 3, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 21 24 1.00 ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62 Consensus pattern (21 bp): TTTATTCACACTTATATAATT Found at i:24562 original size:21 final size:21 Alignment explanation
Indices: 24524--24565 Score: 84 Period size: 21 Copynumber: 2.0 Consensus size: 21 24514 TTTATTCACA 24524 CTTATATAATTTTTATTTATT 1 CTTATATAATTTTTATTTATT 24545 CTTATATAATTTTTATTTATT 1 CTTATATAATTTTTATTTATT 24566 TTCATGTCTA Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 21 1.00 ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67 Consensus pattern (21 bp): CTTATATAATTTTTATTTATT Found at i:36184 original size:26 final size:29 Alignment explanation
Indices: 36155--36210 Score: 73 Period size: 30 Copynumber: 2.0 Consensus size: 29 36145 TAATAACTGT 36155 AAGATGA-AAAAGT-TTTTA-ATAAAATA 1 AAGATGATAAAAGTATTTTATATAAAATA * 36181 AAGATGATTAAAATTATTTTATATAAAATA 1 AAGATGA-TAAAAGTATTTTATATAAAATA 36211 CTATTTTTAT Statistics Matches: 25, Mismatches: 1, Indels: 4 0.83 0.03 0.13 Matches are distributed among these distances: 26 7 0.28 28 5 0.20 29 5 0.20 30 8 0.32 ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36 Consensus pattern (29 bp): AAGATGATAAAAGTATTTTATATAAAATA Found at i:36616 original size:20 final size:20 Alignment explanation
Indices: 36555--36617 Score: 54 Period size: 20 Copynumber: 3.0 Consensus size: 20 36545 AAATTTCATA * 36555 AAATAAAAATATATGATGATAGT 1 AAATAAAAATA-AT-AT-ATATT * * * * 36578 ACATAAAATTATTAAATATT 1 AAATAAAAATAATATATATT 36598 AAATAAAAATAATATATATT 1 AAATAAAAATAATATATATT 36618 TTAAACAATT Statistics Matches: 31, Mismatches: 9, Indels: 3 0.72 0.21 0.07 Matches are distributed among these distances: 20 20 0.65 21 1 0.03 22 1 0.03 23 9 0.29 ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35 Consensus pattern (20 bp): AAATAAAAATAATATATATT Found at i:40455 original size:43 final size:42 Alignment explanation
Indices: 40395--40602 Score: 211 Period size: 43 Copynumber: 4.8 Consensus size: 42 40385 TTTGGGATTG * * 40395 CGCCACTAAAGACCATGACCTTTAGCGGCACTTGTTCGACAAA 1 CGCCGCTAAAGACCATGACCTTTAGCGGCACTT-TTCCACAAA * * * 40438 CGCCGCTAAA-AGTCATGACCTTTAGCGGCGCTTTTCCTACAAT 1 CGCCGCTAAAGA-CCATGACCTTTAGCGGCACTTTTCC-ACAAA * * * 40481 CGCCGCTAAAGACCCTGACCTTTAGCGGAACTCTTTCCACAAG 1 CGCCGCTAAAGACCATGACCTTTAGCGGCACT-TTTCCACAAA * * * 40524 CGCCGCTAAAGACCTTGACCTTTAGCGGTGATTTTTTCCACAAA 1 CGCCGCTAAAGACCATGACCTTTAGCGG-CA-CTTTTCCACAAA * * * * * 40568 CGCCGCTAATGACAACGACCTTTAACGGCGCTTTT 1 CGCCGCTAAAGACCATGACCTTTAGCGGCACTTTT 40603 TTAAAAAACG Statistics Matches: 137, Mismatches: 22, Indels: 13 0.80 0.13 0.08 Matches are distributed among these distances: 42 8 0.06 43 89 0.65 44 39 0.28 45 1 0.01 ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25 Consensus pattern (42 bp): CGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCCACAAA Found at i:40826 original size:19 final size:19 Alignment explanation
Indices: 40802--40838 Score: 65 Period size: 19 Copynumber: 1.9 Consensus size: 19 40792 ACAAAAATGA * 40802 TAAAAGTTAAAATGATAAT 1 TAAAAGTCAAAATGATAAT 40821 TAAAAGTCAAAATGATAA 1 TAAAAGTCAAAATGATAA 40839 AAATATTTAC Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 19 17 1.00 ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27 Consensus pattern (19 bp): TAAAAGTCAAAATGATAAT Found at i:46382 original size:25 final size:23 Alignment explanation
Indices: 46353--46512 Score: 127 Period size: 25 Copynumber: 6.8 Consensus size: 23 46343 ATAATTAAGC 46353 TATGTAAGTTATGTAAGTTATGTAT 1 TATGTAAGTTATGT-A-TTATGTAT * 46378 TATGTAAGTTATTTATTATGAATAT 1 TATGTAAGTTATGTATTATG--TAT * 46403 TATGTAAGTTATGTATTATGAAAAT 1 TATGTAAGTTATGTATTATG--TAT * 46428 TATGTAAGTTGTGTATTATGTAAGT 1 TATGTAAGTTATGTATTATGT-A-T 46453 TATGT-A-TTATGTA--A-G--T 1 TATGTAAGTTATGTATTATGTAT * * 46469 TATGTAAGTTATTTATTATGAAAAT 1 TATGTAAGTTATGTATTATG--TAT * 46494 TAAGTAAGTTATGTATTAT 1 TATGTAAGTTATGTATTAT 46513 ATTAAAAATA Statistics Matches: 113, Mismatches: 9, Indels: 26 0.76 0.06 0.18 Matches are distributed among these distances: 16 6 0.05 17 1 0.01 18 6 0.05 20 2 0.02 21 2 0.02 23 11 0.10 24 3 0.03 25 82 0.73 ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48 Consensus pattern (23 bp): TATGTAAGTTATGTATTATGTAT Found at i:46406 original size:41 final size:41 Alignment explanation
Indices: 46361--46488 Score: 179 Period size: 41 Copynumber: 3.1 Consensus size: 41 46351 GCTATGTAAG * 46361 TTATGTAAGTTATGTATTATGTAAGTTAT-TTA-TTATGAATA 1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATG--TA * * * 46402 TTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTGTA 1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA * 46443 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATTTA 1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA 46484 TTATG 1 TTATG 46489 AAAATTAAGT Statistics Matches: 77, Mismatches: 8, Indels: 4 0.87 0.09 0.04 Matches are distributed among these distances: 41 71 0.92 42 2 0.03 43 4 0.05 ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50 Consensus pattern (41 bp): TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA Found at i:46444 original size:66 final size:66 Alignment explanation
Indices: 46361--46512 Score: 243 Period size: 66 Copynumber: 2.3 Consensus size: 66 46351 GCTATGTAAG * 46361 TTATGTAAGTTATGTATTATGTAAGTTATTTATTATG-AATATTATGTAAGTTATGTATTATGAA 1 TTATGTAAGTTATGTATTATGTAAGTTATGTATTATGTAA-ATTATGTAAGTTATGTATTATGAA 46425 AA 65 AA * * * 46427 TTATGTAAGTTGTGTATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATTTATTATGAAA 1 TTATGTAAGTTATGTATTATGTAAGTTATGTATTATGTAAATTATGTAAGTTATGTATTATGAAA 46492 A 66 A * 46493 TTAAGTAAGTTATGTATTAT 1 TTATGTAAGTTATGTATTAT 46513 ATTAAAAATA Statistics Matches: 79, Mismatches: 6, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 66 77 0.97 67 2 0.03 ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49 Consensus pattern (66 bp): TTATGTAAGTTATGTATTATGTAAGTTATGTATTATGTAAATTATGTAAGTTATGTATTATGAAA A Found at i:46488 original size:16 final size:16 Alignment explanation
Indices: 46361--46474 Score: 126 Period size: 16 Copynumber: 7.0 Consensus size: 16 46351 GCTATGTAAG 46361 TTATGTAAGTTATGTA 1 TTATGTAAGTTATGTA * 46377 TTATGTAAGTTATTTA 1 TTATGTAAGTTATGTA * 46393 TTATG-AATATTATGTAA 1 TTATGTAA-GTTATGT-A * 46410 GTTATGT-A-TTATGAAAA 1 -TTATGTAAGTTATG--TA * 46427 TTATGTAAGTTGTGTA 1 TTATGTAAGTTATGTA 46443 TTATGTAAGTTATGTA 1 TTATGTAAGTTATGTA 46459 TTATGTAAGTTATGTA 1 TTATGTAAGTTATGTA 46475 AGTTATTTAT Statistics Matches: 83, Mismatches: 7, Indels: 16 0.78 0.07 0.15 Matches are distributed among these distances: 15 2 0.02 16 68 0.82 17 3 0.04 18 10 0.12 ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49 Consensus pattern (16 bp): TTATGTAAGTTATGTA Found at i:46549 original size:20 final size:20 Alignment explanation
Indices: 46516--46553 Score: 58 Period size: 20 Copynumber: 1.9 Consensus size: 20 46506 GTATTATATT * 46516 AAAAATATAAATTAAATTTC 1 AAAAAAATAAATTAAATTTC * 46536 AAAAAAATATATTAAATT 1 AAAAAAATAAATTAAATT 46554 AAATTTTCAA Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 16 1.00 ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34 Consensus pattern (20 bp): AAAAAAATAAATTAAATTTC Found at i:46556 original size:25 final size:24 Alignment explanation
Indices: 46516--46566 Score: 77 Period size: 25 Copynumber: 2.1 Consensus size: 24 46506 GTATTATATT 46516 AAAAATATAAATTAAA-TTTCAAA 1 AAAAATATAAATTAAATTTTCAAA 46539 AAAATATATTAAATTAAATTTTCAAA 1 AAAA-ATA-TAAATTAAATTTTCAAA 46565 AA 1 AA 46567 TGGGATTTCA Statistics Matches: 25, Mismatches: 0, Indels: 3 0.89 0.00 0.11 Matches are distributed among these distances: 23 4 0.16 24 3 0.12 25 9 0.36 26 9 0.36 ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33 Consensus pattern (24 bp): AAAAATATAAATTAAATTTTCAAA Found at i:46834 original size:22 final size:22 Alignment explanation
Indices: 46809--46850 Score: 75 Period size: 22 Copynumber: 1.9 Consensus size: 22 46799 TAATTAAGTT 46809 ATGTAAGTTATGTATAATATTA 1 ATGTAAGTTATGTATAATATTA * 46831 ATGTAAGTTATGTATTATAT 1 ATGTAAGTTATGTATAATAT 46851 AATAACAGCG Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 22 19 1.00 ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48 Consensus pattern (22 bp): ATGTAAGTTATGTATAATATTA Found at i:47767 original size:12 final size:12 Alignment explanation
Indices: 47747--47786 Score: 53 Period size: 12 Copynumber: 3.3 Consensus size: 12 47737 CAAACAGTTT * 47747 CAAACTTATGAA 1 CAAAATTATGAA * 47759 CAAAATTATTAA 1 CAAAATTATGAA * 47771 CAAAATTATGAG 1 CAAAATTATGAA 47783 CAAA 1 CAAA 47787 CAGTATTACA Statistics Matches: 24, Mismatches: 4, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 12 24 1.00 ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25 Consensus pattern (12 bp): CAAAATTATGAA Found at i:47797 original size:24 final size:24 Alignment explanation
Indices: 47736--47797 Score: 67 Period size: 24 Copynumber: 2.7 Consensus size: 24 47726 ATCCTGTAAT * 47736 ACAAACAGT-TT-CAAACTTATGA 1 ACAAACAGTATTACAAAATTATGA * 47758 ACAAA-ATTATTAACAAAATTATGA 1 ACAAACAGTATT-ACAAAATTATGA * 47782 GCAAACAGTATTACAA 1 ACAAACAGTATTACAA 47798 GCCTGCAAAT Statistics Matches: 32, Mismatches: 4, Indels: 6 0.76 0.10 0.14 Matches are distributed among these distances: 21 2 0.06 22 7 0.22 24 18 0.56 25 5 0.16 ACGTcount: A:0.52, C:0.15, G:0.08, T:0.26 Consensus pattern (24 bp): ACAAACAGTATTACAAAATTATGA Found at i:48276 original size:24 final size:24 Alignment explanation
Indices: 48251--48296 Score: 67 Period size: 24 Copynumber: 2.0 Consensus size: 24 48241 TCAAGAATTG 48251 GGGGA-AAATTCGAGGGGAATTTT 1 GGGGAGAAATTCGAGGGGAATTTT * * 48274 GGGGAGAAATTTGGGGGGAATTT 1 GGGGAGAAATTCGAGGGGAATTT 48297 CGGCTAAGTG Statistics Matches: 20, Mismatches: 2, Indels: 1 0.87 0.09 0.04 Matches are distributed among these distances: 23 5 0.25 24 15 0.75 ACGTcount: A:0.28, C:0.02, G:0.43, T:0.26 Consensus pattern (24 bp): GGGGAGAAATTCGAGGGGAATTTT Found at i:48661 original size:16 final size:16 Alignment explanation
Indices: 48612--48667 Score: 60 Period size: 16 Copynumber: 3.5 Consensus size: 16 48602 TAAATCTCAC * 48612 ATCTTTTATTTATT-T 1 ATCTTTTATTAATTGT * * * 48627 ATTTATTTCTTAATAGT 1 ATCT-TTTATTAATTGT 48644 ATCTTTTATTAATTGT 1 ATCTTTTATTAATTGT 48660 ATCTTTTA 1 ATCTTTTA 48668 ATTACTAAGT Statistics Matches: 32, Mismatches: 7, Indels: 3 0.76 0.17 0.07 Matches are distributed among these distances: 15 3 0.09 16 25 0.78 17 4 0.12 ACGTcount: A:0.25, C:0.07, G:0.04, T:0.64 Consensus pattern (16 bp): ATCTTTTATTAATTGT Found at i:49366 original size:22 final size:22 Alignment explanation
Indices: 49340--49447 Score: 78 Period size: 22 Copynumber: 5.0 Consensus size: 22 49330 ACCCAAAACA * 49340 CTAAATCCCTAACTCCTAACCC 1 CTAAATCCCTAACCCCTAACCC * * 49362 TTAAATCCCAAACCCCTAACCC 1 CTAAATCCCTAACCCCTAACCC ** * 49384 CT-AATCCCTAAACCAATAAACC 1 CTAAATCCCT-AACCCCTAACCC * ** * 49406 TTAAA-CTCCTAACTTCTAACCT 1 CTAAATC-CCTAACCCCTAACCC * 49428 CT-AACCCCTAACCCCTAACC 1 CTAAATCCCTAACCCCTAACC 49448 AATAAACCTT Statistics Matches: 65, Mismatches: 17, Indels: 9 0.71 0.19 0.10 Matches are distributed among these distances: 21 20 0.31 22 40 0.62 23 5 0.08 ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22 Consensus pattern (22 bp): CTAAATCCCTAACCCCTAACCC Found at i:49384 original size:7 final size:7 Alignment explanation
Indices: 49346--49447 Score: 60 Period size: 7 Copynumber: 14.1 Consensus size: 7 49336 AACACTAAAT 49346 CCCTAAC 1 CCCTAAC * 49353 TCCTAAC 1 CCCTAAC * * 49360 CCTTAAAT 1 CCCT-AAC * 49368 CCCAAAC 1 CCCTAAC 49375 CCCTAAC 1 CCCTAAC * 49382 CCCTAAT 1 CCCTAAC 49389 CCCTAAAC 1 CCCT-AAC ** * 49397 CAATAAA 1 CCCTAAC * 49404 CCTTAAAC 1 CCCT-AAC * 49412 TCCTAAC 1 CCCTAAC ** 49419 TTCTAAC 1 CCCTAAC * 49426 CTCTAAC 1 CCCTAAC 49433 CCCTAAC 1 CCCTAAC 49440 CCCTAAC 1 CCCTAAC 49447 C 1 C 49448 AATAAACCTT Statistics Matches: 71, Mismatches: 21, Indels: 6 0.72 0.21 0.06 Matches are distributed among these distances: 7 59 0.83 8 12 0.17 ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22 Consensus pattern (7 bp): CCCTAAC Found at i:49496 original size:14 final size:15 Alignment explanation
Indices: 49479--49511 Score: 59 Period size: 14 Copynumber: 2.3 Consensus size: 15 49469 CTTAAATCAG 49479 AATCCCTAA-TCCAT 1 AATCCCTAATTCCAT 49493 AATCCCTAATTCCAT 1 AATCCCTAATTCCAT 49508 AATC 1 AATC 49512 TATAAACCTT Statistics Matches: 18, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 14 9 0.50 15 9 0.50 ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30 Consensus pattern (15 bp): AATCCCTAATTCCAT Found at i:49947 original size:41 final size:41 Alignment explanation
Indices: 49890--50239 Score: 423 Period size: 41 Copynumber: 8.5 Consensus size: 41 49880 AAATGTTTTT * * * 49890 GCGGCGCTTCTACAAAAACGTCGCTAAAGGCCCGAGCACTA 1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA * * 49931 GCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGACCATTA 1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA * * * 49972 GCGGCGCTTCTTCAAAAACACCGCTAAGGGCCCGAGTATTA 1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA 50013 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA 1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA * * * * * 50054 GCGGTGCTGCTTCAAAAACGCCGCTAAAGACCCCAGCAGTA 1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA * * * * 50095 GCGGCG-TTTTTGAAGAAACGTCGCTAAAGGCCAGAGCATTA 1 GCGGCGCTTCTTCAA-AAACGCCGCTAAAGGCCCGAGCATTA * * * * * * ** 50136 GCGACACTGCTTAAAAAATGTCGCTAAAGGCTAGAGCATTA 1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA * * * 50177 GCGGCGCTTCTTCAAAAACGTCGCTGACGGCCCGAGCATTA 1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA * 50218 GCGGCGCTTCTTAAAAAACGCC 1 GCGGCGCTTCTTCAAAAACGCC 50240 ACTATATGCC Statistics Matches: 262, Mismatches: 45, Indels: 4 0.84 0.14 0.01 Matches are distributed among these distances: 40 5 0.02 41 252 0.96 42 5 0.02 ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18 Consensus pattern (41 bp): GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA Found at i:53387 original size:21 final size:21 Alignment explanation
Indices: 53348--53387 Score: 53 Period size: 21 Copynumber: 1.9 Consensus size: 21 53338 AACTTTTGAT *** 53348 ATCAAGTTACAAGCTAACTTG 1 ATCAAGTTACAAAAGAACTTG 53369 ATCAAGTTACAAAAGAACT 1 ATCAAGTTACAAAAGAACT 53388 AAAAGAAAAA Statistics Matches: 16, Mismatches: 3, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 21 16 1.00 ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25 Consensus pattern (21 bp): ATCAAGTTACAAAAGAACTTG Done.