Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Chr10 ID=Chr10-JGI_221_v2.0 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: 62175169 ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33 Warning! 981721 characters in sequence are not A, C, G, or T File 41 of 202 Found at i:12206545 original size:13 final size:14 Alignment explanation
Indices: 12206523--12206555 Score: 52 Period size: 14 Copynumber: 2.5 Consensus size: 14 12206513 CTCATCAATA 12206523 TTTTTC-TTT-AAT 1 TTTTTCATTTAAAT 12206535 TTTTTCATTTAAAT 1 TTTTTCATTTAAAT 12206549 TTTTTCA 1 TTTTTCA 12206556 ACATCCCCCT Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 12 6 0.32 13 3 0.16 14 10 0.53 ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70 Consensus pattern (14 bp): TTTTTCATTTAAAT Found at i:12208039 original size:21 final size:21 Alignment explanation
Indices: 12208015--12208054 Score: 62 Period size: 21 Copynumber: 1.9 Consensus size: 21 12208005 TAATGATCAG * * 12208015 CACATTTTGGTGGTATATCCA 1 CACATTCTGGTAGTATATCCA 12208036 CACATTCTGGTAGTATATC 1 CACATTCTGGTAGTATATC 12208055 AGCGATTCTG Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 21 17 1.00 ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38 Consensus pattern (21 bp): CACATTCTGGTAGTATATCCA Found at i:12218142 original size:12 final size:12 Alignment explanation
Indices: 12218127--12218168 Score: 75 Period size: 12 Copynumber: 3.4 Consensus size: 12 12218117 ATATTATATA 12218127 TTTTTATATAATT 1 TTTTTATATAA-T 12218140 TTTTTATATAAT 1 TTTTTATATAAT 12218152 TTTTTATATAAT 1 TTTTTATATAAT 12218164 TTTTT 1 TTTTT 12218169 TACCAAGGTT Statistics Matches: 29, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 12 18 0.62 13 11 0.38 ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71 Consensus pattern (12 bp): TTTTTATATAAT Found at i:12218145 original size:13 final size:13 Alignment explanation
Indices: 12218127--12218170 Score: 81 Period size: 13 Copynumber: 3.5 Consensus size: 13 12218117 ATATTATATA 12218127 TTTTTATATAATT 1 TTTTTATATAATT 12218140 TTTTTATATAA-T 1 TTTTTATATAATT 12218152 TTTTTATATAATT 1 TTTTTATATAATT 12218165 TTTTTA 1 TTTTTA 12218171 CCAAGGTTGT Statistics Matches: 30, Mismatches: 0, Indels: 2 0.94 0.00 0.06 Matches are distributed among these distances: 12 12 0.40 13 18 0.60 ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70 Consensus pattern (13 bp): TTTTTATATAATT Found at i:12218155 original size:25 final size:23 Alignment explanation
Indices: 12218120--12218170 Score: 84 Period size: 25 Copynumber: 2.1 Consensus size: 23 12218110 GAATGCAATA 12218120 TTATATATTTTTATATAATTTTT 1 TTATATATTTTTATATAATTTTT 12218143 TTATATAATTTTTTATATAATTTTT 1 TTATAT-A-TTTTTATATAATTTTT 12218168 TTA 1 TTA 12218171 CCAAGGTTGT Statistics Matches: 26, Mismatches: 0, Indels: 2 0.93 0.00 0.07 Matches are distributed among these distances: 23 6 0.23 24 1 0.04 25 19 0.73 ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69 Consensus pattern (23 bp): TTATATATTTTTATATAATTTTT Found at i:12218570 original size:24 final size:21 Alignment explanation
Indices: 12218535--12218577 Score: 50 Period size: 23 Copynumber: 1.9 Consensus size: 21 12218525 GATCCATTAA 12218535 AAAATAAGATGTGTGGTATTGAG 1 AAAATAAGATGT-T-GTATTGAG * 12218558 AAAATACATATGTTGTATTG 1 AAAATA-AGATGTTGTATTG 12218578 TTCTATTTTC Statistics Matches: 18, Mismatches: 1, Indels: 3 0.82 0.05 0.14 Matches are distributed among these distances: 22 6 0.33 23 7 0.39 24 5 0.28 ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35 Consensus pattern (21 bp): AAAATAAGATGTTGTATTGAG Found at i:12220102 original size:17 final size:18 Alignment explanation
Indices: 12220064--12220102 Score: 53 Period size: 18 Copynumber: 2.2 Consensus size: 18 12220054 CCCTTGTCTT * * 12220064 CTAAGGGGAAGCAGAAAG 1 CTAAGGGAAAGAAGAAAG 12220082 CTAAGGGAAAGAAGAAA- 1 CTAAGGGAAAGAAGAAAG 12220099 CTAA 1 CTAA 12220103 CTAAGTCTTT Statistics Matches: 19, Mismatches: 2, Indels: 1 0.86 0.09 0.05 Matches are distributed among these distances: 17 4 0.21 18 15 0.79 ACGTcount: A:0.51, C:0.10, G:0.31, T:0.08 Consensus pattern (18 bp): CTAAGGGAAAGAAGAAAG Found at i:12226510 original size:108 final size:109 Alignment explanation
Indices: 12226315--12226520 Score: 260 Period size: 108 Copynumber: 1.9 Consensus size: 109 12226305 GGCACCCTTG ** * 12226315 TACCAAATTTTAAAAAAAAAATTGGATGCTGAGACACTTATGGTCGACACCCTAATACCAGATTT 1 TACCAAATTTTAAAAAAAAAATTGGATGCTGAGACACTTATGACCGACACCCCAATACCAGATTT * * 12226380 AAAAACAATTTTGGGGTACTGGAACACTGATGGCCGGCACTCCAA 66 AAAAACAA-TTCGAGGTACTGGAACACTGATGGCCGGCACTCCAA * * 12226425 TACCAAA-TTT-AAAAAAAAATTGGGTGCTGGGACA-TTGATGACCGACACCCCAATACCAGATT 1 TACCAAATTTTAAAAAAAAAATTGGATGCTGAGACACTT-ATGACCGACACCCCAATACCAGA-- * 12226487 TTTTAAAAA-AA-TCGAGGTGCTGGAACACTGATGG 63 -TTTAAAAACAATTCGAGGTACTGGAACACTGATGG 12226521 TCGATACCCC Statistics Matches: 84, Mismatches: 8, Indels: 10 0.82 0.08 0.10 Matches are distributed among these distances: 107 2 0.02 108 62 0.74 109 3 0.04 110 9 0.11 111 8 0.10 ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24 Consensus pattern (109 bp): TACCAAATTTTAAAAAAAAAATTGGATGCTGAGACACTTATGACCGACACCCCAATACCAGATTT AAAAACAATTCGAGGTACTGGAACACTGATGGCCGGCACTCCAA Found at i:12226530 original size:55 final size:54 Alignment explanation
Indices: 12226270--12226548 Score: 206 Period size: 55 Copynumber: 5.1 Consensus size: 54 12226260 CCTTTTAAAA * * * * *** * 12226270 TTAAAAAAAAATTGGGTGCT-GAGATACTGATGGTCGGCACCCTTGTACCAAATT 1 TTAAAAAAAAATCGGGTGCTGGA-ACACTGATGGCCGACACCCCAATACCAGATT * * * * * 12226324 TTAAAAAAAAAATTGGATGCT-GAGACACTTATGGTCGACACCCTAATACCAGA-T 1 TT-AAAAAAAAATCGGGTGCTGGA-ACACTGATGGCCGACACCCCAATACCAGATT ** * * * * * 12226378 TTAAAAACAATTTTGGGGTACTGGAACACTGATGGCCGGCACTCCAATACCA-AAT 1 TTAAAAA-AA-AATCGGGTGCTGGAACACTGATGGCCGACACCCCAATACCAGATT * * * * 12226433 TTAAAAAAAAATTGGGTGCTGGGACATTGATGACCGACACCCCAATACCAGATT 1 TTAAAAAAAAATCGGGTGCTGGAACACTGATGGCCGACACCCCAATACCAGATT ** * * * * 12226487 TTTTAAAAAAATCGAGGTGCTGGAACACTGATGGTCGATACCCCAGTACTAGATT 1 TTAAAAAAAAATCG-GGTGCTGGAACACTGATGGCCGACACCCCAATACCAGATT 12226542 TTAAAAA 1 TTAAAAA 12226549 CTAAATATTT Statistics Matches: 179, Mismatches: 39, Indels: 13 0.77 0.17 0.06 Matches are distributed among these distances: 53 37 0.21 54 23 0.13 55 117 0.65 56 2 0.01 ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25 Consensus pattern (54 bp): TTAAAAAAAAATCGGGTGCTGGAACACTGATGGCCGACACCCCAATACCAGATT Found at i:12232434 original size:22 final size:20 Alignment explanation
Indices: 12232386--12232441 Score: 58 Period size: 22 Copynumber: 2.7 Consensus size: 20 12232376 ATATACACAT * * 12232386 TAAAAATATAAAAATAGAAA 1 TAAATATATAAAAATACAAA 12232406 TAAATATATAAAAATTCACAAA 1 TAAATATATAAAAA-T-ACAAA * * 12232428 TATATATAGAAAAA 1 TAAATATATAAAAA 12232442 AATAAACTAT Statistics Matches: 30, Mismatches: 4, Indels: 2 0.83 0.11 0.06 Matches are distributed among these distances: 20 13 0.43 21 1 0.03 22 16 0.53 ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25 Consensus pattern (20 bp): TAAATATATAAAAATACAAA Found at i:12233010 original size:22 final size:24 Alignment explanation
Indices: 12232962--12233010 Score: 57 Period size: 22 Copynumber: 2.1 Consensus size: 24 12232952 TAAATACATT ** * 12232962 TTTTTATAATTTTATAATTATATA 1 TTTTTATAATTTTATAAAAATAAA 12232986 TTTTT-TAA-TTTATAAAAATAAA 1 TTTTTATAATTTTATAAAAATAAA 12233008 TTT 1 TTT 12233011 AAAAATTACA Statistics Matches: 22, Mismatches: 3, Indels: 2 0.81 0.11 0.07 Matches are distributed among these distances: 22 14 0.64 23 3 0.14 24 5 0.23 ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59 Consensus pattern (24 bp): TTTTTATAATTTTATAAAAATAAA Found at i:12233029 original size:6 final size:6 Alignment explanation
Indices: 12233020--12233055 Score: 72 Period size: 6 Copynumber: 6.0 Consensus size: 6 12233010 TAAAAATTAC 12233020 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT 1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT 12233056 TTACAATTTT Statistics Matches: 30, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 30 1.00 ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83 Consensus pattern (6 bp): ATTTTT Found at i:12233146 original size:15 final size:15 Alignment explanation
Indices: 12233126--12233165 Score: 62 Period size: 15 Copynumber: 2.7 Consensus size: 15 12233116 TATTTTATTG 12233126 TAAATTTTATTTTTA 1 TAAATTTTATTTTTA * 12233141 TAAATTTTATTTTTT 1 TAAATTTTATTTTTA * 12233156 TAGATTTTAT 1 TAAATTTTAT 12233166 ATATATTTGA Statistics Matches: 23, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 15 23 1.00 ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68 Consensus pattern (15 bp): TAAATTTTATTTTTA Found at i:12233155 original size:17 final size:17 Alignment explanation
Indices: 12233111--12233157 Score: 53 Period size: 15 Copynumber: 2.9 Consensus size: 17 12233101 ATTTATTTTC * * * 12233111 AATTATATTTTATTGTA 1 AATTTTATTTTTTTATA 12233128 AATTTTA--TTTTTATA 1 AATTTTATTTTTTTATA 12233143 AATTTTATTTTTTTA 1 AATTTTATTTTTTTA 12233158 GATTTTATAT Statistics Matches: 25, Mismatches: 3, Indels: 4 0.78 0.09 0.12 Matches are distributed among these distances: 15 13 0.52 17 12 0.48 ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66 Consensus pattern (17 bp): AATTTTATTTTTTTATA Found at i:12233180 original size:28 final size:28 Alignment explanation
Indices: 12233149--12233213 Score: 69 Period size: 28 Copynumber: 2.3 Consensus size: 28 12233139 TATAAATTTT 12233149 ATTTTTTTAGATTTTATATATATTTGA-A 1 ATTTTTTTAGA-TTTATATATATTTGATA * * * * * 12233177 ATTTTTATATATTTATTTCTATTTTATA 1 ATTTTTTTAGATTTATATATATTTGATA 12233205 ATTTTTTTA 1 ATTTTTTTA 12233214 ATGTGTATAT Statistics Matches: 30, Mismatches: 6, Indels: 2 0.79 0.16 0.05 Matches are distributed among these distances: 27 12 0.40 28 18 0.60 ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66 Consensus pattern (28 bp): ATTTTTTTAGATTTATATATATTTGATA Found at i:12234365 original size:19 final size:19 Alignment explanation
Indices: 12234341--12234451 Score: 177 Period size: 19 Copynumber: 5.8 Consensus size: 19 12234331 AATCTTCAGG 12234341 GATATGCAATCTTAGATAT 1 GATATGCAATCTTAGATAT 12234360 GATATGCAATCTTAGATAT 1 GATATGCAATCTTAGATAT * ** 12234379 AATATATAATCTTAGATAT 1 GATATGCAATCTTAGATAT 12234398 GATATGCAATCTTAGATAT 1 GATATGCAATCTTAGATAT ** 12234417 GATATATAATCTTAGATAT 1 GATATGCAATCTTAGATAT 12234436 GATATGCAATCTTAGA 1 GATATGCAATCTTAGA 12234452 AGATATGATT Statistics Matches: 82, Mismatches: 10, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 19 82 1.00 ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38 Consensus pattern (19 bp): GATATGCAATCTTAGATAT Found at i:12234391 original size:38 final size:38 Alignment explanation
Indices: 12234348--12234451 Score: 199 Period size: 38 Copynumber: 2.7 Consensus size: 38 12234338 AGGGATATGC 12234348 AATCTTAGATATGATATGCAATCTTAGATATAATATAT 1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT * 12234386 AATCTTAGATATGATATGCAATCTTAGATATGATATAT 1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT 12234424 AATCTTAGATATGATATGCAATCTTAGA 1 AATCTTAGATATGATATGCAATCTTAGA 12234452 AGATATGATT Statistics Matches: 65, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 38 65 1.00 ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38 Consensus pattern (38 bp): AATCTTAGATATGATATGCAATCTTAGATATAATATAT Found at i:12234477 original size:22 final size:21 Alignment explanation
Indices: 12234341--12234477 Score: 114 Period size: 19 Copynumber: 6.9 Consensus size: 21 12234331 AATCTTCAGG * 12234341 GATATGCAATCTT--AGATAT 1 GATATGTAATCTTAGAGATAT * 12234360 GATATGCAATCTT--AGATAT 1 GATATGTAATCTTAGAGATAT * * 12234379 AATATATAATCTT--AGATAT 1 GATATGTAATCTTAGAGATAT * 12234398 GATATGCAATCTT--AGATAT 1 GATATGTAATCTTAGAGATAT * 12234417 GATATATAATCTT--AGATAT 1 GATATGTAATCTTAGAGATAT * 12234436 GATATGCAATCTTAGAAGATAT 1 GATATGTAATCTTAG-AGATAT * 12234458 GATTTTGTAATCTTAGAGAT 1 GA-TATGTAATCTTAGAGAT 12234478 TTAATTTGTA Statistics Matches: 102, Mismatches: 12, Indels: 5 0.86 0.10 0.04 Matches are distributed among these distances: 19 79 0.77 22 12 0.12 23 11 0.11 ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39 Consensus pattern (21 bp): GATATGTAATCTTAGAGATAT Found at i:12241806 original size:132 final size:132 Alignment explanation
Indices: 12241419--12241789 Score: 602 Period size: 132 Copynumber: 2.8 Consensus size: 132 12241409 CCTGTATTGA * 12241419 TAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC 1 TAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC * * 12241484 AGTAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGT 66 AGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC 12241549 AG 131 AG * 12241551 TAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCC 1 TAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC * * 12241616 AGTAATTCTACTTCCCTGGACAACAATTGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC 66 AGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC 12241681 AG 131 AG * * * 12241683 TAGTGGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAGCC 1 TAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC * * * 12241748 AGTAA-TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGA 66 AGTAATTC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGA 12241790 GTGTAAGTCC Statistics Matches: 222, Mismatches: 15, Indels: 4 0.92 0.06 0.02 Matches are distributed among these distances: 131 3 0.01 132 219 0.99 ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28 Consensus pattern (132 bp): TAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC AGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC AG Found at i:12242177 original size:22 final size:22 Alignment explanation
Indices: 12242117--12242160 Score: 67 Period size: 19 Copynumber: 2.1 Consensus size: 22 12242107 AATCTTCAGG 12242117 GATATGCAATCTT---AGATAT 1 GATATGCAATCTTAGAAGATAT 12242136 GATATGCAATCTTAGAAGATAT 1 GATATGCAATCTTAGAAGATAT 12242158 GAT 1 GAT 12242161 TTTGTAATTT Statistics Matches: 22, Mismatches: 0, Indels: 3 0.88 0.00 0.12 Matches are distributed among these distances: 19 13 0.59 22 9 0.41 ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34 Consensus pattern (22 bp): GATATGCAATCTTAGAAGATAT Found at i:12247676 original size:4 final size:4 Alignment explanation
Indices: 12247667--12247692 Score: 52 Period size: 4 Copynumber: 6.5 Consensus size: 4 12247657 TTCCTAAAAT 12247667 ATTA ATTA ATTA ATTA ATTA ATTA AT 1 ATTA ATTA ATTA ATTA ATTA ATTA AT 12247693 CCAATTAAAT Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 4 22 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (4 bp): ATTA Found at i:12253406 original size:42 final size:42 Alignment explanation
Indices: 12253342--12253476 Score: 164 Period size: 42 Copynumber: 3.2 Consensus size: 42 12253332 CAGGTTTATA * * * 12253342 CTTCGGTTTAGCCAATGATGCACTTATGTGCTAGTATATTTG 1 CTTCAGTTTATCCAATGATGCACTTATGTGCCAGTATATTTG * * * 12253384 CTTCAGTTTATCCGATGATGCACTTACGTTCCAGTATATTTG 1 CTTCAGTTTATCCAATGATGCACTTATGTGCCAGTATATTTG ** * 12253426 CTTCAGTTTATCCAATGATGTGC-TATGCTTGCCAGTATAATTG 1 CTTCAGTTTATCCAATGATGCACTTATG--TGCCAGTATATTTG 12253469 CTTCAGTT 1 CTTCAGTT 12253477 CGTTTGATGA Statistics Matches: 79, Mismatches: 12, Indels: 3 0.84 0.13 0.03 Matches are distributed among these distances: 41 3 0.04 42 56 0.71 43 20 0.25 ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41 Consensus pattern (42 bp): CTTCAGTTTATCCAATGATGCACTTATGTGCCAGTATATTTG Found at i:12253577 original size:43 final size:43 Alignment explanation
Indices: 12253525--12253622 Score: 178 Period size: 43 Copynumber: 2.3 Consensus size: 43 12253515 CGGCTTGCTC * 12253525 GATGATGCACTATGTGTGTTAGTATCTTTTCTTTAATATATCT 1 GATGATGCACTATGTGTGTCAGTATCTTTTCTTTAATATATCT * 12253568 GATGTTGCACTATGTGTGTCAGTATCTTTTCTTTAATATATCT 1 GATGATGCACTATGTGTGTCAGTATCTTTTCTTTAATATATCT 12253611 GATGATGCACTA 1 GATGATGCACTA 12253623 CAGTGCCAGA Statistics Matches: 52, Mismatches: 3, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 43 52 1.00 ACGTcount: A:0.23, C:0.13, G:0.17, T:0.46 Consensus pattern (43 bp): GATGATGCACTATGTGTGTCAGTATCTTTTCTTTAATATATCT Found at i:12258505 original size:41 final size:41 Alignment explanation
Indices: 12258448--12258526 Score: 158 Period size: 41 Copynumber: 1.9 Consensus size: 41 12258438 CCTCTAGAGA 12258448 AAGTGAAGAGTAGTCTTGGAAATGAAAATGTATTAAAACGC 1 AAGTGAAGAGTAGTCTTGGAAATGAAAATGTATTAAAACGC 12258489 AAGTGAAGAGTAGTCTTGGAAATGAAAATGTATTAAAA 1 AAGTGAAGAGTAGTCTTGGAAATGAAAATGTATTAAAA 12258527 TGCTTTGAAG Statistics Matches: 38, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 41 38 1.00 ACGTcount: A:0.46, C:0.05, G:0.24, T:0.25 Consensus pattern (41 bp): AAGTGAAGAGTAGTCTTGGAAATGAAAATGTATTAAAACGC Found at i:12262094 original size:18 final size:17 Alignment explanation
Indices: 12262071--12262104 Score: 50 Period size: 18 Copynumber: 1.9 Consensus size: 17 12262061 TGAATAGAAA 12262071 ATGTGTATGATATAATGT 1 ATGTGTATGAT-TAATGT * 12262089 ATGTGTTTGATTAATG 1 ATGTGTATGATTAATG 12262105 AATTGATGAT Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 17 5 0.33 18 10 0.67 ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47 Consensus pattern (17 bp): ATGTGTATGATTAATGT Found at i:12267607 original size:2 final size:2 Alignment explanation
Indices: 12267600--12267624 Score: 50 Period size: 2 Copynumber: 12.5 Consensus size: 2 12267590 GCCCTTTCTT 12267600 TA TA TA TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA T 12267625 TATTAATGAA Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 23 1.00 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (2 bp): TA Found at i:12273841 original size:23 final size:24 Alignment explanation
Indices: 12273814--12273866 Score: 90 Period size: 24 Copynumber: 2.2 Consensus size: 24 12273804 TGTATAAAAC * 12273814 TTATTTT-ATTGTTAATTTTGTTA 1 TTATTTTAAATGTTAATTTTGTTA 12273837 TTATTTTAAATGTTAATTTTGTTA 1 TTATTTTAAATGTTAATTTTGTTA 12273861 TTATTT 1 TTATTT 12273867 AGAGGCATTT Statistics Matches: 28, Mismatches: 1, Indels: 1 0.93 0.03 0.03 Matches are distributed among these distances: 23 7 0.25 24 21 0.75 ACGTcount: A:0.25, C:0.00, G:0.08, T:0.68 Consensus pattern (24 bp): TTATTTTAAATGTTAATTTTGTTA Found at i:12274525 original size:16 final size:16 Alignment explanation
Indices: 12274504--12274540 Score: 56 Period size: 16 Copynumber: 2.3 Consensus size: 16 12274494 GTTGAATTTT * 12274504 AAAATTTTAAAATAAA 1 AAAATTATAAAATAAA * 12274520 AAAATTATGAAATAAA 1 AAAATTATAAAATAAA 12274536 AAAAT 1 AAAAT 12274541 GAATTAATTC Statistics Matches: 19, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 16 19 1.00 ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27 Consensus pattern (16 bp): AAAATTATAAAATAAA Found at i:12282535 original size:21 final size:21 Alignment explanation
Indices: 12282500--12282540 Score: 66 Period size: 21 Copynumber: 2.0 Consensus size: 21 12282490 TCTTGAAAAA 12282500 CCAAAATTCTAATTTTTTTTG 1 CCAAAATTCTAATTTTTTTTG 12282521 CCAAATATTCT-ATTTTTTTT 1 CCAAA-ATTCTAATTTTTTTT 12282541 AAAAAAATTA Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 21 14 0.74 22 5 0.26 ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56 Consensus pattern (21 bp): CCAAAATTCTAATTTTTTTTG Found at i:12284158 original size:24 final size:24 Alignment explanation
Indices: 12284118--12284193 Score: 91 Period size: 24 Copynumber: 3.2 Consensus size: 24 12284108 GACGAAGACA 12284118 AAGACGAGGGT-AGAGATGAAGATG 1 AAGACGAGGGTCA-AGATGAAGATG * 12284142 AAGACGATGGTCAAGATGAAGATG 1 AAGACGAGGGTCAAGATGAAGATG * * * * 12284166 AATACGGGGGTCGAGGTGAAGATG 1 AAGACGAGGGTCAAGATGAAGATG 12284190 AAGA 1 AAGA 12284194 TGATGATCAC Statistics Matches: 44, Mismatches: 7, Indels: 2 0.83 0.13 0.04 Matches are distributed among these distances: 24 43 0.98 25 1 0.02 ACGTcount: A:0.39, C:0.07, G:0.39, T:0.14 Consensus pattern (24 bp): AAGACGAGGGTCAAGATGAAGATG Found at i:12289415 original size:22 final size:23 Alignment explanation
Indices: 12289349--12289415 Score: 66 Period size: 22 Copynumber: 3.0 Consensus size: 23 12289339 TAGCGCTTAC ** 12289349 CGTTTTGCACTTCGGTGTTTA-T 1 CGTTTTGCACTTCGGTGCCTACT ** ** 12289371 CGTTCCGCACTTCAATGCCTACT 1 CGTTTTGCACTTCGGTGCCTACT 12289394 -GTTTTGCACTTCGGTGCCTACT 1 CGTTTTGCACTTCGGTGCCTACT 12289416 AGGGGTGTGC Statistics Matches: 34, Mismatches: 10, Indels: 2 0.74 0.22 0.04 Matches are distributed among these distances: 22 33 0.97 23 1 0.03 ACGTcount: A:0.12, C:0.28, G:0.19, T:0.40 Consensus pattern (23 bp): CGTTTTGCACTTCGGTGCCTACT Found at i:12289647 original size:13 final size:13 Alignment explanation
Indices: 12289629--12289653 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 12289619 ACCCAACCCA 12289629 ACCCAACCCAATT 1 ACCCAACCCAATT 12289642 ACCCAACCCAAT 1 ACCCAACCCAAT 12289654 AAAACTAAAA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12 Consensus pattern (13 bp): ACCCAACCCAATT Found at i:12289691 original size:51 final size:53 Alignment explanation
Indices: 12289634--12289747 Score: 162 Period size: 50 Copynumber: 2.2 Consensus size: 53 12289624 ACCCAACCCA * 12289634 ACCCAATTACCCAACCCAATAAAACTAAAAATAAAGTCT-ACACTAAAG-TCT 1 ACCCAATTACCCAACCCAATAAAAATAAAAATAAAGTCTAACACTAAAGATCT * * * 12289685 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCTAACTCTTAAGTATCT 1 ACCCAATTACCCAACCCAATAAAAATAAAAATAAAGTCTAACACTAAAG-ATCT 12289738 ACCCAATTAC 1 ACCCAATTAC 12289748 ACATGTTTTT Statistics Matches: 55, Mismatches: 4, Indels: 5 0.86 0.06 0.08 Matches are distributed among these distances: 50 27 0.49 51 16 0.29 53 12 0.22 ACGTcount: A:0.47, C:0.27, G:0.04, T:0.22 Consensus pattern (53 bp): ACCCAATTACCCAACCCAATAAAAATAAAAATAAAGTCTAACACTAAAGATCT Found at i:12289940 original size:9 final size:9 Alignment explanation
Indices: 12289922--12289997 Score: 73 Period size: 9 Copynumber: 8.4 Consensus size: 9 12289912 GTAGTGATTC 12289922 AATTCGGGT 1 AATTCGGGT * 12289931 AATTCAGGT 1 AATTCGGGT 12289940 AATTCGGGT 1 AATTCGGGT * * 12289949 AATTCTGTT 1 AATTCGGGT * 12289958 AATTCGGTT 1 AATTCGGGT * 12289967 AATTCGGTT 1 AATTCGGGT * 12289976 AATT-TGGT 1 AATTCGGGT * 12289984 CAATTCGGTT 1 -AATTCGGGT 12289994 AATT 1 AATT 12289998 TTTAACCAAA Statistics Matches: 56, Mismatches: 9, Indels: 4 0.81 0.13 0.06 Matches are distributed among these distances: 8 2 0.04 9 52 0.93 10 2 0.04 ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42 Consensus pattern (9 bp): AATTCGGGT Found at i:12289953 original size:27 final size:27 Alignment explanation
Indices: 12289922--12289997 Score: 84 Period size: 27 Copynumber: 2.8 Consensus size: 27 12289912 GTAGTGATTC 12289922 AATTCGGGTAATTCAGG-TAATTCGGGT 1 AATTCGGGTAATTC-GGTTAATTCGGGT * * * 12289949 AATTCTGTTAATTCGGTTAATTCGGTT 1 AATTCGGGTAATTCGGTTAATTCGGGT * 12289976 AATT-TGGTCAATTCGGTTAATT 1 AATTCGGGT-AATTCGGTTAATT 12289998 TTTAACCAAA Statistics Matches: 43, Mismatches: 4, Indels: 4 0.84 0.08 0.08 Matches are distributed among these distances: 26 5 0.12 27 38 0.88 ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42 Consensus pattern (27 bp): AATTCGGGTAATTCGGTTAATTCGGGT Found at i:12289976 original size:18 final size:18 Alignment explanation
Indices: 12289922--12289997 Score: 93 Period size: 18 Copynumber: 4.2 Consensus size: 18 12289912 GTAGTGATTC 12289922 AATTCGGGTAATTCAGG-T 1 AATTCGGGTAATTC-GGTT * 12289940 AATTCGGGTAATTCTGTT 1 AATTCGGGTAATTCGGTT * 12289958 AATTCGGTTAATTCGGTT 1 AATTCGGGTAATTCGGTT * 12289976 AATT-TGGTCAATTCGGTT 1 AATTCGGGT-AATTCGGTT 12289994 AATT 1 AATT 12289998 TTTAACCAAA Statistics Matches: 51, Mismatches: 5, Indels: 4 0.85 0.08 0.07 Matches are distributed among these distances: 17 3 0.06 18 48 0.94 ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42 Consensus pattern (18 bp): AATTCGGGTAATTCGGTT Found at i:12292466 original size:33 final size:33 Alignment explanation
Indices: 12292404--12292498 Score: 104 Period size: 33 Copynumber: 2.9 Consensus size: 33 12292394 GGACTTTATC * 12292404 TGTTCTGTGTTTATTGTCCCAGCGAACTATCTA 1 TGTTCTGTGTTTATTGTCCCAACGAACTATCTA * * * 12292437 TGTTCTGTGTTTATTGTCCTAAC-AGACTATTTC 1 TGTTCTGTGTTTATTGTCCCAACGA-ACTATCTA * * * 12292470 TGTTATGTGTTTACTAT-CCAACGAACTAT 1 TGTTCTGTGTTTATTGTCCCAACGAACTAT 12292499 ATTTGTCATG Statistics Matches: 52, Mismatches: 8, Indels: 5 0.80 0.12 0.08 Matches are distributed among these distances: 32 10 0.19 33 42 0.81 ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44 Consensus pattern (33 bp): TGTTCTGTGTTTATTGTCCCAACGAACTATCTA Found at i:12293810 original size:25 final size:25 Alignment explanation
Indices: 12293757--12293810 Score: 67 Period size: 25 Copynumber: 2.2 Consensus size: 25 12293747 AAAGATAAAC * * 12293757 ATTAAATTAAATTTATATAACTACT 1 ATTAAATTAAATTAATATAAATACT 12293782 -TTAATATTAAATTAATA-AAATACT 1 ATTAA-ATTAAATTAATATAAATACT 12293806 ATTAA 1 ATTAA 12293811 GATAAATACT Statistics Matches: 25, Mismatches: 2, Indels: 4 0.81 0.06 0.13 Matches are distributed among these distances: 24 10 0.40 25 15 0.60 ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43 Consensus pattern (25 bp): ATTAAATTAAATTAATATAAATACT Found at i:12298823 original size:42 final size:43 Alignment explanation
Indices: 12298731--12298824 Score: 127 Period size: 43 Copynumber: 2.2 Consensus size: 43 12298721 ACATAGTTAG ** * * 12298731 CCCATTGATGAATACTATACACAAGTAAACTTTATACAATTCG 1 CCCATTGGCGAATACTATACACAAGCAAACTTTATACAATTCA ** 12298774 CCCATTGGCGAATACTATACACAAGCAGTCTTT-TACAATTCA 1 CCCATTGGCGAATACTATACACAAGCAAACTTTATACAATTCA 12298816 CCCATTGGC 1 CCCATTGGC 12298825 AAAATACCGA Statistics Matches: 45, Mismatches: 6, Indels: 1 0.87 0.12 0.02 Matches are distributed among these distances: 42 17 0.38 43 28 0.62 ACGTcount: A:0.34, C:0.26, G:0.12, T:0.29 Consensus pattern (43 bp): CCCATTGGCGAATACTATACACAAGCAAACTTTATACAATTCA Found at i:12300044 original size:20 final size:20 Alignment explanation
Indices: 12300020--12300119 Score: 65 Period size: 20 Copynumber: 5.0 Consensus size: 20 12300010 AAGTACTTGT * 12300020 AGTTTATCTGCAATACTGGT 1 AGTTTATCTGCAATACTGGC * * *** * 12300040 GGTTTGTCCATAATACTAGC 1 AGTTTATCTGCAATACTGGC * * 12300060 ATTTTATCTGCAATACTGGT 1 AGTTTATCTGCAATACTGGC * * * ** 12300080 GGCTTGTCCACAATACTGGC 1 AGTTTATCTGCAATACTGGC * 12300100 AGTTTATCTGTAATACTGGC 1 AGTTTATCTGCAATACTGGC 12300120 GACTTGTCCA Statistics Matches: 52, Mismatches: 28, Indels: 0 0.65 0.35 0.00 Matches are distributed among these distances: 20 52 1.00 ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37 Consensus pattern (20 bp): AGTTTATCTGCAATACTGGC Found at i:12300077 original size:40 final size:40 Alignment explanation
Indices: 12300020--12300170 Score: 178 Period size: 40 Copynumber: 3.8 Consensus size: 40 12300010 AAGTACTTGT * 12300020 AGTTTATCTGCAATACTGGTGGTTTGTCCATAATACTAGC 1 AGTTTATCTGCAATACTGGTGGCTTGTCCATAATACTAGC * * * 12300060 ATTTTATCTGCAATACTGGTGGCTTGTCCACAATACTGGC 1 AGTTTATCTGCAATACTGGTGGCTTGTCCATAATACTAGC * * * * 12300100 AGTTTATCTGTAATACTGGCGACTTGTCCATAATACT-GAT 1 AGTTTATCTGCAATACTGGTGGCTTGTCCATAATACTAG-C * ** 12300140 AGTTTATCTGCGATTACCAGTGGCTTGTCCA 1 AGTTTATCTGC-AATACTGGTGGCTTGTCCA 12300171 CAAACGACTG Statistics Matches: 93, Mismatches: 16, Indels: 3 0.83 0.14 0.03 Matches are distributed among these distances: 39 1 0.01 40 78 0.84 41 14 0.15 ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36 Consensus pattern (40 bp): AGTTTATCTGCAATACTGGTGGCTTGTCCATAATACTAGC Found at i:12305966 original size:6 final size:7 Alignment explanation
Indices: 12305937--12305965 Score: 51 Period size: 7 Copynumber: 4.3 Consensus size: 7 12305927 CCTAAATACT 12305937 AAACTC- 1 AAACTCA 12305943 AAACTCA 1 AAACTCA 12305950 AAACTCA 1 AAACTCA 12305957 AAACTCA 1 AAACTCA 12305964 AA 1 AA 12305966 CCCTAAATTA Statistics Matches: 22, Mismatches: 0, Indels: 1 0.96 0.00 0.04 Matches are distributed among these distances: 6 6 0.27 7 16 0.73 ACGTcount: A:0.59, C:0.28, G:0.00, T:0.14 Consensus pattern (7 bp): AAACTCA Found at i:12306045 original size:14 final size:14 Alignment explanation
Indices: 12306026--12306052 Score: 54 Period size: 14 Copynumber: 1.9 Consensus size: 14 12306016 CAAACCCGAA 12306026 CCTGAACCTTGAAT 1 CCTGAACCTTGAAT 12306040 CCTGAACCTTGAA 1 CCTGAACCTTGAA 12306053 CCTAGGGTTC Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 13 1.00 ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26 Consensus pattern (14 bp): CCTGAACCTTGAAT Found at i:12316649 original size:24 final size:24 Alignment explanation
Indices: 12316615--12316666 Score: 68 Period size: 24 Copynumber: 2.2 Consensus size: 24 12316605 TTTCTAGAAG * * * 12316615 ATTTAGTATTTATGAGTATAATGT 1 ATTTAGCATTTATGAGCATAATAT * 12316639 ATTTAGCATTTATTAGCATAATAT 1 ATTTAGCATTTATGAGCATAATAT 12316663 ATTT 1 ATTT 12316667 GACTTTGATT Statistics Matches: 24, Mismatches: 4, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 24 24 1.00 ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50 Consensus pattern (24 bp): ATTTAGCATTTATGAGCATAATAT Found at i:12319753 original size:24 final size:24 Alignment explanation
Indices: 12319688--12319741 Score: 72 Period size: 24 Copynumber: 2.2 Consensus size: 24 12319678 TCTTTCTAGA ** * * 12319688 ATATTTAGTATTTATGAGTATAAT 1 ATATTTAACATTTATTAGCATAAT 12319712 ATATTTAACATTTATTAGCATAAT 1 ATATTTAACATTTATTAGCATAAT 12319736 ATATTT 1 ATATTT 12319742 GACTTTAATT Statistics Matches: 26, Mismatches: 4, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 24 26 1.00 ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50 Consensus pattern (24 bp): ATATTTAACATTTATTAGCATAAT Found at i:12321355 original size:23 final size:24 Alignment explanation
Indices: 12321327--12321372 Score: 76 Period size: 23 Copynumber: 2.0 Consensus size: 24 12321317 TTGTTATATG 12321327 TATATACATACATACAT-TTTTTA 1 TATATACATACATACATATTTTTA * 12321350 TATATATATACATACATATTTTT 1 TATATACATACATACATATTTTT 12321373 TTAATTTTTA Statistics Matches: 21, Mismatches: 1, Indels: 1 0.91 0.04 0.04 Matches are distributed among these distances: 23 16 0.76 24 5 0.24 ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50 Consensus pattern (24 bp): TATATACATACATACATATTTTTA Found at i:12321384 original size:27 final size:27 Alignment explanation
Indices: 12321314--12321375 Score: 90 Period size: 27 Copynumber: 2.3 Consensus size: 27 12321304 TTTACTTCAA * 12321314 ATTTTGTTATATGTATATACATACATAC 1 ATTTT-TTATATATATATACATACATAC 12321342 ATTTTTTATATATATATACATACATA- 1 ATTTTTTATATATATATACATACATAC * 12321368 TTTTTTTA 1 ATTTTTTA 12321376 ATTTTTATAA Statistics Matches: 32, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 26 7 0.22 27 20 0.62 28 5 0.16 ACGTcount: A:0.35, C:0.08, G:0.03, T:0.53 Consensus pattern (27 bp): ATTTTTTATATATATATACATACATAC Found at i:12321447 original size:20 final size:19 Alignment explanation
Indices: 12321424--12321470 Score: 51 Period size: 20 Copynumber: 2.4 Consensus size: 19 12321414 ATTTATTTTT 12321424 ATATTTTATAACTTATATAC 1 ATATTTTATAAC-TATATAC * * 12321444 ATATCTATATATCTATATAC 1 ATAT-TTTATAACTATATAC 12321464 AT-TTTTA 1 ATATTTTA 12321471 ATTTTTTATG Statistics Matches: 23, Mismatches: 3, Indels: 4 0.77 0.10 0.13 Matches are distributed among these distances: 18 3 0.13 19 1 0.04 20 13 0.57 21 6 0.26 ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51 Consensus pattern (19 bp): ATATTTTATAACTATATAC Found at i:12322479 original size:173 final size:173 Alignment explanation
Indices: 12322221--12322573 Score: 636 Period size: 173 Copynumber: 2.0 Consensus size: 173 12322211 ATTCTTCTAA 12322221 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG 1 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG * * * * 12322286 GGTGTTAATCCTTTCTCGTACGTAACCGACTCTCGAACTCGTTTTCTGAATTTTGTGGACCAAAA 66 GGTGCTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCATTTTCTGAATTTTGTGGACCAAAA * * 12322351 TCGTTGTTTTAATAAAATCGAATCGTTTATTAAAAATAACCAC 131 TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAACAACCAC * 12322394 GTTTTCAATTTTCGACATCAAGACATTAGCTAATTAACTAGGTACCAATTTTTGGGCGTTACGAG 1 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG 12322459 GGTGCTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCATTTTCTGAATTTTGTGGACCAAAA 66 GGTGCTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCATTTTCTGAATTTTGTGGACCAAAA 12322524 TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAACAACCAC 131 TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAACAACCAC 12322567 -TTTTCAA 1 GTTTTCAA 12322574 GGTGATCTGA Statistics Matches: 173, Mismatches: 7, Indels: 1 0.96 0.04 0.01 Matches are distributed among these distances: 172 7 0.04 173 166 0.96 ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35 Consensus pattern (173 bp): GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG GGTGCTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCATTTTCTGAATTTTGTGGACCAAAA TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAACAACCAC Found at i:12332501 original size:45 final size:45 Alignment explanation
Indices: 12332452--12332551 Score: 146 Period size: 45 Copynumber: 2.2 Consensus size: 45 12332442 ATAGATCAAT * * * 12332452 GAAGATAGCAGATTTTGCTTTCCTGTACTGACAGCAAAGCAGATC 1 GAAGATACCAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATC * * * 12332497 GAAGACACCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATC 1 GAAGATACCAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATC 12332542 GAAGATACCA 1 GAAGATACCA 12332552 TAGTTTGCAG Statistics Matches: 48, Mismatches: 7, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 45 48 1.00 ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23 Consensus pattern (45 bp): GAAGATACCAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATC Found at i:12332623 original size:50 final size:50 Alignment explanation
Indices: 12332579--12332891 Score: 172 Period size: 50 Copynumber: 6.3 Consensus size: 50 12332569 GATTGAGGTC * * 12332579 ACAATGGCGAATCTTACTT-CCTTAGCGGTGCAGTGGAACAGATTGAAGCT 1 ACAACGGCGAATCTTACTTCCCTT-GCGGTACAGTGGAACAGATTGAAGCT * * 12332629 ACAACGGCGAATCTTATTTCCCTTGTGGTACAGTGGAACAGATTGAAGCT 1 ACAACGGCGAATCTTACTTCCCTTGCGGTACAGTGGAACAGATTGAAGCT ** * ** * * * * * * 12332679 ACAACGATGAATCTTGCTTTCCC--GACATTGCAAT-TAAAAGATTGAGGCC 1 ACAACGGCGAATCTTAC-TTCCCTTG-CGGTACAGTGGAACAGATTGAAGCT * * * ** * * 12332728 ACAACGACGAATCTTACTTTCCTGGCGGTGTAGTGGAATAAATTGAAGCT 1 ACAACGGCGAATCTTACTTCCCTTGCGGTACAGTGGAACAGATTGAAGCT * * * * ** * * * * * 12332778 ACAATGGTGAATCTTGCTTCCC-CGACATTACAAT-TAAAAGA-TCAAGGCC 1 ACAACGGCGAATCTTACTTCCCTTG-CGGTACAGTGGAACAGATTGAA-GCT ** * * * 12332827 ACAACGGCGAATCTTACTTTTCTGGCGGTGCAGCGGAACAGATTGAAGCT 1 ACAACGGCGAATCTTACTTCCCTTGCGGTACAGTGGAACAGATTGAAGCT * * 12332877 ACAACGACAAATCTT 1 ACAACGGCGAATCTT 12332892 GCTTAACATT Statistics Matches: 190, Mismatches: 62, Indels: 22 0.69 0.23 0.08 Matches are distributed among these distances: 48 7 0.04 49 60 0.32 50 111 0.58 51 12 0.06 ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26 Consensus pattern (50 bp): ACAACGGCGAATCTTACTTCCCTTGCGGTACAGTGGAACAGATTGAAGCT Found at i:12332734 original size:49 final size:49 Alignment explanation
Indices: 12332668--12332941 Score: 148 Period size: 49 Copynumber: 5.6 Consensus size: 49 12332658 ACAGTGGAAC * * * 12332668 AGATTGAAGCTACAACGATGAATCTTGCTTTCCCGACATTGCAATTAAA 1 AGATTGAAGCCACAACGACGAATCTTACTTTCCCGACATTGCAATTAAA * * * ** * * * 12332717 AGATTGAGGCCACAACGACGAATCTTACTTTCCTGGCGGTGTAGTGGAATA 1 AGATTGAAGCCACAACGACGAATCTTACTTTCCCGACATTGCAAT-TAA-A * * ** * * * 12332768 A-ATTGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTACAATTAAA 1 AGATTGAAGCCACAACGACGAATCTTACTTTCCCGACATTGCAATTAAA * * * * * ** *** * 12332816 AGA-TCAAGGCCACAACGGCGAATCTTACTTTTCTGGCGGTGCAGCGGAAC 1 AGATTGAA-GCCACAACGACGAATCTTACTTTCCCGACATTGCA-ATTAAA * * * * 12332866 AGATTGAAGCTACAACGACAAATCTTGC-TT---AACATTGCAATTAAA 1 AGATTGAAGCCACAACGACGAATCTTACTTTCCCGACATTGCAATTAAA * 12332911 AGATTGAGGCCACAAC-AGCGAATCTTACTTT 1 AGATTGAAGCCACAACGA-CGAATCTTACTTT 12332942 TCTGGTGAAT Statistics Matches: 158, Mismatches: 59, Indels: 19 0.67 0.25 0.08 Matches are distributed among these distances: 44 1 0.01 45 24 0.15 46 7 0.04 48 5 0.03 49 64 0.41 50 52 0.33 51 5 0.03 ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26 Consensus pattern (49 bp): AGATTGAAGCCACAACGACGAATCTTACTTTCCCGACATTGCAATTAAA Found at i:12332740 original size:99 final size:99 Alignment explanation
Indices: 12332618--12332946 Score: 400 Period size: 99 Copynumber: 3.4 Consensus size: 99 12332608 GCAGTGGAAC * * * * * * 12332618 AGATTGAAGCTACAACGGCGAATCTTA-TTTCCCTTGTGGTACAGTGGAACAGATTGAAGCTACA 1 AGATTGAGGCCACAACGACGAATCTTACTTT-CCTGGCGGTGCAGTGGAACAGATTGAAGCTACA 12332682 ACGATGAATCTTGCTTTCCCGACATTGCAATTAAA 65 ACGATGAATCTTGCTTTCCCGACATTGCAATTAAA * * * 12332717 AGATTGAGGCCACAACGACGAATCTTACTTTCCTGGCGGTGTAGTGGAATAAATTGAAGCTACAA 1 AGATTGAGGCCACAACGACGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA * * * * 12332782 TGGTGAATCTTGCTTCCCCGACATTACAATTAAA 66 CGATGAATCTTGCTTTCCCGACATTGCAATTAAA ** * * * 12332816 AGATCAAGGCCACAACGGCGAATCTTACTTTTCTGGCGGTGCAGCGGAACAGATTGAAGCTACAA 1 AGATTGAGGCCACAACGACGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA ** * 12332881 CGACAAATCTTGC-TT---AACATTGCAATTAAA 66 CGATGAATCTTGCTTTCCCGACATTGCAATTAAA * 12332911 AGATTGAGGCCACAAC-AGCGAATCTTACTTTTCTGG 1 AGATTGAGGCCACAACGA-CGAATCTTACTTTCCTGG 12332947 TGAATAGATT Statistics Matches: 197, Mismatches: 31, Indels: 8 0.83 0.13 0.03 Matches are distributed among these distances: 95 45 0.23 98 1 0.01 99 148 0.75 100 3 0.02 ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26 Consensus pattern (99 bp): AGATTGAGGCCACAACGACGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA CGATGAATCTTGCTTTCCCGACATTGCAATTAAA Found at i:12334794 original size:22 final size:23 Alignment explanation
Indices: 12334762--12334808 Score: 69 Period size: 22 Copynumber: 2.1 Consensus size: 23 12334752 TTGTTATATG * 12334762 TATATACATACATACAT-TTTTT 1 TATATACATACATAAATATTTTT * 12334784 TATATATATACATAAATATTTTT 1 TATATACATACATAAATATTTTT 12334807 TA 1 TA 12334809 ATTTTTATAA Statistics Matches: 22, Mismatches: 2, Indels: 1 0.88 0.08 0.04 Matches are distributed among these distances: 22 15 0.68 23 7 0.32 ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51 Consensus pattern (23 bp): TATATACATACATAAATATTTTT Found at i:12334880 original size:20 final size:19 Alignment explanation
Indices: 12334857--12334903 Score: 51 Period size: 20 Copynumber: 2.4 Consensus size: 19 12334847 ATTTATTTTT 12334857 ATATTTTATAACTTATATAC 1 ATATTTTATAAC-TATATAC * * 12334877 ATATCTATATATCTATATAC 1 ATAT-TTTATAACTATATAC 12334897 AT-TTTTA 1 ATATTTTA 12334904 ATTTTTTATG Statistics Matches: 23, Mismatches: 3, Indels: 4 0.77 0.10 0.13 Matches are distributed among these distances: 18 3 0.13 19 1 0.04 20 13 0.57 21 6 0.26 ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51 Consensus pattern (19 bp): ATATTTTATAACTATATAC Found at i:12336106 original size:14 final size:14 Alignment explanation
Indices: 12336087--12336115 Score: 58 Period size: 14 Copynumber: 2.1 Consensus size: 14 12336077 GACAAAGCCT 12336087 ATACTTTAATTGTG 1 ATACTTTAATTGTG 12336101 ATACTTTAATTGTG 1 ATACTTTAATTGTG 12336115 A 1 A 12336116 AACTGAGGTT Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 15 1.00 ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48 Consensus pattern (14 bp): ATACTTTAATTGTG Found at i:12338125 original size:24 final size:24 Alignment explanation
Indices: 12338074--12338125 Score: 59 Period size: 24 Copynumber: 2.2 Consensus size: 24 12338064 AATTGAGTTT * * * 12338074 CTTTTCCTAGTTAAACCCTACTAT 1 CTTTTCCTAGTCAAACCCTAATAA * * 12338098 CTTTTCCTAGTCGAACTCTAATAA 1 CTTTTCCTAGTCAAACCCTAATAA 12338122 CTTT 1 CTTT 12338126 AGGGATATTC Statistics Matches: 23, Mismatches: 5, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 24 23 1.00 ACGTcount: A:0.25, C:0.27, G:0.06, T:0.42 Consensus pattern (24 bp): CTTTTCCTAGTCAAACCCTAATAA Found at i:12345617 original size:25 final size:25 Alignment explanation
Indices: 12345582--12345629 Score: 87 Period size: 25 Copynumber: 1.9 Consensus size: 25 12345572 AAGAATCCCA 12345582 GTTTTCCTTTGACTGGGTCTAGCCG 1 GTTTTCCTTTGACTGGGTCTAGCCG * 12345607 GTTTTCTTTTGACTGGGTCTAGC 1 GTTTTCCTTTGACTGGGTCTAGC 12345630 AGCCGTCAAA Statistics Matches: 22, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 25 22 1.00 ACGTcount: A:0.08, C:0.21, G:0.27, T:0.44 Consensus pattern (25 bp): GTTTTCCTTTGACTGGGTCTAGCCG Found at i:12348076 original size:13 final size:13 Alignment explanation
Indices: 12348058--12348082 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 12348048 TTTAGTATTG 12348058 CTTTTAAAAAGTA 1 CTTTTAAAAAGTA 12348071 CTTTTAAAAAGT 1 CTTTTAAAAAGT 12348083 GTTAGTGGAA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40 Consensus pattern (13 bp): CTTTTAAAAAGTA Found at i:12355520 original size:17 final size:17 Alignment explanation
Indices: 12355498--12355530 Score: 57 Period size: 17 Copynumber: 1.9 Consensus size: 17 12355488 ACCCGAAAAA * 12355498 ATTATTATTTTATCGAG 1 ATTATTAATTTATCGAG 12355515 ATTATTAATTTATCGA 1 ATTATTAATTTATCGA 12355531 TAAATAAATA Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 17 15 1.00 ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52 Consensus pattern (17 bp): ATTATTAATTTATCGAG Found at i:12355546 original size:27 final size:26 Alignment explanation
Indices: 12355516--12355579 Score: 101 Period size: 27 Copynumber: 2.4 Consensus size: 26 12355506 TTTATCGAGA 12355516 TTATTAATTTATCGATAAATAAATATT 1 TTATTAATTTATCGATAAATAAATA-T * * 12355543 TTATTACTTTATCGATAAATTAATAT 1 TTATTAATTTATCGATAAATAAATAT 12355569 TTATTAATTTA 1 TTATTAATTTA 12355580 GAGAATATTT Statistics Matches: 34, Mismatches: 3, Indels: 1 0.89 0.08 0.03 Matches are distributed among these distances: 26 11 0.32 27 23 0.68 ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52 Consensus pattern (26 bp): TTATTAATTTATCGATAAATAAATAT Found at i:12355700 original size:36 final size:39 Alignment explanation
Indices: 12355653--12355730 Score: 117 Period size: 36 Copynumber: 2.1 Consensus size: 39 12355643 AATGAATCAA * 12355653 AATTAATTGGTTCATGTAA-C-AAAA-AAAAAAAGAGTT 1 AATTAATTGGTTCATGTAACCAAAAAGAAAAAAAAAGTT * 12355689 AATTGATTGGTTCATGTAACCAAAAAGAAAAAAAAAGTT 1 AATTAATTGGTTCATGTAACCAAAAAGAAAAAAAAAGTT 12355728 AAT 1 AAT 12355731 AGTTTCAAAA Statistics Matches: 37, Mismatches: 2, Indels: 3 0.88 0.05 0.07 Matches are distributed among these distances: 36 18 0.49 37 1 0.03 38 4 0.11 39 14 0.38 ACGTcount: A:0.53, C:0.06, G:0.14, T:0.27 Consensus pattern (39 bp): AATTAATTGGTTCATGTAACCAAAAAGAAAAAAAAAGTT Found at i:12371122 original size:12 final size:12 Alignment explanation
Indices: 12371092--12371124 Score: 52 Period size: 11 Copynumber: 2.9 Consensus size: 12 12371082 TATATATTTT 12371092 AAAATT-ATATA 1 AAAATTAATATA 12371103 AAAA-TAATATA 1 AAAATTAATATA 12371114 AAAATTAATAT 1 AAAATTAATAT 12371125 GGGTGGGTCG Statistics Matches: 20, Mismatches: 0, Indels: 3 0.87 0.00 0.13 Matches are distributed among these distances: 10 1 0.05 11 13 0.65 12 6 0.30 ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33 Consensus pattern (12 bp): AAAATTAATATA Found at i:12373725 original size:13 final size:13 Alignment explanation
Indices: 12373707--12373734 Score: 56 Period size: 13 Copynumber: 2.2 Consensus size: 13 12373697 TTCTGCCACC 12373707 AAAAATTTGCAAT 1 AAAAATTTGCAAT 12373720 AAAAATTTGCAAT 1 AAAAATTTGCAAT 12373733 AA 1 AA 12373735 TACCCTCTAA Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 15 1.00 ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29 Consensus pattern (13 bp): AAAAATTTGCAAT Found at i:12376505 original size:18 final size:20 Alignment explanation
Indices: 12376468--12376507 Score: 57 Period size: 19 Copynumber: 2.1 Consensus size: 20 12376458 AATATTGGAT * 12376468 CTATATTTTCACTATTATCC 1 CTATATTTTCACTATAATCC 12376488 CTAT-TTTTCACTA-AATCC 1 CTATATTTTCACTATAATCC 12376506 CT 1 CT 12376508 TGAATTATTC Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 18 6 0.32 19 9 0.47 20 4 0.21 ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47 Consensus pattern (20 bp): CTATATTTTCACTATAATCC Found at i:12381204 original size:43 final size:42 Alignment explanation
Indices: 12381141--12381294 Score: 154 Period size: 43 Copynumber: 3.7 Consensus size: 42 12381131 AGCTCGTACA * * 12381141 ATGCC-ATATCCCGGATATGGTCTTACATGTTAATGCATATCG 1 ATGCCAATATCCCAGACATGGTCTTACATGTTAAT-CATATCG * * 12381183 ATGCCACTATCCCAGACATGGTCTTATATG--AATCATATACG 1 ATGCCAATATCCCAGACATGGTCTTACATGTTAATCATAT-CG * * ** 12381224 ATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACT-TCG 1 ATGCCAATATCCCAGACATGGTCTTACATG-TTAATCA-TATCG * * 12381267 ATGCCAATTTCCTAGACATGGTCTTACA 1 ATGCCAATATCCCAGACATGGTCTTACA 12381295 CGAAATCACA Statistics Matches: 94, Mismatches: 12, Indels: 11 0.80 0.10 0.09 Matches are distributed among these distances: 40 5 0.05 41 31 0.33 42 5 0.05 43 48 0.51 44 4 0.04 45 1 0.01 ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32 Consensus pattern (42 bp): ATGCCAATATCCCAGACATGGTCTTACATGTTAATCATATCG Found at i:12381488 original size:30 final size:30 Alignment explanation
Indices: 12381440--12381823 Score: 605 Period size: 30 Copynumber: 12.9 Consensus size: 30 12381430 GACAATATAT * 12381440 ATGTATA--CATAAACAAATCAATTCGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA * * 12381468 ATGTATATCTATATACAAATCAATTCGGTA 1 ATGTATATCCATATACAAATCAATTCGGCA 12381498 ATGTATATCCATATACAAATCAATTCGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA * 12381528 ATGTATATCCTTATACAAATCAATTCGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA * * 12381558 ACGTATATCTATATACAAATCAATTCGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA * * 12381588 ACGTATATCTATATACAAATCAATTCGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA * * 12381618 ATGTATATCCATATACAAAACAATTCAGCA 1 ATGTATATCCATATACAAATCAATTCGGCA 12381648 ATGTATATCCATATACAAATCAATTCGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA * 12381678 ATGTATATCCATATACAAATCAATTTGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA * * 12381708 ATGTATATCTATATA-AAAACTAATTCGGCA 1 ATGTATATCCATATACAAATC-AATTCGGCA 12381738 ATGTATATCCATATACAAATCAATTCGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA 12381768 ATGTATATCCATATACAAATCAATTCGGCA 1 ATGTATATCCATATACAAATCAATTCGGCA * 12381798 ATGTATACCCATATAC-AATCAATTCG 1 ATGTATATCCATATACAAATCAATTCG 12381824 AAAATATATA Statistics Matches: 330, Mismatches: 22, Indels: 7 0.92 0.06 0.02 Matches are distributed among these distances: 28 7 0.02 29 14 0.04 30 305 0.92 31 4 0.01 ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31 Consensus pattern (30 bp): ATGTATATCCATATACAAATCAATTCGGCA Found at i:12391685 original size:19 final size:19 Alignment explanation
Indices: 12391661--12391753 Score: 77 Period size: 19 Copynumber: 5.1 Consensus size: 19 12391651 AATAAATTAC * 12391661 TCATCTTAGTTAATTGAGT 1 TCATCTTAGTTAATTAAGT * 12391680 TCATCTTAGCTAATTAAGT 1 TCATCTTAGTTAATTAAGT ** * * * 12391699 TGC-T-GGAATAAATT-A-C 1 T-CATCTTAGTTAATTAAGT 12391715 TCATCTTAGTTAATTAAGT 1 TCATCTTAGTTAATTAAGT * 12391734 TCATCTTAGTTAATTTAGT 1 TCATCTTAGTTAATTAAGT 12391753 T 1 T 12391754 GCTGGAATAA Statistics Matches: 55, Mismatches: 14, Indels: 10 0.70 0.18 0.13 Matches are distributed among these distances: 15 1 0.02 16 2 0.04 17 7 0.13 18 6 0.11 19 38 0.69 20 1 0.02 ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45 Consensus pattern (19 bp): TCATCTTAGTTAATTAAGT Found at i:12391705 original size:54 final size:54 Alignment explanation
Indices: 12391642--12391763 Score: 217 Period size: 54 Copynumber: 2.3 Consensus size: 54 12391632 ATAAGTATTT * 12391642 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGCTAATTA 1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTA * * 12391696 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTT 1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTA 12391750 AGTTGCTGGAATAA 1 AGTTGCTGGAATAA 12391764 TTTATTGTTG Statistics Matches: 65, Mismatches: 3, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 54 65 1.00 ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41 Consensus pattern (54 bp): AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTA Found at i:12391725 original size:26 final size:26 Alignment explanation
Indices: 12391640--12391725 Score: 66 Period size: 26 Copynumber: 3.2 Consensus size: 26 12391630 GAATAAGTAT 12391640 TTAGTTGCTGGAATAAATTACTCATC 1 TTAGTTGCTGGAATAAATTACTCATC ** * * ** * 12391666 TTAGTTAATTGAGTTCATCTTAGCTAAT- 1 TTAGTTGCTGGA-AT-AAATTA-CTCATC * 12391694 TAAGTTGCTGGAATAAATTACTCATC 1 TTAGTTGCTGGAATAAATTACTCATC 12391720 TTAGTT 1 TTAGTT 12391726 AATTAAGTTC Statistics Matches: 40, Mismatches: 16, Indels: 8 0.62 0.25 0.12 Matches are distributed among these distances: 25 4 0.10 26 18 0.45 27 2 0.05 28 12 0.30 29 4 0.10 ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42 Consensus pattern (26 bp): TTAGTTGCTGGAATAAATTACTCATC Found at i:12397105 original size:9 final size:9 Alignment explanation
Indices: 12397091--12397118 Score: 56 Period size: 9 Copynumber: 3.1 Consensus size: 9 12397081 TTTTGTTACA 12397091 ACAATTAAT 1 ACAATTAAT 12397100 ACAATTAAT 1 ACAATTAAT 12397109 ACAATTAAT 1 ACAATTAAT 12397118 A 1 A 12397119 ATTTGATAAA Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 9 19 1.00 ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32 Consensus pattern (9 bp): ACAATTAAT Found at i:12397140 original size:68 final size:68 Alignment explanation
Indices: 12397061--12397224 Score: 319 Period size: 68 Copynumber: 2.4 Consensus size: 68 12397051 TCAAGTTTGT * 12397061 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT 1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT 12397126 AAA 66 AAA 12397129 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT 1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT 12397194 AAA 66 AAA 12397197 TTTACTAATCAAATGTTAGATTTTATTA 1 TTTACTAATCAAATGTTAGATTTTATTA 12397225 ATAATTTGAT Statistics Matches: 95, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 68 95 1.00 ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41 Consensus pattern (68 bp): TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT AAA Found at i:12397171 original size:9 final size:9 Alignment explanation
Indices: 12397159--12397186 Score: 56 Period size: 9 Copynumber: 3.1 Consensus size: 9 12397149 TTTTATTACA 12397159 ACAATTAAT 1 ACAATTAAT 12397168 ACAATTAAT 1 ACAATTAAT 12397177 ACAATTAAT 1 ACAATTAAT 12397186 A 1 A 12397187 ATTTGATAAA Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 9 19 1.00 ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32 Consensus pattern (9 bp): ACAATTAAT Found at i:12397261 original size:16 final size:16 Alignment explanation
Indices: 12397242--12397283 Score: 57 Period size: 16 Copynumber: 2.6 Consensus size: 16 12397232 GATAATTTGA * 12397242 TAATTTTACTAACAAT 1 TAATTTTAATAACAAT * 12397258 TAATTTTAATCACAAT 1 TAATTTTAATAACAAT * 12397274 TAGTTTTAAT 1 TAATTTTAAT 12397284 TTTATTAAAA Statistics Matches: 23, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 16 23 1.00 ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48 Consensus pattern (16 bp): TAATTTTAATAACAAT Found at i:12399292 original size:18 final size:19 Alignment explanation
Indices: 12399258--12399296 Score: 55 Period size: 17 Copynumber: 2.2 Consensus size: 19 12399248 ATTCTATTCC 12399258 ATTAAATAAATTATTAAAA 1 ATTAAATAAATTATTAAAA * 12399277 ATTAAA-AAA-TATTTAAA 1 ATTAAATAAATTATTAAAA 12399294 ATT 1 ATT 12399297 GATTTCAATC Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 17 10 0.53 18 3 0.16 19 6 0.32 ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38 Consensus pattern (19 bp): ATTAAATAAATTATTAAAA Found at i:12402915 original size:14 final size:14 Alignment explanation
Indices: 12402889--12402918 Score: 51 Period size: 15 Copynumber: 2.1 Consensus size: 14 12402879 GTATTCAGCG 12402889 AAGGGAAGAAAAAT 1 AAGGGAAGAAAAAT 12402903 AAGGAGAAGAAAAAT 1 AAGG-GAAGAAAAAT 12402918 A 1 A 12402919 TTTCTTCACA Statistics Matches: 15, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 14 4 0.27 15 11 0.73 ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07 Consensus pattern (14 bp): AAGGGAAGAAAAAT Found at i:12411069 original size:13 final size:14 Alignment explanation
Indices: 12411038--12411070 Score: 50 Period size: 14 Copynumber: 2.4 Consensus size: 14 12411028 ATTAAAAGCA 12411038 AAAAAATAAGGTAT 1 AAAAAATAAGGTAT 12411052 AAAAAATAAGTGT-T 1 AAAAAATAAG-GTAT 12411066 AAAAA 1 AAAAA 12411071 GAATTTTAGG Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 14 16 0.89 15 2 0.11 ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21 Consensus pattern (14 bp): AAAAAATAAGGTAT Found at i:12412737 original size:23 final size:23 Alignment explanation
Indices: 12412711--12412757 Score: 58 Period size: 23 Copynumber: 2.0 Consensus size: 23 12412701 TAAAGTACGC * * 12412711 TTACAACTGAAAAGAAACCTAAA 1 TTACAACTAAAAAGAAAACTAAA * * 12412734 TTACAAGTAAAAATAAAACTAAA 1 TTACAACTAAAAAGAAAACTAAA 12412757 T 1 T 12412758 AGAAAATGGA Statistics Matches: 20, Mismatches: 4, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 23 20 1.00 ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21 Consensus pattern (23 bp): TTACAACTAAAAAGAAAACTAAA Found at i:12417084 original size:47 final size:47 Alignment explanation
Indices: 12417025--12417154 Score: 145 Period size: 47 Copynumber: 2.8 Consensus size: 47 12417015 AAAAGCTGCT * * * * 12417025 AATACGTTGTGGATGAACCACTACTCGAGTAGAT-AGTTGCCGACTAA 1 AATACGTTGTGGATAAACCACTAATCGAGCAGATGA-TTGCAGACTAA * * * * 12417072 AATATGTTGTGGATAAATCACTAATTGAGCAGATGATTGGAGACTAA 1 AATACGTTGTGGATAAACCACTAATCGAGCAGATGATTGCAGACTAA * ** 12417119 AATACGTTGTGGATAAACCATTGGTCGAGCAGATGA 1 AATACGTTGTGGATAAACCACTAATCGAGCAGATGA 12417155 ATACCGACTA Statistics Matches: 68, Mismatches: 14, Indels: 2 0.81 0.17 0.02 Matches are distributed among these distances: 47 67 0.99 48 1 0.01 ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27 Consensus pattern (47 bp): AATACGTTGTGGATAAACCACTAATCGAGCAGATGATTGCAGACTAA Found at i:12418345 original size:17 final size:16 Alignment explanation
Indices: 12418302--12418346 Score: 56 Period size: 17 Copynumber: 2.8 Consensus size: 16 12418292 TTTGATGTAA 12418302 GAGAGGAAAGAAAAGG 1 GAGAGGAAAGAAAAGG * 12418318 AAGA-GAGAAGAAATAGG 1 GAGAGGA-AAGAAA-AGG 12418335 GAGAGGAAAGAA 1 GAGAGGAAAGAA 12418347 TATTCTAATT Statistics Matches: 24, Mismatches: 2, Indels: 5 0.77 0.06 0.16 Matches are distributed among these distances: 15 2 0.08 16 9 0.38 17 11 0.46 18 2 0.08 ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02 Consensus pattern (16 bp): GAGAGGAAAGAAAAGG Found at i:12425391 original size:41 final size:41 Alignment explanation
Indices: 12425334--12425442 Score: 130 Period size: 41 Copynumber: 2.7 Consensus size: 41 12425324 TGATCGAATG * * * * 12425334 TAATTCAGACTTATTGTCTAGTAGGCTTGATGCCGGTGATA 1 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGATA * 12425375 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGAAA 1 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGATA * * * 12425416 TTATTCGGACT-ATAAGTCTAGCAGGCT 1 TAATTCAGACTCAT-TGTCTAGCAGGCT 12425443 AAAAGCCGGT Statistics Matches: 59, Mismatches: 8, Indels: 2 0.86 0.12 0.03 Matches are distributed among these distances: 40 2 0.03 41 57 0.97 ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33 Consensus pattern (41 bp): TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGATA Found at i:12425589 original size:21 final size:21 Alignment explanation
Indices: 12425540--12425589 Score: 68 Period size: 21 Copynumber: 2.4 Consensus size: 21 12425530 ACGTGATATG 12425540 TAAATAA-TATATATATTTGA 1 TAAATAAGTATATATATTTGA * 12425560 -AGATCAAGTATATATATTTGA 1 TAAAT-AAGTATATATATTTGA 12425581 TAAATAAGT 1 TAAATAAGT 12425590 TTGATGGGCA Statistics Matches: 25, Mismatches: 2, Indels: 5 0.78 0.06 0.16 Matches are distributed among these distances: 19 3 0.12 20 2 0.08 21 17 0.68 22 3 0.12 ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40 Consensus pattern (21 bp): TAAATAAGTATATATATTTGA Found at i:12426680 original size:22 final size:22 Alignment explanation
Indices: 12426647--12426688 Score: 68 Period size: 22 Copynumber: 1.9 Consensus size: 22 12426637 TTGGCAAGCC 12426647 TATAAGTCTAAGCTTCACCATG 1 TATAAGTCTAAGCTTCACCATG 12426669 TATAAGGT-TAAGCTTCACCA 1 TATAA-GTCTAAGCTTCACCA 12426689 AGTTTATGTA Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 22 17 0.89 23 2 0.11 ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31 Consensus pattern (22 bp): TATAAGTCTAAGCTTCACCATG Found at i:12434499 original size:15 final size:15 Alignment explanation
Indices: 12434479--12434510 Score: 55 Period size: 15 Copynumber: 2.1 Consensus size: 15 12434469 CATTTCACTA * 12434479 TTATGTCTTTTGTAT 1 TTATGTCTTTTATAT 12434494 TTATGTCTTTTATAT 1 TTATGTCTTTTATAT 12434509 TT 1 TT 12434511 TGCATGCATA Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 15 16 1.00 ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69 Consensus pattern (15 bp): TTATGTCTTTTATAT Found at i:12437669 original size:45 final size:45 Alignment explanation
Indices: 12437601--12437693 Score: 150 Period size: 45 Copynumber: 2.1 Consensus size: 45 12437591 TCAGATACTT * * 12437601 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC 1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC * * 12437646 GGTGGAATCAGCACATAGTAACCACCTTACTAATCAATGATGTTC 1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC 12437691 GGT 1 GGT 12437694 TCACATAGTA Statistics Matches: 44, Mismatches: 4, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 45 44 1.00 ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27 Consensus pattern (45 bp): GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC Found at i:12437755 original size:51 final size:50 Alignment explanation
Indices: 12437695--12437882 Score: 218 Period size: 51 Copynumber: 3.7 Consensus size: 50 12437685 ATGTTCGGTT * 12437695 CACATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCGATA 1 CACATAGTAGCCTGCACATAGTACTACACACGTGACTA-TACCATCCGATA * * * * 12437746 CACATAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCTGATA 1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CTATACCATCCGATA * * * * * 12437797 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAT--CATTCTAGTA 1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CTATACCATCCGA-TA * * 12437847 CACGTAGTAGCCTGCATATAGTACTACACACGTGAC 1 CACATAGTAGCCTGCACATAGTACTACACACGTGAC 12437883 CATCACTTTC Statistics Matches: 115, Mismatches: 20, Indels: 6 0.82 0.14 0.04 Matches are distributed among these distances: 49 4 0.03 50 32 0.28 51 77 0.67 52 2 0.02 ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24 Consensus pattern (50 bp): CACATAGTAGCCTGCACATAGTACTACACACGTGACTATACCATCCGATA Found at i:12437881 original size:101 final size:101 Alignment explanation
Indices: 12437697--12437881 Score: 284 Period size: 101 Copynumber: 1.8 Consensus size: 101 12437687 GTTCGGTTCA * 12437697 CATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCGATACACATAGTAGCCTGCA 1 CATAGTAGCCTGCACATAGTACTACACATGCGACTATTA-CATCCGATACACATAGTAGCCTGCA 12437762 CATAGTACTACACACGTGATCAAAACTATCTGATACG 65 CATAGTACTACACACGTGATCAAAACTATCTGATACG * * * 12437799 CATAGTAGCCTGCACATAGTACTACACATGCGACCTA-T-CATTCTAGTACACGTAGTAGCCTGC 1 CATAGTAGCCTGCACATAGTACTACACATGCGA-CTATTACATCCGA-TACACATAGTAGCCTGC * 12437862 ATATAGTACTACACACGTGA 64 ACATAGTACTACACACGTGA 12437882 CCATCACTTT Statistics Matches: 76, Mismatches: 5, Indels: 5 0.88 0.06 0.06 Matches are distributed among these distances: 100 5 0.07 101 35 0.46 102 33 0.43 103 3 0.04 ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25 Consensus pattern (101 bp): CATAGTAGCCTGCACATAGTACTACACATGCGACTATTACATCCGATACACATAGTAGCCTGCAC ATAGTACTACACACGTGATCAAAACTATCTGATACG Found at i:12445091 original size:19 final size:20 Alignment explanation
Indices: 12445056--12445097 Score: 52 Period size: 19 Copynumber: 2.1 Consensus size: 20 12445046 AATTGAGAAA 12445056 AAAAACCAACTTAAAT-ATT 1 AAAAACCAACTTAAATAATT * 12445075 AAAAACCAAAC-TCAATAATT 1 AAAAACC-AACTTAAATAATT 12445095 AAA 1 AAA 12445098 TAATATATTT Statistics Matches: 20, Mismatches: 1, Indels: 3 0.83 0.04 0.12 Matches are distributed among these distances: 19 11 0.55 20 9 0.45 ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21 Consensus pattern (20 bp): AAAAACCAACTTAAATAATT Found at i:12447432 original size:2 final size:2 Alignment explanation
Indices: 12447425--12447463 Score: 78 Period size: 2 Copynumber: 19.5 Consensus size: 2 12447415 TGTCCCATCT 12447425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 12447464 TTACATTTTT Statistics Matches: 37, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 37 1.00 ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51 Consensus pattern (2 bp): TA Found at i:12447938 original size:9 final size:9 Alignment explanation
Indices: 12447924--12447954 Score: 53 Period size: 9 Copynumber: 3.4 Consensus size: 9 12447914 GTTAAACGAA 12447924 TCGAGTTAT 1 TCGAGTTAT * 12447933 TCGAGTTAA 1 TCGAGTTAT 12447942 TCGAGTTAT 1 TCGAGTTAT 12447951 TCGA 1 TCGA 12447955 ATCAACTCGA Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 9 20 1.00 ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39 Consensus pattern (9 bp): TCGAGTTAT Found at i:12451856 original size:21 final size:23 Alignment explanation
Indices: 12451809--12451858 Score: 68 Period size: 23 Copynumber: 2.3 Consensus size: 23 12451799 AGAAAAGAGG ** 12451809 GAAAAAGAAGGAACGATAGAATG 1 GAAAAAGAAGGAACGATAGAAAA 12451832 GAAAAAGAAGGAA-GA-AGAAAA 1 GAAAAAGAAGGAACGATAGAAAA 12451853 GAAAAA 1 GAAAAA 12451859 TAAAAATAAA Statistics Matches: 25, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 21 10 0.40 22 2 0.08 23 13 0.52 ACGTcount: A:0.66, C:0.02, G:0.28, T:0.04 Consensus pattern (23 bp): GAAAAAGAAGGAACGATAGAAAA Found at i:12455587 original size:18 final size:19 Alignment explanation
Indices: 12455549--12455606 Score: 59 Period size: 20 Copynumber: 3.1 Consensus size: 19 12455539 ACTCCCCCTA * 12455549 TTTACTTTCCCTC-AAAC-T 1 TTTA-TTTCCCCCAAAACTT 12455567 TTTA-TTCCCCCAAAACTT 1 TTTATTTCCCCCAAAACTT * 12455585 TTTATTTTCCCCCTAAACTT 1 TTTA-TTTCCCCCAAAACTT 12455605 TT 1 TT 12455607 ACTTCTCACC Statistics Matches: 34, Mismatches: 2, Indels: 6 0.81 0.05 0.14 Matches are distributed among these distances: 16 6 0.18 17 4 0.12 18 9 0.26 20 15 0.44 ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47 Consensus pattern (19 bp): TTTATTTCCCCCAAAACTT Found at i:12455618 original size:20 final size:18 Alignment explanation
Indices: 12455557--12455618 Score: 54 Period size: 20 Copynumber: 3.2 Consensus size: 18 12455547 TATTTACTTT 12455557 CCCTCAAACTTTTATTC-C 1 CCCT-AAACTTTTATTCTC * * 12455575 CCCAAAACTTTTTATTTTCC 1 CCCTAAAC-TTTTATTCT-C 12455595 CCCTAAACTTTTACTTCTC 1 CCCTAAACTTTTA-TTCTC 12455614 ACCCT 1 -CCCT 12455619 TTACTCTCAA Statistics Matches: 35, Mismatches: 4, Indels: 8 0.74 0.09 0.17 Matches are distributed among these distances: 17 4 0.11 18 10 0.29 19 6 0.17 20 15 0.43 ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40 Consensus pattern (18 bp): CCCTAAACTTTTATTCTC Found at i:12457498 original size:24 final size:22 Alignment explanation
Indices: 12457471--12457517 Score: 58 Period size: 24 Copynumber: 2.0 Consensus size: 22 12457461 TTAATATTTT * 12457471 TATTTTTTAATTTATTTATATATA 1 TATTCTTTAATTT-TTTA-ATATA * 12457495 TATTCTTTCATTTTTTAATATA 1 TATTCTTTAATTTTTTAATATA 12457517 T 1 T 12457518 TTAATTTTAA Statistics Matches: 21, Mismatches: 2, Indels: 2 0.84 0.08 0.08 Matches are distributed among these distances: 22 6 0.29 23 4 0.19 24 11 0.52 ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66 Consensus pattern (22 bp): TATTCTTTAATTTTTTAATATA Found at i:12457788 original size:21 final size:19 Alignment explanation
Indices: 12457751--12457789 Score: 51 Period size: 21 Copynumber: 1.9 Consensus size: 19 12457741 ATAATATTCT * 12457751 TATATAATACTATTTTATA 1 TATATAATACTAATTTATA 12457770 TATATATATACATAATTTAT 1 TATATA-ATAC-TAATTTAT 12457790 GTTAAATTAT Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 19 6 0.35 20 4 0.24 21 7 0.41 ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51 Consensus pattern (19 bp): TATATAATACTAATTTATA Found at i:12458372 original size:17 final size:18 Alignment explanation
Indices: 12458340--12458373 Score: 52 Period size: 17 Copynumber: 1.9 Consensus size: 18 12458330 GCTCTTGTGT 12458340 GTATTGTATTGCTTATTG 1 GTATTGTATTGCTTATTG * 12458358 GTATT-TATTGGTTATT 1 GTATTGTATTGCTTATT 12458374 TGTAGTTCAT Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 17 10 0.67 18 5 0.33 ACGTcount: A:0.18, C:0.03, G:0.21, T:0.59 Consensus pattern (18 bp): GTATTGTATTGCTTATTG Found at i:12459307 original size:30 final size:29 Alignment explanation
Indices: 12459249--12459309 Score: 77 Period size: 30 Copynumber: 2.1 Consensus size: 29 12459239 TTCAAATTTG * * 12459249 AATATAAATAAAATTATTTAATACAATTA 1 AATATAAATAAAAGTAATTAATACAATTA * * 12459278 AATATAATATCAAAGTAATTAATATAATTA 1 AATATAA-ATAAAAGTAATTAATACAATTA 12459308 AA 1 AA 12459310 AAAGCAAACA Statistics Matches: 27, Mismatches: 4, Indels: 1 0.84 0.12 0.03 Matches are distributed among these distances: 29 7 0.26 30 20 0.74 ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36 Consensus pattern (29 bp): AATATAAATAAAAGTAATTAATACAATTA Found at i:12461739 original size:16 final size:15 Alignment explanation
Indices: 12461720--12461773 Score: 56 Period size: 15 Copynumber: 3.5 Consensus size: 15 12461710 AAATTATTAT * 12461720 GAAATAAAAGAATAGA 1 GAAATAAAAGAACA-A 12461736 GAAAGTAAAAGAACAA 1 GAAA-TAAAAGAACAA ** 12461752 GAAATAGGAGAACAA 1 GAAATAAAAGAACAA 12461767 -AAATAAA 1 GAAATAAA 12461774 CGTATGATTT Statistics Matches: 32, Mismatches: 5, Indels: 4 0.78 0.12 0.10 Matches are distributed among these distances: 14 5 0.16 15 9 0.28 16 9 0.28 17 9 0.28 ACGTcount: A:0.69, C:0.04, G:0.19, T:0.09 Consensus pattern (15 bp): GAAATAAAAGAACAA Found at i:12465598 original size:19 final size:19 Alignment explanation
Indices: 12465576--12465613 Score: 51 Period size: 19 Copynumber: 2.0 Consensus size: 19 12465566 TCAATCATCC 12465576 CTCATCCCATCA-TCTCTCA 1 CTCAT-CCATCATTCTCTCA * 12465595 CTCATTCATCATTCTCTCA 1 CTCATCCATCATTCTCTCA 12465614 ACTCTTTTAG Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 18 5 0.29 19 12 0.71 ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37 Consensus pattern (19 bp): CTCATCCATCATTCTCTCA Found at i:12475927 original size:15 final size:15 Alignment explanation
Indices: 12475907--12475938 Score: 64 Period size: 15 Copynumber: 2.1 Consensus size: 15 12475897 CTTACTTCCT 12475907 TCGTCAGCATCCTCA 1 TCGTCAGCATCCTCA 12475922 TCGTCAGCATCCTCA 1 TCGTCAGCATCCTCA 12475937 TC 1 TC 12475939 CTCATCCTCT Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 17 1.00 ACGTcount: A:0.19, C:0.41, G:0.12, T:0.28 Consensus pattern (15 bp): TCGTCAGCATCCTCA Found at i:12475938 original size:6 final size:6 Alignment explanation
Indices: 12475929--12475983 Score: 53 Period size: 6 Copynumber: 9.7 Consensus size: 6 12475919 TCATCGTCAG * * * 12475929 CATCCT CATCCT CATCCT CTTCCT CA---T CATCCT CTTCCT CCTCCT 1 CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT * 12475974 CATCAT CATC 1 CATCCT CATC 12475984 ATCGTCATCT Statistics Matches: 40, Mismatches: 6, Indels: 6 0.77 0.12 0.12 Matches are distributed among these distances: 3 3 0.08 6 37 0.93 ACGTcount: A:0.15, C:0.49, G:0.00, T:0.36 Consensus pattern (6 bp): CATCCT Found at i:12475958 original size:21 final size:21 Alignment explanation
Indices: 12475934--12475986 Score: 79 Period size: 21 Copynumber: 2.5 Consensus size: 21 12475924 GTCAGCATCC * 12475934 TCATCCTCATCCTCTTCCTCA 1 TCATCCTCATCCTCCTCCTCA * 12475955 TCATCCTCTTCCTCCTCCTCA 1 TCATCCTCATCCTCCTCCTCA * 12475976 TCATCATCATC 1 TCATCCTCATC 12475987 GTCATCTTCT Statistics Matches: 28, Mismatches: 4, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 21 28 1.00 ACGTcount: A:0.15, C:0.47, G:0.00, T:0.38 Consensus pattern (21 bp): TCATCCTCATCCTCCTCCTCA Found at i:12475960 original size:15 final size:15 Alignment explanation
Indices: 12475940--12475968 Score: 58 Period size: 15 Copynumber: 1.9 Consensus size: 15 12475930 ATCCTCATCC 12475940 TCATCCTCTTCCTCA 1 TCATCCTCTTCCTCA 12475955 TCATCCTCTTCCTC 1 TCATCCTCTTCCTC 12475969 CTCCTCATCA Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 14 1.00 ACGTcount: A:0.10, C:0.48, G:0.00, T:0.41 Consensus pattern (15 bp): TCATCCTCTTCCTCA Found at i:12477843 original size:28 final size:28 Alignment explanation
Indices: 12477803--12477858 Score: 112 Period size: 28 Copynumber: 2.0 Consensus size: 28 12477793 TAACAAAAAG 12477803 AAAACCAAAAACAATTATGGGTGTCACC 1 AAAACCAAAAACAATTATGGGTGTCACC 12477831 AAAACCAAAAACAATTATGGGTGTCACC 1 AAAACCAAAAACAATTATGGGTGTCACC 12477859 CACCTTGAGA Statistics Matches: 28, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 28 28 1.00 ACGTcount: A:0.46, C:0.21, G:0.14, T:0.18 Consensus pattern (28 bp): AAAACCAAAAACAATTATGGGTGTCACC Found at i:12479743 original size:283 final size:281 Alignment explanation
Indices: 12478697--12480252 Score: 1762 Period size: 283 Copynumber: 5.5 Consensus size: 281 12478687 CTATTTTTAA * * * * * 12478697 AATTTAGTTGACGGTTATTCATG-TCGTTAAGATTAATGATAGATTTAGTAA--GTAAATAAAAA 1 AATTGAGTTGAC-GTCATTCATGAT-GTTAAGCTTAAAGAAAGATTTAGTAAGTGTAAATAAAAA * * * * * ** * * 12478759 TAATAATTAGGTTTAAGTTATAGCGTTGTAATTTAGGATAAATCTAAATTATGGTGCCAATATTT 64 TAATATTTAGATTTAAGTTATAACGCTATAATTTAGGATAGGTCTAAATTATGGCGCCAATATTC * * * 12478824 ATTGTTTTATAATAATTACTATATCTCTATAATTTAGTTGACGTCATTCGTCATGTCAAGCTCAA 129 ATTATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGTCATTCGTCATGTTAAGCTCAA * * * * * 12478889 TAATAGAATTAGTAAGT-AAAATGGAGTTAATGTTTAGATTTAAACAATAATACTATTTTTTTTT 194 TGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAAACAATAATA-T-TATTTTTAT * * 12478953 TAAATTTATGTTTAATAATTTCTTC 257 AAAATTTATGTTTAATAATTTCTAC * * * * * * 12478978 AATTGAATTGACG-CTATTTATTATGTTAAGCATAAAGAAAGATCTAGTAAGTGTAAATAAAAGT 1 AATTGAGTTGACGTC-ATTCATGATGTTAAGCTTAAAGAAAGATTTAGTAAGTGTAAATAAAAAT * * * * * 12479042 GATGTTTAGATTCAAGTCATAACGCTATAATTTAGGATAGGTCTAAATTATGGCGCTAATATTCA 65 AATATTTAGATTTAAGTTATAACGCTATAATTTAGGATAGGTCTAAATTATGGCGCCAATATTCA * * * * * * 12479107 TTATTTTATAATAATTACTATATCTCTATAATCTAGTTAACGTCATTGGTCATGTTAAGCCCGAT 130 TTATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGTCATTCGTCATGTTAAGCTCAAT * * * 12479172 GATAGATTTAGTAAATAAAAATGGAATTAATGTTTAGATTTAAACAAT-A-A-TA-TTTAAAAAA 195 GATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAAACAATAATATTATTTTTATAAA * * 12479233 AATTATGTTTAATAATTTCTGC 260 ATTTATGTTTAATAATTTCTAC * * * *** 12479255 AATTGAGTTGATGTCATTCATAATGTTAAGCTTAAAAAAAGATTTAGTAAGTGTAAATAAACGGA 1 AATTGAGTTGACGTCATTCATGATGTTAAGCTTAAAGAAAGATTTAGTAAGTGTAAATAAAAATA * * * * * 12479320 ATATGTAGATTCAAGTTAGAACGCTATAATTTAGGATAAGTCTAAATTATGGTGCCAATATTCAT 66 ATATTTAGATTTAAGTTATAACGCTATAATTTAGGATAGGTCTAAATTATGGCGCCAATATTCAT * * * * 12479385 TATTTTATCATAATTATTATTTCTTTATAATTTAGTTGACGTCATTGGTCATGTTAAGCTCAATG 131 TATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGTCATTCGTCATGTTAAGCTCAATG * * 12479450 ATAGATTTAGTAAGTAAAAATGGAACTACTGTTTAGATTTAAACAATAATATTATTTTTATAAAA 196 ATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAAACAATAATATTATTTTTATAAAA * * 12479515 TTTATGTTTAATCATCTCTAC 261 TTTATGTTTAATAATTTCTAC ** * * 12479536 AATTGAGTAAACGTCATTCATGATATTAAACTTAAA-AAAGATTTAGTAAGTGTAAATAAACGTA 1 AATTGAGTTGACGTCATTCATGATGTTAAGCTTAAAGAAAGATTTAGTAAGTGTAAATAAA---A * * * 12479600 ATATATATTTAGATTTAAGTTATAACACTATAATTTAGGTTAGGTCTAAATTATGGCACCAATAT 63 ATA-ATATTTAGATTTAAGTTATAACGCTATAATTTAGGATAGGTCTAAATTATGGCGCCAATAT * ** * * * * 12479665 TCATTA-TTTATGATAATTACTATATCTTTATAATAAACTTGACGTCATTTGTCGTATTAAGCTC 127 TCATTATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGTCATTCGTCATGTTAAGCTC * * * 12479729 AATGATATATTTAGTAAGTAAAAATGAAATTAATGTTCAGATTTAAACAATAATA-TATTTTT-T 192 AATGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAAACAATAATATTATTTTTAT 12479792 AAAAATTTATGTTTAATAATTTCTAC 257 -AAAATTTATGTTTAATAATTTCTAC * * * * * * * * 12479818 AATTGAGTTGACGTGATTCATGATGTAAAGCTTAAAGAAAGAATCAATAAGTATAAATGAAAGTA 1 AATTGAGTTGACGTCATTCATGATGTTAAGCTTAAAGAAAGATTTAGTAAGTGTAAATAAAAATA * ** * * * ** * * 12479883 ATGTTTAGATTTAAGCAATAACGCAATAATTTAGGATATGTCTAATTTATGATG-TAATTATTTA 66 ATATTTAGATTTAAGTTATAACGCTATAATTTAGGATAGGTCTAAATTATGGCGCCAA-TATTCA * * * * * * * * 12479947 TTATTTTATAA-ATTTACTATATTTTTAAAATTTAGTTGACGGTTATTCGTGACGTTAAGATTAA 130 TTATTTTATAATAATTACTATATCTTTATAATTTAGTTGAC-GTCATTCGTCATGTTAAGCTCAA * * 12480011 TGATAGATTTAGTAAGTAAAAAATGAAATTAATGTTTAGATTTAAACAATAATATTATTCTTTTT 194 TGATAGATTTAGTAAGT-AAAAATGGAATTAATGTTTAGATTTAAACAATAATATTATT-TTTAT * 12480076 AAAATTTATGCTTAATAATTTCTAC 257 AAAATTTATGTTTAATAATTTCTAC * * * 12480101 AATTGAGTT-ACG-CAATTCTTGATGTTAAGCTTAAAGAAAGATTTTAATAAGGGTAAATAAACA 1 AATTGAGTTGACGTC-ATTCATGATGTTAAGCTTAAAGAAAGA-TTTAGTAAGTGTAAATAAA-A * * * 12480164 A-AATATTTAGATTTAAGTTATAACACTATAATTTAGGATAGGTCTACATTATGGCGTCAATATT 63 ATAATATTTAGATTTAAGTTATAACGCTATAATTTAGGATAGGTCTAAATTATGGCGCCAATATT * * 12480228 CACTATTTTATAATAATTACAATAT 128 CATTATTTTATAATAATTACTATAT 12480253 TTCTAAAATT Statistics Matches: 1070, Mismatches: 177, Indels: 53 0.82 0.14 0.04 Matches are distributed among these distances: 277 237 0.22 278 5 0.00 279 75 0.07 280 93 0.09 281 103 0.10 282 226 0.21 283 259 0.24 284 72 0.07 ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40 Consensus pattern (281 bp): AATTGAGTTGACGTCATTCATGATGTTAAGCTTAAAGAAAGATTTAGTAAGTGTAAATAAAAATA ATATTTAGATTTAAGTTATAACGCTATAATTTAGGATAGGTCTAAATTATGGCGCCAATATTCAT TATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGTCATTCGTCATGTTAAGCTCAATG ATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAAACAATAATATTATTTTTATAAAA TTTATGTTTAATAATTTCTAC Found at i:12483882 original size:32 final size:30 Alignment explanation
Indices: 12483811--12483888 Score: 90 Period size: 29 Copynumber: 2.6 Consensus size: 30 12483801 GTAAGGGTTA * * 12483811 ATTTCATTTTTT-TAATATTATTAATTTTT 1 ATTTAATTTTTTATAATATAATTAATTTTT 12483840 ATTTAA-TTTTTATAATATAATTAATATTTT 1 ATTTAATTTTTTATAATATAATTAAT-TTTT 12483870 -TTATAATTTTTTTATAATA 1 ATT-TAA-TTTTTTATAATA 12483889 GCAGTAGATC Statistics Matches: 42, Mismatches: 2, Indels: 7 0.82 0.04 0.14 Matches are distributed among these distances: 28 5 0.12 29 19 0.45 30 7 0.17 32 11 0.26 ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64 Consensus pattern (30 bp): ATTTAATTTTTTATAATATAATTAATTTTT Found at i:12485009 original size:43 final size:43 Alignment explanation
Indices: 12484944--12485145 Score: 244 Period size: 43 Copynumber: 4.7 Consensus size: 43 12484934 GAACAAGGCC * * * * * 12484944 TTTAGCGGCACTTTTTCAACAAACGTCGCTAAAGATCATGACT 1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACT * 12484987 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGTTCATGACT 1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACT * * * * * 12485030 TTTAGCGGCGCTATTCCCACAAACACCACGATAGATCATCACT 1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACT * * * * * 12485073 TTTAGCGACGCTTTTCCCACAAATGCCACTATAGAACA-GACC 1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACT * 12485115 TTTAGCGACGCTTTTCCCACAAACGCCGCTA 1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTA 12485146 AAAACATATC Statistics Matches: 137, Mismatches: 22, Indels: 1 0.86 0.14 0.01 Matches are distributed among these distances: 42 31 0.23 43 106 0.77 ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27 Consensus pattern (43 bp): TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACT Found at i:12485479 original size:43 final size:43 Alignment explanation
Indices: 12485413--12485499 Score: 120 Period size: 43 Copynumber: 2.0 Consensus size: 43 12485403 ACATATGCAA * * * * 12485413 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT 1 GGTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTT * * 12485456 GGTAATAAAATATATAATACATTTACTTAATAAAGGAAATCTT 1 GGTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTT 12485499 G 1 G 12485500 TACATCATTG Statistics Matches: 38, Mismatches: 6, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 43 38 1.00 ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34 Consensus pattern (43 bp): GGTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTT Found at i:12488475 original size:9 final size:9 Alignment explanation
Indices: 12488458--12488494 Score: 56 Period size: 9 Copynumber: 4.1 Consensus size: 9 12488448 TATAGTTTGA 12488458 TATTCGAAT 1 TATTCGAAT * 12488467 TATTTGAAT 1 TATTCGAAT * 12488476 TATTCGAGT 1 TATTCGAAT 12488485 TATTCGAAT 1 TATTCGAAT 12488494 T 1 T 12488495 CGAAAACTCA Statistics Matches: 24, Mismatches: 4, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 9 24 1.00 ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49 Consensus pattern (9 bp): TATTCGAAT Found at i:12490453 original size:23 final size:24 Alignment explanation
Indices: 12490427--12490475 Score: 73 Period size: 25 Copynumber: 2.0 Consensus size: 24 12490417 TTTAAATATA 12490427 TATATATGT-ATATTTATTTCTTT 1 TATATATGTAATATTTATTTCTTT * 12490450 TATATATGTACATATTTATTTTTTT 1 TATATATGTA-ATATTTATTTCTTT 12490475 T 1 T 12490476 CAACTAATAT Statistics Matches: 23, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 23 9 0.39 25 14 0.61 ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65 Consensus pattern (24 bp): TATATATGTAATATTTATTTCTTT Found at i:12490465 original size:21 final size:22 Alignment explanation
Indices: 12490427--12490471 Score: 56 Period size: 23 Copynumber: 2.0 Consensus size: 22 12490417 TTTAAATATA * * 12490427 TATATATGTATATTTATTTCTTT 1 TATATATGTACA-TTATTTATTT 12490450 TATATATGTACA-TATTTATTT 1 TATATATGTACATTATTTATTT 12490471 T 1 T 12490472 TTTTCAACTA Statistics Matches: 20, Mismatches: 2, Indels: 2 0.83 0.08 0.08 Matches are distributed among these distances: 21 9 0.45 23 11 0.55 ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62 Consensus pattern (22 bp): TATATATGTACATTATTTATTT Found at i:12490941 original size:4 final size:4 Alignment explanation
Indices: 12490934--12490968 Score: 54 Period size: 4 Copynumber: 8.8 Consensus size: 4 12490924 TTGATTTATT 12490934 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TATTA TTT 1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTT 12490969 CTATACAATT Statistics Matches: 29, Mismatches: 0, Indels: 4 0.88 0.00 0.12 Matches are distributed among these distances: 3 3 0.10 4 22 0.76 5 4 0.14 ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74 Consensus pattern (4 bp): TTTA Found at i:12493263 original size:29 final size:29 Alignment explanation
Indices: 12493213--12493273 Score: 70 Period size: 29 Copynumber: 2.1 Consensus size: 29 12493203 CTAATTAATC * * * 12493213 TAAACCCTAAACCCTTAGCCCCT-ATCTCT 1 TAAACCCTAAACCATAAACCCCTAATC-CT * 12493242 TAAACCCTAAATCATAAACCCCTAATCCT 1 TAAACCCTAAACCATAAACCCCTAATCCT 12493271 TAA 1 TAA 12493274 GTACTCTTAA Statistics Matches: 27, Mismatches: 4, Indels: 2 0.82 0.12 0.06 Matches are distributed among these distances: 29 24 0.89 30 3 0.11 ACGTcount: A:0.36, C:0.36, G:0.02, T:0.26 Consensus pattern (29 bp): TAAACCCTAAACCATAAACCCCTAATCCT Found at i:12493827 original size:41 final size:40 Alignment explanation
Indices: 12493759--12494072 Score: 351 Period size: 41 Copynumber: 7.7 Consensus size: 40 12493749 TACTTTTTGT * * 12493759 GGCGTTTTTCCAAAAACGCCGTTAAAGACCGAGCATTAGC 1 GGCGCTTTTCCAAAAACGCCGCTAAAGACCGAGCATTAGC * 12493799 GGCGCTTTTTCAAAAACGCCGCTAAAAGACCAGAGCATTAGC 1 GGCGCTTTTCCAAAAACGCCGCT-AAAGACC-GAGCATTAGC * * 12493841 GGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTAGC 1 GGCGCTTTTCCAAAAACGCCGCTAAAGAC-CGAGCATTAGC * * * 12493882 GGTGCTTTTCCAAAAACGCCGCTAAAGGCTAGAGCATTAGC 1 GGCGCTTTTCCAAAAACGCCGCTAAAGAC-CGAGCATTAGC * 12493923 GGCGCTTTTCCAAAAAACGCCGCTAAAGACCAGAGCATTACC 1 GGCGCTTTTCC-AAAAACGCCGCTAAAGACC-GAGCATTAGC * *** * 12493965 GACGAACTTCCAAAAACGCCGCTAAAGACCAGAACATTAGC 1 GGCGCTTTTCCAAAAACGCCGCTAAAGACC-GAGCATTAGC * * * * * 12494006 GACGCATTTCCAAAAACGCCGCTAAAGCCCCAAGCACTAGC 1 GGCGCTTTTCCAAAAACGCCGCTAAAG-ACCGAGCATTAGC * * 12494047 GGCGCTTCTT-GAGAAACGCCGCTAAA 1 GGCGCTT-TTCCAAAAACGCCGCTAAA 12494073 TCCCTGAAAA Statistics Matches: 240, Mismatches: 27, Indels: 13 0.86 0.10 0.05 Matches are distributed among these distances: 40 20 0.08 41 150 0.62 42 70 0.29 ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18 Consensus pattern (40 bp): GGCGCTTTTCCAAAAACGCCGCTAAAGACCGAGCATTAGC Found at i:12493902 original size:83 final size:81 Alignment explanation
Indices: 12493759--12494072 Score: 371 Period size: 83 Copynumber: 3.8 Consensus size: 81 12493749 TACTTTTTGT * * * * 12493759 GGCGTTTTTCCAAAAACGCCGTTAAAGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA 1 GGCGCTTTTCCAAAAACGCCGCTAAAGACAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCT-A 12493824 AAGACCAGAGCATTAGC 65 AAGACCAGAGCATTAGC * * 12493841 GGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTAGCGGTGCTTTTCCAAAAACGCCGCTA 1 GGCGCTTTTCCAAAAACGCCGCTAAAGAC-AGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTA * * 12493906 AAGGCTAGAGCATTAGC 65 AAGACCAGAGCATTAGC * * *** 12493923 GGCGCTTTTCCAAAAAACGCCGCTAAAGACCAGAGCATTACCGACGAACTTCCAAAAACGCCGCT 1 GGCGCTTTTCC-AAAAACGCCGCTAAAGA-CAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCT * 12493988 AAAGACCAGAACATTAGC 64 AAAGACCAGAGCATTAGC * * * * * * 12494006 GACGCATTTCCAAAAACGCCGCTAAAGCCCCA-AGCACTAGCGGCGCTTCTT-GAGAAACGCCGC 1 GGCGCTTTTCCAAAAACGCCGCTAAAG--ACAGAGCATTAGCGGCGCTT-TTCCAAAAACGCCGC 12494069 TAAA 63 TAAA 12494073 TCCCTGAAAA Statistics Matches: 197, Mismatches: 29, Indels: 12 0.83 0.12 0.05 Matches are distributed among these distances: 82 92 0.47 83 104 0.53 84 1 0.01 ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18 Consensus pattern (81 bp): GGCGCTTTTCCAAAAACGCCGCTAAAGACAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAA AGACCAGAGCATTAGC Found at i:12493983 original size:124 final size:123 Alignment explanation
Indices: 12493764--12494072 Score: 381 Period size: 124 Copynumber: 2.5 Consensus size: 123 12493754 TTTGTGGCGT * * * 12493764 TTTTCCAAAAACGCCGTTAAAGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGAC 1 TTTTCCAAAAACGCCGCTAAAGACAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAAGAC * * *** * * * ** 12493829 CAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTAGCGGTGC 66 CAGAGCATTACCGACGAACTTCCAAAAACGCCGCTAAAGACCAGAACATTAGCGACGC * 12493887 TTTTCCAAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTTTTCCAAAAAACGCCGCT-AAAG 1 TTTTCCAAAAACGCCGCTAAAGAC-AGAGCATTAGCGGCGCTTTTCC-AAAAACGCCGCTAAAAG 12493951 ACCAGAGCATTACCGACGAACTTCCAAAAACGCCGCTAAAGACCAGAACATTAGCGACGC 64 ACCAGAGCATTACCGACGAACTTCCAAAAACGCCGCTAAAGACCAGAACATTAGCGACGC * * * * * 12494011 ATTTCCAAAAACGCCGCTAAAGCCCCA-AGCACTAGCGGCGCTTCTT-GAGAAACGCCGCTAAA 1 TTTTCCAAAAACGCCGCTAAAG--ACAGAGCATTAGCGGCGCTT-TTCCAAAAACGCCGCTAAA 12494073 TCCCTGAAAA Statistics Matches: 161, Mismatches: 19, Indels: 11 0.84 0.10 0.06 Matches are distributed among these distances: 123 33 0.20 124 112 0.70 125 15 0.09 126 1 0.01 ACGTcount: A:0.33, C:0.28, G:0.20, T:0.18 Consensus pattern (123 bp): TTTTCCAAAAACGCCGCTAAAGACAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAAGAC CAGAGCATTACCGACGAACTTCCAAAAACGCCGCTAAAGACCAGAACATTAGCGACGC Found at i:12495421 original size:30 final size:29 Alignment explanation
Indices: 12495335--12495410 Score: 91 Period size: 29 Copynumber: 2.6 Consensus size: 29 12495325 AAAACAAAAT * 12495335 CCATCTCGTTAAAA-TATTTTTTTCAGAAC 1 CCATCTCGTCAAAATTA-TTTTTTCAGAAC * * * * 12495364 ACATCACGACAAATTTATTTTTTCAGAAC 1 CCATCTCGTCAAAATTATTTTTTCAGAAC 12495393 CCATCTCGTCAAAATTAT 1 CCATCTCGTCAAAATTAT 12495411 ATTTCCCAGA Statistics Matches: 37, Mismatches: 9, Indels: 2 0.77 0.19 0.04 Matches are distributed among these distances: 29 35 0.95 30 2 0.05 ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37 Consensus pattern (29 bp): CCATCTCGTCAAAATTATTTTTTCAGAAC Found at i:12495574 original size:59 final size:63 Alignment explanation
Indices: 12495500--12495635 Score: 181 Period size: 65 Copynumber: 2.2 Consensus size: 63 12495490 TATTTTTCCT * * 12495500 AAACACTAAACAATTAAAAATATAATAC-TTAA-T-TTT-TCCTAAACCTTAATAAAACCCTA 1 AAACACTAAACAATTAAAAACATAATACTTTAATTATTTATCCTAAACCCTAATAAAACCCTA * * 12495559 AAACTCTAAACAATTAAAAACATAATACTTTAATTTAATTTATCCTAAACCCTAATCAAACCCTA 1 AAACACTAAACAATTAAAAACATAATACTTTAA-TT-ATTTATCCTAAACCCTAATAAAACCCTA * 12495624 AAACCCTAAACA 1 AAACACTAAACA 12495636 TAGGCCTTAA Statistics Matches: 66, Mismatches: 5, Indels: 6 0.86 0.06 0.08 Matches are distributed among these distances: 59 26 0.39 60 4 0.06 62 1 0.02 64 3 0.05 65 32 0.48 ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29 Consensus pattern (63 bp): AAACACTAAACAATTAAAAACATAATACTTTAATTATTTATCCTAAACCCTAATAAAACCCTA Found at i:12501420 original size:19 final size:18 Alignment explanation
Indices: 12501398--12501456 Score: 59 Period size: 19 Copynumber: 3.2 Consensus size: 18 12501388 TTACAAAAAG 12501398 AAATTAAAATAATTTTCAA 1 AAATTAAAATAATTTT-AA 12501417 AAATTCAAAAT-ATTTATAA 1 AAATT-AAAATAATTT-TAA * 12501436 AAATTTTAAA-AATTTTAA 1 AAA-TTAAAATAATTTTAA 12501454 AAA 1 AAA 12501457 ATTTCAAAAA Statistics Matches: 35, Mismatches: 1, Indels: 9 0.78 0.02 0.20 Matches are distributed among these distances: 18 6 0.17 19 21 0.60 20 8 0.23 ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37 Consensus pattern (18 bp): AAATTAAAATAATTTTAA Found at i:12501455 original size:8 final size:9 Alignment explanation
Indices: 12501408--12501466 Score: 57 Period size: 9 Copynumber: 6.2 Consensus size: 9 12501398 AAATTAAAAT 12501408 AATTTTCAAA 1 AATTTT-AAA * 12501418 AA-TTCAAA 1 AATTTTAAA 12501426 ATATTTATAAA 1 A-ATTT-TAAA 12501437 AATTTTAAA 1 AATTTTAAA 12501446 AATTTTAAAA 1 AATTTT-AAA * 12501456 AATTTCAAA 1 AATTTTAAA 12501465 AA 1 AA 12501467 AATATGTAAA Statistics Matches: 42, Mismatches: 3, Indels: 9 0.78 0.06 0.17 Matches are distributed among these distances: 8 4 0.10 9 18 0.43 10 16 0.38 11 4 0.10 ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37 Consensus pattern (9 bp): AATTTTAAA Done.