Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_D02 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: 67659327 ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33 Warning! 461372 characters in sequence are not A, C, G, or T File 122 of 216 Found at i:38770295 original size:41 final size:41 Alignment explanation
Indices: 38770250--38770331 Score: 121 Period size: 41 Copynumber: 2.0 Consensus size: 41 38770240 ATATTTCATT * * * 38770250 TTATCTTTTAGTAGTTTATTAGAAT-AAGGAAATTATTTTCC 1 TTATCTTTTAGTAGTTTACTAAAATAAAAG-AATTATTTTCC 38770291 TTATCTTTTAGTAGTTTACTAAAATAAAAGAATTATTTTCC 1 TTATCTTTTAGTAGTTTACTAAAATAAAAGAATTATTTTCC 38770332 CAATTAGATT Statistics Matches: 37, Mismatches: 3, Indels: 2 0.88 0.07 0.05 Matches are distributed among these distances: 41 34 0.92 42 3 0.08 ACGTcount: A:0.34, C:0.09, G:0.10, T:0.48 Consensus pattern (41 bp): TTATCTTTTAGTAGTTTACTAAAATAAAAGAATTATTTTCC Found at i:38772754 original size:19 final size:19 Alignment explanation
Indices: 38772730--38772770 Score: 66 Period size: 19 Copynumber: 2.2 Consensus size: 19 38772720 TATTTTAAGG 38772730 TTATTT-AGATAGATAAATC 1 TTATTTAAG-TAGATAAATC 38772749 TTATTTAAGTAGATAAATC 1 TTATTTAAGTAGATAAATC 38772768 TTA 1 TTA 38772771 GAATAAATCA Statistics Matches: 21, Mismatches: 0, Indels: 2 0.91 0.00 0.09 Matches are distributed among these distances: 19 19 0.90 20 2 0.10 ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44 Consensus pattern (19 bp): TTATTTAAGTAGATAAATC Found at i:38772849 original size:37 final size:37 Alignment explanation
Indices: 38772808--38772878 Score: 133 Period size: 37 Copynumber: 1.9 Consensus size: 37 38772798 ATATCTTATT 38772808 TTATCCTTTAGTAGTTTATTAGAATAAGGGAATTTCC 1 TTATCCTTTAGTAGTTTATTAGAATAAGGGAATTTCC * 38772845 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATT 1 TTATCCTTTAGTAGTTTATTAGAATAAGGGAATT 38772879 ATTTTCCCAA Statistics Matches: 33, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 37 33 1.00 ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45 Consensus pattern (37 bp): TTATCCTTTAGTAGTTTATTAGAATAAGGGAATTTCC Found at i:38776346 original size:29 final size:30 Alignment explanation
Indices: 38776283--38776362 Score: 108 Period size: 31 Copynumber: 2.6 Consensus size: 30 38776273 ATCCCAAAAC * 38776283 TATACATGAACTTTGGTTTAATGTGCAATTG 1 TATACATGAACTTTGATTT-ATGTGCAATTG * 38776314 TATACATGAACTTTGATTT-TGTGCAATTT 1 TATACATGAACTTTGATTTATGTGCAATTG * 38776343 TATACATGAAATTTTGATTT 1 TATACATG-AACTTTGATTT 38776363 GATTCAATTC Statistics Matches: 45, Mismatches: 3, Indels: 3 0.88 0.06 0.06 Matches are distributed among these distances: 29 17 0.38 30 10 0.22 31 18 0.40 ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46 Consensus pattern (30 bp): TATACATGAACTTTGATTTATGTGCAATTG Found at i:38788961 original size:17 final size:17 Alignment explanation
Indices: 38788939--38788973 Score: 70 Period size: 17 Copynumber: 2.1 Consensus size: 17 38788929 TTTCAAATGC 38788939 ACCACACGAGAACATAA 1 ACCACACGAGAACATAA 38788956 ACCACACGAGAACATAA 1 ACCACACGAGAACATAA 38788973 A 1 A 38788974 GGCTACGAAA Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 18 1.00 ACGTcount: A:0.54, C:0.29, G:0.11, T:0.06 Consensus pattern (17 bp): ACCACACGAGAACATAA Found at i:38807438 original size:14 final size:14 Alignment explanation
Indices: 38807419--38807450 Score: 64 Period size: 14 Copynumber: 2.3 Consensus size: 14 38807409 AACATCTATC 38807419 ACAATGATCATACA 1 ACAATGATCATACA 38807433 ACAATGATCATACA 1 ACAATGATCATACA 38807447 ACAA 1 ACAA 38807451 AAGTTGTTGC Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 18 1.00 ACGTcount: A:0.53, C:0.22, G:0.06, T:0.19 Consensus pattern (14 bp): ACAATGATCATACA Found at i:38809079 original size:47 final size:47 Alignment explanation
Indices: 38809026--38809120 Score: 181 Period size: 47 Copynumber: 2.0 Consensus size: 47 38809016 TGAGAACCAC 38809026 TACTTTCTTATTGATGATGGTGTTTGATTAATGAAATTTAATGGCTT 1 TACTTTCTTATTGATGATGGTGTTTGATTAATGAAATTTAATGGCTT * 38809073 TACTTTCTTATTGATTATGGTGTTTGATTAATGAAATTTAATGGCTT 1 TACTTTCTTATTGATGATGGTGTTTGATTAATGAAATTTAATGGCTT 38809120 T 1 T 38809121 CTGAGCCTTT Statistics Matches: 47, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 47 47 1.00 ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51 Consensus pattern (47 bp): TACTTTCTTATTGATGATGGTGTTTGATTAATGAAATTTAATGGCTT Found at i:38809498 original size:13 final size:13 Alignment explanation
Indices: 38809480--38809515 Score: 56 Period size: 13 Copynumber: 2.8 Consensus size: 13 38809470 AAAAAAGAGA 38809480 TTGTTTTAAATTC 1 TTGTTTTAAATTC 38809493 TTGTTTTAAATTC 1 TTGTTTTAAATTC 38809506 TAT-TTTTAAA 1 T-TGTTTTAAA 38809516 ATATTAAAAA Statistics Matches: 22, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 13 21 0.95 14 1 0.05 ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61 Consensus pattern (13 bp): TTGTTTTAAATTC Found at i:38813585 original size:13 final size:13 Alignment explanation
Indices: 38813567--38813599 Score: 57 Period size: 13 Copynumber: 2.5 Consensus size: 13 38813557 GAGTGTTAGA 38813567 ATATTATTATAGG 1 ATATTATTATAGG * 38813580 ATATTATTATGGG 1 ATATTATTATAGG 38813593 ATATTAT 1 ATATTAT 38813600 CTCTTAGCAA Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 13 19 1.00 ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48 Consensus pattern (13 bp): ATATTATTATAGG Found at i:38813893 original size:9 final size:9 Alignment explanation
Indices: 38813879--38813971 Score: 107 Period size: 9 Copynumber: 10.4 Consensus size: 9 38813869 TTTGGTTAAA 38813879 AATTAACCG 1 AATTAACCG * * 38813888 AATTAAGCA 1 AATTAACCG 38813897 AATTAACCG 1 AATTAACCG * 38813906 AATTACCCG 1 AATTAACCG * 38813915 AATTACCCG 1 AATTAACCG 38813924 AATTAACCG 1 AATTAACCG * 38813933 AA-TACCCG 1 AATTAACCG * 38813941 AATTACCCG 1 AATTAACCG 38813950 AATTAACCG 1 AATTAACCG * * 38813959 GATTAACCT 1 AATTAACCG 38813968 AATT 1 AATT 38813972 GAATCATACA Statistics Matches: 72, Mismatches: 11, Indels: 2 0.85 0.13 0.02 Matches are distributed among these distances: 8 7 0.10 9 65 0.90 ACGTcount: A:0.41, C:0.25, G:0.11, T:0.24 Consensus pattern (9 bp): AATTAACCG Found at i:38813945 original size:26 final size:27 Alignment explanation
Indices: 38813879--38813963 Score: 118 Period size: 27 Copynumber: 3.2 Consensus size: 27 38813869 TTTGGTTAAA * ** * 38813879 AATTAACCGAATTAAGCAAATTAACCG 1 AATTACCCGAATTACCCGAATTAACCG 38813906 AATTACCCGAATTACCCGAATTAACCG 1 AATTACCCGAATTACCCGAATTAACCG 38813933 AA-TACCCGAATTACCCGAATTAACCG 1 AATTACCCGAATTACCCGAATTAACCG * 38813959 GATTA 1 AATTA 38813964 ACCTAATTGA Statistics Matches: 52, Mismatches: 5, Indels: 2 0.88 0.08 0.03 Matches are distributed among these distances: 26 25 0.48 27 27 0.52 ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22 Consensus pattern (27 bp): AATTACCCGAATTACCCGAATTAACCG Found at i:38813949 original size:35 final size:36 Alignment explanation
Indices: 38813879--38813971 Score: 125 Period size: 35 Copynumber: 2.6 Consensus size: 36 38813869 TTTGGTTAAA * 38813879 AATTAACCGAATTAAGCAAATTAACCGAATTACCCG 1 AATTAACCGAATTAACCAAATTAACCGAATTACCCG * * * 38813915 AATTACCCGAATTAACCGAA-TACCCGAATTACCCG 1 AATTAACCGAATTAACCAAATTAACCGAATTACCCG * * 38813950 AATTAACCGGATTAACCTAATT 1 AATTAACCGAATTAACCAAATT 38813972 GAATCATACA Statistics Matches: 49, Mismatches: 7, Indels: 2 0.84 0.12 0.03 Matches are distributed among these distances: 35 31 0.63 36 18 0.37 ACGTcount: A:0.41, C:0.25, G:0.11, T:0.24 Consensus pattern (36 bp): AATTAACCGAATTAACCAAATTAACCGAATTACCCG Found at i:38826967 original size:23 final size:23 Alignment explanation
Indices: 38826938--38827059 Score: 163 Period size: 23 Copynumber: 5.3 Consensus size: 23 38826928 AGTGTTATTG 38826938 ATCAGTGGTAGCTTCGGCTACAT 1 ATCAGTGGTAGCTTCGGCTACAT * * * * 38826961 TTTAGTGGTGGCTACGGCTACAT 1 ATCAGTGGTAGCTTCGGCTACAT * 38826984 ATCAGTGGTAGCTTTGGCTACAT 1 ATCAGTGGTAGCTTCGGCTACAT * * * 38827007 TTCAGTGGTAGCTACGGCTACGT 1 ATCAGTGGTAGCTTCGGCTACAT * 38827030 ATCAGTGGTAGCTTTGGCTACAT 1 ATCAGTGGTAGCTTCGGCTACAT 38827053 ATCAGTG 1 ATCAGTG 38827060 TGGCACTTAT Statistics Matches: 82, Mismatches: 17, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 23 82 1.00 ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33 Consensus pattern (23 bp): ATCAGTGGTAGCTTCGGCTACAT Found at i:38826990 original size:46 final size:46 Alignment explanation
Indices: 38826938--38827059 Score: 199 Period size: 46 Copynumber: 2.7 Consensus size: 46 38826928 AGTGTTATTG * * * 38826938 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTGGCTACGGCTACAT 1 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACAT * 38826984 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACGT 1 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACAT * 38827030 ATCAGTGGTAGCTTTGGCTACATATCAGTG 1 ATCAGTGGTAGCTTTGGCTACATTTCAGTG 38827060 TGGCACTTAT Statistics Matches: 71, Mismatches: 5, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 46 71 1.00 ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33 Consensus pattern (46 bp): ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACAT Found at i:38830689 original size:98 final size:97 Alignment explanation
Indices: 38830513--38830706 Score: 271 Period size: 98 Copynumber: 2.0 Consensus size: 97 38830503 GAAATCAGGC * * * * * 38830513 TTTTATTTGAATCAAAGTATACGAGTCACGCATACATAGTCCATTATCCACTTAGGATTAAGGTA 1 TTTTATTTGAATCAAAGTATACGAGCCACACATACATAGTCCATCATCCACTCAGAATTAAGGTA * 38830578 TGACACACAATGAACGTCACAAGTGAATAAAA 66 TGACACACAATGAACGTCACAAATGAATAAAA * * * * 38830610 TTTTCATTTGCATCATAGTATACGAGCCACACATACATAGTCTATCATCTACTCAGAATTAAGGT 1 TTTT-ATTTGAATCAAAGTATACGAGCCACACATACATAGTCCATCATCCACTCAGAATTAAGGT * * 38830675 ATGACACACTATGAAGGTCACAAATGAATAAA 65 ATGACACACAATGAACGTCACAAATGAATAAA 38830707 TCTATAAATG Statistics Matches: 84, Mismatches: 12, Indels: 1 0.87 0.12 0.01 Matches are distributed among these distances: 97 4 0.05 98 80 0.95 ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28 Consensus pattern (97 bp): TTTTATTTGAATCAAAGTATACGAGCCACACATACATAGTCCATCATCCACTCAGAATTAAGGTA TGACACACAATGAACGTCACAAATGAATAAAA Found at i:38834046 original size:22 final size:22 Alignment explanation
Indices: 38834017--38834059 Score: 61 Period size: 23 Copynumber: 2.0 Consensus size: 22 38834007 ACAGATACGC * 38834017 GGATTCC-ACCCAAACACACCA 1 GGATTCCAACCAAAACACACCA 38834038 GGATATCCAACCAAAACACACC 1 GGAT-TCCAACCAAAACACACC 38834060 CGAAATAAAT Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 21 4 0.21 22 3 0.16 23 12 0.63 ACGTcount: A:0.42, C:0.40, G:0.09, T:0.09 Consensus pattern (22 bp): GGATTCCAACCAAAACACACCA Found at i:38837749 original size:11 final size:11 Alignment explanation
Indices: 38837729--38837760 Score: 55 Period size: 11 Copynumber: 2.9 Consensus size: 11 38837719 TTAATTAGTT 38837729 TAATATAATAA 1 TAATATAATAA * 38837740 TAATAAAATAA 1 TAATATAATAA 38837751 TAATATAATA 1 TAATATAATA 38837761 TTACTTACTT Statistics Matches: 19, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 11 19 1.00 ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34 Consensus pattern (11 bp): TAATATAATAA Found at i:38837897 original size:14 final size:13 Alignment explanation
Indices: 38837871--38837921 Score: 59 Period size: 13 Copynumber: 3.9 Consensus size: 13 38837861 GTTTATTTGA 38837871 AATATAATAATAT 1 AATATAATAATAT 38837884 AATATAATTAATAT 1 AATATAA-TAATAT * * 38837898 AAT-TTACAATAT 1 AATATAATAATAT * 38837910 AATAAAATAATA 1 AATATAATAATA 38837922 ATATACTTAA Statistics Matches: 31, Mismatches: 5, Indels: 4 0.77 0.12 0.10 Matches are distributed among these distances: 12 8 0.26 13 14 0.45 14 9 0.29 ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37 Consensus pattern (13 bp): AATATAATAATAT Found at i:38839490 original size:16 final size:16 Alignment explanation
Indices: 38839471--38839504 Score: 68 Period size: 16 Copynumber: 2.1 Consensus size: 16 38839461 AACCAGAATG 38839471 TTGTAGGCAAAATACC 1 TTGTAGGCAAAATACC 38839487 TTGTAGGCAAAATACC 1 TTGTAGGCAAAATACC 38839503 TT 1 TT 38839505 ACACCGTACT Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 18 1.00 ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29 Consensus pattern (16 bp): TTGTAGGCAAAATACC Found at i:38842097 original size:51 final size:51 Alignment explanation
Indices: 38842041--38842195 Score: 247 Period size: 51 Copynumber: 3.0 Consensus size: 51 38842031 CGTACAACAA * * * * 38842041 CAACATTATCCAGTCCATTTAATGTTGAAAAATCACCAGCATATTCATCAG 1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG * 38842092 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCATCAG 1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG * * 38842143 CAACATTATCCACTCTATCTGATGTTGCAAAATCACTAGCATATTCATCAG 1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG 38842194 CA 1 CA 38842196 GCAACTTCAC Statistics Matches: 96, Mismatches: 8, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 51 96 1.00 ACGTcount: A:0.35, C:0.26, G:0.09, T:0.29 Consensus pattern (51 bp): CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG Found at i:38842355 original size:33 final size:32 Alignment explanation
Indices: 38842299--38842441 Score: 97 Period size: 33 Copynumber: 4.3 Consensus size: 32 38842289 GTAGCAGACA ** * * 38842299 CACCCTCCCCATCAGCTTGTACCTCTCCTACAT 1 CACCCTCCCCATCAAATTCTACCCCTCC-ACAT * ** * 38842332 CACCCTCCCCACCAAATTCTACCTATCCCAGAT 1 CACCCTCCCCATCAAATTCTACCCCT-CCACAT * ** * * 38842365 CACCTTTACCATCATATTCTACCCCTTCATCAT 1 CACCCTCCCCATCAAATTCTACCCCTCCA-CAT * * ** 38842398 CACCCTCCCCATCAACTTCCACCCCTTGAACAT 1 CACCCTCCCCATCAAATTCTACCCC-TCCACAT 38842431 CACCCTCCCCA 1 CACCCTCCCCA 38842442 GTAGTCAAAA Statistics Matches: 84, Mismatches: 23, Indels: 6 0.74 0.20 0.05 Matches are distributed among these distances: 32 2 0.02 33 78 0.93 34 4 0.05 ACGTcount: A:0.23, C:0.49, G:0.03, T:0.25 Consensus pattern (32 bp): CACCCTCCCCATCAAATTCTACCCCTCCACAT Found at i:38843554 original size:8 final size:8 Alignment explanation
Indices: 38843532--38843567 Score: 56 Period size: 8 Copynumber: 4.5 Consensus size: 8 38843522 AAAGTTTTGA 38843532 ATTTAGGGG 1 ATTT-GGGG 38843541 -TTTGGGG 1 ATTTGGGG 38843548 ATTTGGGG 1 ATTTGGGG 38843556 ATTTGGGG 1 ATTTGGGG 38843564 ATTT 1 ATTT 38843568 AAGGTTTTTT Statistics Matches: 26, Mismatches: 0, Indels: 3 0.90 0.00 0.10 Matches are distributed among these distances: 7 4 0.15 8 22 0.85 ACGTcount: A:0.14, C:0.00, G:0.44, T:0.42 Consensus pattern (8 bp): ATTTGGGG Found at i:38848924 original size:22 final size:22 Alignment explanation
Indices: 38848896--38848972 Score: 68 Period size: 22 Copynumber: 3.4 Consensus size: 22 38848886 TTTCTTTTAA 38848896 TTAGGAGATTAGATGCTAAAGT 1 TTAGGAGATTAGATGCTAAAGT ** * * 38848918 TTAGGAGATAATATTTTGGTTTAA-- 1 TTAGGAGAT--TA-GAT-GCTAAAGT 38848942 TTAGGAGATTAGATGCTAAAGT 1 TTAGGAGATTAGATGCTAAAGT 38848964 TTAGGAGAT 1 TTAGGAGAT 38848973 AATATTTTGG Statistics Matches: 41, Mismatches: 8, Indels: 12 0.67 0.13 0.20 Matches are distributed among these distances: 20 4 0.10 21 1 0.02 22 20 0.49 24 11 0.27 25 1 0.02 26 4 0.10 ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36 Consensus pattern (22 bp): TTAGGAGATTAGATGCTAAAGT Found at i:38848941 original size:46 final size:46 Alignment explanation
Indices: 38848891--38848985 Score: 190 Period size: 46 Copynumber: 2.1 Consensus size: 46 38848881 TCTATTTTCT 38848891 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG 1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG 38848937 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG 1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG 38848983 TTT 1 TTT 38848986 CTATCTTTGT Statistics Matches: 49, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 46 49 1.00 ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41 Consensus pattern (46 bp): TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG Found at i:38853462 original size:46 final size:46 Alignment explanation
Indices: 38853412--38853506 Score: 172 Period size: 46 Copynumber: 2.1 Consensus size: 46 38853402 TCTATTTTCT * * 38853412 TTTAATTATGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG 1 TTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAATATTTTGG 38853458 TTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAATATTTTGG 1 TTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAATATTTTGG 38853504 TTT 1 TTT 38853507 TTATCTTTGT Statistics Matches: 47, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 46 47 1.00 ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42 Consensus pattern (46 bp): TTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAATATTTTGG Found at i:38854242 original size:171 final size:170 Alignment explanation
Indices: 38853957--38854293 Score: 444 Period size: 171 Copynumber: 2.0 Consensus size: 170 38853947 ACAATTCAGA * * * 38853957 AACAAACTAAAAATGCATTAATTTGATCAAATTACTAAAATTTGCATCCTAATTGTGCCATCATC 1 AACAAACTAAAAATGCATTAACTTGATCAAATTACTAAAATTTACATCCTAATTATGCCATCATC ** * * 38854022 AAATCAACTTGATGATGAACACCAATCAACCAATAAACAACTGCCAAAAGTCCCAAG-AGACCCA 66 AAATCAACTTGACAATGAACACCAATCAACCAATAAACAACTCCCAAAAGGCCCAAGAAG-CCCA * * * 38854086 TCATATCAAATGATGCACGAAAGATCAAGTCTTAGATGCAAG 130 TCATATC-AATGATGCACAAAAGATAAAATCTTAGATGCAAG ** ** * 38854128 AACAAACTAGCAATGCATTAACTTGATCAAATTA-TAGAAATTTACATTTTAGTTATGCCATCAT 1 AACAAACTAAAAATGCATTAACTTGATCAAATTACTA-AAATTTACATCCTAATTATGCCATCAT * * * * 38854192 CAAATCAACTTGACAATGAATATCAATCAACTAATAAACAACTCCCAAAAGGCCCAAGAAGCCTA 65 CAAATCAACTTGACAATGAACACCAATCAACCAATAAACAACTCCCAAAAGGCCCAAGAAGCCCA * * 38854257 TTATATCAATGATGCACAAAAGTTAAAATCTTAGATG 130 TCATATCAATGATGCACAAAAGATAAAATCTTAGATG 38854294 GACTTCCTCA Statistics Matches: 143, Mismatches: 21, Indels: 5 0.85 0.12 0.03 Matches are distributed among these distances: 170 28 0.20 171 113 0.79 172 2 0.01 ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25 Consensus pattern (170 bp): AACAAACTAAAAATGCATTAACTTGATCAAATTACTAAAATTTACATCCTAATTATGCCATCATC AAATCAACTTGACAATGAACACCAATCAACCAATAAACAACTCCCAAAAGGCCCAAGAAGCCCAT CATATCAATGATGCACAAAAGATAAAATCTTAGATGCAAG Found at i:38861357 original size:16 final size:16 Alignment explanation
Indices: 38861336--38861395 Score: 102 Period size: 16 Copynumber: 3.8 Consensus size: 16 38861326 TTTGGTTCGC 38861336 TGTATTGGATTAGAGG 1 TGTATTGGATTAGAGG * 38861352 TGTATTGGATTAGAAG 1 TGTATTGGATTAGAGG 38861368 TGTATTGGATTAGAGG 1 TGTATTGGATTAGAGG * 38861384 TGTATTAGATTA 1 TGTATTGGATTA 38861396 AATGTGTAAT Statistics Matches: 41, Mismatches: 3, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 16 41 1.00 ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40 Consensus pattern (16 bp): TGTATTGGATTAGAGG Found at i:38861372 original size:32 final size:32 Alignment explanation
Indices: 38861336--38861403 Score: 111 Period size: 32 Copynumber: 2.1 Consensus size: 32 38861326 TTTGGTTCGC * 38861336 TGTATTGGATTAGAGGTGTATTGGATTAGAA-G 1 TGTATTGGATTAGAGGTGTATTAGATTA-AATG 38861368 TGTATTGGATTAGAGGTGTATTAGATTAAATG 1 TGTATTGGATTAGAGGTGTATTAGATTAAATG 38861400 TGTA 1 TGTA 38861404 ATAGCAAATC Statistics Matches: 34, Mismatches: 1, Indels: 2 0.92 0.03 0.05 Matches are distributed among these distances: 31 2 0.06 32 32 0.94 ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40 Consensus pattern (32 bp): TGTATTGGATTAGAGGTGTATTAGATTAAATG Found at i:38861402 original size:16 final size:16 Alignment explanation
Indices: 38861336--38861403 Score: 84 Period size: 16 Copynumber: 4.2 Consensus size: 16 38861326 TTTGGTTCGC * 38861336 TGTATTGGATTAGAGG 1 TGTATTGGATTAAAGG 38861352 TGTATTGGATTAGAA-G 1 TGTATTGGATTA-AAGG * 38861368 TGTATTGGATTAGAGG 1 TGTATTGGATTAAAGG * * 38861384 TGTATTAGATTAAATG 1 TGTATTGGATTAAAGG 38861400 TGTA 1 TGTA 38861404 ATAGCAAATC Statistics Matches: 45, Mismatches: 5, Indels: 4 0.83 0.09 0.07 Matches are distributed among these distances: 15 1 0.02 16 43 0.96 17 1 0.02 ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40 Consensus pattern (16 bp): TGTATTGGATTAAAGG Found at i:38861727 original size:157 final size:157 Alignment explanation
Indices: 38861533--38861842 Score: 548 Period size: 157 Copynumber: 2.0 Consensus size: 157 38861523 CCCTTAGCAT * 38861533 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA 1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA * * 38861598 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA 66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA 38861663 TTTAATAAAATTCTTAATAATTACCAA 131 TTTAATAAAATTCTTAATAATTACCAA * * * 38861690 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA 1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA * * 38861755 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA 66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA 38861820 TTTAATAAAATTCTTAATAATTA 131 TTTAATAAAATTCTTAATAATTA 38861843 ATATTCTTAT Statistics Matches: 145, Mismatches: 8, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 157 145 1.00 ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47 Consensus pattern (157 bp): AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA TTTAATAAAATTCTTAATAATTACCAA Found at i:38861916 original size:157 final size:155 Alignment explanation
Indices: 38861579--38861900 Score: 349 Period size: 157 Copynumber: 2.0 Consensus size: 155 38861569 TTAAATTTTA * * * * 38861579 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA 1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA * * * * ** * 38861644 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAAAAATTTGTTTTGGTAAATT 66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACAAAAATATGATTTACTAAATC * * * * * 38861709 ATTATTGTTATTGTTATTTAAATTTTG 131 ATAATTATTATTGATATATAAA--TAG * * 38861736 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA 1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA * * *** 38861801 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA 66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--AAAATATG-ATTTACT-A 38861866 AATCATAATATATTATATGATACTATAAA-AG 127 AATCATAAT-TATTAT-TGATA-TATAAATAG 38861897 ATAA 1 ATAA 38861901 TTTGAAATAA Statistics Matches: 137, Mismatches: 21, Indels: 10 0.82 0.12 0.06 Matches are distributed among these distances: 157 102 0.74 159 4 0.03 160 4 0.03 161 13 0.09 162 5 0.04 163 4 0.03 164 5 0.04 ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45 Consensus pattern (155 bp): ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACAAAAATATGATTTACTAAATC ATAATTATTATTGATATATAAATAG Found at i:38862737 original size:13 final size:13 Alignment explanation
Indices: 38862719--38862748 Score: 60 Period size: 13 Copynumber: 2.3 Consensus size: 13 38862709 CAATCAGCTA 38862719 AATTCAGAAAAAC 1 AATTCAGAAAAAC 38862732 AATTCAGAAAAAC 1 AATTCAGAAAAAC 38862745 AATT 1 AATT 38862749 ACATGACAAT Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 17 1.00 ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20 Consensus pattern (13 bp): AATTCAGAAAAAC Found at i:38865970 original size:9 final size:9 Alignment explanation
Indices: 38865956--38865981 Score: 52 Period size: 9 Copynumber: 2.9 Consensus size: 9 38865946 AGTTTGAGCT 38865956 TTAGTGGCA 1 TTAGTGGCA 38865965 TTAGTGGCA 1 TTAGTGGCA 38865974 TTAGTGGC 1 TTAGTGGC 38865982 GCTTTTTAAA Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 9 17 1.00 ACGTcount: A:0.19, C:0.12, G:0.35, T:0.35 Consensus pattern (9 bp): TTAGTGGCA Found at i:38866326 original size:55 final size:53 Alignment explanation
Indices: 38866220--38866335 Score: 146 Period size: 55 Copynumber: 2.2 Consensus size: 53 38866210 AATAATTAAT * * * * 38866220 GTTTAGAGTTTAGTGTTTGGTTTAGGTTGTAGGTTTATAGTTTAGTATTTAGG 1 GTTTAGGGTTTAGTGTTTGGTTTAGGGTGTAGGGTTAAAGTTTAGTATTTAGG 38866273 GTTTAGGGTTTAGTGTTTAGGGTTTATGGGT-TAGGGTTAAAGTTTA-TAGTTTAGG 1 GTTTAGGGTTTAGTGTTT--GGTTTA-GGGTGTAGGGTTAAAGTTTAGTA-TTTAGG 38866328 GTTTAGGG 1 GTTTAGGG 38866336 GCTTAGGATT Statistics Matches: 55, Mismatches: 4, Indels: 6 0.85 0.06 0.09 Matches are distributed among these distances: 53 17 0.31 54 2 0.04 55 33 0.60 56 3 0.05 ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47 Consensus pattern (53 bp): GTTTAGGGTTTAGTGTTTGGTTTAGGGTGTAGGGTTAAAGTTTAGTATTTAGG Found at i:38866331 original size:7 final size:7 Alignment explanation
Indices: 38866220--38866363 Score: 75 Period size: 7 Copynumber: 21.0 Consensus size: 7 38866210 AATAATTAAT * 38866220 GTTTAGA 1 GTTTAGG * 38866227 GTTTAGT 1 GTTTAGG 38866234 GTTT--G 1 GTTTAGG 38866239 GTTTA-G 1 GTTTAGG 38866245 GTTGTA-G 1 GTT-TAGG ** 38866252 GTTTATA 1 GTTTAGG * 38866259 GTTTAGT 1 GTTTAGG * 38866266 ATTTAGG 1 GTTTAGG 38866273 GTTTAGG 1 GTTTAGG * 38866280 GTTTAGT 1 GTTTAGG 38866287 GTTTAGG 1 GTTTAGG 38866294 GTTTATGG 1 GTTTA-GG 38866302 G-TTAGG 1 GTTTAGG ** 38866308 G-TTAAA 1 GTTTAGG ** 38866314 GTTTATA 1 GTTTAGG 38866321 GTTTAGG 1 GTTTAGG 38866328 GTTTAGGG 1 GTTTA-GG * 38866336 GCTTAGG 1 GTTTAGG * ** 38866343 ATTTATA 1 GTTTAGG * 38866350 GTTTAGT 1 GTTTAGG 38866357 GTTTAGG 1 GTTTAGG 38866364 ATTTTAAACA Statistics Matches: 107, Mismatches: 24, Indels: 12 0.75 0.17 0.08 Matches are distributed among these distances: 5 4 0.04 6 13 0.12 7 81 0.76 8 9 0.08 ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47 Consensus pattern (7 bp): GTTTAGG Found at i:38867131 original size:39 final size:41 Alignment explanation
Indices: 38867075--38867162 Score: 108 Period size: 40 Copynumber: 2.2 Consensus size: 41 38867065 AAAAATGCAG * ** * 38867075 CAAAAAGTAAGCAAATAGT-AGTTTTTTTAAAAAAACGCCA 1 CAAAAAATAAGCAAATAGTGACATTTTTGAAAAAAACGCCA ** 38867115 CAAAAAATAAGC-AATAGTGACATTTTTGAAAAAAACGCTG 1 CAAAAAATAAGCAAATAGTGACATTTTTGAAAAAAACGCCA 38867155 CAAAAAAT 1 CAAAAAAT 38867163 CATAAACAAA Statistics Matches: 41, Mismatches: 6, Indels: 2 0.84 0.12 0.04 Matches are distributed among these distances: 39 6 0.15 40 35 0.85 ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23 Consensus pattern (41 bp): CAAAAAATAAGCAAATAGTGACATTTTTGAAAAAAACGCCA Found at i:38868857 original size:24 final size:24 Alignment explanation
Indices: 38868822--38868873 Score: 72 Period size: 25 Copynumber: 2.2 Consensus size: 24 38868812 TTGTTTAAAC * 38868822 ATTT-TTACCT-AATAAAACTAAT 1 ATTTCTTACCTAAAAAAAACTAAT 38868844 ATTTCTTACCCTAAAAAAAACTAAT 1 ATTTCTTA-CCTAAAAAAAACTAAT 38868869 ATTTC 1 ATTTC 38868874 AGTTTTGTTT Statistics Matches: 26, Mismatches: 1, Indels: 3 0.87 0.03 0.10 Matches are distributed among these distances: 22 4 0.15 23 3 0.12 24 3 0.12 25 16 0.62 ACGTcount: A:0.44, C:0.17, G:0.00, T:0.38 Consensus pattern (24 bp): ATTTCTTACCTAAAAAAAACTAAT Found at i:38869773 original size:220 final size:229 Alignment explanation
Indices: 38869384--38869842 Score: 684 Period size: 220 Copynumber: 2.0 Consensus size: 229 38869374 TGACGTTTCA ** * * * 38869384 ATTTGGGATCATTGTCGTTGGGACTATTTTATTACGGTACATTTTTCAAGTTTATTACTGTACAT 1 ATTTGGGATCATTGTAATTGGAACTATTTTATTACGGCACATTTTTCAAGTTTATTACTGTACAC * 38869449 TTTGAAATTGTGCTTCTTTTTTTTTTTTGATAATATTTTCAAGTATATATTTAATACTAAATAAG 66 TTTGAAATTGTGCTAC---TTTTTTTTTGATAATATTTTCAAGTATATATTTAATACTAAATAAG 38869514 TTTTGATATTAACAATGTTTGATTTTAATA-TT-TAA-T-AAT-TTTTTAAAACTTATAAATATA 128 TTTTGATATTAACAATGTTTGATTTTAATATTTATAATTAAATGTTTTTAAAACTTATAAATATA 38869574 TTTTGTAAGAGAGTAATTTTGATCATTATTTAAATTT 193 TTTTGTAAGAGAGTAATTTTGATCATTATTTAAATTT * * 38869611 ATTTGGGATCTTTGTAATTGGAACTATTTTATTACTGCACATTTTTCAAGTTTATTACTGTACAC 1 ATTTGGGATCATTGTAATTGGAACTATTTTATTACGGCACATTTTTCAAGTTTATTACTGTACAC * * 38869676 TTTG-AATT-TG-TAC-TTTTTTTTGATAATATTTTCAAGTATATATTTAATACTAATTAATTTT 66 TTTGAAATTGTGCTACTTTTTTTTTGATAATATTTTCAAGTATATATTTAATACTAAATAAGTTT * 38869737 TGATATTAACAATGTTTGATTTTAATATTTAATAATTTTAAATGTTTTTAAAACTTATAAATATT 131 TGATATTAACAATGTTTGATTTTAATATTT-ATAA--TTAAATGTTTTTAAAACTTATAAATATA ** 38869802 TTTTGTGGGAGAGTAATTTTGATCATTATTTAAATTT 193 TTTTGTAAGAGAGTAATTTTGATCATTATTTAAATTT 38869839 ATTT 1 ATTT 38869843 TAATATAAAA Statistics Matches: 211, Mismatches: 13, Indels: 15 0.88 0.05 0.06 Matches are distributed among these distances: 220 73 0.35 221 2 0.01 223 3 0.01 224 2 0.01 225 2 0.01 226 5 0.02 227 65 0.31 228 59 0.28 ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51 Consensus pattern (229 bp): ATTTGGGATCATTGTAATTGGAACTATTTTATTACGGCACATTTTTCAAGTTTATTACTGTACAC TTTGAAATTGTGCTACTTTTTTTTTGATAATATTTTCAAGTATATATTTAATACTAAATAAGTTT TGATATTAACAATGTTTGATTTTAATATTTATAATTAAATGTTTTTAAAACTTATAAATATATTT TGTAAGAGAGTAATTTTGATCATTATTTAAATTT Found at i:38869885 original size:19 final size:19 Alignment explanation
Indices: 38869861--38869918 Score: 91 Period size: 19 Copynumber: 3.1 Consensus size: 19 38869851 AAATCAAAAC 38869861 TTACATAACTTTAAAGAAT 1 TTACATAACTTTAAAGAAT * * 38869880 TTACATAAC-TTACATAAT 1 TTACATAACTTTAAAGAAT 38869898 TTACATAACTTTAAAGAAT 1 TTACATAACTTTAAAGAAT 38869917 TT 1 TT 38869919 TCGATTTTAA Statistics Matches: 34, Mismatches: 4, Indels: 2 0.85 0.10 0.05 Matches are distributed among these distances: 18 16 0.47 19 18 0.53 ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40 Consensus pattern (19 bp): TTACATAACTTTAAAGAAT Found at i:38869997 original size:8 final size:9 Alignment explanation
Indices: 38869858--38870243 Score: 133 Period size: 9 Copynumber: 40.6 Consensus size: 9 38869848 TAAAAATCAA 38869858 AACTTACAT 1 AACTTACAT * * 38869867 AACTTTAAAG 1 AAC-TTACAT * 38869877 AATTTACAT 1 AACTTACAT 38869886 AACTTACAT 1 AACTTACAT * 38869895 AATTTACAT 1 AACTTACAT * * 38869904 AACTTTAAAG 1 AAC-TTACAT * * 38869914 AATTTTCGATTTT 1 AACTTAC-A---T 38869927 AACTTA-AT 1 AACTTACAT * 38869935 AACTTATAT 1 AACTTACAT * 38869944 ATATGTATATCAT 1 A-A-CT-TA-CAT 38869957 AACTTACAT 1 AACTTACAT * 38869966 AACTCACATAT 1 AACTTAC--AT 38869977 AACTTACAT 1 AACTTACAT 38869986 AACTTA-AT 1 AACTTACAT 38869994 AACTTACAT 1 AACTTACAT * 38870003 ATATCATATCAT 1 A-A-CTTA-CAT 38870015 AA-TTCACAT 1 AACTT-ACAT 38870024 AACTTA-AT 1 AACTTACAT * 38870032 AACTTATATAT 1 AAC-T-TACAT * 38870043 ATATCATATCAT 1 A-A-CTTA-CAT 38870055 AACTTACAT 1 AACTTACAT * * 38870064 AACTCACAA 1 AACTTACAT * 38870073 AACATACAT 1 AACTTACAT * 38870082 AACATA-AT 1 AACTTACAT * 38870090 AACTTATATAT 1 AAC-T-TACAT * 38870101 ATATCATATCAT 1 A-A-CTTA-CAT 38870113 AACTTACAT 1 AACTTACAT * * 38870122 AACTCATAT 1 AACTTACAT * * 38870131 AACATATAT 1 AACTTACAT * * 38870140 CATTTA-AT 1 AACTTACAT * 38870148 AACTTATAT 1 AACTTACAT * 38870157 ATATCATATCAT 1 A-A-CTTA-CAT * 38870169 AACTTACGT 1 AACTTACAT 38870178 AACTTACAT 1 AACTTACAT * 38870187 AACTCACAT 1 AACTTACAT 38870196 AACTTACAT 1 AACTTACAT 38870205 AA--TACAT 1 AACTTACAT * * 38870212 AA-ATATAT 1 AACTTACAT * * 38870220 ATCATATCAT 1 AACTTA-CAT 38870230 AACTTACAT 1 AACTTACAT 38870239 AACTT 1 AACTT 38870244 GTTTATACTT Statistics Matches: 283, Mismatches: 56, Indels: 76 0.68 0.13 0.18 Matches are distributed among these distances: 7 7 0.02 8 36 0.13 9 142 0.50 10 40 0.14 11 31 0.11 12 18 0.06 13 9 0.03 ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37 Consensus pattern (9 bp): AACTTACAT Found at i:38870056 original size:40 final size:38 Alignment explanation
Indices: 38869955--38870196 Score: 164 Period size: 40 Copynumber: 6.3 Consensus size: 38 38869945 TATGTATATC * 38869955 ATAACTTACATA-ACTCACAT-ATAACTTACATAACTTA 1 ATAACTTACATATA-TCATATCATAACTTACATAACTTA 38869992 ATAACTTACATATATCATATCATAA-TTCACATAACTTA 1 ATAACTTACATATATCATATCATAACTT-ACATAACTTA * * 38870030 ATAACTTATATATATATCATATCATAACTTACATAACTCA 1 ATAAC-T-TACATATATCATATCATAACTTACATAACTTA * * * * 38870070 CAAAACATACATA-A-CATA--ATAACTTATATATATATCATATC 1 -ATAACTTACATATATCATATCATAAC-T-TACATA-A-C-T-TA * * * * 38870111 ATAACTTACATA-A-C-TCAT-ATAACATATATCATTTA 1 ATAACTTACATATATCAT-ATCATAACTTACATAACTTA * * 38870146 ATAACTTATATATATCATATCATAACTTACGTAACTTA 1 ATAACTTACATATATCATATCATAACTTACATAACTTA * 38870184 CATAACTCACATA 1 -ATAACTTACATA 38870197 ACTTACATAA Statistics Matches: 162, Mismatches: 23, Indels: 38 0.73 0.10 0.17 Matches are distributed among these distances: 35 17 0.10 36 3 0.02 37 31 0.19 38 36 0.22 39 23 0.14 40 41 0.25 41 11 0.07 ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35 Consensus pattern (38 bp): ATAACTTACATATATCATATCATAACTTACATAACTTA Found at i:38870160 original size:21 final size:21 Alignment explanation
Indices: 38870134--38870174 Score: 64 Period size: 21 Copynumber: 2.0 Consensus size: 21 38870124 CTCATATAAC * 38870134 ATATATCATTTAATAACTTAT 1 ATATATCATATAATAACTTAT * 38870155 ATATATCATATCATAACTTA 1 ATATATCATATAATAACTTA 38870175 CGTAACTTAC Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 21 18 1.00 ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44 Consensus pattern (21 bp): ATATATCATATAATAACTTAT Found at i:38870188 original size:65 final size:61 Alignment explanation
Indices: 38870052--38870243 Score: 193 Period size: 61 Copynumber: 3.1 Consensus size: 61 38870042 TATATCATAT * * * 38870052 CATAACTTACATAACTCACAAAACATACATAACATA-ATAACTTATATAT-ATATCAT-A--T- 1 CATAACTTACATAACTCACATAACTTACAT-A-ATACATAA-ATATATATCATATCATAACTTA * * 38870110 CATAACTTACATAACTCATATAACATATATCATTTAATA-ACT-TATATATATCATATCATAACT 1 CATAACTTACATAACTCACATAAC-T-TA-CA--TAATACA-TAAATATATATCATATCATAACT 38870173 TA 60 TA * 38870175 CGTAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATATCATAACTTA 1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATATCATAACTTA 38870236 CATAACTT 1 CATAACTT 38870244 GTTTATACTT Statistics Matches: 112, Mismatches: 9, Indels: 23 0.78 0.06 0.16 Matches are distributed among these distances: 58 22 0.20 60 15 0.13 61 43 0.38 62 5 0.04 63 3 0.03 64 2 0.02 65 22 0.20 ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34 Consensus pattern (61 bp): CATAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATATCATAACTTA Found at i:38870189 original size:56 final size:58 Alignment explanation
Indices: 38870020--38870242 Score: 299 Period size: 58 Copynumber: 3.8 Consensus size: 58 38870010 ATCATAATTC * 38870020 ACATAACTTAATAACTTATATATATATCATATCATAACTTACATAACTCACAAAACAT 1 ACATAACTTAATAACTTATATATATATCATATCATAACTTACATAACTCACATAACAT * * 38870078 ACATAACATAATAACTTATATATATATCATATCATAACTTACATAACTCATATAACAT 1 ACATAACTTAATAACTTATATATATATCATATCATAACTTACATAACTCACATAACAT * * * * * 38870136 ATATCATTTAATAAC-T-TATATATATCATATCATAACTTACGTAACTTACATAAC-T 1 ACATAACTTAATAACTTATATATATATCATATCATAACTTACATAACTCACATAACAT * * 38870191 CACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACT 1 -ACATAACTTA-AT-A-ACTTATATATATATCATATCATAACTTACATAACT 38870243 TGTTTATACT Statistics Matches: 144, Mismatches: 15, Indels: 9 0.86 0.09 0.05 Matches are distributed among these distances: 55 1 0.01 56 42 0.29 57 3 0.02 58 67 0.47 59 2 0.01 60 1 0.01 61 28 0.19 ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35 Consensus pattern (58 bp): ACATAACTTAATAACTTATATATATATCATATCATAACTTACATAACTCACATAACAT Found at i:38870577 original size:12 final size:12 Alignment explanation
Indices: 38870560--38870595 Score: 72 Period size: 12 Copynumber: 3.0 Consensus size: 12 38870550 AATATCAATG 38870560 GATGAATCTGAT 1 GATGAATCTGAT 38870572 GATGAATCTGAT 1 GATGAATCTGAT 38870584 GATGAATCTGAT 1 GATGAATCTGAT 38870596 AAAGATGATG Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 24 1.00 ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33 Consensus pattern (12 bp): GATGAATCTGAT Found at i:38871951 original size:120 final size:120 Alignment explanation
Indices: 38871738--38872149 Score: 731 Period size: 120 Copynumber: 3.4 Consensus size: 120 38871728 ATCATATTTA 38871738 AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA 1 AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA 38871803 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATAAATT 66 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATAAATT 38871858 AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA 1 AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA 38871923 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATAAATT 66 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATAAATT * 38871978 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA 1 AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA * * 38872043 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT 66 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATAAATT * * * 38872098 GAA-ATAATTAA-TATTAAATATATT-TTATTTAAATATATGATTTAATAAAATT 1 -AACATAA-TAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT 38872150 TAAAATAATT Statistics Matches: 283, Mismatches: 7, Indels: 5 0.96 0.02 0.02 Matches are distributed among these distances: 119 25 0.09 120 254 0.90 121 4 0.01 ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43 Consensus pattern (120 bp): AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATAAATT Found at i:38872023 original size:14 final size:15 Alignment explanation
Indices: 38871974--38872025 Score: 56 Period size: 15 Copynumber: 3.6 Consensus size: 15 38871964 ATAAAATATA 38871974 AATTAACATA-ATTAT 1 AATTAA-ATATATTAT * 38871989 TATTAAATATATTAT 1 AATTAAATATATTAT 38872004 AATTAAA-ATA-TAT 1 AATTAAATATATTAT * 38872017 AATTTAATA 1 AATTAAATA 38872026 AAATTCTTAA Statistics Matches: 32, Mismatches: 3, Indels: 5 0.80 0.08 0.12 Matches are distributed among these distances: 13 9 0.28 14 7 0.22 15 16 0.50 ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44 Consensus pattern (15 bp): AATTAAATATATTAT Found at i:38872200 original size:47 final size:46 Alignment explanation
Indices: 38872131--38872298 Score: 139 Period size: 47 Copynumber: 3.7 Consensus size: 46 38872121 TTTATTTAAA * 38872131 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT 1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT * * * * * * * 38872178 TATATGAATTTGTATAATTTAAAATAGTTATTATTACATATAAT-T 1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT * * * * 38872223 TA-AT-AATAATATATAATTTCATAA-AATTATTGATAATAAATTTTCT 1 TATATGAAT-TTATATAATTT-AAAATAATTA-TAATAATAAATTATCT * 38872269 TATATGAATTTATACAATTTAAAATAATTA 1 TATATGAATTTATATAATTTAAAATAATTA 38872299 ATATTAAATA Statistics Matches: 92, Mismatches: 21, Indels: 16 0.71 0.16 0.12 Matches are distributed among these distances: 43 3 0.03 44 15 0.16 45 14 0.15 46 13 0.14 47 40 0.43 48 7 0.08 ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45 Consensus pattern (46 bp): TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT Found at i:38872241 original size:91 final size:91 Alignment explanation
Indices: 38872146--38872372 Score: 289 Period size: 91 Copynumber: 2.5 Consensus size: 91 38872136 GATTTAATAA * * * * 38872146 AATTT-AAAATAATTA-TAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAGTTAT 1 AATTTCAAAA-AATTATTAA-TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAA * 38872209 TATTACATATAATTTAATAATAATATAT 64 TATTAAATATAATTTAATAATAATATAT * * * 38872237 AATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA 1 AATTTCAAAAAATTATTAATAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATA * 38872302 TTAAATATAATTTAATAATGATATAT 66 TTAAATATAATTTAATAATAATATAT * * * 38872328 AATTTCATAAATTTCTTAATAATAAAATGT-TCTTATATGAATTTA 1 AATTTCAAAAAATTATTAATAAT-AAAT-TATCTTATATGAATTTA 38872373 CTAAAATCAA Statistics Matches: 120, Mismatches: 12, Indels: 7 0.86 0.09 0.05 Matches are distributed among these distances: 91 95 0.79 92 24 0.20 93 1 0.01 ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45 Consensus pattern (91 bp): AATTTCAAAAAATTATTAATAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATA TTAAATATAATTTAATAATAATATAT Found at i:38872253 original size:44 final size:43 Alignment explanation
Indices: 38872205--38872338 Score: 112 Period size: 44 Copynumber: 3.0 Consensus size: 43 38872195 TTTAAAATAG 38872205 TTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA 1 TTATTATTA-ATATAATTTAATAATAATATATAATTTCATAAAA ** * * 38872249 TTATTGA-TAATA-AATTTTCTTATATGAATTTATACAATTT-AAAATAA 1 TTATT-ATTAATATAA-TTTAATA-AT-AA--TATATAATTTCATAA-AA * * 38872296 TTAATATTAAATATAATTTAATAATGATATATAATTTCATAAA 1 TTATTATT-AATATAATTTAATAATAATATATAATTTCATAAA 38872339 TTTCTTAATA Statistics Matches: 69, Mismatches: 10, Indels: 22 0.68 0.10 0.22 Matches are distributed among these distances: 42 2 0.03 43 8 0.12 44 19 0.28 45 6 0.09 46 5 0.07 47 18 0.26 48 9 0.13 49 2 0.03 ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46 Consensus pattern (43 bp): TTATTATTAATATAATTTAATAATAATATATAATTTCATAAAA Found at i:38875474 original size:33 final size:33 Alignment explanation
Indices: 38875435--38875510 Score: 134 Period size: 33 Copynumber: 2.3 Consensus size: 33 38875425 ATTATAAAGC * 38875435 ATGTATAATTGACCTAAAATTAATTGTTAGTGT 1 ATGTATAATTGACCTAAAATTAATTGTTAGTAT * 38875468 ATGTATAATTGACCTAAAATTAATTGTTGGTAT 1 ATGTATAATTGACCTAAAATTAATTGTTAGTAT 38875501 ATGTATAATT 1 ATGTATAATT 38875511 CAAGTTTTAA Statistics Matches: 41, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 33 41 1.00 ACGTcount: A:0.37, C:0.05, G:0.14, T:0.43 Consensus pattern (33 bp): ATGTATAATTGACCTAAAATTAATTGTTAGTAT Found at i:38875608 original size:37 final size:37 Alignment explanation
Indices: 38875553--38875639 Score: 147 Period size: 37 Copynumber: 2.4 Consensus size: 37 38875543 GTATAAATAT * * * 38875553 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAAC 1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC 38875590 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC 1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC 38875627 ATTGATTAGTTTA 1 ATTGATTAGTTTA 38875640 TTTATTTATG Statistics Matches: 47, Mismatches: 3, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 37 47 1.00 ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41 Consensus pattern (37 bp): ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC Found at i:38876916 original size:69 final size:69 Alignment explanation
Indices: 38876806--38876945 Score: 217 Period size: 69 Copynumber: 2.0 Consensus size: 69 38876796 AATCAAGTTC * 38876806 CAGTTTCATATTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAATTGCC 1 CAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAATTGCC 38876871 AGAA 66 AGAA * * * * * * 38876875 CAGTTTCATCTTCTACTCACTAACAAATTAATAACATTTTCCAGCAGACTATCAAAACAATTTCC 1 CAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAATTGCC 38876940 AGAA 66 AGAA 38876944 CA 1 CA 38876946 AATCAACAAA Statistics Matches: 64, Mismatches: 7, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 69 64 1.00 ACGTcount: A:0.41, C:0.24, G:0.08, T:0.26 Consensus pattern (69 bp): CAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAATTGCC AGAA Found at i:38878387 original size:36 final size:37 Alignment explanation
Indices: 38878303--38878410 Score: 148 Period size: 36 Copynumber: 2.9 Consensus size: 37 38878293 GGCAGAAACT 38878303 GAGCAAATCGGTC-GAAAAAGAAAAGAAAAGAAACGGGGG 1 GAGCAAATCGG-CAG-AAAAGAAAAGAAAAGAAAC-GGGG * * 38878342 GAGCAAATCGGCAGAAAAGAAAAGAAAATAAAC-TGG 1 GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACGGGG * 38878378 GAGCAAATCGGCAGAAAAGAAAAGCAAAGAAAC 1 GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAAC 38878411 AAGTAAGCAA Statistics Matches: 64, Mismatches: 4, Indels: 5 0.88 0.05 0.07 Matches are distributed among these distances: 36 33 0.52 38 19 0.30 39 12 0.19 ACGTcount: A:0.55, C:0.12, G:0.28, T:0.06 Consensus pattern (37 bp): GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACGGGG Found at i:38880511 original size:26 final size:26 Alignment explanation
Indices: 38880475--38880524 Score: 75 Period size: 26 Copynumber: 1.9 Consensus size: 26 38880465 GTAGTAGAGG * 38880475 TTTGCTTTAGA-GCTCTCGGATAATAA 1 TTTGCTTTAGATG-TCTCAGATAATAA 38880501 TTTGCTTTAGATGTCTCAGATAAT 1 TTTGCTTTAGATGTCTCAGATAAT 38880525 TTTGTCAAGA Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 26 21 0.95 27 1 0.05 ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42 Consensus pattern (26 bp): TTTGCTTTAGATGTCTCAGATAATAA Found at i:38881930 original size:43 final size:43 Alignment explanation
Indices: 38881883--38882024 Score: 164 Period size: 43 Copynumber: 3.3 Consensus size: 43 38881873 GAACGGTACT * * * 38881883 TTTAGCGGTGTTTGTGAAAAAGGCTTCGCTAAATGTCTTGTTC 1 TTTAGCGGCGTTTGTGAAAAAGGCTTCGCTAAAGGTCATGTTC * * * 38881926 TTTAGGGGCGTTTGTGAAAAAGG-TGCCGCTAAAGGTCATGTTT 1 TTTAGCGGCGTTTGTGAAAAAGGCT-TCGCTAAAGGTCATGTTC * 38881969 TTTAGCGGCGTTTGTGATAAAAGTGC-T-GCTAAAGGTCACGTTC 1 TTTAGCGGCGTTTGTGA-AAAAG-GCTTCGCTAAAGGTCATGTTC * 38882012 TTTAGTGGCGTTT 1 TTTAGCGGCGTTT 38882025 ATGTGAAAGA Statistics Matches: 84, Mismatches: 11, Indels: 8 0.82 0.11 0.08 Matches are distributed among these distances: 42 1 0.01 43 77 0.92 44 5 0.06 45 1 0.01 ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37 Consensus pattern (43 bp): TTTAGCGGCGTTTGTGAAAAAGGCTTCGCTAAAGGTCATGTTC Found at i:38884446 original size:15 final size:16 Alignment explanation
Indices: 38884414--38884447 Score: 52 Period size: 16 Copynumber: 2.2 Consensus size: 16 38884404 ATTTAATCTT * 38884414 ATTTGCATTTAGGTTA 1 ATTTGCATCTAGGTTA 38884430 ATTTGCATCTA-GTTA 1 ATTTGCATCTAGGTTA 38884445 ATT 1 ATT 38884448 AATTTAATTG Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 15 7 0.41 16 10 0.59 ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50 Consensus pattern (16 bp): ATTTGCATCTAGGTTA Found at i:38886280 original size:19 final size:19 Alignment explanation
Indices: 38886205--38886281 Score: 91 Period size: 19 Copynumber: 4.0 Consensus size: 19 38886195 ATATGTCAAG * 38886205 ATGCACTTTGTGTGCTAGAT 1 ATGCACTTTGTGTGCCAG-T ** * * 38886225 ATATACTTTCTGTGCCAAT 1 ATGCACTTTGTGTGCCAGT 38886244 ATGCACTTTGTGTGCCAGT 1 ATGCACTTTGTGTGCCAGT * 38886263 ATGCACTTTATGTGCCAGT 1 ATGCACTTTGTGTGCCAGT 38886282 TTACCCTACT Statistics Matches: 47, Mismatches: 10, Indels: 1 0.81 0.17 0.02 Matches are distributed among these distances: 19 34 0.72 20 13 0.28 ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39 Consensus pattern (19 bp): ATGCACTTTGTGTGCCAGT Found at i:38887238 original size:28 final size:28 Alignment explanation
Indices: 38887207--38887289 Score: 105 Period size: 28 Copynumber: 3.0 Consensus size: 28 38887197 TCCTATTCAA * * 38887207 TTTCAACATAATAAGTGTAGACACTTAT 1 TTTCAACATAATAAATGAAGACACTTAT * * 38887235 TTTCAACATAATAAAT-ACGGAAACTTAT 1 TTTCAACATAATAAATGA-AGACACTTAT * 38887263 TTCCAACATAATAAATGAAGACACTTA 1 TTTCAACATAATAAATGAAGACACTTA 38887290 ATCAATCACA Statistics Matches: 46, Mismatches: 7, Indels: 4 0.81 0.12 0.07 Matches are distributed among these distances: 28 45 0.98 29 1 0.02 ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31 Consensus pattern (28 bp): TTTCAACATAATAAATGAAGACACTTAT Found at i:38890568 original size:55 final size:54 Alignment explanation
Indices: 38890404--38890569 Score: 176 Period size: 55 Copynumber: 3.0 Consensus size: 54 38890394 CGGATATTCT * * * * 38890404 TATATATGTTAAACTATGACTTTGTAGAGGCTTGGGTCGGTTGTA-CAGAGATTTC 1 TATATATGTTAAATTATGACTTTGCAGAGGCTT-GGTAGGTTGTATGA-AGATTTC * * * * 38890459 TATATATGTTAAATTATGGCTTTACAGAGGCTCAGGTAGGCTGT-TCAGAA-ATTTC 1 TATATATGTTAAATTATGACTTTGCAGAGGCT-TGGTAGGTTGTAT--GAAGATTTC * 38890514 TATATATGTTAAATTATGACTTTGCAGAGGCTTGGTTGGGTTGTATGAAGATTTC 1 TATATATGTTAAATTATGACTTTGCAGAGGCTTGG-TAGGTTGTATGAAGATTTC 38890569 T 1 T 38890570 CAGTGTATTA Statistics Matches: 91, Mismatches: 13, Indels: 14 0.77 0.11 0.12 Matches are distributed among these distances: 54 5 0.05 55 83 0.91 56 2 0.02 57 1 0.01 ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39 Consensus pattern (54 bp): TATATATGTTAAATTATGACTTTGCAGAGGCTTGGTAGGTTGTATGAAGATTTC Found at i:38890569 original size:110 final size:109 Alignment explanation
Indices: 38890353--38890558 Score: 272 Period size: 110 Copynumber: 1.9 Consensus size: 109 38890343 TAAAAGCATC * * * * * * 38890353 ATATGTTAAATGTGGCTTTGCGGAGGTTCAGGTGGACTGTACGGATATTCTTATATATGTTAAAC 1 ATATGTTAAATATGGCTTTACAGAGGCTCAGGTGGACTGTACAGAAATTCTTATATATGTTAAAC * 38890418 TATGACTTTGTAGAGGCTTGGGTCGGTTGTACAGAGATTTCTAT 66 TATGACTTTGCAGAGGCTTGGGTCGGTTGTACAGAGATTTCTAT * 38890462 ATATGTTAAATTATGGCTTTACAGAGGCTCAGGTAGG-CTGTTCAGAAATT-TCTATATATGTTA 1 ATATGTTAAA-TATGGCTTTACAGAGGCTCAGGT-GGACTGTACAGAAATTCT-TATATATGTTA * * * 38890525 AATTATGACTTTGCAGAGGCTTGGTTGGGTTGTA 63 AACTATGACTTTGCAGAGGCTTGGGTCGGTTGTA 38890559 TGAAGATTTC Statistics Matches: 83, Mismatches: 11, Indels: 5 0.84 0.11 0.05 Matches are distributed among these distances: 109 11 0.13 110 70 0.84 111 2 0.02 ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38 Consensus pattern (109 bp): ATATGTTAAATATGGCTTTACAGAGGCTCAGGTGGACTGTACAGAAATTCTTATATATGTTAAAC TATGACTTTGCAGAGGCTTGGGTCGGTTGTACAGAGATTTCTAT Found at i:38896392 original size:25 final size:26 Alignment explanation
Indices: 38896336--38896394 Score: 68 Period size: 25 Copynumber: 2.3 Consensus size: 26 38896326 TAAACAACCT * 38896336 AAAAAAATTAAAAATAAATGGAACAA 1 AAAAAAATTAAAAATAAATGAAACAA * * 38896362 ATAAAAA-TAAAAATAAAT-AAATAA 1 AAAAAAATTAAAAATAAATGAAACAA * 38896386 ACAAAAATT 1 AAAAAAATT 38896395 TTACTATAAT Statistics Matches: 28, Mismatches: 4, Indels: 3 0.80 0.11 0.09 Matches are distributed among these distances: 24 10 0.36 25 12 0.43 26 6 0.21 ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19 Consensus pattern (26 bp): AAAAAAATTAAAAATAAATGAAACAA Found at i:38896496 original size:16 final size:16 Alignment explanation
Indices: 38896454--38896489 Score: 72 Period size: 16 Copynumber: 2.2 Consensus size: 16 38896444 TAAACCCTGA 38896454 AACCAGAAAAATAAAG 1 AACCAGAAAAATAAAG 38896470 AACCAGAAAAATAAAG 1 AACCAGAAAAATAAAG 38896486 AACC 1 AACC 38896490 TTCAAAACGT Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 20 1.00 ACGTcount: A:0.67, C:0.17, G:0.11, T:0.06 Consensus pattern (16 bp): AACCAGAAAAATAAAG Found at i:38899641 original size:28 final size:28 Alignment explanation
Indices: 38899601--38899689 Score: 124 Period size: 28 Copynumber: 3.2 Consensus size: 28 38899591 TAGTAGTAGT 38899601 ACAGTGTGGGCCTTAGCCCAATACAGTA 1 ACAGTGTGGGCCTTAGCCCAATACAGTA * * ** 38899629 ATAGTGTGAGCCTTAGCCCAATATTGTA 1 ACAGTGTGGGCCTTAGCCCAATACAGTA * * 38899657 ACAGTGTGGGCCTTAGCCCAATATAGAA 1 ACAGTGTGGGCCTTAGCCCAATACAGTA 38899685 ACAGT 1 ACAGT 38899690 CTAGTGCAAT Statistics Matches: 53, Mismatches: 8, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 28 53 1.00 ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25 Consensus pattern (28 bp): ACAGTGTGGGCCTTAGCCCAATACAGTA Found at i:38900096 original size:56 final size:56 Alignment explanation
Indices: 38900010--38900129 Score: 240 Period size: 56 Copynumber: 2.1 Consensus size: 56 38900000 ACAAGGGATG 38900010 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC 1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC 38900066 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC 1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC 38900122 ATGGGCAA 1 ATGGGCAA 38900130 TAAACTAATA Statistics Matches: 64, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 56 64 1.00 ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23 Consensus pattern (56 bp): ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC Found at i:38902806 original size:22 final size:22 Alignment explanation
Indices: 38902778--38902899 Score: 61 Period size: 22 Copynumber: 5.3 Consensus size: 22 38902768 TTCCACATCC 38902778 ATCACATTGGCCATTCGGCCTT 1 ATCACATTGGCCATTCGGCCTT ** * * * 38902800 ATCACATATATACACTTTC-TCATT 1 ATCACAT-T-GGC-CATTCGGCCTT 38902824 CATCACATTGGCCATTCGGCCTT 1 -ATCACATTGGCCATTCGGCCTT * * * * 38902847 ATCTCATATATG-CATGTTC-ACATT 1 ATCACAT-T-GGCCA--TTCGGCCTT 38902871 CATCACATTGGCCATTCGGCCTT 1 -ATCACATTGGCCATTCGGCCTT 38902894 ATCACA 1 ATCACA 38902900 CATACACATG Statistics Matches: 70, Mismatches: 18, Indels: 24 0.62 0.16 0.21 Matches are distributed among these distances: 22 26 0.37 23 12 0.17 24 12 0.17 25 20 0.29 ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34 Consensus pattern (22 bp): ATCACATTGGCCATTCGGCCTT Found at i:38902813 original size:47 final size:47 Alignment explanation
Indices: 38902750--38903095 Score: 464 Period size: 47 Copynumber: 7.3 Consensus size: 47 38902740 CCCTTCGGGA * * * 38902750 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC 1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC * 38902797 CTTATCACATATATACACT-TTCTCATTCATCACATTGGCCATTCGGC 1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC * * 38902844 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC 1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC * * 38902891 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC 1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC * * * 38902938 CTTATCACACATACACATGTTCACATTCATCATATTGGCCATTCGGC 1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC * * * 38902985 CTTATTACACATACACATGTTCACATTCATCACATTGGCCATTCGGC 1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC * * * 38903032 CTTATCACGCATATATATACT-TTCACATTCATCACATTCGCCACTCGGC 1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC * 38903081 CCTATCACATATATA 1 CTTATCACATATATA 38903096 TACTTGTACA Statistics Matches: 274, Mismatches: 21, Indels: 8 0.90 0.07 0.03 Matches are distributed among these distances: 46 1 0.00 47 233 0.85 49 39 0.14 50 1 0.00 ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33 Consensus pattern (47 bp): CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC Found at i:38906120 original size:40 final size:40 Alignment explanation
Indices: 38905889--38906113 Score: 278 Period size: 40 Copynumber: 5.7 Consensus size: 40 38905879 TCGAATGATG * * * * 38905889 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA * * * 38905929 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT 1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA * 38905969 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA * * * 38906008 TCCGGGTTAAGTCCCGAAGGAATTTGTGTGAGTTACTAAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA * 38906048 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA * 38906089 -CCGGGCTATGTCCCGAAGGCATTTG 1 TCCGGGCTAAGTCCCGAAGGCATTTG 38906114 AACGAGTAGC Statistics Matches: 161, Mismatches: 19, Indels: 10 0.85 0.10 0.05 Matches are distributed among these distances: 39 34 0.21 40 117 0.73 41 10 0.06 ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26 Consensus pattern (40 bp): TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA Found at i:38912625 original size:55 final size:55 Alignment explanation
Indices: 38912541--38912714 Score: 339 Period size: 55 Copynumber: 3.1 Consensus size: 55 38912531 ACAAGGGATG 38912541 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAATAAAATAAGAAGC 1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAATAAAATAAGAAGC 38912596 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAATAAAATAAGAAGC 1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAATAAAATAAGAAGC 38912651 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC 1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGG-AAAATAAAATAAGAAGC 38912707 ATGGGCAA 1 ATGGGCAA 38912715 TAAACTAATA Statistics Matches: 118, Mismatches: 0, Indels: 1 0.99 0.00 0.01 Matches are distributed among these distances: 55 93 0.79 56 25 0.21 ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23 Consensus pattern (55 bp): ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAATAAAATAAGAAGC Found at i:38914035 original size:78 final size:80 Alignment explanation
Indices: 38913894--38914117 Score: 269 Period size: 79 Copynumber: 2.8 Consensus size: 80 38913884 TCGAATGATG * * * * * * 38913894 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT 1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT * 38913957 TTGTGCGAGATACTAAT 64 TTGTGCGAGATACTAAA * * 38913974 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATTC-GGTTAAGTCCCGAAGGCATT 1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT * 38914036 TGTGCGAGTTACTAAA 65 TGTGCGAGATACTAAA * * * 38914052 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT 1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT 38914117 G 66 G 38914118 AACGAGTAGC Statistics Matches: 123, Mismatches: 15, Indels: 12 0.82 0.10 0.08 Matches are distributed among these distances: 77 1 0.01 78 41 0.33 79 42 0.34 80 39 0.32 ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26 Consensus pattern (80 bp): TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT GTGCGAGATACTAAA Found at i:38914124 original size:40 final size:40 Alignment explanation
Indices: 38913894--38914117 Score: 278 Period size: 40 Copynumber: 5.7 Consensus size: 40 38913884 TCGAATGATG * * * * 38913894 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA * * * 38913934 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT 1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA * 38913974 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA * * 38914013 TTC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA * 38914052 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA * 38914093 -CCGGGCTATGTCCCGAAGGCATTTG 1 TCCGGGCTAAGTCCCGAAGGCATTTG 38914118 AACGAGTAGC Statistics Matches: 161, Mismatches: 17, Indels: 12 0.85 0.09 0.06 Matches are distributed among these distances: 38 6 0.04 39 55 0.34 40 90 0.56 41 10 0.06 ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26 Consensus pattern (40 bp): TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA Found at i:38915652 original size:26 final size:26 Alignment explanation
Indices: 38915579--38915665 Score: 104 Period size: 26 Copynumber: 3.3 Consensus size: 26 38915569 CCAATATCGC * * * 38915579 AGCAAAGCTGTCAGTAATAGCATTGC 1 AGCAAAGCTGCCAGTAATAGTATTGT * 38915605 AGCAGAGCTGCCAGT-ATCAGTATTGT 1 AGCAAAGCTGCCAGTAAT-AGTATTGT 38915631 AGCAAAGCTGCCAGTAATAGTATATGT 1 AGCAAAGCTGCCAGTAATAGTAT-TGT * 38915658 GGCAAAGC 1 AGCAAAGC 38915666 CACCAGTAGG Statistics Matches: 52, Mismatches: 6, Indels: 5 0.83 0.10 0.08 Matches are distributed among these distances: 25 2 0.04 26 38 0.73 27 12 0.23 ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23 Consensus pattern (26 bp): AGCAAAGCTGCCAGTAATAGTATTGT Found at i:38915671 original size:27 final size:27 Alignment explanation
Indices: 38915615--38915673 Score: 68 Period size: 27 Copynumber: 2.2 Consensus size: 27 38915605 AGCAGAGCTG ** 38915615 CCAGT-ATCAGTATTGTAGCAAAGCTG 1 CCAGTAATCAGTATTGTAGCAAAGCCA * 38915641 CCAGTAAT-AGTATATGTGGCAAAGCCA 1 CCAGTAATCAGTAT-TGTAGCAAAGCCA 38915668 CCAGTA 1 CCAGTA 38915674 GGTCTACAGC Statistics Matches: 28, Mismatches: 3, Indels: 3 0.82 0.09 0.09 Matches are distributed among these distances: 26 10 0.36 27 18 0.64 ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24 Consensus pattern (27 bp): CCAGTAATCAGTATTGTAGCAAAGCCA Found at i:38915999 original size:81 final size:82 Alignment explanation
Indices: 38915885--38916255 Score: 332 Period size: 81 Copynumber: 4.6 Consensus size: 82 38915875 AGGGGTATAA * * 38915885 CAGTCATGTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCAGTCATGTTA 1 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTA 38915950 CCCTATG-A-GGGT-ATT 66 CCC-ATGTAGGGGTAATT ** ** * * * 38915965 TTGATCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCGGTTATTTT 1 CAG-TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTT 38916030 A-CCATGTAGGGGTAATT 65 ACCCATGTAGGGGTAATT * * ** * 38916047 CAGTTATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATAAAGGTAATTCAGTCATTTTA 1 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTA * * 38916112 -CCTTGTGGGGGTAATT 66 CCCATGTAGGGGTAATT * * * * * * * * * * 38916128 TAAT-AATTTCCCCTGTGAGGGTAATTCGGTCATTTTACCTTGT-GAGGGTAATTT-AGT-AATT 1 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAG-GGGT-ATTTCAGTCATTT * * 38916189 T-CCCTTGTGGGGGTAATT 64 TACCCATGTAGGGGTAATT * * * 38916207 C-GATCATTTTACCCTGTGGGGGTAATTCGGTCATTTTATCCTATGAGGG 1 CAG-TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-AGGG 38916256 TAATTCGATC Statistics Matches: 237, Mismatches: 43, Indels: 21 0.79 0.14 0.07 Matches are distributed among these distances: 79 24 0.10 80 76 0.32 81 132 0.56 82 5 0.02 ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40 Consensus pattern (82 bp): CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTA CCCATGTAGGGGTAATT Found at i:38916125 original size:54 final size:54 Alignment explanation
Indices: 38915885--38916269 Score: 348 Period size: 54 Copynumber: 7.2 Consensus size: 54 38915875 AGGGGTATAA * * * * 38915885 CAGTCATGTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTT 1 CAGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATT * * * * * * 38915939 CAGTCATGTTACCCTATGAGGGTATTTTGATCATTTTACCCTATGGGGGTATTT 1 CAGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATT * * * * * * 38915993 TAGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTACCATGTAGGGGTAATT 1 CAGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATT * *** 38916047 CAGTTATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATAAAGGTAATT 1 CAGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATT * * *** * * * * 38916101 CAGTCATTTTACCTTGTGGGGGTAATTTAAT-AATTTCCCCTGTGAGGGTAATT 1 CAGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATT * * * * ** * * 38916154 CGGTCATTTTACCTTGTGAGGGTAATTTAGT-AATTT-CCCTTGTGGGGGTAATT 1 CAGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCC-TATGGGGGTAATT * * * 38916207 C-GATCATTTTACCCTGTGGGGGTAATTCGGTCATTTTATCCTATGAGGGTAATT 1 CAG-TCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATT 38916261 C-GATCATTT 1 CAG-TCATTT 38916270 ATCGACCTCT Statistics Matches: 282, Mismatches: 45, Indels: 8 0.84 0.13 0.02 Matches are distributed among these distances: 52 4 0.01 53 87 0.31 54 189 0.67 55 2 0.01 ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40 Consensus pattern (54 bp): CAGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATT Found at i:38916166 original size:53 final size:53 Alignment explanation
Indices: 38916094--38916233 Score: 217 Period size: 53 Copynumber: 2.6 Consensus size: 53 38916084 ACCCTATAAA * 38916094 GGTAATTCAGTCATTTTACCTTGTGGGGGTAATTTAATAATTTCCCCTGTGAG 1 GGTAATTCGGTCATTTTACCTTGTGGGGGTAATTTAATAATTTCCCCTGTGAG * * * * 38916147 GGTAATTCGGTCATTTTACCTTGTGAGGGTAATTTAGTAATTTCCCTTGTGGG 1 GGTAATTCGGTCATTTTACCTTGTGGGGGTAATTTAATAATTTCCCCTGTGAG * * 38916200 GGTAATTCGATCATTTTACCCTGTGGGGGTAATT 1 GGTAATTCGGTCATTTTACCTTGTGGGGGTAATT 38916234 CGGTCATTTT Statistics Matches: 79, Mismatches: 8, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 53 79 1.00 ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40 Consensus pattern (53 bp): GGTAATTCGGTCATTTTACCTTGTGGGGGTAATTTAATAATTTCCCCTGTGAG Found at i:38916258 original size:27 final size:27 Alignment explanation
Indices: 38915887--38916269 Score: 301 Period size: 27 Copynumber: 14.3 Consensus size: 27 38915877 GGGTATAACA * * * 38915887 GTCATGTTACCCTATGGGGGTATTTCG 1 GTCATTTTACCCTATGAGGGTAATTCG * * 38915914 GTCATTTTACCCTAT-AGGGGTATTTCA 1 GTCATTTTACCCTATGA-GGGTAATTCG * * * 38915941 GTCATGTTACCCTATGAGGGTATTTTG 1 GTCATTTTACCCTATGAGGGTAATTCG * * * ** 38915968 ATCATTTTACCCTATGGGGGTATTTTA 1 GTCATTTTACCCTATGAGGGTAATTCG * * 38915995 GTCATTTTACCCTATGGGGGTATTTCG 1 GTCATTTTACCCTATGAGGGTAATTCG * * 38916022 GTTATTTTA-CC-ATGTAGGGGTAATTCA 1 GTCATTTTACCCTATG-A-GGGTAATTCG * * 38916049 GTTATTTTACCCTATGGGGGTAATTCG 1 GTCATTTTACCCTATGAGGGTAATTCG * * * 38916076 GTCATTTTACCCTATAAAGGTAATTCA 1 GTCATTTTACCCTATGAGGGTAATTCG * * * ** 38916103 GTCATTTTACCTTGTGGGGGTAATTTA 1 GTCATTTTACCCTATGAGGGTAATTCG * * * * 38916130 AT-AATTTCCCCTGTGAGGGTAATTCG 1 GTCATTTTACCCTATGAGGGTAATTCG * * ** 38916156 GTCATTTTACCTTGTGAGGGTAATTTA 1 GTCATTTTACCCTATGAGGGTAATTCG * * * 38916183 GT-AATTT-CCCTTGTGGGGGTAATTCG 1 GTCATTTTACCC-TATGAGGGTAATTCG * * * 38916209 ATCATTTTACCCTGTGGGGGTAATTCG 1 GTCATTTTACCCTATGAGGGTAATTCG * 38916236 GTCATTTTATCCTATGAGGGTAATTCG 1 GTCATTTTACCCTATGAGGGTAATTCG * 38916263 ATCATTT 1 GTCATTT 38916270 ATCGACCTCT Statistics Matches: 291, Mismatches: 55, Indels: 20 0.80 0.15 0.05 Matches are distributed among these distances: 25 5 0.02 26 38 0.13 27 239 0.82 28 6 0.02 29 3 0.01 ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40 Consensus pattern (27 bp): GTCATTTTACCCTATGAGGGTAATTCG Found at i:38916498 original size:19 final size:19 Alignment explanation
Indices: 38916463--38916500 Score: 51 Period size: 19 Copynumber: 2.0 Consensus size: 19 38916453 GTGTGGGGCC * 38916463 CACGAGCCCATTGAGCCCA 1 CACGAGCCCATTCAGCCCA 38916482 CACG-GCCCATTTCAGCCCA 1 CACGAGCCCA-TTCAGCCCA 38916501 ACGTGGCCCA 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:0.24, C:0.45, G:0.18, T:0.13 Consensus pattern (19 bp): CACGAGCCCATTCAGCCCA Found at i:38918488 original size:105 final size:100 Alignment explanation
Indices: 38918369--38918561 Score: 224 Period size: 105 Copynumber: 1.9 Consensus size: 100 38918359 TTTGTAGTGC * * * * * 38918369 CATAACCCAATTATGATCTTATCATCATAATGTCATATCCCAACTATGGTCTTACACATGTATAT 1 CATAACCCAATTATGATCTTATCATCAAAATGCCATAACCCAACTATGGTATT--ACAT-T-TAA * * 38918434 ATACTGCCATGGTCCAACCATGGTCTTACGTTCAAGGTCT 62 ACACTACCATGGTCCAA-CATGGTCTTACGTTCAAGGTCT * * * * * * 38918474 CATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAACCTAGCTATGGTATTACATTTAAACAC 1 CATAACCCAATTATGATCTTATCATCAAAATGCCATAACCCAACTATGGTATTACATTTAAACAC 38918539 TACCATGGTCCAACATGGTCTTA 66 TACCATGGTCCAACATGGTCTTA 38918562 TCCGCCAATT Statistics Matches: 75, Mismatches: 13, Indels: 5 0.81 0.14 0.05 Matches are distributed among these distances: 100 10 0.13 101 17 0.23 102 1 0.01 103 4 0.05 105 43 0.57 ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33 Consensus pattern (100 bp): CATAACCCAATTATGATCTTATCATCAAAATGCCATAACCCAACTATGGTATTACATTTAAACAC TACCATGGTCCAACATGGTCTTACGTTCAAGGTCT Found at i:38921215 original size:5 final size:5 Alignment explanation
Indices: 38921181--38921214 Score: 59 Period size: 5 Copynumber: 6.8 Consensus size: 5 38921171 CCCAGTCGTT * 38921181 CCTCC CCTCC CCTCC CCTCC CCTCC CCTCT CCTC 1 CCTCC CCTCC CCTCC CCTCC CCTCC CCTCC CCTC 38921215 TTTTCTCTTC Statistics Matches: 28, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 5 28 1.00 ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24 Consensus pattern (5 bp): CCTCC Found at i:38925747 original size:18 final size:17 Alignment explanation
Indices: 38925718--38925781 Score: 56 Period size: 18 Copynumber: 3.5 Consensus size: 17 38925708 AAGAAAACTT 38925718 TTTGAAATTGAATAACGA 1 TTTGAAA-TGAATAACGA * * 38925736 TTTGTAAATGAATAATGT 1 TTTG-AAATGAATAACGA * 38925754 TTTGGAAACGAATGACACGA 1 TTT-GAAATGAAT-A-ACGA 38925774 TTTGAAAT 1 TTTGAAAT 38925782 TAACATAAGA Statistics Matches: 36, Mismatches: 6, Indels: 7 0.73 0.12 0.14 Matches are distributed among these distances: 18 22 0.61 19 9 0.25 20 5 0.14 ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34 Consensus pattern (17 bp): TTTGAAATGAATAACGA Found at i:38932712 original size:16 final size:16 Alignment explanation
Indices: 38932663--38932715 Score: 88 Period size: 16 Copynumber: 3.2 Consensus size: 16 38932653 TTTGGTTCGC 38932663 TGTATTGGATTAGAGG 1 TGTATTGGATTAGAGG * 38932679 CGTATTGGGATTAGAGG 1 TGTATT-GGATTAGAGG 38932696 TGTATTGGATTAGAGG 1 TGTATTGGATTAGAGG 38932712 TGTA 1 TGTA 38932716 ATAGCTAATC Statistics Matches: 34, Mismatches: 2, Indels: 2 0.89 0.05 0.05 Matches are distributed among these distances: 16 19 0.56 17 15 0.44 ACGTcount: A:0.25, C:0.02, G:0.38, T:0.36 Consensus pattern (16 bp): TGTATTGGATTAGAGG Found at i:38932969 original size:16 final size:16 Alignment explanation
Indices: 38932932--38932973 Score: 52 Period size: 15 Copynumber: 2.7 Consensus size: 16 38932922 TTAATCATAT * 38932932 TTAAACATA-ATTATTA 1 TTAAA-ATATATTATAA 38932948 TT-AAATATATTATAA 1 TTAAAATATATTATAA 38932963 TTAAAATATAT 1 TTAAAATATAT 38932974 AATTTAATAA Statistics Matches: 23, Mismatches: 1, Indels: 4 0.82 0.04 0.14 Matches are distributed among these distances: 14 3 0.13 15 10 0.43 16 10 0.43 ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45 Consensus pattern (16 bp): TTAAAATATATTATAA Found at i:38932980 original size:14 final size:15 Alignment explanation
Indices: 38932941--38932982 Score: 52 Period size: 15 Copynumber: 2.9 Consensus size: 15 38932931 TTTAAACATA * 38932941 ATTATTATTAAATAT 1 ATTATAATTAAATAT 38932956 ATTATAATTAAA-AT 1 ATTATAATTAAATAT * 38932970 A-TATAATTTAATA 1 ATTATAATTAAATA 38932983 AAATTCTTTA Statistics Matches: 24, Mismatches: 2, Indels: 3 0.83 0.07 0.10 Matches are distributed among these distances: 13 9 0.38 14 4 0.17 15 11 0.46 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (15 bp): ATTATAATTAAATAT Found at i:38933091 original size:16 final size:16 Alignment explanation
Indices: 38933047--38933093 Score: 53 Period size: 16 Copynumber: 3.0 Consensus size: 16 38933037 TACTATAAAA * 38933047 TATAATTTAACATA-AT 1 TATAA-TTAAAATATAT * 38933063 TATTATT-AAATATAT 1 TATAATTAAAATATAT 38933078 TATAATTAAAATATAT 1 TATAATTAAAATATAT 38933094 AATTTAATAA Statistics Matches: 26, Mismatches: 3, Indels: 4 0.79 0.09 0.12 Matches are distributed among these distances: 14 4 0.15 15 10 0.38 16 12 0.46 ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47 Consensus pattern (16 bp): TATAATTAAAATATAT Found at i:38933154 original size:119 final size:120 Alignment explanation
Indices: 38932930--38933186 Score: 462 Period size: 119 Copynumber: 2.1 Consensus size: 120 38932920 ATTTAATCAT * 38932930 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTTATA 1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA * 38932995 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA 65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA 38933051 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAAT-AAATTCTTAATAA 1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA * * 38933115 TTAATATTCTTATATGAATTTACTCAAATTATAATATATGATACTATAAAAGATA 66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA 38933170 ATTTAACATAATTATTA 1 ATTTAACATAATTATTA 38933187 GACAACTGCC Statistics Matches: 132, Mismatches: 4, Indels: 2 0.96 0.03 0.01 Matches are distributed among these distances: 119 81 0.61 120 47 0.36 121 4 0.03 ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44 Consensus pattern (120 bp): ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA Found at i:38938314 original size:21 final size:21 Alignment explanation
Indices: 38938290--38938329 Score: 64 Period size: 21 Copynumber: 1.9 Consensus size: 21 38938280 CGACATGGCC 38938290 GTGT-ATTTCAGCCACACGAGT 1 GTGTGATTT-AGCCACACGAGT 38938311 GTGTGATTTAGCCACACGA 1 GTGTGATTTAGCCACACGA 38938330 CCGTGTCTAC Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 21 14 0.78 22 4 0.22 ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28 Consensus pattern (21 bp): GTGTGATTTAGCCACACGAGT Found at i:38938335 original size:21 final size:21 Alignment explanation
Indices: 38938288--38938335 Score: 62 Period size: 21 Copynumber: 2.3 Consensus size: 21 38938278 AACGACATGG 38938288 CCGTGTATTTCAGCCACACGA 1 CCGTGTATTTCAGCCACACGA ** 38938309 GTGTGTGATTT-AGCCACACGA 1 CCGTGT-ATTTCAGCCACACGA 38938330 CCGTGT 1 CCGTGT 38938336 CTACTCTGCT Statistics Matches: 22, Mismatches: 4, Indels: 2 0.79 0.14 0.07 Matches are distributed among these distances: 21 18 0.82 22 4 0.18 ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27 Consensus pattern (21 bp): CCGTGTATTTCAGCCACACGA Found at i:38938465 original size:21 final size:21 Alignment explanation
Indices: 38938441--38938493 Score: 63 Period size: 21 Copynumber: 2.5 Consensus size: 21 38938431 GTCTCAGTCG 38938441 CACGGCCGTGTGCT-TCACTTA 1 CACGGCCGTGTG-TATCACTTA * * 38938462 CACGGGCGTGTGTATCATTTA 1 CACGGCCGTGTGTATCACTTA * 38938483 CACGGTCGTGT 1 CACGGCCGTGT 38938494 ACCTTTGTCA Statistics Matches: 28, Mismatches: 3, Indels: 2 0.85 0.09 0.06 Matches are distributed among these distances: 20 1 0.04 21 27 0.96 ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30 Consensus pattern (21 bp): CACGGCCGTGTGTATCACTTA Found at i:38941308 original size:30 final size:30 Alignment explanation
Indices: 38941274--38941422 Score: 203 Period size: 30 Copynumber: 5.0 Consensus size: 30 38941264 CTGAATTAAA * 38941274 GCATGCATGTATTTAGGGAGTTGAATGGGG 1 GCATGCATGTATTTAGGGAGCTGAATGGGG * 38941304 GCATGCATGTATTTAGGGAGTTGAATGGGG 1 GCATGCATGTATTTAGGGAGCTGAATGGGG * 38941334 GCATGCATGTATTTAGGGAGCTGAAT-GGA 1 GCATGCATGTATTTAGGGAGCTGAATGGGG * * * 38941363 GCATGCATGAATTTAGGGAGCTAAAT-GGA 1 GCATGCATGTATTTAGGGAGCTGAATGGGG * * 38941392 GCATGCATGTAATTGAAGGAGCTGAATGGGG 1 GCATGCATGT-ATTTAGGGAGCTGAATGGGG 38941423 ATGCTAGATT Statistics Matches: 108, Mismatches: 9, Indels: 3 0.90 0.08 0.03 Matches are distributed among these distances: 29 38 0.35 30 68 0.63 31 2 0.02 ACGTcount: A:0.28, C:0.09, G:0.37, T:0.27 Consensus pattern (30 bp): GCATGCATGTATTTAGGGAGCTGAATGGGG Found at i:38941376 original size:29 final size:29 Alignment explanation
Indices: 38941250--38941420 Score: 198 Period size: 30 Copynumber: 5.8 Consensus size: 29 38941240 GGTTCGGCCA * * ** 38941250 ATGTGTTTATGGAGCTGAATTAAAGCATGC 1 ATGTATTTAGGGAGCTGAA-TGGAGCATGC * * 38941280 ATGTATTTAGGGAGTTGAATGGGGGCATGC 1 ATGTATTTAGGGAGCTGAAT-GGAGCATGC * * 38941310 ATGTATTTAGGGAGTTGAATGGGGGCATGC 1 ATGTATTTAGGGAGCTGAAT-GGAGCATGC 38941340 ATGTATTTAGGGAGCTGAATGGAGCATGC 1 ATGTATTTAGGGAGCTGAATGGAGCATGC * * 38941369 ATGAATTTAGGGAGCTAAATGGAGCATGC 1 ATGTATTTAGGGAGCTGAATGGAGCATGC * * 38941398 ATGTAATTGAAGGAGCTGAATGG 1 ATGT-ATTTAGGGAGCTGAATGG 38941421 GGATGCTAGA Statistics Matches: 125, Mismatches: 14, Indels: 4 0.87 0.10 0.03 Matches are distributed among these distances: 29 39 0.31 30 86 0.69 ACGTcount: A:0.29, C:0.08, G:0.35, T:0.29 Consensus pattern (29 bp): ATGTATTTAGGGAGCTGAATGGAGCATGC Found at i:38941413 original size:59 final size:59 Alignment explanation
Indices: 38941273--38941420 Score: 199 Period size: 59 Copynumber: 2.5 Consensus size: 59 38941263 GCTGAATTAA * * * * * 38941273 AGCATGCATGTATTTAGGGAGTTGAATGGGGGCATGCATGTATTTAGGGAGTTGAATGGG 1 AGCATGCATGTATTTAGGGAGCTGAAT-GGAGCATGCATGAATTTAGGGAGCTAAATGGG * 38941333 GGCATGCATGTATTTAGGGAGCTGAATGGAGCATGCATGAATTTAGGGAGCTAAAT-GG 1 AGCATGCATGTATTTAGGGAGCTGAATGGAGCATGCATGAATTTAGGGAGCTAAATGGG * * 38941391 AGCATGCATGTAATTGAAGGAGCTGAATGG 1 AGCATGCATGT-ATTTAGGGAGCTGAATGG 38941421 GGATGCTAGA Statistics Matches: 78, Mismatches: 9, Indels: 3 0.87 0.10 0.03 Matches are distributed among these distances: 58 12 0.15 59 41 0.53 60 25 0.32 ACGTcount: A:0.28, C:0.09, G:0.36, T:0.27 Consensus pattern (59 bp): AGCATGCATGTATTTAGGGAGCTGAATGGAGCATGCATGAATTTAGGGAGCTAAATGGG Found at i:38943664 original size:21 final size:21 Alignment explanation
Indices: 38943637--38943683 Score: 78 Period size: 21 Copynumber: 2.2 Consensus size: 21 38943627 GCTACATGGG 38943637 TGTGTGATTTAGCCACACAGGC 1 TGTGTGATTTAGCCACAC-GGC 38943659 -GTGTGATTTAGCCACACGGC 1 TGTGTGATTTAGCCACACGGC 38943679 TGTGT 1 TGTGT 38943684 CTACTTTGCT Statistics Matches: 24, Mismatches: 0, Indels: 3 0.89 0.00 0.11 Matches are distributed among these distances: 20 3 0.12 21 21 0.88 ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30 Consensus pattern (21 bp): TGTGTGATTTAGCCACACGGC Found at i:38958251 original size:44 final size:44 Alignment explanation
Indices: 38958188--38958329 Score: 212 Period size: 44 Copynumber: 3.2 Consensus size: 44 38958178 ATACCACACT * 38958188 AGTAGGCACCGAAGTGCTGATTAGTAGGCACCATAGTGCAAATC 1 AGTAGGCACCGAAGTGCTGATTAGTAGGCACTATAGTGCAAATC * * * 38958232 AGTAGGTACCGAAGTGCTGAGTAGTAGGCACTATAGTGCAAATT 1 AGTAGGCACCGAAGTGCTGATTAGTAGGCACTATAGTGCAAATC * * * * 38958276 AGTACGCACTGTAGTGCTAATTAGTAGGCACTATAGTGCAAATC 1 AGTAGGCACCGAAGTGCTGATTAGTAGGCACTATAGTGCAAATC 38958320 AGTAGGCACC 1 AGTAGGCACC 38958330 ATAATGCTAA Statistics Matches: 85, Mismatches: 13, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 44 85 1.00 ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23 Consensus pattern (44 bp): AGTAGGCACCGAAGTGCTGATTAGTAGGCACTATAGTGCAAATC Found at i:38958341 original size:22 final size:22 Alignment explanation
Indices: 38958188--38958341 Score: 125 Period size: 22 Copynumber: 7.0 Consensus size: 22 38958178 ATACCACACT * * 38958188 AGTAGGCACCGA-AGTGCTGATT 1 AGTAGGCACC-ATAGTGCTAATC * 38958210 AGTAGGCACCATAGTGCAAATC 1 AGTAGGCACCATAGTGCTAATC * * 38958232 AGTAGGTACCGA-AGTGCTGAGT- 1 AGTAGGCACC-ATAGTGCT-AATC * * * 38958254 AGTAGGCACTATAGTGCAAATT 1 AGTAGGCACCATAGTGCTAATC * ** * 38958276 AGTACGCACTGTAGTGCTAATT 1 AGTAGGCACCATAGTGCTAATC * * 38958298 AGTAGGCACTATAGTGCAAATC 1 AGTAGGCACCATAGTGCTAATC * 38958320 AGTAGGCACCATAATGCTAATC 1 AGTAGGCACCATAGTGCTAATC 38958342 CTATACAATT Statistics Matches: 107, Mismatches: 20, Indels: 10 0.78 0.15 0.07 Matches are distributed among these distances: 21 4 0.04 22 100 0.93 23 3 0.03 ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24 Consensus pattern (22 bp): AGTAGGCACCATAGTGCTAATC Found at i:38969742 original size:19 final size:20 Alignment explanation
Indices: 38969715--38969758 Score: 56 Period size: 19 Copynumber: 2.3 Consensus size: 20 38969705 GTTGGTAAAT * 38969715 ACATGTGTA-ATAATAATAA 1 ACATATGTATATAATAATAA * 38969734 ACATATGTATTTAATAATAA 1 ACATATGTATATAATAATAA 38969754 A-ATAT 1 ACATAT 38969759 ATATTGCTTA Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 19 12 0.55 20 10 0.45 ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36 Consensus pattern (20 bp): ACATATGTATATAATAATAA Found at i:38969750 original size:20 final size:19 Alignment explanation
Indices: 38969725--38969763 Score: 60 Period size: 20 Copynumber: 2.0 Consensus size: 19 38969715 ACATGTGTAA * 38969725 TAATAATAAACATATGTATT 1 TAATAATAAA-ATATATATT 38969745 TAATAATAAAATATATATT 1 TAATAATAAAATATATATT 38969764 GCTTATTAAT Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 19 8 0.44 20 10 0.56 ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41 Consensus pattern (19 bp): TAATAATAAAATATATATT Found at i:38969797 original size:24 final size:26 Alignment explanation
Indices: 38969753--38969800 Score: 73 Period size: 26 Copynumber: 1.9 Consensus size: 26 38969743 TTTAATAATA * 38969753 AAATATATATTGCTTATTAATTAAGT 1 AAATATATATTGATTATTAATTAAGT 38969779 AAATATATATT-ATTA-TAATTAA 1 AAATATATATTGATTATTAATTAA 38969801 AACAAAACAA Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 24 7 0.33 25 3 0.14 26 11 0.52 ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46 Consensus pattern (26 bp): AAATATATATTGATTATTAATTAAGT Found at i:38970892 original size:40 final size:40 Alignment explanation
Indices: 38970771--38970910 Score: 144 Period size: 40 Copynumber: 3.5 Consensus size: 40 38970761 AAGTTTGAGT * * 38970771 CGATGAGACACTGGGTGTCAATTTATTACTTT-AGATTAATT 1 CGATGAGACACTGGGTGTCAAATTATTACTTTGA-ATT-ATC * * * ** * 38970812 CGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGC 1 CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC 38970849 CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC 1 CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC * * 38970889 CGATGAGGCACTGGGTGCCAAA 1 CGATGAGACACTGGGTGTCAAA 38970911 CTGGTGTGTT Statistics Matches: 79, Mismatches: 16, Indels: 9 0.76 0.15 0.09 Matches are distributed among these distances: 37 17 0.22 38 11 0.14 39 2 0.03 40 33 0.42 41 16 0.20 ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31 Consensus pattern (40 bp): CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC Found at i:38976900 original size:40 final size:37 Alignment explanation
Indices: 38976818--38976906 Score: 117 Period size: 40 Copynumber: 2.3 Consensus size: 37 38976808 CAATTCAATA * 38976818 ACAGT-TCAGTTCAGTTGGGCCTTAGCCCATTACAGT 1 ACAGTATCAGTTCAGTTAGGCCTTAGCCCATTACAGT 38976854 ATCAGTATCAGTATCAGTGTAGGCCTTAGCCCATTACAGT 1 A-CAGTATCAGT-TCAGT-TAGGCCTTAGCCCATTACAGT * 38976894 GACAGTAACAGTT 1 -ACAGTATCAGTT 38976907 TAGACATGCA Statistics Matches: 46, Mismatches: 2, Indels: 7 0.84 0.04 0.13 Matches are distributed among these distances: 36 1 0.02 37 4 0.09 38 5 0.11 39 6 0.13 40 29 0.63 41 1 0.02 ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29 Consensus pattern (37 bp): ACAGTATCAGTTCAGTTAGGCCTTAGCCCATTACAGT Found at i:38977192 original size:25 final size:27 Alignment explanation
Indices: 38977164--38977216 Score: 74 Period size: 27 Copynumber: 2.0 Consensus size: 27 38977154 ACAGTCATAC 38977164 ATAACATAAAG-CAT-ACAGTCATTTT 1 ATAACATAAAGCCATAACAGTCATTTT ** 38977189 ATAACATAGGGCCATAACAGTCATTTT 1 ATAACATAAAGCCATAACAGTCATTTT 38977216 A 1 A 38977217 CCACGTGGGG Statistics Matches: 24, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 25 9 0.38 26 3 0.12 27 12 0.50 ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30 Consensus pattern (27 bp): ATAACATAAAGCCATAACAGTCATTTT Found at i:38977212 original size:27 final size:27 Alignment explanation
Indices: 38977178--38977245 Score: 82 Period size: 27 Copynumber: 2.5 Consensus size: 27 38977168 CATAAAGCAT 38977178 ACAGTCATTTTATAACATAGGGCCATA 1 ACAGTCATTTTATAACATAGGGCCATA ** * * * 38977205 ACAGTCATTTTACCACGTGGGGGCATA 1 ACAGTCATTTTATAACATAGGGCCATA * 38977232 ACAATCATTTTATA 1 ACAGTCATTTTATA 38977246 TCAGTTTGAG Statistics Matches: 33, Mismatches: 8, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 27 33 1.00 ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31 Consensus pattern (27 bp): ACAGTCATTTTATAACATAGGGCCATA Found at i:38988021 original size:156 final size:156 Alignment explanation
Indices: 38987700--38988014 Score: 504 Period size: 156 Copynumber: 2.0 Consensus size: 156 38987690 TCAATCTTTC * * ** * * * 38987700 TAGGATAAATTCAAATTGCCTCAACAGAAACCACGTGCCCTAGAAAAGTCACCTCTCGCAACCAG 1 TAGGATAAACTAAAATCACCTCAACAGAAACCACGTACCCCAGAAAAGTCACCTCTCACAACCAG * 38987765 AACTCACACTTGCTCAACTTAGCGTAGAGTTGTTTCTCTCGAAATATCTGAAGCACTACTCTAAT 66 AACTCACACTTGCTCAACTTAGCGTAGAGTTGTTTCTCTCGAAATATCTGAAGCACTACTCTAAG * 38987830 ATGTTCATCATGCTCATCCTCGGTCT 131 ATATTCATCATGCTCATCCTCGGTCT * * * 38987856 TAGGATAAACTAAAATCACCTCAGCAGAAACTACGTACCCCAGAAAAGTCACCTCTCACAACTAG 1 TAGGATAAACTAAAATCACCTCAACAGAAACCACGTACCCCAGAAAAGTCACCTCTCACAACCAG * 38987921 AACTCACACTTGCTCAACTTAGCGTAGAGTTGTTTCTCTCGAAGTATCTGAAGCACTACTCTAAG 66 AACTCACACTTGCTCAACTTAGCGTAGAGTTGTTTCTCTCGAAATATCTGAAGCACTACTCTAAG * 38987986 ATATTCATCATGTTCATCCTCGGTCT 131 ATATTCATCATGCTCATCCTCGGTCT 38988012 TAG 1 TAG 38988015 AGTAAACCAA Statistics Matches: 145, Mismatches: 14, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 156 145 1.00 ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27 Consensus pattern (156 bp): TAGGATAAACTAAAATCACCTCAACAGAAACCACGTACCCCAGAAAAGTCACCTCTCACAACCAG AACTCACACTTGCTCAACTTAGCGTAGAGTTGTTTCTCTCGAAATATCTGAAGCACTACTCTAAG ATATTCATCATGCTCATCCTCGGTCT Found at i:38992704 original size:16 final size:16 Alignment explanation
Indices: 38992683--38992738 Score: 85 Period size: 16 Copynumber: 3.5 Consensus size: 16 38992673 CAGGGCATTA * 38992683 CATTACAACTCTATTC 1 CATTACAGCTCTATTC * 38992699 CATTACAGCTCTATTG 1 CATTACAGCTCTATTC * 38992715 AATTACAGCTCTATTC 1 CATTACAGCTCTATTC 38992731 CATTACAG 1 CATTACAG 38992739 TAAACCAAAC Statistics Matches: 35, Mismatches: 5, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 16 35 1.00 ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36 Consensus pattern (16 bp): CATTACAGCTCTATTC Found at i:39000398 original size:36 final size:36 Alignment explanation
Indices: 39000357--39000434 Score: 86 Period size: 36 Copynumber: 2.1 Consensus size: 36 39000347 ATATGTTTAT * * 39000357 TTTTTTATTAGTCCAAAAGATGACAATTATGTGCTT-A 1 TTTTTTATTACTCCAAAA-ATGACAATTATGCG-TTAA * * * 39000394 TTTTTTATTACTCCTAAAATTATAATTATGCGTTAA 1 TTTTTTATTACTCCAAAAATGACAATTATGCGTTAA 39000430 TTTTT 1 TTTTT 39000435 ATTTAATAGA Statistics Matches: 35, Mismatches: 5, Indels: 3 0.81 0.12 0.07 Matches are distributed among these distances: 35 2 0.06 36 17 0.49 37 16 0.46 ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50 Consensus pattern (36 bp): TTTTTTATTACTCCAAAAATGACAATTATGCGTTAA Found at i:39003180 original size:44 final size:44 Alignment explanation
Indices: 39003112--39003202 Score: 130 Period size: 44 Copynumber: 2.1 Consensus size: 44 39003102 GTAGGTCAAA * * 39003112 TAATATTGAAATAACCTACACTAATAAGAGTTTAAGTG-GAAAAC 1 TAATATTAAAAAAACCTACACTAATAAGAGTTTAAGTGAG-AAAC * * 39003156 TAATATTAAAAAAACCTACGCTAATCAGAGTTTAAGTGAGAAAC 1 TAATATTAAAAAAACCTACACTAATAAGAGTTTAAGTGAGAAAC 39003200 TAA 1 TAA 39003203 AAACATAGTT Statistics Matches: 42, Mismatches: 4, Indels: 2 0.88 0.08 0.04 Matches are distributed among these distances: 44 41 0.98 45 1 0.02 ACGTcount: A:0.48, C:0.12, G:0.13, T:0.26 Consensus pattern (44 bp): TAATATTAAAAAAACCTACACTAATAAGAGTTTAAGTGAGAAAC Found at i:39015706 original size:18 final size:19 Alignment explanation
Indices: 39015685--39015720 Score: 56 Period size: 19 Copynumber: 1.9 Consensus size: 19 39015675 ACATGTGTAA 39015685 TAATAA-ACAACATGTATT 1 TAATAATACAACATGTATT * 39015703 TAATAATACAATATGTAT 1 TAATAATACAACATGTAT 39015721 GGCTTATTAA Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 18 6 0.38 19 10 0.62 ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36 Consensus pattern (19 bp): TAATAATACAACATGTATT Found at i:39016918 original size:23 final size:23 Alignment explanation
Indices: 39016892--39016946 Score: 69 Period size: 21 Copynumber: 2.5 Consensus size: 23 39016882 AGACACTTTA * 39016892 TGTGTCGTATTTTAGGCACCTCG 1 TGTGTCGTATTTCAGGCACCTCG * * 39016915 TGTGTTGTA--TCAGGCACTTCG 1 TGTGTCGTATTTCAGGCACCTCG 39016936 TGTGTCGTATT 1 TGTGTCGTATT 39016947 AGGCAGTTAT Statistics Matches: 26, Mismatches: 4, Indels: 4 0.76 0.12 0.12 Matches are distributed among these distances: 21 18 0.69 23 8 0.31 ACGTcount: A:0.13, C:0.18, G:0.27, T:0.42 Consensus pattern (23 bp): TGTGTCGTATTTCAGGCACCTCG Found at i:39016929 original size:21 final size:21 Alignment explanation
Indices: 39016905--39016951 Score: 67 Period size: 21 Copynumber: 2.2 Consensus size: 21 39016895 GTCGTATTTT * 39016905 AGGCACCTCGTGTGTTGTATC 1 AGGCACCTCGTGTGTCGTATC * * 39016926 AGGCACTTCGTGTGTCGTATT 1 AGGCACCTCGTGTGTCGTATC 39016947 AGGCA 1 AGGCA 39016952 GTTATGTGTC Statistics Matches: 23, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 21 23 1.00 ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32 Consensus pattern (21 bp): AGGCACCTCGTGTGTCGTATC Found at i:39028891 original size:26 final size:26 Alignment explanation
Indices: 39028840--39028901 Score: 97 Period size: 26 Copynumber: 2.4 Consensus size: 26 39028830 TACCTATAGT * 39028840 AGTTTCAAAATATCATAACATATATC 1 AGTTTCAGAATATCATAACATATATC * * 39028866 AGTTTCAGAATATCATAGCATGTATC 1 AGTTTCAGAATATCATAACATATATC 39028892 AGTTTCAGAA 1 AGTTTCAGAA 39028902 CACTTACAAG Statistics Matches: 33, Mismatches: 3, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 26 33 1.00 ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34 Consensus pattern (26 bp): AGTTTCAGAATATCATAACATATATC Found at i:39035733 original size:27 final size:27 Alignment explanation
Indices: 39035660--39035719 Score: 93 Period size: 27 Copynumber: 2.2 Consensus size: 27 39035650 GCATCATAGT ** * 39035660 TAGTCTGACAGGACATTAAACACGAGA 1 TAGTCTGATGGGACAATAAACACGAGA 39035687 TAGTCTGATGGGACAATAAACACGAGA 1 TAGTCTGATGGGACAATAAACACGAGA 39035714 TAGTCT 1 TAGTCT 39035720 ATAGGGGCAC Statistics Matches: 30, Mismatches: 3, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 27 30 1.00 ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22 Consensus pattern (27 bp): TAGTCTGATGGGACAATAAACACGAGA Found at i:39037448 original size:536 final size:533 Alignment explanation
Indices: 39036146--39037727 Score: 2661 Period size: 536 Copynumber: 3.0 Consensus size: 533 39036136 CATCTTGAAG * * 39036146 TATTCATGAACAATAACACACTAGTAGGTGCCTGGTGTATAGGCAAACAAAAGAAGGTTTATCCG 1 TATTCATGAACAATAACACACTAGTAGGTGCCTGGTGTATAGGTAAAAAAAAGAAGGTTTATCCG * * * 39036211 AGGATCACAGATAAAGATCTACCAATAATAACCTCCAAAGGGTGCTCAGTGAAAACCTACATGTT 66 AGGATCACAGATAAAGATCCACCAATAAAAACCACCAAAGGGTGCTCAGTGAAAACCTACATGTT 39036276 AGAGATTGAGCATAAATACGACAGTTAGTCCATTGAGTAAAGAGGGTTTAGCTAGAAGCCATAGT 131 AGAGATTGAGCATAAATACGACAGTTAGTCCATTGAGTAAAGAGGGTTTAGCTAGAAGCCATAGT * * 39036341 CAGAGTGAGTCACACAGAGGGATATATCGAGTGACAAATATGTCTGTTAATACTATTCCTCTTTA 196 CAGAGAGAGTCACACAGAGGGATATATCGAGTGACAAATATGTCTGTTAAGACTATTCCTCTTTA * * * * 39036406 AGGGGAATATGTTGCT-AAGTACTCACCAAATGGGTAGTTCCATGGGAACCAACATGTAAGAGGA 261 AGGGGATTATGTTG-TGAAGTACTCGCCAAATGGGTAGTTCCATGGTAACCAACATGTAAGCGGA * 39036470 ATCGTGAACTTAGATGACAATTATTTGAGTACAATAGGCCAAGATAATCCATAGTTGATGGGCAT 325 ATCGTGAACTTAGATGACAATTATTTGAGTACAATAGGCCAAGATAGTCCATAGTTGATGGGCAT ** * * 39036535 GTTATGTAT-A-AG-AGGTAACACATGTGAATTGGGTTACAAAGATGTAATCCCATCACTATGAA 390 GTTATGTATAAGAGTAGGTAACGTAGGTGAATTGGGTTACAAAGATGTAATCCCATCACTATTAA * * * 39036597 ACCCAATTGCTATTTAGCTTGCCATAGTGGTATGGGATCTCATCAATTATTCCAATAAATGGTGT 455 ACCCAATTGCTATTTAGCTTGCCAGAGTGGTGTGGGATCTCATCAGTTATTCCAATAAATGGTGT 39036662 GGGATCTCATCAAT 520 GGGATCTCATCAAT * 39036676 TATTCATGAACAATAACACGCTAGTAGGTGCCTGGTGTATAGGT-AAAAAAAGAAGGTTTATCCG 1 TATTCATGAACAATAACACACTAGTAGGTGCCTGGTGTATAGGTAAAAAAAAGAAGGTTTATCCG * * 39036740 AGGATCACAGATAAAGATCCACCAATAAGAACCACCAAAAGGTGCTCAGTGAAAACCTACATGTT 66 AGGATCACAGATAAAGATCCACCAATAAAAACCACCAAAGGGTGCTCAGTGAAAACCTACATGTT ** * * 39036805 AGAGATTGAGCATAAATACGACAACTAGTCCATTGAATAAAGAGGTTTTAGCTAGAAGCCATAGT 131 AGAGATTGAGCATAAATACGACAGTTAGTCCATTGAGTAAAGAGGGTTTAGCTAGAAGCCATAGT ** * 39036870 TGGAGAGAGTCACACAGAGGGATATATCGAGTGACAAATATGTCTGTTAAGACTATTCCTCTTAA 196 CAGAGAGAGTCACACAGAGGGATATATCGAGTGACAAATATGTCTGTTAAGACTATTCCTCTTTA 39036935 AGGGGATTATGTTGTGAAGTACTCGCCAAATGGGTAGTTCCATGGTAACCAACATGTAAGCGGAA 261 AGGGGATTATGTTGTGAAGTACTCGCCAAATGGGTAGTTCCATGGTAACCAACATGTAAGCGGAA * * 39037000 TCGTGAACTTAAATGACAATTATTTGAGTACAATAGGCCAAGATAGTCCATAGTTGATGGTCATG 326 TCGTGAACTTAGATGACAATTATTTGAGTACAATAGGCCAAGATAGTCCATAGTTGATGGGCATG 39037065 TTATGTATAAGAGTAAGGTAACGTAGGTGAATTGGGTTACAAAGATGTAATCCCATCACTATTAA 391 TTATGTATAAGAGT-AGGTAACGTAGGTGAATTGGGTTACAAAGATGTAATCCCATCACTATTAA * 39037130 ACCCAATTTCTATTTAGCTTGCCAGAGTGGTGTGGGATCTCATCAGTTATTCCAATAAATGGTGT 455 ACCCAATTGCTATTTAGCTTGCCAGAGTGGTGTGGGATCTCATCAGTTATTCCAATAAATGGTGT * 39037195 GGGATCTCATCAGT 520 GGGATCTCATCAAT * * 39037209 TATTCAAGAACAATAAACACACTATTAGGTGCCTGGTGTATAGGTAAAAAAGAAGAAGGTTTATC 1 TATTCATGAACAAT-AACACACTAGTAGGTGCCTGGTGTATAGGTAAAAAA-AAGAAGGTTTATC * * * 39037274 CGAGGATCACAGATAAAGATCCACGAATAAAAACCACTAAAGGGTGCTCAGTGAAAACCTGCATG 64 CGAGGATCACAGATAAAGATCCACCAATAAAAACCACCAAAGGGTGCTCAGTGAAAACCTACATG * 39037339 TTAGAGATTGAGCATAAATACGACGGTTAGTCCATTGAGTAAAGAGGGTTTAGCTAGAAGCCATA 129 TTAGAGATTGAGCATAAATACGACAGTTAGTCCATTGAGTAAAGAGGGTTTAGCTAGAAGCCATA * * 39037404 GTCAGAGAGAGTCACACAAAGGGATATATCAAGTGACAAATATGTCTGTTAAGACTATTCCTCTT 194 GTCAGAGAGAGTCACACAGAGGGATATATCGAGTGACAAATATGTCTGTTAAGACTATTCCTCTT * * 39037469 TAAGGGGATTATGTTGTGAAGTACTCGCCAAATGGGTAGTTCCATGGTAACCAACGTGTAAGCGA 259 TAAGGGGATTATGTTGTGAAGTACTCGCCAAATGGGTAGTTCCATGGTAACCAACATGTAAGCGG * 39037534 AATCGTGAACTTAGATGACAATTATCTGAGTACAATAGGCCAAGATAGTCCATAGTTGATGGGCA 324 AATCGTGAACTTAGATGACAATTATTTGAGTACAATAGGCCAAGATAGTCCATAGTTGATGGGCA 39037599 TGTTATGTATAAGAGTGAGGTAACGTAGGTGAATTGGGTTACAAAGATGTAATCCCATCACTATT 389 TGTTATGTATAAGAGT-AGGTAACGTAGGTGAATTGGGTTACAAAGATGTAATCCCATCACTATT * * * 39037664 AAACCCAATTGCTATTTAGTTTGCCAGAGTGGTGTGAGATCTCATCAGTTATTCCAACAAATGG 453 AAACCCAATTGCTATTTAGCTTGCCAGAGTGGTGTGGGATCTCATCAGTTATTCCAATAAATGG 39037728 AATGTGAGTA Statistics Matches: 984, Mismatches: 60, Indels: 10 0.93 0.06 0.01 Matches are distributed among these distances: 528 1 0.00 529 330 0.34 530 43 0.04 531 2 0.00 533 133 0.14 534 28 0.03 535 5 0.01 536 442 0.45 ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27 Consensus pattern (533 bp): TATTCATGAACAATAACACACTAGTAGGTGCCTGGTGTATAGGTAAAAAAAAGAAGGTTTATCCG AGGATCACAGATAAAGATCCACCAATAAAAACCACCAAAGGGTGCTCAGTGAAAACCTACATGTT AGAGATTGAGCATAAATACGACAGTTAGTCCATTGAGTAAAGAGGGTTTAGCTAGAAGCCATAGT CAGAGAGAGTCACACAGAGGGATATATCGAGTGACAAATATGTCTGTTAAGACTATTCCTCTTTA AGGGGATTATGTTGTGAAGTACTCGCCAAATGGGTAGTTCCATGGTAACCAACATGTAAGCGGAA TCGTGAACTTAGATGACAATTATTTGAGTACAATAGGCCAAGATAGTCCATAGTTGATGGGCATG TTATGTATAAGAGTAGGTAACGTAGGTGAATTGGGTTACAAAGATGTAATCCCATCACTATTAAA CCCAATTGCTATTTAGCTTGCCAGAGTGGTGTGGGATCTCATCAGTTATTCCAATAAATGGTGTG GGATCTCATCAAT Found at i:39042238 original size:38 final size:38 Alignment explanation
Indices: 39042187--39042264 Score: 138 Period size: 38 Copynumber: 2.1 Consensus size: 38 39042177 ATAAAACAAG * * 39042187 TATGTTATTACAATCATCTCATGACTGGTCTTTGGGCA 1 TATGTTATTACAATCATCTCATGACTGGTCCTTGGCCA 39042225 TATGTTATTACAATCATCTCATGACTGGTCCTTGGCCA 1 TATGTTATTACAATCATCTCATGACTGGTCCTTGGCCA 39042263 TA 1 TA 39042265 CTCCATTGAA Statistics Matches: 38, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 38 38 1.00 ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38 Consensus pattern (38 bp): TATGTTATTACAATCATCTCATGACTGGTCCTTGGCCA Found at i:39057316 original size:39 final size:39 Alignment explanation
Indices: 39057260--39057347 Score: 167 Period size: 39 Copynumber: 2.3 Consensus size: 39 39057250 TAATGAAGTT 39057260 GGTGAGGGTGGTAAGGTTGTTGGCAGTAAATGTGGTGAG 1 GGTGAGGGTGGTAAGGTTGTTGGCAGTAAATGTGGTGAG * 39057299 GGTGAGGGTGGTGAGGTTGTTGGCAGTAAATGTGGTGAG 1 GGTGAGGGTGGTAAGGTTGTTGGCAGTAAATGTGGTGAG 39057338 GGTGAGGGTG 1 GGTGAGGGTG 39057348 AGGGTGGTGA Statistics Matches: 48, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 39 48 1.00 ACGTcount: A:0.18, C:0.02, G:0.52, T:0.27 Consensus pattern (39 bp): GGTGAGGGTGGTAAGGTTGTTGGCAGTAAATGTGGTGAG Found at i:39057345 original size:45 final size:44 Alignment explanation
Indices: 39057260--39057387 Score: 158 Period size: 45 Copynumber: 3.0 Consensus size: 44 39057250 TAATGAAGTT * 39057260 GGTGAGGGTGGTAAGGTTGTTGGCAGTAAA-T-GT---GGTGAG 1 GGTGAGGGTGGTGAGGTTGTTGGCAGTAAAGTGGTGAGGGTGAG 39057299 GGTGAGGGTGGTGAGGTTGTTGGCAGTAAATGTGGTGAGGGTGAG 1 GGTGAGGGTGGTGAGGTTGTTGGCAGTAAA-GTGGTGAGGGTGAG * * * * 39057344 GGTGAGGGTGGTGAGGTTGCTGACAGTAGAGGTGGTGAGAGTGA 1 GGTGAGGGTGGTGAGGTTGTTGGCAGTA-AAGTGGTGAGGGTGA 39057388 TAGAAGTGGT Statistics Matches: 77, Mismatches: 5, Indels: 8 0.86 0.06 0.09 Matches are distributed among these distances: 39 29 0.38 41 1 0.01 42 2 0.03 45 44 0.57 46 1 0.01 ACGTcount: A:0.20, C:0.03, G:0.52, T:0.26 Consensus pattern (44 bp): GGTGAGGGTGGTGAGGTTGTTGGCAGTAAAGTGGTGAGGGTGAG Found at i:39057381 original size:39 final size:39 Alignment explanation
Indices: 39057260--39057387 Score: 139 Period size: 39 Copynumber: 3.1 Consensus size: 39 39057250 TAATGAAGTT * * * 39057260 GGTGAGGGTGGTAAGGTTGTTGGCAGTAAATGTGGTGAG 1 GGTGAGGGTGGTGAGGTTGTTGGCAGTAGAGGTGGTGAG * 39057299 GGTGAGGGTGGTGAGGTTGTTGGCAGTAAATGTGGTGAGGGTGAG 1 GGTGAGGGTGGTGAGGTTGTTGGCAGT--A-GAGGT---GGTGAG * * 39057344 GGTGAGGGTGGTGAGGTTGCTGACAGTAGAGGTGGTGAG 1 GGTGAGGGTGGTGAGGTTGTTGGCAGTAGAGGTGGTGAG * 39057383 AGTGA 1 GGTGA 39057388 TAGAAGTGGT Statistics Matches: 75, Mismatches: 8, Indels: 12 0.79 0.08 0.13 Matches are distributed among these distances: 39 36 0.48 41 1 0.01 42 6 0.08 43 1 0.01 45 31 0.41 ACGTcount: A:0.20, C:0.03, G:0.52, T:0.26 Consensus pattern (39 bp): GGTGAGGGTGGTGAGGTTGTTGGCAGTAGAGGTGGTGAG Found at i:39060055 original size:82 final size:82 Alignment explanation
Indices: 39059927--39060129 Score: 334 Period size: 82 Copynumber: 2.5 Consensus size: 82 39059917 TTGAGATTGT * 39059927 TAACATATTTTATTTGTTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACAACTTACTACTATA 1 TAACATATTTTATTTGTTTTTTGAAATGATTTGTTGAAATGATTGGTTAACAACTTACTACTATA 39059992 GGATCATTTTGTTAGCA 66 GGATCATTTTGTTAGCA * * * * * 39060009 TAACATATTTTGTTTGTTTTTTTAAATGATTTGTTGAAATGATTGGTTAACATCTTATTGCTATA 1 TAACATATTTTATTTGTTTTTTGAAATGATTTGTTGAAATGATTGGTTAACAACTTACTACTATA * 39060074 GGATCATTTTGTTAGTA 66 GGATCATTTTGTTAGCA * 39060091 TAACATATTTTATTTGTTTTTTGGAATGATTTGTTGAAA 1 TAACATATTTTATTTGTTTTTTGAAATGATTTGTTGAAA 39060130 GATGTATACC Statistics Matches: 111, Mismatches: 10, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 82 111 1.00 ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50 Consensus pattern (82 bp): TAACATATTTTATTTGTTTTTTGAAATGATTTGTTGAAATGATTGGTTAACAACTTACTACTATA GGATCATTTTGTTAGCA Found at i:39061625 original size:115 final size:112 Alignment explanation
Indices: 39061468--39061678 Score: 325 Period size: 115 Copynumber: 1.9 Consensus size: 112 39061458 TACTCTAATA * 39061468 TTCAAGCATGGGAAAGAAATGTTTCATCAATATCCAAATAAAAAAATAAAAAAAGAATC-CCCAA 1 TTCAAGCATGGGAAAGAAATGTTTCATCAATATCCAAAT-AAAAAAT-AAAAAA-AATCACACAA * * 39061532 TTTCTTATGAACCTTAAAATAAATCGGCTAAATATGCTTACCCGAATACAT 63 TTTCTTATGAACCCTAAAACAAAT-GGCTAAATATGCTTACCCGAATACAT * * * 39061583 TTCATGCATGGGAAAGAAATGTTTCATTAATATCCAATTAAAAAATAAAAAAAATCACACAATTT 1 TTCAAGCATGGGAAAGAAATGTTTCATCAATATCCAAATAAAAAATAAAAAAAATCACACAATTT 39061648 CTTATGAACCCTAAAACAAATGGCTAAATAT 66 CTTATGAACCCTAAAACAAATGGCTAAATAT 39061679 ACAGTGATTA Statistics Matches: 89, Mismatches: 6, Indels: 5 0.89 0.06 0.05 Matches are distributed among these distances: 112 14 0.16 113 32 0.36 114 7 0.08 115 36 0.40 ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27 Consensus pattern (112 bp): TTCAAGCATGGGAAAGAAATGTTTCATCAATATCCAAATAAAAAATAAAAAAAATCACACAATTT CTTATGAACCCTAAAACAAATGGCTAAATATGCTTACCCGAATACAT Found at i:39062172 original size:18 final size:18 Alignment explanation
Indices: 39062139--39062177 Score: 53 Period size: 17 Copynumber: 2.2 Consensus size: 18 39062129 TTAAATATTT * 39062139 TTTTTTAATTTTAATT-A 1 TTTTTTAATTTAAATTCA 39062156 TTTTTTAAGTTTAAATTCA 1 TTTTTTAA-TTTAAATTCA 39062175 TTT 1 TTT 39062178 GCTGATGCGA Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 17 8 0.42 18 7 0.37 19 4 0.21 ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67 Consensus pattern (18 bp): TTTTTTAATTTAAATTCA Found at i:39063224 original size:29 final size:31 Alignment explanation
Indices: 39063192--39063255 Score: 87 Period size: 29 Copynumber: 2.1 Consensus size: 31 39063182 TCTAGAAAAA * 39063192 AATAATCTAGTAACTTAAATA-AA-ATTTTT 1 AATAATCTACTAACTTAAATAGAATATTTTT * * 39063221 AATAATTTACTAACTTAAATAGAATCTTTTT 1 AATAATCTACTAACTTAAATAGAATATTTTT 39063252 AATA 1 AATA 39063256 TTTGAATAAT Statistics Matches: 30, Mismatches: 3, Indels: 2 0.86 0.09 0.06 Matches are distributed among these distances: 29 19 0.63 30 2 0.07 31 9 0.30 ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42 Consensus pattern (31 bp): AATAATCTACTAACTTAAATAGAATATTTTT Done.