Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence 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: 33012953 ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34 Warning! 65000 characters in sequence are not A, C, G, or T File 149 of 160 Found at i:29010483 original size:75 final size:75 Alignment explanation
Indices: 29010358--29010499 Score: 184 Period size: 75 Copynumber: 1.9 Consensus size: 75 29010348 ACAGAAAACA * * 29010358 CCTTCAATAAATTCTTTCAAAAAATTATAATGAATTAGTAAAGATATTTTT-TGTGGAATAAACA 1 CCTTCAATAAATTCTTTCAAAAAATTATAATGAATTAGTAAAGACATTTTTCTAT--AATAAACA 29010422 CCTTCAGTAATG 64 CCTTCAGTAATG * * 29010434 CCTTCAATAAATT-TCTTC-AAAAATTATAATGAATTAGTGAATG-CGTTTTTCTATAATAAACA 1 CCTTCAATAAATTCT-TTCAAAAAATTATAATGAATTAGT-AAAGACATTTTTCTATAATAAACA 29010496 CCTT 64 CCTT 29010500 GAATAACCAC Statistics Matches: 59, Mismatches: 4, Indels: 8 0.83 0.06 0.11 Matches are distributed among these distances: 74 12 0.20 75 26 0.44 76 21 0.36 ACGTcount: A:0.39, C:0.13, G:0.09, T:0.38 Consensus pattern (75 bp): CCTTCAATAAATTCTTTCAAAAAATTATAATGAATTAGTAAAGACATTTTTCTATAATAAACACC TTCAGTAATG Found at i:29010782 original size:187 final size:186 Alignment explanation
Indices: 29010430--29010788 Score: 449 Period size: 187 Copynumber: 1.9 Consensus size: 186 29010420 CACCTTCAGT * * * * 29010430 AATGCCTTCAATAAATTTCTTCAAAAATTATAATGAATTAGTGAATGCGTTTTTCTATAATAAAC 1 AATGCCTTCAATAAATTTCTTCAAAAATTAGAACGAATTAGTGAATGCATTTTTCTAGAATAAAC * * ** ** 29010495 ACCTTGAATAACCACTTAAAATTTTAGTAGTGAAATATTGAAAGCGTTTTCTACTAAAAGATGCA 66 ACATTCAATAACCACTTAAAATTTTAGTAGTGAAATATTGAAAGAATTTTCTACTAAAAGACACA * 29010560 TTTAATTATCCTAAACAATTTTTAAAAAGAAATTATTGAAGGAGTATAATGCAAAA 131 TTTAATAATCCTAAACAATTTTTAAAAAGAAATTATTGAAGGAGTATAATGCAAAA * * * 29010616 AATGCCTTCAATAAA-TTCTTTCAAAAGTTAGAACGAATTAGTG-ATGGCATTTTTTTGGAATAA 1 AATGCCTTCAATAAATTTC-TTCAAAAATTAGAACGAATTAGTGAAT-GCATTTTTCTAGAATAA * * * 29010679 ACGCATTCAATAACC-CTTTTAAAATTTTAGTAGTGCAATATTGAAAGAATTTTCTACTAGAAGA 64 ACACATTCAATAACCAC--TTAAAATTTTAGTAGTGAAATATTGAAAGAATTTTCTACTAAAAGA * * * 29010743 CACCTTTAATAAT-CTAAAATAATTTTT-ATAAGAAAATTATTGAAGG 127 CACATTTAATAATCCT-AAACAATTTTTAAAAAG-AAATTATTGAAGG 29010789 CGTTTTCTCT Statistics Matches: 147, Mismatches: 20, Indels: 11 0.83 0.11 0.06 Matches are distributed among these distances: 185 6 0.04 186 67 0.46 187 74 0.50 ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35 Consensus pattern (186 bp): AATGCCTTCAATAAATTTCTTCAAAAATTAGAACGAATTAGTGAATGCATTTTTCTAGAATAAAC ACATTCAATAACCACTTAAAATTTTAGTAGTGAAATATTGAAAGAATTTTCTACTAAAAGACACA TTTAATAATCCTAAACAATTTTTAAAAAGAAATTATTGAAGGAGTATAATGCAAAA Found at i:29010869 original size:239 final size:238 Alignment explanation
Indices: 29010589--29011086 Score: 622 Period size: 239 Copynumber: 2.1 Consensus size: 238 29010579 TTTTAAAAAG * ** * * 29010589 AAATTATTGAAGGAGTATAATGCAAAAAATGCCTTCAATAAATTCTTTCAAAAGTTAGAACGAAT 1 AAATTATTGAAGGCGTATAATGCAAAAAACCCCTTCAATAAATTCTTTAAAAAATTAGAACGAAT ** * * ** * ** 29010654 TAGTGATGGCATTTTTTTGGAATAAACGCATTCAATAACCCTTTTAAAATTTTAGTAGTGCAATA 66 TAGTGAAAGCATTTTTCTAGAATAAACGCATTCAATAACCCACTTAAAATTTAAACAGTGCAATA * 29010719 TTGAAAGAATTTTCTACTAGAAGACACCTTTAATAATCTAAAATAA-TTTTTATAAGAAAATTAT 131 TTGAAAGAATTTTCTACTAAAAGACACCTTTAATAATCTAAAATAATTTTTTATAA-AAAATTAT * * 29010783 TGAAGGCGTTTTCTCTCAAAAAACATCTTTAATAATTATGTACAA- 195 TGAAGGCATTTT-TCTCAAAAAACATCTTCAATAATTATGTA-AAC * * * 29010828 AAATTATTGAAGGCGTATAATGCAATAAACCCCTTCAATAAATTCTTTAAAAAATTATAATGAAT 1 AAATTATTGAAGGCGTATAATGCAAAAAACCCCTTCAATAAATTCTTTAAAAAATTAGAACGAAT ** *** * * 29010893 TAGTGAAAGTGTTTTTCTAGAATAAACTTTTTCAATAAGCCACTTAAAATTTAAACAGTGGAATA 66 TAGTGAAAGCATTTTTCTAGAATAAACGCATTCAATAACCCACTTAAAATTTAAACAGTGCAATA * * * * * * * 29010958 TTGAAAGCATTTTTTACTAAAAGACGCCTTTGATAATCTCAAATAATTTTTTTTTAAAAATTATT 131 TTGAAAGAATTTTCTACTAAAAGACACCTTTAATAATCTAAAATAATTTTTTATAAAAAATTATT * * 29011023 GAAGGCATTTTTTTCAAAAAAGATCTTCAATAATTATGTAAAC 196 GAAGGCATTTTTCTCAAAAAACATCTTCAATAATTATGTAAAC * 29011066 AAATTATTGTAGGCGTATAAT 1 AAATTATTGAAGGCGTATAAT 29011087 AAAGGAAATT Statistics Matches: 220, Mismatches: 37, Indels: 5 0.84 0.14 0.02 Matches are distributed among these distances: 237 2 0.01 238 46 0.21 239 165 0.75 240 7 0.03 ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36 Consensus pattern (238 bp): AAATTATTGAAGGCGTATAATGCAAAAAACCCCTTCAATAAATTCTTTAAAAAATTAGAACGAAT TAGTGAAAGCATTTTTCTAGAATAAACGCATTCAATAACCCACTTAAAATTTAAACAGTGCAATA TTGAAAGAATTTTCTACTAAAAGACACCTTTAATAATCTAAAATAATTTTTTATAAAAAATTATT GAAGGCATTTTTCTCAAAAAACATCTTCAATAATTATGTAAAC Found at i:29013672 original size:139 final size:140 Alignment explanation
Indices: 29013418--29013674 Score: 338 Period size: 139 Copynumber: 1.8 Consensus size: 140 29013408 ACATTAACAA * * * 29013418 TTATTGTTCTATTTTAATAGTTTTAATAGTTTCAATACATGATATTAAACTTATCAAAAGTATTG 1 TTATTATTCTATTTTAATAGTTTGAATAGCTTCAATACATGATATTAAACTTATCAAAAGTATTG * * 29013483 AACTTAATTGCCACGGTTGATATGTATGAAAAAATTATTGTTTATGTCTATTTAGGTAAAAATAC 66 AACTTAATTGCCACGGTTGATATGTATGAAAAAATTATCGTTTATATCTATTTAGGTAAAAATAC 29013548 AATACTGTTG 131 AATACTGTTG * * * ** * 29013558 TTATTATTCTATTTTAATAGTTTGGATAGCTTCAATACTTGATA-TAAACTTGTC-TGATTAATT 1 TTATTATTCTATTTTAATAGTTTGAATAGCTTCAATACATGATATTAAACTTATCAAAAGT-ATT * * * * * * 29013621 GAATTTGATTTCTATGGTTGATATGTATGAAAAAGTTATCGTTTATATCTATTT 65 GAACTTAATTGCCACGGTTGATATGTATGAAAAAATTATCGTTTATATCTATTT 29013675 GAGACTATTT Statistics Matches: 99, Mismatches: 17, Indels: 3 0.83 0.14 0.03 Matches are distributed among these distances: 138 2 0.02 139 58 0.59 140 39 0.39 ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46 Consensus pattern (140 bp): TTATTATTCTATTTTAATAGTTTGAATAGCTTCAATACATGATATTAAACTTATCAAAAGTATTG AACTTAATTGCCACGGTTGATATGTATGAAAAAATTATCGTTTATATCTATTTAGGTAAAAATAC AATACTGTTG Found at i:29015850 original size:15 final size:15 Alignment explanation
Indices: 29015830--29015862 Score: 57 Period size: 15 Copynumber: 2.2 Consensus size: 15 29015820 TTAAAAAAAA 29015830 ATTATATTACATTAT 1 ATTATATTACATTAT * 29015845 ATTATATTATATTAT 1 ATTATATTACATTAT 29015860 ATT 1 ATT 29015863 TTATATATAT Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 15 17 1.00 ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58 Consensus pattern (15 bp): ATTATATTACATTAT Found at i:29015859 original size:10 final size:10 Alignment explanation
Indices: 29015830--29015891 Score: 70 Period size: 10 Copynumber: 5.8 Consensus size: 10 29015820 TTAAAAAAAA * 29015830 ATTATATTAC 1 ATTATATTAT 29015840 ATTATATTAT 1 ATTATATTAT 29015850 ATTATATTAT 1 ATTATATTAT * 29015860 ATTTTATATAT 1 ATTATAT-TAT 29015871 ATATATATATAT 1 AT-TATAT-TAT 29015883 ATATATATT 1 AT-TATATT 29015892 TACACACACA Statistics Matches: 47, Mismatches: 3, Indels: 3 0.89 0.06 0.06 Matches are distributed among these distances: 10 25 0.53 11 6 0.13 12 16 0.34 ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56 Consensus pattern (10 bp): ATTATATTAT Found at i:29015871 original size:2 final size:2 Alignment explanation
Indices: 29015842--29015890 Score: 61 Period size: 2 Copynumber: 26.5 Consensus size: 2 29015832 TATATTACAT * 29015842 TA TA T- TA TA T- TA TA T- TA TA T- TT TA TA TA TA TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 29015880 TA TA TA TA TA T 1 TA TA TA TA TA T 29015891 TTACACACAC Statistics Matches: 42, Mismatches: 1, Indels: 8 0.82 0.02 0.16 Matches are distributed among these distances: 1 4 0.10 2 38 0.90 ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57 Consensus pattern (2 bp): TA Found at i:29016165 original size:23 final size:22 Alignment explanation
Indices: 29016134--29016176 Score: 59 Period size: 22 Copynumber: 1.9 Consensus size: 22 29016124 AAATTTATCG * 29016134 TAATATTAATTAAATTTAAATAT 1 TAATATTAA-TAAAATTAAATAT * 29016157 TAATTTTAATAAAATTAAAT 1 TAATATTAATAAAATTAAAT 29016177 TAAAATAATT Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 22 10 0.56 23 8 0.44 ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47 Consensus pattern (22 bp): TAATATTAATAAAATTAAATAT Found at i:29016174 original size:28 final size:28 Alignment explanation
Indices: 29016141--29016200 Score: 77 Period size: 28 Copynumber: 2.1 Consensus size: 28 29016131 TCGTAATATT * 29016141 AATTAAATTTAAAT-ATTAATTTTAATAA 1 AATTAAATTAAAATAATT-ATTTTAATAA * * 29016169 AATTAAATTAAAATAATTTTTTTATTAA 1 AATTAAATTAAAATAATTATTTTAATAA 29016197 AATT 1 AATT 29016201 TTTTAAACAT Statistics Matches: 28, Mismatches: 3, Indels: 2 0.85 0.09 0.06 Matches are distributed among these distances: 28 25 0.89 29 3 0.11 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (28 bp): AATTAAATTAAAATAATTATTTTAATAA Found at i:29017482 original size:45 final size:45 Alignment explanation
Indices: 29017429--29017519 Score: 164 Period size: 45 Copynumber: 2.0 Consensus size: 45 29017419 AAATTCTATC * 29017429 AATATTTTTATTAAAAATATATATTTAATAAATATATCAAAATTT 1 AATATTTTTATTAAAAATATATATTTAATAAATACATCAAAATTT * 29017474 AATATTTTTATTAAAAATATCTATTTAATAAATACATCAAAATTT 1 AATATTTTTATTAAAAATATATATTTAATAAATACATCAAAATTT 29017519 A 1 A 29017520 TAAAAAAAAA Statistics Matches: 44, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 45 44 1.00 ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45 Consensus pattern (45 bp): AATATTTTTATTAAAAATATATATTTAATAAATACATCAAAATTT Found at i:29018989 original size:29 final size:28 Alignment explanation
Indices: 29018924--29018999 Score: 72 Period size: 27 Copynumber: 2.8 Consensus size: 28 29018914 CAAATTTAAA * 29018924 TTATA-ATTAATA-TTTTAAATAATTTT 1 TTATATATTATTATTTTTAAATAATTTT 29018950 TTATATATTATTATTTTTATAATAAATTTT 1 TTATATATTATTATTTTTA-AAT-AATTTT * 29018980 ATTA-AT-TTATTA-ATTTAAAT 1 -TTATATATTATTATTTTTAAAT 29019000 TTTTTATCAA Statistics Matches: 43, Mismatches: 2, Indels: 9 0.80 0.04 0.17 Matches are distributed among these distances: 26 5 0.12 27 9 0.21 28 9 0.21 29 9 0.21 30 8 0.19 31 3 0.07 ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59 Consensus pattern (28 bp): TTATATATTATTATTTTTAAATAATTTT Found at i:29020010 original size:13 final size:13 Alignment explanation
Indices: 29019994--29020021 Score: 56 Period size: 13 Copynumber: 2.2 Consensus size: 13 29019984 CTTTCGATGG 29019994 CTTCTAAACCCAT 1 CTTCTAAACCCAT 29020007 CTTCTAAACCCAT 1 CTTCTAAACCCAT 29020020 CT 1 CT 29020022 ACTGTAATAT Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 15 1.00 ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32 Consensus pattern (13 bp): CTTCTAAACCCAT Found at i:29020220 original size:19 final size:19 Alignment explanation
Indices: 29020196--29020242 Score: 94 Period size: 19 Copynumber: 2.5 Consensus size: 19 29020186 GGAGAGTATA 29020196 AAAATCAAATATAAAATTC 1 AAAATCAAATATAAAATTC 29020215 AAAATCAAATATAAAATTC 1 AAAATCAAATATAAAATTC 29020234 AAAATCAAA 1 AAAATCAAA 29020243 AACTACAATC Statistics Matches: 28, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 19 28 1.00 ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23 Consensus pattern (19 bp): AAAATCAAATATAAAATTC Found at i:29022293 original size:16 final size:16 Alignment explanation
Indices: 29022268--29022307 Score: 62 Period size: 16 Copynumber: 2.5 Consensus size: 16 29022258 CGATAAATGA 29022268 ATGATAATGATGATTT 1 ATGATAATGATGATTT * 29022284 ATGATGATGATGATTT 1 ATGATAATGATGATTT * 29022300 ACGATAAT 1 ATGATAAT 29022308 TTTTAATAAT Statistics Matches: 21, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 16 21 1.00 ACGTcount: A:0.38, C:0.03, G:0.20, T:0.40 Consensus pattern (16 bp): ATGATAATGATGATTT Found at i:29048793 original size:27 final size:27 Alignment explanation
Indices: 29048743--29048794 Score: 70 Period size: 27 Copynumber: 1.9 Consensus size: 27 29048733 GATAGTTAAG ** 29048743 AAAATAAATAAATAAATATTTTTAATA 1 AAAATAAATAAATAAATAAATTTAATA 29048770 AAAATAAATAACATAAA-AAATTTAA 1 AAAATAAATAA-ATAAATAAATTTAA 29048795 AATTATAATT Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 27 17 0.77 28 5 0.23 ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31 Consensus pattern (27 bp): AAAATAAATAAATAAATAAATTTAATA Found at i:29051586 original size:14 final size:13 Alignment explanation
Indices: 29051569--29051604 Score: 54 Period size: 14 Copynumber: 2.7 Consensus size: 13 29051559 TAAATTTTTT 29051569 ATTAAAAATAAATA 1 ATTAAAAATAAA-A * 29051583 ATTAAAAATTAAA 1 ATTAAAAATAAAA 29051596 ATTAAAAAT 1 ATTAAAAAT 29051605 CGAATTTGAT Statistics Matches: 21, Mismatches: 1, Indels: 1 0.91 0.04 0.04 Matches are distributed among these distances: 13 10 0.48 14 11 0.52 ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31 Consensus pattern (13 bp): ATTAAAAATAAAA Found at i:29060222 original size:35 final size:37 Alignment explanation
Indices: 29060176--29060248 Score: 123 Period size: 35 Copynumber: 2.0 Consensus size: 37 29060166 TCCATTAACA 29060176 TAGATATGGAATACATA-AGTT-AAACAGAAAACACT 1 TAGATATGGAATACATAGAGTTAAAACAGAAAACACT 29060211 TAGATATGGAATACATAGAGTTACAAACAGAAAACACT 1 TAGATATGGAATACATAGAGTTA-AAACAGAAAACACT 29060249 CTGTGACAAG Statistics Matches: 35, Mismatches: 0, Indels: 3 0.92 0.00 0.08 Matches are distributed among these distances: 35 17 0.49 36 4 0.11 38 14 0.40 ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22 Consensus pattern (37 bp): TAGATATGGAATACATAGAGTTAAAACAGAAAACACT Found at i:29064617 original size:2 final size:2 Alignment explanation
Indices: 29064610--29064634 Score: 50 Period size: 2 Copynumber: 12.5 Consensus size: 2 29064600 CAATAATACT 29064610 AG AG AG AG AG AG AG AG AG AG AG AG A 1 AG AG AG AG AG AG AG AG AG AG AG AG A 29064635 TTATTGGAAT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 23 1.00 ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00 Consensus pattern (2 bp): AG Found at i:29068100 original size:16 final size:16 Alignment explanation
Indices: 29068081--29068112 Score: 64 Period size: 16 Copynumber: 2.0 Consensus size: 16 29068071 TGACATTGCA 29068081 AGTAATAATCATTAGG 1 AGTAATAATCATTAGG 29068097 AGTAATAATCATTAGG 1 AGTAATAATCATTAGG 29068113 GGTGAGTAAT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 16 1.00 ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31 Consensus pattern (16 bp): AGTAATAATCATTAGG Found at i:29068344 original size:16 final size:17 Alignment explanation
Indices: 29068294--29068345 Score: 56 Period size: 16 Copynumber: 3.1 Consensus size: 17 29068284 TTATTTTTTT 29068294 ATTATAAATAATT-ATTTA 1 ATTATAAAT--TTAATTTA 29068312 ATTATAAATTTAATTTA 1 ATTATAAATTTAATTTA 29068329 A-TA-AAATTTAAATTTA 1 ATTATAAATTT-AATTTA 29068345 A 1 A 29068346 ATATCATTCA Statistics Matches: 32, Mismatches: 0, Indels: 6 0.84 0.00 0.16 Matches are distributed among these distances: 15 6 0.19 16 11 0.34 17 6 0.19 18 9 0.28 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (17 bp): ATTATAAATTTAATTTA Found at i:29071190 original size:47 final size:47 Alignment explanation
Indices: 29071111--29071205 Score: 156 Period size: 47 Copynumber: 2.0 Consensus size: 47 29071101 TGGGATTCAG * 29071111 GACTCCCCCTTAGGTCCGTGATATTTTCTCGCACCCAACCTCGTGAC 1 GACTCCCCCTTAGGTCCGTGACATTTTCTCGCACCCAACCTCGTGAC * 29071158 GACTCCCCCTTAGGTCCGTGACATTCTT-TCGCACCTAACCTCGTGAC 1 GACTCCCCCTTAGGTCCGTGACATT-TTCTCGCACCCAACCTCGTGAC 29071205 G 1 G 29071206 CCCTCGCCCT Statistics Matches: 45, Mismatches: 2, Indels: 2 0.92 0.04 0.04 Matches are distributed among these distances: 47 43 0.96 48 2 0.04 ACGTcount: A:0.17, C:0.38, G:0.18, T:0.27 Consensus pattern (47 bp): GACTCCCCCTTAGGTCCGTGACATTTTCTCGCACCCAACCTCGTGAC Found at i:29071848 original size:376 final size:371 Alignment explanation
Indices: 29071158--29071927 Score: 1308 Period size: 376 Copynumber: 2.1 Consensus size: 371 29071148 ACCTCGTGAC * ** * 29071158 GACTCCCCCTTAGGTCCGTGACATTCTTTCGCACCTAACCTCGTGACGCCCTCGCCCTCGTCACG 1 GACTCCCCCTTAAGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGCCCTCGTCACG 29071223 GAGGCTGACCACCCTCTCCCTTGAGGTGCTTGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGAT 66 GAGGCTGACCACCCTCTCCCTTGAGGTGCTTGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGAT * 29071288 ACCACTTGTCACAGGTCGAGACTTAAGCTCCGAACCCGTGCGGCTCCGGGACCCGGACATTCATC 131 ACCACTTGTCACAGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGACATTCATC * * 29071353 CTTCCGGCGTCCCGAATCAGCCTGACCGTCATGGTTCACACCCTTGTAAGGTATTGTCCGCTTCA 196 CTTCCGGCGTCCCGAATCAGCCTGACCGCCATGGTTCACACCCTTGTAAGGTATTGTCCGCTCCA * * 29071418 GCCCCCTTAGCCTCACGATTTTGTCCTACAAAAGGCGTCTCATAAGAGGGAGATGGTGTGAACCC 261 GCCCCCTTAGCCTCACGATTTTGTCCTACAAAAGGCGCCTCATAAGACGGAGATGGTGTGAACCC * 29071483 TTTTATA-CCCAGTGACCCTCCTATTATGTTCGATGTGGGATTCAT 326 TTTTATACCCCAGTGACCCTCCTATTATGTTCGATGTGGGATTCAG * 29071528 GACTCCCCCTTAAGTCCGTGATATTCTCCCGCACCCAACCTCGTGACGCCCTCGCCCTCGTCACG 1 GACTCCCCCTTAAGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGCCCTCGTCACG 29071593 GAGGCTGACCACCCTGCCTGCCTCCCTTGAGGTGCTTGGCGTGGATCGAACGGTTTAGGGCTGGC 66 GAGGCTGACCA--C--CCT--CTCCCTTGAGGTGCTTGGCGTGGATCGAACGGTTTAGGGCTGGC * 29071658 TCTGATACCACTTGTCACAGGTCGAGACTTAAGCTTCGAACCCGCGCGGCTCCGGGACCCGGACA 125 TCTGATACCACTTGTCACAGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGACA * * 29071723 TTCATCCTTCCGGCGTCCCGAATCAGCCTGACCGCCATGGTTTACACCCTTGTGAGGTATTGTCC 190 TTCATCCTTCCGGCGTCCCGAATCAGCCTGACCGCCATGGTTCACACCCTTGTAAGGTATTGTCC * * * 29071788 GCTCCGGCCCCCTTAGCCTCACGGTTTTGTCCTACAAAAGGTGCCTCATAAGACGGAGATGGTGT 255 GCTCCAGCCCCCTTAGCCTCACGATTTTGTCCTACAAAAGGCGCCTCATAAGACGGAGATGGTGT * 29071853 GAACCCTTTTATACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAG 320 GAACCCTTTTATACCCCAGTGACCCTCCTATTATGTTCGATGTGGGATTCAG * 29071905 GACTCCCCCTTATGTCCGTGACA 1 GACTCCCCCTTAAGTCCGTGACA 29071928 CAAGGGCTTC Statistics Matches: 373, Mismatches: 20, Indels: 7 0.93 0.05 0.02 Matches are distributed among these distances: 370 71 0.19 372 1 0.00 374 3 0.01 376 241 0.65 377 57 0.15 ACGTcount: A:0.18, C:0.33, G:0.24, T:0.25 Consensus pattern (371 bp): GACTCCCCCTTAAGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGCCCTCGTCACG GAGGCTGACCACCCTCTCCCTTGAGGTGCTTGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGAT ACCACTTGTCACAGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGACATTCATC CTTCCGGCGTCCCGAATCAGCCTGACCGCCATGGTTCACACCCTTGTAAGGTATTGTCCGCTCCA GCCCCCTTAGCCTCACGATTTTGTCCTACAAAAGGCGCCTCATAAGACGGAGATGGTGTGAACCC TTTTATACCCCAGTGACCCTCCTATTATGTTCGATGTGGGATTCAG Found at i:29086322 original size:1 final size:1 Alignment explanation
Indices: 29086318--29086342 Score: 50 Period size: 1 Copynumber: 25.0 Consensus size: 1 29086308 AAAAGTTAGG 29086318 TTTTTTTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTT 29086343 ATTAATAGCA Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 24 1.00 ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Found at i:29092939 original size:2 final size:2 Alignment explanation
Indices: 29092934--29092960 Score: 54 Period size: 2 Copynumber: 13.5 Consensus size: 2 29092924 TTTGACAGCC 29092934 AT AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT A 29092961 GAGAGAGAGA Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 25 1.00 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Found at i:29092965 original size:2 final size:2 Alignment explanation
Indices: 29092960--29092988 Score: 58 Period size: 2 Copynumber: 14.5 Consensus size: 2 29092950 ATATATATAT 29092960 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A 1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A 29092989 AACATCATCC Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 27 1.00 ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00 Consensus pattern (2 bp): AG Found at i:29095172 original size:2 final size:2 Alignment explanation
Indices: 29095165--29095190 Score: 52 Period size: 2 Copynumber: 13.0 Consensus size: 2 29095155 AATCAACCAC 29095165 AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT 29095191 TCTTCTACAC Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 24 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:29102180 original size:119 final size:119 Alignment explanation
Indices: 29101969--29102206 Score: 476 Period size: 119 Copynumber: 2.0 Consensus size: 119 29101959 TACCATCACA 29101969 CATCATGCATTAAGTCCCTTCTCTTACCTCCTAGTGCTGGAAGAACTGCATACGTTATAATATGC 1 CATCATGCATTAAGTCCCTTCTCTTACCTCCTAGTGCTGGAAGAACTGCATACGTTATAATATGC 29102034 AAATAAACAGTTTTATTTACTAAGTAGTATAACTATTGAAATGATCTGATAGAG 66 AAATAAACAGTTTTATTTACTAAGTAGTATAACTATTGAAATGATCTGATAGAG 29102088 CATCATGCATTAAGTCCCTTCTCTTACCTCCTAGTGCTGGAAGAACTGCATACGTTATAATATGC 1 CATCATGCATTAAGTCCCTTCTCTTACCTCCTAGTGCTGGAAGAACTGCATACGTTATAATATGC 29102153 AAATAAACAGTTTTATTTACTAAGTAGTATAACTATTGAAATGATCTGATAGAG 66 AAATAAACAGTTTTATTTACTAAGTAGTATAACTATTGAAATGATCTGATAGAG 29102207 TTTCCATGCA Statistics Matches: 119, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 119 119 1.00 ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34 Consensus pattern (119 bp): CATCATGCATTAAGTCCCTTCTCTTACCTCCTAGTGCTGGAAGAACTGCATACGTTATAATATGC AAATAAACAGTTTTATTTACTAAGTAGTATAACTATTGAAATGATCTGATAGAG Found at i:29103194 original size:3 final size:3 Alignment explanation
Indices: 29103186--29103230 Score: 74 Period size: 3 Copynumber: 15.3 Consensus size: 3 29103176 TCAACTGGTG * 29103186 TTA TTA TTA TT- TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T 29103231 GAATCGAATG Statistics Matches: 40, Mismatches: 1, Indels: 2 0.93 0.02 0.05 Matches are distributed among these distances: 2 2 0.05 3 38 0.95 ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71 Consensus pattern (3 bp): TTA Found at i:29109782 original size:20 final size:20 Alignment explanation
Indices: 29109757--29109796 Score: 80 Period size: 20 Copynumber: 2.0 Consensus size: 20 29109747 TCATAGGGGA 29109757 ATAATAGTAACTTTTAATGG 1 ATAATAGTAACTTTTAATGG 29109777 ATAATAGTAACTTTTAATGG 1 ATAATAGTAACTTTTAATGG 29109797 TCTAGGTGTA Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 20 1.00 ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40 Consensus pattern (20 bp): ATAATAGTAACTTTTAATGG Found at i:29127250 original size:53 final size:53 Alignment explanation
Indices: 29127170--29127293 Score: 230 Period size: 53 Copynumber: 2.3 Consensus size: 53 29127160 AAAAAGGTGA * * 29127170 CAGATAAGTCCATCAGGCTCTATTTTACTAGAATGCTCATAGAAATAGTAGGC 1 CAGATAAGTCAATCAGGTTCTATTTTACTAGAATGCTCATAGAAATAGTAGGC 29127223 CAGATAAGTCAATCAGGTTCTATTTTACTAGAATGCTCATAGAAATAGTAGGC 1 CAGATAAGTCAATCAGGTTCTATTTTACTAGAATGCTCATAGAAATAGTAGGC 29127276 CAGATAAGTCAATCAGGT 1 CAGATAAGTCAATCAGGT 29127294 ATTTTCTTGT Statistics Matches: 69, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 53 69 1.00 ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28 Consensus pattern (53 bp): CAGATAAGTCAATCAGGTTCTATTTTACTAGAATGCTCATAGAAATAGTAGGC Found at i:29130194 original size:37 final size:36 Alignment explanation
Indices: 29130123--29130208 Score: 120 Period size: 37 Copynumber: 2.4 Consensus size: 36 29130113 AAAAAATTAA * 29130123 AAATT-AATTCAAAAAAATAATTTTTTATTTAATTC 1 AAATTAAATTCAAAAAAATAATTTTTTATTCAATTC ** 29130158 AAATTAAATTCAAAAATTTTAATTTTTTATTCAATTC 1 AAATTAAATTCAAAAA-AATAATTTTTTATTCAATTC * 29130195 AATTTAAATTCAAA 1 AAATTAAATTCAAA 29130209 TATTAAATAT Statistics Matches: 45, Mismatches: 4, Indels: 2 0.88 0.08 0.04 Matches are distributed among these distances: 35 5 0.11 36 10 0.22 37 30 0.67 ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45 Consensus pattern (36 bp): AAATTAAATTCAAAAAAATAATTTTTTATTCAATTC Found at i:29131400 original size:19 final size:18 Alignment explanation
Indices: 29131377--29131426 Score: 64 Period size: 19 Copynumber: 2.7 Consensus size: 18 29131367 AAAATTAATA 29131377 AATAAATAAAAATTTGTAT 1 AATAAATAAAAATTTGT-T * * 29131396 GATAAATAATAATTTGTT 1 AATAAATAAAAATTTGTT 29131414 AATAAAATAAAAA 1 AAT-AAATAAAAA 29131427 ATAACAATAA Statistics Matches: 26, Mismatches: 4, Indels: 2 0.81 0.12 0.06 Matches are distributed among these distances: 18 3 0.12 19 23 0.88 ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34 Consensus pattern (18 bp): AATAAATAAAAATTTGTT Found at i:29132975 original size:21 final size:21 Alignment explanation
Indices: 29132931--29132972 Score: 66 Period size: 21 Copynumber: 2.0 Consensus size: 21 29132921 TCCAAAATTT * 29132931 TTATATCAAAAGTTACAAAAA 1 TTATATCAAAAGTAACAAAAA 29132952 TTATATCAAAAGTAATCAAAA 1 TTATATCAAAAGTAA-CAAAA 29132973 TTACCAAACT Statistics Matches: 19, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 21 14 0.74 22 5 0.26 ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29 Consensus pattern (21 bp): TTATATCAAAAGTAACAAAAA Found at i:29132993 original size:21 final size:22 Alignment explanation
Indices: 29132969--29133013 Score: 56 Period size: 22 Copynumber: 2.1 Consensus size: 22 29132959 AAAAGTAATC * 29132969 AAAA-TTACCAAACTTAAAATA 1 AAAAGTTACCAAAATTAAAATA * * 29132990 AAAAGTTATCAAAATTAAATTA 1 AAAAGTTACCAAAATTAAAATA 29133012 AA 1 AA 29133014 GATTGTCAAA Statistics Matches: 20, Mismatches: 3, Indels: 1 0.83 0.12 0.04 Matches are distributed among these distances: 21 4 0.20 22 16 0.80 ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27 Consensus pattern (22 bp): AAAAGTTACCAAAATTAAAATA Found at i:29133002 original size:22 final size:21 Alignment explanation
Indices: 29132969--29133027 Score: 55 Period size: 22 Copynumber: 2.8 Consensus size: 21 29132959 AAAAGTAATC * 29132969 AAAATTACCAAACTTAAAATA 1 AAAATTACCAAAATTAAAATA * * 29132990 AAAAGTTATCAAAATTAAATTA 1 AAAA-TTACCAAAATTAAAATA * ** 29133012 AAGATTGTCAAAATTA 1 AAAATTACCAAAATTA 29133028 TATCAATAAT Statistics Matches: 32, Mismatches: 5, Indels: 2 0.82 0.13 0.05 Matches are distributed among these distances: 21 15 0.47 22 17 0.53 ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29 Consensus pattern (21 bp): AAAATTACCAAAATTAAAATA Found at i:29133040 original size:12 final size:11 Alignment explanation
Indices: 29132931--29133070 Score: 50 Period size: 10 Copynumber: 13.4 Consensus size: 11 29132921 TCCAAAATTT 29132931 TTATATCAAAA 1 TTATATCAAAA * 29132942 GT-TA-CAAAAA 1 TTATATC-AAAA 29132952 TTATATCAAAA 1 TTATATCAAAA * 29132963 GTA-ATCAAAA 1 TTATATCAAAA * * 29132973 -T-TACCAAAC 1 TTATATCAAAA * * 29132982 TTAAAATAAAAA 1 TT-ATATCAAAA * 29132994 GT-TATCAAAA 1 TTATATCAAAA * * 29133004 TTAAATTAAAGA 1 TTATATCAAA-A * 29133016 -T-TGTCAAAA 1 TTATATCAAAA 29133025 TTATATCAATAA 1 TTATATCAA-AA 29133037 TTAT-T-AAAA 1 TTATATCAAAA * * 29133046 TTATTTTAAAA 1 TTATATCAAAA * 29133057 TT-TACCAAAA 1 TTATATCAAAA 29133067 TTAT 1 TTAT 29133071 GTCGAATGTT Statistics Matches: 92, Mismatches: 22, Indels: 30 0.64 0.15 0.21 Matches are distributed among these distances: 9 14 0.15 10 37 0.40 11 28 0.30 12 13 0.14 ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34 Consensus pattern (11 bp): TTATATCAAAA Found at i:29133324 original size:10 final size:10 Alignment explanation
Indices: 29133284--29133333 Score: 50 Period size: 10 Copynumber: 5.1 Consensus size: 10 29133274 ATCAAATTTT 29133284 ATTATATCAA 1 ATTATATCAA * 29133294 A-TATTAACAA 1 ATTA-TATCAA * 29133304 ATTAT-TAAA 1 ATTATATCAA 29133313 ATTATATCAA 1 ATTATATCAA * 29133323 ATTTTATCAA 1 ATTATATCAA 29133333 A 1 A 29133334 ATTAAATTGA Statistics Matches: 32, Mismatches: 5, Indels: 6 0.74 0.12 0.14 Matches are distributed among these distances: 9 9 0.28 10 21 0.66 11 2 0.06 ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40 Consensus pattern (10 bp): ATTATATCAA Found at i:29133452 original size:21 final size:20 Alignment explanation
Indices: 29133422--29133508 Score: 75 Period size: 21 Copynumber: 4.2 Consensus size: 20 29133412 TATCAAAATT * * 29133422 ATTATATCAAATGTTATTATA 1 ATTATTTCAAA-GTTATTAAA * ** 29133443 ATTATTTCAAAGGTACCAAA 1 ATTATTTCAAAGTTATTAAA * * 29133463 ATTAATTCAATGGTTATTAAA 1 ATTATTTCAA-AGTTATTAAA * 29133484 ATTATTTCAAAGATTATTATA 1 ATTATTTCAAAG-TTATTAAA 29133505 ATTA 1 ATTA 29133509 AATTAAAAAC Statistics Matches: 51, Mismatches: 13, Indels: 4 0.75 0.19 0.06 Matches are distributed among these distances: 20 15 0.29 21 36 0.71 ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43 Consensus pattern (20 bp): ATTATTTCAAAGTTATTAAA Found at i:29143652 original size:27 final size:30 Alignment explanation
Indices: 29143587--29143662 Score: 88 Period size: 30 Copynumber: 2.6 Consensus size: 30 29143577 CAAACAAGAG * * 29143587 ATTAAGAATTTATTTAAGTGTAAATTAAAA 1 ATTAAAAATTTATTTAAATGTAAATTAAAA 29143617 ATTAAAAATTTATTTAAATGT-AA-T-AAA 1 ATTAAAAATTTATTTAAATGTAAATTAAAA * 29143644 A-TATAAAATTTATCTAAAT 1 ATTA-AAAATTTATTTAAAT 29143663 AACTCGATAA Statistics Matches: 42, Mismatches: 3, Indels: 5 0.84 0.06 0.10 Matches are distributed among these distances: 26 2 0.05 27 18 0.43 28 1 0.02 29 2 0.05 30 19 0.45 ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41 Consensus pattern (30 bp): ATTAAAAATTTATTTAAATGTAAATTAAAA Found at i:29145124 original size:23 final size:24 Alignment explanation
Indices: 29145093--29145139 Score: 62 Period size: 23 Copynumber: 2.0 Consensus size: 24 29145083 AAGGCGGTTT 29145093 CAGAGAAT-GTCTTGATTGAGGAAG 1 CAGAGAATGGT-TTGATTGAGGAAG * 29145117 CAGA-AATGGTTTGTTTGAGGAAG 1 CAGAGAATGGTTTGATTGAGGAAG 29145140 GTGGTTATGG Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 23 15 0.71 24 6 0.29 ACGTcount: A:0.32, C:0.06, G:0.34, T:0.28 Consensus pattern (24 bp): CAGAGAATGGTTTGATTGAGGAAG Found at i:29157720 original size:111 final size:111 Alignment explanation
Indices: 29157502--29157723 Score: 374 Period size: 112 Copynumber: 2.0 Consensus size: 111 29157492 GCACTAAATA * 29157502 AGAGCGTTGACAAAGTATCCTTGTGGGCCTACAATGAAAGGAATTGTGTATAGCTAACGTTAGTC 1 AGAGCGTTGACAAAGTATCCTTGTGGGCCTACAATGAAAGGAATTGAGTATAGCTAACGTTAGTC * 29157567 TTTTAAGTGTTATTATTCTCAAGCCTGTTTTAGCCACTGGCAATGC 66 TTTTAAGTGTTATTATTCTCAAGCCTGTTTTAGCCACCGGCAATGC * * * 29157613 AGAGCTGTTGACAAAGTATCCTTGTGGGCCTACAATGAAAGGGATTGAGTATAGCTAATGTTTGT 1 AGAGC-GTTGACAAAGTATCCTTGTGGGCCTACAATGAAAGGAATTGAGTATAGCTAACGTTAGT * 29157678 C-TTTAAGTGTTATTATTCTTAAGCCTGTTTTAGCCACCGGCAATGC 65 CTTTTAAGTGTTATTATTCTCAAGCCTGTTTTAGCCACCGGCAATGC 29157724 TTAAGTTGCA Statistics Matches: 104, Mismatches: 6, Indels: 2 0.93 0.05 0.02 Matches are distributed among these distances: 111 48 0.46 112 56 0.54 ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34 Consensus pattern (111 bp): AGAGCGTTGACAAAGTATCCTTGTGGGCCTACAATGAAAGGAATTGAGTATAGCTAACGTTAGTC TTTTAAGTGTTATTATTCTCAAGCCTGTTTTAGCCACCGGCAATGC Found at i:29164161 original size:17 final size:16 Alignment explanation
Indices: 29164137--29164190 Score: 72 Period size: 17 Copynumber: 3.2 Consensus size: 16 29164127 GCTTCGATGT 29164137 ATTTGATTAAAACTGG 1 ATTTGATTAAAACTGG * * 29164153 ATGTTGATTAAATAATGT 1 AT-TTGATTAAA-ACTGG 29164171 ATTTGATTAAAACTGG 1 ATTTGATTAAAACTGG 29164187 ATTT 1 ATTT 29164191 CAAAGAATAA Statistics Matches: 32, Mismatches: 4, Indels: 4 0.80 0.10 0.10 Matches are distributed among these distances: 16 9 0.28 17 18 0.56 18 5 0.16 ACGTcount: A:0.37, C:0.04, G:0.17, T:0.43 Consensus pattern (16 bp): ATTTGATTAAAACTGG Found at i:29183299 original size:35 final size:36 Alignment explanation
Indices: 29183232--29183304 Score: 130 Period size: 36 Copynumber: 2.1 Consensus size: 36 29183222 GGATTGAATA 29183232 AGGAGCTGCGCGGTAGTTACAAAATGAGAATTTGAG 1 AGGAGCTGCGCGGTAGTTACAAAATGAGAATTTGAG * 29183268 AGGAGCTGGGCGGTAGTTAC-AAATGAGAATTTGAG 1 AGGAGCTGCGCGGTAGTTACAAAATGAGAATTTGAG 29183303 AG 1 AG 29183305 AATATAGAAT Statistics Matches: 36, Mismatches: 1, Indels: 1 0.95 0.03 0.03 Matches are distributed among these distances: 35 17 0.47 36 19 0.53 ACGTcount: A:0.33, C:0.10, G:0.36, T:0.22 Consensus pattern (36 bp): AGGAGCTGCGCGGTAGTTACAAAATGAGAATTTGAG Found at i:29193524 original size:32 final size:32 Alignment explanation
Indices: 29193483--29193555 Score: 119 Period size: 32 Copynumber: 2.3 Consensus size: 32 29193473 CCCGATCTTG * * 29193483 AACAGAACCCATTCGACGTTTGCAGTAGCTTC 1 AACAGAACCCATTCGACGTTTGCAGCAGCTTA * 29193515 AACAGAACCCATTCGACTTTTGCAGCAGCTTA 1 AACAGAACCCATTCGACGTTTGCAGCAGCTTA 29193547 AACAGAACC 1 AACAGAACC 29193556 TGAACCCATT Statistics Matches: 38, Mismatches: 3, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 32 38 1.00 ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22 Consensus pattern (32 bp): AACAGAACCCATTCGACGTTTGCAGCAGCTTA Found at i:29193575 original size:38 final size:36 Alignment explanation
Indices: 29193487--29193596 Score: 120 Period size: 38 Copynumber: 3.1 Consensus size: 36 29193477 ATCTTGAACA * * 29193487 GAACCCATTCGACGTTTGCAGTAGCTT--C-AA-CA 1 GAACCCATTCGACGTTTGCAGCAGCTTAACAAACCT * 29193519 GAACCCATTCGACTTTTGCAGCAGCTTAAACAGAACCT 1 GAACCCATTCGACGTTTGCAGCAGCTT-AACA-AACCT * 29193557 GAACCCATTCGACGTTTGCAGCAACTTCAACAAAACCT 1 GAACCCATTCGACGTTTGCAGCAGCTT-AAC-AAACCT 29193595 GA 1 GA 29193597 TCTTGAACAG Statistics Matches: 65, Mismatches: 6, Indels: 8 0.82 0.08 0.10 Matches are distributed among these distances: 32 25 0.38 35 1 0.02 37 2 0.03 38 36 0.55 39 1 0.02 ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23 Consensus pattern (36 bp): GAACCCATTCGACGTTTGCAGCAGCTTAACAAACCT Found at i:29193681 original size:32 final size:32 Alignment explanation
Indices: 29193640--29193707 Score: 118 Period size: 32 Copynumber: 2.1 Consensus size: 32 29193630 TGCTCGTTCC 29193640 ACCCATTCGACGTTTGCAGCAGCTTCAACAGA 1 ACCCATTCGACGTTTGCAGCAGCTTCAACAGA * * 29193672 ACCCATTCGACGTTTGCAGTAGCTTTAACAGA 1 ACCCATTCGACGTTTGCAGCAGCTTCAACAGA 29193704 ACCC 1 ACCC 29193708 GATCTTGAAC Statistics Matches: 34, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 32 34 1.00 ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24 Consensus pattern (32 bp): ACCCATTCGACGTTTGCAGCAGCTTCAACAGA Found at i:29193730 original size:113 final size:116 Alignment explanation
Indices: 29193521--29193771 Score: 391 Period size: 113 Copynumber: 2.2 Consensus size: 116 29193511 CTTCAACAGA * * 29193521 ACCCATTCGACTTTTGCAGCAGCTTAAACAGAACCTGAACCCATTCGACGTTTGCAGCAACTTCA 1 ACCCATTCGACGTTTGCAGCAGCTT--ACA-AACCAGAACCCATTCGACGTTTGCAGCAACTTCA * 29193586 ACAAAACCTGATCTTGAACAGAACCCGATCCCTCAATGAAGCCCTGCTCGTTCC 63 ACAAAACCCGATCTTGAACAGAACCCGATCCCTCAATGAAGCCCTGCTCGTTCC * * * 29193640 ACCCATTCGACGTTTGCAGCAGCTT-C-AA-CAGAACCCATTCGACGTTTGCAGTAGCTTTAACA 1 ACCCATTCGACGTTTGCAGCAGCTTACAAACCAGAACCCATTCGACGTTTGCAGCAACTTCAACA * 29193702 GAACCCGATCTTGAACAGAACCCGATCCCTCAATGAAGCCCTGCTCGTTCC 66 AAACCCGATCTTGAACAGAACCCGATCCCTCAATGAAGCCCTGCTCGTTCC 29193753 ACCCATTCGACGTTTGCAG 1 ACCCATTCGACGTTTGCAG 29193772 TAGCACCCAT Statistics Matches: 125, Mismatches: 7, Indels: 6 0.91 0.05 0.04 Matches are distributed among these distances: 113 98 0.78 114 2 0.02 116 1 0.01 119 24 0.19 ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23 Consensus pattern (116 bp): ACCCATTCGACGTTTGCAGCAGCTTACAAACCAGAACCCATTCGACGTTTGCAGCAACTTCAACA AAACCCGATCTTGAACAGAACCCGATCCCTCAATGAAGCCCTGCTCGTTCC Found at i:29193852 original size:86 final size:87 Alignment explanation
Indices: 29193715--29193901 Score: 304 Period size: 86 Copynumber: 2.2 Consensus size: 87 29193705 CCCGATCTTG * 29193715 AACAGAACCCGATCCCTCAATGAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAGCACCC 1 AACAGAACCCGATCCCTCAAAGAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAGCACCC 29193780 ATTCGACGTTTGCAGCAGCTTC 66 ATTCGACGTTTGCAGCAGCTTC * * 29193802 AACAGAACTCGATCCCTCAAAGAAG-CCTGCTCGTTTCACCCATTCGACGTTTGCAGTAGCACCC 1 AACAGAACCCGATCCCTCAAAGAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAGCACCC * * 29193866 ATTCGACGTTTGCAGTAGCTTG 66 ATTCGACGTTTGCAGCAGCTTC * * 29193888 TACACAACCCGATC 1 AACAGAACCCGATC 29193902 TTGAACAGAA Statistics Matches: 92, Mismatches: 8, Indels: 1 0.91 0.08 0.01 Matches are distributed among these distances: 86 69 0.75 87 23 0.25 ACGTcount: A:0.25, C:0.34, G:0.18, T:0.24 Consensus pattern (87 bp): AACAGAACCCGATCCCTCAAAGAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGTAGCACCC ATTCGACGTTTGCAGCAGCTTC Found at i:29193868 original size:23 final size:23 Alignment explanation
Indices: 29193838--29193884 Score: 94 Period size: 23 Copynumber: 2.0 Consensus size: 23 29193828 CTGCTCGTTT 29193838 CACCCATTCGACGTTTGCAGTAG 1 CACCCATTCGACGTTTGCAGTAG 29193861 CACCCATTCGACGTTTGCAGTAG 1 CACCCATTCGACGTTTGCAGTAG 29193884 C 1 C 29193885 TTGTACACAA Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 23 24 1.00 ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26 Consensus pattern (23 bp): CACCCATTCGACGTTTGCAGTAG Found at i:29194136 original size:25 final size:25 Alignment explanation
Indices: 29194108--29194161 Score: 90 Period size: 25 Copynumber: 2.2 Consensus size: 25 29194098 GTTTAAATAA * * 29194108 GAATGCCTTAATTAAATACCTTTAT 1 GAATGCCTAAATTAAATACCCTTAT 29194133 GAATGCCTAAATTAAATACCCTTAT 1 GAATGCCTAAATTAAATACCCTTAT 29194158 GAAT 1 GAAT 29194162 ATTGTGGGGA Statistics Matches: 27, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 25 27 1.00 ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35 Consensus pattern (25 bp): GAATGCCTAAATTAAATACCCTTAT Found at i:29197669 original size:12 final size:12 Alignment explanation
Indices: 29197648--29197685 Score: 69 Period size: 12 Copynumber: 3.2 Consensus size: 12 29197638 TGTTGGTTTG 29197648 TTGT-AACTTAT 1 TTGTGAACTTAT 29197659 TTGTGAACTTAT 1 TTGTGAACTTAT 29197671 TTGTGAACTTAT 1 TTGTGAACTTAT 29197683 TTG 1 TTG 29197686 CTTGGATATT Statistics Matches: 26, Mismatches: 0, Indels: 1 0.96 0.00 0.04 Matches are distributed among these distances: 11 4 0.15 12 22 0.85 ACGTcount: A:0.24, C:0.08, G:0.16, T:0.53 Consensus pattern (12 bp): TTGTGAACTTAT Found at i:29197832 original size:3 final size:3 Alignment explanation
Indices: 29197826--29197884 Score: 82 Period size: 3 Copynumber: 19.7 Consensus size: 3 29197816 ATTATTATTA * * * * 29197826 TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TTA TTG TTG TTA TTA TTG 1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG 29197874 TTG TTG TTG TT 1 TTG TTG TTG TT 29197885 ATCTTGAAAA Statistics Matches: 50, Mismatches: 6, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 3 50 1.00 ACGTcount: A:0.07, C:0.00, G:0.25, T:0.68 Consensus pattern (3 bp): TTG Found at i:29197838 original size:9 final size:9 Alignment explanation
Indices: 29197810--29197886 Score: 91 Period size: 9 Copynumber: 8.6 Consensus size: 9 29197800 TGTTGTGTAA * 29197810 GTTATTATT 1 GTTATTGTT * * 29197819 ATTATTATT 1 GTTATTGTT * 29197828 GTTGTTGTT 1 GTTATTGTT * 29197837 GTTGTTGTT 1 GTTATTGTT 29197846 GTTATTGTT 1 GTTATTGTT 29197855 GTTATTGTT 1 GTTATTGTT * 29197864 GTTATTATT 1 GTTATTGTT * 29197873 GTTGTTGTT 1 GTTATTGTT 29197882 GTTAT 1 GTTAT 29197887 CTTGAAAATA Statistics Matches: 59, Mismatches: 9, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 9 59 1.00 ACGTcount: A:0.13, C:0.00, G:0.21, T:0.66 Consensus pattern (9 bp): GTTATTGTT Found at i:29198015 original size:23 final size:24 Alignment explanation
Indices: 29197959--29198017 Score: 77 Period size: 23 Copynumber: 2.5 Consensus size: 24 29197949 CTCGAGCTCG * 29197959 AATAATCGA-ATTTTTTTTAGTAT 1 AATAATCGAGCTTTTTTTTAGTAT * 29197982 AAAAATCGAGCTTTTTTTTA-TAT 1 AATAATCGAGCTTTTTTTTAGTAT * 29198005 ATTAATCGAGCTT 1 AATAATCGAGCTT 29198018 AATAGAGTGA Statistics Matches: 31, Mismatches: 4, Indels: 2 0.84 0.11 0.05 Matches are distributed among these distances: 23 22 0.71 24 9 0.29 ACGTcount: A:0.34, C:0.08, G:0.10, T:0.47 Consensus pattern (24 bp): AATAATCGAGCTTTTTTTTAGTAT Found at i:29202542 original size:3 final size:3 Alignment explanation
Indices: 29202531--29202577 Score: 58 Period size: 3 Copynumber: 15.7 Consensus size: 3 29202521 CTCATGATGA * * * * 29202531 TCT TGT TCT TCT TCT TCT TCT TCG TCC TCT TCT TCG TCT TCT TCT TC 1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC 29202578 AATAGCAAGG Statistics Matches: 37, Mismatches: 7, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 3 37 1.00 ACGTcount: A:0.00, C:0.34, G:0.06, T:0.60 Consensus pattern (3 bp): TCT Found at i:29202551 original size:12 final size:12 Alignment explanation
Indices: 29202531--29202577 Score: 67 Period size: 12 Copynumber: 3.9 Consensus size: 12 29202521 CTCATGATGA * * 29202531 TCTTGTTCTTCT 1 TCTTCTTCTTCG 29202543 TCTTCTTCTTCG 1 TCTTCTTCTTCG * 29202555 TCCTCTTCTTCG 1 TCTTCTTCTTCG 29202567 TCTTCTTCTTC 1 TCTTCTTCTTC 29202578 AATAGCAAGG Statistics Matches: 31, Mismatches: 4, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 12 31 1.00 ACGTcount: A:0.00, C:0.34, G:0.06, T:0.60 Consensus pattern (12 bp): TCTTCTTCTTCG Found at i:29207776 original size:63 final size:63 Alignment explanation
Indices: 29207677--29207796 Score: 222 Period size: 63 Copynumber: 1.9 Consensus size: 63 29207667 AAACTATTAG * 29207677 TTCACAACAATAGAATATCGATATTAAGATATTTGTATAATAACTCTTAAAATTTTGTTTTCC 1 TTCACAACAATAGAATATCAATATTAAGATATTTGTATAATAACTCTTAAAATTTTGTTTTCC * 29207740 TTCACAACAATTGAATATCAATATTAAGATATTTGTATAATAACTCTTAAAATTTTG 1 TTCACAACAATAGAATATCAATATTAAGATATTTGTATAATAACTCTTAAAATTTTG 29207797 CAAAGTAAAT Statistics Matches: 55, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 63 55 1.00 ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41 Consensus pattern (63 bp): TTCACAACAATAGAATATCAATATTAAGATATTTGTATAATAACTCTTAAAATTTTGTTTTCC Found at i:29211453 original size:2 final size:2 Alignment explanation
Indices: 29211446--29211471 Score: 52 Period size: 2 Copynumber: 13.0 Consensus size: 2 29211436 AGTACACCAT 29211446 TA TA TA TA TA TA TA TA TA TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA 29211472 AAGGATCAAG Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 24 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): TA Found at i:29211767 original size:22 final size:22 Alignment explanation
Indices: 29211733--29211774 Score: 66 Period size: 22 Copynumber: 1.9 Consensus size: 22 29211723 TATCAAAATT * 29211733 ATAAATATGTTATTTTTTTAAA 1 ATAAAAATGTTATTTTTTTAAA * 29211755 ATAAAAATTTTATTTTTTTA 1 ATAAAAATGTTATTTTTTTA 29211775 CTAACTAATC Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 22 18 1.00 ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57 Consensus pattern (22 bp): ATAAAAATGTTATTTTTTTAAA Found at i:29212181 original size:22 final size:22 Alignment explanation
Indices: 29212156--29212199 Score: 63 Period size: 22 Copynumber: 2.0 Consensus size: 22 29212146 AGTTTTTTCA * 29212156 TTTATTTATCATGA-TAGATTTT 1 TTTATTTAGCAT-ATTAGATTTT 29212178 TTTATTTAGCATATTAGATTTT 1 TTTATTTAGCATATTAGATTTT 29212200 GACAAAATTT Statistics Matches: 20, Mismatches: 1, Indels: 2 0.87 0.04 0.09 Matches are distributed among these distances: 21 1 0.05 22 19 0.95 ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59 Consensus pattern (22 bp): TTTATTTAGCATATTAGATTTT Found at i:29214209 original size:42 final size:42 Alignment explanation
Indices: 29214148--29214230 Score: 130 Period size: 42 Copynumber: 2.0 Consensus size: 42 29214138 TCGTGTTTCT ** * * 29214148 TTTGGAGTCAGAGCGGAGATTGTAGAGATAGGTAAATTGTAC 1 TTTGGAGTCAGAGAAGAGATAGTAGAGATAGATAAATTGTAC 29214190 TTTGGAGTCAGAGAAGAGATAGTAGAGATAGATAAATTGTA 1 TTTGGAGTCAGAGAAGAGATAGTAGAGATAGATAAATTGTA 29214231 TTTTCTTTTG Statistics Matches: 37, Mismatches: 4, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 42 37 1.00 ACGTcount: A:0.36, C:0.05, G:0.31, T:0.28 Consensus pattern (42 bp): TTTGGAGTCAGAGAAGAGATAGTAGAGATAGATAAATTGTAC Found at i:29219054 original size:8 final size:8 Alignment explanation
Indices: 29219043--29219078 Score: 54 Period size: 8 Copynumber: 4.5 Consensus size: 8 29219033 CTTTGTCAGT 29219043 TTGTCCTC 1 TTGTCCTC 29219051 TTGTCCTC 1 TTGTCCTC * 29219059 TTGTTCTC 1 TTGTCCTC * 29219067 TAGTCCTC 1 TTGTCCTC 29219075 TTGT 1 TTGT 29219079 AGATCTTGAA Statistics Matches: 24, Mismatches: 4, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 8 24 1.00 ACGTcount: A:0.03, C:0.31, G:0.14, T:0.53 Consensus pattern (8 bp): TTGTCCTC Found at i:29219613 original size:62 final size:63 Alignment explanation
Indices: 29219515--29219640 Score: 245 Period size: 62 Copynumber: 2.0 Consensus size: 63 29219505 GTATTATAAT 29219515 AATAATAAAAAAAGGATCAACTTATGTAGTATAAAATTAAAAAAATTTTACACATTTTTTTAA 1 AATAATAAAAAAAGGATCAACTTATGTAGTATAAAATTAAAAAAATTTTACACATTTTTTTAA 29219578 AATAA-AAAAAAAGGATCAACTTATGTAGTATAAAATTAAAAAAATTTTACACATTTTTTTAA 1 AATAATAAAAAAAGGATCAACTTATGTAGTATAAAATTAAAAAAATTTTACACATTTTTTTAA 29219640 A 1 A 29219641 CATTGATTTC Statistics Matches: 63, Mismatches: 0, Indels: 1 0.98 0.00 0.02 Matches are distributed among these distances: 62 58 0.92 63 5 0.08 ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34 Consensus pattern (63 bp): AATAATAAAAAAAGGATCAACTTATGTAGTATAAAATTAAAAAAATTTTACACATTTTTTTAA Found at i:29222704 original size:30 final size:30 Alignment explanation
Indices: 29222669--29222778 Score: 125 Period size: 30 Copynumber: 3.7 Consensus size: 30 29222659 TCAACATTCC * 29222669 AAACCATAAAATTGAAACCCTAAACCCT-A 1 AAACCATAAAATCGAAACCCTAAACCCTCA * * 29222698 CAAACCATAAAATCAAAATCCTAAACCCTCA 1 -AAACCATAAAATCGAAACCCTAAACCCTCA * * * 29222729 AAACCCTAAAATCGAAACCTTAAACACTCA 1 AAACCATAAAATCGAAACCCTAAACCCTCA * * 29222759 AAACCTTAAAAT-TAAACCCT 1 AAACCATAAAATCGAAACCCT 29222779 TCAAAAGCTT Statistics Matches: 68, Mismatches: 11, Indels: 3 0.83 0.13 0.04 Matches are distributed among these distances: 29 6 0.09 30 61 0.90 31 1 0.01 ACGTcount: A:0.51, C:0.29, G:0.02, T:0.18 Consensus pattern (30 bp): AAACCATAAAATCGAAACCCTAAACCCTCA Found at i:29222724 original size:51 final size:51 Alignment explanation
Indices: 29222624--29222724 Score: 132 Period size: 51 Copynumber: 2.0 Consensus size: 51 29222614 CTTCAAATCC * * * * * 29222624 TAAAATCGAAATCCTAAATCCTTCAAACCCTAAAATCAACATTCCAAACCA 1 TAAAATCGAAACCCTAAACCCTACAAACCATAAAATCAACAATCCAAACCA * 29222675 TAAAATTGAAACCCTAAACCCTACAAACCATAAAATCAA-AATCCTAAACC 1 TAAAATCGAAACCCTAAACCCTACAAACCATAAAATCAACAATCC-AAACC 29222725 CTCAAAACCC Statistics Matches: 43, Mismatches: 6, Indels: 2 0.84 0.12 0.04 Matches are distributed among these distances: 50 4 0.09 51 39 0.91 ACGTcount: A:0.50, C:0.29, G:0.02, T:0.20 Consensus pattern (51 bp): TAAAATCGAAACCCTAAACCCTACAAACCATAAAATCAACAATCCAAACCA Found at i:29222764 original size:16 final size:16 Alignment explanation
Indices: 29222710--29222768 Score: 61 Period size: 16 Copynumber: 3.8 Consensus size: 16 29222700 AACCATAAAA * 29222710 TCAAAATCC-TAAACCC 1 TCAAAA-CCTTAAACAC * 29222726 TCAAAACCCTAAA-A- 1 TCAAAACCTTAAACAC * 29222740 TCGAAACCTTAAACAC 1 TCAAAACCTTAAACAC 29222756 TCAAAACCTTAAA 1 TCAAAACCTTAAA 29222769 ATTAAACCCT Statistics Matches: 36, Mismatches: 4, Indels: 6 0.78 0.09 0.13 Matches are distributed among these distances: 14 11 0.31 15 3 0.08 16 22 0.61 ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19 Consensus pattern (16 bp): TCAAAACCTTAAACAC Found at i:29222773 original size:22 final size:23 Alignment explanation
Indices: 29222748--29222797 Score: 75 Period size: 23 Copynumber: 2.2 Consensus size: 23 29222738 AATCGAAACC 29222748 TTAAACAC-TCAAAACCTTAAAA 1 TTAAACACTTCAAAACCTTAAAA * * 29222770 TTAAACCCTTCAAAAGCTTAAAA 1 TTAAACACTTCAAAACCTTAAAA 29222793 TTAAA 1 TTAAA 29222798 ATCCTAAAAC Statistics Matches: 25, Mismatches: 2, Indels: 1 0.89 0.07 0.04 Matches are distributed among these distances: 22 7 0.28 23 18 0.72 ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26 Consensus pattern (23 bp): TTAAACACTTCAAAACCTTAAAA Found at i:29222875 original size:21 final size:21 Alignment explanation
Indices: 29222851--29222910 Score: 68 Period size: 21 Copynumber: 2.8 Consensus size: 21 29222841 TCAAAATCCT 29222851 AAACCCCAAACCTTAAAAATA 1 AAACCCCAAACCTTAAAAATA * * 29222872 AAACCTCAAATCC-TAAAATTA 1 AAACCCCAAA-CCTTAAAAATA * 29222893 AAACCCTAAAACCTTAAA 1 AAACCC-CAAACCTTAAA 29222911 CCCTCTAAAC Statistics Matches: 32, Mismatches: 4, Indels: 5 0.78 0.10 0.12 Matches are distributed among these distances: 21 23 0.72 22 9 0.28 ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18 Consensus pattern (21 bp): AAACCCCAAACCTTAAAAATA Found at i:29222954 original size:21 final size:22 Alignment explanation
Indices: 29222930--29222976 Score: 53 Period size: 21 Copynumber: 2.2 Consensus size: 22 29222920 CCTTAAAATC * * 29222930 AAAACCCCAAACCC-AAACCTT 1 AAAACCCAAAACCCTAAACCCT * 29222951 AAAA-TCAAAACCCTAAACCCT 1 AAAACCCAAAACCCTAAACCCT 29222972 AAAAC 1 AAAAC 29222977 TAAAACCTCA Statistics Matches: 21, Mismatches: 3, Indels: 3 0.78 0.11 0.11 Matches are distributed among these distances: 20 7 0.33 21 14 0.67 ACGTcount: A:0.53, C:0.36, G:0.00, T:0.11 Consensus pattern (22 bp): AAAACCCAAAACCCTAAACCCT Found at i:29222961 original size:14 final size:14 Alignment explanation
Indices: 29222699--29222967 Score: 94 Period size: 14 Copynumber: 18.7 Consensus size: 14 29222689 TAAACCCTAC * 29222699 AAACCATAAAATCA 1 AAACCTTAAAATCA * 29222713 AAATCC-TAAACCCTCA 1 AAA-CCTTAAA--ATCA * * 29222729 AAACCCTAAAATCG 1 AAACCTTAAAATCA 29222743 AAACCTTAAACACTCA 1 AAACCTTAAA-A-TCA * 29222759 AAACCTTAAAATTA 1 AAACCTTAAAATCA * * 29222773 AACCCTTCAAAAGCTTA 1 AAACCTT-AAAA--TCA 29222790 AAA--TTAAAATCCTA 1 AAACCTTAAAAT-C-A 29222804 AAA-CTCTAAAATCA 1 AAACCT-TAAAATCA * * 29222818 AAACC-T-AAACCC 1 AAACCTTAAAATCA 29222830 AAACCTTAAAATCA 1 AAACCTTAAAATCA ** * 29222844 AAATCC-TAAACCCC 1 AAA-CCTTAAAATCA 29222858 AAACCTTAAAAAT-A 1 AAACCTT-AAAATCA * 29222872 AAACC-TCAAATCCTA 1 AAACCTTAAAAT-C-A * 29222887 AAA--TTAAAACCCTA 1 AAACCTTAAAA-TC-A * * 29222901 AAACCTTAAACCCTCT 1 AAACCTTAAA--ATCA 29222917 AAACCTTAAAATCA 1 AAACCTTAAAATCA ** * * 29222931 AAACC-CCAAACCC 1 AAACCTTAAAATCA 29222944 AAACCTTAAAATCA 1 AAACCTTAAAATCA * 29222958 AAACCCTAAA 1 AAACCTTAAA 29222968 CCCTAAAACT Statistics Matches: 190, Mismatches: 36, Indels: 58 0.67 0.13 0.20 Matches are distributed among these distances: 12 14 0.07 13 14 0.07 14 89 0.47 15 24 0.13 16 43 0.23 17 6 0.03 ACGTcount: A:0.52, C:0.28, G:0.01, T:0.19 Consensus pattern (14 bp): AAACCTTAAAATCA Found at i:29222981 original size:21 final size:20 Alignment explanation
Indices: 29222938--29223017 Score: 74 Period size: 21 Copynumber: 3.9 Consensus size: 20 29222928 TCAAAACCCC * 29222938 AAACCC-AAACCTTAAAATCA 1 AAACCCTAAACCCTAAAAT-A 29222958 AAACCCTAAACCCTAAAACTA 1 AAACCCTAAACCCTAAAA-TA * * 29222979 AAA-CCTCAAATCCTAAAATTG 1 AAACCCT-AAACCCTAAAA-TA 29223000 AAACCCTATAACCCTAAA 1 AAACCCTA-AACCCTAAA 29223018 CCTTCTAAAC Statistics Matches: 50, Mismatches: 5, Indels: 8 0.79 0.08 0.13 Matches are distributed among these distances: 20 9 0.18 21 29 0.58 22 12 0.24 ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17 Consensus pattern (20 bp): AAACCCTAAACCCTAAAATA Found at i:29222981 original size:27 final size:28 Alignment explanation
Indices: 29222800--29222974 Score: 173 Period size: 27 Copynumber: 6.2 Consensus size: 28 29222790 AAATTAAAAT * 29222800 CCTAAAACTCTAAAATCAAAA-CCTAAAC 1 CCTAAACCT-TAAAATCAAAACCCTAAAC * 29222828 CC-AAACCTTAAAATCAAAATCCTAAAC 1 CCTAAACCTTAAAATCAAAACCCTAAAC * * 29222855 CCCAAACCTTAAAAAT-AAAA-CCTCAAAT 1 CCTAAACCTT-AAAATCAAAACCCT-AAAC * * * 29222883 CCTAAA-ATTAAAACCCTAAAACCTTAAACC 1 CCTAAACCTTAAAA-TC-AAAACCCTAAA-C * 29222913 CTCTAAACCTTAAAATCAAAACCCCAAAC 1 C-CTAAACCTTAAAATCAAAACCCTAAAC 29222942 CC-AAACCTTAAAATCAAAACCCTAAAC 1 CCTAAACCTTAAAATCAAAACCCTAAAC 29222969 CCTAAA 1 CCTAAA 29222975 ACTAAAACCT Statistics Matches: 123, Mismatches: 12, Indels: 24 0.77 0.08 0.15 Matches are distributed among these distances: 26 15 0.12 27 45 0.37 28 25 0.20 29 14 0.11 30 12 0.10 31 6 0.05 32 6 0.05 ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18 Consensus pattern (28 bp): CCTAAACCTTAAAATCAAAACCCTAAAC Found at i:29223049 original size:107 final size:109 Alignment explanation
Indices: 29222804--29223050 Score: 329 Period size: 107 Copynumber: 2.2 Consensus size: 109 29222794 TAAAATCCTA * * 29222804 AAACTCTAAAATCAAAACCTAAACCCAAACCTTAAAATCAAAATCCTAAACCCCAAACCTTAAAA 1 AAACCCTAAAATCAAAACCTAAACCCAAACCTTAAAATCAAAACCCTAAA--CC--ACCTTAAAA * 29222869 ATAAAACCTCAAATCCTAAAATTAAAACCCTAAAACCTTAAACCCTCT 62 ATAAAACCTCAAATCCTAAAATTAAAACCCTAAAACCCTAAACCCTCT * * * 29222917 AAACCTTAAAATCAAAACCCCAAACCCAAACCTTAAAATCAAAACCCTAAA-C-CC-TAAAACTA 1 AAACCCTAAAATCAAAA-CCTAAACCCAAACCTTAAAATCAAAACCCTAAACCACCTTAAAAATA * * * 29222979 AAACCTCAAATCCTAAAATTGAAACCCTATAACCCTAAACCTTCT 65 AAACCTCAAATCCTAAAATTAAAACCCTAAAACCCTAAACCCTCT * 29223024 AAACCCTGAAATCAAAACCTTAAACCC 1 AAACCCTAAAATCAAAACC-TAAACCC 29223051 TCTAAATCCT Statistics Matches: 120, Mismatches: 12, Indels: 10 0.85 0.08 0.07 Matches are distributed among these distances: 106 2 0.02 107 69 0.57 108 2 0.02 111 1 0.01 113 15 0.12 114 31 0.26 ACGTcount: A:0.50, C:0.31, G:0.01, T:0.19 Consensus pattern (109 bp): AAACCCTAAAATCAAAACCTAAACCCAAACCTTAAAATCAAAACCCTAAACCACCTTAAAAATAA AACCTCAAATCCTAAAATTAAAACCCTAAAACCCTAAACCCTCT Found at i:29234961 original size:35 final size:36 Alignment explanation
Indices: 29234879--29234963 Score: 100 Period size: 36 Copynumber: 2.4 Consensus size: 36 29234869 CTGGTCACAT * * * * * * 29234879 TTATTCTTTAACTCATAGTTTAATCTTAGTCATTTT 1 TTATTTTTTGACTCATAGTTCAATCTCAATCATTTA * 29234915 TTATTTTTTGACTCATTGTTCAATCTCAATCA-TTA 1 TTATTTTTTGACTCATAGTTCAATCTCAATCATTTA 29234950 TTATTTTTTGACTC 1 TTATTTTTTGACTC 29234964 GCGATATAAT Statistics Matches: 42, Mismatches: 7, Indels: 1 0.84 0.14 0.02 Matches are distributed among these distances: 35 16 0.38 36 26 0.62 ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55 Consensus pattern (36 bp): TTATTTTTTGACTCATAGTTCAATCTCAATCATTTA Found at i:29235149 original size:70 final size:70 Alignment explanation
Indices: 29235036--29235169 Score: 162 Period size: 70 Copynumber: 1.9 Consensus size: 70 29235026 CTCTAACTCG * * * * 29235036 TAGTTCAATCCTGGTTGTCATTATACTCTGACTCACGATTTAATCTTGGTTATTTTTATTTTTTG 1 TAGTTCAATCCTAGTTGTCATTATACTCTGACTCACGATTTAATCATAGTCATTTTTATTTTTTG 29235101 ATTCA 66 ATTCA ** * * * * 29235106 TAGTTCAATCCTAGTTGTTGTTATTCTTTGACTCATGGA-TTAATCATAGTCGTTTTTATTTTTT 1 TAGTTCAATCCTAGTTGTCATTATACTCTGACTCA-CGATTTAATCATAGTCATTTTTATTTTTT 29235170 TGACTCGCGG Statistics Matches: 53, Mismatches: 10, Indels: 2 0.82 0.15 0.03 Matches are distributed among these distances: 70 51 0.96 71 2 0.04 ACGTcount: A:0.21, C:0.14, G:0.13, T:0.51 Consensus pattern (70 bp): TAGTTCAATCCTAGTTGTCATTATACTCTGACTCACGATTTAATCATAGTCATTTTTATTTTTTG ATTCA Found at i:29235165 original size:35 final size:35 Alignment explanation
Indices: 29234842--29235175 Score: 106 Period size: 35 Copynumber: 9.5 Consensus size: 35 29234832 GTACCTAATC * * * * ** 29234842 TTTTATTTTTTGACTCACAGCTCAATCCTGGTCAC 1 TTTTATTTTTTGACTCATAGTTCAATCATAGTCGT * * * * * * 29234877 ATTTATTCTTTAACTCATAGTTTAATCTTAGTCATT 1 TTTTATTTTTTGACTCATAGTTCAATCATAGTC-GT * * * 29234913 TTTTATTTTTTGACTCATTGTTCAATC-TCAATCAT 1 TTTTATTTTTTGACTCATAGTTCAATCAT-AGTCGT * ** * 29234948 TATTATTTTTTGACTCGCGATA--T-AATCCCAGTTGT 1 TTTTATTTTTTGACT--C-ATAGTTCAATCATAGTCGT * * * * * 29234983 TGTTATTCTTTGACTTATAATTCAAT-ATCGATCGT 1 TTTTATTTTTTGACTCATAGTTCAATCATAG-TCGT * * * * * * 29235018 TTTTATTTCTCTAACTCGTAGTTCAATCCTGGTTGT 1 TTTTATTT-TTTGACTCATAGTTCAATCATAGTCGT ** ** * * * * * ** 29235054 CATTATACTCTGACTCA-CGATTTAATCTTGGTTAT 1 TTTTATTTTTTGACTCATAG-TTCAATCATAGTCGT * * * 29235089 TTTTATTTTTTGATTCATAGTTCAATCCTAGTTGT 1 TTTTATTTTTTGACTCATAGTTCAATCATAGTCGT * * * 29235124 TGTTATTCTTTGACTCATGGATT-AATCATAGTCGT 1 TTTTATTTTTTGACTCATAG-TTCAATCATAGTCGT 29235159 TTTTATTTTTTTGACTC 1 TTTTA-TTTTTTGACTC 29235176 GCGGTTCAAT Statistics Matches: 214, Mismatches: 69, Indels: 31 0.68 0.22 0.10 Matches are distributed among these distances: 32 3 0.01 34 3 0.01 35 144 0.67 36 59 0.28 37 3 0.01 38 2 0.01 ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50 Consensus pattern (35 bp): TTTTATTTTTTGACTCATAGTTCAATCATAGTCGT Found at i:29235456 original size:32 final size:33 Alignment explanation
Indices: 29235405--29235494 Score: 85 Period size: 35 Copynumber: 2.7 Consensus size: 33 29235395 TGGTCATTTT * * 29235405 TTTTTCTGACTTACGGTTTAATC-ATA-ATTGTTA 1 TTTTT-TGACTCACAGTTTAATCTA-ACATTGTTA 29235438 TTTTTTGACTCACAGTTTAATCTAAGCCATTGTTA 1 TTTTTTGACTCACAGTTTAATCTAA--CATTGTTA * * * 29235473 TTCTCTAACTCACAGTTTAATC 1 TTTTTTGACTCACAGTTTAATC 29235495 CCAGTCGTTT Statistics Matches: 48, Mismatches: 5, Indels: 6 0.81 0.08 0.10 Matches are distributed among these distances: 32 16 0.33 33 6 0.12 35 26 0.54 ACGTcount: A:0.26, C:0.18, G:0.10, T:0.47 Consensus pattern (33 bp): TTTTTTGACTCACAGTTTAATCTAACATTGTTA Found at i:29235470 original size:35 final size:35 Alignment explanation
Indices: 29235431--29235518 Score: 104 Period size: 35 Copynumber: 2.5 Consensus size: 35 29235421 TTTAATCATA * 29235431 ATTGTTATTTTTTGACTCACAGTTTAATCTAAGCC 1 ATTGTTATTTTTTGACTCACAGTTTAATCCAAGCC * * * * * 29235466 ATTGTTATTCTCTAACTCACAGTTTAATCCCAGTC 1 ATTGTTATTTTTTGACTCACAGTTTAATCCAAGCC * * 29235501 GTTTTTATTTTTTGACTC 1 ATTGTTATTTTTTGACTC 29235519 GCGATTCAAT Statistics Matches: 42, Mismatches: 11, Indels: 0 0.79 0.21 0.00 Matches are distributed among these distances: 35 42 1.00 ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48 Consensus pattern (35 bp): ATTGTTATTTTTTGACTCACAGTTTAATCCAAGCC Found at i:29235613 original size:35 final size:35 Alignment explanation
Indices: 29235574--29235651 Score: 102 Period size: 35 Copynumber: 2.2 Consensus size: 35 29235564 TCAGTTATCA * ** 29235574 TTATTCTCTGACTTGCAATTTAATCTTGGTTGTTT 1 TTATTCTCTGACTCGCAATTTAATCACGGTTGTTT * * 29235609 TTATTTTCTGACTCGCAGTTTAATCACGGTTGTTT 1 TTATTCTCTGACTCGCAATTTAATCACGGTTGTTT 29235644 TATATTCT 1 T-TATTCT 29235652 GTCATAGTTC Statistics Matches: 36, Mismatches: 6, Indels: 1 0.84 0.14 0.02 Matches are distributed among these distances: 35 31 0.86 36 5 0.14 ACGTcount: A:0.18, C:0.15, G:0.14, T:0.53 Consensus pattern (35 bp): TTATTCTCTGACTCGCAATTTAATCACGGTTGTTT Found at i:29235645 original size:104 final size:102 Alignment explanation
Indices: 29235501--29235723 Score: 238 Period size: 102 Copynumber: 2.2 Consensus size: 102 29235491 AATCCCAGTC * * * * * 29235501 GTTTTTATTTTTTGACTCGCGATTCAATCCCGATCTTTTTATTTTCTGACTTATGGTTCAATCTC 1 GTTTTTATTTTTTGACTCGCGATTCAATCACGATCTTTTTATATTCTG--TCATAGTTCAAAC-C * * * 29235566 AG-TTATCATTATTCTCTGACTTGCAATTTAATCTT-GGTT 63 AGATTATCATTATTCTCTGACTCGCAATTTAAT-TTCGATA * * * * 29235605 GTTTTTATTTTCTGACTCGC-AGTTTAATCACGGT-TGTTTTATATTCTGTCATAGTTCAAACCT 1 GTTTTTATTTTTTGACTCGCGA-TTCAATCACGATCT-TTTTATATTCTGTCATAGTTCAAACCA * * 29235668 GATTGTCATTATTCTCTGACTCGCGATTTAATTTCGATA 64 GATTATCATTATTCTCTGACTCGCAATTTAATTTCGATA 29235707 GTTTTTATTTTTTGACT 1 GTTTTTATTTTTTGACT 29235724 TTTGGTTCAA Statistics Matches: 100, Mismatches: 15, Indels: 10 0.80 0.12 0.08 Matches are distributed among these distances: 101 4 0.04 102 55 0.55 103 2 0.02 104 39 0.39 ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50 Consensus pattern (102 bp): GTTTTTATTTTTTGACTCGCGATTCAATCACGATCTTTTTATATTCTGTCATAGTTCAAACCAGA TTATCATTATTCTCTGACTCGCAATTTAATTTCGATA Found at i:29235761 original size:20 final size:20 Alignment explanation
Indices: 29235732--29235771 Score: 71 Period size: 20 Copynumber: 2.0 Consensus size: 20 29235722 CTTTTGGTTC * 29235732 AATCTTGATCGTCTTTATTT 1 AATCTCGATCGTCTTTATTT 29235752 AATCTCGATCGTCTTTATTT 1 AATCTCGATCGTCTTTATTT 29235772 TTTGACTTAC Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 20 19 1.00 ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53 Consensus pattern (20 bp): AATCTCGATCGTCTTTATTT Found at i:29237378 original size:3 final size:3 Alignment explanation
Indices: 29237370--29237427 Score: 116 Period size: 3 Copynumber: 19.3 Consensus size: 3 29237360 TTGTTATTTT 29237370 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA 1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA 29237418 ATA ATA ATA A 1 ATA ATA ATA A 29237428 CGATGATGAT Statistics Matches: 55, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 55 1.00 ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33 Consensus pattern (3 bp): ATA Found at i:29237974 original size:7 final size:7 Alignment explanation
Indices: 29237950--29237989 Score: 53 Period size: 7 Copynumber: 5.4 Consensus size: 7 29237940 TTTTAAATTG 29237950 AAACCCT 1 AAACCCT * 29237957 AAAACCT 1 AAACCCT 29237964 AAACCCT 1 AAACCCT 29237971 AAACCCTTT 1 AAACCC--T 29237980 AAACCCT 1 AAACCCT 29237987 AAA 1 AAA 29237990 ATCAAAATTC Statistics Matches: 29, Mismatches: 2, Indels: 4 0.83 0.06 0.11 Matches are distributed among these distances: 7 22 0.76 9 7 0.24 ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17 Consensus pattern (7 bp): AAACCCT Found at i:29238043 original size:28 final size:27 Alignment explanation
Indices: 29237978--29238051 Score: 80 Period size: 28 Copynumber: 2.7 Consensus size: 27 29237968 CCTAAACCCT * 29237978 TTAAACCCTAAAATCAAAATTCTAAAC 1 TTAAACCTTAAAATCAAAATTCTAAAC * * 29238005 TCCAAATCTTAAAATCAAAA-TCATAAACC 1 T-TAAACCTTAAAATCAAAATTC-TAAA-C 29238034 TTAAACCTTAAAA-CAAAA 1 TTAAACCTTAAAATCAAAA 29238052 ACCCTAAATC Statistics Matches: 39, Mismatches: 5, Indels: 6 0.78 0.10 0.12 Matches are distributed among these distances: 27 8 0.21 28 29 0.74 29 2 0.05 ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24 Consensus pattern (27 bp): TTAAACCTTAAAATCAAAATTCTAAAC Found at i:29238112 original size:38 final size:39 Alignment explanation
Indices: 29238056--29238131 Score: 118 Period size: 38 Copynumber: 2.0 Consensus size: 39 29238046 ACAAAAACCC * * 29238056 TAAATCCTAAAATTGAAACCCTAAAACCT-TAAACCTTT 1 TAAACCCTAAAATCGAAACCCTAAAACCTCTAAACCTTT * 29238094 TAAACCCTAAAATCGAAACCTTAAAACCTCTAAACCTT 1 TAAACCCTAAAATCGAAACCCTAAAACCTCTAAACCTT 29238132 AAAAAACTAA Statistics Matches: 34, Mismatches: 3, Indels: 1 0.89 0.08 0.03 Matches are distributed among these distances: 38 26 0.76 39 8 0.24 ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26 Consensus pattern (39 bp): TAAACCCTAAAATCGAAACCCTAAAACCTCTAAACCTTT Found at i:29238113 original size:30 final size:30 Alignment explanation
Indices: 29238079--29238135 Score: 80 Period size: 30 Copynumber: 1.9 Consensus size: 30 29238069 TGAAACCCTA * 29238079 AAACCTT-AAACCTTTTAAACCCTAAAATCG 1 AAACCTTAAAACC-TCTAAACCCTAAAATCG * 29238109 AAACCTTAAAACCTCTAAACCTTAAAA 1 AAACCTTAAAACCTCTAAACCCTAAAA 29238136 AACTAAAAAT Statistics Matches: 24, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 30 19 0.79 31 5 0.21 ACGTcount: A:0.47, C:0.26, G:0.02, T:0.25 Consensus pattern (30 bp): AAACCTTAAAACCTCTAAACCCTAAAATCG Found at i:29238122 original size:8 final size:8 Alignment explanation
Indices: 29238029--29238229 Score: 63 Period size: 8 Copynumber: 26.2 Consensus size: 8 29238019 TCAAAATCAT 29238029 AAACCTT- 1 AAACCTTA 29238036 AAACCTTA 1 AAACCTTA * 29238044 AAA-C-AA 1 AAACCTTA * 29238050 AAACCCTA 1 AAACCTTA * 29238058 AATCC-TA 1 AAACCTTA * 29238065 AAA--TTG 1 AAACCTTA * 29238071 AAACCCTA 1 AAACCTTA 29238079 AAACCTT- 1 AAACCTTA * 29238086 AAACCTTTT 1 AAACC-TTA * 29238095 AAACCCTA 1 AAACCTTA ** 29238103 AAA--TCG 1 AAACCTTA 29238109 AAACCTTA 1 AAACCTTA 29238117 AAACCTCT- 1 AAACCT-TA 29238125 AAACCTTAA 1 AAACCTT-A * 29238134 AAAAC-TA 1 AAACCTTA ** 29238141 AAAATTCTA 1 AAACCT-TA * 29238150 AAATCTT- 1 AAACCTTA * 29238157 AAACCTTC 1 AAACCTTA 29238165 AAA--TTA 1 AAACCTTA 29238171 AAACCTTA 1 AAACCTTA * * 29238179 AAATCTCA 1 AAACCTTA * 29238187 AAA-CTCA 1 AAACCTTA ** 29238194 AAAAATTAA 1 AAACCTT-A * 29238203 AAACTTTTA 1 AAAC-CTTA 29238212 AAACCTTA 1 AAACCTTA 29238220 AAACCTTA 1 AAACCTTA 29238228 AA 1 AA 29238230 CCCAATACCA Statistics Matches: 145, Mismatches: 28, Indels: 41 0.68 0.13 0.19 Matches are distributed among these distances: 6 16 0.11 7 37 0.26 8 65 0.45 9 25 0.17 10 2 0.01 ACGTcount: A:0.52, C:0.22, G:0.01, T:0.25 Consensus pattern (8 bp): AAACCTTA Found at i:29238142 original size:38 final size:38 Alignment explanation
Indices: 29238062--29238143 Score: 103 Period size: 38 Copynumber: 2.2 Consensus size: 38 29238052 ACCCTAAATC * * ** 29238062 CTAAAATTGAAACCCTAAAACCTTAAACCTTTTAAACC 1 CTAAAATCGAAACCCTAAAACCTTAAACCTTTAAAAAA * 29238100 CTAAAATCGAAACCTTAAAACCTCTAAACC-TTAAAAAA 1 CTAAAATCGAAACCCTAAAACCT-TAAACCTTTAAAAAA 29238138 CTAAAA 1 CTAAAA 29238144 ATTCTAAAAT Statistics Matches: 38, Mismatches: 5, Indels: 2 0.84 0.11 0.04 Matches are distributed among these distances: 38 32 0.84 39 6 0.16 ACGTcount: A:0.50, C:0.24, G:0.02, T:0.23 Consensus pattern (38 bp): CTAAAATCGAAACCCTAAAACCTTAAACCTTTAAAAAA Found at i:29238159 original size:62 final size:62 Alignment explanation
Indices: 29238093--29238311 Score: 153 Period size: 62 Copynumber: 3.6 Consensus size: 62 29238083 CTTAAACCTT * * * * 29238093 TTAAACCCTAAAATCGAAACCTTAAAACCTCTAAACCTTAAAAAACTAAAAA-TTCTAAAATC 1 TTAAACCCTAAAATCAAAACCTTAAAACCTC-AAAACTCAAAAAACTAAAAACTTCTAAAACC * * * * * * 29238155 TTAAACCTTCAAATTAAAACCTTAAAATCTCAAAACTCAAAAAATTAAAAACTTTTAAAACC 1 TTAAACCCTAAAATCAAAACCTTAAAACCTCAAAACTCAAAAAACTAAAAACTTCTAAAACC * ** * * * * * * 29238217 TTAAAACCTTAAACCCAATACCAT-AAACCTCCAAAACCCTAAAATCT-AAAAC--CTAAAACT 1 TT-AAACCCTAAAATCAAAACCTTAAAACCT-CAAAACTCAAAAAACTAAAAACTTCTAAAACC *** * 29238277 TTAAATTTTAAAATTCAAAACC-TAAAACCCCAAAA 1 TTAAACCCTAAAA-TCAAAACCTTAAAACCTCAAAA 29238312 TTGGTACGCA Statistics Matches: 123, Mismatches: 29, Indels: 13 0.75 0.18 0.08 Matches are distributed among these distances: 59 14 0.11 60 19 0.15 61 17 0.14 62 46 0.37 63 27 0.22 ACGTcount: A:0.52, C:0.23, G:0.00, T:0.24 Consensus pattern (62 bp): TTAAACCCTAAAATCAAAACCTTAAAACCTCAAAACTCAAAAAACTAAAAACTTCTAAAACC Found at i:29240505 original size:63 final size:63 Alignment explanation
Indices: 29240425--29240574 Score: 176 Period size: 63 Copynumber: 2.4 Consensus size: 63 29240415 TGGTGCCACT * * * 29240425 CCCCGGCGTTCCTTTCCCTGTATTCACATGTACTCCACCGTTTCCAACATTCACAGAAGTACC 1 CCCCGGCTTTCCCTTCCCTGTATTCACATGTACTACACCGTTTCCAACATTCACAGAAGTACC * * * * * * * 29240488 CCCCGGCTTTCCCTTCCCAGTGTTTACATTTACTACGCCTTTTCCAACATTCACAGAAGTGCC 1 CCCCGGCTTTCCCTTCCCTGTATTCACATGTACTACACCGTTTCCAACATTCACAGAAGTACC * * 29240551 CCCAGG-TTTCCCTTTTCCTGTATT 1 CCCCGGCTTTCCC-TTCCCTGTATT 29240575 GACGTTTGCA Statistics Matches: 72, Mismatches: 14, Indels: 2 0.82 0.16 0.02 Matches are distributed among these distances: 62 6 0.08 63 66 0.92 ACGTcount: A:0.18, C:0.37, G:0.13, T:0.33 Consensus pattern (63 bp): CCCCGGCTTTCCCTTCCCTGTATTCACATGTACTACACCGTTTCCAACATTCACAGAAGTACC Found at i:29244504 original size:2 final size:2 Alignment explanation
Indices: 29244497--29244525 Score: 58 Period size: 2 Copynumber: 14.5 Consensus size: 2 29244487 GATTGTTGCT 29244497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 29244526 GTGTGTGTGT Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 27 1.00 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (2 bp): TA Found at i:29245606 original size:40 final size:41 Alignment explanation
Indices: 29245548--29245642 Score: 147 Period size: 40 Copynumber: 2.3 Consensus size: 41 29245538 ATAAAAAAAA * * 29245548 AAAAAAAACTTAATTTAATGAGCTGAGTTTGTTTTATTAG-T 1 AAAAAAAA-TAAAATTAATGAGCTGAGTTTGTTTTATTAGTT 29245589 AAAAAAAATAAAATTAATGAGCTGAGTTTGTTTTATTAGTT 1 AAAAAAAATAAAATTAATGAGCTGAGTTTGTTTTATTAGTT * 29245630 AAAAAAAAAAAAA 1 AAAAAAAATAAAA 29245643 GACCTAAATG Statistics Matches: 50, Mismatches: 3, Indels: 2 0.91 0.05 0.04 Matches are distributed among these distances: 40 29 0.58 41 21 0.42 ACGTcount: A:0.49, C:0.03, G:0.13, T:0.35 Consensus pattern (41 bp): AAAAAAAATAAAATTAATGAGCTGAGTTTGTTTTATTAGTT Found at i:29245788 original size:55 final size:55 Alignment explanation
Indices: 29245704--29245812 Score: 218 Period size: 55 Copynumber: 2.0 Consensus size: 55 29245694 TCTTTAGTGG 29245704 AAAGAGTATTGTATAATAAATATGATTCGTTTTGCTTTTATTATTACTTAATTTA 1 AAAGAGTATTGTATAATAAATATGATTCGTTTTGCTTTTATTATTACTTAATTTA 29245759 AAAGAGTATTGTATAATAAATATGATTCGTTTTGCTTTTATTATTACTTAATTT 1 AAAGAGTATTGTATAATAAATATGATTCGTTTTGCTTTTATTATTACTTAATTT 29245813 TAAGTAATCT Statistics Matches: 54, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 55 54 1.00 ACGTcount: A:0.34, C:0.06, G:0.11, T:0.50 Consensus pattern (55 bp): AAAGAGTATTGTATAATAAATATGATTCGTTTTGCTTTTATTATTACTTAATTTA Found at i:29247181 original size:2 final size:2 Alignment explanation
Indices: 29247174--29247222 Score: 98 Period size: 2 Copynumber: 24.5 Consensus size: 2 29247164 GCTATTATTG 29247174 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 29247216 TC TC TC T 1 TC TC TC T 29247223 TTCTATTTTG Statistics Matches: 47, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 47 1.00 ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51 Consensus pattern (2 bp): TC Found at i:29255298 original size:2 final size:2 Alignment explanation
Indices: 29255285--29255319 Score: 61 Period size: 2 Copynumber: 17.5 Consensus size: 2 29255275 GTCTGCTGCA * 29255285 TC TC TA TC TC TC TC TC TC TC TC TC TC TC TC TC TC T 1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T 29255320 TTATTTCCCA Statistics Matches: 31, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 2 31 1.00 ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51 Consensus pattern (2 bp): TC Found at i:29262702 original size:21 final size:22 Alignment explanation
Indices: 29262673--29262729 Score: 71 Period size: 21 Copynumber: 2.6 Consensus size: 22 29262663 ATTGATAAAG * 29262673 TTTTAAAATTTTAATTTTAATAA 1 TTTT-AAATTTAAATTTTAATAA * 29262696 -TTTAAATTTAAATTTTCATAA 1 TTTTAAATTTAAATTTTAATAA * 29262717 TTTTAAATATAAA 1 TTTTAAATTTAAA 29262730 AATTATAATT Statistics Matches: 30, Mismatches: 3, Indels: 3 0.83 0.08 0.08 Matches are distributed among these distances: 21 16 0.53 22 14 0.47 ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53 Consensus pattern (22 bp): TTTTAAATTTAAATTTTAATAA Found at i:29262703 original size:15 final size:14 Alignment explanation
Indices: 29262668--29262723 Score: 51 Period size: 14 Copynumber: 3.8 Consensus size: 14 29262658 GATTTATTGA 29262668 TAAAGTTTTAAAATT 1 TAAA-TTTTAAAATT * 29262683 TTAATTTTAATAATT 1 TAAATTTTAA-AATT * 29262698 TAAA-TTTAAATTT 1 TAAATTTTAAAATT 29262711 TCATAATTTTAAA 1 T-A-AATTTTAAA 29262724 TATAAAAATT Statistics Matches: 34, Mismatches: 3, Indels: 7 0.77 0.07 0.16 Matches are distributed among these distances: 13 4 0.12 14 12 0.35 15 12 0.35 16 6 0.18 ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52 Consensus pattern (14 bp): TAAATTTTAAAATT Found at i:29262729 original size:22 final size:21 Alignment explanation
Indices: 29262685--29262729 Score: 63 Period size: 22 Copynumber: 2.1 Consensus size: 21 29262675 TTAAAATTTT * 29262685 AATTTTAATAATTTAAATTTA 1 AATTTTAATAATTTAAATATA * 29262706 AATTTTCATAATTTTAAATATA 1 AATTTTAATAA-TTTAAATATA 29262728 AA 1 AA 29262730 AATTATAATT Statistics Matches: 21, Mismatches: 2, Indels: 1 0.88 0.08 0.04 Matches are distributed among these distances: 21 10 0.48 22 11 0.52 ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49 Consensus pattern (21 bp): AATTTTAATAATTTAAATATA Found at i:29271474 original size:337 final size:338 Alignment explanation
Indices: 29270859--29271534 Score: 1160 Period size: 337 Copynumber: 2.0 Consensus size: 338 29270849 GGGGGGGGGG 29270859 GGGAGAAAAGAGATTTCAATTTGGTTTTTTCTTAGAATATGTTCATTGTAAAATCAATTAGGTTT 1 GGGAGAAAAGAGATTTCAATTTGGTTTTTTCTTAGAATATGTTCATTGTAAAATCAATTAGGTTT * * * 29270924 CAATACTTGAAAGGGGCGTTTGGTTCAAGAGAATCTACAAATTTTCTTCGAAAATCTTGATGGTA 66 CAATAATTGAAAGGGGCATTTGGTTCAAGAGAACCTACAAATTTTCTTCGAAAATCTTGATGGTA * * * 29270989 GTTATTAGATTTTCATGTTTGATTTTAGGTAATTCGACTACAGGAGAAAGTGACAGATTCTCAAT 131 GTTATTAGATTTTCATGTTTGATTCTAGGTAATCCGACTACAGAAGAAAGTGACAGATTCTCAAT 29271054 AATACCCAAAATCTCAGAATCATAACTCACATATTCTTGTGGTATTTTAGGATTTTGGAAGGGAA 196 AATACCCAAAATCTCAGAATCATAACTCACATATTCTTGTGGTATTTTAGGATTTTGGAAGGGAA * * * 29271119 AGTTGTATTATTTTTAAATTTGATTTGAA-CAAAAAATTTTAAAATAGTCATTATTCTTTTGAAA 261 AGTTGTATTATTTTTAAATTTGATTTGAATAAAAAAAATTGAAAATAGTCATTATTCTTTTGAAA 29271183 AGCATGTTTCGAA 326 AGCATGTTTCGAA 29271196 GGGAGAAAAGAGATTTCAATTTGGTTTTTTCTTAGAATATGTTCATTGTAAAATCAATTAGGTTT 1 GGGAGAAAAGAGATTTCAATTTGGTTTTTTCTTAGAATATGTTCATTGTAAAATCAATTAGGTTT * * 29271261 CATTAATTGAAGGGGGCATTTGGTTCAAGAGAACCTACAAATTTTCTTCGAAAATCTTGATGGTA 66 CAATAATTGAAAGGGGCATTTGGTTCAAGAGAACCTACAAATTTTCTTCGAAAATCTTGATGGTA * 29271326 GTTATTAGATTTTCATGTTTGATTCTAGGTAATCCGATTAC-GAAAGAAAGTGACAGATTCTCAA 131 GTTATTAGATTTTCATGTTTGATTCTAGGTAATCCGACTACAG-AAGAAAGTGACAGATTCTCAA * * * 29271390 TAATACCTAAAATTTTAGAATCATAAACTCACATATTCTTGTGGTATTTTAGGA-TTTGGAAGGG 195 TAATACCCAAAATCTCAGAATCAT-AACTCACATATTCTTGTGGTATTTTAGGATTTTGGAAGGG * 29271454 AAAGTTGTATTATTTTTAAATTTGATTTGAATAAAAAAAATTGAAAATAGTCGTTATTCTTTTGA 259 AAAGTTGTATTATTTTTAAATTTGATTTGAATAAAAAAAATTGAAAATAGTCATTATTCTTTTGA * 29271519 AAAGCATGTTTTGAA 324 AAAGCATGTTTCGAA 29271534 G 1 G 29271535 TGATAACAAT Statistics Matches: 319, Mismatches: 17, Indels: 5 0.94 0.05 0.01 Matches are distributed among these distances: 336 1 0.00 337 245 0.77 338 73 0.23 ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38 Consensus pattern (338 bp): GGGAGAAAAGAGATTTCAATTTGGTTTTTTCTTAGAATATGTTCATTGTAAAATCAATTAGGTTT CAATAATTGAAAGGGGCATTTGGTTCAAGAGAACCTACAAATTTTCTTCGAAAATCTTGATGGTA GTTATTAGATTTTCATGTTTGATTCTAGGTAATCCGACTACAGAAGAAAGTGACAGATTCTCAAT AATACCCAAAATCTCAGAATCATAACTCACATATTCTTGTGGTATTTTAGGATTTTGGAAGGGAA AGTTGTATTATTTTTAAATTTGATTTGAATAAAAAAAATTGAAAATAGTCATTATTCTTTTGAAA AGCATGTTTCGAA Found at i:29280571 original size:12 final size:12 Alignment explanation
Indices: 29280556--29280611 Score: 71 Period size: 12 Copynumber: 4.8 Consensus size: 12 29280546 CTTTTTTTTT 29280556 AATAAGTAA-AAC 1 AATAA-TAATAAC * 29280568 AATAATAATAAT 1 AATAATAATAAC 29280580 AATAATAATAAC 1 AATAATAATAAC * 29280592 AGTAATAAT-AC 1 AATAATAATAAC 29280603 AATAATAAT 1 AATAATAAT 29280612 TGGGCCAAAG Statistics Matches: 39, Mismatches: 4, Indels: 3 0.85 0.09 0.07 Matches are distributed among these distances: 11 13 0.33 12 26 0.67 ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27 Consensus pattern (12 bp): AATAATAATAAC Found at i:29280574 original size:3 final size:3 Alignment explanation
Indices: 29280555--29280611 Score: 55 Period size: 3 Copynumber: 19.3 Consensus size: 3 29280545 CCTTTTTTTT * * * 29280555 TAA TAA GTAA -AA CAA TAA TAA TAA TAA TAA TAA TAA CAG TAA TAA 1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA * 29280600 T-A CAA TAA TAA T 1 TAA TAA TAA TAA T 29280612 TGGGCCAAAG Statistics Matches: 44, Mismatches: 7, Indels: 6 0.77 0.12 0.11 Matches are distributed among these distances: 2 3 0.07 3 38 0.86 4 3 0.07 ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28 Consensus pattern (3 bp): TAA Found at i:29281137 original size:65 final size:64 Alignment explanation
Indices: 29280978--29281223 Score: 205 Period size: 65 Copynumber: 3.8 Consensus size: 64 29280968 CGTAGGTCAA * * * * * * 29280978 AAAAATAAATTAATCTGGACTGAGTCGAGATCAAAATAAAG-GACCT-AGATTGAACCGCAAGTC 1 AAAAATAAAATGATCTGGA-TTAATCGAGATCAAAAT-GAGTGA-CTGAGATTGAACCGCGAGTC 29281041 T- 63 TC * * * * * 29281042 GAAAATAAAATGATCTGGACTGAATCGAGATCGAAACGAGTGACTGAGATTGAATCGGCGAGTC- 1 AAAAATAAAATGATCTGGA-TTAATCGAGATCAAAATGAGTGACTGAGATTGAA-CCGCGAGTCT 29281106 C 64 C * * * * * 29281107 AAAAATAAAATGATCTAGATTAAGCTGAGATAAAAAATAAGTGA-TCGAGATTGAACCGCGGGTC 1 AAAAATAAAATGATCTGGATTAATC-GAGAT-CAAAATGAGTGACT-GAGATTGAACCGCGAGTC * 29281171 TG 63 TC * * 29281173 AAAAATAAAATGATCTGGATTGAATCGAGATCTAAATGAGTGACTGGGATT 1 AAAAATAAAATGATCTGGATT-AATCGAGATCAAAATGAGTGACTGAGATT 29281224 AAACTACTGT Statistics Matches: 146, Mismatches: 26, Indels: 19 0.76 0.14 0.10 Matches are distributed among these distances: 63 4 0.03 64 45 0.31 65 51 0.35 66 43 0.29 67 3 0.02 ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23 Consensus pattern (64 bp): AAAAATAAAATGATCTGGATTAATCGAGATCAAAATGAGTGACTGAGATTGAACCGCGAGTCTC Found at i:29281203 original size:66 final size:64 Alignment explanation
Indices: 29280978--29281216 Score: 225 Period size: 64 Copynumber: 3.7 Consensus size: 64 29280968 CGTAGGTCAA * * * * * 29280978 AAAAATAAATTAATCTGGACTGAGTCGAGATCAAAATAAAG-GACCTAGATTGAACCGCAAGTCT 1 AAAAATAAAATGATCTGGACTGAATCGAGATCAAAAT-AAGTGA-CGAGATTGAACCGCGAGTCT 29281042 G 64 G * ** * 29281043 -AAAATAAAATGATCTGGACTGAATCGAGATCGAAACGAGTGACTGAGATTGAATCGGCGAGTC- 1 AAAAATAAAATGATCTGGACTGAATCGAGATCAAAATAAGTGAC-GAGATTGAA-CCGCGAGTCT * 29281106 C 64 G * * * * * 29281107 AAAAATAAAATGATCTAGA-TTAAGCTGAGATAAAAAATAAGTGATCGAGATTGAACCGCGGGTC 1 AAAAATAAAATGATCTGGACTGAATC-GAGAT-CAAAATAAGTGA-CGAGATTGAACCGCGAGTC 29281171 TG 63 TG * * * 29281173 AAAAATAAAATGATCTGGATTGAATCGAGATCTAAATGAGTGAC 1 AAAAATAAAATGATCTGGACTGAATCGAGATCAAAATAAGTGAC 29281217 TGGGATTAAA Statistics Matches: 139, Mismatches: 26, Indels: 19 0.76 0.14 0.10 Matches are distributed among these distances: 63 3 0.02 64 46 0.33 65 45 0.32 66 40 0.29 67 5 0.04 ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22 Consensus pattern (64 bp): AAAAATAAAATGATCTGGACTGAATCGAGATCAAAATAAGTGACGAGATTGAACCGCGAGTCTG Found at i:29281473 original size:65 final size:65 Alignment explanation
Indices: 29281271--29281551 Score: 201 Period size: 65 Copynumber: 4.3 Consensus size: 65 29281261 AGCCTGAAAT * * * * * * ** 29281271 ATAAAATGATCTAGACTGAGCCAAGATCGAAACT-AATGA-TCAGGATTGAATTACGGGT-TCAA 1 ATAAAATGATCTGGATTGAGCCAAGATC-AAAATGAGTGATTGA-GATTGAACTACAAGTCT-AA 29281333 AAA 63 AAA ** * * * * * * * 29281336 ATAAAATGATCTGGATTGAATCGAGATAAAAAAATGAGTGATCGGGATTAAACTACAAGTTTGAA 1 ATAAAATGATCTGGATTGAGCCAAGAT--CAAAATGAGTGATTGAGATTGAACTACAAGTCTAAA 29281401 AA 64 AA * * ** 29281403 ATAAAATGATTTGGATTGAGCCAAGATCAAAATGAGTGATTGAGATTGAACCACGGGTCTAAAAA 1 ATAAAATGATCTGGATTGAGCCAAGATCAAAATGAGTGATTGAGATTGAACTACAAGTCTAAAAA * * *** * * * * 29281468 ATAAAATGATCTAGACTGAGTTGAGATCGAAATGAGTGATCT-AAATTGATCTACAAGTCAAAAA 1 ATAAAATGATCTGGATTGAGCCAAGATCAAAATGAGTGAT-TGAGATTGAACTACAAGTCTAAAA 29281532 A 65 A * 29281533 ATAAAATGATTTGGATTGA 1 ATAAAATGATCTGGATTGA 29281552 ACAAGATTAG Statistics Matches: 165, Mismatches: 45, Indels: 12 0.74 0.20 0.05 Matches are distributed among these distances: 65 117 0.71 66 5 0.03 67 42 0.25 68 1 0.01 ACGTcount: A:0.44, C:0.10, G:0.21, T:0.26 Consensus pattern (65 bp): ATAAAATGATCTGGATTGAGCCAAGATCAAAATGAGTGATTGAGATTGAACTACAAGTCTAAAAA Found at i:29281494 original size:132 final size:130 Alignment explanation
Indices: 29281264--29281551 Score: 303 Period size: 132 Copynumber: 2.2 Consensus size: 130 29281254 AATCGAGAGC * * * * * ** 29281264 CTGAAATATAAAATGATCTAGACTGAGCCAAGATCGAAACTAATGATCAGGATTGAATTACGGGT 1 CTGAAAAATAAAATGATTTGGATTGAGCCAAGATCGAAAATAATGATCAGGATTGAACCACGGGT * * ** 29281329 TCAAAAAATAAAATGATCTGGATTGAATCGAGATAAAAAAATGAGTGATCGGGATTAAACTACAA 66 TCAAAAAATAAAATGATCTAGACTGAATCGAGAT--AAAAATGAGTGATCGAAATTAAACTACAA 29281394 GT 129 GT * * * 29281396 TTGAAAAATAAAATGATTTGGATTGAGCCAAGATC-AAAATGAGTGAT-TGAGATTGAACCACGG 1 CTGAAAAATAAAATGATTTGGATTGAGCCAAGATCGAAAAT-AATGATCAG-GATTGAACCACGG * * ** * * * 29281459 G-TCTAAAAAATAAAATGATCTAGACTGAGTTGAGATCGAAATGAGTGATCTAAATTGATCTACA 64 GTTC-AAAAAATAAAATGATCTAGACTGAATCGAGATAAAAATGAGTGATCGAAATTAAACTACA 29281523 AGT 128 AGT ** 29281526 CAAAAAAATAAAATGATTTGGATTGA 1 CTGAAAAATAAAATGATTTGGATTGA 29281552 ACAAGATTAG Statistics Matches: 129, Mismatches: 24, Indels: 8 0.80 0.15 0.05 Matches are distributed among these distances: 130 47 0.36 131 7 0.05 132 75 0.58 ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26 Consensus pattern (130 bp): CTGAAAAATAAAATGATTTGGATTGAGCCAAGATCGAAAATAATGATCAGGATTGAACCACGGGT TCAAAAAATAAAATGATCTAGACTGAATCGAGATAAAAATGAGTGATCGAAATTAAACTACAAGT Found at i:29287498 original size:16 final size:16 Alignment explanation
Indices: 29287456--29287500 Score: 51 Period size: 16 Copynumber: 3.0 Consensus size: 16 29287446 CATATGCAAG * 29287456 TGAATAAC-AAATATA 1 TGAATAACTAAATAAA * 29287471 TG-A-AACTGAATAAA 1 TGAATAACTAAATAAA 29287485 TGAATAACTAAATAAA 1 TGAATAACTAAATAAA 29287501 ATATAAGCAA Statistics Matches: 24, Mismatches: 3, Indels: 5 0.75 0.09 0.16 Matches are distributed among these distances: 13 3 0.12 14 8 0.33 15 3 0.12 16 10 0.42 ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24 Consensus pattern (16 bp): TGAATAACTAAATAAA Found at i:29288404 original size:3 final size:3 Alignment explanation
Indices: 29288396--29288421 Score: 52 Period size: 3 Copynumber: 8.7 Consensus size: 3 29288386 TTAGTATATC 29288396 TTA TTA TTA TTA TTA TTA TTA TTA TT 1 TTA TTA TTA TTA TTA TTA TTA TTA TT 29288422 TAAAAAATAA Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 23 1.00 ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69 Consensus pattern (3 bp): TTA Found at i:29288536 original size:21 final size:20 Alignment explanation
Indices: 29288495--29288593 Score: 78 Period size: 21 Copynumber: 4.9 Consensus size: 20 29288485 AAAAGAATCT * * * 29288495 AAATAAAAATAGAACAAATA 1 AAATAAATATAAAATAAATA * 29288515 AAATGAAATAGAAAATAAATA 1 AAAT-AAATATAAAATAAATA * * * 29288536 AGA-AAATTTAGAA-AAATA 1 AAATAAATATAAAATAAATA 29288554 AAATAAATATAAATATAAATAAA 1 AAATAAATATAAA-ATAAAT--A 29288577 AAATAAA-ATAAAATAAA 1 AAATAAATATAAAATAAA 29288594 ACCTGCGATC Statistics Matches: 62, Mismatches: 11, Indels: 11 0.74 0.13 0.13 Matches are distributed among these distances: 18 7 0.11 19 14 0.23 20 5 0.08 21 23 0.37 22 5 0.08 23 8 0.13 ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20 Consensus pattern (20 bp): AAATAAATATAAAATAAATA Found at i:29288539 original size:12 final size:11 Alignment explanation
Indices: 29288514--29288593 Score: 54 Period size: 12 Copynumber: 6.7 Consensus size: 11 29288504 TAGAACAAAT * 29288514 AAAATGAAATAG 1 AAAAT-AAATAA 29288526 AAAATAAATAA 1 AAAATAAATAA * 29288537 GAAAATTTAGAAAAA 1 -AAAA--TA-AATAA 29288552 TAAAATAAATATA 1 -AAAATAAATA-A * 29288565 AATATAAATAA 1 AAAATAAATAA * 29288576 AAAATAAA-AT 1 AAAATAAATAA 29288586 AAAATAAA 1 AAAATAAA 29288594 ACCTGCGATC Statistics Matches: 56, Mismatches: 7, Indels: 12 0.75 0.09 0.16 Matches are distributed among these distances: 10 9 0.16 11 13 0.23 12 21 0.38 13 3 0.05 14 2 0.04 15 8 0.14 ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21 Consensus pattern (11 bp): AAAATAAATAA Found at i:29288557 original size:39 final size:39 Alignment explanation
Indices: 29288504--29288580 Score: 113 Period size: 39 Copynumber: 2.0 Consensus size: 39 29288494 TAAATAAAAA 29288504 TAGAACAAATAAAATGAAATAGAAA-ATAAATAAGAAAATT 1 TAGAACAAATAAAAT-AAATAGAAATATAAATAA-AAAATT * 29288544 TAGAA-AAATAAAATAAATATAAATATAAATAAAAAAT 1 TAGAACAAATAAAATAAATAGAAATATAAATAAAAAAT 29288581 AAAATAAAAT Statistics Matches: 35, Mismatches: 1, Indels: 4 0.88 0.03 0.10 Matches are distributed among these distances: 38 13 0.37 39 17 0.49 40 5 0.14 ACGTcount: A:0.70, C:0.01, G:0.06, T:0.22 Consensus pattern (39 bp): TAGAACAAATAAAATAAATAGAAATATAAATAAAAAATT Found at i:29288565 original size:6 final size:5 Alignment explanation
Indices: 29288548--29288594 Score: 58 Period size: 5 Copynumber: 8.8 Consensus size: 5 29288538 AAAATTTAGA * 29288548 AAAAT AAAAT AAATAT AAATAT AAATAA AAAAT AAAAT AAAAT AAAA 1 AAAAT AAAAT AAA-AT AAA-AT AAA-AT AAAAT AAAAT AAAAT AAAA 29288595 CCTGCGATCG Statistics Matches: 39, Mismatches: 2, Indels: 2 0.91 0.05 0.05 Matches are distributed among these distances: 5 23 0.59 6 16 0.41 ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21 Consensus pattern (5 bp): AAAAT Found at i:29288591 original size:17 final size:17 Alignment explanation
Indices: 29288548--29288594 Score: 62 Period size: 17 Copynumber: 2.8 Consensus size: 17 29288538 AAAATTTAGA * 29288548 AAAATAAAAT-AAATAT 1 AAAATAAAATAAAAAAT 29288564 -AAATATAAATAAAAAAT 1 AAAATA-AAATAAAAAAT 29288581 AAAATAAAATAAAA 1 AAAATAAAATAAAA 29288595 CCTGCGATCG Statistics Matches: 27, Mismatches: 1, Indels: 5 0.82 0.03 0.15 Matches are distributed among these distances: 15 5 0.19 16 4 0.15 17 13 0.48 18 5 0.19 ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21 Consensus pattern (17 bp): AAAATAAAATAAAAAAT Found at i:29290060 original size:63 final size:63 Alignment explanation
Indices: 29289775--29290066 Score: 213 Period size: 63 Copynumber: 4.7 Consensus size: 63 29289765 TGAAAAACGT * * * 29289775 CTTAAATAAATT-T-TTTAAAAAAAATGAAATAGATTATTTAAGGTCTTTTT-GTTAAAAAATAC 1 CTTAAAT-AATTCTCTTT-AAAAAAATGAAATGGATTATTTAAGGTGTTTTTCGTTGAAAAATAC * * * * * * * * 29289837 CTTAAATAATTCACTTTAAAAAAATGAAGGTAGATTGTTTAAGATATTTTTTGTT-AAAAATAT 1 CTTAAATAATTCTCTTTAAAAAAATGAA-ATGGATTATTTAAGGTGTTTTTCGTTGAAAAATAC * * ** * ** 29289900 CTTAAATAA-TCTCCTTTAAAAAAATG-AAGGGATTATTTAAGGCGTTTTTCAATGAGAAACGC 1 CTTAAATAATTCT-CTTTAAAAAAATGAAATGGATTATTTAAGGTGTTTTTCGTTGAAAAATAC * * **** * * * 29289962 CTTAAATAATCCTC-TTATATTTTTTACAA-GAGATTACTTAAGGTGTTTTTCGTTGAAAAATGC 1 CTTAAATAATTCTCTTTAAAAAAATGA-AATG-GATTATTTAAGGTGTTTTTCGTTGAAAAATAC * * 29290025 CGTAAAGAATTCTCTTTAAAAAAATGAAATGGATTATTTAAG 1 CTTAAATAATTCTCTTTAAAAAAATGAAATGGATTATTTAAG 29290067 ACGTTTTTGA Statistics Matches: 174, Mismatches: 44, Indels: 23 0.72 0.18 0.10 Matches are distributed among these distances: 61 25 0.14 62 36 0.21 63 103 0.59 64 10 0.06 ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38 Consensus pattern (63 bp): CTTAAATAATTCTCTTTAAAAAAATGAAATGGATTATTTAAGGTGTTTTTCGTTGAAAAATAC Found at i:29306632 original size:21 final size:23 Alignment explanation
Indices: 29306591--29306633 Score: 63 Period size: 22 Copynumber: 2.0 Consensus size: 23 29306581 TTATGATCAA 29306591 ATAAAGTAATATAATTATTGAAT 1 ATAAAGTAATATAATTATTGAAT * 29306614 ATAAA-TATTATAATT-TTGAA 1 ATAAAGTAATATAATTATTGAA 29306634 CAAATTAATC Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 21 5 0.26 22 9 0.47 23 5 0.26 ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42 Consensus pattern (23 bp): ATAAAGTAATATAATTATTGAAT Found at i:29307732 original size:6 final size:7 Alignment explanation
Indices: 29307715--29307739 Score: 50 Period size: 7 Copynumber: 3.6 Consensus size: 7 29307705 TTTTGAACTT 29307715 TTTTTAA 1 TTTTTAA 29307722 TTTTTAA 1 TTTTTAA 29307729 TTTTTAA 1 TTTTTAA 29307736 TTTT 1 TTTT 29307740 GTTATAGGAA Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 7 18 1.00 ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76 Consensus pattern (7 bp): TTTTTAA Found at i:29316419 original size:24 final size:24 Alignment explanation
Indices: 29316390--29316437 Score: 80 Period size: 24 Copynumber: 2.0 Consensus size: 24 29316380 ATTTTTTATT * 29316390 AATTTTTT-ATCATAATTATAATA 1 AATTTTTTAATAATAATTATAATA 29316413 AATTTTTTAATAATAATTATAATA 1 AATTTTTTAATAATAATTATAATA 29316437 A 1 A 29316438 TATATATTTT Statistics Matches: 23, Mismatches: 1, Indels: 1 0.92 0.04 0.04 Matches are distributed among these distances: 23 8 0.35 24 15 0.65 ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50 Consensus pattern (24 bp): AATTTTTTAATAATAATTATAATA Found at i:29316434 original size:21 final size:22 Alignment explanation
Indices: 29316385--29316434 Score: 57 Period size: 23 Copynumber: 2.3 Consensus size: 22 29316375 CATAAATTTT * * 29316385 TTATTAATTTTTTATCATAATTA 1 TTATAAATTTTTTA-CATAATAA * 29316408 TAATAAATTTTTTA-ATAATAA 1 TTATAAATTTTTTACATAATAA 29316429 TTATAA 1 TTATAA 29316435 TAATATATAT Statistics Matches: 23, Mismatches: 4, Indels: 2 0.79 0.14 0.07 Matches are distributed among these distances: 21 11 0.48 23 12 0.52 ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54 Consensus pattern (22 bp): TTATAAATTTTTTACATAATAA Found at i:29327868 original size:32 final size:33 Alignment explanation
Indices: 29327827--29327891 Score: 114 Period size: 32 Copynumber: 2.0 Consensus size: 33 29327817 TTCTTCCATT 29327827 GTTGGATGATAAATCATTT-AATACTTAGAAGC 1 GTTGGATGATAAATCATTTAAATACTTAGAAGC * 29327859 GTTGGATGATGAATCATTTAAATACTTAGAAGC 1 GTTGGATGATAAATCATTTAAATACTTAGAAGC 29327892 TGCATGTCTA Statistics Matches: 31, Mismatches: 1, Indels: 1 0.94 0.03 0.03 Matches are distributed among these distances: 32 18 0.58 33 13 0.42 ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34 Consensus pattern (33 bp): GTTGGATGATAAATCATTTAAATACTTAGAAGC Found at i:29334862 original size:5 final size:5 Alignment explanation
Indices: 29334852--29334890 Score: 60 Period size: 5 Copynumber: 7.4 Consensus size: 5 29334842 TGTTTGTAGT 29334852 TTATA TTATA TTATA TTATA TTATA TATATA TATATA TT 1 TTATA TTATA TTATA TTATA TTATA T-TATA T-TATA TT 29334891 TCATCATTTT Statistics Matches: 33, Mismatches: 0, Indels: 2 0.94 0.00 0.06 Matches are distributed among these distances: 5 22 0.67 6 11 0.33 ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59 Consensus pattern (5 bp): TTATA Found at i:29362230 original size:11 final size:11 Alignment explanation
Indices: 29362214--29362256 Score: 50 Period size: 11 Copynumber: 3.9 Consensus size: 11 29362204 TTATATAATT 29362214 AAAAAGAAAAA 1 AAAAAGAAAAA * 29362225 AAAAAGAAAAG 1 AAAAAGAAAAA * * 29362236 GAAAAGCAAAA 1 AAAAAGAAAAA * 29362247 GAAAAGAAAA 1 AAAAAGAAAA 29362257 TAATAGTAAC Statistics Matches: 27, Mismatches: 5, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 11 27 1.00 ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00 Consensus pattern (11 bp): AAAAAGAAAAA Done.