Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Scaffold373 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: 3053563 ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33 File 15 of 20 Found at i:2151162 original size:17 final size:18 Alignment explanation
Indices: 2151142--2151184 Score: 54 Period size: 17 Copynumber: 2.4 Consensus size: 18 2151132 CATTTATATA 2151142 ATTTAAATTTATTT-TTT 1 ATTTAAATTTATTTATTT 2151159 ATTTATAA-TTATTTATTT 1 ATTTA-AATTTATTTATTT * 2151177 ATATAAAT 1 ATTTAAAT 2151185 AATTAATTAA Statistics Matches: 22, Mismatches: 1, Indels: 5 0.79 0.04 0.18 Matches are distributed among these distances: 17 13 0.59 18 9 0.41 ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63 Consensus pattern (18 bp): ATTTAAATTTATTTATTT Found at i:2153162 original size:16 final size:17 Alignment explanation
Indices: 2153130--2153168 Score: 62 Period size: 17 Copynumber: 2.4 Consensus size: 17 2153120 TCATCAAAAA 2153130 ATAAAATAAAAATAATT 1 ATAAAATAAAAATAATT 2153147 ATAAAATAAAAA-AATT 1 ATAAAATAAAAATAATT * 2153163 TTAAAA 1 ATAAAA 2153169 CTTTTTTCCC Statistics Matches: 21, Mismatches: 1, Indels: 1 0.91 0.04 0.04 Matches are distributed among these distances: 16 9 0.43 17 12 0.57 ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28 Consensus pattern (17 bp): ATAAAATAAAAATAATT Found at i:2154824 original size:30 final size:31 Alignment explanation
Indices: 2154788--2154848 Score: 106 Period size: 30 Copynumber: 2.0 Consensus size: 31 2154778 ATATATCTTG 2154788 AGACTTATATTGAATATTT-TCCAAGACTAA 1 AGACTTATATTGAATATTTGTCCAAGACTAA * 2154818 AGACTTATATTGAATATTTGTCCGAGACTAA 1 AGACTTATATTGAATATTTGTCCAAGACTAA 2154849 CTTGAATTTA Statistics Matches: 29, Mismatches: 1, Indels: 1 0.94 0.03 0.03 Matches are distributed among these distances: 30 19 0.66 31 10 0.34 ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36 Consensus pattern (31 bp): AGACTTATATTGAATATTTGTCCAAGACTAA Found at i:2155853 original size:8 final size:8 Alignment explanation
Indices: 2155840--2155866 Score: 54 Period size: 8 Copynumber: 3.4 Consensus size: 8 2155830 AAAAGTTTCA 2155840 ATAATGTC 1 ATAATGTC 2155848 ATAATGTC 1 ATAATGTC 2155856 ATAATGTC 1 ATAATGTC 2155864 ATA 1 ATA 2155867 TTTAACTTGT Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 8 19 1.00 ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37 Consensus pattern (8 bp): ATAATGTC Found at i:2157059 original size:18 final size:16 Alignment explanation
Indices: 2157019--2157065 Score: 58 Period size: 16 Copynumber: 2.8 Consensus size: 16 2157009 ATTGGGGTTG 2157019 AAAATCTATGATTATA 1 AAAATCTATGATTATA * 2157035 GAAATCTATGATTATTTA 1 AAAATCTATGATTA--TA * 2157053 AAAATCTGTGATT 1 AAAATCTATGATT 2157066 CTCAGAAAAT Statistics Matches: 26, Mismatches: 3, Indels: 2 0.84 0.10 0.06 Matches are distributed among these distances: 16 13 0.50 18 13 0.50 ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40 Consensus pattern (16 bp): AAAATCTATGATTATA Found at i:2158345 original size:18 final size:18 Alignment explanation
Indices: 2158322--2158356 Score: 61 Period size: 18 Copynumber: 1.9 Consensus size: 18 2158312 AAGCGTGACT * 2158322 TCATCAAATACTGGCTCC 1 TCATCAAATACGGGCTCC 2158340 TCATCAAATACGGGCTC 1 TCATCAAATACGGGCTC 2158357 TTTGTCATGA Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 18 16 1.00 ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26 Consensus pattern (18 bp): TCATCAAATACGGGCTCC Found at i:2160454 original size:166 final size:165 Alignment explanation
Indices: 2160220--2160896 Score: 582 Period size: 166 Copynumber: 4.2 Consensus size: 165 2160210 CAAATTACTA * * * * ** * 2160220 AGTTTTCTTCTTCGTAAATTTGTTTTGAGAGGA-TTTTCATGGGTTTTTAATTTTTAATATTCAT 1 AGTTTTCTACTCCGTAAATTT-TTTCGAGGGGATTTTTC-TTAGTTTTTAATTTTTAAAATTCAT * 2160284 CAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTT 64 CAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTT * 2160349 CATTTTTTCCTTGAAACTCTTCTATTTTCGAAATACGG 129 CATTTTTTCCTTGAAACTCTCCTATTTTCGAAATAC-G * * * * * 2160387 AGTTTTCTACTCCTTAAATTTTTTGGAGGGGATTTTTCATACTTTTTAATTTTTAAAATTTATCA 1 AGTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCA ** ** * 2160452 AATATTATTATTTAATTTGTA-TAATTAT-TTTTTTC-AAAATTCATTCATTTTCATGAGTTTTT 66 AATATTATTATTTAATTCATATTAA--ATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTT * * 2160514 CATTTTTTCCTTGAAACAC-CCATATTTCCG--A-A-- 129 CATTTTTTCCTTGAAACTCTCC-TATTTTCGAAATACG * * * 2160546 A------TACTCCGTAAAATTTTTTCTAGGAGATTTTTCTTAGCTTTTAATTTTTAAAATTCAT- 1 AGTTTTCTACTCCGT-AAATTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATC * * * 2160604 -AA-A--A--A-TT-ATT-AT-TTAAATCTGTTTTTAAAAATTCATTCATTTTCATGAGTTTTTC 65 AAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTC * * ** 2160659 ATTTTTTCCTTGAAAC-CT-CTGTTTCCGAAATGTGG 130 ATTTTTTCCTTGAAACTCTCCTATTTTCGAAAT-ACG * * * * 2160694 ATTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAAGTTTTGAAATTCATCA 1 AGTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCA * * * ** * * 2160759 AATATTATTATTTAATTCA-AGTCAAATTATTTTTTGAAAATTCATTCATTTTTATG-AGTTTTC 66 AATATTATTATTTAATTCATA-TTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTC * 2160822 -TTGTTTCCTTGAAA-TC-CTCT-TGTTTCGAAATACAG 130 ATTTTTTCCTTGAAACTCTC-CTAT-TTTCGAAATAC-G 2160857 AGTTCTT-TACTCCGTAAATTTTTTC-AGAGGGATTTTTCTT 1 AGTT-TTCTACTCCGTAAATTTTTTCGAG-GGGATTTTTCTT 2160897 GGTGATGAAT Statistics Matches: 420, Mismatches: 50, Indels: 84 0.76 0.09 0.15 Matches are distributed among these distances: 142 9 0.02 143 7 0.02 144 49 0.12 145 3 0.01 146 2 0.00 147 1 0.00 148 1 0.00 149 1 0.00 151 1 0.00 152 2 0.00 153 49 0.12 154 49 0.12 155 2 0.00 156 1 0.00 158 1 0.00 159 1 0.00 160 1 0.00 161 2 0.00 162 21 0.05 163 51 0.12 164 32 0.08 165 54 0.13 166 55 0.13 167 25 0.06 ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50 Consensus pattern (165 bp): AGTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCA AATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAATTTTTCA TTTTTTCCTTGAAACTCTCCTATTTTCGAAATACG Found at i:2161258 original size:466 final size:454 Alignment explanation
Indices: 2160452--2161362 Score: 1323 Period size: 466 Copynumber: 2.0 Consensus size: 454 2160442 AAATTTATCA ** 2160452 AATATTATTATTTAATTTGTATAATTATTTTTTTCAAAATTCATTCATTTTCATGAGTTTTTCAT 1 AATATTATTATTTAATTCATATAATTATTTTTTTCAAAATTCATTCATTTTCATGAGTTTTTCAT * * * 2160517 TTTTTCCTTGAAACACCCATATTTCCGAAATACTCCGTAAAATTTTTTCTAGGAGATTTTTCTTA 66 TTTTTCCTTGAAACACCCATATTTCCGAAATACTCCGTAAAATTTTTTCAAGGAGATTCTTCTCA * 2160582 GCTTTTAATTTTTAAAATTCATAAAAATTATTATTTAAATCTGTTTTTAAAAATTCATTCATTTT 131 GCTTTTAATTTTTAAAATTCATAAAAATTATTATTTAAATCTGTTTTCAAAAATTCATTCATTTT * * 2160647 CATGAGTTTTTCATTTTTTCCTTGAAACCTCTGTTTCCGAAATGTGGATTTTTCTACTCCGTAAA 196 CATGAGTTTTTCATTTTTTCCTTGAAACCTCTGTTTCCGAAATGTAGATGTTTCTACTCCGTAAA * * * * 2160712 TTTTTTCGAGGGGATTTTTCTTGGTTTTTAAGTTTTGAAATTCATCAAATATTATTATTTAATTC 261 TTTTTTCGAGGAGATTTTTCTTAGTTTTTAAGTTTTAAAACTCATCAAATATTATTATTTAATTC * * * 2160777 AAGTCAAATTATTTTTTGAAAATTCATTCATTTTTAT-GAGTTTTC-TTGTTTCCTTGAAATCCT 326 AAGTCAAAATATTTTTTGAAAATTCATTCATTTTCATCCA-TTTTCTTTGTTTCCTTGAAATCCT * 2160840 CTTG-TTTCGAAATACAGAGTTCTTTACTCCGTAAATTTTTTCAGAGGGATTTTTCTTGGTGATG 390 CCTGTTTTCGAAATACAGAGTTCTTTACTCCGTAAATTTTTTCAGAGGGATTTTTCTTGGTGATG 2160904 AATATTATTATTTAATTCATATTAAATTA-TTTTTTCAAAATTCATTCATTTTCATGAGTTTTTC 1 AATATTATTATTTAATTCATA-T-AATTATTTTTTTCAAAATTCATTCATTTTCATGAGTTTTTC * * * * * 2160968 ATTTTTTTCCTTGAAACTCCCCTATTTTCGAAATACTCTGTAAATTTTTTTCAAGGAGATTCTTC 64 A-TTTTTTCCTTGAAACACCCATATTTCCGAAATACTCCGTAAAATTTTTTCAAGGAGATTCTTC 2161033 TCAG-TTTATAATTTTTAAAATTCATAAAAAATTATTATTTAAATCATTTTAAATCTGTTTTCAA 128 TCAGCTTT-TAATTTTTAAAATTCAT--AAAA--ATTA--T---T-A-TTTAAATCTGTTTTCAA * * * 2161097 AATTTCATTCATTTTTATGAGTTTTTCATTTTTTTTCTTGAAACCTCCTGTTTCCGAAATGTAGA 181 AAATTCATTCATTTTCATGAGTTTTTCA-TTTTTTCCTTGAAACCT-CTGTTTCCGAAATGTAGA * * 2161162 -GTTTCTA-TACCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTAAAACTCATCC 244 TGTTTCTACT-CCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAAGTTTTAAAACTCATCA * 2161225 AATATTATTATTTAATTCACGTCAAAATATTTTTTGAAAATTCATTCATTTTCATCCATTTTCTT 308 AATATTATTATTTAATTCAAGTCAAAATATTTTTTGAAAATTCATTCATTTTCATCCATTTTCTT * * * * 2161290 TTTTTCCTTGAAATCCTCCTGTTTTTGAAATACAGAGTTCTTTACTCTGTAAATTTTTTCGGAGG 373 TGTTTCCTTGAAATCCTCCTGTTTTCGAAATACAGAGTTCTTTACTCCGTAAATTTTTTCAGAGG 2161355 GATTTTTC 438 GATTTTTC 2161363 CTAGTTTTTA Statistics Matches: 407, Mismatches: 31, Indels: 26 0.88 0.07 0.06 Matches are distributed among these distances: 452 19 0.05 453 40 0.10 454 81 0.20 456 4 0.01 458 4 0.01 460 1 0.00 463 1 0.00 464 1 0.00 465 43 0.11 466 127 0.31 467 38 0.09 468 48 0.12 ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50 Consensus pattern (454 bp): AATATTATTATTTAATTCATATAATTATTTTTTTCAAAATTCATTCATTTTCATGAGTTTTTCAT TTTTTCCTTGAAACACCCATATTTCCGAAATACTCCGTAAAATTTTTTCAAGGAGATTCTTCTCA GCTTTTAATTTTTAAAATTCATAAAAATTATTATTTAAATCTGTTTTCAAAAATTCATTCATTTT CATGAGTTTTTCATTTTTTCCTTGAAACCTCTGTTTCCGAAATGTAGATGTTTCTACTCCGTAAA TTTTTTCGAGGAGATTTTTCTTAGTTTTTAAGTTTTAAAACTCATCAAATATTATTATTTAATTC AAGTCAAAATATTTTTTGAAAATTCATTCATTTTCATCCATTTTCTTTGTTTCCTTGAAATCCTC CTGTTTTCGAAATACAGAGTTCTTTACTCCGTAAATTTTTTCAGAGGGATTTTTCTTGGTGATG Found at i:2161547 original size:166 final size:165 Alignment explanation
Indices: 2161001--2161599 Score: 552 Period size: 165 Copynumber: 3.6 Consensus size: 165 2160991 ATTTTCGAAA * * * * * * * 2161001 TACTCTGTAAATTTTTTTCAAGGAGATTCTTCTCAGTTTATAATTTTTAAAATTCATAAAAAATT 1 TACTCCGTAAA-TTTTTTCGAGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCAT-CAATATT * * ** * * * * 2161066 ATTATTTAAATCATTTTAAATCTGTTTTCAAAATTTCATTCATTTTTA-TGAGTTTTTCATTTTT 64 ATTATTTAATTCATATTAAATCAATTTTCAAAAATTCATTCATTTTCATTCA-TTTTTTA-TTTT ** * * 2161130 TTTCTTGAAA-CCTCCTGTTTCCGAAATGTAGAG-TTTC 127 TTTCTTGAAATCCTCCTGTTTTTGAAATATCGAGTTTTC * * * 2161167 TA-TACCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTAAAACTCATCCAATATT 1 TACT-CCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCAT-CAATATT ** * * ** * * 2161231 ATTATTTAATTCACGTCAAAAT-ATTTTTTGAAAATTCATTCATTTTCATCCATTTTCT-TTTTT 64 ATTATTTAATTCATAT-TAAATCAATTTTCAAAAATTCATTCATTTTCATTCATTTTTTATTTTT * 2161294 TCCTTGAAATCCTCCTGTTTTTGAAATA-CAGAGTTCTT- 128 TTCTTGAAATCCTCCTGTTTTTGAAATATC-GAGTT-TTC * * * 2161332 TACTCTGTAAATTTTTTCG-GAGGGATTTTTCCTAGTTTTTAATTTTTAAAATTCATCAGATATT 1 TACTCCGTAAATTTTTTCGAG-GGGATTTTTCTTAGTTTATAATTTTTAAAATTCATCA-ATATT * * 2161396 ATTATTTAATTTATATTAAATCAATTTTCAAAAAATCATTCATTTTCATTCATTTTTTATTTTTT 64 ATTATTTAATTCATATTAAATCAATTTTCAAAAATTCATTCATTTTCATTCATTTTTTATTTTTT ** * * * 2161461 TCTTGAAATTTTCTTATTTTTGAAAAATCGAGTTTTC 129 TCTTGAAATCCTCCTGTTTTTGAAATATCGAGTTTTC * * * * * 2161498 TACTCCATAAATATTTTCGAGGGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCTAATATTG 1 TACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCATC-AATATTA * * * * * 2161563 TCATTAAATTCACAATAAAT-AAGTTTTGAAAAATTCA 65 TTATTTAATTCATATTAAATCAA-TTTTCAAAAATTCA 2161600 AATTAGTGCA Statistics Matches: 353, Mismatches: 63, Indels: 34 0.78 0.14 0.08 Matches are distributed among these distances: 163 13 0.04 164 25 0.07 165 184 0.52 166 128 0.36 167 3 0.01 ACGTcount: A:0.30, C:0.12, G:0.08, T:0.49 Consensus pattern (165 bp): TACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCATCAATATTAT TATTTAATTCATATTAAATCAATTTTCAAAAATTCATTCATTTTCATTCATTTTTTATTTTTTTC TTGAAATCCTCCTGTTTTTGAAATATCGAGTTTTC Found at i:2162122 original size:10 final size:11 Alignment explanation
Indices: 2162085--2162129 Score: 65 Period size: 11 Copynumber: 4.0 Consensus size: 11 2162075 ATCAACTAAA 2162085 AAAAAGAGAGAG 1 AAAAAGAGA-AG 2162097 AAAAAGAGAAG 1 AAAAAGAGAAG 2162108 AAAAAGA-AAG 1 AAAAAGAGAAG 2162118 AAAAAAGAGAAG 1 -AAAAAGAGAAG 2162130 GAAATAGAAC Statistics Matches: 31, Mismatches: 0, Indels: 4 0.89 0.00 0.11 Matches are distributed among these distances: 10 3 0.10 11 16 0.52 12 12 0.39 ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00 Consensus pattern (11 bp): AAAAAGAGAAG Found at i:2162123 original size:23 final size:23 Alignment explanation
Indices: 2162085--2162138 Score: 74 Period size: 23 Copynumber: 2.3 Consensus size: 23 2162075 ATCAACTAAA * 2162085 AAAAAGAGAGAGAAAAAGAGAA-G 1 AAAAAGAAAGA-AAAAAGAGAAGG 2162108 AAAAAGAAAGAAAAAAGAGAAGG 1 AAAAAGAAAGAAAAAAGAGAAGG * 2162131 AAATAGAA 1 AAAAAGAA 2162139 CACATTAGTA Statistics Matches: 28, Mismatches: 2, Indels: 2 0.88 0.06 0.06 Matches are distributed among these distances: 22 10 0.36 23 18 0.64 ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02 Consensus pattern (23 bp): AAAAAGAAAGAAAAAAGAGAAGG Found at i:2163418 original size:3 final size:3 Alignment explanation
Indices: 2163410--2163465 Score: 73 Period size: 3 Copynumber: 19.7 Consensus size: 3 2163400 GTATTTTAAA * * 2163410 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT GAT AA- AAT AAA AAT -AT 1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT 2163455 AAT AAT AAT AA 1 AAT AAT AAT AA 2163466 AATGAAATAA Statistics Matches: 46, Mismatches: 4, Indels: 6 0.82 0.07 0.11 Matches are distributed among these distances: 2 6 0.13 3 40 0.87 ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29 Consensus pattern (3 bp): AAT Found at i:2163459 original size:30 final size:31 Alignment explanation
Indices: 2163413--2163470 Score: 100 Period size: 30 Copynumber: 1.9 Consensus size: 31 2163403 TTTTAAAAAT * 2163413 AATAATAATAATAATAATAATAAAATGATAA 1 AATAAAAATAATAATAATAATAAAATGATAA 2163444 AATAAAAAT-ATAATAATAATAAAATGA 1 AATAAAAATAATAATAATAATAAAATGA 2163471 AATAAAACGT Statistics Matches: 26, Mismatches: 1, Indels: 1 0.93 0.04 0.04 Matches are distributed among these distances: 30 18 0.69 31 8 0.31 ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28 Consensus pattern (31 bp): AATAAAAATAATAATAATAATAAAATGATAA Found at i:2166401 original size:23 final size:22 Alignment explanation
Indices: 2166365--2166411 Score: 58 Period size: 23 Copynumber: 2.1 Consensus size: 22 2166355 TAAAACAAAG ** 2166365 AAAATAACAAACAAATTTACAT 1 AAAATAACAAACAAAAATACAT * 2166387 AAAATAAACACACAAAAATACAT 1 AAAAT-AACAAACAAAAATACAT 2166410 AA 1 AA 2166412 GAAGAAAGGA Statistics Matches: 21, Mismatches: 3, Indels: 1 0.84 0.12 0.04 Matches are distributed among these distances: 22 5 0.24 23 16 0.76 ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17 Consensus pattern (22 bp): AAAATAACAAACAAAAATACAT Found at i:2166763 original size:49 final size:49 Alignment explanation
Indices: 2166680--2166793 Score: 140 Period size: 49 Copynumber: 2.3 Consensus size: 49 2166670 AAAAAAAATA * * * 2166680 GGGTTGGAGCATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAA-CTG 1 GGGTTGGAGTAT--CCGATTATGAAAAATCGGTGTTTTGGAAATAAAATC-G * * 2166731 GGGTTGGAGTATCCGATTATGAATAATCGGTGTTTTTGAAATAAAATCG 1 GGGTTGGAGTATCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCG * 2166780 AGGTTGGAGTATCC 1 GGGTTGGAGTATCC 2166794 CCTCGAAAAT Statistics Matches: 56, Mismatches: 6, Indels: 4 0.85 0.09 0.06 Matches are distributed among these distances: 49 44 0.79 50 1 0.02 51 11 0.20 ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32 Consensus pattern (49 bp): GGGTTGGAGTATCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCG Found at i:2166927 original size:127 final size:126 Alignment explanation
Indices: 2166634--2166999 Score: 380 Period size: 127 Copynumber: 2.9 Consensus size: 126 2166624 AAGTTTAATA * * * * 2166634 TTTTGGAGATAAAACTCGGGGTTGGAGTATCCTTTCAAAAAAAATAGGGTTGGAGCATCCCCGAT 1 TTTTGGAAATAAAA-TC-GGGTTGGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGAT ** ** * * 2166699 TGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCGATTATGAATAATCGGTG 64 TGTGAAAAATCAGTGTTTCAGAAAT-AAACTGGGGTTGGAGTATCCAATTATGAATAATCAGTG * ** ** * * * 2166763 TTTTTGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCTCAATT 1 TTTTGGAAATAAAATCG-GGTTGGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGATT * 2166828 GTGAAAAATCAGTGTTCTCAGAAAT-AAC-GGGGTTGGAGTATCTCCAATTGTGAA-AA-CTAGT 65 GTGAAAAATCAGTGTT-TCAGAAATAAACTGGGGTTGGAGTA--TCCAATTATGAATAATC-AGT 2166889 G 126 G * 2166890 TTTTGGAAATAAAATCAGGGTTAGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGATT 1 TTTTGGAAATAAAATC-GGGTTGGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGATT * * * * * * 2166955 GTGAAAAATCAATATTTTAGAAATAAAGTTGAGGTTAGAGTATCC 65 GTGAAAAATCAGTGTTTCAGAAATAAA-CTGGGGTTGGAGTATCC 2167000 CCTCGAAAAT Statistics Matches: 194, Mismatches: 34, Indels: 20 0.78 0.14 0.08 Matches are distributed among these distances: 126 20 0.10 127 82 0.42 128 64 0.33 129 28 0.14 ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30 Consensus pattern (126 bp): TTTTGGAAATAAAATCGGGTTGGAGTATCCTTTCGAAAATAATAGGGTTGGAGTATCCCCGATTG TGAAAAATCAGTGTTTCAGAAATAAACTGGGGTTGGAGTATCCAATTATGAATAATCAGTG Found at i:2167009 original size:79 final size:79 Alignment explanation
Indices: 2166849--2167139 Score: 316 Period size: 79 Copynumber: 3.7 Consensus size: 79 2166839 GTGTTCTCAG * * * * * * 2166849 AAATAACGGGGTTGGAGTATCTCCAATTGTGAAAACT-AGTGTTTTGGAAATAAAATCAGGGTTA 1 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCAGGGTTA ** 2166913 GAGTATCCTTTCGA 66 GAGTATCCCCTCGA * * * * 2166927 AAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGT-TGAGGTT 1 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCAG-GGTT 2166991 AGAGTATCCCCTCGA 65 AGAGTATCCCCTCGA * * * * ** * * * * 2167006 AAATATTGGGGTTGGAGTGTCCCCGATGGTGGAAAATGGGTGTTTTGGAAATAAAACCAGGGTTG 1 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCAGGGTTA * * 2167071 GAGCATCCCCTTGA 66 GAGTATCCCCTCGA * * * 2167085 AAATAATGGGGTTGGAGTATCCCCGATTATGGAAAATCGGTATTTTAGAAATAAA 1 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAA 2167140 GACATCAATG Statistics Matches: 175, Mismatches: 35, Indels: 5 0.81 0.16 0.02 Matches are distributed among these distances: 78 33 0.19 79 141 0.81 80 1 0.01 ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29 Consensus pattern (79 bp): AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCAGGGTTA GAGTATCCCCTCGA Found at i:2170197 original size:34 final size:33 Alignment explanation
Indices: 2170152--2170216 Score: 94 Period size: 34 Copynumber: 1.9 Consensus size: 33 2170142 AAGGAAGGGG * * 2170152 CGTCCTGCTCTTTAAGGATAAAGGAAAAGGAGTA 1 CGTCCTGCTCTTCAAGGACAAAGG-AAAGGAGTA * 2170186 CGTCTTGCTCTTCAAGGACAAAGGAAAGGAG 1 CGTCCTGCTCTTCAAGGACAAAGGAAAGGAG 2170217 AATGAAATAG Statistics Matches: 28, Mismatches: 3, Indels: 1 0.88 0.09 0.03 Matches are distributed among these distances: 33 7 0.25 34 21 0.75 ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22 Consensus pattern (33 bp): CGTCCTGCTCTTCAAGGACAAAGGAAAGGAGTA Found at i:2170281 original size:39 final size:39 Alignment explanation
Indices: 2170191--2170294 Score: 102 Period size: 39 Copynumber: 2.6 Consensus size: 39 2170181 GAGTACGTCT ** * * 2170191 TGCTCTTCAAGGACAAAGGAAAGGAGAATGAAATAGGTCC 1 TGCTCTTTGAGGACAAAGGAAA-AAAAATGAAATAGGTCC * * * 2170231 TACTCCTTGAGGACAAAGGAAAAAAAATTAAAT-GTGTCC 1 TGCTCTTTGAGGACAAAGGAAAAAAAATGAAATAG-GTCC * * 2170270 TGCTCTTTGAGGACACAGGAGAAAA 1 TGCTCTTTGAGGACAAAGGAAAAAA 2170295 GGAAAAAAAA Statistics Matches: 52, Mismatches: 11, Indels: 3 0.79 0.17 0.05 Matches are distributed among these distances: 38 1 0.02 39 33 0.63 40 18 0.35 ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20 Consensus pattern (39 bp): TGCTCTTTGAGGACAAAGGAAAAAAAATGAAATAGGTCC Found at i:2170356 original size:40 final size:41 Alignment explanation
Indices: 2170260--2170362 Score: 118 Period size: 40 Copynumber: 2.5 Consensus size: 41 2170250 AAAAAAAATT * ** 2170260 AAATGTGTCCTGCTCTTTGAGGACACAGGAGAAAAGGAAAAA 1 AAATGCGTCCTGCTCTTTG-GGACACAAAAGAAAAGGAAAAA * * * 2170302 AAATGCATCTTGCTCTTTGGGACA-AAAAGAAAAGGAAATA 1 AAATGCGTCCTGCTCTTTGGGACACAAAAGAAAAGGAAAAA * * 2170342 AAGTGCGTCCTGCTCCTTGGG 1 AAATGCGTCCTGCTCTTTGGG 2170363 GACTAGAAGG Statistics Matches: 51, Mismatches: 10, Indels: 2 0.81 0.16 0.03 Matches are distributed among these distances: 40 30 0.59 41 5 0.10 42 16 0.31 ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22 Consensus pattern (41 bp): AAATGCGTCCTGCTCTTTGGGACACAAAAGAAAAGGAAAAA Found at i:2170365 original size:41 final size:40 Alignment explanation
Indices: 2170205--2170365 Score: 114 Period size: 39 Copynumber: 4.0 Consensus size: 40 2170195 CTTCAAGGAC * * 2170205 AAAGGAAAGGAGAATGAAATAG-GTCCTACTCCTTGAGGAC-A 1 AAAGAAAAGGA-AAT-AAAT-GCGTCCTGCTCCTTGAGGACAA * * * * 2170246 AAGGAAAA-AAAATTAAATGTGTCCTGCTCTTTGAGGACACA 1 AAAGAAAAGGAAA-TAAATGCGTCCTGCTCCTTGAGGACA-A ** * * * * 2170287 GGAGAAAAGGAAAAAAAATGCATCTTGCTCTTTG-GGACAA 1 AAAGAAAAGG-AAATAAATGCGTCCTGCTCCTTGAGGACAA * 2170327 AAAGAAAAGGAAATAAAGTGCGTCCTGCTCCTTGGGGAC 1 AAAGAAAAGGAAATAAA-TGCGTCCTGCTCCTTGAGGAC 2170366 TAGAAGGTGC Statistics Matches: 93, Mismatches: 19, Indels: 16 0.73 0.15 0.12 Matches are distributed among these distances: 38 1 0.01 39 28 0.30 40 24 0.26 41 21 0.23 42 16 0.17 43 3 0.03 ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20 Consensus pattern (40 bp): AAAGAAAAGGAAATAAATGCGTCCTGCTCCTTGAGGACAA Found at i:2170477 original size:61 final size:61 Alignment explanation
Indices: 2170348--2170860 Score: 619 Period size: 61 Copynumber: 8.4 Consensus size: 61 2170338 AATAAAGTGC * * * * * 2170348 GTCCTGCTCCTTGGGGACTAGAAGGTGCCACCAACTTATG--GGCTTTGAAAGGAAAAGGT 1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT * * * * 2170407 GTCCCGCTCTTTGAGGAC-AAAAGGTGCCACCCACTTGTATAGGCTTTAACA-GAAAAGAAGT 1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAG--GT * 2170468 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTTAAAA-GAAAAGGT 1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGC-TTTAAAAGGAAAAGGT * * * * 2170529 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGTTTTAAAA-GAAAAGAAGT 1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAG--GT * * * * * 2170591 GTCTTACTCTTCGAGGACTAAAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAGGT 1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT * * * * ** 2170652 GTCCTACTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAACAT 1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG-GAAAAGGT * * 2170714 GTCCTGCT-TTTCGAGGACTAAAAGGTGCCACAAACTTGTGTAGGCTTTAAAAGGAAAAGGC 1 GTCCTGCTCTTT-GAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT * * 2170775 GTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTAGGCTATAAAAGGAAAAGGC 1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT * * 2170836 GTCCTGCTCTTTAAGGACTGAAAGG 1 GTCCTGCTCTTTGAGGACTAAAAGG 2170861 ATAAAAGGTT Statistics Matches: 397, Mismatches: 43, Indels: 26 0.85 0.09 0.06 Matches are distributed among these distances: 58 17 0.04 59 21 0.05 60 24 0.06 61 188 0.47 62 129 0.32 63 18 0.05 ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25 Consensus pattern (61 bp): GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGT Found at i:2170590 original size:123 final size:123 Alignment explanation
Indices: 2170348--2170860 Score: 666 Period size: 123 Copynumber: 4.2 Consensus size: 123 2170338 AATAAAGTGC * * * * 2170348 GTCCTGCTCCTT-GGGGACTAGAAGGTGCCACCAACTTATG--GGCTTTGAAAGGAAAAGGTGTC 1 GTCCTGCT-CTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTC * * * * 2170410 CCGCTCTTTGAGGAC-AAAAGGTGCCACCCACTTGTATAGGCTTTAACAGAAAAGAAGT 65 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGAAGT 2170468 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTTAAAA-GAAAAGGTGTC 1 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGC-TTTAAAAGGAAAAGGTGTC * * 2170532 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGTTTTAAAAGAAAAGAAGT 65 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGAAGT * * * * 2170591 GTCTTACTCTTCGAGGACTAAAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAGGTGTCC 1 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCC * * * * 2170656 TACTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-AACAT 66 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGAA-GT * * * 2170714 GTCCTGCTTTTCGAGGACTAAAAGGTGCCACAAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCC 1 GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCC * * * * 2170779 TGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTAGGCTATAAAAGGAAAAG--GC 66 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTATGGGCTTTAAAA-GAAAAGAAGT ** * 2170836 GTCCTGCTCTTTAAGGACTGAAAGG 1 GTCCTGCTCTTCGAGGACTAAAAGG 2170861 ATAAAAGGTT Statistics Matches: 346, Mismatches: 37, Indels: 18 0.86 0.09 0.04 Matches are distributed among these distances: 119 3 0.01 120 33 0.10 122 58 0.17 123 243 0.70 124 9 0.03 ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25 Consensus pattern (123 bp): GTCCTGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCC TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGAAGT Found at i:2170675 original size:184 final size:181 Alignment explanation
Indices: 2170348--2170860 Score: 617 Period size: 184 Copynumber: 2.8 Consensus size: 181 2170338 AATAAAGTGC * * * * 2170348 GTCCTGCTCCTTGGGGACTAGAAGGTGCCACCAAC-T-TATGGGCTTTGAAAGGAAAAGGTGTCC 1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTATGGG-TTTTAAAAGAAAAGGTGTCC * * * * 2170411 CGCTCTTTGAGGAC-AAAAGGTGCCACCCACTTGTATAGGCTTTAACA-GAAAAGAAGTGTCCTG 64 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAG--GTGTCCTG ** 2170474 CTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTTAAAAG-AAAAGGT 127 CTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGC-TTTAAAAGAAAAACAT 2170529 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGTTTTAAAAGAAAAGAAGTGTC 1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTATGGGTTTTAAAAGAAAAG--GTGTC * * * * * * 2170594 TTACTCTTCGAGGACTAAAAGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTAC 63 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTGC * 2170659 TCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAACAT 128 TCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG-AAAAACAT * * * * * 2170714 GTCCTGCT-TTTCGAGGACTAAAAGGTGCCACAAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTC 1 GTCCTGCTCTTT-GAGGACT-AAAGGTGCCACCAACTTGTATGGGTTTTAAAA-GAAAAGGTGTC * * 2170778 CTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTAGGCTATAAAAGGAAAAGGCGTCCTG 63 CTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTG ** * 2170842 CTCTTTAAGGACTGAAAGG 127 CTCTTCGAGGACTAAAAGG 2170861 ATAAAAGGTT Statistics Matches: 286, Mismatches: 34, Indels: 21 0.84 0.10 0.06 Matches are distributed among these distances: 181 31 0.11 182 14 0.05 183 14 0.05 184 135 0.47 185 80 0.28 186 12 0.04 ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25 Consensus pattern (181 bp): GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGTTTTAAAAGAAAAGGTGTCCTG CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTGCTCT TCGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAACAT Found at i:2171854 original size:15 final size:14 Alignment explanation
Indices: 2171834--2171898 Score: 51 Period size: 15 Copynumber: 4.2 Consensus size: 14 2171824 AAGCAGGTTC 2171834 TTTTCTTTTCTTTTT 1 TTTTCTTTT-TTTTT 2171849 TTTTCTTTTTTATTT 1 TTTTCTTTTTT-TTT * 2171864 ATTTTGTTTTGTTTTGT 1 -TTTTCTTTT-TTTT-T 2171881 TTTT-TTGTTTTTTAT 1 TTTTCTT-TTTTTT-T 2171896 TTT 1 TTT 2171899 AAAAGGGAAG Statistics Matches: 43, Mismatches: 2, Indels: 10 0.78 0.04 0.18 Matches are distributed among these distances: 14 2 0.05 15 22 0.51 16 16 0.37 17 3 0.07 ACGTcount: A:0.05, C:0.05, G:0.06, T:0.85 Consensus pattern (14 bp): TTTTCTTTTTTTTT Found at i:2171858 original size:10 final size:10 Alignment explanation
Indices: 2171831--2171898 Score: 57 Period size: 10 Copynumber: 6.7 Consensus size: 10 2171821 CTTAAGCAGG * 2171831 TTCTTTTCTT 1 TTCTTTTTTT 2171841 TTCTTTTTTT 1 TTCTTTTTTT 2171851 TTCTTTTTTAT 1 TTCTTTTTT-T * * 2171862 TTATTTTGTT 1 TTCTTTTTTT * 2171872 TTGTTTTGTTT 1 TTCTTTT-TTT * 2171883 TT-TTGTTTT 1 TTCTTTTTTT * 2171892 TTATTTT 1 TTCTTTT 2171899 AAAAGGGAAG Statistics Matches: 48, Mismatches: 7, Indels: 6 0.79 0.11 0.10 Matches are distributed among these distances: 9 5 0.10 10 31 0.65 11 12 0.25 ACGTcount: A:0.04, C:0.06, G:0.06, T:0.84 Consensus pattern (10 bp): TTCTTTTTTT Found at i:2177965 original size:14 final size:14 Alignment explanation
Indices: 2177929--2177966 Score: 51 Period size: 14 Copynumber: 2.7 Consensus size: 14 2177919 AGATTTATTT * 2177929 GAAAAAATACAAAAA 1 GAAAAAA-AGAAAAA 2177944 -AAAAAAAGAAAAA 1 GAAAAAAAGAAAAA 2177957 GAAAAAAAGA 1 GAAAAAAAGA 2177967 GGTGCAATAC Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 13 6 0.29 14 15 0.71 ACGTcount: A:0.84, C:0.03, G:0.11, T:0.03 Consensus pattern (14 bp): GAAAAAAAGAAAAA Found at i:2178317 original size:20 final size:20 Alignment explanation
Indices: 2178292--2178358 Score: 98 Period size: 20 Copynumber: 3.4 Consensus size: 20 2178282 TTTTACCCAG 2178292 ATGTATCGATACATTTTTCA 1 ATGTATCGATACATTTTTCA * * * 2178312 ATGTATCGATACATGTATGA 1 ATGTATCGATACATTTTTCA * 2178332 ATGTATCGATACATTCTTCA 1 ATGTATCGATACATTTTTCA 2178352 ATGTATC 1 ATGTATC 2178359 TATCGCAACG Statistics Matches: 40, Mismatches: 7, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 20 40 1.00 ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40 Consensus pattern (20 bp): ATGTATCGATACATTTTTCA Found at i:2179716 original size:19 final size:19 Alignment explanation
Indices: 2179692--2179747 Score: 67 Period size: 20 Copynumber: 2.9 Consensus size: 19 2179682 GTATCGATAC * ** 2179692 ATTGTATGGATACATGTTA 1 ATTGTATCGATACATGACA * 2179711 ATTGTATCAATACATGGACA 1 ATTGTATCGATACAT-GACA 2179731 ATTGTATCGATACATGA 1 ATTGTATCGATACATGA 2179748 GATTGGTAGT Statistics Matches: 31, Mismatches: 5, Indels: 2 0.82 0.13 0.05 Matches are distributed among these distances: 19 15 0.48 20 16 0.52 ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36 Consensus pattern (19 bp): ATTGTATCGATACATGACA Found at i:2183878 original size:15 final size:17 Alignment explanation
Indices: 2183847--2183878 Score: 50 Period size: 16 Copynumber: 2.0 Consensus size: 17 2183837 AGCAAGATGA 2183847 AAGCGTCCAAAATGAAG 1 AAGCGTCCAAAATGAAG 2183864 AAGC-TCCAAAA-GAAG 1 AAGCGTCCAAAATGAAG 2183879 CTGATGAACA Statistics Matches: 15, Mismatches: 0, Indels: 2 0.88 0.00 0.12 Matches are distributed among these distances: 15 4 0.27 16 7 0.47 17 4 0.27 ACGTcount: A:0.50, C:0.19, G:0.22, T:0.09 Consensus pattern (17 bp): AAGCGTCCAAAATGAAG Found at i:2186155 original size:20 final size:22 Alignment explanation
Indices: 2186111--2186157 Score: 64 Period size: 22 Copynumber: 2.2 Consensus size: 22 2186101 AATTTTCCAC 2186111 AAAT-TTTCACTTTTTCACTTCA 1 AAATCTTTCACTTTTTCAC-TCA 2186133 AAATCTTTCA-TTTTTCA-TCA 1 AAATCTTTCACTTTTTCACTCA 2186153 AAATC 1 AAATC 2186158 ATCAACAGAA Statistics Matches: 24, Mismatches: 0, Indels: 4 0.86 0.00 0.14 Matches are distributed among these distances: 20 8 0.33 22 11 0.46 23 5 0.21 ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47 Consensus pattern (22 bp): AAATCTTTCACTTTTTCACTCA Found at i:2187916 original size:20 final size:20 Alignment explanation
Indices: 2187888--2187927 Score: 62 Period size: 20 Copynumber: 2.0 Consensus size: 20 2187878 ACAATGTATC * * 2187888 GATGCATTGTATTGATACAT 1 GATGAATTGTATCGATACAT 2187908 GATGAATTGTATCGATACAT 1 GATGAATTGTATCGATACAT 2187928 AGTTTGTAAC Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 20 18 1.00 ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38 Consensus pattern (20 bp): GATGAATTGTATCGATACAT Found at i:2187981 original size:95 final size:95 Alignment explanation
Indices: 2187766--2187989 Score: 222 Period size: 95 Copynumber: 2.4 Consensus size: 95 2187756 ACACACCTAG ** * 2187766 ATGTATCGATACATTATGCTTTGTATCGATACATTATATTGATACATGTTAATTGTATCGATACA 1 ATGTATCGATACATTATGAATTGTATCGATACATTATATTGATACATGTGAATTGTATCGATACA ** ** * * ** 2187831 TGAGATTGGCAGTAGCTACCCTTCCACTGT 66 TGAGATTGGCAACAGCTAAACTTCAAATCA * * * * 2187861 TTGTATCGATACATGGTA-CAA-TGTATCGATGCATTGTATTGATACATGATGAATTGTATCGAT 1 ATGTATCGATACAT--TATGAATTGTATCGATACATTATATTGATACATG-TGAATTGTATCGAT * * * 2187924 ACAT-AG-TTTGTAACAGCTATAATTTCAAATCA 63 ACATGAGATTGGCAACAGCTA-AACTTCAAATCA 2187956 ATGTATCGATACATTATGAATTGTATCGATACAT 1 ATGTATCGATACATTATGAATTGTATCGATACAT 2187990 GGCTACGAGA Statistics Matches: 102, Mismatches: 21, Indels: 12 0.76 0.16 0.09 Matches are distributed among these distances: 93 2 0.02 94 11 0.11 95 70 0.69 96 17 0.17 97 2 0.02 ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38 Consensus pattern (95 bp): ATGTATCGATACATTATGAATTGTATCGATACATTATATTGATACATGTGAATTGTATCGATACA TGAGATTGGCAACAGCTAAACTTCAAATCA Found at i:2190202 original size:13 final size:13 Alignment explanation
Indices: 2190184--2190211 Score: 56 Period size: 13 Copynumber: 2.2 Consensus size: 13 2190174 ATACAAAGAT 2190184 CAATGTATCGATA 1 CAATGTATCGATA 2190197 CAATGTATCGATA 1 CAATGTATCGATA 2190210 CA 1 CA 2190212 TTGAATAATG 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:0.39, C:0.18, G:0.14, T:0.29 Consensus pattern (13 bp): CAATGTATCGATA Found at i:2190207 original size:33 final size:33 Alignment explanation
Indices: 2190165--2190231 Score: 100 Period size: 33 Copynumber: 2.0 Consensus size: 33 2190155 AAAATTCCCA 2190165 AATGTATCGATACAAAG-ATCAATGTATCGATAC 1 AATGTATCGATACAAAGAAT-AATGTATCGATAC ** 2190198 AATGTATCGATACATTGAATAATGTATCGATAC 1 AATGTATCGATACAAAGAATAATGTATCGATAC 2190231 A 1 A 2190232 TTTCCTTGGT Statistics Matches: 31, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 33 29 0.94 34 2 0.06 ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30 Consensus pattern (33 bp): AATGTATCGATACAAAGAATAATGTATCGATAC Found at i:2194342 original size:50 final size:50 Alignment explanation
Indices: 2194267--2194411 Score: 281 Period size: 50 Copynumber: 2.9 Consensus size: 50 2194257 ATTTATCTGC 2194267 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA 1 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA 2194317 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA 1 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA * 2194367 ATGTATCGATACATCTGGGCAAATTTGCCTGCAAGTATCGATACA 1 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA 2194412 AAGATCAGTG Statistics Matches: 94, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 50 94 1.00 ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32 Consensus pattern (50 bp): ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTATA Found at i:2194438 original size:13 final size:13 Alignment explanation
Indices: 2194420--2194444 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 2194410 CAAAGATCAG 2194420 TGTATCGATACAA 1 TGTATCGATACAA 2194433 TGTATCGATACA 1 TGTATCGATACA 2194445 TTTTTTGGCA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:2194505 original size:13 final size:13 Alignment explanation
Indices: 2194487--2194511 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 2194477 AAAAAAAATA 2194487 TGTATCGATACAT 1 TGTATCGATACAT 2194500 TGTATCGATACA 1 TGTATCGATACA 2194512 ACACTTTATG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:2195528 original size:22 final size:22 Alignment explanation
Indices: 2195503--2195571 Score: 56 Period size: 22 Copynumber: 3.2 Consensus size: 22 2195493 ATGCTGATTC 2195503 AAGGCCAGCTATATTGGACTTA 1 AAGGCCAGCTATATTGGACTTA * * * 2195525 AAGG--TGCCA-ATGTGCTGA-TTC 1 AAGGCCAGCTATAT-TG--GACTTA 2195546 AAGGCCAGCTATATTGGACTTA 1 AAGGCCAGCTATATTGGACTTA 2195568 AAGG 1 AAGG 2195572 TGAAGGTGCC Statistics Matches: 34, Mismatches: 6, Indels: 14 0.63 0.11 0.26 Matches are distributed among these distances: 19 2 0.06 20 5 0.15 21 8 0.24 22 12 0.35 23 5 0.15 24 2 0.06 ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26 Consensus pattern (22 bp): AAGGCCAGCTATATTGGACTTA Found at i:2195597 original size:49 final size:49 Alignment explanation
Indices: 2195437--2196008 Score: 773 Period size: 49 Copynumber: 11.7 Consensus size: 49 2195427 AACAGGATGT * 2195437 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGC * * 2195489 CAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC * * * 2195532 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC * 2195581 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC * * * * * 2195630 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTTAATGGT-GAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGAC-TTAAAGATAAAGGTGC * * * 2195679 CAATGTGCTGATTCAAGGCTAGCTACCTTGGACTTAAAGATGAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC * * * 2195728 CAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGTTAAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC * 2195777 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC * * * * * 2195826 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTTAATGGT-GAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGAC-TTAAAGATAAAGGTGC * * 2195875 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC * 2195924 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC * * * 2195973 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA 1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA 2196009 GAAGGGTTGC Statistics Matches: 462, Mismatches: 48, Indels: 23 0.87 0.09 0.04 Matches are distributed among these distances: 43 40 0.09 44 1 0.00 46 1 0.00 48 12 0.03 49 365 0.79 50 12 0.03 51 1 0.00 52 30 0.06 ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26 Consensus pattern (49 bp): CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC Found at i:2196125 original size:32 final size:33 Alignment explanation
Indices: 2196001--2196142 Score: 170 Period size: 33 Copynumber: 4.4 Consensus size: 33 2195991 CCAGCTATAT * 2196001 TGGGC-TTA-GAAG-GGTTGCTACCGACTTGTG 1 TGGGCTTTAGGAAGAGGTTGCCACCGACTTGTG * * 2196031 TGGGCTTTA-GAGAGAGGTTGCCACCGATTTATG 1 TGGGCTTTAGGA-AGAGGTTGCCACCGACTTGTG * 2196064 TGGGCTTT-GGAAGAAGGTTGCCACCGACTTGTC 1 TGGGCTTTAGGAAG-AGGTTGCCACCGACTTGTG * 2196097 TGGGCTTTAGGAAGA-GTTGCCACTGACTTGTG 1 TGGGCTTTAGGAAGAGGTTGCCACCGACTTGTG * 2196129 TGGGCTTTGGGAAG 1 TGGGCTTTAGGAAG 2196143 GGAGAAAGAT Statistics Matches: 97, Mismatches: 9, Indels: 10 0.84 0.08 0.09 Matches are distributed among these distances: 30 5 0.05 31 5 0.05 32 32 0.33 33 50 0.52 34 5 0.05 ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30 Consensus pattern (33 bp): TGGGCTTTAGGAAGAGGTTGCCACCGACTTGTG Found at i:2196142 original size:66 final size:67 Alignment explanation
Indices: 2196008--2196138 Score: 187 Period size: 65 Copynumber: 2.0 Consensus size: 67 2195998 TATTGGGCTT * * * 2196008 AGAAGGGTTGCTACCGACTTGTGTGGGCTTTAGAGAGAGGTTGCCACCGATTTATGTGGGCTTTG 1 AGAAGGGTTGCCACCGACTTGTCTGGGCTTTAGAGAGAGGTTGCCACCGACTTATGTGGGCTTTG 2196073 GA 66 GA * * 2196075 AGAA-GGTTGCCACCGACTTGTCTGGGCTTTAG-GA-AGAGTTGCCACTGACTTGTGTGGGCTTT 1 AGAAGGGTTGCCACCGACTTGTCTGGGCTTTAGAGAGAG-GTTGCCACCGACTTATGTGGGCTTT 2196137 GG 65 GG 2196139 GAAGGGAGAA Statistics Matches: 58, Mismatches: 5, Indels: 4 0.87 0.07 0.06 Matches are distributed among these distances: 64 2 0.03 65 26 0.45 66 26 0.45 67 4 0.07 ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30 Consensus pattern (67 bp): AGAAGGGTTGCCACCGACTTGTCTGGGCTTTAGAGAGAGGTTGCCACCGACTTATGTGGGCTTTG GA Found at i:2196197 original size:35 final size:34 Alignment explanation
Indices: 2196140--2196342 Score: 235 Period size: 35 Copynumber: 6.1 Consensus size: 34 2196130 GGGCTTTGGG * * * 2196140 AAGGGAGAAAGATGCCACGGAGTTGTGGACTTAA 1 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA 2196174 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA 1 AAGGGAAAAAG-GTGCCACGGAGTTGTGGGC-TTAA * * * 2196210 AA-AGAAAAAGGTGCCACAGAGTTGTGGGCTTAG 1 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA * 2196243 AA-GGAGAAAGGTGCCACGGAGTTGTGGGCTTAA 1 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA * 2196276 AA--G-----GGTGCCACGGAGTTGTGGACTTAA 1 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA * 2196303 AAGGGAAAAAGAGTGCCACGGAATTGTGGGCTTAA 1 AAGGGAAAAAG-GTGCCACGGAGTTGTGGGCTTAA 2196338 AAGGG 1 AAGGG 2196343 TGCCACGGAG Statistics Matches: 146, Mismatches: 13, Indels: 19 0.82 0.07 0.11 Matches are distributed among these distances: 27 25 0.17 29 1 0.01 32 1 0.01 33 34 0.23 34 29 0.20 35 50 0.34 36 6 0.04 ACGTcount: A:0.33, C:0.12, G:0.36, T:0.18 Consensus pattern (34 bp): AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTAA Found at i:2196286 original size:27 final size:27 Alignment explanation
Indices: 2196214--2196365 Score: 133 Period size: 27 Copynumber: 5.1 Consensus size: 27 2196204 CTTTAAAAAG * * 2196214 AAAAAGGTGCCACAGAGTTGTGGGCTT 1 AAAAGGGTGCCACGGAGTTGTGGGCTT 2196241 AGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTT 1 A-AA--AG---GGTGCCACGGAGTTGTGGGCTT * 2196274 AAAAGGGTGCCACGGAGTTGTGGACTT 1 AAAAGGGTGCCACGGAGTTGTGGGCTT * 2196301 AAAAGGGAAAAAGAGTGCCACGGAATTGTGGGCTT 1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT * 2196336 AAAAGGGTGCCACGGAGTTGTGGACTT 1 AAAAGGGTGCCACGGAGTTGTGGGCTT 2196363 AAA 1 AAA 2196366 GATGAAAATG Statistics Matches: 104, Mismatches: 7, Indels: 28 0.75 0.05 0.20 Matches are distributed among these distances: 27 48 0.46 28 3 0.03 29 1 0.01 30 3 0.03 32 2 0.02 33 23 0.22 34 1 0.01 35 23 0.22 ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20 Consensus pattern (27 bp): AAAAGGGTGCCACGGAGTTGTGGGCTT Found at i:2196336 original size:62 final size:60 Alignment explanation
Indices: 2196214--2196365 Score: 232 Period size: 62 Copynumber: 2.5 Consensus size: 60 2196204 CTTTAAAAAG * * * * * * 2196214 AAAAAGGTGCCACAGAGTTGTGGGCTTAGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTT 1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAATTGTGGGCTT 2196274 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAATTGTGGGCTT 1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAG-GTGCCACGGAATTGTGGGCTT 2196336 AAAAGGGTGCCACGGAGTTGTGGACTTAAA 1 AAAAGGGTGCCACGGAGTTGTGGACTTAAA 2196366 GATGAAAATG Statistics Matches: 84, Mismatches: 6, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 60 27 0.32 61 7 0.08 62 50 0.60 ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20 Consensus pattern (60 bp): AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAATTGTGGGCTT Found at i:2196517 original size:52 final size:55 Alignment explanation
Indices: 2196431--2196540 Score: 163 Period size: 52 Copynumber: 2.1 Consensus size: 55 2196421 ATTCGGATTG * * 2196431 AAGATGAGAAACAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA 1 AAGATGAGAAACAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTA * * 2196486 AAGATG-GAAA-AGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA 1 AAGATGAGAAACAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTA 2196538 AAG 1 AAG 2196541 GTGCCTGTTA Statistics Matches: 51, Mismatches: 4, Indels: 3 0.88 0.07 0.05 Matches are distributed among these distances: 52 38 0.75 53 3 0.06 54 4 0.08 55 6 0.12 ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24 Consensus pattern (55 bp): AAGATGAGAAACAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTA Found at i:2196780 original size:21 final size:21 Alignment explanation
Indices: 2196747--2196787 Score: 57 Period size: 21 Copynumber: 2.0 Consensus size: 21 2196737 CTAAGTAAAA 2196747 ATACGTATTGTATCAATACAT 1 ATACGTATTGTATCAATACAT * 2196768 ATAC-TATTGGTATTAATACA 1 ATACGTATT-GTATCAATACA 2196788 CAAGGTTGAC Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 20 4 0.22 21 14 0.78 ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39 Consensus pattern (21 bp): ATACGTATTGTATCAATACAT Found at i:2196852 original size:20 final size:19 Alignment explanation
Indices: 2196827--2196897 Score: 70 Period size: 20 Copynumber: 3.6 Consensus size: 19 2196817 ACCCTGAAAA 2196827 GTATCGATACACATTTAAAT 1 GTATCGATACACA-TTAAAT * ** 2196847 GTATCGATACAAATTGCAT 1 GTATCGATACACATTAAAT ** 2196866 AGTATCGATACACACAAATAT 1 -GTATCGATACACATTAA-AT 2196887 GTATCGATACA 1 GTATCGATACA 2196898 GGACATTGGA Statistics Matches: 41, Mismatches: 8, Indels: 4 0.77 0.15 0.08 Matches are distributed among these distances: 19 4 0.10 20 35 0.85 21 2 0.05 ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30 Consensus pattern (19 bp): GTATCGATACACATTAAAT Found at i:2196950 original size:53 final size:53 Alignment explanation
Indices: 2196867--2197003 Score: 229 Period size: 53 Copynumber: 2.6 Consensus size: 53 2196857 AAATTGCATA 2196867 GTATCGATACACACAAATATGTATCGATACAGGACATTGGAAGTAGCCAAATTT 1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGAAGTAGCCAAATTT * * 2196921 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT 1 GTATCGATACACACAATATGTATCGATACAGGACATTGGAAGTAGCCAAATTT * * 2196974 GTATCGATACACAAAATATGTATCAATACA 1 GTATCGATACACACAATATGTATCGATACA 2197004 TTGGAAGTAG Statistics Matches: 79, Mismatches: 4, Indels: 1 0.94 0.05 0.01 Matches are distributed among these distances: 53 65 0.82 54 14 0.18 ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27 Consensus pattern (53 bp): GTATCGATACACACAATATGTATCGATACAGGACATTGGAAGTAGCCAAATTT Found at i:2197070 original size:21 final size:22 Alignment explanation
Indices: 2197036--2197091 Score: 96 Period size: 21 Copynumber: 2.6 Consensus size: 22 2197026 TTTCACTGTT * 2197036 CATCACTGTTCATGTATCGATA 1 CATCACTATTCATGTATCGATA 2197058 CATCACT-TTCATGTATCGATA 1 CATCACTATTCATGTATCGATA 2197079 CATCACTATTCAT 1 CATCACTATTCAT 2197092 AGGTCACTGT Statistics Matches: 33, Mismatches: 0, Indels: 2 0.94 0.00 0.06 Matches are distributed among these distances: 21 21 0.64 22 12 0.36 ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38 Consensus pattern (22 bp): CATCACTATTCATGTATCGATA Found at i:2197735 original size:34 final size:35 Alignment explanation
Indices: 2197672--2197738 Score: 102 Period size: 37 Copynumber: 1.9 Consensus size: 35 2197662 CTAAGTGATT 2197672 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA 1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA 2197708 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG 1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG 2197739 TGTTGTAAGG Statistics Matches: 30, Mismatches: 0, Indels: 4 0.88 0.00 0.12 Matches are distributed among these distances: 34 8 0.27 36 9 0.30 37 13 0.43 ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30 Consensus pattern (35 bp): GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA Found at i:2198064 original size:48 final size:49 Alignment explanation
Indices: 2197989--2198130 Score: 214 Period size: 48 Copynumber: 2.9 Consensus size: 49 2197979 TGAGCTCACA 2197989 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AG 1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG * * * 2198037 GTGCCAATGTGCTGATTCAAGGGCAGCTGCATTGGACTTAAAGATGAAG 1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG * * * 2198086 GTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGGCTTAGAAGG 1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA-AAGG 2198131 GTTGCCACTG Statistics Matches: 83, Mismatches: 9, Indels: 2 0.88 0.10 0.02 Matches are distributed among these distances: 48 43 0.52 49 37 0.45 50 3 0.04 ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25 Consensus pattern (49 bp): GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG Found at i:2198169 original size:33 final size:32 Alignment explanation
Indices: 2198118--2198324 Score: 276 Period size: 33 Copynumber: 6.4 Consensus size: 32 2198108 CCAGCTATAT * 2198118 TGGGC-TTAGA-AGGGTTGCCACTGACTTGTG 1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG 2198148 TGGGCTTTAGAGAGTGGTTGCCACCGACTTGTG 1 TGGGCTTTAGAGAG-GGTTGCCACCGACTTGTG * * * * 2198181 TGGGCTTTGGAAAAATGGTTGCCACCAACTTGTG 1 TGGGCTTT--AGAGAGGGTTGCCACCGACTTGTG 2198215 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG 1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG * * 2198248 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG 1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG * 2198281 TGGGCTTTAGAGAGGGTTGCCACTGACTTGTG 1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG 2198313 TGGGCTTT-GAGA 1 TGGGCTTTAGAGA 2198325 AGAACAAGAG Statistics Matches: 157, Mismatches: 14, Indels: 11 0.86 0.08 0.06 Matches are distributed among these distances: 30 5 0.03 31 9 0.06 32 29 0.18 33 86 0.55 34 25 0.16 35 3 0.02 ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30 Consensus pattern (32 bp): TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG Found at i:2198238 original size:67 final size:65 Alignment explanation
Indices: 2198130--2198321 Score: 312 Period size: 67 Copynumber: 2.9 Consensus size: 65 2198120 GGCTTAGAAG ** 2198130 GGTTGCCACTGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCGACTTGTGTGGGCTTTGGAAAA 1 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAG-GGTTGCCACCGACTTGTGTGGGCTTTGG-AAA 2198195 AT 64 AT * * 2198197 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA 1 GGTTGCCACCAACTTGTGTGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAA 2198262 T 65 T * 2198263 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCACTGACTTGTGTGGGCTTTG 1 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTG 2198322 AGAAGAACAA Statistics Matches: 118, Mismatches: 6, Indels: 4 0.92 0.05 0.03 Matches are distributed among these distances: 65 27 0.23 66 34 0.29 67 55 0.47 68 2 0.02 ACGTcount: A:0.17, C:0.18, G:0.34, T:0.31 Consensus pattern (65 bp): GGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAT Found at i:2198374 original size:34 final size:34 Alignment explanation
Indices: 2198330--2198394 Score: 103 Period size: 34 Copynumber: 1.9 Consensus size: 34 2198320 TGAGAAGAAC * 2198330 AAGAGTGCCACGGAGTCGTGGACTTAAAAGGAAA 1 AAGAATGCCACGGAGTCGTGGACTTAAAAGGAAA * * 2198364 AAGAATGCCACGGAGTTGTGGGCTTAAAAGG 1 AAGAATGCCACGGAGTCGTGGACTTAAAAGG 2198395 GCTTAAAAGG Statistics Matches: 28, Mismatches: 3, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 34 28 1.00 ACGTcount: A:0.35, C:0.14, G:0.34, T:0.17 Consensus pattern (34 bp): AAGAATGCCACGGAGTCGTGGACTTAAAAGGAAA Found at i:2198492 original size:33 final size:32 Alignment explanation
Indices: 2198405--2198698 Score: 219 Period size: 33 Copynumber: 9.2 Consensus size: 32 2198395 GCTTAAAAGG * 2198405 GGACTAAAAAGGAAAAAGAGTGCCACGGAGTTGT 1 GGACTTAAAAGG-AAAAG-GTGCCACGGAGTTGT * * 2198439 GGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT 1 GGAC-TT-AAAAGGAAAAGGTGCCACGGAGTTGT * 2198473 GGACTTAAAAGGAACAAGGTGCCATGGAGTTGT 1 GGACTTAAAAGGAA-AAGGTGCCACGGAGTTGT * * 2198506 GGACTTAAAA-G----GGTGCCACAGAGTTAT 1 GGACTTAAAAGGAAAAGGTGCCACGGAGTTGT * 2198533 GGACTTAAAAGGAGAAAGGTGCCATGGAGTTGT 1 GGACTTAAAAGGA-AAAGGTGCCACGGAGTTGT * * * * * 2198566 GGACTTTGAGAGGAAAAGATGCTACTGAGTTGT 1 GGAC-TTAAAAGGAAAAGGTGCCACGGAGTTGT ** * * 2198599 GGACTT-GGAGGAAAAGGATGCCACTGAGTCGT 1 GGACTTAAAAGGAAAAGG-TGCCACGGAGTTGT * * * ** 2198631 GGACTTAGAA--AAGAGATGCCACTAAGTTGT 1 GGACTTAAAAGGAAAAGGTGCCACGGAGTTGT ** * * * 2198661 GGACTTTGAA-GAAAAGATGCCACTGAGTCGT 1 GGACTTAAAAGGAAAAGGTGCCACGGAGTTGT 2198692 GGACTTA 1 GGACTTA 2198699 GAAAAGAGAT Statistics Matches: 215, Mismatches: 32, Indels: 29 0.78 0.12 0.11 Matches are distributed among these distances: 27 23 0.11 28 1 0.00 30 21 0.10 31 36 0.17 32 28 0.13 33 67 0.31 34 28 0.13 35 6 0.03 36 5 0.02 ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21 Consensus pattern (32 bp): GGACTTAAAAGGAAAAGGTGCCACGGAGTTGT Found at i:2198517 original size:26 final size:26 Alignment explanation
Indices: 2198488--2198544 Score: 78 Period size: 27 Copynumber: 2.2 Consensus size: 26 2198478 TAAAAGGAAC ** * 2198488 AAGGTGCCATGGAGTTGTGGACTTAA 1 AAGGTGCCACAGAGTTATGGACTTAA 2198514 AAGGGTGCCACAGAGTTATGGACTTAA 1 AA-GGTGCCACAGAGTTATGGACTTAA 2198541 AAGG 1 AAGG 2198545 AGAAAGGTGC Statistics Matches: 27, Mismatches: 3, Indels: 2 0.84 0.09 0.06 Matches are distributed among these distances: 26 4 0.15 27 23 0.85 ACGTcount: A:0.32, C:0.12, G:0.33, T:0.23 Consensus pattern (26 bp): AAGGTGCCACAGAGTTATGGACTTAA Found at i:2198524 original size:60 final size:60 Alignment explanation
Indices: 2198452--2198571 Score: 197 Period size: 60 Copynumber: 2.0 Consensus size: 60 2198442 CTTTAAAAAG * * 2198452 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA-ACAAGGTGCCATGGAGTTGTGGACTT 1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGAGA-AAGGTGCCATGGAGTTGTGGACTT * 2198512 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAGAAAGGTGCCATGGAGTTGTGGACTT 1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGAGAAAGGTGCCATGGAGTTGTGGACTT 2198572 TGAGAGGAAA Statistics Matches: 56, Mismatches: 3, Indels: 2 0.92 0.05 0.03 Matches are distributed among these distances: 60 55 0.98 61 1 0.02 ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22 Consensus pattern (60 bp): AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGAGAAAGGTGCCATGGAGTTGTGGACTT Found at i:2198596 original size:93 final size:91 Alignment explanation
Indices: 2198418--2198698 Score: 259 Period size: 93 Copynumber: 3.0 Consensus size: 91 2198408 CTAAAAAGGA * * * * * ** 2198418 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA 1 AAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGAGAAAGGTGCCATGGAGTTGTGGACTTTGAA * 2198483 GGAACAAGGTGCCA-TGGAGTTGTGGACTT 64 GGAA-AAGATGCCACT-GAGTTGTGGACTT * 2198512 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAGAAAGGTGCCATGGAGTTGTGGACTTTGAGA 1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAA-GAGAAAGGTGCCATGGAGTTGTGGACTTTGA-A * 2198577 GGAAAAGATGCTACTGAGTTGTGGACTT 64 GGAAAAGATGCCACTGAGTTGTGGACTT * * * * * 2198605 GGAGGAAAAGGATGCCACTGAGTCGTGGACTTAGAAA-AG--AGATGCCACT-AAGTTGTGGACT 1 -----AAAAGGGTGCCACAGAGTTGTGGACTTA-AAAGAGAAAGGTGCCA-TGGAGTTGTGGACT * 2198666 TTGAA-GAAAAGATGCCACTGAGTCGTGGACTT 59 TTGAAGGAAAAGATGCCACTGAGTTGTGGACTT 2198698 A 1 A 2198699 GAAAAGAGAT Statistics Matches: 159, Mismatches: 18, Indels: 26 0.78 0.09 0.13 Matches are distributed among these distances: 88 1 0.01 92 4 0.03 93 74 0.47 94 28 0.18 95 22 0.14 96 1 0.01 97 2 0.01 98 24 0.15 99 3 0.02 ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22 Consensus pattern (91 bp): AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGAAAGGTGCCATGGAGTTGTGGACTTTGAAGG AAAAGATGCCACTGAGTTGTGGACTT Found at i:2198651 original size:30 final size:30 Alignment explanation
Indices: 2198582--2198798 Score: 222 Period size: 30 Copynumber: 7.1 Consensus size: 30 2198572 TGAGAGGAAA * * 2198582 AGATGCTACTGAGTTGTGGACTTGGAGGAAAAG 1 AGATGCCACTGAGTCGTGGACTT--A-GAAAAG 2198615 -GATGCCACTGAGTCGTGGACTTAGAAAAG 1 AGATGCCACTGAGTCGTGGACTTAGAAAAG * * * * 2198644 AGATGCCACTAAGTTGTGGACTTTGAAGAAA 1 AGATGCCACTGAGTCGTGGACTTAGAA-AAG 2198675 AGATGCCACTGAGTCGTGGACTTAGAAAAG 1 AGATGCCACTGAGTCGTGGACTTAGAAAAG * ** 2198705 AGATGCCACTGAGTCATTAACTTTGAGAAAAG 1 AGATGCCACTGAGTCGTGGAC-TT-AGAAAAG * * * * 2198737 AGATG-CAATGAGTTGTGGACTTTGAGAAG 1 AGATGCCACTGAGTCGTGGACTTAGAAAAG * * * 2198766 AGATGCCACAGAGTCGTGGACTTTGAGAAG 1 AGATGCCACTGAGTCGTGGACTTAGAAAAG 2198796 AGA 1 AGA 2198799 GATTTGAAGA Statistics Matches: 156, Mismatches: 23, Indels: 13 0.81 0.12 0.07 Matches are distributed among these distances: 29 16 0.10 30 70 0.45 31 38 0.24 32 32 0.21 ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23 Consensus pattern (30 bp): AGATGCCACTGAGTCGTGGACTTAGAAAAG Found at i:2198780 original size:91 final size:90 Alignment explanation
Indices: 2198559--2198798 Score: 286 Period size: 91 Copynumber: 2.6 Consensus size: 90 2198549 AGGTGCCATG * * 2198559 GAGTTGTGGACTTTGAGAGGAAAAGATGCTACTGAGTTGTGGACTTGGAGGAAAAG-GATGCCAC 1 GAGTTGTGGACTTT--GA-GAAAAGATGCCACTGAGTCGTGGACTT--A-GAAAAGAGATGCCAC * * * 2198623 TGAGTCGTGGACTTAGAAAAGAGATGCCACT 60 TGAGTCATGAACTTAGAAAAGAGATGCCAAT * 2198654 AAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGT 1 GAGTTGTGGACTTTG-AGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGT * 2198719 CATTAACTTTGAGAAAAGAGATG-CAAT 65 CATGAAC-TT-AGAAAAGAGATGCCAAT * * * * 2198746 GAGTTGTGGACTTTGAGAAGAGATGCCACAGAGTCGTGGACTTTGAGAAGAGA 1 GAGTTGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA 2198799 GATTTGAAGA Statistics Matches: 129, Mismatches: 12, Indels: 12 0.84 0.08 0.08 Matches are distributed among these distances: 90 6 0.05 91 52 0.40 92 19 0.15 93 38 0.29 94 1 0.01 95 13 0.10 ACGTcount: A:0.33, C:0.12, G:0.31, T:0.23 Consensus pattern (90 bp): GAGTTGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTC ATGAACTTAGAAAAGAGATGCCAAT Found at i:2198792 original size:61 final size:62 Alignment explanation
Indices: 2198582--2198801 Score: 252 Period size: 61 Copynumber: 3.6 Consensus size: 62 2198572 TGAGAGGAAA * * * * 2198582 AGATGCTACTGAGTTGTGGACTTGGAGGAAAAG-GATGCCACTGAGTCGTGGACTTAGAAAAG 1 AGATGCCACAGAGTCGTGGACTTTGA-GAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAG * 2198644 AGATGCCACTA-AGTTGTGGACTTTGA-AGAAA-AGATGCCACTGAGTCGTGGACTTAGAAAAG 1 AGATGCCAC-AGAGTCGTGGACTTTGAGA-AAAGAGATGCCACTGAGTCGTGGACTTAGAAAAG * * ** * * * * 2198705 AGATGCCACTGAGTCATTAACTTTGAGAAAAGAGATG-CAATGAGTTGTGGACTTTGAGAAG 1 AGATGCCACAGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAG * 2198766 AGATGCCACAGAGTCGTGGACTTTGAGAAGAGAGAT 1 AGATGCCACAGAGTCGTGGACTTTGAGAAAAGAGAT 2198802 TTGAAGAATT Statistics Matches: 135, Mismatches: 17, Indels: 13 0.82 0.10 0.08 Matches are distributed among these distances: 60 1 0.01 61 106 0.79 62 28 0.21 ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23 Consensus pattern (62 bp): AGATGCCACAGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAG Found at i:2206998 original size:52 final size:52 Alignment explanation
Indices: 2206928--2207048 Score: 215 Period size: 52 Copynumber: 2.3 Consensus size: 52 2206918 GAAAATTTAT * * 2206928 CTGCGTGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC 1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC * 2206980 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC 1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC 2207032 CTGCATGTATCGATACA 1 CTGCATGTATCGATACA 2207049 AAGATCAGTG Statistics Matches: 66, Mismatches: 3, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 52 66 1.00 ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35 Consensus pattern (52 bp): CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC Found at i:2207061 original size:52 final size:52 Alignment explanation
Indices: 2206928--2207068 Score: 196 Period size: 52 Copynumber: 2.7 Consensus size: 52 2206918 GAAAATTTAT * * 2206928 CTGCGTGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC 1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC *** * 2206980 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC 1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC 2207032 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA 1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA 2207069 ATGTATCGAT Statistics Matches: 80, Mismatches: 7, Indels: 4 0.88 0.08 0.04 Matches are distributed among these distances: 51 4 0.05 52 76 0.95 ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33 Consensus pattern (52 bp): CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC Found at i:2207075 original size:13 final size:13 Alignment explanation
Indices: 2207057--2207081 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 2207047 CAAAGATCAG 2207057 TGTATCGATACAA 1 TGTATCGATACAA 2207070 TGTATCGATACA 1 TGTATCGATACA 2207082 TTTGAGTAAT Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:2207164 original size:13 final size:13 Alignment explanation
Indices: 2207146--2207170 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 2207136 AAAAAAAATA 2207146 TGTATCGATACAT 1 TGTATCGATACAT 2207159 TGTATCGATACA 1 TGTATCGATACA 2207171 ACACTTTATG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:2207547 original size:49 final size:49 Alignment explanation
Indices: 2207482--2207999 Score: 456 Period size: 49 Copynumber: 11.1 Consensus size: 49 2207472 CAATATCGGA * 2207482 CTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT * * ** * 2207531 CCTAAAGAT-AATGGTGCCAATATGCTGATTCAAGGCCAGCGATACCGGA 1 CTTAAAGATGAA-GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT * * *** * 2207580 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTTGGCGACATTGGA 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT * * * 2207629 CTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGT 1 CTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT * 2207681 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG- 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGT * * * 2207730 C-T-----T----GTGCCAATATGCTGATTCAGGGCTAGTGACATTGGT 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT * * * 2207769 CTTAAAGATGAAGGTGCCAATATGCTGATTCATGGCCAGCGATATTGGG 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT * * * * 2207818 C-T-----T----GTGCCAATGTGCTGAGTCAAGGCCAACGACATTAGT 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT * * * 2207857 CTTAAAGATGAAGGTGCCAATATGTTGATTCATGGCCAGCGATATTAGG- 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGT 2207906 C-T-----T----GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT * * * 2207945 CTTAAAGATGAA-ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA 1 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT 2207993 CTTAAAG 1 CTTAAAG 2208000 GTGCCACGGA Statistics Matches: 376, Mismatches: 55, Indels: 77 0.74 0.11 0.15 Matches are distributed among these distances: 38 4 0.01 39 91 0.24 40 3 0.01 43 3 0.01 45 3 0.01 48 45 0.12 49 179 0.48 50 6 0.02 51 1 0.00 52 41 0.11 ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26 Consensus pattern (49 bp): CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT Found at i:2207693 original size:101 final size:98 Alignment explanation
Indices: 2207476--2207999 Score: 405 Period size: 88 Copynumber: 5.6 Consensus size: 98 2207466 TGTCGACAAT * 2207476 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCCTAAAGATA 1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAGATA * * 2207541 ATGGTGCCAATATGCTGATTCAAGGCCAGCGAT 66 ATGGTGCCAATATGCTGATTCAAGGCCAACGAC * * *** * 2207574 ACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTTGGCGACATTGGACTTAAAGATG 1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAGA-- * 2207639 GTTAA-GGTGCCAATGTGCTGATTCAAGGCCAACGAC 64 --TAATGGTGCCAATATGCTGATTCAAGGCCAACGAC * * * 2207675 ATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG--C------T 1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACCTAAAGAT * * ** 2207732 --T-GTGCCAATATGCTGATTCAGGGCTAGTGAC 65 AATGGTGCCAATATGCTGATTCAAGGCCAACGAC * * * * * * 2207763 ATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCATGGCCAGCGATATTGG-------GCT- 1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAGATA * * 2207820 -T-GTGCCAATGTGCTGAGTCAAGGCCAACGAC 66 ATGGTGCCAATATGCTGATTCAAGGCCAACGAC ** * * * * * 2207851 ATTAGTCTTAAAGATGAAGGTGCCAATATGTTGATTCATGGCCAGCGATATTAGG--C------T 1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACCTAAAGAT * 2207908 --T-GTGCCAATATGCTGATTCAAGGCCAGCGAC 65 AATGGTGCCAATATGCTGATTCAAGGCCAACGAC * * * * * * 2207939 ATTGGTCTTAAAGATGAA-ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG 1 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAG 2208000 GTGCCACGGA Statistics Matches: 367, Mismatches: 42, Indels: 39 0.82 0.09 0.09 Matches are distributed among these distances: 86 2 0.01 87 32 0.09 88 197 0.54 89 2 0.01 90 1 0.00 98 56 0.15 101 72 0.20 102 5 0.01 ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26 Consensus pattern (98 bp): ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACCTAAAGATA ATGGTGCCAATATGCTGATTCAAGGCCAACGAC Found at i:2207748 original size:39 final size:39 Alignment explanation
Indices: 2207694--2207937 Score: 175 Period size: 39 Copynumber: 5.7 Consensus size: 39 2207684 AAAGATGAAG 2207694 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT 1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT * * * * 2207733 GTGCCAATATGCTGATTCAGGGCTAGTGACATT-GGTCTTAAAGAT 1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-C-T-----T * * 2207778 GAAGGTGCCAATATGCTGATTCATGGCCAGCGATATTGGGCTT 1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT * * * * * 2207821 GTGCCAATGTGCTGAGTCAAGGCCAACGACATTAGTCTTAAAGAT 1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGC-T-----T * * 2207866 GAAGGTGCCAATATGTTGATTCATGGCCAGCGATATTAGGCTT 1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT 2207909 GTGCCAATATGCTGATTCAAGGCCAGCGA 1 GTGCCAATATGCTGATTCAAGGCCAGCGA 2207938 CATTGGTCTT Statistics Matches: 159, Mismatches: 24, Indels: 44 0.70 0.11 0.19 Matches are distributed among these distances: 38 2 0.01 39 87 0.55 40 2 0.01 43 2 0.01 45 2 0.01 48 2 0.01 49 60 0.38 50 2 0.01 ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27 Consensus pattern (39 bp): GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT Found at i:2207794 original size:88 final size:88 Alignment explanation
Indices: 2207645--2207989 Score: 548 Period size: 88 Copynumber: 3.9 Consensus size: 88 2207635 GATGGTTAAG * * 2207645 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT 1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT 2207710 TCAAGGCCAGCGATATTAGGCTT 66 TCAAGGCCAGCGATATTAGGCTT * * ** 2207733 GTGCCAATATGCTGATTCAGGGCTAGTGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT 1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT * * 2207798 TCATGGCCAGCGATATTGGGCTT 66 TCAAGGCCAGCGATATTAGGCTT * * * * 2207821 GTGCCAATGTGCTGAGTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGCCAATATGTTGAT 1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT * 2207886 TCATGGCCAGCGATATTAGGCTT 66 TCAAGGCCAGCGATATTAGGCTT * * 2207909 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAA-ATGCCAATATGCTGAT 1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT 2207973 TCAAGGCCAGCGATATT 66 TCAAGGCCAGCGATATT 2207990 GGACTTAAAG Statistics Matches: 233, Mismatches: 24, Indels: 1 0.90 0.09 0.00 Matches are distributed among these distances: 87 30 0.13 88 203 0.87 ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27 Consensus pattern (88 bp): GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT TCAAGGCCAGCGATATTAGGCTT Found at i:2208053 original size:33 final size:33 Alignment explanation
Indices: 2208001--2208277 Score: 252 Period size: 33 Copynumber: 8.5 Consensus size: 33 2207991 GACTTAAAGG * * 2208001 TGCCACGGAGTTGTAGACTTCAAAGGAA-AATGA 1 TGCCACGGAGTTGTGGACTTAAAAGGAACAA-GA * * 2208034 TGCCACGTAATTGTGGACTTAAAAGGAACAAGA 1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA 2208067 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA 1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA 2208100 TGCCACGGAGTTGTGGACTTAAAAGG-----G- 1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA * * * * 2208127 TGCCACAGAATTATGGACTTAAAAGGAAAAAGGA 1 TGCCACGGAGTTGTGGACTTAAAAGGAACAA-GA * ** * * * 2208161 TACCACAAAGTTGTGGGCTTTAAAAAGAA-AAGG 1 TGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGA * * 2208194 TGCCACGGAGTTGTGGACTTAAAACGAA-AAGG 1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA * 2208226 TGCCACGGAGTTGTCGG-CTTAAAAGGGAA-AAGGG 1 TGCCACGGAGTTGT-GGACTTAAAA-GGAACAA-GA * * 2208260 TGCCACGAAGTCGTGGAC 1 TGCCACGGAGTTGTGGAC 2208278 GTTGAGAAGA Statistics Matches: 207, Mismatches: 24, Indels: 25 0.81 0.09 0.10 Matches are distributed among these distances: 27 23 0.11 28 1 0.00 32 34 0.16 33 108 0.52 34 32 0.15 35 9 0.04 ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19 Consensus pattern (33 bp): TGCCACGGAGTTGTGGACTTAAAAGGAACAAGA Found at i:2208114 original size:66 final size:65 Alignment explanation
Indices: 2207996--2208277 Score: 292 Period size: 66 Copynumber: 4.4 Consensus size: 65 2207986 TATTGGACTT * * * * * 2207996 AAAGGTGCCACGGAGTTGTAGACTTCAAAGGAAAATGATGCCACGTAATTGTGGACTTAAAAGGA 1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA * 2208061 ACAAGATGCCACGGAGTTGTGGACTTAAAAGGAACAA-GATGCCACGGAGTTGTGGACTTAAAA- 1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAA-AAGGATGCCACGGAGTTGTGGACTTAAAAG 2208124 G- 64 GA * * * * ** * * 2208125 ---GGTGCCACAGAATTATGGACTTAAAAGGAAAAAGGATACCACAAAGTTGTGGGCTTTAAAAA 1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAGGATGCCACGGAGTTGTGGAC-TTAAAAG 2208187 GA 64 GA * 2208189 AAAGGTGCCACGGAGTTGTGGACTTAAAACGAAAAGG-TGCCACGGAGTTGTCGG-CTTAAAAGG 1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACGGAGTTGT-GGACTTAAAA-G 2208252 GA 64 GA * * 2208254 AAAGGGTGCCACGAAGTCGTGGAC 1 AAA-GGTGCCACGGAGTTGTGGAC 2208278 GTTGAGAAGA Statistics Matches: 181, Mismatches: 23, Indels: 25 0.79 0.10 0.11 Matches are distributed among these distances: 60 26 0.14 61 18 0.10 62 6 0.03 63 1 0.01 64 6 0.03 65 19 0.10 66 79 0.44 67 26 0.14 ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19 Consensus pattern (65 bp): AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA Found at i:2208167 original size:34 final size:33 Alignment explanation
Indices: 2208120--2208265 Score: 111 Period size: 32 Copynumber: 4.4 Consensus size: 33 2208110 TTGTGGACTT * * * 2208120 AAAAGGGTGCCACAGAATTATGGACTTAAAAGG 1 AAAAAGGTGCCACAGAATTGTGGACTTAAAAAG * * 2208153 AAAAAGGATACCACA-AAGTTGTGGGCTTTAAAAAG 1 AAAAAGG-TGCCACAGAA-TTGTGGAC-TTAAAAAG * * * 2208188 -AAAAGGTGCCACGGAGTTGTGGACTTAAAACG 1 AAAAAGGTGCCACAGAATTGTGGACTTAAAAAG * * * 2208220 -AAAAGGTGCCACGGAGTTGTCGG-CTTAAAAGGG 1 AAAAAGGTGCCACAGAATTGT-GGACTTAAAA-AG * 2208253 AAAAGGGTGCCAC 1 AAAAAGGTGCCAC 2208266 GAAGTCGTGG Statistics Matches: 94, Mismatches: 12, Indels: 13 0.79 0.10 0.11 Matches are distributed among these distances: 32 34 0.36 33 23 0.24 34 30 0.32 35 7 0.07 ACGTcount: A:0.38, C:0.14, G:0.29, T:0.18 Consensus pattern (33 bp): AAAAAGGTGCCACAGAATTGTGGACTTAAAAAG Found at i:2208209 original size:94 final size:94 Alignment explanation
Indices: 2207996--2208217 Score: 261 Period size: 94 Copynumber: 2.3 Consensus size: 94 2207986 TATTGGACTT * * * 2207996 AAAGGTGCCACGGAGTTGTAGACTTCAAAGGAAAATGATGCCACGTAATTGTGGACTTAAAAGGA 1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG---A-GATGCCACGTAATTATGGACTTAAAAGGA * * ** * 2208061 ACAAGATGCCACGGAGTTGTGGACTTAAAAGGA 62 AAAAGATACCACAAAGTTGTGGACTTAAAAAGA * 2208094 ACAAGATGCCACGGAGTTGTGGACTTAAAAGG-G-TGCCACAG-AATTATGGACTTAAAAGGAAA 1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCAC-GTAATTATGGACTTAAAAGGAAA * 2208156 AAGGATACCACAAAGTTGTGGGCTTTAAAAAGA 64 AA-GATACCACAAAGTTGTGGAC-TTAAAAAGA 2208189 AAAGGTGCCACGGAGTTGTGGACTTAAAA 1 AAAGGTGCCACGGAGTTGTGGACTTAAAA 2208218 CGAAAAGGTG Statistics Matches: 109, Mismatches: 11, Indels: 12 0.83 0.08 0.09 Matches are distributed among these distances: 93 27 0.25 94 45 0.41 95 9 0.08 98 1 0.01 99 27 0.25 ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20 Consensus pattern (94 bp): AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCACGTAATTATGGACTTAAAAGGAAAAA GATACCACAAAGTTGTGGACTTAAAAAGA Found at i:2208233 original size:126 final size:126 Alignment explanation
Indices: 2207989--2208252 Score: 333 Period size: 126 Copynumber: 2.1 Consensus size: 126 2207979 CCAGCGATAT * * * * * * * 2207989 TGGACTT-AAA-GGTGCCACGGAGTTGTAGACTTCAAAGGAAAATGATGCCACGTAATTGTGGAC 1 TGGACTTAAAAGGGTGCCACAGAATTATAGACTTAAAAGGAAAAGGATACCACGAAATTGTGGAC * * 2208052 TTAAAAGGAACAAGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGATGCCACGGAGTTG 66 TTAAAAAGAACAAGATGCCACGGAGTTGTGGACTTAAAACGAACAAGATGCCACGGAGTTG * 2208113 TGGACTTAAAAGGGTGCCACAGAATTATGGACTTAAAAGGAAAAAGGATACCAC-AAAGTTGTGG 1 TGGACTTAAAAGGGTGCCACAGAATTATAGACTTAAAAGG-AAAAGGATACCACGAAA-TTGTGG * * * 2208177 GCTTTAAAAAGAA-AAGGTGCCACGGAGTTGTGGACTTAAAACGAA-AAGGTGCCACGGAGTTG 64 AC-TTAAAAAGAACAAGATGCCACGGAGTTGTGGACTTAAAACGAACAAGATGCCACGGAGTTG 2208239 TCGG-CTTAAAAGGG 1 T-GGACTTAAAAGGG 2208253 AAAAGGGTGC Statistics Matches: 121, Mismatches: 13, Indels: 10 0.84 0.09 0.07 Matches are distributed among these distances: 124 7 0.06 125 3 0.02 126 52 0.43 127 50 0.41 128 9 0.07 ACGTcount: A:0.36, C:0.14, G:0.29, T:0.20 Consensus pattern (126 bp): TGGACTTAAAAGGGTGCCACAGAATTATAGACTTAAAAGGAAAAGGATACCACGAAATTGTGGAC TTAAAAAGAACAAGATGCCACGGAGTTGTGGACTTAAAACGAACAAGATGCCACGGAGTTG Found at i:2208306 original size:31 final size:31 Alignment explanation
Indices: 2208260--2208405 Score: 172 Period size: 31 Copynumber: 4.7 Consensus size: 31 2208250 GGGAAAAGGG * * 2208260 TGCCAC-GAAGTCGTGGACGTTG-AGAAGAGA 1 TGCCACTG-AGTCGTGGACTTTGAAGAAAAGA * 2208290 TTGCCACTGAGCCGTGGACTTTGAAGAAAAGGA 1 -TGCCACTGAGTCGTGGACTTTGAAGAAAA-GA * * * 2208323 TGCCATTGAGTCGTGGACTTAGAA-AAGAGA 1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA * * 2208353 TGCCACTGGGTTGTGGACTTTGAAGAAAAGA 1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA 2208384 TGCCACTGAGTCGTGGACTTTG 1 TGCCACTGAGTCGTGGACTTTG 2208406 GGAAAAAAGA Statistics Matches: 97, Mismatches: 14, Indels: 8 0.82 0.12 0.07 Matches are distributed among these distances: 30 22 0.23 31 46 0.47 32 27 0.28 33 2 0.02 ACGTcount: A:0.28, C:0.16, G:0.32, T:0.23 Consensus pattern (31 bp): TGCCACTGAGTCGTGGACTTTGAAGAAAAGA Found at i:2209383 original size:20 final size:20 Alignment explanation
Indices: 2209358--2209432 Score: 105 Period size: 20 Copynumber: 3.8 Consensus size: 20 2209348 TTTTACCCAG 2209358 ATGTATCGATACATTTTTCA 1 ATGTATCGATACATTTTTCA * * * 2209378 ATGTATCGATACATGTATGA 1 ATGTATCGATACATTTTTCA * 2209398 ATGTATCGATACATTCTTCA 1 ATGTATCGATACATTTTTCA * 2209418 ATGTATCCATACATT 1 ATGTATCGATACATT 2209433 CTGTCTTTTT Statistics Matches: 47, Mismatches: 8, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 20 47 1.00 ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40 Consensus pattern (20 bp): ATGTATCGATACATTTTTCA Found at i:2224470 original size:28 final size:28 Alignment explanation
Indices: 2224410--2224620 Score: 226 Period size: 28 Copynumber: 7.4 Consensus size: 28 2224400 TCATCTCTTT * 2224410 AAAGCGCACAAGTCAGTGGCATCCTTTTC 1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC * * * 2224439 ATAGCCCATAAGTCGGTGGCACCTTTTC 1 AAAGCCCACAAGTCAGTGGCACCTTTTC * 2224467 ATAGCCCACAAGTCAGTGGCACCTTTTC 1 AAAGCCCACAAGTCAGTGGCACCTTTTC * * * 2224495 AAAGCCCATAAGTCAGTGGCAACTCTTC 1 AAAGCCCACAAGTCAGTGGCACCTTTTC * * * * 2224523 AAAGCCTACAAGTTAGAGGCACCTTCTC 1 AAAGCCCACAAGTCAGTGGCACCTTTTC * 2224551 AAAACCCACAAGTCAGTGGCATCCTTTT- 1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC * * 2224579 AAAGCCCACACAAGTCGGTGGCAACTTTCTC 1 AAAG-CC-CACAAGTCAGTGGCACCTTT-TC 2224610 TAAAGCCCACA 1 -AAAGCCCACA 2224621 CAAATTGGTG Statistics Matches: 151, Mismatches: 25, Indels: 11 0.81 0.13 0.06 Matches are distributed among these distances: 28 98 0.65 29 28 0.19 30 19 0.13 31 2 0.01 32 4 0.03 ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23 Consensus pattern (28 bp): AAAGCCCACAAGTCAGTGGCACCTTTTC Found at i:2224619 original size:32 final size:31 Alignment explanation
Indices: 2224557--2224641 Score: 100 Period size: 32 Copynumber: 2.7 Consensus size: 31 2224547 TCTCAAAACC * * * 2224557 CACAAGTCAGTGGCATCCTT-TTAAAGCCCA 1 CACAAGTCGGTGGCAACTTTCTTAAAGCCCA 2224587 CACAAGTCGGTGGCAACTTTCTCTAAAGCCCA 1 CACAAGTCGGTGGCAACTTTCT-TAAAGCCCA * * 2224619 CACAAATTGGTGGCAACCTTTCT 1 CACAAGTCGGTGGCAA-CTTTCT 2224642 AAACCTAATG Statistics Matches: 47, Mismatches: 5, Indels: 3 0.85 0.09 0.05 Matches are distributed among these distances: 30 17 0.36 31 1 0.02 32 23 0.49 33 6 0.13 ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25 Consensus pattern (31 bp): CACAAGTCGGTGGCAACTTTCTTAAAGCCCA Found at i:2225341 original size:20 final size:20 Alignment explanation
Indices: 2225316--2225392 Score: 84 Period size: 20 Copynumber: 3.9 Consensus size: 20 2225306 TTTCACCCAA 2225316 ATGTATCGATACATTTTTCG 1 ATGTATCGATACATTTTTCG ** * 2225336 ATGTATCGATACAGGTAT-G 1 ATGTATCGATACATTTTTCG * * * 2225355 AATGTATTGATACATTCTTCA 1 -ATGTATCGATACATTTTTCG 2225376 ATGTATCGATACATTTT 1 ATGTATCGATACATTTT 2225393 GTCTTTTTAC Statistics Matches: 44, Mismatches: 11, Indels: 4 0.75 0.19 0.07 Matches are distributed among these distances: 19 1 0.02 20 43 0.98 ACGTcount: A:0.30, C:0.13, G:0.16, T:0.42 Consensus pattern (20 bp): ATGTATCGATACATTTTTCG Found at i:2225418 original size:51 final size:51 Alignment explanation
Indices: 2225356--2225490 Score: 202 Period size: 51 Copynumber: 2.7 Consensus size: 51 2225346 ACAGGTATGA * * * 2225356 ATGTATTGATACATTCTTCAATGTATCGATACATTTTGTCTTTTTACCC-T 1 ATGTATCGATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAT * 2225406 GATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTTACCCAT 1 -ATGTATCGATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAT * 2225458 ATGTATCGATACTTTATTCAATGTATC-ATACAT 1 ATGTATCGATACATTATTCAATGTATCGATACAT 2225491 CTAGTTAAAT Statistics Matches: 78, Mismatches: 5, Indels: 3 0.91 0.06 0.03 Matches are distributed among these distances: 50 6 0.08 51 71 0.91 52 1 0.01 ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45 Consensus pattern (51 bp): ATGTATCGATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAT Found at i:2231650 original size:4 final size:4 Alignment explanation
Indices: 2231641--2231671 Score: 53 Period size: 4 Copynumber: 7.8 Consensus size: 4 2231631 AAACAAAACA * 2231641 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AAA 1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA 2231672 CACCTCAAAA Statistics Matches: 25, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 4 25 1.00 ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23 Consensus pattern (4 bp): AAAT Found at i:2233825 original size:79 final size:79 Alignment explanation
Indices: 2233724--2233955 Score: 272 Period size: 79 Copynumber: 2.9 Consensus size: 79 2233714 TATTTTGGAG * * * 2233724 ATAAAACTCG-GGATTGGAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAA 1 ATAAAAC-CGAGG-TTGGAGTATCCTCTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAA * * 2233788 AATTGGTGTTTTGGAA 64 AATTAGTGTTTTGAAA * * * * * * 2233804 ATAAAACC-AGAGTTGGAGTATCCTTTTGAAAATAATGGGGTTGGAGTATCCCCAATTATGGAAT 1 ATAAAACCGAG-GTTGGAGTATCCTCTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAA * * 2233868 ATCAATGTTTTGAAA 65 ATTAGTGTTTTGAAA * * 2233883 ATAAAACCGAGGTTGGAGTGTCCTCTCGAAAATAAC-AGGGTTGGAGTATCCCCAATTATGAAAA 1 ATAAAACCGAGGTTGGAGTATCCTCTAGAAAATAACGA-GGTTGGAGTATCCCCAATTATGAAAA 2233947 ATTAGTGTT 65 ATTAGTGTT 2233956 CTCCTCGAAA Statistics Matches: 126, Mismatches: 22, Indels: 9 0.80 0.14 0.06 Matches are distributed among these distances: 79 116 0.92 80 10 0.08 ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29 Consensus pattern (79 bp): ATAAAACCGAGGTTGGAGTATCCTCTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAA TTAGTGTTTTGAAA Found at i:2233982 original size:52 final size:51 Alignment explanation
Indices: 2233899--2234000 Score: 143 Period size: 52 Copynumber: 2.0 Consensus size: 51 2233889 CCGAGGTTGG * 2233899 AGTGTCCTCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATT 1 AGTGTCCTCTCGAAAATAACAGGGTTAGAGTATCCCCAATTATGAAAAATT * * * 2233950 AGTGTTCTCCTCGAAAATAAC-GAGGTTAGAGTATCTCCGATTATGAAAAAT 1 AGTGTCCT-CTCGAAAATAACAG-GGTTAGAGTATCCCCAATTATGAAAAAT 2234001 CGATATTTGG Statistics Matches: 45, Mismatches: 4, Indels: 3 0.87 0.08 0.06 Matches are distributed among these distances: 51 8 0.18 52 37 0.82 ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28 Consensus pattern (51 bp): AGTGTCCTCTCGAAAATAACAGGGTTAGAGTATCCCCAATTATGAAAAATT Found at i:2234118 original size:209 final size:210 Alignment explanation
Indices: 2233752--2234143 Score: 461 Period size: 209 Copynumber: 1.9 Consensus size: 210 2233742 GTATCCCCTA * * * * * 2233752 GAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCAGAGT 1 GAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATCGATGATTTGGAAATAAAACCAGAGT * * * * * * * * 2233817 TGGAGTATCCTTTTGAAAATAATGGGGTTGGAGTATCCCCAATTATGGAATATCAATGTTTTGAA 66 TAGAGTATCCCTTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAA * * 2233882 AATAAAACCGAGGTTGGAGTGTCCTCTC-GAAAATAACAGGGTTGGAGTATCCCCAATTATGAAA 131 AATAAAACCGAGGTTGAAGTATCCTCTCAG-AAATAACAGGGTTGGAGTATCCCCAATTATGAAA 2233946 AATTAGTGTTCTCCTC 195 AATTAGTGTTCTCCTC * * * 2233962 GAAAATAACGAGGTTAGAGTATCTCCGATTATGAAAAATCGAT-ATTTGGAAATAAAA-TAGGGG 1 GAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATCGATGATTTGGAAATAAAACCA-GAG * * ** * 2234025 TTAGAGTATCCCCTTAG-AAATAACGAGGTTGGAGTGTCTCTGATTGTGAAAAATCAATATTTT- 65 TTAGAGTAT-CCCTTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTG * * ** * 2234088 AGAAATAAAGCCGGGGTTGAAGTATCCTCTCAGAAATAATGGGGTTGGAGTGTCCC 129 A-AAATAAAACCGAGGTTGAAGTATCCTCTCAGAAATAACAGGGTTGGAGTATCCC 2234144 TAATGGTGGA Statistics Matches: 150, Mismatches: 28, Indels: 9 0.80 0.15 0.05 Matches are distributed among these distances: 208 2 0.01 209 104 0.69 210 44 0.29 ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29 Consensus pattern (210 bp): GAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATCGATGATTTGGAAATAAAACCAGAGT TAGAGTATCCCTTAGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAA AATAAAACCGAGGTTGAAGTATCCTCTCAGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAA ATTAGTGTTCTCCTC Found at i:2234125 original size:79 final size:79 Alignment explanation
Indices: 2233964--2234331 Score: 329 Period size: 79 Copynumber: 4.7 Consensus size: 79 2233954 TTCTCCTCGA * * ** 2233964 AAATAACGAGGTTAGAGTATCTCC-GATTATGAAAAATC-G-ATATTTGGAAATAAAATAGGGGT 1 AAATAACGAGGTTGGAGTATC-CCTGATTGTGAAAAATCAGTAT-TTTGGAAATAAAACCGGGGT * 2234026 T-AGAGTATCCCCTTAG 64 TGA-AGTATCCCCTCAG * * * * * 2234042 AAATAACGAGGTTGGAGTGTCTCTGATTGTGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTG 1 AAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTGGAAATAAAACCGGGGTTG * 2234107 AAGTATCCTCTCAG 66 AAGTATCCCCTCAG * * * * * * * * 2234121 AAATAATGGGGTTGGAGTGTCCCTAATGGTGGAAAAT-AGGTGTTTTGGAAATAAAATCGGGGTT 1 AAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCA-GTATTTTGGAAATAAAACCGGGGTT * 2234185 GGAGTATCCCCTCAG 65 GAAGTATCCCCTCAG * * * * * 2234200 AAATAAC-AGGGTTAGAGTATCCCTGATTATGGAAAATCAGTGTTTTGGAAATAAAACTGGGGTT 1 AAATAACGA-GGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTGGAAATAAAACCGGGGTT * * * * 2234264 GGAGGATCACCTTA- 65 GAAGTATCCCCTCAG * * * * * 2234278 AAATAACGAGGTTGGAGTATCCCCGGTTGTG-GAAATCGGTATTTTAGAAATAAA 1 AAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTGGAAATAAA 2234332 GACATCAATG Statistics Matches: 238, Mismatches: 44, Indels: 17 0.80 0.15 0.06 Matches are distributed among these distances: 77 20 0.08 78 58 0.24 79 156 0.66 80 4 0.02 ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28 Consensus pattern (79 bp): AAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTGGAAATAAAACCGGGGTTG AAGTATCCCCTCAG Found at i:2235641 original size:11 final size:11 Alignment explanation
Indices: 2235608--2235635 Score: 56 Period size: 11 Copynumber: 2.5 Consensus size: 11 2235598 ATGGTGATGG 2235608 CAAGATATCAT 1 CAAGATATCAT 2235619 CAAGATATCAT 1 CAAGATATCAT 2235630 CAAGAT 1 CAAGAT 2235636 GACATCTTTA Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 11 17 1.00 ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25 Consensus pattern (11 bp): CAAGATATCAT Found at i:2238908 original size:13 final size:13 Alignment explanation
Indices: 2238890--2238915 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 2238880 CAATTTTTTG 2238890 TGTATCGATACAT 1 TGTATCGATACAT 2238903 TGTATCGATACAT 1 TGTATCGATACAT 2238916 ACTTGCTGTA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38 Consensus pattern (13 bp): TGTATCGATACAT Found at i:2239663 original size:21 final size:21 Alignment explanation
Indices: 2239622--2239665 Score: 54 Period size: 21 Copynumber: 2.1 Consensus size: 21 2239612 CTCCCCTTTA * * 2239622 TCTCCCCCGTTTATTAATAAT 1 TCTCCCCCGTTAATCAATAAT 2239643 TCTCCCCC-TTAATCAAGTAAT 1 TCTCCCCCGTTAATCAA-TAAT 2239664 TC 1 TC 2239666 ATATCAAAAA Statistics Matches: 20, Mismatches: 2, Indels: 2 0.83 0.08 0.08 Matches are distributed among these distances: 20 6 0.30 21 14 0.70 ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39 Consensus pattern (21 bp): TCTCCCCCGTTAATCAATAAT Found at i:2241489 original size:13 final size:13 Alignment explanation
Indices: 2241471--2241509 Score: 78 Period size: 13 Copynumber: 3.0 Consensus size: 13 2241461 ATAATCACCC 2241471 TGTATCGATACAA 1 TGTATCGATACAA 2241484 TGTATCGATACAA 1 TGTATCGATACAA 2241497 TGTATCGATACAA 1 TGTATCGATACAA 2241510 AGAAAAATGT Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 26 1.00 ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31 Consensus pattern (13 bp): TGTATCGATACAA Found at i:2243600 original size:15 final size:15 Alignment explanation
Indices: 2243580--2243610 Score: 53 Period size: 15 Copynumber: 2.1 Consensus size: 15 2243570 ATTTCGTTTG * 2243580 GAGCTTCTTCATTTT 1 GAGCTTCCTCATTTT 2243595 GAGCTTCCTCATTTT 1 GAGCTTCCTCATTTT 2243610 G 1 G 2243611 GACATTTTTA Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 15 15 1.00 ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48 Consensus pattern (15 bp): GAGCTTCCTCATTTT Found at i:2245442 original size:21 final size:21 Alignment explanation
Indices: 2245413--2245457 Score: 56 Period size: 21 Copynumber: 2.1 Consensus size: 21 2245403 AAGTTTTCAT * 2245413 TTTTCTTAGCTAAC-TCATTA 1 TTTTCTTAGCCAACTTCATTA * 2245433 TTTTCATTAGCCAACTTCTTTA 1 TTTTC-TTAGCCAACTTCATTA 2245455 TTT 1 TTT 2245458 CAACTTGCAA Statistics Matches: 21, Mismatches: 2, Indels: 2 0.84 0.08 0.08 Matches are distributed among these distances: 20 5 0.24 21 8 0.38 22 8 0.38 ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53 Consensus pattern (21 bp): TTTTCTTAGCCAACTTCATTA Found at i:2254538 original size:20 final size:20 Alignment explanation
Indices: 2254493--2254549 Score: 60 Period size: 20 Copynumber: 2.8 Consensus size: 20 2254483 CATAAGTAAA * ** 2254493 TGTATCGATACATTTACTGTT 1 TGTATCGATACATTT-TTCAT 2254514 TGTATCGATACATTTTTCAT 1 TGTATCGATACATTTTTCAT * * 2254534 TGTATCAATATATTTT 1 TGTATCGATACATTTT 2254550 GGGTTTTAAC Statistics Matches: 31, Mismatches: 5, Indels: 1 0.84 0.14 0.03 Matches are distributed among these distances: 20 16 0.52 21 15 0.48 ACGTcount: A:0.26, C:0.12, G:0.11, T:0.51 Consensus pattern (20 bp): TGTATCGATACATTTTTCAT Found at i:2257045 original size:51 final size:51 Alignment explanation
Indices: 2256969--2257083 Score: 167 Period size: 51 Copynumber: 2.3 Consensus size: 51 2256959 TTTCTGAGGG * * 2256969 GATACTCCAATCCTAGTTTTATTTCTAAAACACCGATTTTTCACCATCGGA 1 GATACTCCAACCCTAGTTTGATTTCTAAAACACCGATTTTTCACCATCGGA * * * * * 2257020 GATACTCCAACCCTGGTTTGATTTCTAAAATACTGATTTTTCACCATTGGG 1 GATACTCCAACCCTAGTTTGATTTCTAAAACACCGATTTTTCACCATCGGA 2257071 GATACTCCAACCC 1 GATACTCCAACCC 2257084 CGTTATTTTC Statistics Matches: 57, Mismatches: 7, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 51 57 1.00 ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34 Consensus pattern (51 bp): GATACTCCAACCCTAGTTTGATTTCTAAAACACCGATTTTTCACCATCGGA Found at i:2257156 original size:79 final size:79 Alignment explanation
Indices: 2257020--2257166 Score: 199 Period size: 79 Copynumber: 1.9 Consensus size: 79 2257010 CACCATCGGA * *** 2257020 GATACTCCAACCCTGGTTTGATTTCTAAAATACTGATTTTTCACCATTGGGGATACTCCAACCCC 1 GATACTCCAACCCTGGTTTGATTTCTAAAATACTGATTTTCCACCATTCAAGATACTCCAACCCC 2257085 GTTATTTTCGAAGG 66 GTTATTTTCGAAGG * * * 2257099 GATACTCTAACTCTGGTTTTATTTCTAAAATA-TCGATTTTCCACCA-TCAAGACTACTCCAACC 1 GATACTCCAACCCTGGTTTGATTTCTAAAATACT-GATTTTCCACCATTCAAGA-TACTCCAACC 2257162 CCGTT 64 CCGTT 2257167 TTCACTTTTA Statistics Matches: 59, Mismatches: 7, Indels: 4 0.84 0.10 0.06 Matches are distributed among these distances: 78 4 0.07 79 55 0.93 ACGTcount: A:0.27, C:0.26, G:0.13, T:0.35 Consensus pattern (79 bp): GATACTCCAACCCTGGTTTGATTTCTAAAATACTGATTTTCCACCATTCAAGATACTCCAACCCC GTTATTTTCGAAGG Found at i:2260573 original size:3 final size:3 Alignment explanation
Indices: 2260565--2260598 Score: 68 Period size: 3 Copynumber: 11.3 Consensus size: 3 2260555 AGTAAAAATA 2260565 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A 1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A 2260599 TATGAATGAA Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 31 1.00 ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32 Consensus pattern (3 bp): AAT Found at i:2260959 original size:44 final size:44 Alignment explanation
Indices: 2260904--2261233 Score: 238 Period size: 44 Copynumber: 7.7 Consensus size: 44 2260894 TTTCATTCTA * * 2260904 TTTGACGTATGGTTACCACCTTGGTCAAACTCTTCTCATTTCGG 1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAG * * * * * * * 2260948 TTTGACATATGGTTACCACCCTAGTCAGATTCTTTTTA-TTCTAA 1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTC-AG * 2260992 TTTGACGTATGGTTACCACCCTAGTCAAACAT-TTCTCATTTCAG 1 TTTGACGTATGGTTACCACCCTGGTCAAAC-TCTTCTCATTTCAG * * * * * * 2261036 TCTAACGTATGGTTACCACCCTGGTCAGATTCTTTTCA-TTCAAA 1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTC-AG * * 2261080 TTTGACATATAGTTACCACCCTGGTCAAACTCTTCTCATTTC-- 1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAG * * * * * * 2261122 ---G--GTATGGTTATCACCCTGGTCAGATTTTTATCATTT-TG 1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAG * * * 2261160 ATTTGACATATGGTTACCACCCTAGTCAAA-T-TTGCCTCATTCCTA- 1 -TTTGACGTATGGTTACCACCCTGGTCAAACTCTT--CTCATTTC-AG * * 2261205 TTTGACGTATGGCTACCACCCTGGCCAAA 1 TTTGACGTATGGTTACCACCCTGGTCAAA 2261234 TGATTTGCAT Statistics Matches: 221, Mismatches: 47, Indels: 36 0.73 0.15 0.12 Matches are distributed among these distances: 37 28 0.13 39 1 0.00 42 3 0.01 43 8 0.04 44 174 0.79 45 7 0.03 ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38 Consensus pattern (44 bp): TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAG Found at i:2261047 original size:88 final size:85 Alignment explanation
Indices: 2260890--2261189 Score: 362 Period size: 88 Copynumber: 3.5 Consensus size: 85 2260880 TTAACCAAGT * * * 2260890 TTCTTTTCATTCT-ATTTGACGTATGGTTACCACCTTGGTCAAACTCTTCTCATTTCGGTTTGAC 1 TTCTTTTCATTCTAATTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTC-G-TT-AC * * 2260954 ATATGGTTACCACCCTAGTCAGA 63 GTATGGTTACCACCCTGGTCAGA * * 2260977 TTCTTTTTATTCTAATTTGACGTATGGTTACCACCCTAGTCAAACAT-TTCTCATTTCAGTCTAA 1 TTCTTTTCATTCTAATTTGACATATGGTTACCACCCTAGTCAAAC-TCTTCTCATTTC-GT-T-A 2261041 CGTATGGTTACCACCCTGGTCAGA 62 CGTATGGTTACCACCCTGGTCAGA * * * 2261065 TTCTTTTCATTCAAATTTGACATATAGTTACCACCCTGGTCAAACTCTTCTCATTTCG----GTA 1 TTCTTTTCATTCTAATTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGTTACGTA * 2261126 TGGTTATCACCCTGGTCAGA 66 TGGTTACCACCCTGGTCAGA * * 2261146 TT-TTTATCATTTTGATTTGACATATGGTTACCACCCTAGTCAAA 1 TTCTTT-TCATTCTAATTTGACATATGGTTACCACCCTAGTCAAA 2261190 TTTGCCTCAT Statistics Matches: 190, Mismatches: 18, Indels: 16 0.85 0.08 0.07 Matches are distributed among these distances: 80 3 0.02 81 57 0.30 87 15 0.08 88 114 0.60 89 1 0.01 ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40 Consensus pattern (85 bp): TTCTTTTCATTCTAATTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGTTACGTA TGGTTACCACCCTGGTCAGA Found at i:2261447 original size:85 final size:84 Alignment explanation
Indices: 2261304--2261561 Score: 365 Period size: 85 Copynumber: 3.0 Consensus size: 84 2261294 TTATCTGATG * * 2261304 CCTTTTATTCCTCGTTTGCTTATCGACTCAGTCCTTGGTAAACT-CTTTAACCCTTTTGTTGACT 1 CCTTTTATTCCTCGTTTGCCTGTCGACTCAGTCCTTGGTAAACTCCTTT-A-CCTTTTGTTGACT 2261368 TATCGGTTCAACCCTGGTCAA 64 TATCGGTTCAACCCTGGTCAA * * 2261389 CCTTTTATTCCTCGTTTGCCTGTCAATTCAGTCCTTGGTAAACTCCTTTACCTTTTTGTTGACTT 1 CCTTTTATTCCTCGTTTGCCTGTCGACTCAGTCCTTGGTAAACTCCTTTACC-TTTTGTTGACTT * * * * 2261454 ATCGGTTTAGCCTTGGTTAA 65 ATCGGTTCAACCCTGGTCAA * * * * 2261474 CCTTTTATTCTTCGTTTGCCTGTCGACTGAGTCCTTGGTAAACTCTTTTACCCTTTGTTGACTTA 1 CCTTTTATTCCTCGTTTGCCTGTCGACTCAGTCCTTGGTAAACTCCTTTACCTTTTGTTGACTTA * 2261539 TTGGTTCAACCCTGGTCAA 66 TCGGTTCAACCCTGGTCAA 2261558 CCTT 1 CCTT 2261562 GTATCCCTTC Statistics Matches: 152, Mismatches: 19, Indels: 5 0.86 0.11 0.03 Matches are distributed among these distances: 84 32 0.21 85 116 0.76 86 4 0.03 ACGTcount: A:0.16, C:0.26, G:0.15, T:0.43 Consensus pattern (84 bp): CCTTTTATTCCTCGTTTGCCTGTCGACTCAGTCCTTGGTAAACTCCTTTACCTTTTGTTGACTTA TCGGTTCAACCCTGGTCAA Found at i:2262917 original size:165 final size:159 Alignment explanation
Indices: 2262746--2263296 Score: 570 Period size: 165 Copynumber: 3.4 Consensus size: 159 2262736 ATTTGTGTCA * 2262746 AGAGGATTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAA 1 AGAGGATTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA * * * 2262811 TCAATTTTCAAAAATTCATTCATTTTCATGAGTTTTAAAGTTTTCCTTAAAATTCTTATATTTTC 66 TCAGTTTTTAAAAATTCATTCATTTTCATGAGTTTT--A-TTTTCCTTGAAATTCTTAT-TTTTC * * 2262876 AAAATACGGAGTTTTCTACTTCATAAATTTTTTCG 127 GAAATACGGAG-TTTCTACTTCGTAAATTTTTT-G ** ** * * 2262911 AGAGGATTTTTTTTTGTTTTTAATTTTTAAAATTTATCAAATATTATTATTTAATTCATACTAAA 1 AGAGGATTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA * * * 2262976 TCAGTTTTTATAAAA-TCATTCACTTTCATGAGTTTTTCATTTTTTCCTTGAAACTCTCT-TGTT 66 TCAGTTTTTA-AAAATTCATTCATTTTCATGAG-TTTT-A--TTTTCCTTGAAATTCT-TATTTT * * 2263039 TCGAAATACAGAG--TCCA-TTCCGTAAATGTTTTTTGG 125 TCGAAATACGGAGTTTCTACTT-CGTAAA--TTTTTT-G * * * * * 2263075 GGGGGATTTTTCTTA-GTTTTTAATTTTTAAAATTCATGAAATATTATTTTTTAATTCATATTAA 1 AGAGGA-TTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAA * 2263139 ATTC-GTTTTTAAAAATTCATTCATTTTCATGAG-TTT-TTTTCCTTGAAATCTCCCTATTTTT- 65 A-TCAGTTTTTAAAAATTCATTCATTTTCATGAGTTTTATTTTCCTTGAAAT-T-CTTATTTTTC * * 2263200 GAAATACGAAGCTTTCTAC-TCTGTAAATTTTTTT 127 GAAATACGGAG-TTTCTACTTC-GTAAATTTTTTG * 2263234 AG-GGATTTTTA-ATGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAA 1 AGAGGATTTTCATA-GGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAA 2263297 TAAAAAATTC Statistics Matches: 325, Mismatches: 41, Indels: 47 0.79 0.10 0.11 Matches are distributed among these distances: 156 1 0.00 157 4 0.01 158 62 0.19 159 12 0.04 160 11 0.03 161 3 0.01 162 20 0.06 163 4 0.01 164 80 0.25 165 104 0.32 166 23 0.07 167 1 0.00 ACGTcount: A:0.31, C:0.11, G:0.09, T:0.50 Consensus pattern (159 bp): AGAGGATTTTCATAGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA TCAGTTTTTAAAAATTCATTCATTTTCATGAGTTTTATTTTCCTTGAAATTCTTATTTTTCGAAA TACGGAGTTTCTACTTCGTAAATTTTTTG Found at i:2263487 original size:52 final size:49 Alignment explanation
Indices: 2263362--2263646 Score: 268 Period size: 49 Copynumber: 5.7 Consensus size: 49 2263352 CACATTGGCA * * * 2263362 TAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTT 1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT * * * 2263411 TAAGACCGATGTCGTTGACCTTGAATCAGCACATTGGAACCTTAACCATCTT 1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT---CATCTT * * * 2263463 TAAGACCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCATCCT 1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT * * * * * * * 2263512 TAAGTCCGATATCGTTGGCCTTGAATCATCATATTGGCATCTTCAACATT 1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT * * ** * 2263562 CCTAAGCCCAATGTCGCTGGCCTTGCCTCAGCACATTGGCA--TTCTTCTT 1 --TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT * * * * * 2263611 CAAGTCTAATGTCGGTGGCCATGAATCAGCACATTG 1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTG 2263647 TCATTCTTCG Statistics Matches: 191, Mismatches: 39, Indels: 14 0.78 0.16 0.06 Matches are distributed among these distances: 47 29 0.15 49 82 0.43 50 5 0.03 52 75 0.39 ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31 Consensus pattern (49 bp): TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT Found at i:2263548 original size:101 final size:101 Alignment explanation
Indices: 2263362--2263602 Score: 306 Period size: 101 Copynumber: 2.4 Consensus size: 101 2263352 CACATTGGCA * * * * * 2263362 TAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTT 1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGACCGATATCGTT * 2263427 GACCTTGAATCAGCACATTGGAACCTT-AACCA-TCTT 66 GACCTTGAATCAGCACATTGGAACCTTCAA-CATTC-C * * * 2263463 TAAGACCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCGATATCGTT 1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGACCGATATCGTT * * * * * 2263528 GGCCTTGAATCATCATATTGGCATCTTCAACATTCC 66 GACCTTGAATCAGCACATTGGAACCTTCAACATTCC ** 2263564 TAAGCCCAATGTCGCTGGCCTTGCCTCAGCACATTGGCA 1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA 2263603 TTCTTCTTCA Statistics Matches: 120, Mismatches: 18, Indels: 4 0.85 0.13 0.03 Matches are distributed among these distances: 101 116 0.97 102 4 0.03 ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30 Consensus pattern (101 bp): TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGACCGATATCGTT GACCTTGAATCAGCACATTGGAACCTTCAACATTCC Found at i:2264494 original size:20 final size:20 Alignment explanation
Indices: 2264469--2264636 Score: 140 Period size: 20 Copynumber: 9.8 Consensus size: 20 2264459 TTGCCAAGGA 2264469 AATGTATCGATACATTATTC 1 AATGTATCGATACATTATTC 2264489 AATGTATCGATAC---A-T- 1 AATGTATCGATACATTATTC 2264504 --TGTATCGATACATTATTC 1 AATGTATCGATACATTATTC 2264522 AATGTATCGATAC---A-T- 1 AATGTATCGATACATTATTC 2264537 --TGTATCGATACATTATTC 1 AATGTATCGATACATTATTC 2264555 AATGTATCGATAC---A-T- 1 AATGTATCGATACATTATTC 2264570 --TGTATCGATACATTATTC 1 AATGTATCGATACATTATTC 2264588 AATGTATCGATAC---A-T- 1 AATGTATCGATACATTATTC 2264603 --TGTATCGATACATTATTC 1 AATGTATCGATACATTATTC 2264621 AATGTATCGATACATT 1 AATGTATCGATACATT 2264637 GTATCGATAC Statistics Matches: 120, Mismatches: 0, Indels: 56 0.68 0.00 0.32 Matches are distributed among these distances: 13 44 0.37 16 8 0.07 17 8 0.07 20 60 0.50 ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39 Consensus pattern (20 bp): AATGTATCGATACATTATTC Found at i:2264509 original size:13 final size:13 Alignment explanation
Indices: 2264491--2264650 Score: 116 Period size: 13 Copynumber: 14.2 Consensus size: 13 2264481 CATTATTCAA 2264491 TGTATCGATACAT 1 TGTATCGATACAT 2264504 TGTATCGATACA- 1 TGTATCGATACAT * 2264516 T-TAT---T-CAA 1 TGTATCGATACAT 2264524 TGTATCGATACAT 1 TGTATCGATACAT 2264537 TGTATCGATACA- 1 TGTATCGATACAT * 2264549 T-TAT---T-CAA 1 TGTATCGATACAT 2264557 TGTATCGATACAT 1 TGTATCGATACAT 2264570 TGTATCGATACA- 1 TGTATCGATACAT * 2264582 T-TAT---T-CAA 1 TGTATCGATACAT 2264590 TGTATCGATACAT 1 TGTATCGATACAT 2264603 TGTATCGATACA- 1 TGTATCGATACAT * 2264615 T-TAT---T-CAA 1 TGTATCGATACAT 2264623 TGTATCGATACAT 1 TGTATCGATACAT 2264636 TGTATCGATACAT 1 TGTATCGATACAT 2264649 TG 1 TG 2264651 ATCATTGTAT Statistics Matches: 119, Mismatches: 4, Indels: 48 0.70 0.02 0.28 Matches are distributed among these distances: 7 8 0.07 8 8 0.07 9 12 0.10 11 12 0.10 12 8 0.07 13 71 0.60 ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39 Consensus pattern (13 bp): TGTATCGATACAT Found at i:2264513 original size:33 final size:33 Alignment explanation
Indices: 2264471--2264668 Score: 371 Period size: 33 Copynumber: 6.0 Consensus size: 33 2264461 GCCAAGGAAA 2264471 TGTATCGATACATTATTCAATGTATCGATACAT 1 TGTATCGATACATTATTCAATGTATCGATACAT 2264504 TGTATCGATACATTATTCAATGTATCGATACAT 1 TGTATCGATACATTATTCAATGTATCGATACAT 2264537 TGTATCGATACATTATTCAATGTATCGATACAT 1 TGTATCGATACATTATTCAATGTATCGATACAT 2264570 TGTATCGATACATTATTCAATGTATCGATACAT 1 TGTATCGATACATTATTCAATGTATCGATACAT 2264603 TGTATCGATACATTATTCAATGTATCGATACAT 1 TGTATCGATACATTATTCAATGTATCGATACAT * 2264636 TGTATCGATACATTGA-TCATTGTATCGATACAT 1 TGTATCGATACATT-ATTCAATGTATCGATACAT 2264669 CTGGGAATTT Statistics Matches: 163, Mismatches: 1, Indels: 2 0.98 0.01 0.01 Matches are distributed among these distances: 33 162 0.99 34 1 0.01 ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39 Consensus pattern (33 bp): TGTATCGATACATTATTCAATGTATCGATACAT Found at i:2264658 original size:20 final size:20 Alignment explanation
Indices: 2264501--2264668 Score: 74 Period size: 20 Copynumber: 7.8 Consensus size: 20 2264491 TGTATCGATA 2264501 CATTGTATCGATACATT-ATT 1 CATTGTATCGATACATTGA-T * 2264521 CAATGTATCGATACATTGTAT 1 CATTGTATCGATACATTG-AT * ** * 2264542 CGATACAT-TATTCAATGTATCGAT 1 C-AT---TGTA-TCGATACATTGAT 2264566 ACATTGTATCGATACATT-ATT 1 -CATTGTATCGATACATTGA-T * 2264587 CAATGTATCGATACATTGTAT 1 CATTGTATCGATACATTG-AT * ** * 2264608 CGATACAT-TATTCAATGTATCGAT 1 C-AT---TGTA-TCGATACATTGAT 2264632 ACATTGTATCGATACATTGAT 1 -CATTGTATCGATACATTGAT 2264653 CATTGTATCGATACAT 1 CATTGTATCGATACAT 2264669 CTGGGAATTT Statistics Matches: 109, Mismatches: 20, Indels: 38 0.65 0.12 0.23 Matches are distributed among these distances: 20 49 0.45 21 22 0.20 22 8 0.07 24 12 0.11 25 18 0.17 ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39 Consensus pattern (20 bp): CATTGTATCGATACATTGAT Found at i:2268075 original size:166 final size:165 Alignment explanation
Indices: 2267782--2268252 Score: 548 Period size: 166 Copynumber: 2.8 Consensus size: 165 2267772 CGTTGCGATA * * * * 2267782 ATTTTCGA-TCATTTTTCTGTTTTTTCCTTGAAATCTCCTTACTTTCGAAACATAAAGTTTTTTA 1 ATTTTC-ATTCATTTTTCT-TTTTTTCCTTGAAATCTCCCTA-TTTCGAAAAATAGAGTTTTCTA * * ** * * 2267846 CTTCGTAAATTTTTTTAAGGGGATTTTTAATGGTTTTTAATTTTTAAAATTCATCAAATATTATT 63 CTTTGTAAATTTTTTCAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATC * * * 2267911 ATTTAATTCATATTAAATTAGTTTTCAAAAATTCATTC 128 ATTTAATTCATACTAAATTAGTTTTAAAAAATTCAGTC * * ** 2267949 ATTTTCATTCATTTTTCTTTTTTTCCTTCAAATCCCCCTATTTTCGAAAAACGGAGTTTTCTACT 1 ATTTTCATTCATTTTTCTTTTTTTCCTTGAAATCTCCCTA-TTTCGAAAAATAGAGTTTTCTACT * * 2268014 TTGTAAATTTTTTCAAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCAGAAAATATTATCAT 65 TTGTAAATTTTTTCAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCAT 2268079 TTAATTCATACTAAATTAGTTTTAAAAAATTCAGTC 130 TTAATTCATACTAAATTAGTTTTAAAAAATTCAGTC ** * * * * * * * * 2268115 ATTTTCATGAATTCTTCATTTTTTCTTTGAAATTTCTCTATTTCTAAAAAATTGAGTTTTCGACT 1 ATTTTCATTCATTTTTCTTTTTTTCCTTGAAATCTCCCTATTTC-GAAAAATAGAGTTTTCTACT * * * * ** * * 2268180 CTATAAATATTTTCAGGGGGATTTTTCTTGGTTTGAAATTATTAAAATTCATATAATATTATCAT 65 TTGTAAATTTTTTCAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCAT * 2268245 TAAATTCA 130 TTAATTCA 2268253 CAACAAATCA Statistics Matches: 258, Mismatches: 44, Indels: 5 0.84 0.14 0.02 Matches are distributed among these distances: 165 4 0.02 166 238 0.92 167 16 0.06 ACGTcount: A:0.30, C:0.12, G:0.08, T:0.49 Consensus pattern (165 bp): ATTTTCATTCATTTTTCTTTTTTTCCTTGAAATCTCCCTATTTCGAAAAATAGAGTTTTCTACTT TGTAAATTTTTTCAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATT TAATTCATACTAAATTAGTTTTAAAAAATTCAGTC Found at i:2268304 original size:166 final size:165 Alignment explanation
Indices: 2268002--2268304 Score: 378 Period size: 166 Copynumber: 1.8 Consensus size: 165 2267992 TCGAAAAACG * * * * ** * 2268002 GAGTTTTCTACTTTGTAAATTTTTTCAAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCAGA 1 GAGTTTTCGACTCTATAAATATTTTCAAGGGGATTTTTCTTAGTTTGAAATTATTAAAATTCAGA * * * * * * 2268067 AAATATTATCATTTAATTCATACTAAATTAGTTTTAAAAAATTCAGTCATTTTCATGAATTCTTC 66 AAATATTATCATTAAATTCAAACTAAATCAATTTTAAAAAATTCAG-AATTTTCATGAATTCTTA 2268132 ATTTTTTCTTTGAAATTTCTCTATTTCTAAAAAATT 130 ATTTTTTCTTTGAAATTTCTCTATTTCTAAAAAATT * * * 2268168 GAGTTTTCGACTCTATAAATATTTTCAGGGGGATTTTTCTTGGTTTGAAATTATTAAAATTCATA 1 GAGTTTTCGACTCTATAAATATTTTCAAGGGGATTTTTCTTAGTTTGAAATTATTAAAATTCAGA * * 2268233 TAATATTATCATTAAATTCACAAC-AAATCAATTTTTAAAAATTCA-AATTATTGCATGAATT-T 66 AAATATTATCATTAAATTCA-AACTAAATCAATTTTAAAAAATTCAGAATT-TT-CATGAATTCT 2268295 TGAATTTTTT 128 T-AATTTTTT 2268305 GTTGCATATA Statistics Matches: 115, Mismatches: 18, Indels: 8 0.82 0.13 0.06 Matches are distributed among these distances: 164 3 0.03 165 4 0.03 166 106 0.92 167 2 0.02 ACGTcount: A:0.34, C:0.10, G:0.09, T:0.48 Consensus pattern (165 bp): GAGTTTTCGACTCTATAAATATTTTCAAGGGGATTTTTCTTAGTTTGAAATTATTAAAATTCAGA AAATATTATCATTAAATTCAAACTAAATCAATTTTAAAAAATTCAGAATTTTCATGAATTCTTAA TTTTTTCTTTGAAATTTCTCTATTTCTAAAAAATT Found at i:2268814 original size:23 final size:23 Alignment explanation
Indices: 2268766--2268810 Score: 65 Period size: 22 Copynumber: 2.0 Consensus size: 23 2268756 GAACAGCTGA 2268766 AAAAAAAAAGAGAAAAAGAGAAG 1 AAAAAAAAAGAGAAAAAGAGAAG * * 2268789 AAAAATAAAGA-AAAAATAGAAG 1 AAAAAAAAAGAGAAAAAGAGAAG 2268811 GAAAGTCAGA Statistics Matches: 20, Mismatches: 2, Indels: 1 0.87 0.09 0.04 Matches are distributed among these distances: 22 10 0.50 23 10 0.50 ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04 Consensus pattern (23 bp): AAAAAAAAAGAGAAAAAGAGAAG Found at i:2269040 original size:31 final size:31 Alignment explanation
Indices: 2269002--2269069 Score: 136 Period size: 31 Copynumber: 2.2 Consensus size: 31 2268992 GTTGTCTGCA 2269002 TATTTTTCATGATTTCTCACCATGATTATTT 1 TATTTTTCATGATTTCTCACCATGATTATTT 2269033 TATTTTTCATGATTTCTCACCATGATTATTT 1 TATTTTTCATGATTTCTCACCATGATTATTT 2269064 TATTTT 1 TATTTT 2269070 CTTAAGAAAA Statistics Matches: 37, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 31 37 1.00 ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57 Consensus pattern (31 bp): TATTTTTCATGATTTCTCACCATGATTATTT Found at i:2270052 original size:8 final size:8 Alignment explanation
Indices: 2270039--2270089 Score: 61 Period size: 8 Copynumber: 6.2 Consensus size: 8 2270029 AAAAATAATG 2270039 ATAATAAA 1 ATAATAAA 2270047 ATAATAAA 1 ATAATAAA 2270055 ATAA-AAA 1 ATAATAAA 2270062 AT-ATAATA 1 ATAATAA-A 2270070 ATAATAAA 1 ATAATAAA 2270078 ATGAAATAAA 1 AT--AATAAA 2270088 AT 1 AT 2270090 GTGGCAATAA Statistics Matches: 38, Mismatches: 0, Indels: 8 0.83 0.00 0.17 Matches are distributed among these distances: 6 1 0.03 7 7 0.18 8 18 0.47 9 4 0.11 10 8 0.21 ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25 Consensus pattern (8 bp): ATAATAAA Found at i:2270052 original size:17 final size:17 Alignment explanation
Indices: 2270026--2270079 Score: 69 Period size: 15 Copynumber: 3.4 Consensus size: 17 2270016 AATGGTATTT * * 2270026 TAAAAAAATAATGATAA 1 TAAAATAATAATAATAA 2270043 TAAAATAATAA-AATAA 1 TAAAATAATAATAATAA 2270059 -AAAAT-ATAATAATAA 1 TAAAATAATAATAATAA 2270074 TAAAAT 1 TAAAAT 2270080 GAAATAAAAT Statistics Matches: 33, Mismatches: 2, Indels: 5 0.82 0.05 0.12 Matches are distributed among these distances: 14 4 0.12 15 10 0.30 16 9 0.27 17 10 0.30 ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26 Consensus pattern (17 bp): TAAAATAATAATAATAA Found at i:2270055 original size:23 final size:22 Alignment explanation
Indices: 2270029--2270089 Score: 65 Period size: 20 Copynumber: 2.9 Consensus size: 22 2270019 GGTATTTTAA 2270029 AAAAATAATGATAATAAAATAAT 1 AAAAATAATGA-AATAAAATAAT * * 2270052 -AAAATAA-AAAATATAATAAT 1 AAAAATAATGAAATAAAATAAT * 2270072 AATAA-AATGAAATAAAAT 1 AAAAATAATGAAATAAAAT 2270090 GTGGCAATAA Statistics Matches: 31, Mismatches: 5, Indels: 6 0.74 0.12 0.14 Matches are distributed among these distances: 20 12 0.39 21 12 0.39 22 7 0.23 ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25 Consensus pattern (22 bp): AAAAATAATGAAATAAAATAAT Found at i:2270068 original size:31 final size:31 Alignment explanation
Indices: 2270026--2270089 Score: 94 Period size: 31 Copynumber: 2.0 Consensus size: 31 2270016 AATGGTATTT * 2270026 TAAAAAAATAATGATAATAAAAT-AATAAAA 1 TAAAAAAATAATAATAATAAAATAAATAAAA 2270056 TAAAAAATATAATAATAATAAAATGAAATAAAA 1 TAAAAAA-ATAATAATAATAAAAT-AAATAAAA 2270089 T 1 T 2270090 GTGGCAATAA Statistics Matches: 30, Mismatches: 1, Indels: 3 0.88 0.03 0.09 Matches are distributed among these distances: 30 7 0.23 31 15 0.50 33 8 0.27 ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25 Consensus pattern (31 bp): TAAAAAAATAATAATAATAAAATAAATAAAA Found at i:2270070 original size:28 final size:29 Alignment explanation
Indices: 2270028--2270088 Score: 81 Period size: 28 Copynumber: 2.1 Consensus size: 29 2270018 TGGTATTTTA * 2270028 AAAAAATAATGATAATAA-AATAATAAAAT 1 AAAAAATAATAATAATAATAA-AATAAAAT * 2270057 AAAAAAT-ATAATAATAATAAAATGAAAT 1 AAAAAATAATAATAATAATAAAATAAAAT 2270085 AAAA 1 AAAA 2270089 TGTGGCAATA Statistics Matches: 29, Mismatches: 2, Indels: 3 0.85 0.06 0.09 Matches are distributed among these distances: 28 20 0.69 29 9 0.31 ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23 Consensus pattern (29 bp): AAAAAATAATAATAATAATAAAATAAAAT Found at i:2272033 original size:13 final size:13 Alignment explanation
Indices: 2272015--2272039 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 2272005 CATTATGCTT 2272015 TGTATCGATACAA 1 TGTATCGATACAA 2272028 TGTATCGATACA 1 TGTATCGATACA 2272040 TGTTCATTGT Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:2272070 original size:20 final size:20 Alignment explanation
Indices: 2272024--2272080 Score: 73 Period size: 19 Copynumber: 3.0 Consensus size: 20 2272014 TTGTATCGAT * 2272024 ACAA-TGTATCGATACATGT 1 ACAATTGTATCGATACATGC * * 2272043 TC-ATTGTATTGATACATGC 1 ACAATTGTATCGATACATGC 2272062 ACAATTGTATCGATACATG 1 ACAATTGTATCGATACATG 2272081 AAACTGGCAG Statistics Matches: 31, Mismatches: 5, Indels: 3 0.79 0.13 0.08 Matches are distributed among these distances: 18 1 0.03 19 15 0.48 20 15 0.48 ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35 Consensus pattern (20 bp): ACAATTGTATCGATACATGC Found at i:2272163 original size:33 final size:33 Alignment explanation
Indices: 2272116--2272181 Score: 114 Period size: 33 Copynumber: 2.0 Consensus size: 33 2272106 TACCACTATT * 2272116 TGTATCGATACATGACATATTGTATCGATACAA 1 TGTATCGATACATGACACATTGTATCGATACAA * 2272149 TGTATCGATCCATGACACATTGTATCGATACAA 1 TGTATCGATACATGACACATTGTATCGATACAA 2272182 GATGAATTGT Statistics Matches: 31, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 33 31 1.00 ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32 Consensus pattern (33 bp): TGTATCGATACATGACACATTGTATCGATACAA Found at i:2272174 original size:20 final size:18 Alignment explanation
Indices: 2272115--2272177 Score: 55 Period size: 20 Copynumber: 3.6 Consensus size: 18 2272105 CTACCACTAT 2272115 TTGTATCGATACATGACATA 1 TTGTATCGAT-CATGACA-A 2272135 TTGTATCG---AT-ACAA 1 TTGTATCGATCATGACAA 2272149 -TGTATCGATCCATGACACA 1 TTGTATCGAT-CATGACA-A 2272168 TTGTATCGAT 1 TTGTATCGAT 2272178 ACAAGATGAA Statistics Matches: 36, Mismatches: 0, Indels: 14 0.72 0.00 0.28 Matches are distributed among these distances: 13 7 0.19 14 1 0.03 15 3 0.08 16 2 0.06 17 2 0.06 18 3 0.08 19 1 0.03 20 17 0.47 ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35 Consensus pattern (18 bp): TTGTATCGATCATGACAA Found at i:2278578 original size:20 final size:20 Alignment explanation
Indices: 2278540--2278579 Score: 55 Period size: 20 Copynumber: 1.9 Consensus size: 20 2278530 TTTCAAATTT 2278540 CTTCATTTTCACTTCAAAATA 1 CTTCATTTTCAC-TCAAAATA 2278561 CTTCATTTTTCA-TCAAAAT 1 CTTCA-TTTTCACTCAAAAT 2278580 TATCAACAAA Statistics Matches: 18, Mismatches: 0, Indels: 3 0.86 0.00 0.14 Matches are distributed among these distances: 20 7 0.39 21 5 0.28 22 6 0.33 ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45 Consensus pattern (20 bp): CTTCATTTTCACTCAAAATA Done.