Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_D01 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: 62811768 ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33 Warning! 736185 characters in sequence are not A, C, G, or T File 157 of 211 Found at i:46492187 original size:89 final size:89 Alignment explanation
Indices: 46491981--46492188 Score: 229 Period size: 89 Copynumber: 2.3 Consensus size: 89 46491971 ACGAGAAAGT * * * * ** 46491981 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAATAGATCTTGTCTTCATGTATT 1 AGATCCTGCCTTCCCATACTAGTAGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC ** * 46492046 GGCGTGAAGTAGATCAGAGATACC 66 GGCGTGAAACAGATCAAAGATACC * * * * * 46492070 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGTACC 1 AGATCCTGCCTTCCCATACTAGTAGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC ** 46492135 GGCGTGAAACAGATCAAAGATAGT 66 GGCGTGAAACAGATCAAAGATACC * * * 46492159 AGGTCCTGTCTTCCTATA-TCAGTAGCGAAG 1 AGATCCTGCCTTCCCATACT-AGTAGCGAAG 46492189 TGGATCGAAT Statistics Matches: 102, Mismatches: 16, Indels: 2 0.85 0.13 0.02 Matches are distributed among these distances: 88 1 0.01 89 101 0.99 ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26 Consensus pattern (89 bp): AGATCCTGCCTTCCCATACTAGTAGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC GGCGTGAAACAGATCAAAGATACC Found at i:46495214 original size:27 final size:27 Alignment explanation
Indices: 46495163--46495214 Score: 68 Period size: 27 Copynumber: 1.9 Consensus size: 27 46495153 AGAATAATAA * * 46495163 ATTTTATATACAATAAATATTTTAATT 1 ATTTTATATAAAATAAATATATTAATT * * 46495190 ATTTTATATAAAATAACTCTATTAA 1 ATTTTATATAAAATAAATATATTAA 46495215 ATATATATAA Statistics Matches: 21, Mismatches: 4, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 27 21 1.00 ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48 Consensus pattern (27 bp): ATTTTATATAAAATAAATATATTAATT Found at i:46496174 original size:3 final size:3 Alignment explanation
Indices: 46496166--46496195 Score: 60 Period size: 3 Copynumber: 10.0 Consensus size: 3 46496156 TTAGTGCCGG 46496166 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT 1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT 46496196 TTGTTTTAAC Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 27 1.00 ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67 Consensus pattern (3 bp): ATT Found at i:46497519 original size:18 final size:18 Alignment explanation
Indices: 46497466--46497520 Score: 51 Period size: 18 Copynumber: 2.9 Consensus size: 18 46497456 AATATTTTTA * 46497466 TATTATTTAATTTTAATATAT 1 TATTTTTTAA-TTT-ATA-AT 46497487 TATTCTTTT--TTTATAAT 1 TATT-TTTTAATTTATAAT 46497504 TATTTTTTAATTTATAA 1 TATTTTTTAATTTATAA 46497521 AACTTCGTTA Statistics Matches: 30, Mismatches: 1, Indels: 9 0.75 0.03 0.22 Matches are distributed among these distances: 16 4 0.13 17 6 0.20 18 10 0.33 19 3 0.10 21 4 0.13 22 3 0.10 ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65 Consensus pattern (18 bp): TATTTTTTAATTTATAAT Found at i:46499501 original size:19 final size:18 Alignment explanation
Indices: 46499474--46499509 Score: 63 Period size: 19 Copynumber: 1.9 Consensus size: 18 46499464 AATTTGAAAC 46499474 AAAACAGAAAATTTTGGT 1 AAAACAGAAAATTTTGGT 46499492 AAAACTAGAAAATTTTGG 1 AAAAC-AGAAAATTTTGG 46499510 AAATAAGGGT Statistics Matches: 17, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 18 5 0.29 19 12 0.71 ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28 Consensus pattern (18 bp): AAAACAGAAAATTTTGGT Found at i:46505090 original size:51 final size:50 Alignment explanation
Indices: 46505029--46505235 Score: 181 Period size: 51 Copynumber: 4.1 Consensus size: 50 46505019 GCACGGATTG ** 46505029 TGTGTAGGCTACTATGTAAAAGTGAAAGTGAT-GGTCACGTGTGTAGTACTA 1 TGTGTAGGCTACTATGT-ACCG-GAAAGTGATAGGTCACGTGTGTAGTACTA * * 46505080 TGTGTAGGCTACTACGTGTACCGG-AA-TGATAGGTCGCATGTGTAGTACTA 1 TGTGTAGGCTACTA--TGTACCGGAAAGTGATAGGTCACGTGTGTAGTACTA * * * * * 46505130 TGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCACGTGTGTAGTACTA 1 TGTGTAGGCTACTAT--GTACCGGAAAGTGATAGGTCACGTGTGTAGTACTA * ** * * 46505181 TGTGTAGGCTACTACGTGTATCGGATGGTAAT-GGTCACATGTGTAGTACTA 1 TGTGTAGGCTACTA--TGTACCGGAAAGTGATAGGTCACGTGTGTAGTACTA 46505232 TGTG 1 TGTG 46505236 AACCGAACAT Statistics Matches: 129, Mismatches: 17, Indels: 20 0.78 0.10 0.12 Matches are distributed among these distances: 48 1 0.01 49 4 0.03 50 39 0.30 51 77 0.60 52 4 0.03 53 4 0.03 ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32 Consensus pattern (50 bp): TGTGTAGGCTACTATGTACCGGAAAGTGATAGGTCACGTGTGTAGTACTA Found at i:46505306 original size:45 final size:45 Alignment explanation
Indices: 46505237--46505331 Score: 163 Period size: 45 Copynumber: 2.1 Consensus size: 45 46505227 TACTATGTGA * * 46505237 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC 1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC * 46505282 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC 1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC 46505327 ACCGA 1 ACCGA 46505332 GTATCTGTTT Statistics Matches: 46, Mismatches: 4, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 45 46 1.00 ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31 Consensus pattern (45 bp): ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC Found at i:46507338 original size:16 final size:17 Alignment explanation
Indices: 46507273--46507340 Score: 77 Period size: 17 Copynumber: 4.1 Consensus size: 17 46507263 GACCAGTTAA 46507273 CGGAGGTGGCGAGCTAG 1 CGGAGGTGGCGAGCTAG * * 46507290 CGGA-ATGGTGAGCTAG 1 CGGAGGTGGCGAGCTAG ** * 46507306 TAGAGTTGGCGAGCTAG 1 CGGAGGTGGCGAGCTAG 46507323 CGGAGGTGGC-AGCTAG 1 CGGAGGTGGCGAGCTAG 46507339 CG 1 CG 46507341 AAGTGACAAG Statistics Matches: 41, Mismatches: 9, Indels: 3 0.77 0.17 0.06 Matches are distributed among these distances: 16 20 0.49 17 21 0.51 ACGTcount: A:0.21, C:0.16, G:0.47, T:0.16 Consensus pattern (17 bp): CGGAGGTGGCGAGCTAG Found at i:46509234 original size:17 final size:17 Alignment explanation
Indices: 46509209--46509287 Score: 79 Period size: 17 Copynumber: 4.7 Consensus size: 17 46509199 AGTTAGCAGA * * 46509209 GTGGTGAGCTAGTGAAG 1 GTGGCGAGCTAGCGAAG * * 46509226 GTGGCGAGCTAGTGGAG 1 GTGGCGAGCTAGCGAAG * * 46509243 TTGGCGAACTAGCGAAG 1 GTGGCGAGCTAGCGAAG * * 46509260 GTGGTGAGCTAGCGGA- 1 GTGGCGAGCTAGCGAAG 46509276 GTGGCGAGCTAG 1 GTGGCGAGCTAG 46509288 AAGAGGTTGC Statistics Matches: 51, Mismatches: 11, Indels: 1 0.81 0.17 0.02 Matches are distributed among these distances: 16 11 0.22 17 40 0.78 ACGTcount: A:0.22, C:0.13, G:0.47, T:0.19 Consensus pattern (17 bp): GTGGCGAGCTAGCGAAG Found at i:46509269 original size:34 final size:33 Alignment explanation
Indices: 46509202--46509287 Score: 100 Period size: 34 Copynumber: 2.6 Consensus size: 33 46509192 TATGGTGAGT * * * * 46509202 TAGCAGAGTGGTGAGCTAGTGAAGGTGGCGAGC 1 TAGCGGAGTGGCGAACTAGCGAAGGTGGCGAGC * * 46509235 TAGTGGAGTTGGCGAACTAGCGAAGGTGGTGAGC 1 TAGCGGAG-TGGCGAACTAGCGAAGGTGGCGAGC * 46509269 TAGCGGAGTGGCGAGCTAG 1 TAGCGGAGTGGCGAACTAG 46509288 AAGAGGTTGC Statistics Matches: 44, Mismatches: 8, Indels: 2 0.81 0.15 0.04 Matches are distributed among these distances: 33 16 0.36 34 28 0.64 ACGTcount: A:0.23, C:0.13, G:0.45, T:0.19 Consensus pattern (33 bp): TAGCGGAGTGGCGAACTAGCGAAGGTGGCGAGC Found at i:46509305 original size:50 final size:51 Alignment explanation
Indices: 46509209--46509308 Score: 125 Period size: 50 Copynumber: 2.0 Consensus size: 51 46509199 AGTTAGCAGA * ** 46509209 GTGGTGAGCTAGTGAAGGTGGCGAGCTAGTGGAGTTGGCGAACTAGCGAAG 1 GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGAGTTGGCGAACTAGCGAAG * 46509260 GTGGTGAGCTAGCGGA-GTGGCGAGCTAGAAGAGGTT-GC-AAGCTAGCGAA 1 GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGA-GTTGGCGAA-CTAGCGAA 46509309 CGCTAGCGAA Statistics Matches: 43, Mismatches: 4, Indels: 5 0.83 0.08 0.10 Matches are distributed among these distances: 49 2 0.05 50 24 0.56 51 17 0.40 ACGTcount: A:0.25, C:0.13, G:0.44, T:0.18 Consensus pattern (51 bp): GTGGTGAGCTAGCGAAGGTGGCGAGCTAGAAGAGTTGGCGAACTAGCGAAG Found at i:46509821 original size:23 final size:23 Alignment explanation
Indices: 46509771--46509823 Score: 65 Period size: 23 Copynumber: 2.3 Consensus size: 23 46509761 AAAATTAGGT 46509771 GAGTTGTACAGCAAAACTTTGAC 1 GAGTTGTACAGCAAAACTTTGAC * 46509794 TAGTTGTACAGCGAAAA-TTT-AGC 1 GAGTTGTACAGC-AAAACTTTGA-C 46509817 GAGTTGT 1 GAGTTGT 46509824 GCTTTAAAAA Statistics Matches: 26, Mismatches: 2, Indels: 4 0.81 0.06 0.12 Matches are distributed among these distances: 22 1 0.04 23 21 0.81 24 4 0.15 ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30 Consensus pattern (23 bp): GAGTTGTACAGCAAAACTTTGAC Found at i:46510200 original size:108 final size:107 Alignment explanation
Indices: 46510063--46510580 Score: 429 Period size: 108 Copynumber: 4.8 Consensus size: 107 46510053 AAGATTCTGG ** * 46510063 AAATCTTGTAAGTATAAGGCTGAAATCTTAAATCAGTGAGCTGCAAGATTCAAAAAATCTTGTAA 1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAAT-AG-GAACTGCAAGATTCAAAAAATCTTGTAA * * * 46510128 GTATAAGGTTGCGATCTTAAATTGGA-GAGCCATAGGATT-TAGA 64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGA-A * * * * ** * 46510171 AAATCTTATAAGTATAAGGTTGCGGTCTTAAATTGGCAAACCACAA-ATTCAGAAAATCTTGTAA 1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG--AACTGCAAGATTCAAAAAATCTTGTAA * * * * * * 46510235 GGATAAGGCTACGATCTTAAATT-GACGAGTCGCAAGATTTGAA 64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA ** * * * * 46510278 AAATCTTGTATCTATAAGGGTGTGATCGTAAATTGGCAACTTGCAAGATTCAAAAAATCTTGTAA 1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG-AAC-TGCAAGATTCAAAAAATCTTGTAA * * * * * 46510343 GTATAAGGCTT-TGATATTAAA-TCGACAAGCTACAAGATTCGAA 64 GTATAAGG-TTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA * * * * * * 46510386 AAATCTTGTAAGTATAAGGTTGTGATCTTAAATAGGAAAATTGTAGGATTCAAAAAATCTTATAA 1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG--AACTGCAAGATTCAAAAAATCTTGTAA * * * * 46510451 GTATAAGGTTGCAATTTTAAATTGG-CAAGCCGCAAGATTCGAA 64 GTATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA * * * * * * * 46510494 AAATCTTTTAAATATAAAGCTACGATCTTAAATCGGCGACTGTCGAGATTCAAAAAATCTTGTAA 1 AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGG-AACTG-CAAGATTCAAAAAATCTTGTAA ** * 46510559 GTATAAGACTGCAATCTTAAAT 64 GTATAAGGTTGCGATCTTAAAT 46510581 CGATGAGCCA Statistics Matches: 327, Mismatches: 71, Indels: 24 0.77 0.17 0.06 Matches are distributed among these distances: 106 6 0.02 107 86 0.26 108 230 0.70 109 5 0.02 ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30 Consensus pattern (107 bp): AAATCTTGTAAGTATAAGGCTGCGATCTTAAATAGGAACTGCAAGATTCAAAAAATCTTGTAAGT ATAAGGTTGCGATCTTAAATTGGACGAGCCACAAGATTCGAA Found at i:46510582 original size:54 final size:54 Alignment explanation
Indices: 46510030--46510580 Score: 372 Period size: 54 Copynumber: 10.2 Consensus size: 54 46510020 ATGAGAAAGT ** * *** 46510030 TGCGATCTTAAACCGACAACTG-CAAGATTCTGGAAATCTTGTAAGTATAAGGC 1 TGCGATCTTAAATTGGCAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC ** * * * 46510083 TGAAATCTTAAATCAGTG-AGCTG-CAAGATTCAAAAAATCTTGTAAGTATAAGGT 1 TGCGATCTTAAAT-TG-GCAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC * * * * * 46510137 TGCGATCTTAAATTGG-AGA--GCCATAGGATTTAGAAAATCTTATAAGTATAAGGT 1 TGCGATCTTAAATTGGCA-ACTGTCA-A-GATTCAAAAAATCTTGTAAGTATAAGGC * ** * * 46510191 TGCGGTCTTAAATTGGCAAAC-CACAA-ATTCAGAAAATCTTGTAAGGATAAGGC 1 TGCGATCTTAAATTGGC-AACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC * * * * ** ** * 46510244 TACGATCTTAAATTGACGAGTCG-CAAGATTTGAAAAATCTTGTATCTATAAGGG 1 TGCGATCTTAAATTGGCAACT-GTCAAGATTCAAAAAATCTTGTAAGTATAAGGC * * 46510298 TGTGATCGTAAATTGGCAACT-TGCAAGATTCAAAAAATCTTGTAAGTATAAGGC 1 TGCGATCTTAAATTGGCAACTGT-CAAGATTCAAAAAATCTTGTAAGTATAAGGC ** * * * * * * 46510352 TTTGATATTAAATCGACAAGCT-ACAAGATTCGAAAAATCTTGTAAGTATAAGGT 1 TGCGATCTTAAATTGGCAA-CTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC * * * * * * * 46510406 TGTGATCTTAAATAGGAAAATTGT-AGGATTCAAAAAATCTTATAAGTATAAGGT 1 TGCGATCTTAAATTGG-CAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC * * * * * * * 46510460 TGCAATTTTAAATTGGCAAGCCG-CAAGATTCGAAAAATCTTTTAAATATAAAGC 1 TGCGATCTTAAATTGGCAA-CTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC * * * * * 46510514 TACGATCTTAAATCGGCGACTGTCGAGATTCAAAAAATCTTGTAAGTATAAGAC 1 TGCGATCTTAAATTGGCAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC * 46510568 TGCAATCTTAAAT 1 TGCGATCTTAAAT 46510581 CGATGAGCCA Statistics Matches: 385, Mismatches: 93, Indels: 39 0.74 0.18 0.08 Matches are distributed among these distances: 51 1 0.00 52 5 0.01 53 56 0.15 54 314 0.82 55 6 0.02 56 3 0.01 ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30 Consensus pattern (54 bp): TGCGATCTTAAATTGGCAACTGTCAAGATTCAAAAAATCTTGTAAGTATAAGGC Found at i:46510731 original size:29 final size:28 Alignment explanation
Indices: 46510698--46510779 Score: 119 Period size: 29 Copynumber: 2.8 Consensus size: 28 46510688 GTAAGTAGCT * * 46510698 AATTGAGCGAAGAAGAAAACCATGGAGTG 1 AATTGAG-GAAGGAGAAAATCATGGAGTG 46510727 AATTGAGGGAAGGAGAAAATCATGGAGTG 1 AATTGA-GGAAGGAGAAAATCATGGAGTG 46510756 AATTGAGGAAAGGAGAAAATCATG 1 AATTGAGG-AAGGAGAAAATCATG 46510780 CCATTTTCAT Statistics Matches: 49, Mismatches: 2, Indels: 4 0.89 0.04 0.07 Matches are distributed among these distances: 28 2 0.04 29 46 0.94 30 1 0.02 ACGTcount: A:0.45, C:0.06, G:0.33, T:0.16 Consensus pattern (28 bp): AATTGAGGAAGGAGAAAATCATGGAGTG Found at i:46512216 original size:3 final size:3 Alignment explanation
Indices: 46512208--46512241 Score: 50 Period size: 3 Copynumber: 11.0 Consensus size: 3 46512198 AAGATGAAAC * 46512208 TAA TAA TAA TTAA TAG TAA TAA TAA TAA TAA TAA 1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA 46512242 CACTAAAATA Statistics Matches: 28, Mismatches: 2, Indels: 2 0.88 0.06 0.06 Matches are distributed among these distances: 3 25 0.89 4 3 0.11 ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35 Consensus pattern (3 bp): TAA Found at i:46514254 original size:218 final size:217 Alignment explanation
Indices: 46513758--46514594 Score: 1248 Period size: 218 Copynumber: 3.8 Consensus size: 217 46513748 CTAGTCGGCC 46513758 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC 1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC * * 46513823 ACTACAACCTCAGGGTGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA 66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA * * ** * * * 46513888 GATTTGCTTCTTC-AGTCTGCCTCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGC 131 GATTTGCATCTTCGA-TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGC * * * 46513952 TCCACTGCAACCTCAGGGAGATA 195 TCCGCTGCAACTTTAGGGAGATA * * * * 46513975 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTTC 1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC * ** * * 46514040 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTATAACTTCAGGGAGATAA 66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA * 46514105 GATTTGTCATCTTCGATCTGCCCCACTGCAACTTC-AGGGTGATAAAACCTGCTTACTCAGTCTG 131 GATTTG-CATCTTCGATCTGCCCCACTGCAACTTCAAGGG-GATAAGACCTGCTTACTCAGTCTG 46514169 CTCCGCTGCAACTTTAGGGAGATA 194 CTCCGCTGCAACTTTAGGGAGATA * * 46514193 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAATATCTATTACTTTAATCCGCTCT 1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC * * * * * 46514258 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAAATCA 66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA * * * 46514323 GATTTGTCATCTTCGGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTTAGTCTGC 131 GATTTG-CATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGC 46514388 TCCGCTGCAACTTTAGGGAGATA 195 TCCGCTGCAACTTTAGGGAGATA * 46514411 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAAATCTATTACTTTAATCCGCTCC 1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC * * * 46514476 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCC-CTGCAACCTCAGGGAGACAA 66 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA * * * * 46514540 GATTTGCTTTCTTCGATCAGCCCCACTGCAACTTTAGGGGGATAAGACCTGCTTA 131 GATTTGC-ATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTA 46514595 ATAAACTGAA Statistics Matches: 565, Mismatches: 50, Indels: 10 0.90 0.08 0.02 Matches are distributed among these distances: 216 1 0.00 217 191 0.34 218 368 0.65 219 5 0.01 ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29 Consensus pattern (217 bp): AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA GATTTGCATCTTCGATCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCT CCGCTGCAACTTTAGGGAGATA Found at i:46514519 original size:44 final size:44 Alignment explanation
Indices: 46513779--46514586 Score: 383 Period size: 44 Copynumber: 18.5 Consensus size: 44 46513769 GATCCACTCT * * * 46513779 ACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCGCTCC 1 ACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC * * * * * * 46513823 ACTACAACCTCAGGGTGATAGGATTATCGACTTCAATCTACTCC 1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC * * * * 46513867 ACTGCAACCTCAGGGAAATAAGATT-TGCTTCTTCAGTCTGC-CTC 1 ACTGCAACTTCAGGGAGATAAGATTAT-CTACTTCAATCTGCTC-C ** * * * * 46513911 ACTGTGACTTCAAGGG-GATAAGACTTGTTTTC-TCAGTCTGCTCC 1 ACTGCAACTTC-AGGGAGATAAGA-TTATCTACTTCAATCTGCTCC * * * * * * 46513955 ACTGCAACCTCAGGGAGATAAG---ACCTGA-TGCGATCTACTCT 1 ACTGCAACTTCAGGGAGATAAGATTATCT-ACTTCAATCTGCTCC * * * * * 46513996 ACTGTAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCGCTTC 1 ACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC * * ** * 46514040 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC 1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC ** * * * 46514084 ACTATAACTTCAGGGAGATAAGATT-TGTCATCTTCGATCTGCCCC 1 ACTGCAACTTCAGGGAGATAAGATTATCT-A-CTTCAATCTGCTCC * * * * * 46514129 ACTGCAACTTCAGGGTGATAAAACCT-GCTTAC-TCAGTCTGCTCC 1 ACTGCAACTTCAGGGAGATAAGA-TTATC-TACTTCAATCTGCTCC * * * * * * ** * 46514173 GCTGCAACTTTAGGGAGATAAGACT-T-GA-TGCGATCCACTCT 1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC * * * * * 46514214 ACTGCAACTTCAGAGAGATAATATCTAT-TACTTTAATCCGCTCT 1 ACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC * * ** 46514258 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCC 1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC * * * * ** * 46514302 ACTGTAACTTCAGGGAAATCAGATT-TGTCATCTTCGGTCTGCCCC 1 ACTGCAACTTCAGGGAGATAAGATTATCT-A-CTTCAATCTGCTCC * * 46514347 ACTGCAACTTCAAGGG-GATAAGACCTA-CTTACTT-AGTCTGCTCC 1 ACTGCAACTTC-AGGGAGATAAGA-TTATC-TACTTCAATCTGCTCC * * * * * * ** * 46514391 GCTGCAACTTTAGGGAGATAAGACT-T-GA-TGCGATCCACTCT 1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC * * * * 46514432 ACTGCAACTTCAGAGAGATAAAATCTAT-TACTTTAATCCGCTCC 1 ACTGCAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC * * * 46514476 ACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCC 1 ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC * * * * * * 46514520 -CTGCAACCTCAGGGAGACAAGATT-TGCTTTCTTCGATCAGCCCC 1 ACTGCAACTTCAGGGAGATAAGATTAT-C-TACTTCAATCTGCTCC * * 46514564 ACTGCAACTTTAGGGGGATAAGA 1 ACTGCAACTTCAGGGAGATAAGA 46514587 CCTGCTTAAT Statistics Matches: 561, Mismatches: 162, Indels: 81 0.70 0.20 0.10 Matches are distributed among these distances: 40 2 0.00 41 77 0.14 42 3 0.01 43 54 0.10 44 325 0.58 45 89 0.16 46 9 0.02 47 2 0.00 ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29 Consensus pattern (44 bp): ACTGCAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC Found at i:46514568 original size:435 final size:435 Alignment explanation
Indices: 46513758--46514594 Score: 1300 Period size: 435 Copynumber: 1.9 Consensus size: 435 46513748 CTAGTCGGCC 46513758 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC 1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC * 46513823 ACTACAACCTCAGGGTGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA 66 ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA * * ** * ** * 46513888 GATTTGCTTCTTCAGTCTGCCTCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCT 131 GATTTGCATCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTCAGTCTGCT * * * 46513953 CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG 196 CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAA * * 46514018 ATCTATTACTTTAATCCGCTTCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTC 261 ATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC * * * * * 46514083 CACTATAACTTCAGGGAGATAAGATTTGTCATCTTCGATCTGCCCCACTGCAACTTCAGGGTGAT 326 CACTACAACCTCAGGGAGACAAGATTTGTCATCTTCGATCAGCCCCACTGCAACTTCAGGGGGAT 46514148 AAAACCTGCTTACTCAGTCTGCTCCGCTGCAACTTTAGGGAGATA 391 AAAACCTGCTTACTCAGTCTGCTCCGCTGCAACTTTAGGGAGATA * * 46514193 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAATATCTATTACTTTAATCCGCTCT 1 AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC * * * * * * 46514258 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAAATCA 66 ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA * * 46514323 GATTTGTCATCTTCGGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTTAGTCTGC 131 GATTTG-CATCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTCAGTCTGC * * * * 46514388 TCCGCTGCAACTTTAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAA 195 TCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAA * 46514453 AATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCT 260 AATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACT * * * 46514518 CC-CTGCAACCTCAGGGAGACAAGATTTG-CTTTCTTCGATCAGCCCCACTGCAACTTTAGGGGG 325 CCACTACAACCTCAGGGAGACAAGATTTGTC-ATCTTCGATCAGCCCCACTGCAACTTCAGGGGG * 46514581 ATAAGACCTGCTTA 389 ATAAAACCTGCTTA 46514595 ATAAACTGAA Statistics Matches: 362, Mismatches: 38, Indels: 4 0.90 0.09 0.01 Matches are distributed among these distances: 434 1 0.00 435 191 0.53 436 170 0.47 ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29 Consensus pattern (435 bp): AGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCC ACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAAATAA GATTTGCATCTTCAGTCTGCCCCACTGCAACTTCAAGGGGATAAGACCTACTTACTCAGTCTGCT CCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAA ATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC CACTACAACCTCAGGGAGACAAGATTTGTCATCTTCGATCAGCCCCACTGCAACTTCAGGGGGAT AAAACCTGCTTACTCAGTCTGCTCCGCTGCAACTTTAGGGAGATA Found at i:46516683 original size:16 final size:17 Alignment explanation
Indices: 46516650--46516683 Score: 61 Period size: 17 Copynumber: 2.1 Consensus size: 17 46516640 ATATTATGAA 46516650 AATAAAACTAGAATAAT 1 AATAAAACTAGAATAAT 46516667 AATAAAACTAG-ATAAT 1 AATAAAACTAGAATAAT 46516683 A 1 A 46516684 TTCTAACAAA Statistics Matches: 17, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 16 6 0.35 17 11 0.65 ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24 Consensus pattern (17 bp): AATAAAACTAGAATAAT Found at i:46520525 original size:29 final size:29 Alignment explanation
Indices: 46520485--46520641 Score: 181 Period size: 29 Copynumber: 5.4 Consensus size: 29 46520475 TCATCGACCA * * * 46520485 ATGAAAGGGGATAGTTTCGGCTATCGATT 1 ATGAAAAGGGATAGCTTCGACTATCGATT * * * * * 46520514 ATGAAAAGGGAT-GGTGACGACCATCAAAT 1 ATGAAAAGGGATAGCT-TCGACTATCGATT 46520543 ATGAAAAGGGATAGCTTCGACTATCGATT 1 ATGAAAAGGGATAGCTTCGACTATCGATT * * * * 46520572 ATGAAACGAGATAGCTTCAACTAGCGATT 1 ATGAAAAGGGATAGCTTCGACTATCGATT * 46520601 ATGAAAAGGGATAGCTCCGACTATCGATT 1 ATGAAAAGGGATAGCTTCGACTATCGATT 46520630 ATGAAAAGGGAT 1 ATGAAAAGGGAT 46520642 GGTGACGACC Statistics Matches: 105, Mismatches: 21, Indels: 4 0.81 0.16 0.03 Matches are distributed among these distances: 28 2 0.02 29 101 0.96 30 2 0.02 ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24 Consensus pattern (29 bp): ATGAAAAGGGATAGCTTCGACTATCGATT Found at i:46520554 original size:58 final size:58 Alignment explanation
Indices: 46520485--46520728 Score: 231 Period size: 58 Copynumber: 4.2 Consensus size: 58 46520475 TCATCGACCA * * * 46520485 ATGAAAGGGGATAGTTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT 1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT * * * * * * * * * 46520543 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAACGAGATAGCT-TCAACTAGCGATT 1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGAT-GGTGACGACCATCAAAT * * 46520601 ATGAAAAGGGATAGCTCCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACT 1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT * * * * * * *** * 46520659 ATCAAAAGGAAT-GGTGACGACCATCGATTAATGAAAAAGGATGGTTTTGACCATCGAAT 1 ATGAAAAGGGATAGCT-TCGACTATCGATT-ATGAAAAGGGATGGTGACGACCATCAAAT 46520718 ATGAAAAGGGA 1 ATGAAAAGGGA 46520729 CGGTTACGAC Statistics Matches: 147, Mismatches: 35, Indels: 7 0.78 0.19 0.04 Matches are distributed among these distances: 57 4 0.03 58 109 0.74 59 34 0.23 ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23 Consensus pattern (58 bp): ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAAAT Found at i:46520650 original size:29 final size:28 Alignment explanation
Indices: 46520507--46520742 Score: 175 Period size: 29 Copynumber: 8.1 Consensus size: 28 46520497 AGTTTCGGCT 46520507 ATCGATTATGAAAAGGGATGGTGACGACC 1 ATCGATTATGAAAAGGGATGGT-ACGACC * * * * * 46520536 ATCAAATATGAAAAGGGATAGCTTCGACT 1 ATCGATTATGAAAAGGGAT-GGTACGACC * * * * * * 46520565 ATCGATTATGAAACGAGATAGCTTCAACT 1 ATCGATTATGAAAAGGGAT-GGTACGACC * * * * 46520594 AGCGATTATGAAAAGGGATAGCTCCGACT 1 ATCGATTATGAAAAGGGAT-GGTACGACC 46520623 ATCGATTATGAAAAGGGATGGTGACGACC 1 ATCGATTATGAAAAGGGATGGT-ACGACC * * * * 46520652 ATCAACTATCAAAAGGAATGGTGACGACC 1 ATCGATTATGAAAAGGGATGGT-ACGACC * ** 46520681 ATCGATTAATGAAAAAGGATGGTTTTGACC 1 ATCGATT-ATGAAAAGGGATGG-TACGACC * * 46520711 ATCGAATATGAAAAGGGACGGTTACGACC 1 ATCGATTATGAAAAGGGATGG-TACGACC 46520740 ATC 1 ATC 46520743 ATTTAGCACA Statistics Matches: 168, Mismatches: 35, Indels: 8 0.80 0.17 0.04 Matches are distributed among these distances: 28 2 0.01 29 142 0.85 30 23 0.14 31 1 0.01 ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22 Consensus pattern (28 bp): ATCGATTATGAAAAGGGATGGTACGACC Found at i:46524681 original size:13 final size:13 Alignment explanation
Indices: 46524642--46524693 Score: 52 Period size: 13 Copynumber: 3.9 Consensus size: 13 46524632 TTTAAAGTTG 46524642 TTGTTCATTTTGATA 1 TTGTTCATTTT--TA * * 46524657 TTGTTTAGTTTTA 1 TTGTTCATTTTTA 46524670 TTGTTCATTTTTA 1 TTGTTCATTTTTA * 46524683 -TATTCATTTTT 1 TTGTTCATTTTT 46524694 GTTAATTAGT Statistics Matches: 32, Mismatches: 5, Indels: 3 0.80 0.12 0.08 Matches are distributed among these distances: 12 10 0.31 13 13 0.41 15 9 0.28 ACGTcount: A:0.17, C:0.06, G:0.10, T:0.67 Consensus pattern (13 bp): TTGTTCATTTTTA Found at i:46528096 original size:26 final size:22 Alignment explanation
Indices: 46528067--46528119 Score: 70 Period size: 22 Copynumber: 2.3 Consensus size: 22 46528057 AAATTATTAA 46528067 ATATATGAAAAAATAGAAATATGT 1 ATATAT-AAAAAATA-AAATATGT * 46528091 ATATATAAAAATTAAAATATGT 1 ATATATAAAAAATAAAATATGT * 46528113 ATGTATA 1 ATATATA 46528120 TAGGTATATA Statistics Matches: 27, Mismatches: 2, Indels: 2 0.87 0.06 0.06 Matches are distributed among these distances: 22 14 0.52 23 7 0.26 24 6 0.22 ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34 Consensus pattern (22 bp): ATATATAAAAAATAAAATATGT Found at i:46528536 original size:18 final size:19 Alignment explanation
Indices: 46528515--46528563 Score: 61 Period size: 18 Copynumber: 2.7 Consensus size: 19 46528505 GATATTATGC 46528515 GTATATAT-AT-ATATGTAA 1 GTATATATAATAATA-GTAA 46528533 GTATA-ATAATAATAGTAA 1 GTATATATAATAATAGTAA 46528551 GTA-ATATAATAAT 1 GTATATATAATAAT 46528564 TAATAATAAT Statistics Matches: 28, Mismatches: 0, Indels: 6 0.82 0.00 0.18 Matches are distributed among these distances: 17 3 0.11 18 22 0.79 19 3 0.11 ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39 Consensus pattern (19 bp): GTATATATAATAATAGTAA Found at i:46528543 original size:3 final size:3 Alignment explanation
Indices: 46528535--46528587 Score: 63 Period size: 3 Copynumber: 17.0 Consensus size: 3 46528525 ATATGTAAGT * 46528535 ATA ATA ATA ATA GTA AGTA AT- ATA ATA ATTA ATA ATA ATA ATA ATA 1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA A-TA ATA ATA ATA ATA ATA 46528581 AGTA ATA 1 A-TA ATA 46528588 GTAGCAACGA Statistics Matches: 44, Mismatches: 2, Indels: 8 0.81 0.04 0.15 Matches are distributed among these distances: 2 2 0.05 3 33 0.75 4 9 0.20 ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34 Consensus pattern (3 bp): ATA Found at i:46528558 original size:31 final size:31 Alignment explanation
Indices: 46528530--46528587 Score: 91 Period size: 31 Copynumber: 1.9 Consensus size: 31 46528520 TATATATATG * 46528530 TAAGT-ATAATAATAATAGTAAGTAATATAA 1 TAAGTAATAATAATAATAATAAGTAATATAA * 46528560 TAATTAATAATAATAATAATAAGTAATA 1 TAAGTAATAATAATAATAATAAGTAATA 46528588 GTAGCAACGA Statistics Matches: 25, Mismatches: 2, Indels: 1 0.89 0.07 0.04 Matches are distributed among these distances: 30 4 0.16 31 21 0.84 ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34 Consensus pattern (31 bp): TAAGTAATAATAATAATAATAAGTAATATAA Found at i:46528586 original size:16 final size:16 Alignment explanation
Indices: 46528536--46528587 Score: 72 Period size: 16 Copynumber: 3.3 Consensus size: 16 46528526 TATGTAAGTA * 46528536 TAATAATAATAGTAAG 1 TAATAATAATAATAAG 46528552 TAAT-ATAATAATTAA- 1 TAATAATAATAA-TAAG 46528567 TAATAATAATAATAAG 1 TAATAATAATAATAAG 46528583 TAATA 1 TAATA 46528588 GTAGCAACGA Statistics Matches: 32, Mismatches: 1, Indels: 6 0.82 0.03 0.15 Matches are distributed among these distances: 15 13 0.41 16 19 0.59 ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35 Consensus pattern (16 bp): TAATAATAATAATAAG Found at i:46530033 original size:89 final size:89 Alignment explanation
Indices: 46529926--46531271 Score: 1316 Period size: 89 Copynumber: 15.1 Consensus size: 89 46529916 ACCAATATGG * * * * * 46529926 GAAGACAATATCTACTATCTTTGATTTACTTCACTGCCAGTACATGAAGACAAGATTTGCTTTCT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT * * 46529991 TCGATCTACTTCACGCCAATATAT 66 TTGATCTACTTCACGCCAATACAT * * 46530015 G-AGTACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATC 1 GAAG-ACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATC * 46530079 TTTGATCTACTTCACTG-CAAGTACAA 65 TTTGATCTACTTCAC-GCCAA-TACAT * * * * 46530105 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACGTGGAGACAAGATCTGCTATCT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT * * * 46530169 TCGATCTACTTCATGCCAATATAT 66 TTGATCTACTTCACGCCAATACAT * * * * * * 46530193 GAAGATAAGATCTGCTATCCTCTGATCTACTTCA-TGCTAGTACATGGAGACAAGATCTGCTTTG 1 GAAGACAAGATCTGCTAT-CTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATC ** 46530257 TTTGATCTAC-TC-CGCCACCAGTACGG 65 TTTGATCTACTTCACGCCA--A-TACAT * * * * * 46530283 GAAGATAAGATCTACTATCTTTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCTTTAT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT * ** * 46530347 TTGATCTACTTCGCTGCCTGTACAG 66 TTGATCTACTTCAC-GCCAATACAT ** * * ** *** 46530372 GAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT 46530437 TTGATCTACTTCACGCCAATACAT 66 TTGATCTACTTCACGCCAATACAT * * ** ** * *** * 46530461 GAAGACAAGATCTGTTTTCTTCAATCTACTTCACCACCAATATGGGATGACAAGATCTGCTATCT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT 46530526 TTGATCTACTTCACGCCAATACAT 66 TTGATCTACTTCACGCCAATACAT * * * * * * 46530550 GAAGACAAGATCTACTTTCTTCGATCTACTTCAC-GCCAATATATGAATACAAGATCTGCTATCT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT * * 46530614 TTGATCTACTTCACTGCCAGTACAG 66 TTGATCTACTTCAC-GCCAATACAT * * * * 46530639 GAAGACAAGATCTGTTATCTTTGATCTATTTCACTGCCAGTACAGGAAGACAAGATCTGCTATGT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT * 46530704 TCGATCTACTTCACGCCAATACAT 66 TTGATCTACTTCACGCCAATACAT * * * * * 46530728 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAAGATCTACAATCC 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTAT-C * * * * 46530792 TCTGATCTACTTCATGCTAGTACAT 65 TTTGATCTACTTCACGCCAATACAT * * * ** *** 46530817 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT * * * 46530882 TTAATCTGCTTCATGCCAATACAT 66 TTGATCTACTTCACGCCAATACAT * * * * * * ** * 46530906 GAAGACAAGATCTACTTTATTTGATCTACTTCGCTGCCAGTACAAGAAGACAAGATTTATTTTCT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT * * ** 46530971 TCGATCTACTT--CGCCACCTGTAT 66 TTGATCTACTTCACGCCA-ATACAT * * 46530994 GGGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTT 1 --GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTAT * * * * 46531058 ATTTGATCTACTTCGCTGCCAGTACAG 64 CTTTGATCTACTTCAC-GCCAATACAT * * * * ** 46531085 GAAGACAAGATCTGTTTTCTTTGATTTACTTCGCCACCA--ACATGGGAAGACAAGATCTGCTAT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACAT--GAAGACAAGATCTGCTAT * * 46531148 CTTCGATCTACTTCACACCAATACAT 64 CTTTGATCTACTTCACGCCAATACAT * ** * *** * * 46531174 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACTAGTATGGGCAGACAAGATTTGCTATCT 1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT * * 46531239 TTGATCTACTTCACTGCCAGTACAG 66 TTGATCTACTTCAC-GCCAATACAT 46531264 GAAGACAA 1 GAAGACAA 46531272 ATTCGTTGCC Statistics Matches: 1054, Mismatches: 173, Indels: 59 0.82 0.13 0.05 Matches are distributed among these distances: 87 8 0.01 88 94 0.09 89 709 0.67 90 229 0.22 91 7 0.01 92 7 0.01 ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31 Consensus pattern (89 bp): GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAGTACATGAAGACAAGATCTGCTATCT TTGATCTACTTCACGCCAATACAT Found at i:46530102 original size:134 final size:133 Alignment explanation
Indices: 46529896--46531271 Score: 1289 Period size: 134 Copynumber: 10.3 Consensus size: 133 46529886 ATAAGACTTG * ** ** * * * 46529896 TATCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTACTATCTTTGATTTACTTCACT 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT * * * * 46529961 GCCAGTACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAATATATG-AGTACAAGA 66 G-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAG-ACAAGA 46530025 TCTGC 129 TCTGC * * * 46530030 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCACT 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT * * * * * 46530095 GCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACGTGGAGACAAGAT 66 GCAA-TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGAT 46530160 CTGC 130 CTGC * * * * 46530164 TATCTTCGATCTACTTCA-TGCCAATATATGAAGATAAGATCTGCTATCCTCTGATCTACTTCA- 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTAT-CTTTGATCTACTTCAC * * * * * * * ** * 46530227 TGCTAGTACATGGAGACAAGATCTGCTTTGTTTGATCTACTCCGCCACCAGTACGGGAAGATAAG 65 TGC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGACAAG * 46530292 ATCTAC 128 ATCTGC * * * * * 46530298 TATCTTTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCT 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT ** * ** * *** 46530362 GCCTGTACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGA 66 G-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCCAGTACATGAAGACAAGA 46530427 TCTGC 129 TCTGC * * * * ** 46530432 TATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCACC 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-C ** *** * * * * 46530496 ACCAATATGGGATGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT 65 TGCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGAT * 46530561 CTAC 130 CTGC * * * * 46530565 TTTCTTCGATCTACTTCAC-GCCAATATATGAATACAAGATCTGCTATCTTTGATCTACTTCACT 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT * * * * * 46530629 GCCAGTACAGGAAGACAAGATCTG-TTATCTTTGATCTATTTCACTGCCAGTACAGGAAGACAAG 66 G-CAATACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTCAC-GCCAGTACATGAAGACAAG 46530693 ATCTGC 128 ATCTGC * * * * 46530699 TATGTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACA 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT * * ** * * * 46530763 CCAATACATGAAGACAAGATCTACAATCCTCTGATCTACTTCATGCTAGTACATGAAGACAAGAT 66 GCAATACATGAAGACAAGATCTGCTTTCTTC-GATCTACTTCACGCCAGTACATGAAGACAAGAT 46530828 CTGC 130 CTGC * * ** * ** * * 46530832 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTAATCTGCTTCA-T 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT * * * * * 46530896 GCCAATACATGAAGACAAGATCTACTTTATTTGATCTACTTCGCTGCCAGTACAAGAAGACAAGA 66 G-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAGTACATGAAGACAAGA * ** 46530961 TTTAT 129 TCTGC * * ** ** ** 46530966 TTTCTTCGATCTACTTCGCCACCTGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCAC- 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT * * * * 46531030 GCCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGA 66 G-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAGTACATGAAGACAAGA * 46531095 TCTGT 129 TCTGC * * * * ** * ** * * 46531100 TTTCTTTGATTTACTTCGCCACCAACATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT * * *** * 46531165 CCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-CACTAGTATGGGCAGACAAGA 66 GCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC-C-AGTACATGAAGACAAGA * 46531229 TTTGC 129 TCTGC * * 46531234 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAA 1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAA 46531272 ATTCGTTGCC Statistics Matches: 1047, Mismatches: 173, Indels: 44 0.83 0.14 0.03 Matches are distributed among these distances: 132 3 0.00 133 252 0.24 134 788 0.75 135 4 0.00 ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31 Consensus pattern (133 bp): TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACT GCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATC TGC Found at i:46530737 original size:579 final size:579 Alignment explanation
Indices: 46529898--46531271 Score: 2142 Period size: 579 Copynumber: 2.4 Consensus size: 579 46529888 AAGACTTGTA * * 46529898 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAATATCTACTATCTTTGATTTACTTCACTGC 1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATTTACTTCAC-GC * * * 46529963 CAGTACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCACGCCAATATATGAGTACAAGATCT 65 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCT 46530028 GCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCA 130 GCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCA * * * * 46530093 CTGCAAGTACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACGTGGAGACAAG 195 CTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG ** * * * * 46530158 ATCTGCTATCTTCGATCTACTTCATGCCAATATATGAAGATAAGATCTGCTATCCTCTGATCTAC 260 ATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTAC * * * 46530223 TTCATGCTAGTACATGGAGACAAGATCTGCTTTGTTTGATCTACTCCGCCACCAGTACGGGAAGA 325 TTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAGA * * * 46530288 TAAGATCTACTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTATTTGATC 390 CAAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTACTTTATTTGATC * * 46530353 TACTTCGCTGCCTGTACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGG 455 TACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGG * 46530418 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT 520 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT * * * * 46530478 TCTTCAATCTACTTCACCACCAATATGGGATGACAAGATCTGCTATCTTTGATCTACTTCACGCC 1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATTTACTTCACGCC * 46530543 AATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCTG 66 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCTG * 46530608 CTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTATTTCAC 131 CTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCAC * 46530673 TGCCAGTACAGGAAGACAAGATCTGCTATGTTCGATCTACTTCACGCCAATACATGAAGACAAGA 196 TGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA 46530738 TCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTACT 261 TCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTACT * * 46530803 TCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC 326 TCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAGAC * * 46530868 AAGATCTGCTATCTTTAATCTGCTTCATGCCAATACATGAAGACAAGATCTACTTTATTTGATCT 391 AAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTACTTTATTTGATCT * * * 46530933 ACTTCGCTGCCAGTACAAGAAGACAAGATTTATTTTCTTCGATCTACTTCGCCACCTGTATGGGA 456 ACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGA 46530998 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT 521 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT * * ** * ** * * 46531057 TATTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTTTCTTTGATTTACTT--CGCC 1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATTTACTTCACGCC * * * * 46531120 ACCA-ACATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGA 66 A--ATACAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGA * ** * ** * * * 46531184 TCTGCTATCTTCGATCTACTTCACCACTAGTATGGGCAGACAAGATTTGCTATCTTTGATCTACT 127 TCTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACT 46531249 TCACTGCCAGTACAGGAAGACAA 192 TCACTGCCAGTACAGGAAGACAA 46531272 ATTCGTTGCC Statistics Matches: 724, Mismatches: 66, Indels: 8 0.91 0.08 0.01 Matches are distributed among these distances: 577 5 0.01 578 4 0.01 579 532 0.73 580 183 0.25 ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31 Consensus pattern (579 bp): TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGATTTACTTCACGCC AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATATATGAATACAAGATCTG CTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCAC TGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA TCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTACAATCCTCTGATCTACT TCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAGTACGGGAAGAC AAGATCTACTATCTTTAATCTACTTCATGCCAATACATGAAGACAAGATCTACTTTATTTGATCT ACTTCGCTGCCAGTACAAGAAGACAAGATCTATTTTCTTCGATCTACTTCACCACCAGTATGGGA AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT Found at i:46532598 original size:28 final size:28 Alignment explanation
Indices: 46532566--46532629 Score: 87 Period size: 27 Copynumber: 2.3 Consensus size: 28 46532556 TTATCCTCTC 46532566 CATTTTACTTTTTCCA-TTTTTCATTTC-T 1 CATTTTAC-TTTT-CATTTTTTCATTTCAT * 46532594 CATTTCACTTTTCATTTTTTCATTTCAT 1 CATTTTACTTTTCATTTTTTCATTTCAT 46532622 CATTTTAC 1 CATTTTAC 46532630 GACTCAAAGT Statistics Matches: 32, Mismatches: 2, Indels: 4 0.84 0.05 0.11 Matches are distributed among these distances: 26 2 0.06 27 15 0.47 28 15 0.47 ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61 Consensus pattern (28 bp): CATTTTACTTTTCATTTTTTCATTTCAT Found at i:46532605 original size:20 final size:20 Alignment explanation
Indices: 46532583--46532620 Score: 60 Period size: 20 Copynumber: 1.9 Consensus size: 20 46532573 CTTTTTCCAT 46532583 TTTTCA-TTTCTCATTTCAC 1 TTTTCATTTTCTCATTTCAC * 46532602 TTTTCATTTTTTCATTTCA 1 TTTTCATTTTCTCATTTCA 46532621 TCATTTTACG Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 19 6 0.35 20 11 0.65 ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63 Consensus pattern (20 bp): TTTTCATTTTCTCATTTCAC Found at i:46537443 original size:22 final size:23 Alignment explanation
Indices: 46537399--46537451 Score: 63 Period size: 22 Copynumber: 2.3 Consensus size: 23 46537389 AAATTATTAA * 46537399 ATATATGAAAAAATAGAATTATGT 1 ATATAT-AAAAAATAGAAATATGT * 46537423 ATATATAAAAATTA-AAATATGT 1 ATATATAAAAAATAGAAATATGT * 46537445 ATGTATA 1 ATATATA 46537452 TAGGTATATA Statistics Matches: 26, Mismatches: 3, Indels: 2 0.84 0.10 0.06 Matches are distributed among these distances: 22 13 0.50 23 7 0.27 24 6 0.23 ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36 Consensus pattern (23 bp): ATATATAAAAAATAGAAATATGT Found at i:46537868 original size:3 final size:3 Alignment explanation
Indices: 46537860--46537909 Score: 57 Period size: 3 Copynumber: 16.0 Consensus size: 3 46537850 ATATGTACGT * 46537860 ATA ATA ATA GTA AGTA AT- ATA ATA ATA ATTA ATA ATA ATA ATA AGTA 1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA 46537907 ATA 1 ATA 46537910 GTAGCAACGA Statistics Matches: 41, Mismatches: 2, Indels: 8 0.80 0.04 0.16 Matches are distributed among these distances: 2 2 0.05 3 30 0.73 4 9 0.22 ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34 Consensus pattern (3 bp): ATA Found at i:46537908 original size:13 final size:12 Alignment explanation
Indices: 46537860--46537909 Score: 57 Period size: 13 Copynumber: 4.0 Consensus size: 12 46537850 ATATGTACGT * 46537860 ATAATAATAGTA 1 ATAATAATAATA 46537872 AGTAAT-ATAATA 1 A-TAATAATAATA 46537884 ATAATTAATAATA 1 ATAA-TAATAATA 46537897 ATAATAAGTAATA 1 ATAATAA-TAATA 46537910 GTAGCAACGA Statistics Matches: 33, Mismatches: 1, Indels: 7 0.80 0.02 0.17 Matches are distributed among these distances: 11 3 0.09 12 11 0.33 13 19 0.58 ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34 Consensus pattern (12 bp): ATAATAATAATA Found at i:46548952 original size:27 final size:25 Alignment explanation
Indices: 46548916--46549013 Score: 88 Period size: 27 Copynumber: 3.7 Consensus size: 25 46548906 AACACCAGAA 46548916 AAAGGAAGCCTTTGTGGCAATATATG 1 AAAGGAAGCCTTTGTGG-AATATATG * * 46548942 AAACGGAAGCCTTTGTAGAGATTTATG 1 AAA-GGAAGCCTTTGTGGA-ATATATG * * 46548969 ATAAGGAAGCCTTTGTGGTGATCTATG 1 A-AAGGAAGCCTTTGTGG-AATATATG * * 46548996 AAGGGGATGCCTTTGTGG 1 AA-AGGAAGCCTTTGTGG 46549014 TGCACTCTAA Statistics Matches: 60, Mismatches: 7, Indels: 9 0.79 0.09 0.12 Matches are distributed among these distances: 26 5 0.08 27 53 0.88 28 2 0.03 ACGTcount: A:0.29, C:0.11, G:0.31, T:0.30 Consensus pattern (25 bp): AAAGGAAGCCTTTGTGGAATATATG Found at i:46560213 original size:19 final size:19 Alignment explanation
Indices: 46560189--46560227 Score: 69 Period size: 19 Copynumber: 2.1 Consensus size: 19 46560179 TCCAGGGAAG * 46560189 TACTTTCAGAAATACTCTA 1 TACTTTCAAAAATACTCTA 46560208 TACTTTCAAAAATACTCTA 1 TACTTTCAAAAATACTCTA 46560227 T 1 T 46560228 CACAAATTTG Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 19 19 1.00 ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38 Consensus pattern (19 bp): TACTTTCAAAAATACTCTA Found at i:46570624 original size:21 final size:23 Alignment explanation
Indices: 46570570--46570624 Score: 62 Period size: 21 Copynumber: 2.5 Consensus size: 23 46570560 AAATTGATTT * 46570570 ATGATATGAATTCTTGAAATGAGA 1 ATGATATG-ATTCTTGAAAGGAGA * 46570594 ATGAGA-GATT-TTGAAAGGA-A 1 ATGATATGATTCTTGAAAGGAGA 46570614 ATGATATGATT 1 ATGATATGATT 46570625 GAGTTATATA Statistics Matches: 27, Mismatches: 3, Indels: 5 0.77 0.09 0.14 Matches are distributed among these distances: 20 6 0.22 21 12 0.44 22 3 0.11 23 1 0.04 24 5 0.19 ACGTcount: A:0.42, C:0.02, G:0.24, T:0.33 Consensus pattern (23 bp): ATGATATGATTCTTGAAAGGAGA Found at i:46575123 original size:27 final size:27 Alignment explanation
Indices: 46575059--46575124 Score: 87 Period size: 27 Copynumber: 2.4 Consensus size: 27 46575049 AAAAAAGGAG * 46575059 GCCTTTGTGGAAATCTATGAAAAGAAA 1 GCCTTTGTGGCAATCTATGAAAAGAAA * ** * 46575086 GCCTTTGTGGCATTCTATGAATGGAAT 1 GCCTTTGTGGCAATCTATGAAAAGAAA 46575113 GCCTTTGTGGCA 1 GCCTTTGTGGCA 46575125 CAGTCTAAAG Statistics Matches: 34, Mismatches: 5, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 27 34 1.00 ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32 Consensus pattern (27 bp): GCCTTTGTGGCAATCTATGAAAAGAAA Found at i:46581785 original size:25 final size:26 Alignment explanation
Indices: 46581753--46581803 Score: 79 Period size: 25 Copynumber: 2.0 Consensus size: 26 46581743 AAGTTTAAGA 46581753 ATGTATATATA-T-TATATAAAGAAAT 1 ATGTATATATACTATATATAAA-AAAT 46581778 ATGTATATATACTATATATAAAAAAT 1 ATGTATATATACTATATATAAAAAAT 46581804 GCGTGTATAA Statistics Matches: 24, Mismatches: 0, Indels: 3 0.89 0.00 0.11 Matches are distributed among these distances: 25 11 0.46 26 5 0.21 27 8 0.33 ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39 Consensus pattern (26 bp): ATGTATATATACTATATATAAAAAAT Found at i:46581818 original size:25 final size:26 Alignment explanation
Indices: 46581754--46581818 Score: 60 Period size: 27 Copynumber: 2.5 Consensus size: 26 46581744 AGTTTAAGAA * * 46581754 TGTATATATATTATATAAAGAAATATG 1 TGTATAAATA-TATATAAAGAAATACG * * * 46581781 TATATATACTATATATAAA-AAATGCG 1 TGTATA-AATATATATAAAGAAATACG 46581807 TGTATAAATATA 1 TGTATAAATATA 46581819 AAAATAGTAA Statistics Matches: 30, Mismatches: 7, Indels: 4 0.73 0.17 0.10 Matches are distributed among these distances: 25 5 0.17 26 10 0.33 27 13 0.43 28 2 0.07 ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38 Consensus pattern (26 bp): TGTATAAATATATATAAAGAAATACG Found at i:46582544 original size:19 final size:19 Alignment explanation
Indices: 46582510--46582551 Score: 59 Period size: 20 Copynumber: 2.2 Consensus size: 19 46582500 TAAAAAAATC * 46582510 CTTTGTATTCTCTGTATTTT 1 CTTTCTATTCTCTGTA-TTT 46582530 CTTTCTATT-TCTGTATTT 1 CTTTCTATTCTCTGTATTT 46582548 CTTT 1 CTTT 46582552 ACACCGAAAA Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 18 7 0.33 19 6 0.29 20 8 0.38 ACGTcount: A:0.10, C:0.17, G:0.07, T:0.67 Consensus pattern (19 bp): CTTTCTATTCTCTGTATTT Found at i:46585079 original size:13 final size:13 Alignment explanation
Indices: 46585040--46585082 Score: 50 Period size: 13 Copynumber: 3.2 Consensus size: 13 46585030 TTTTTGGTGC * 46585040 TATATATATTTGT 1 TATATATAGTTGT * * 46585053 TGTTTATAGCTTGT 1 TATATATAG-TTGT 46585067 TATATATAGTTGT 1 TATATATAGTTGT 46585080 TAT 1 TAT 46585083 TTTTAGTATT Statistics Matches: 24, Mismatches: 5, Indels: 2 0.77 0.16 0.06 Matches are distributed among these distances: 13 13 0.54 14 11 0.46 ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58 Consensus pattern (13 bp): TATATATAGTTGT Found at i:46593268 original size:29 final size:29 Alignment explanation
Indices: 46593192--46593262 Score: 133 Period size: 29 Copynumber: 2.4 Consensus size: 29 46593182 AATGATAACT * 46593192 TAAGTGAGTAAAACATAACATGTCAAAAC 1 TAAGTGACTAAAACATAACATGTCAAAAC 46593221 TAAGTGACTAAAACATAACATGTCAAAAC 1 TAAGTGACTAAAACATAACATGTCAAAAC 46593250 TAAGTGACTAAAA 1 TAAGTGACTAAAA 46593263 TGTAACCTAA Statistics Matches: 41, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 29 41 1.00 ACGTcount: A:0.52, C:0.14, G:0.13, T:0.21 Consensus pattern (29 bp): TAAGTGACTAAAACATAACATGTCAAAAC Found at i:46597943 original size:56 final size:56 Alignment explanation
Indices: 46597852--46597974 Score: 176 Period size: 55 Copynumber: 2.2 Consensus size: 56 46597842 GAGATTGGCG * * * 46597852 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA 1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA * * 46597909 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA 1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA * 46597964 CTGAGTGTGCG 1 CTAAGTGTGCG 46597975 GACTTAATAT Statistics Matches: 60, Mismatches: 6, Indels: 2 0.88 0.09 0.03 Matches are distributed among these distances: 55 23 0.38 56 22 0.37 57 15 0.25 ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33 Consensus pattern (56 bp): CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA Found at i:46597961 original size:27 final size:28 Alignment explanation
Indices: 46597852--46597974 Score: 176 Period size: 28 Copynumber: 4.4 Consensus size: 28 46597842 GAGATTGGCG * * * * 46597852 CTAAGTGTGCGGGTTTAAATTGTACAGCA 1 CTAAGTGTGCGAGTTT-GATTATATAGCA * 46597881 CTAAGTGTGCGAGTTTGATTATGTAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA 46597909 CTAAGTGTGCGAGTTTGATTATATAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA 46597937 CTAAGTGTGCGAG-TTGATTATATAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA * 46597964 CTGAGTGTGCG 1 CTAAGTGTGCG 46597975 GACTTAATAT Statistics Matches: 87, Mismatches: 7, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 27 24 0.28 28 48 0.55 29 15 0.17 ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33 Consensus pattern (28 bp): CTAAGTGTGCGAGTTTGATTATATAGCA Found at i:46597985 original size:27 final size:27 Alignment explanation
Indices: 46597877--46597987 Score: 116 Period size: 28 Copynumber: 4.0 Consensus size: 27 46597867 TAAATTGTAC * * * 46597877 AGCACTAAGTGTGCGAGTTTGATTATGT 1 AGCACTAAGTGTGCGA-CTTGAATATAT * * 46597905 AGCACTAAGTGTGCGAGTTTGATTATAT 1 AGCACTAAGTGTGCGA-CTTGAATATAT * * 46597933 AGCACTAAGTGTGCGAGTTGATTATAT 1 AGCACTAAGTGTGCGACTTGAATATAT * 46597960 AGCACTGAGTGTGCGGACTT-AATATAT 1 AGCACTAAGTGTGC-GACTTGAATATAT 46597987 A 1 A 46597988 CTTTTGAATC Statistics Matches: 77, Mismatches: 5, Indels: 3 0.91 0.06 0.04 Matches are distributed among these distances: 27 30 0.39 28 47 0.61 ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33 Consensus pattern (27 bp): AGCACTAAGTGTGCGACTTGAATATAT Found at i:46603122 original size:56 final size:56 Alignment explanation
Indices: 46603031--46603153 Score: 176 Period size: 55 Copynumber: 2.2 Consensus size: 56 46603021 GAGATTGGCG * * * 46603031 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATTTAGCA 1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA * * 46603088 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA 1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA * 46603143 CTGAGTGTGCG 1 CTAAGTGTGCG 46603154 GACTTAATAT Statistics Matches: 60, Mismatches: 6, Indels: 2 0.88 0.09 0.03 Matches are distributed among these distances: 55 23 0.38 56 22 0.37 57 15 0.25 ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34 Consensus pattern (56 bp): CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA Found at i:46603140 original size:27 final size:28 Alignment explanation
Indices: 46603031--46603153 Score: 176 Period size: 28 Copynumber: 4.4 Consensus size: 28 46603021 GAGATTGGCG * * * * 46603031 CTAAGTGTGCGGGTTTAAATTGTACAGCA 1 CTAAGTGTGCGAGTTT-GATTATATAGCA * 46603060 CTAAGTGTGCGAGTTTGATTATTTAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA 46603088 CTAAGTGTGCGAGTTTGATTATATAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA 46603116 CTAAGTGTGCGAG-TTGATTATATAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA * 46603143 CTGAGTGTGCG 1 CTAAGTGTGCG 46603154 GACTTAATAT Statistics Matches: 87, Mismatches: 7, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 27 24 0.28 28 48 0.55 29 15 0.17 ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34 Consensus pattern (28 bp): CTAAGTGTGCGAGTTTGATTATATAGCA Found at i:46603164 original size:27 final size:27 Alignment explanation
Indices: 46603056--46603166 Score: 116 Period size: 28 Copynumber: 4.0 Consensus size: 27 46603046 TAAATTGTAC * * * 46603056 AGCACTAAGTGTGCGAGTTTGATTATTT 1 AGCACTAAGTGTGCGA-CTTGAATATAT * * 46603084 AGCACTAAGTGTGCGAGTTTGATTATAT 1 AGCACTAAGTGTGCGA-CTTGAATATAT * * 46603112 AGCACTAAGTGTGCGAGTTGATTATAT 1 AGCACTAAGTGTGCGACTTGAATATAT * 46603139 AGCACTGAGTGTGCGGACTT-AATATAT 1 AGCACTAAGTGTGC-GACTTGAATATAT 46603166 A 1 A 46603167 CTTTTGAATC Statistics Matches: 77, Mismatches: 5, Indels: 3 0.91 0.06 0.04 Matches are distributed among these distances: 27 30 0.39 28 47 0.61 ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34 Consensus pattern (27 bp): AGCACTAAGTGTGCGACTTGAATATAT Found at i:46608307 original size:56 final size:56 Alignment explanation
Indices: 46608216--46608338 Score: 176 Period size: 55 Copynumber: 2.2 Consensus size: 56 46608206 GAGATTGGCG * * * 46608216 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA 1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA * * 46608273 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA 1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA * 46608328 CTGAGTGTGCG 1 CTAAGTGTGCG 46608339 GACTTAATAT Statistics Matches: 60, Mismatches: 6, Indels: 2 0.88 0.09 0.03 Matches are distributed among these distances: 55 23 0.38 56 22 0.37 57 15 0.25 ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33 Consensus pattern (56 bp): CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA Found at i:46608325 original size:27 final size:28 Alignment explanation
Indices: 46608216--46608338 Score: 176 Period size: 28 Copynumber: 4.4 Consensus size: 28 46608206 GAGATTGGCG * * * * 46608216 CTAAGTGTGCGGGTTTAAATTGTACAGCA 1 CTAAGTGTGCGAGTTT-GATTATATAGCA * 46608245 CTAAGTGTGCGAGTTTGATTATGTAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA 46608273 CTAAGTGTGCGAGTTTGATTATATAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA 46608301 CTAAGTGTGCGAG-TTGATTATATAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA * 46608328 CTGAGTGTGCG 1 CTAAGTGTGCG 46608339 GACTTAATAT Statistics Matches: 87, Mismatches: 7, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 27 24 0.28 28 48 0.55 29 15 0.17 ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33 Consensus pattern (28 bp): CTAAGTGTGCGAGTTTGATTATATAGCA Found at i:46608349 original size:27 final size:27 Alignment explanation
Indices: 46608241--46608351 Score: 116 Period size: 28 Copynumber: 4.0 Consensus size: 27 46608231 TAAATTGTAC * * * 46608241 AGCACTAAGTGTGCGAGTTTGATTATGT 1 AGCACTAAGTGTGCGA-CTTGAATATAT * * 46608269 AGCACTAAGTGTGCGAGTTTGATTATAT 1 AGCACTAAGTGTGCGA-CTTGAATATAT * * 46608297 AGCACTAAGTGTGCGAGTTGATTATAT 1 AGCACTAAGTGTGCGACTTGAATATAT * 46608324 AGCACTGAGTGTGCGGACTT-AATATAT 1 AGCACTAAGTGTGC-GACTTGAATATAT 46608351 A 1 A 46608352 CTTTTGAATC Statistics Matches: 77, Mismatches: 5, Indels: 3 0.91 0.06 0.04 Matches are distributed among these distances: 27 30 0.39 28 47 0.61 ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33 Consensus pattern (27 bp): AGCACTAAGTGTGCGACTTGAATATAT Found at i:46616501 original size:56 final size:56 Alignment explanation
Indices: 46616410--46616532 Score: 176 Period size: 55 Copynumber: 2.2 Consensus size: 56 46616400 GAGATTGGCG * * * 46616410 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA 1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA * * 46616467 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA 1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA * 46616522 CTGAGTGTGCG 1 CTAAGTGTGCG 46616533 GACTTAATAT Statistics Matches: 60, Mismatches: 6, Indels: 2 0.88 0.09 0.03 Matches are distributed among these distances: 55 23 0.38 56 22 0.37 57 15 0.25 ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33 Consensus pattern (56 bp): CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA Found at i:46616519 original size:27 final size:28 Alignment explanation
Indices: 46616410--46616532 Score: 176 Period size: 28 Copynumber: 4.4 Consensus size: 28 46616400 GAGATTGGCG * * * * 46616410 CTAAGTGTGCGGGTTTAAATTGTACAGCA 1 CTAAGTGTGCGAGTTT-GATTATATAGCA * 46616439 CTAAGTGTGCGAGTTTGATTATGTAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA 46616467 CTAAGTGTGCGAGTTTGATTATATAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA 46616495 CTAAGTGTGCGAG-TTGATTATATAGCA 1 CTAAGTGTGCGAGTTTGATTATATAGCA * 46616522 CTGAGTGTGCG 1 CTAAGTGTGCG 46616533 GACTTAATAT Statistics Matches: 87, Mismatches: 7, Indels: 2 0.91 0.07 0.02 Matches are distributed among these distances: 27 24 0.28 28 48 0.55 29 15 0.17 ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33 Consensus pattern (28 bp): CTAAGTGTGCGAGTTTGATTATATAGCA Found at i:46616543 original size:27 final size:27 Alignment explanation
Indices: 46616435--46616545 Score: 116 Period size: 28 Copynumber: 4.0 Consensus size: 27 46616425 TAAATTGTAC * * * 46616435 AGCACTAAGTGTGCGAGTTTGATTATGT 1 AGCACTAAGTGTGCGA-CTTGAATATAT * * 46616463 AGCACTAAGTGTGCGAGTTTGATTATAT 1 AGCACTAAGTGTGCGA-CTTGAATATAT * * 46616491 AGCACTAAGTGTGCGAGTTGATTATAT 1 AGCACTAAGTGTGCGACTTGAATATAT * 46616518 AGCACTGAGTGTGCGGACTT-AATATAT 1 AGCACTAAGTGTGC-GACTTGAATATAT 46616545 A 1 A 46616546 CTTTTGAATC Statistics Matches: 77, Mismatches: 5, Indels: 3 0.91 0.06 0.04 Matches are distributed among these distances: 27 30 0.39 28 47 0.61 ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33 Consensus pattern (27 bp): AGCACTAAGTGTGCGACTTGAATATAT Found at i:46619280 original size:40 final size:39 Alignment explanation
Indices: 46619222--46619361 Score: 144 Period size: 37 Copynumber: 3.6 Consensus size: 39 46619212 ACACACCAGT * * 46619222 TTGGCACCCAAT-TCCTCATCAGATAATTCGAAGTAGTAAA 1 TTGGCACCCAGTGT-CTCATC-GATAATCCGAAGTAGTAAA * * 46619262 TTGGCACCCAGTGTCTCATCGGTTAAACCG-A--AGTAAA 1 TTGGCACCCAGTGTCTCATC-GATAATCCGAAGTAGTAAA * 46619299 TTGGCACCCAGTGCCTCATCGAATAAATCCGAAGTAGTAAA 1 TTGGCACCCAGTGTCTCATCG-AT-AATCCGAAGTAGTAAA * * 46619340 TTGACACCTAGTGTCTCATCGA 1 TTGGCACCCAGTGTCTCATCGA 46619362 CTCGAAGTCG Statistics Matches: 83, Mismatches: 11, Indels: 12 0.78 0.10 0.11 Matches are distributed among these distances: 36 1 0.01 37 26 0.31 38 5 0.06 39 2 0.02 40 24 0.29 41 25 0.30 ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26 Consensus pattern (39 bp): TTGGCACCCAGTGTCTCATCGATAATCCGAAGTAGTAAA Found at i:46619358 original size:41 final size:40 Alignment explanation
Indices: 46619250--46619361 Score: 149 Period size: 37 Copynumber: 2.9 Consensus size: 40 46619240 TCAGATAATT ** 46619250 CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGGTTAAAC 1 CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGAATAAAC * 46619290 CG-A--AGTAAATTGGCACCCAGTGCCTCATCGAATAAATC 1 CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGAATAAA-C * * 46619328 CGAAGTAGTAAATTGACACCTAGTGTCTCATCGA 1 CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGA 46619362 CTCGAAGTCG Statistics Matches: 62, Mismatches: 6, Indels: 7 0.83 0.08 0.09 Matches are distributed among these distances: 37 30 0.48 38 3 0.05 39 2 0.03 40 2 0.03 41 25 0.40 ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24 Consensus pattern (40 bp): CGAAGTAGTAAATTGGCACCCAGTGTCTCATCGAATAAAC Found at i:46620263 original size:12 final size:12 Alignment explanation
Indices: 46620237--46620291 Score: 58 Period size: 12 Copynumber: 4.6 Consensus size: 12 46620227 CTTGCGTCTG ** 46620237 TTTCTTTCTCCT 1 TTTCTTTCTTTT 46620249 TTTCTTTCTTTT 1 TTTCTTTCTTTT 46620261 TTT-TTTCTTTCT 1 TTTCTTTCTTT-T * 46620273 TTCCTTTCTTTT 1 TTTCTTTCTTTT * 46620285 TTCCTTT 1 TTTCTTT 46620292 TGGCATAGCT Statistics Matches: 38, Mismatches: 3, Indels: 4 0.84 0.07 0.09 Matches are distributed among these distances: 11 7 0.18 12 24 0.63 13 7 0.18 ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76 Consensus pattern (12 bp): TTTCTTTCTTTT Found at i:46620273 original size:19 final size:20 Alignment explanation
Indices: 46620249--46620287 Score: 62 Period size: 20 Copynumber: 2.0 Consensus size: 20 46620239 TCTTTCTCCT * 46620249 TTTCTTT-CTTTTTTTTTTC 1 TTTCTTTCCTTTCTTTTTTC 46620268 TTTCTTTCCTTTCTTTTTTC 1 TTTCTTTCCTTTCTTTTTTC 46620288 CTTTTGGCAT Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 19 7 0.39 20 11 0.61 ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79 Consensus pattern (20 bp): TTTCTTTCCTTTCTTTTTTC Found at i:46621767 original size:13 final size:13 Alignment explanation
Indices: 46621733--46621902 Score: 111 Period size: 13 Copynumber: 12.8 Consensus size: 13 46621723 CCAATGTTTC * * 46621733 ATTTTATATATCT 1 ATTTCATATAACT 46621746 ATTTCCATATAACT 1 ATTT-CATATAACT 46621760 GA-TTCATATAA-T 1 -ATTTCATATAACT * 46621772 CATTTCATATATCT 1 -ATTTCATATAACT 46621786 ATTTCCATATAACT 1 ATTT-CATATAACT 46621800 GA-TTCATATAA-T 1 -ATTTCATATAACT * 46621812 CATTTCATATATCT 1 -ATTTCATATAACT * * 46621826 ACTTCTATATAAAT 1 ATTTC-ATATAACT * * 46621840 GA-TTCGTATAACC 1 -ATTTCATATAACT * 46621853 ATCTT-ATATATCT 1 AT-TTCATATAACT 46621866 ATTTCCATATAACT 1 ATTT-CATATAACT 46621880 GA-TTCATATAACT 1 -ATTTCATATAACT 46621893 ATTTCATATA 1 ATTTCATATA 46621903 TTCATTATTC Statistics Matches: 124, Mismatches: 17, Indels: 32 0.72 0.10 0.18 Matches are distributed among these distances: 12 8 0.06 13 71 0.57 14 41 0.33 15 4 0.03 ACGTcount: A:0.35, C:0.16, G:0.03, T:0.45 Consensus pattern (13 bp): ATTTCATATAACT Found at i:46621768 original size:27 final size:27 Alignment explanation
Indices: 46621733--46621903 Score: 101 Period size: 27 Copynumber: 6.4 Consensus size: 27 46621723 CCAATGTTTC * 46621733 ATTTTATATATCTATTTCCATATAACTG 1 ATTTCATATATCTATTT-CATATAACTG * 46621761 A-TTCATATAATC-ATTTCATATATCT- 1 ATTTCATAT-ATCTATTTCATATAACTG * * 46621786 ATTTCCATATAACTGA-TTCATATAA-TC 1 ATTT-CATATATCT-ATTTCATATAACTG * * 46621813 ATTTCATATATCTACTTCTATATAAATG 1 ATTTCATATATCTATTTC-ATATAACTG * * * * 46621841 A-TTCGTATAACCATCTT-ATATATCT- 1 ATTTCATATATCTAT-TTCATATAACTG * 46621866 ATTTCCATATAACTGA-TTCATATAACT- 1 ATTT-CATATATCT-ATTTCATATAACTG 46621893 ATTTCATATAT 1 ATTTCATATAT 46621904 TCATTATTCA Statistics Matches: 113, Mismatches: 16, Indels: 30 0.71 0.10 0.19 Matches are distributed among these distances: 25 3 0.03 26 40 0.35 27 60 0.53 28 10 0.09 ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46 Consensus pattern (27 bp): ATTTCATATATCTATTTCATATAACTG Found at i:46621775 original size:40 final size:40 Alignment explanation
Indices: 46621731--46621903 Score: 260 Period size: 40 Copynumber: 4.3 Consensus size: 40 46621721 ATCCAATGTT * 46621731 TCATTTTATATATCTATTTCCATATAACTGATTCATATAA 1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA 46621771 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA 1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA * * * * 46621811 TCATTTCATATATCTACTTCTATATAAATGATTCGTATAA 1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA * 46621851 CCATCTT-ATATATCTATTTCCATATAACTGATTCATATAA 1 TCAT-TTCATATATCTATTTCCATATAACTGATTCATATAA 46621891 -CTATTTCATATAT 1 TC-ATTTCATATAT 46621904 TCATTATTCA Statistics Matches: 120, Mismatches: 10, Indels: 6 0.88 0.07 0.04 Matches are distributed among these distances: 39 3 0.03 40 115 0.96 41 2 0.02 ACGTcount: A:0.35, C:0.17, G:0.03, T:0.46 Consensus pattern (40 bp): TCATTTCATATATCTATTTCCATATAACTGATTCATATAA Found at i:46624378 original size:25 final size:25 Alignment explanation
Indices: 46624342--46624495 Score: 111 Period size: 25 Copynumber: 6.2 Consensus size: 25 46624332 ACCAAACAAA * 46624342 GCCTTTGTGGCAAGTTATCTGAAAG 1 GCCTATGTGGCAAGTTATCTGAAAG * 46624367 GCCTATGCGGCATA-TTATCTGGAAA- 1 GCCTATGTGGCA-AGTTATCT-GAAAG * * 46624392 GCCTTTGTGGCGAGTTATCTGAAAG 1 GCCTATGTGGCAAGTTATCTGAAAG * 46624417 GCCTATGTGGCATA-TTATTTGGAAA- 1 GCCTATGTGGCA-AGTTATCT-GAAAG * * * * 46624442 ACCTTTGTGGCAAGTTACCTAAAAG 1 GCCTATGTGGCAAGTTATCTGAAAG * * * * 46624467 ACCAATGTGGCATA-TTATTTGAAAA 1 GCCTATGTGGCA-AGTTATCTGAAAG 46624492 GCCT 1 GCCT 46624496 TAGTCGTGAA Statistics Matches: 99, Mismatches: 21, Indels: 18 0.72 0.15 0.13 Matches are distributed among these distances: 24 9 0.09 25 79 0.80 26 11 0.11 ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31 Consensus pattern (25 bp): GCCTATGTGGCAAGTTATCTGAAAG Found at i:46624414 original size:50 final size:50 Alignment explanation
Indices: 46624339--46624542 Score: 234 Period size: 50 Copynumber: 4.1 Consensus size: 50 46624329 CAAACCAAAC * 46624339 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATCTGG 1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGG * * 46624389 AAAGCCTTTGTGGCGAGTTATCTGAAAGGCCTATGTGGCATATTATTTGG 1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGG * * * * * * * 46624439 AAAACCTTTGTGGCAAGTTACCTAAAAGACCAATGTGGCATATTATTTGA 1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGG * * * 46624489 AAAGCCTTAGTCGTG-AAGTTATCTAGAAA-GCCTTTGCGGCA-AGTCATTTGG 1 AAAGCCTTTGT-G-GCAAGTTATCT-GAAAGGCCTATGCGGCATA-TTATTTGG 46624540 AAA 1 AAA 46624543 ACTTGTATGG Statistics Matches: 130, Mismatches: 20, Indels: 7 0.83 0.13 0.04 Matches are distributed among these distances: 50 100 0.77 51 26 0.20 52 4 0.03 ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30 Consensus pattern (50 bp): AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGG Found at i:46629790 original size:18 final size:17 Alignment explanation
Indices: 46629748--46629791 Score: 52 Period size: 18 Copynumber: 2.5 Consensus size: 17 46629738 TGCCGTTCGT 46629748 TTTCAAAACATTATTCA 1 TTTCAAAACATTATTCA * * 46629765 TTTACAAATCGTTATTCAA 1 TTT-CAAAACATTATTC-A 46629784 TTTCAAAA 1 TTTCAAAA 46629792 AGTTTTTTTT Statistics Matches: 22, Mismatches: 3, Indels: 3 0.79 0.11 0.11 Matches are distributed among these distances: 17 3 0.14 18 15 0.68 19 4 0.18 ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41 Consensus pattern (17 bp): TTTCAAAACATTATTCA Found at i:46636701 original size:7 final size:7 Alignment explanation
Indices: 46636685--46636772 Score: 97 Period size: 7 Copynumber: 11.9 Consensus size: 7 46636675 CAACCCAATT 46636685 TTTATT- 1 TTTATTA 46636691 TTTATTA 1 TTTATTA 46636698 TTTATTA 1 TTTATTA 46636705 TTTATTA 1 TTTATTA 46636712 TTTATTA 1 TTTATTA * 46636719 TTTATTC 1 TTTATTA 46636726 TTTAATTTA 1 TTT-A-TTA 46636735 TTTATTA 1 TTTATTA 46636742 CTTTAATTTA 1 -TTT-A-TTA 46636752 TTTTATTA 1 -TTTATTA 46636760 TTTATTA 1 TTTATTA * 46636767 CTTATT 1 TTTATT 46636773 TGGATATTAA Statistics Matches: 72, Mismatches: 4, Indels: 11 0.83 0.05 0.13 Matches are distributed among these distances: 6 6 0.08 7 45 0.62 8 8 0.11 9 7 0.10 10 6 0.08 ACGTcount: A:0.26, C:0.03, G:0.00, T:0.70 Consensus pattern (7 bp): TTTATTA Found at i:46636709 original size:4 final size:4 Alignment explanation
Indices: 46636685--46636765 Score: 57 Period size: 4 Copynumber: 20.5 Consensus size: 4 46636675 CAACCCAATT * * 46636685 TTTA TTTT TATTA TTTA -TTA TTTA -TTA TTTA -TTA TTTA TTCT- TTAA 1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA 46636731 TTTA TTTA -TTA CTTTAA TTTA TTT- TATTA TTTA TT 1 TTTA TTTA TTTA -TTT-A TTTA TTTA T-TTA TTTA TT 46636766 ACTTATTTGG Statistics Matches: 62, Mismatches: 4, Indels: 22 0.70 0.05 0.25 Matches are distributed among these distances: 3 13 0.21 4 38 0.61 5 10 0.16 6 1 0.02 ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72 Consensus pattern (4 bp): TTTA Found at i:46637825 original size:10 final size:10 Alignment explanation
Indices: 46637779--46637825 Score: 51 Period size: 10 Copynumber: 4.7 Consensus size: 10 46637769 TTCCTAAAGT * 46637779 ATAAAAA-AT 1 ATAAAAATAA 46637788 ATAAATAATAA 1 ATAAA-AATAA * 46637799 ATAAATATAA 1 ATAAAAATAA * 46637809 ATCAAAATAA 1 ATAAAAATAA 46637819 ATAAAAA 1 ATAAAAA 46637826 AAGAAAAAAA Statistics Matches: 31, Mismatches: 5, Indels: 3 0.79 0.13 0.08 Matches are distributed among these distances: 9 5 0.16 10 20 0.65 11 6 0.19 ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23 Consensus pattern (10 bp): ATAAAAATAA Found at i:46638429 original size:15 final size:15 Alignment explanation
Indices: 46638404--46638438 Score: 54 Period size: 15 Copynumber: 2.4 Consensus size: 15 46638394 GACTCTATTT * 46638404 TAATT-ATATTAGGA 1 TAATTAATATTAAGA 46638418 TAATTAATATTAAGA 1 TAATTAATATTAAGA 46638433 TAATTA 1 TAATTA 46638439 TTAAGAATTA Statistics Matches: 19, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 14 5 0.26 15 14 0.74 ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43 Consensus pattern (15 bp): TAATTAATATTAAGA Found at i:46638481 original size:10 final size:10 Alignment explanation
Indices: 46638468--46638510 Score: 50 Period size: 10 Copynumber: 4.3 Consensus size: 10 46638458 AGGATTTAAT 46638468 TTTATTTATC 1 TTTATTTATC 46638478 TTTATTTATC 1 TTTATTTATC * * ** 46638488 TTCAATTAAA 1 TTTATTTATC 46638498 TTTATTTATC 1 TTTATTTATC 46638508 TTT 1 TTT 46638511 TGGGAATTTA Statistics Matches: 25, Mismatches: 8, Indels: 0 0.76 0.24 0.00 Matches are distributed among these distances: 10 25 1.00 ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65 Consensus pattern (10 bp): TTTATTTATC Found at i:46640272 original size:18 final size:19 Alignment explanation
Indices: 46640232--46640272 Score: 50 Period size: 18 Copynumber: 2.3 Consensus size: 19 46640222 CATGATGTTT * 46640232 ACCCATGTGGGCCCATACG 1 ACCCATGTGGGCCCACACG * 46640251 -CCCATGT-GGCCCACATG 1 ACCCATGTGGGCCCACACG 46640268 ACCCA 1 ACCCA 46640273 AATTGGCCTT Statistics Matches: 19, Mismatches: 2, Indels: 3 0.79 0.08 0.12 Matches are distributed among these distances: 17 8 0.42 18 11 0.58 ACGTcount: A:0.22, C:0.41, G:0.22, T:0.15 Consensus pattern (19 bp): ACCCATGTGGGCCCACACG Found at i:46646897 original size:20 final size:21 Alignment explanation
Indices: 46646872--46646910 Score: 71 Period size: 20 Copynumber: 1.9 Consensus size: 21 46646862 ATTCTAAAAA 46646872 TAATATTAT-TTTAATATATT 1 TAATATTATATTTAATATATT 46646892 TAATATTATATTTAATATA 1 TAATATTATATTTAATATA 46646911 ATATTTATCT Statistics Matches: 18, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 20 9 0.50 21 9 0.50 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (21 bp): TAATATTATATTTAATATATT Found at i:46646903 original size:12 final size:12 Alignment explanation
Indices: 46646886--46646917 Score: 55 Period size: 12 Copynumber: 2.7 Consensus size: 12 46646876 ATTATTTTAA 46646886 TATATTTAATAT 1 TATATTTAATAT 46646898 TATATTTAATAT 1 TATATTTAATAT * 46646910 AATATTTA 1 TATATTTA 46646918 TCTTATAGAC Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 12 19 1.00 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (12 bp): TATATTTAATAT Found at i:46646966 original size:61 final size:59 Alignment explanation
Indices: 46646874--46647006 Score: 164 Period size: 61 Copynumber: 2.2 Consensus size: 59 46646864 TCTAAAAATA * * * 46646874 ATATTATTTTAAT-ATATTTAATATTATATTTAATA-TAATATTTATCTTATAGACAAATATT 1 ATATTAATTTAATAATATTTAATAATAGATTTAA-ACTAATATTTATC-T-T-GACAAATATT * * 46646935 CTATTAA-TTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGATAAATATT 1 ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGACAAATATT 46646993 ATATTAATTTAATA 1 ATATTAATTTAATA 46647007 TTAAAGTGAT Statistics Matches: 63, Mismatches: 6, Indels: 8 0.82 0.08 0.10 Matches are distributed among these distances: 58 15 0.24 59 7 0.11 60 7 0.11 61 34 0.54 ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50 Consensus pattern (59 bp): ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGACAAATATT Found at i:46647584 original size:25 final size:25 Alignment explanation
Indices: 46647554--46647605 Score: 104 Period size: 25 Copynumber: 2.1 Consensus size: 25 46647544 CCTAGAAGGG 46647554 AATTGAATGATAGTTAGACAATTTT 1 AATTGAATGATAGTTAGACAATTTT 46647579 AATTGAATGATAGTTAGACAATTTT 1 AATTGAATGATAGTTAGACAATTTT 46647604 AA 1 AA 46647606 GTATTATGTG Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 25 27 1.00 ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38 Consensus pattern (25 bp): AATTGAATGATAGTTAGACAATTTT Found at i:46650235 original size:19 final size:19 Alignment explanation
Indices: 46650211--46650249 Score: 60 Period size: 19 Copynumber: 2.1 Consensus size: 19 46650201 CAATGTAGCC 46650211 ATTGAGAAAAACAGTCTTA 1 ATTGAGAAAAACAGTCTTA * * 46650230 ATTGAGAAACATAGTCTTA 1 ATTGAGAAAAACAGTCTTA 46650249 A 1 A 46650250 CATCCATCTA Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 19 18 1.00 ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28 Consensus pattern (19 bp): ATTGAGAAAAACAGTCTTA Found at i:46655553 original size:35 final size:35 Alignment explanation
Indices: 46655506--46655636 Score: 111 Period size: 35 Copynumber: 3.6 Consensus size: 35 46655496 ATATTTGTCG * 46655506 GTTTAT-TCGACTAGCGCTGGGCACAACTTTCATCA 1 GTTTATCT-GACTAGCGCTGGGCACAACTTTCGTCA * * * 46655541 GTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCG 1 GTTTATCTGACTAGCGCTGGGCACA--ACT-T-TC-GTCA * * * * 46655581 GTTTATCCGGCTAGCACTGGGTACAACTTTCGTCA 1 GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA * * 46655616 GTTTATTTGACTAGTGCTGGG 1 GTTTATCTGACTAGCGCTGGG 46655637 TACATCGTTA Statistics Matches: 74, Mismatches: 16, Indels: 12 0.73 0.16 0.12 Matches are distributed among these distances: 35 41 0.55 36 3 0.04 37 3 0.04 38 3 0.04 39 2 0.03 40 22 0.30 ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35 Consensus pattern (35 bp): GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA Found at i:46655585 original size:75 final size:75 Alignment explanation
Indices: 46655462--46655745 Score: 345 Period size: 75 Copynumber: 3.8 Consensus size: 75 46655452 AACGAATATT ** * * * * 46655462 ATCAGTTTATCTTCCTAGTGTTGGGCACA-CGATTATATTTGTCGGTTTATTCGACTAGCGCTGG 1 ATCAGTTTATCTGACTAGTGCTGGGCACATC-ATTATATCTGTCGGTTTATCCGACTAGCACTGG * 46655526 GCACAACTTTC 65 GTACAACTTTC * 46655537 ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGGCTAGCACTGGG 1 ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGG 46655602 TACAACTTTC 66 TACAACTTTC * * * * * * * 46655612 GTCAGTTTATTTGACTAGTGCTGGGTACATCGTTATATCTATCGGTTGATCCAACTAGCACTGGG 1 ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGG * * 46655677 TGCAACTTTT 66 TACAACTTTC * * * * * * 46655687 TTCAGTTTATATGACTAGTGATGGGCACATCAATATATATGTCGGTTTATCTGACTAGC 1 ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGC 46655746 GTGGGGCGCA Statistics Matches: 179, Mismatches: 29, Indels: 2 0.85 0.14 0.01 Matches are distributed among these distances: 75 178 0.99 76 1 0.01 ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37 Consensus pattern (75 bp): ATCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGG TACAACTTTC Found at i:46662328 original size:47 final size:47 Alignment explanation
Indices: 46662259--46662357 Score: 153 Period size: 47 Copynumber: 2.1 Consensus size: 47 46662249 TTATTGGACG * * * 46662259 TTTATCTATGATTTTGGTGGCTTGTCCACGATATTGATTGTTGGCAA 1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA * * 46662306 TTTATCTGCGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAG 1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA 46662353 TTTAT 1 TTTAT 46662358 AAGTGTTACT Statistics Matches: 47, Mismatches: 5, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 47 47 1.00 ACGTcount: A:0.19, C:0.13, G:0.22, T:0.45 Consensus pattern (47 bp): TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA Found at i:46664605 original size:20 final size:21 Alignment explanation
Indices: 46664559--46664605 Score: 64 Period size: 19 Copynumber: 2.4 Consensus size: 21 46664549 TTTTTTTTAA 46664559 TCTATTT-ATTTATTTTTCTT 1 TCTATTTCATTTATTTTTCTT * 46664579 TC-CTTTCATTT-TTTTTCTT 1 TCTATTTCATTTATTTTTCTT 46664598 TCTATTTC 1 TCTATTTC 46664606 TTTCATTCTA Statistics Matches: 23, Mismatches: 2, Indels: 4 0.79 0.07 0.14 Matches are distributed among these distances: 19 13 0.57 20 10 0.43 ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72 Consensus pattern (21 bp): TCTATTTCATTTATTTTTCTT Found at i:46666650 original size:42 final size:42 Alignment explanation
Indices: 46666543--46666702 Score: 135 Period size: 42 Copynumber: 3.8 Consensus size: 42 46666533 TCATGTTTAC * * * * * 46666543 TTTCCGTTTAGCTCTCACGAGCTTTTGTTTAACTCATATGAG 1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGGG * * ** * * 46666585 TTTCTGTTCAGTTCT-ATTAAGCTTCTGTTTAACCCTTATGGG 1 TTTCCGTTCAGCTCTCA-CGAGCTTCTGTTCAACCCATATGGG * * 46666627 TTCCCGTTCAGCTCTTACGAGCTT-TCGTTCAACCCATATGGG 1 TTTCCGTTCAGCTCTCACGAGCTTCT-GTTCAACCCATATGGG ** * * 46666669 TTTCTATTTAGCTCTCATGAGCTTCTGTTCAACC 1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACC 46666703 TTCAGGCTTC Statistics Matches: 92, Mismatches: 22, Indels: 8 0.75 0.18 0.07 Matches are distributed among these distances: 41 2 0.02 42 88 0.96 43 2 0.02 ACGTcount: A:0.17, C:0.24, G:0.16, T:0.42 Consensus pattern (42 bp): TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGGG Found at i:46666692 original size:84 final size:84 Alignment explanation
Indices: 46666546--46666702 Score: 199 Period size: 84 Copynumber: 1.9 Consensus size: 84 46666536 TGTTTACTTT * * * * * * 46666546 CCGTTTAGCTCTCACGAGCTTTTGTTTAACTCATATGAGTTTCTGTTCAGTTCTATTAAGCTTCT 1 CCGTTCAGCTCTCACGAGCTTTCGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT * 46666611 GTTTAACCCTTATGGGTTC 66 GTTCAACCCTTATGGGTTC * * * * 46666630 CCGTTCAGCTCTTACGAGCTTTCGTTCAACCCATATGGGTTTCTATTTAGCTCTCA-TGAGCTTC 1 CCGTTCAGCTCTCACGAGCTTTCGTTCAACCCATATGAGTTTCTATTCAGCTCT-ATTAAGCTTC 46666694 TGTTCAACC 65 TGTTCAACC 46666703 TTCAGGCTTC Statistics Matches: 61, Mismatches: 11, Indels: 2 0.82 0.15 0.03 Matches are distributed among these distances: 84 60 0.98 85 1 0.02 ACGTcount: A:0.18, C:0.25, G:0.17, T:0.41 Consensus pattern (84 bp): CCGTTCAGCTCTCACGAGCTTTCGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT GTTCAACCCTTATGGGTTC Found at i:46669169 original size:16 final size:16 Alignment explanation
Indices: 46669148--46669180 Score: 66 Period size: 16 Copynumber: 2.1 Consensus size: 16 46669138 ATTAAATAAC 46669148 TAAAATAAACAAACAA 1 TAAAATAAACAAACAA 46669164 TAAAATAAACAAACAA 1 TAAAATAAACAAACAA 46669180 T 1 T 46669181 TAAACCAATC Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 17 1.00 ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15 Consensus pattern (16 bp): TAAAATAAACAAACAA Found at i:46678157 original size:26 final size:26 Alignment explanation
Indices: 46678119--46678175 Score: 64 Period size: 26 Copynumber: 2.2 Consensus size: 26 46678109 CGGCTATGGC 46678119 AACATAGAGAGTCCACC-GAGACAGTA 1 AACATAGAGAGTCCACCAG-GACAGTA * * 46678145 AACATA-AGAAGTCCGCCAGGACATTA 1 AACATAGAG-AGTCCACCAGGACAGTA 46678171 AACAT 1 AACAT 46678176 GGAACCTTAC Statistics Matches: 27, Mismatches: 2, Indels: 4 0.82 0.06 0.12 Matches are distributed among these distances: 25 2 0.07 26 24 0.89 27 1 0.04 ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14 Consensus pattern (26 bp): AACATAGAGAGTCCACCAGGACAGTA Found at i:46682260 original size:16 final size:14 Alignment explanation
Indices: 46682223--46682261 Score: 53 Period size: 13 Copynumber: 2.7 Consensus size: 14 46682213 GCGAAAAATA 46682223 AATAATAAAAAAAG 1 AATAATAAAAAAAG 46682237 AA-AATAAAAAAACG 1 AATAATAAAAAAA-G 46682251 AATAATTAAAA 1 AATAA-TAAAA 46682262 GAATGATGAA Statistics Matches: 22, Mismatches: 0, Indels: 4 0.85 0.00 0.15 Matches are distributed among these distances: 13 10 0.45 14 5 0.23 15 2 0.09 16 5 0.23 ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15 Consensus pattern (14 bp): AATAATAAAAAAAG Found at i:46683529 original size:39 final size:39 Alignment explanation
Indices: 46683464--46683551 Score: 124 Period size: 39 Copynumber: 2.3 Consensus size: 39 46683454 GTGTTGTTTG * 46683464 AAATTATA-TTTAAGTATTTAAATAAATTATATTAAGTT 1 AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT * * * * 46683502 AACTTATATTTTAAGTCTCTAAGTAAATTATGTTAAGTT 1 AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT 46683541 AAATTATATTT 1 AAATTATATTT 46683552 GAGCCTTGTA Statistics Matches: 43, Mismatches: 6, Indels: 1 0.86 0.12 0.02 Matches are distributed among these distances: 38 7 0.16 39 36 0.84 ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48 Consensus pattern (39 bp): AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT Found at i:46691882 original size:13 final size:13 Alignment explanation
Indices: 46691864--46691936 Score: 76 Period size: 13 Copynumber: 5.5 Consensus size: 13 46691854 CATAAGTATA * 46691864 TTCATATAAACAC 1 TTCATATAAACAT * 46691877 TTCATATAACCAT 1 TTCATATAAACAT * 46691890 TTCATAT-ATCTAT 1 TTCATATAAAC-AT 46691903 TTCCATATAAACAT 1 TT-CATATAAACAT ** 46691917 TTCATATATCCAT 1 TTCATATAAACAT 46691930 TTCATAT 1 TTCATAT 46691937 TACCATTTCT Statistics Matches: 51, Mismatches: 6, Indels: 6 0.81 0.10 0.10 Matches are distributed among these distances: 12 2 0.04 13 38 0.75 14 9 0.18 15 2 0.04 ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42 Consensus pattern (13 bp): TTCATATAAACAT Found at i:46691893 original size:40 final size:40 Alignment explanation
Indices: 46691849--46691933 Score: 109 Period size: 40 Copynumber: 2.1 Consensus size: 40 46691839 AAATGTCCCT * 46691849 TTTCACATAAGTATATT-CATATAAACACTTCATATAACCA 1 TTTCACATAACTAT-TTCCATATAAACACTTCATATAACCA * * * * 46691889 TTTCATATATCTATTTCCATATAAACATTTCATATATCCA 1 TTTCACATAACTATTTCCATATAAACACTTCATATAACCA 46691929 TTTCA 1 TTTCA 46691934 TATTACCATT Statistics Matches: 39, Mismatches: 5, Indels: 2 0.85 0.11 0.04 Matches are distributed among these distances: 39 2 0.05 40 37 0.95 ACGTcount: A:0.38, C:0.20, G:0.01, T:0.41 Consensus pattern (40 bp): TTTCACATAACTATTTCCATATAAACACTTCATATAACCA Found at i:46691909 original size:27 final size:26 Alignment explanation
Indices: 46691877--46691945 Score: 102 Period size: 27 Copynumber: 2.6 Consensus size: 26 46691867 ATATAAACAC * 46691877 TTCATATAACCATTTCATATATCTAT 1 TTCATATAACCATTTCATATATCCAT * 46691903 TTCCATATAAACATTTCATATATCCAT 1 TT-CATATAACCATTTCATATATCCAT * 46691930 TTCATATTACCATTTC 1 TTCATATAACCATTTC 46691946 TGTTTACTCA Statistics Matches: 38, Mismatches: 4, Indels: 2 0.86 0.09 0.05 Matches are distributed among these distances: 26 14 0.37 27 24 0.63 ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45 Consensus pattern (26 bp): TTCATATAACCATTTCATATATCCAT Found at i:46691942 original size:13 final size:13 Alignment explanation
Indices: 46691877--46691945 Score: 61 Period size: 13 Copynumber: 5.2 Consensus size: 13 46691867 ATATAAACAC * 46691877 TTCATATAACCAT 1 TTCATATTACCAT * 46691890 TTCATA-TATCTAT 1 TTCATATTA-CCAT * * 46691903 TTCCATATAAACAT 1 TT-CATATTACCAT 46691917 TTCATA-TATCCAT 1 TTCATATTA-CCAT 46691930 TTCATATTACCAT 1 TTCATATTACCAT 46691943 TTC 1 TTC 46691946 TGTTTACTCA Statistics Matches: 44, Mismatches: 7, Indels: 10 0.72 0.11 0.16 Matches are distributed among these distances: 12 2 0.05 13 31 0.70 14 10 0.23 15 1 0.02 ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45 Consensus pattern (13 bp): TTCATATTACCAT Found at i:46691945 original size:40 final size:40 Alignment explanation
Indices: 46691866--46691945 Score: 117 Period size: 40 Copynumber: 2.0 Consensus size: 40 46691856 TAAGTATATT * 46691866 CATATAAACACTTCATATAACCATTTCATATATCTATTTC 1 CATATAAACACTTCATATAACCATTTCATATATCCATTTC * * 46691906 CATATAAACATTTCATATATCCATTTCATAT-TACCATTTC 1 CATATAAACACTTCATATAACCATTTCATATAT-CCATTTC 46691946 TGTTTACTCA Statistics Matches: 36, Mismatches: 3, Indels: 2 0.88 0.07 0.05 Matches are distributed among these distances: 39 1 0.03 40 35 0.97 ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41 Consensus pattern (40 bp): CATATAAACACTTCATATAACCATTTCATATATCCATTTC Found at i:46698447 original size:51 final size:51 Alignment explanation
Indices: 46698335--46698512 Score: 164 Period size: 51 Copynumber: 3.5 Consensus size: 51 46698325 AGGTCACGTT * * * * * * * 46698335 TGTAGTGCTATGTGCAGGCTACTACGTGTATCGGAATG-ATA-GGTCGCATG 1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATGAAAATGATCACATG * *** 46698385 TGTAGTACTATGTGAAGGCTACTATGCGTACCGGAT-AGCTTCGATCACATG 1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GATCACATG * * * * * 46698436 TGTAGTACTATGTGCAGGCTATTACGTGTATCGGATGAAAATGGTCACATG 1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCACATG * 46698487 TGTAATACTATGTGCAGGCTACTATG 1 TGTAGTACTATGTGCAGGCTACTATG 46698513 TGAACTAGGT Statistics Matches: 102, Mismatches: 22, Indels: 7 0.78 0.17 0.05 Matches are distributed among these distances: 49 2 0.02 50 29 0.28 51 69 0.68 52 2 0.02 ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31 Consensus pattern (51 bp): TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCACATG Found at i:46698889 original size:19 final size:19 Alignment explanation
Indices: 46698865--46698907 Score: 86 Period size: 19 Copynumber: 2.3 Consensus size: 19 46698855 CAAAAAAATG 46698865 GTGAAAATTGAATTAGAGA 1 GTGAAAATTGAATTAGAGA 46698884 GTGAAAATTGAATTAGAGA 1 GTGAAAATTGAATTAGAGA 46698903 GTGAA 1 GTGAA 46698908 TAATATATGA Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 19 24 1.00 ACGTcount: A:0.47, C:0.00, G:0.28, T:0.26 Consensus pattern (19 bp): GTGAAAATTGAATTAGAGA Found at i:46703215 original size:51 final size:51 Alignment explanation
Indices: 46703072--46703254 Score: 165 Period size: 51 Copynumber: 3.6 Consensus size: 51 46703062 AGTTGCTAGG * * * * 46703072 TCACGTGTGTAGTGCTATGTGCATGCTACTACGTGTATCAGA-ATGATAGG 1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATGATAGA * * * * * * * * 46703122 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATA-GCTTCGA 1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATG-ATAGA * ** * 46703173 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT-GG 1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-ATGATAGA * * 46703224 TCACATGTGTAATACTATGTGCAGGCTACTA 1 TCACGTGTGTAGTACTATGTGCAGGCTACTA 46703255 TGTGAACCGG Statistics Matches: 104, Mismatches: 25, Indels: 7 0.76 0.18 0.05 Matches are distributed among these distances: 50 34 0.33 51 68 0.65 52 2 0.02 ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31 Consensus pattern (51 bp): TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATGATAGA Found at i:46703264 original size:102 final size:101 Alignment explanation
Indices: 46703072--46703264 Score: 271 Period size: 101 Copynumber: 1.9 Consensus size: 101 46703062 AGTTGCTAGG * * * * * * 46703072 TCACGTGTGTAGTGCTATGTGCATGCTACTACGTGTATCAGAATGATAGGTCGCATGTGTAGTAC 1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAATAC * * 46703137 TATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA 66 TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA * 46703173 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATC-GGATGAAAATGGTCACATGTGTAAT 1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATG-AAA-GGTCACATGTGTAAT * 46703237 ACTATGTGCAGGCTACTATGTGAACCGG 64 ACTATGTGCAGGCTACTATGCGAACCGG 46703265 GTATCATTTA Statistics Matches: 80, Mismatches: 10, Indels: 3 0.86 0.11 0.03 Matches are distributed among these distances: 100 4 0.05 101 38 0.47 102 38 0.47 ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31 Consensus pattern (101 bp): TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAATAC TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA Found at i:46708366 original size:19 final size:19 Alignment explanation
Indices: 46708313--46708377 Score: 62 Period size: 19 Copynumber: 3.4 Consensus size: 19 46708303 GAAGATTGGT * * 46708313 ACATTTTGTTCATATGGGGA 1 ACATTTTGTTGATA-AGGGA * * 46708333 CCATTTT-TAGATAAGGGA 1 ACATTTTGTTGATAAGGGA 46708351 ACATTTTGTTGATAA-GGA 1 ACATTTTGTTGATAAGGGA 46708369 CACATTTTG 1 -ACATTTTG 46708378 AGGATATTGA Statistics Matches: 37, Mismatches: 6, Indels: 5 0.77 0.12 0.10 Matches are distributed among these distances: 18 13 0.35 19 18 0.49 20 6 0.16 ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38 Consensus pattern (19 bp): ACATTTTGTTGATAAGGGA Found at i:46708383 original size:19 final size:19 Alignment explanation
Indices: 46708329--46708379 Score: 54 Period size: 18 Copynumber: 2.8 Consensus size: 19 46708319 TGTTCATATG * 46708329 GGGAC-CATTTTTAGATAA 1 GGGACACATTTTGAGATAA * 46708347 GGGA-ACATTTTGTTGATAA 1 GGGACACATTTTG-AGATAA 46708366 -GGACACATTTTGAG 1 GGGACACATTTTGAG 46708380 GATATTGAAG Statistics Matches: 27, Mismatches: 3, Indels: 6 0.75 0.08 0.17 Matches are distributed among these distances: 18 14 0.52 19 13 0.48 ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33 Consensus pattern (19 bp): GGGACACATTTTGAGATAA Found at i:46715635 original size:18 final size:19 Alignment explanation
Indices: 46715603--46715641 Score: 53 Period size: 18 Copynumber: 2.1 Consensus size: 19 46715593 ATCAAGAGAA * 46715603 TTTTTTGGTGATTTTTTTCT 1 TTTTTTGGT-ATTTTTCTCT 46715623 TTTTTTGGT-TTTTTCTCT 1 TTTTTTGGTATTTTTCTCT 46715641 T 1 T 46715642 CAAAAATTGA Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 18 9 0.50 20 9 0.50 ACGTcount: A:0.03, C:0.08, G:0.13, T:0.77 Consensus pattern (19 bp): TTTTTTGGTATTTTTCTCT Found at i:46718883 original size:15 final size:15 Alignment explanation
Indices: 46718860--46718899 Score: 62 Period size: 15 Copynumber: 2.7 Consensus size: 15 46718850 GTATATATAT * 46718860 ATAATAATAAAAATA 1 ATAAGAATAAAAATA * 46718875 ATAAGAATAAGAATA 1 ATAAGAATAAAAATA 46718890 ATAAGAATAA 1 ATAAGAATAA 46718900 CTTAATAACA Statistics Matches: 23, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 15 23 1.00 ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23 Consensus pattern (15 bp): ATAAGAATAAAAATA Found at i:46719907 original size:44 final size:44 Alignment explanation
Indices: 46719857--46719968 Score: 136 Period size: 44 Copynumber: 2.5 Consensus size: 44 46719847 GATATGCTCT * * * 46719857 CTGCAACTTTAGAGAGATAAGATCTA-TCACTTTAATCCGCTCCA 1 CTGCAACTTCAGGGAGATAAGAT-TATTCACTTTAATCCACTCCA ** ** * 46719901 CTGCAACTTCAGGGAGATTGGATTATTGGCTTTAATCTACTCCA 1 CTGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCA 46719945 CTGCAACTTCAGGGAGATAAGATT 1 CTGCAACTTCAGGGAGATAAGATT 46719969 CGCTATCTTC Statistics Matches: 57, Mismatches: 10, Indels: 2 0.83 0.14 0.03 Matches are distributed among these distances: 43 2 0.04 44 55 0.96 ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30 Consensus pattern (44 bp): CTGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCA Found at i:46720241 original size:169 final size:169 Alignment explanation
Indices: 46720043--46720666 Score: 991 Period size: 169 Copynumber: 3.7 Consensus size: 169 46720033 TGTTCTATTG * * * * * 46720043 TAATGCCAAAGAGATAGGATTCCCTGCCCACAGCTTTAATCTGCTTCTCTTCAGCTACTTCAAGT 1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT * 46720108 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGA 66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA 46720173 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA 131 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA * 46720212 TAATGCCAAAGAGATAGGATTCGCTGCCCATAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT 1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT * * * 46720277 GTTAACGCCAGGGAGATAAGATCCGCTG-CCTCCAGCTTTAATCTGCTCCGTTGCAACGCTAGGG 66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCT-CAGCTTTAATCTGCTCCGCTGCAACGCTAGGG 46720341 AAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTC- 130 AAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCAC-CA * * 46720381 TAATGCGAAAGAGATAGGATTCGCTGCCCACAGCTTTATTCCGCTCCACTTCAGCTATTTCAAGT 1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT * * 46720446 CTTAACGCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTGCAACGCTAGGGA 66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA * * * * * 46720511 AACAATATTCGCTACATTTAGCTTTAATTTGTTCCACTA 131 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA * * * 46720550 TAATGCCAAAGAGATAGGATTTGCTACCCACAGCTTTAATCCACTCCACTTCAGCTATTTCAAGT 1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT * * * 46720615 CTTAATGCCAGGGAGATAAAATTCGCTGCCCTCAGCCTTAATCTGCTCCGCT 66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCT 46720667 ATAACATCAG Statistics Matches: 418, Mismatches: 33, Indels: 8 0.91 0.07 0.02 Matches are distributed among these distances: 168 3 0.01 169 411 0.98 170 4 0.01 ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29 Consensus pattern (169 bp): TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA Found at i:46720748 original size:37 final size:37 Alignment explanation
Indices: 46720698--46720896 Score: 152 Period size: 44 Copynumber: 5.1 Consensus size: 37 46720688 TCGCAATCTT * * 46720698 CAACCTATTCCACTGTTAACCAGGGAGATAGGATTCA 1 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA * * 46720735 CAACCTATTCCACTGCTGACCAGGGAGATATGA--CT 1 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA * * * 46720770 C-ACCTATTCTATTGCTGACCAGGGAGATAGGACTTATAATA 1 CAACCTATTCCACTGCTGACCAGGGAGATAGGA--T-T--CA ** * 46720811 TTCAACCTATTCCACTATTGACCAGGGAGATAGGACTCACAATCTT 1 --CAACCTATTCCACTGCTGACCAGGGAGATAGGA-T-----TC-A * 46720857 CAACCTATTCCACTACTGACCAGGGAGATAGGATTCA 1 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA 46720894 CAA 1 CAA 46720897 TCTTCAGCCT Statistics Matches: 129, Mismatches: 18, Indels: 30 0.73 0.10 0.17 Matches are distributed among these distances: 34 28 0.22 35 2 0.02 37 33 0.26 38 2 0.02 43 3 0.02 44 59 0.46 47 2 0.02 ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25 Consensus pattern (37 bp): CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA Found at i:46720786 original size:34 final size:34 Alignment explanation
Indices: 46720700--46720803 Score: 127 Period size: 34 Copynumber: 3.0 Consensus size: 34 46720690 GCAATCTTCA * * * 46720700 ACCTATTCCACTGTTAACCAGGGAGATAGGATTCAC 1 ACCTATTCCACTGCTGACCAGGGAGATAGGA--CTC * 46720736 AACCTATTCCACTGCTGACCAGGGAGATATGACTC 1 -ACCTATTCCACTGCTGACCAGGGAGATAGGACTC * * 46720771 ACCTATTCTATTGCTGACCAGGGAGATAGGACT 1 ACCTATTCCACTGCTGACCAGGGAGATAGGACT 46720804 TATAATATTC Statistics Matches: 60, Mismatches: 7, Indels: 3 0.86 0.10 0.04 Matches are distributed among these distances: 34 30 0.50 35 2 0.03 37 28 0.47 ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25 Consensus pattern (34 bp): ACCTATTCCACTGCTGACCAGGGAGATAGGACTC Found at i:46720834 original size:44 final size:43 Alignment explanation
Indices: 46720785--46720932 Score: 208 Period size: 44 Copynumber: 3.4 Consensus size: 43 46720775 ATTCTATTGC * * 46720785 TGACCAGGGAGATAGGACTTATAATATTCAACCTATTCCACTA 1 TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA * 46720828 TTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTA 1 -TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA * 46720872 CTGACCAGGGAGATAGGA-TTCACAATCTTCAGCCTATTCCACTGA 1 -TGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACT-A * 46720917 TGTCCAGGGAGATAGG 1 TGACCAGGGAGATAGG 46720933 GCTGGGGTTA Statistics Matches: 95, Mismatches: 7, Indels: 4 0.90 0.07 0.04 Matches are distributed among these distances: 43 1 0.01 44 93 0.98 45 1 0.01 ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25 Consensus pattern (43 bp): TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA Found at i:46728766 original size:14 final size:12 Alignment explanation
Indices: 46728736--46728777 Score: 52 Period size: 12 Copynumber: 3.6 Consensus size: 12 46728726 AATGGCATAG 46728736 AAATAATATAAAC 1 AAATAA-ATAAAC 46728749 AAATAAATAAAC 1 AAATAAATAAAC * 46728761 -AA-AAATAAAA 1 AAATAAATAAAC 46728771 AAATAAA 1 AAATAAA 46728778 CAATCACAAT Statistics Matches: 26, Mismatches: 1, Indels: 5 0.81 0.03 0.16 Matches are distributed among these distances: 10 7 0.27 11 4 0.15 12 9 0.35 13 6 0.23 ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17 Consensus pattern (12 bp): AAATAAATAAAC Found at i:46729245 original size:28 final size:31 Alignment explanation
Indices: 46729213--46729270 Score: 86 Period size: 28 Copynumber: 2.0 Consensus size: 31 46729203 TTTTTTTAAA * 46729213 TGTATGTATAT-TATTATAA-AA-AATAATG 1 TGTATGTATATATATAATAATAATAATAATG 46729241 TGTATGTATATATATAATAATAATAATAAT 1 TGTATGTATATATATAATAATAATAATAAT 46729271 AATAATAACT Statistics Matches: 26, Mismatches: 1, Indels: 3 0.87 0.03 0.10 Matches are distributed among these distances: 28 11 0.42 29 7 0.27 30 2 0.08 31 6 0.23 ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43 Consensus pattern (31 bp): TGTATGTATATATATAATAATAATAATAATG Found at i:46729262 original size:3 final size:3 Alignment explanation
Indices: 46729254--46729278 Score: 50 Period size: 3 Copynumber: 8.3 Consensus size: 3 46729244 ATGTATATAT 46729254 ATA ATA ATA ATA ATA ATA ATA ATA A 1 ATA ATA ATA ATA ATA ATA ATA ATA A 46729279 CTTAATAACA Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 22 1.00 ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32 Consensus pattern (3 bp): ATA Found at i:46730708 original size:13 final size:13 Alignment explanation
Indices: 46730690--46730714 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 46730680 CAAATAAAAA 46730690 ATAAATAAATATG 1 ATAAATAAATATG 46730703 ATAAATAAATAT 1 ATAAATAAATAT 46730715 AACAATAAAT 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:0.64, C:0.00, G:0.04, T:0.32 Consensus pattern (13 bp): ATAAATAAATATG Found at i:46730753 original size:12 final size:12 Alignment explanation
Indices: 46730736--46730760 Score: 50 Period size: 12 Copynumber: 2.1 Consensus size: 12 46730726 AAAGATTGGA 46730736 AAAATAAAGAAG 1 AAAATAAAGAAG 46730748 AAAATAAAGAAG 1 AAAATAAAGAAG 46730760 A 1 A 46730761 TATATGGAAA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 13 1.00 ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08 Consensus pattern (12 bp): AAAATAAAGAAG Found at i:46735533 original size:21 final size:21 Alignment explanation
Indices: 46735507--46735546 Score: 55 Period size: 21 Copynumber: 1.9 Consensus size: 21 46735497 ATGTATAATT * 46735507 TATTT-AGATATTTTTAATATA 1 TATTTAAGA-ATTTTAAATATA 46735528 TATTTAAGAATTTTAAATA 1 TATTTAAGAATTTTAAATA 46735547 AAATATATTT Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 21 14 0.82 22 3 0.18 ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53 Consensus pattern (21 bp): TATTTAAGAATTTTAAATATA Found at i:46736213 original size:23 final size:23 Alignment explanation
Indices: 46736183--46736227 Score: 90 Period size: 23 Copynumber: 2.0 Consensus size: 23 46736173 AAACGCTATT 46736183 AAAATAAAATTTTAAAAAATGAG 1 AAAATAAAATTTTAAAAAATGAG 46736206 AAAATAAAATTTTAAAAAATGA 1 AAAATAAAATTTTAAAAAATGA 46736228 CACTTACTTT Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 23 22 1.00 ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27 Consensus pattern (23 bp): AAAATAAAATTTTAAAAAATGAG Found at i:46747171 original size:14 final size:13 Alignment explanation
Indices: 46747152--46747194 Score: 52 Period size: 14 Copynumber: 3.2 Consensus size: 13 46747142 TTCAAAAAAT 46747152 ATATATAATATATA 1 ATATATAATAT-TA 46747166 ATATATAACTATTA 1 ATATATAA-TATTA * 46747180 ATAGA-AATATTA 1 ATATATAATATTA 46747192 ATA 1 ATA 46747195 CGTATATAAC Statistics Matches: 27, Mismatches: 1, Indels: 4 0.84 0.03 0.12 Matches are distributed among these distances: 12 8 0.30 13 2 0.07 14 14 0.52 15 3 0.11 ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40 Consensus pattern (13 bp): ATATATAATATTA Found at i:46750492 original size:16 final size:17 Alignment explanation
Indices: 46750471--46750504 Score: 52 Period size: 17 Copynumber: 2.1 Consensus size: 17 46750461 ACATAATTAT * 46750471 TAGTAA-AAGGTTAATA 1 TAGTAATAAGGTAAATA 46750487 TAGTAATAAGGTAAATA 1 TAGTAATAAGGTAAATA 46750504 T 1 T 46750505 TAAATTTATA Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 16 6 0.38 17 10 0.62 ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32 Consensus pattern (17 bp): TAGTAATAAGGTAAATA Found at i:46756340 original size:10 final size:10 Alignment explanation
Indices: 46756312--46756347 Score: 56 Period size: 10 Copynumber: 3.7 Consensus size: 10 46756302 TTACAAAACT 46756312 AATACAAAAA 1 AATACAAAAA 46756322 AATA-AAAAA 1 AATACAAAAA * 46756331 AATACCAAAA 1 AATACAAAAA 46756341 AATACAA 1 AATACAA 46756348 GCATTTTATT Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 9 9 0.39 10 14 0.61 ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11 Consensus pattern (10 bp): AATACAAAAA Found at i:46756456 original size:27 final size:27 Alignment explanation
Indices: 46756393--46756462 Score: 77 Period size: 27 Copynumber: 2.6 Consensus size: 27 46756383 GTGGAGGGAC * * * 46756393 TGCCACAAGTGGCACCAAAGGTGCTAG 1 TGCCACAGGCGGCACCAAAGGTGCCAG ** * * 46756420 TGGTAGAGGCGGCACCAAAGGTGCCAT 1 TGCCACAGGCGGCACCAAAGGTGCCAG 46756447 TGCCACAGGCGGCACC 1 TGCCACAGGCGGCACC 46756463 GCCCCCCTTA Statistics Matches: 33, Mismatches: 10, Indels: 0 0.77 0.23 0.00 Matches are distributed among these distances: 27 33 1.00 ACGTcount: A:0.26, C:0.29, G:0.33, T:0.13 Consensus pattern (27 bp): TGCCACAGGCGGCACCAAAGGTGCCAG Found at i:46756932 original size:30 final size:30 Alignment explanation
Indices: 46756893--46757027 Score: 157 Period size: 30 Copynumber: 4.4 Consensus size: 30 46756883 AAATTAAATA 46756893 AAATAATAAAACATAGAATGTACATAACAT 1 AAATAATAAAACATAGAATGTACATAACAT * * * 46756923 AAATGATAAAACATA-AATAATAACATAAATAAT 1 AAATAATAAAACATAGAAT-GT-ACAT-AA-CAT * * 46756956 AAAATAATAAGACATAGTATGTACATAACAT 1 -AAATAATAAAACATAGAATGTACATAACAT 46756987 AAATAATAAAACATAGAATGTACATAACAT 1 AAATAATAAAACATAGAATGTACATAACAT 46757017 AAA-AATTAAAA 1 AAATAA-TAAAA 46757028 TCAAAACCAA Statistics Matches: 88, Mismatches: 10, Indels: 14 0.79 0.09 0.12 Matches are distributed among these distances: 29 5 0.06 30 51 0.58 31 6 0.07 32 4 0.05 33 6 0.07 34 14 0.16 35 2 0.02 ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24 Consensus pattern (30 bp): AAATAATAAAACATAGAATGTACATAACAT Found at i:46756947 original size:12 final size:12 Alignment explanation
Indices: 46756916--46756962 Score: 58 Period size: 12 Copynumber: 3.8 Consensus size: 12 46756906 TAGAATGTAC 46756916 ATAACATAAATGA 1 ATAACATAAAT-A * 46756929 TAAAACATAAATA 1 -ATAACATAAATA 46756942 ATAACATAAATA 1 ATAACATAAATA * 46756954 ATAAAATAA 1 ATAACATAA 46756963 TAAGACATAG Statistics Matches: 30, Mismatches: 3, Indels: 2 0.86 0.09 0.06 Matches are distributed among these distances: 12 19 0.63 13 1 0.03 14 10 0.33 ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23 Consensus pattern (12 bp): ATAACATAAATA Done.