Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: scaffold_19 ID=scaffold_19-JGI_221_v2.0 Parameters: 2 7 7 80 10 50 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 140400 ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31 Warning! 11929 characters in sequence are not A, C, G, or T Found at i:2954 original size:236 final size:236 Alignment explanation
Indices: 2538--3011 Score: 921 Period size: 236 Copynumber: 2.0 Consensus size: 236 2528 CTGATTTGAA 2538 ATCCACATATGTTTGTGATGGTGATTATGGAATAAAGAATCAATAGAGACGTCTAGAAGTCTATC 1 ATCCACATATGTTTGTGATGGTGATTATGGAATAAAGAATCAATAGAGACGTCTAGAAGTCTATC 2603 CTACTAGATTTGTTGCATTCTCCGAAGTGAATGCAAATATAAAGAAAATAAAATATATAATCATG 66 CTACTAGATTTGTTGCATTCTCCGAAGTGAATGCAAATATAAAGAAAATAAAATATATAATCATG * 2668 GACCACTAAAAGTGAGAACATAATAATAAAAAAGAGAATAATGGGAGTTCTTAATATAACTCTTC 131 GACCACTAAAAGTGAGAACATAATAATAAAAAAGAGAATAATGAGAGTTCTTAATATAACTCTTC 2733 AAAGAGTAAATATAACATATGTTACCAATGCGATATGAAAG 196 AAAGAGTAAATATAACATATGTTACCAATGCGATATGAAAG 2774 ATCCACATATGTTTGTGATGGTGATTATGGAATAAAGAATCAATAGAGACGTCTAGAAGTCTATC 1 ATCCACATATGTTTGTGATGGTGATTATGGAATAAAGAATCAATAGAGACGTCTAGAAGTCTATC 2839 CTACTAGATTTGTTGCATTCTCCGAAGTGAATGCAAATATAAAGAAAATAAAATATATAATCATG 66 CTACTAGATTTGTTGCATTCTCCGAAGTGAATGCAAATATAAAGAAAATAAAATATATAATCATG * 2904 GACCACTAAAAGTGAGAACATAATAATAAATAAGAGAATAATGAGAGTTCTTAATATAACTCTTC 131 GACCACTAAAAGTGAGAACATAATAATAAAAAAGAGAATAATGAGAGTTCTTAATATAACTCTTC * 2969 AAAGAGTAAATATAACTTATGTTACCAATGCGATATGAAAG 196 AAAGAGTAAATATAACATATGTTACCAATGCGATATGAAAG 3010 AT 1 AT 3012 TATTGGCCAC Statistics Matches: 235, Mismatches: 3, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 236 235 1.00 ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28 Consensus pattern (236 bp): ATCCACATATGTTTGTGATGGTGATTATGGAATAAAGAATCAATAGAGACGTCTAGAAGTCTATC CTACTAGATTTGTTGCATTCTCCGAAGTGAATGCAAATATAAAGAAAATAAAATATATAATCATG GACCACTAAAAGTGAGAACATAATAATAAAAAAGAGAATAATGAGAGTTCTTAATATAACTCTTC AAAGAGTAAATATAACATATGTTACCAATGCGATATGAAAG Found at i:5603 original size:3 final size:3 Alignment explanation
Indices: 5595--5644 Score: 100 Period size: 3 Copynumber: 16.7 Consensus size: 3 5585 TGACCAGGGT 5595 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG 1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG 5643 AA 1 AA 5645 AAGTTACATA Statistics Matches: 47, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 47 1.00 ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00 Consensus pattern (3 bp): AAG Found at i:20112 original size:22 final size:22 Alignment explanation
Indices: 20087--20129 Score: 68 Period size: 22 Copynumber: 2.0 Consensus size: 22 20077 ATCGATATTA * 20087 TAATATTTTAATTATTTATTTT 1 TAATATTTTAATAATTTATTTT * 20109 TAATTTTTTAATAATTTATTT 1 TAATATTTTAATAATTTATTT 20130 ACTTTAAATG Statistics Matches: 19, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 22 19 1.00 ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67 Consensus pattern (22 bp): TAATATTTTAATAATTTATTTT Found at i:20666 original size:14 final size:15 Alignment explanation
Indices: 20629--20682 Score: 53 Period size: 14 Copynumber: 3.9 Consensus size: 15 20619 CAATATACCG * 20629 TAAACCT-TAACCA- 1 TAAACCTATAAACAT * * 20642 TAAATCT-TAAACTT 1 TAAACCTATAAACAT 20656 TAAA-CTATAAACAT 1 TAAACCTATAAACAT 20670 TAAACCTATAAAC 1 TAAACCTATAAAC 20683 CACAAACAAC Statistics Matches: 34, Mismatches: 4, Indels: 4 0.81 0.10 0.10 Matches are distributed among these distances: 13 12 0.35 14 14 0.41 15 8 0.24 ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30 Consensus pattern (15 bp): TAAACCTATAAACAT Found at i:21448 original size:113 final size:112 Alignment explanation
Indices: 21213--21465 Score: 273 Period size: 113 Copynumber: 2.2 Consensus size: 112 21203 TTTTTTAGAA * * * 21213 AAGCACCGCTAATGGCACTATAGCTCAAGATTAAACGATGCGTTTTGGTTAACATTTTGCTGCGT 1 AAGCACCGCTAATGCCACTATAGCTCAAGATCAAACGATGCGTTTTAGTTAACATTTTGCTGCGT * * 21278 TTATAATTAAGCGTCGTTAATACCGATCTTTAGCGGCATTTTCAAGTT 66 TTATAATGAAGCGCCGTTAATACCGATCTTTAGCGGCATTTT-AAGTT * * * * * * 21326 -AGCGCCGCTAACGCCAGTATAGCTCAAGATCGAACGCTGCGTTTTAGTTAACATTTT-TTCGAC 1 AAGCACCGCTAATGCCACTATAGCTCAAGATCAAACGATGCGTTTTAGTTAACATTTTGCT-G-C ** * * 21389 GTTT-TTCTAGAAGCGCCGTTAATACCGAT-TTATAGCGGCGTTTT-TGTTT 64 GTTTATAAT-GAAGCGCCGTTAATACCGATCTT-TAGCGGCATTTTAAG-TT * 21438 AAGCACCGCTAATGCTACTATAGCTCAA 1 AAGCACCGCTAATGCCACTATAGCTCAA 21466 CAAGGAAAAG Statistics Matches: 115, Mismatches: 19, Indels: 12 0.79 0.13 0.08 Matches are distributed among these distances: 111 2 0.02 112 56 0.49 113 57 0.50 ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33 Consensus pattern (112 bp): AAGCACCGCTAATGCCACTATAGCTCAAGATCAAACGATGCGTTTTAGTTAACATTTTGCTGCGT TTATAATGAAGCGCCGTTAATACCGATCTTTAGCGGCATTTTAAGTT Found at i:24372 original size:2 final size:2 Alignment explanation
Indices: 24365--24403 Score: 78 Period size: 2 Copynumber: 19.5 Consensus size: 2 24355 TACAACTTTA 24365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 24404 AACATGAATG Statistics Matches: 37, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 37 1.00 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (2 bp): AT Found at i:28663 original size:19 final size:19 Alignment explanation
Indices: 28635--28673 Score: 69 Period size: 19 Copynumber: 2.1 Consensus size: 19 28625 AAAAGTATGT 28635 ATATAAGTATATATATATA 1 ATATAAGTATATATATATA * 28654 ATATACGTATATATATATA 1 ATATAAGTATATATATATA 28673 A 1 A 28674 AAGCAATAAT 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:0.51, C:0.03, G:0.05, T:0.41 Consensus pattern (19 bp): ATATAAGTATATATATATA Found at i:30294 original size:132 final size:131 Alignment explanation
Indices: 30101--30488 Score: 555 Period size: 132 Copynumber: 2.9 Consensus size: 131 30091 GGTTTGTGGT * * * * 30101 TTAAATTTACTTC-CCTACTACCTTAGGAAGATAAGATTCACCATCTTTGATCTGTTCCACTACT 1 TTAAATCTACTTCTCC-ACTATCTTAGGAAGATAAGATTCA-CATCTTCGATCTGCTCCACTACT * * * * * * 30165 GCTTAGGGAGACAGAATTTGCAATCTTCAACCTACTCCATTGCTGCTCAGAGAGATAGGGCTAAT 64 GCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAAT 30230 GGC 129 GGC * 30233 TTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCACGACCTTCGATCTGCTCCACTACTG 1 TTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCAC-ATCTTCGATCTGCTCCACTACTG * 30298 CTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACCACTGCTTAGGGAGATAGGACTAATG 65 CTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATG 30363 GC 130 GC * * * 30365 TTAAATCTGCTTCTCCACTATCTT-GAGAAGATAAAATTCATCATCTTCGATCGGCTCCACTACT 1 TTAAATCTACTTCTCCACTATCTTAG-GAAGATAAGATTCA-CATCTTCGATCTGCTCCACTACT * * * 30429 ACTTAGGGTGACAGAATCTGCAATCTTCAACCTATTCCACTACTGCTTAGGGAGATAGGA 64 GCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGA 30489 TCTGCAATCT Statistics Matches: 232, Mismatches: 20, Indels: 8 0.89 0.08 0.03 Matches are distributed among these distances: 131 2 0.01 132 227 0.98 133 3 0.01 ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30 Consensus pattern (131 bp): TTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCACATCTTCGATCTGCTCCACTACTGC TTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGG C Found at i:30494 original size:176 final size:176 Alignment explanation
Indices: 30287--30661 Score: 590 Period size: 176 Copynumber: 2.1 Consensus size: 176 30277 CTTCGATCTG * 30287 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACCACTGCTTAGGGAGA 1 CTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTCAACCTACTCCACCACTGCTTAGGGAGA * * * * 30352 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT-GAGAAGATAAAATTCATCATCTTCGAT 66 TAGGACTAACGACTTAAATCTGATTCTCCACTATCTTAG-GAAGATAAAATTCACCATCTTCGAT * * 30416 CGGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTA 130 CGGCTCCACTACTACTTAGGGAGACAGAATCTACAATCTTCAACCTA * * * * 30463 TTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTTAACCTACTCCACTACTGCTTAGGGAGA 1 CTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTCAACCTACTCCACCACTGCTTAGGGAGA * * 30528 TAGGACTAACGACTTAAATCTGATTCTCCATTATCTTAGGAAGATAAGATTCACCATCTTCGATC 66 TAGGACTAACGACTTAAATCTGATTCTCCACTATCTTAGGAAGATAAAATTCACCATCTTCGATC * * * 30593 TGTTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTA 131 GGCTCCACTACTACTTAGGGAGACAGAATCTACAATCTTCAACCTA 30639 CTCCACTACTGCTTAGGGAGATA 1 CTCCACTACTGCTTAGGGAGATA 30662 AGACTAATGG Statistics Matches: 181, Mismatches: 17, Indels: 2 0.90 0.09 0.01 Matches are distributed among these distances: 176 180 0.99 177 1 0.01 ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29 Consensus pattern (176 bp): CTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTCAACCTACTCCACCACTGCTTAGGGAGA TAGGACTAACGACTTAAATCTGATTCTCCACTATCTTAGGAAGATAAAATTCACCATCTTCGATC GGCTCCACTACTACTTAGGGAGACAGAATCTACAATCTTCAACCTA Found at i:30529 original size:132 final size:131 Alignment explanation
Indices: 30122--31447 Score: 512 Period size: 132 Copynumber: 10.0 Consensus size: 131 30112 TCCCTACTAC * * * * * 30122 CTTAGGAAGATAAGATTCACCATCTTTGATCTGTTCCACTACTGCTTAGGGAGACAGAATTTGCA 1 CTTAGGAAGATAAGATTCATCATCTTAGATCTGCTCCACTACTACTTAGGGAGACAGAATCTGCA * * * * * * 30187 ATCTTCAACCTACTCCATTGCTGCTCAGAGAGATAGG-GCT-AATGGCTTAAATCTACTTCTCCA 66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTCAAT--CTTAAA-C--CTACTCCA 30250 CTA-T- 126 CTACTG * * * 30254 CTTAGGAAGATAAGATTCA-CGACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGC 1 CTTAGGAAGATAAGATTCATC-ATCTTAGATCTGCTCCACTACTACTTAGGGAGACAGAATCTGC * * 30318 AATCTTCAACCTACTCCACCACTGCTTAGGGAGATAGGA-CT-AATGGCTTAAATCTGCTTCTCC 65 AATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTCAAT--CTTAAA-C--CTACTCC 30381 ACTA-T- 125 ACTACTG * * * * 30386 CTT-GAGAAGATAAAATTCATCATCTTCGATCGGCTCCACTACTACTTAGGGTGACAGAATCTGC 1 CTTAG-GAAGATAAGATTCATCATCTTAGATCTGCTCCACTACTACTTAGGGAGACAGAATCTGC * * 30450 AATCTTCAACCTATTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTTAACCTACTCCACTA 65 AATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAATCTTAAACCTACTCCACTA 30515 CTG 129 CTG * * * * * * * * * 30518 CTTAGGGAGATAGGACT-AACGA-CTTAAATCTGATTCTCCATTA-T-CTTAGGAAGATAAGATT 1 CTTAGGAAGATAAGATTCATC-ATCTTAGATCTG---CTCCACTACTACTTAGGGAGA-CAGAAT * * * * ** * * * 30579 C-ACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCC 61 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAATCTTAAACCTACTCC 30643 ACTACTG 125 ACTACTG * * * ** * * * * 30650 CTTAGGGAGATAAGACTAAT-GGCTTAAATCTGCTTCC-CCACTATCTT-GGGAAGATAAGATTC 1 CTTAGGAAGATAAGATTCATCATCTTAGATCTGC-TCCACTACTA-CTTAGGG-AGA-CAGAATC * * * * * * * * 30712 -ACCATCTTCGATCTACTCCACTACTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTACTTCA 62 TGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAATCTTAAACCTACTCCA 30776 CTACTG 126 CTACTG * * * * ** * * * * * * 30782 CTTAGGGAGATAGGACT-AACGGCTTAAATCTGCTTCTCCACTATCTT-GGGAAGATAAGATTC- 1 CTTAGGAAGATAAGATTCATCATCTTAGATCTGCTCCACTACTA-CTTAGGG-AGA-CAGAATCT * * ** * * * * * * ** 30844 ACCATCTTTGATCTGCTCCACTACTGCTTAGGG-GAACAGAATATACAATATTCGACCTACTCCA 63 GCAATCTTCAACCTACTCCACTACTGCTTAGGGAG-ATAGGATCT-CAATCTTAAACCTACTCCA 30908 CTACTG 126 CTACTG * * * * ** * * * * * * * * 30914 CTTAGGGAGATAGGACTAAT-GGCTTAAATTTGCTTCACCACTATCTTAGGAAGATAAGATTC-A 1 CTTAGGAAGATAAGATTCATCATCTTAGATCTGCTCCACTACTA-CTTAGGGAGA-CAGAATCTG * * * * * * * * ** * 30977 CCATCTTCGATCTGCTCCACTACTGCTTAGGGGGACAGAATATGCAATCTTCGACCTACTCTACT 64 CAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAATCTTAAACCTACTCCACT 31042 ACTG 128 ACTG * * * * ** * * * * * * 31046 CTTAGGGAGATAGGACTAAT-GGCTTAAATCTGCTTCTCCACTATCTT-GGGAAGATAAGATTC- 1 CTTAGGAAGATAAGATTCATCATCTTAGATCTGCTCCACTACTA-CTTAGGG-AGA-CAGAATCT * * * * * * * * * * 31108 ACCACCTTCGATCTGCTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTTAACCTACTCCAC 63 GCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAATCTTAAACCTACTCCAC 31173 TACTG 127 TACTG * * * * * * * * * 31178 CTTAGGGAGATAGGACT-AACGA-CTTAAATCTGATTCTCCATTA-T-CTTAGGAAGATAAGATT 1 CTTAGGAAGATAAGATTCATC-ATCTTAGATCTG---CTCCACTACTACTTAGGGAGA-CAGAAT * * * * ** * * * 31239 C-ACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCC 61 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAATCTTAAACCTACTCC 31303 ACTACTG 125 ACTACTG * * * ** * * * * 31310 CTTAGGGAGATAAGACTAAT-GGCTTAAATCTGCTTCC-CCACTATCTT-GGGAAGATAAGATTC 1 CTTAGGAAGATAAGATTCATCATCTTAGATCTGC-TCCACTACTA-CTTAGGG-AGA-CAGAATC * * * * * * * 31372 -ACCATCTTCGATCTACTCCACTACTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTACTCCA 62 TGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAATCTTAAACCTACTCCA 31436 CTACTG 126 CTACTG 31442 CTTAGG 1 CTTAGG 31448 GNNNNNNNNN Statistics Matches: 1049, Mismatches: 103, Indels: 84 0.85 0.08 0.07 Matches are distributed among these distances: 129 4 0.00 130 18 0.02 131 23 0.02 132 966 0.92 133 23 0.02 134 8 0.01 135 7 0.01 ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29 Consensus pattern (131 bp): CTTAGGAAGATAAGATTCATCATCTTAGATCTGCTCCACTACTACTTAGGGAGACAGAATCTGCA ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTCAATCTTAAACCTACTCCACTACT G Found at i:30720 original size:308 final size:309 Alignment explanation
Indices: 30155--30796 Score: 1020 Period size: 308 Copynumber: 2.1 Consensus size: 309 30145 CTTTGATCTG * * * * * 30155 TTCCACTACTGCTTAGGGAGACAGAATTTGCAATCTTCAACCTACTCCATTGCTGCTCAGAGAGA 1 TTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTCAGAGAGA * * * * 30220 TAGGGCTAATGGCTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCACGACCTTCGATC 66 TAGGACTAACGACTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCACCACCTTCGATC * 30285 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACCACTGCTTAGGGA 131 TGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACCACTGCTTAGGGA * * * 30350 GATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAAATTCATCATCTTCGA 196 GATAAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGAGAAGATAAAATTCACCATCTTCGA * 30415 TCGGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTA- 261 TCGACTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTAC * * * 30463 TTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTTAACCTACTCCACTACTGCTTAGGGAGA 1 TTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTCAGAGAGA * * 30528 TAGGACTAACGACTTAAATCTGA-TTCTCCATTATCTTAGGAAGATAAGATTCACCATCTTCGAT 66 TAGGACTAACGACTTAAATCT-ACTTCTCCACTATCTTAGGAAGATAAGATTCACCACCTTCGAT * * 30592 CTGTTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTAGGG 130 CTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACCACTGCTTAGGG * * 30657 AGATAAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGGGAAGATAAGATTCACCATCTTCG 195 AGATAAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGAGAAGATAAAATTCACCATCTTCG * * * 30722 ATCTACTCCACTACTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTAC 260 ATCGACTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTAC 30772 TT-CACTACTGCTTAGGGAGATAGGA 1 TTCCACTACTGCTTAGGGAGATAGGA 30797 CTAACGGCTT Statistics Matches: 306, Mismatches: 26, Indels: 4 0.91 0.08 0.01 Matches are distributed among these distances: 308 303 0.99 309 3 0.01 ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29 Consensus pattern (309 bp): TTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTCAGAGAGA TAGGACTAACGACTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCACCACCTTCGATC TGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACCACTGCTTAGGGA GATAAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGAGAAGATAAAATTCACCATCTTCGA TCGACTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTAC Found at i:30910 original size:308 final size:305 Alignment explanation
Indices: 30155--30923 Score: 892 Period size: 308 Copynumber: 2.5 Consensus size: 305 30145 CTTTGATCTG * * * * * * * * * 30155 TTCCACTACTGCTTAGGGAGACAGAATTTGCAATCTTCAACCTACTCCATTGCTGCTCAGAGAGA 1 TTCCACTACTGCTTAGGGAGATAGGATCT-CAAGCTTAAACCTACTCCACTACTGCTTAGGGAGA * * *** * * ** 30220 TAGGGCTAATGGCTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCACGACCTTCGATC 65 TAAGACTAACCACTTAAATCT--GTCTCCACTATCTTAGGAAGATAAGATTCACAATATTCGATC * 30285 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACCACTGCTTAGGGA 128 TGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACCACTGCTTAGGGA * * * 30350 GATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAAATTCATCATCTTCGA 193 GATAAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGAGAAGATAAAATTCACCATCTTCGA * 30415 TCGGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTA 258 TCGACTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTA * * 30463 TTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTTAACCTACTCCACTACTGCTTAGGGAGA 1 TTCCACTACTGCTTAGGGAGATAGGATCT-CAAGCTTAAACCTACTCCACTACTGCTTAGGGAGA * * * * * 30528 TAGGACTAACGACTTAAATCTGATTCTCCATTATCTTAGGAAGATAAGATTCACCATCTTCGATC 65 TAAGACTAACCACTTAAATCTG--TCTCCACTATCTTAGGAAGATAAGATTCACAATATTCGATC * * 30593 TGTTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGA 128 TGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACCACTGCTTAGGGA * * 30658 GATAAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGGGAAGATAAGATTCACCATCTTCGA 193 GATAAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGAGAAGATAAAATTCACCATCTTCGA * * * 30723 TCTACTCCACTACTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTA 258 TCGACTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTA * 30771 CTT-CACTACTGCTTAGGGAGATAGGA-CT-AACGGCTTAAATCTGCTTCTCCACTA-T-CTT-G 1 -TTCCACTACTGCTTAGGGAGATAGGATCTCAA--GCTTAAA-C--CTACTCCACTACTGCTTAG * * ** * 30830 GGAAGATAAGATTCACCATCTTTGATCTG-CTCCACTACTGCTTAGG-GGA-ACAGAATAT-ACA 60 GG-AGATAAGACTAACCA-CTTAAATCTGTCTCCACTA-T-CTTAGGAAGATA-AG-AT-TCACA * * 30891 ATATTCGACCTACTCCACTACTGCTTAGGGAGA 118 ATATTCGATCTGCTCCACTACTGCTTAGGGAGA 30924 TAGGACTAAT Statistics Matches: 403, Mismatches: 43, Indels: 30 0.85 0.09 0.06 Matches are distributed among these distances: 305 2 0.00 306 8 0.02 307 15 0.04 308 356 0.88 309 12 0.03 310 10 0.02 ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29 Consensus pattern (305 bp): TTCCACTACTGCTTAGGGAGATAGGATCTCAAGCTTAAACCTACTCCACTACTGCTTAGGGAGAT AAGACTAACCACTTAAATCTGTCTCCACTATCTTAGGAAGATAAGATTCACAATATTCGATCTGC TCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACCACTGCTTAGGGAGAT AAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGAGAAGATAAAATTCACCATCTTCGATCG ACTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTA Found at i:31379 original size:88 final size:89 Alignment explanation
Indices: 30287--31448 Score: 430 Period size: 88 Copynumber: 13.2 Consensus size: 89 30277 CTTCGATCTG * * * * * * * 30287 CTCCACTACTGCTTAGGGAGA-CAGAATCTGCAATCTTCAACCTACTCCACCACTGCTTAGGGAG 1 CTCCACTACTGCTTAGGGAGATAAGATTC-ACCATCTTCGATCTACTCCACTACTGCTTAGGGAG * 30351 ATAGGACT-AATGGCTTAAATCTGCTT 65 ATAAGACTCAAT--CTTAAATCTGCTT * * * ** * * 30377 CTCCACTA-T-CTT-GAGAAGATAAAATTCATCATCTTCGATCGGCTCCACTACTACTTAGGGTG 1 CTCCACTACTGCTTAG-GGAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAG * * 30439 A-CAGAATCTGCAATCTTCAA-C--CTAT 65 ATAAG-A-CT-CAATCTTAAATCTGCT-T * ** * 30464 -TCCACTACTGCTTAGGGAGATAGGATCTGCA--ATCTTTAACCTACTCCACTACTGCTTAGGGA 1 CTCCACTACTGCTTAGGGAGATAAGAT-T-CACCATCTTCGATCTACTCCACTACTGCTTAGGGA * * * 30526 GATAGGACT-AACGACTTAAATCTGATT 64 GATAAGACTCAA--TCTTAAATCTGCTT * * ** 30553 CTCCATTA-T-CTTAGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGA 1 CTCCACTACTGCTTAGGGAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGA * * * 30616 -CAGAATCTACAATCTTCAA-C--CTA 66 TAAG-A-CT-CAATCTTAAATCTGCTT * ** * 30639 CTCCACTACTGCTTAGGGAGATAAGACT-A--ATGGCTTAAATCTGCTTCCCCACTA-T-CTT-G 1 CTCCACTACTGCTTAGGGAGATAAGATTCACCAT--CTTCGATCTAC-T--CCACTACTGCTTAG * ** * 30698 GGAAGATAAGATTCACCATCTTCGA--T-CTA 61 GG-AGATAAGACTCA--ATCTTAAATCTGCTT * * * * * * * 30727 CTCCACTACTGCTTAGGGTGAT-AGAATCTGCAATCTTCAACCTACTTCACTACTGCTTAGGGAG 1 CTCCACTACTGCTTAGGGAGATAAGATTC-ACCATCTTCGATCTACTCCACTACTGCTTAGGGAG * * 30791 ATAGGACT-AACGGCTTAAATCTGCTT 65 ATAAGACTCAA--TCTTAAATCTGCTT * * 30817 CTCCACTA-T-CTT-GGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGG-G 1 CTCCACTACTGCTTAGGG-AGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAG * * ** * 30878 A-ACAGAATATACAATATTCGA-C--CTA 65 ATA-AG-A-CT-CAATCTTAAATCTGCTT * * ** * * * * * * 30903 CTCCACTACTGCTTAGGGAGATAGGACT-A--ATGGCTTAAATTTGCTTCACCACTATCTTAGGA 1 CTCCACTACTGCTTAGGGAGATAAGATTCACCAT--CTTCGATCTACTCCACTACT-GCTTAGGG * ** 30965 AGATAAGATTCACCATCTTCGATCTG--- 63 AGATAAGACTCA--ATCTTAAATCTGCTT * * * * 30991 CTCCACTACTGCTTAGGGGGA-CAGAATATGCA--ATCTTCGACCTACTCTACTACTGCTTAGGG 1 CTCCACTACTGCTTAGGGAGATAAG-AT-T-CACCATCTTCGATCTACTCCACTACTGCTTAGGG * 31053 AGATAGGACT-AATGGCTTAAATCTGCTT 63 AGATAAGACTCAAT--CTTAAATCTGCTT * * * 31081 CTCCACTA-T-CTT-GGGAAGATAAGATTCACCACCTTCGATCTGCTCCACTACTGCTTAGGGGG 1 CTCCACTACTGCTTAGGG-AGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAG * * * 31143 A-CAGAATCTGCAATCTTTAA-C--CTA 65 ATAAG-A-CT-CAATCTTAAATCTGCTT * * * * ** * * 31167 CTCCACTACTGCTTAGGGAGATAGGACTAACGA-CTTAAATCTGATTCTCCATTA-T-CTTAGGA 1 CTCCACTACTGCTTAGGGAGATAAGATTCACCATCTTCGATCT-A--CTCCACTACTGCTTAGGG * ** 31229 AGATAAGATTCACCATCTTCGATCTG--T 63 AGATAAGACTCA--ATCTTAAATCTGCTT * * * * * 31256 -TCCACTACTGCTTAGGGAGA-CAGAATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAG 1 CTCCACTACTGCTTAGGGAGATAAGATTC-ACCATCTTCGATCTACTCCACTACTGCTTAGGGAG 31319 ATAAGACT-AATGGCTTAAATCTGCTT 65 ATAAGACTCAAT--CTTAAATCTGCTT * * 31345 CCCCACTA-T-CTT-GGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGTG 1 CTCCACTACTGCTTAGGG-AGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAG * * 31407 AT-AGAATCTGCAATCTTCAA-C--CTA 65 ATAAG-A-CT-CAATCTTAAATCTGCTT 31431 CTCCACTACTGCTTAGGG 1 CTCCACTACTGCTTAGGG 31449 NNNNNNNNNN Statistics Matches: 795, Mismatches: 161, Indels: 233 0.67 0.14 0.20 Matches are distributed among these distances: 85 11 0.01 86 69 0.09 87 104 0.13 88 427 0.54 89 111 0.14 90 55 0.07 91 18 0.02 ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29 Consensus pattern (89 bp): CTCCACTACTGCTTAGGGAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGA TAAGACTCAATCTTAAATCTGCTT Found at i:31448 original size:132 final size:132 Alignment explanation
Indices: 30464--31448 Score: 1558 Period size: 132 Copynumber: 7.5 Consensus size: 132 30454 TTCAACCTAT * * * 30464 TCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTTAACCTACTCCACTACTGCTTAGGGAGAT 1 TCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT * * * * * 30529 AGGACTAACGACTTAAATCTGATTCTCCATTATCTTAGGAAGATAAGATTCACCATCTTCGATCT 66 AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT * 30594 GT 131 GC * 30596 TCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT 1 TCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT * * 30661 AAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT 66 AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT * 30726 AC 131 GC * * * 30728 TCCACTACTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTACTTCACTACTGCTTAGGGAGAT 1 TCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT * * 30793 AGGACTAACGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTTGATCT 66 AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT 30858 GC 131 GC * * * * 30860 TCCACTACTGCTTAGGG-GAACAGAATATACAATATTCGACCTACTCCACTACTGCTTAGGGAGA 1 TCCACTACTGCTTAGGGAG-ACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA * * * 30924 TAGGACTAATGGCTTAAATTTGCTTCACCACTATCTTAGGAAGATAAGATTCACCATCTTCGATC 65 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC 30989 TGC 130 TGC * * * * 30992 TCCACTACTGCTTAGGGGGACAGAATATGCAATCTTCGACCTACTCTACTACTGCTTAGGGAGAT 1 TCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT * 31057 AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCACCTTCGATCT 66 AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT 31122 GC 131 GC * * 31124 TCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTAGGGAGAT 1 TCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT * * * * * 31189 AGGACTAACGACTTAAATCTGATTCTCCATTATCTTAGGAAGATAAGATTCACCATCTTCGATCT 66 AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT * 31254 GT 131 GC * 31256 TCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT 1 TCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT * * 31321 AAGACTAATGGCTTAAATCTGCTTCCCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT 66 AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT * 31386 AC 131 GC * * 31388 TCCACTACTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGG 1 TCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGG 31449 NNNNNNNNNN Statistics Matches: 785, Mismatches: 66, Indels: 4 0.92 0.08 0.00 Matches are distributed among these distances: 131 1 0.00 132 783 1.00 133 1 0.00 ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29 Consensus pattern (132 bp): TCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCT GC Found at i:31752 original size:44 final size:44 Alignment explanation
Indices: 31569--31753 Score: 123 Period size: 44 Copynumber: 4.2 Consensus size: 44 31559 GATTCACCAC * * 31569 CTTCGATCTGCTCCACTACTGCTTAGGGGGACAGAATATGCAAT 1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT * * * * 31613 CTTCGACCTACTCCACTACTGCTTAGGGAGATAGGA-CT--AAT 1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT ** * * * * * * 31654 GGCTTAAATCTCCTTCTCCACTA-T-CTT-GGGAAGATAAGATTC-ACCAC 1 --CTTCGA--T-CTGCTCCACTACTGCTTAGGG-AGA-CAGAATCTGCAAT * 31701 CTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAAT 1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT 31745 CTTCGATCT 1 CTTCGATCT 31754 ACTTCGCTGC Statistics Matches: 103, Mismatches: 24, Indels: 28 0.66 0.15 0.18 Matches are distributed among these distances: 41 3 0.03 42 10 0.10 43 15 0.15 44 53 0.51 45 10 0.10 46 11 0.11 47 1 0.01 ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29 Consensus pattern (44 bp): CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT Found at i:31793 original size:46 final size:46 Alignment explanation
Indices: 31736--32029 Score: 480 Period size: 46 Copynumber: 6.4 Consensus size: 46 31726 GGGTGACAGA * * 31736 ATCTGCAATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG 1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG 31782 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG 1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG * * * 31828 ATCTGCTATCTTTGATCTACTCCGCTACCAAATATAGGAAGACAAG 1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG ** 31874 ATCTGCTATCTTCGATCTACTCCGCTGTAAAATACAGGAAGACAAG 1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG * 31920 ATCTGCTATCTTCGATCTACTCCGCCGCCAAATACAGGAAGACAAG 1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG * * * 31966 ATCTGCTATCTTCGATCTACTCTGCTGTCAAATACAGGAAGATAAG 1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG * 32012 ATTTGCTATCTTCGATCT 1 ATCTGCTATCTTCGATCT 32030 GTTCTCTGGG Statistics Matches: 230, Mismatches: 18, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 46 230 1.00 ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27 Consensus pattern (46 bp): ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG Found at i:33243 original size:6 final size:6 Alignment explanation
Indices: 33234--33290 Score: 51 Period size: 6 Copynumber: 8.7 Consensus size: 6 33224 TTGACCTCTC * * 33234 CTTTTT CTTTTTT CTTTTT CTTCTCT CTTCTT CTTTCTCT CTTTCTT CTTTTT 1 CTTTTT C-TTTTT CTTTTT CTT-TTT CTTTTT CTTT-T-T CTTT-TT CTTTTT 33287 CTTT 1 CTTT 33291 CTTTCCCCCC Statistics Matches: 43, Mismatches: 4, Indels: 8 0.78 0.07 0.15 Matches are distributed among these distances: 6 19 0.44 7 17 0.40 8 7 0.16 ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74 Consensus pattern (6 bp): CTTTTT Found at i:33258 original size:25 final size:28 Alignment explanation
Indices: 33229--33283 Score: 69 Period size: 27 Copynumber: 2.0 Consensus size: 28 33219 TCACCTTGAC * * 33229 CTCTCCTTTTTCTTT-TTTCTTT-TTCTT 1 CTCT-CTTCTTCTTTCTCTCTTTCTTCTT 33256 CTCTCTTCTTCTTTCTCTCTTTCTTCTT 1 CTCTCTTCTTCTTTCTCTCTTTCTTCTT 33284 TTTCTTTCTT Statistics Matches: 24, Mismatches: 2, Indels: 3 0.83 0.07 0.10 Matches are distributed among these distances: 26 9 0.38 27 10 0.42 28 5 0.21 ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69 Consensus pattern (28 bp): CTCTCTTCTTCTTTCTCTCTTTCTTCTT Found at i:38807 original size:3 final size:3 Alignment explanation
Indices: 38799--38851 Score: 63 Period size: 3 Copynumber: 17.7 Consensus size: 3 38789 TTTAGCAATT * * 38799 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA GTA -TA TTTA TTA 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA * 38844 ATA TTA TT 1 TTA TTA TT 38852 GACATTATTG Statistics Matches: 43, Mismatches: 5, Indels: 4 0.83 0.10 0.08 Matches are distributed among these distances: 2 2 0.05 3 39 0.91 4 2 0.05 ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64 Consensus pattern (3 bp): TTA Found at i:39487 original size:18 final size:19 Alignment explanation
Indices: 39442--39490 Score: 57 Period size: 18 Copynumber: 2.7 Consensus size: 19 39432 GCTTAGGTGC * * 39442 TTTAATTTTTATTTGTTCA 1 TTTACTTTTTATTTATTCA * 39461 TTTAC-TTTTATTTATTGA 1 TTTACTTTTTATTTATTCA 39479 TTT-CTTTTTATT 1 TTTACTTTTTATT 39491 ATATGTTTGC Statistics Matches: 26, Mismatches: 3, Indels: 3 0.81 0.09 0.09 Matches are distributed among these distances: 17 1 0.04 18 21 0.81 19 4 0.15 ACGTcount: A:0.18, C:0.06, G:0.04, T:0.71 Consensus pattern (19 bp): TTTACTTTTTATTTATTCA Found at i:51443 original size:42 final size:43 Alignment explanation
Indices: 51395--51484 Score: 103 Period size: 44 Copynumber: 2.1 Consensus size: 43 51385 GGTTGAAGCA * * 51395 TGGAGTAGATCG-GCTATGAA-TCCTATTTCCCTGAAGTTGCAG 1 TGGAGTAGATCGAGATAT-AAGTCCTATTTCCCTGAAGATGCAG * * * 51437 TGGAGTAGGTTGAAGATATAAGTCTTATTTCCCTGAAGATGCAG 1 TGGAGTAGATCG-AGATATAAGTCCTATTTCCCTGAAGATGCAG 51481 TGGA 1 TGGA 51485 ACAGACTGAA Statistics Matches: 40, Mismatches: 5, Indels: 4 0.82 0.10 0.08 Matches are distributed among these distances: 42 10 0.25 43 2 0.05 44 28 0.70 ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31 Consensus pattern (43 bp): TGGAGTAGATCGAGATATAAGTCCTATTTCCCTGAAGATGCAG Found at i:51593 original size:208 final size:208 Alignment explanation
Indices: 51217--51593 Score: 549 Period size: 208 Copynumber: 1.8 Consensus size: 208 51207 CCTTGTCTCT * * * ** 51217 CTGAAGTTGTAGTAGAGCAGGTTGAAGTTACCAGTCTTATTTCCCTGAAGATGCAGTGGAGTAAA 1 CTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATTTCCCTGAAGATGCAGTGGAACAAA * * * * * 51282 CTGAAAACAACAAGTCATGTCTCCCTAAAGTTGTAGTGGAGCAGACAGTAGATAGTGGTTCTTAT 66 CTGAAAACAACAAGGCATGTCTCCCTAAAGTTGTAGCGGAGCAGACAGAAGATAGCGATTCTTAT * * * 51347 CATGTTGAATCTTATTTCCCTGAAGTTGCAGCGGAATAGGTTGAAGCATGGAGTAGATCGGCTAT 131 CATGTTGAATCTCATTCCCCTAAAGTTGCAGCGGAATAGGTTGAAGCATGGAGTAGATCGGCTAT 51412 GAATCCTATTTCC 196 GAATCCTATTTCC * * * * 51425 CTGAAGTTGCAGTGGAGTAGGTTGAAGATATAAGTCTTATTTCCCTGAAGATGCAGTGGAACAGA 1 CTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATTTCCCTGAAGATGCAGTGGAACAAA * * 51490 CTGAAAACAACAAGGCGTGTCTCCCTAAAGTTGTAGCGGAGCGGACAGAAGATAGCGATTCTTAT 66 CTGAAAACAACAAGGCATGTCTCCCTAAAGTTGTAGCGGAGCAGACAGAAGATAGCGATTCTTAT * * 51555 CATGTCT-AATCTCATTCCCCTAAAGTTGTAGTGGAATAG 131 CATGT-TGAATCTCATTCCCCTAAAGTTGCAGCGGAATAG 51594 ATAGAAGCGA Statistics Matches: 147, Mismatches: 21, Indels: 2 0.86 0.12 0.01 Matches are distributed among these distances: 208 146 0.99 209 1 0.01 ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28 Consensus pattern (208 bp): CTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATTTCCCTGAAGATGCAGTGGAACAAA CTGAAAACAACAAGGCATGTCTCCCTAAAGTTGTAGCGGAGCAGACAGAAGATAGCGATTCTTAT CATGTTGAATCTCATTCCCCTAAAGTTGCAGCGGAATAGGTTGAAGCATGGAGTAGATCGGCTAT GAATCCTATTTCC Found at i:53313 original size:3 final size:3 Alignment explanation
Indices: 53305--53365 Score: 54 Period size: 3 Copynumber: 20.3 Consensus size: 3 53295 TTTAGCAATT * * * 53305 TTA TTA TTA TTA TTA TTA TTG TTA TTA GTA -TA TTTA TTA ATA TTA 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA * 53350 TTGA -TA TTA TTG TTA T 1 TT-A TTA TTA TTA TTA T 53366 GTTTTTTTTA Statistics Matches: 47, Mismatches: 7, Indels: 8 0.76 0.11 0.13 Matches are distributed among these distances: 2 3 0.06 3 41 0.87 4 3 0.06 ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62 Consensus pattern (3 bp): TTA Found at i:53428 original size:14 final size:14 Alignment explanation
Indices: 53411--53450 Score: 55 Period size: 14 Copynumber: 2.9 Consensus size: 14 53401 GATATATATG * 53411 TTTTATTATATTAT 1 TTTTATTATATAAT 53425 TTTTATTATATAAT 1 TTTTATTATATAAT 53439 TGTTTA-TATATA 1 T-TTTATTATATA 53451 TGCGTATATA Statistics Matches: 24, Mismatches: 1, Indels: 2 0.89 0.04 0.07 Matches are distributed among these distances: 14 20 0.83 15 4 0.17 ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65 Consensus pattern (14 bp): TTTTATTATATAAT Found at i:53994 original size:18 final size:19 Alignment explanation
Indices: 53949--53997 Score: 57 Period size: 18 Copynumber: 2.7 Consensus size: 19 53939 GCTTAGGTGC * * 53949 TTTAATTTTTATTTGTTCA 1 TTTACTTTTTATTTATTCA * 53968 TTTAC-TTTTATTTATTGA 1 TTTACTTTTTATTTATTCA 53986 TTT-CTTTTTATT 1 TTTACTTTTTATT 53998 ATATGTTTGC Statistics Matches: 26, Mismatches: 3, Indels: 3 0.81 0.09 0.09 Matches are distributed among these distances: 17 1 0.04 18 21 0.81 19 4 0.15 ACGTcount: A:0.18, C:0.06, G:0.04, T:0.71 Consensus pattern (19 bp): TTTACTTTTTATTTATTCA Found at i:59017 original size:2 final size:2 Alignment explanation
Indices: 59010--59044 Score: 70 Period size: 2 Copynumber: 17.5 Consensus size: 2 59000 TACAACTTTA 59010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 59045 AACATGAAAT Statistics Matches: 33, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 33 1.00 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (2 bp): AT Found at i:60878 original size:45 final size:44 Alignment explanation
Indices: 60812--61017 Score: 188 Period size: 45 Copynumber: 4.6 Consensus size: 44 60802 ACCTCAAAAT 60812 TAATGCCATAGTATCTTTCAACTATGGTCTTGATCGTTACCGATG 1 TAATGCCATAGTATCTTTCAACTATGGTCTT-ATCGTTACCGATG * * * * 60857 TGATGCCATAGTATCTTTCAACTATGGTCTTAT-TTGTATCGAATT 1 TAATGCCATAGTATCTTTCAACTATGGTCTTATCGT-TACCG-ATG * * * * * 60902 TAATGCCATAATATCTTTCAATTATGGTCTTA-CATAGTCCCGATT 1 TAATGCCATAGTATCTTTCAACTATGGTCTTATCGT--TACCGATG * * * * 60947 TAGTTCCATACTATCTTTCAACTATGGTCTTATTCATT-CC-A-G 1 TAATGCCATAGTATCTTTCAACTATGGTCTTA-TCGTTACCGATG 60989 TAAAATGCCATAGTATCTTTCAACTATGG 1 T--AATGCCATAGTATCTTTCAACTATGG 61018 CCTTTCTCAT Statistics Matches: 135, Mismatches: 18, Indels: 17 0.79 0.11 0.10 Matches are distributed among these distances: 42 1 0.01 43 2 0.01 44 31 0.23 45 94 0.70 46 4 0.03 47 3 0.02 ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40 Consensus pattern (44 bp): TAATGCCATAGTATCTTTCAACTATGGTCTTATCGTTACCGATG Found at i:60964 original size:90 final size:90 Alignment explanation
Indices: 60811--61017 Score: 240 Period size: 90 Copynumber: 2.3 Consensus size: 90 60801 GACCTCAAAA * * * * 60811 TTAATGCCATAGTATCTTTCAACTATGGTCTTGATCGTTACCGATGTGATGCCATAGTATCTTTC 1 TTAATGCCATAATATCTTTCAACTATGGTCTTCATAGTTACCGATGTGATGCCATACTATCTTTC 60876 AACTATGGTCTTATTTGTATCGAAT 66 AACTATGGTCTTATTTGTATCGAAT * * * * 60901 TTAATGCCATAATATCTTTCAATTATGGTCTTACATAG-TCCCGAT-TTAGTTCCATACTATCTT 1 TTAATGCCATAATATCTTTCAACTATGGTCTT-CATAGTTACCGATGTGA-TGCCATACTATCTT ** * * 60964 TCAACTATGGTCTTATTCAT-TCCAGT 64 TCAACTATGGTCTTATTTGTATCGAAT ** * 60990 AAAATGCCATAGTATCTTTCAACTATGG 1 TTAATGCCATAATATCTTTCAACTATGG 61018 CCTTTCTCAT Statistics Matches: 99, Mismatches: 16, Indels: 5 0.82 0.13 0.04 Matches are distributed among these distances: 89 30 0.30 90 66 0.67 91 3 0.03 ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41 Consensus pattern (90 bp): TTAATGCCATAATATCTTTCAACTATGGTCTTCATAGTTACCGATGTGATGCCATACTATCTTTC AACTATGGTCTTATTTGTATCGAAT Found at i:64809 original size:49 final size:49 Alignment explanation
Indices: 64654--64816 Score: 173 Period size: 49 Copynumber: 3.3 Consensus size: 49 64644 TTGCTAGTAC ** ** * 64654 GTTATGGATGAACCACTGGTTGTTGCAGATAAACTATTGACTGAAATAT 1 GTTATGGATGAACCACTGGTCATTGCAGATAAACTGCTGACTAAAATAT * * * * * 64703 GTTGTGAATGAACCACTGGTGATTTCAGATAAATTGCTGACTAAAATAT 1 GTTATGGATGAACCACTGGTCATTGCAGATAAACTGCTGACTAAAATAT * * * * * 64752 GTTGTGGATGAACCACTAGTCATTGCAGACAAACTGCTAACTAAAATAC 1 GTTATGGATGAACCACTGGTCATTGCAGATAAACTGCTGACTAAAATAT * * 64801 ATTATGGATAAACCAC 1 GTTATGGATGAACCAC 64817 CGTCGTCGCA Statistics Matches: 94, Mismatches: 20, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 49 94 1.00 ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29 Consensus pattern (49 bp): GTTATGGATGAACCACTGGTCATTGCAGATAAACTGCTGACTAAAATAT Found at i:64979 original size:34 final size:33 Alignment explanation
Indices: 64884--65027 Score: 132 Period size: 34 Copynumber: 4.3 Consensus size: 33 64874 ATGCAACATG * * 64884 ACATGCTTATAATAGATCAATACGATAGCAATA 1 ACATGCTTATAATAGATCAATAAGGTAGCAATA * * * 64917 ACATTCTTATAGAAAG-TCGATACA-GTAGCATATA 1 ACATGCTTATA-ATAGATCAATA-AGGTAGCA-ATA * 64951 TCATGCTTATAATAGATCAATAAGGTAGCAATTA 1 ACATGCTTATAATAGATCAATAAGGTAGCAA-TA * * 64985 ACATGCTTATAACAGATCATTATA-GTAGCAATAA 1 ACATGCTTATAATAGATCAATA-AGGTAGCAAT-A * 65019 ACTTGCTTA 1 ACATGCTTA 65028 ACATGTATTT Statistics Matches: 90, Mismatches: 13, Indels: 15 0.76 0.11 0.13 Matches are distributed among these distances: 33 26 0.29 34 63 0.70 35 1 0.01 ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31 Consensus pattern (33 bp): ACATGCTTATAATAGATCAATAAGGTAGCAATA Found at i:66677 original size:22 final size:22 Alignment explanation
Indices: 66649--66694 Score: 58 Period size: 22 Copynumber: 2.1 Consensus size: 22 66639 AAAAAAAGAT * * 66649 ATTTTATATATAAATATT-AATA 1 ATTTTAT-TAAAAAAATTAAATA 66671 ATTTTATTAAAAAAATTAAATA 1 ATTTTATTAAAAAAATTAAATA 66693 AT 1 AT 66695 AATTAATTAT Statistics Matches: 21, Mismatches: 2, Indels: 2 0.84 0.08 0.08 Matches are distributed among these distances: 21 8 0.38 22 13 0.62 ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46 Consensus pattern (22 bp): ATTTTATTAAAAAAATTAAATA Found at i:68759 original size:29 final size:29 Alignment explanation
Indices: 68727--68829 Score: 106 Period size: 29 Copynumber: 3.6 Consensus size: 29 68717 TCCAAAAAAT 68727 TTAAAATTACAATTTGACTCTCAAATTTC 1 TTAAAATTACAATTTGACTCTCAAATTTC * * * 68756 TTAAAATTAC-ATTTAACTTCTCTAACTT- 1 TTAAAATTACAATTTGAC-TCTCAAATTTC * 68784 TTAAAATTACATTTTGAC-CAT-AAACTTTC 1 TTAAAATTACAATTTGACTC-TCAAA-TTTC * 68813 TTAAAATTACATTTTGA 1 TTAAAATTACAATTTGA 68830 GCCCAAATTT Statistics Matches: 62, Mismatches: 7, Indels: 10 0.78 0.09 0.13 Matches are distributed among these distances: 27 3 0.05 28 19 0.31 29 40 0.65 ACGTcount: A:0.38, C:0.16, G:0.03, T:0.44 Consensus pattern (29 bp): TTAAAATTACAATTTGACTCTCAAATTTC Found at i:68788 original size:28 final size:27 Alignment explanation
Indices: 68726--68797 Score: 90 Period size: 28 Copynumber: 2.6 Consensus size: 27 68716 ATCCAAAAAA * * 68726 TTTAAAATTACAATTTGACTCTCAAATT 1 TTTAAAATTAC-ATTTAACTCTCAAACT * 68754 TCTTAAAATTACATTTAACTTCTCTAACT 1 T-TTAAAATTACATTTAAC-TCTCAAACT 68783 TTTAAAATTACATTT 1 TTTAAAATTACATTT 68798 TGACCATAAA Statistics Matches: 39, Mismatches: 3, Indels: 4 0.85 0.07 0.09 Matches are distributed among these distances: 28 21 0.54 29 18 0.46 ACGTcount: A:0.38, C:0.15, G:0.01, T:0.46 Consensus pattern (27 bp): TTTAAAATTACATTTAACTCTCAAACT Found at i:69899 original size:3 final size:3 Alignment explanation
Indices: 69877--69950 Score: 112 Period size: 3 Copynumber: 24.7 Consensus size: 3 69867 CAAAATCCGG * * * * 69877 ATT ATC ATT GTT ACT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT 1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT 69925 ATT ATT ATT ATT ATT ATT ATT ATT AT 1 ATT ATT ATT ATT ATT ATT ATT ATT AT 69951 CACTTTCAAT Statistics Matches: 63, Mismatches: 8, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 3 63 1.00 ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62 Consensus pattern (3 bp): ATT Found at i:73244 original size:13 final size:13 Alignment explanation
Indices: 73226--73251 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 73216 ATAATCTGAA 73226 ATCAAAAGCATTT 1 ATCAAAAGCATTT 73239 ATCAAAAGCATTT 1 ATCAAAAGCATTT 73252 TTCGAAAACA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31 Consensus pattern (13 bp): ATCAAAAGCATTT Found at i:73635 original size:20 final size:19 Alignment explanation
Indices: 73612--73671 Score: 66 Period size: 20 Copynumber: 2.9 Consensus size: 19 73602 AGAGTTTAGG 73612 GTTTTTTTTATATTTTTTAA 1 GTTTTTTTTATATTTTTT-A * 73632 GTTTTTTTTATATATCCTTTA 1 GTTTTTTTTATAT-T-TTTTA * 73653 GTTTATTTTATAATTTTTT 1 GTTTTTTTTAT-ATTTTTT 73672 TGATGCAAAG Statistics Matches: 34, Mismatches: 3, Indels: 6 0.79 0.07 0.14 Matches are distributed among these distances: 20 16 0.47 21 13 0.38 22 5 0.15 ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72 Consensus pattern (19 bp): GTTTTTTTTATATTTTTTA Found at i:74815 original size:73 final size:73 Alignment explanation
Indices: 74637--74840 Score: 311 Period size: 72 Copynumber: 2.8 Consensus size: 73 74627 TTTTTAGACT * * 74637 CCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAA 1 CCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAA 74702 AACTAAGC 66 AACTAAGC * * * ** * 74710 CCAACG-CGCCATTTTCTAAGCTTTAGGGGATTTAGCGGCATTTTTGGGAAAGCGCTGCAAAAAA 1 CCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAA * 74774 ACCTAAGC 66 AACTAAGC * 74782 CCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAACGCCGC 1 CCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGC 74841 TAATGCTCAA Statistics Matches: 114, Mismatches: 16, Indels: 2 0.86 0.12 0.02 Matches are distributed among these distances: 72 63 0.55 73 51 0.45 ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25 Consensus pattern (73 bp): CCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAA AACTAAGC Found at i:75071 original size:113 final size:113 Alignment explanation
Indices: 74740--75082 Score: 526 Period size: 112 Copynumber: 3.0 Consensus size: 113 74730 CTTTAGGGGA * * * 74740 TTTAGCGGCATTTTTGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT 1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAA-CTAAGCCCAACGGCGCCGTTTTCTGAGCT * * * 74805 TTCGGGGATTTAGCGGCATTTTTAAGAAAACGCCGCTAATGCTCAAGGC 65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC * * * * 74854 TTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAAACTAAGCCCAACAGCGCC-TTTTTTGAGCCT 1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGAGCTT * 74918 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGC 66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC * * * * 74966 TTTAGCGGCGTTTCTGGGAAAGCGCCACAAAAGAACTAAGCCCAACGGTGCCGTTTTCTGAGCTT 1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGAGCTT * 75031 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA 66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC 75079 TTTA 1 TTTA 75083 AAATAATTTA Statistics Matches: 207, Mismatches: 21, Indels: 3 0.90 0.09 0.01 Matches are distributed among these distances: 112 100 0.48 113 75 0.36 114 32 0.15 ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26 Consensus pattern (113 bp): TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGAGCTT TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC Found at i:75311 original size:7 final size:7 Alignment explanation
Indices: 75301--75431 Score: 77 Period size: 7 Copynumber: 17.9 Consensus size: 7 75291 GATTTAAGGT 75301 TTAGGGG 1 TTAGGGG * 75308 TTAGGTG 1 TTAGGGG * ** 75315 TTATGCT 1 TTAGGGG 75322 TTA-GGG 1 TTAGGGG 75328 TTAGGGGG 1 TTA-GGGG 75336 ATTTAGGGG 1 --TTAGGGG 75345 TTAGGGG 1 TTAGGGG * ** 75352 TTATGCT 1 TTAGGGG 75359 TTA-GGG 1 TTAGGGG 75365 TTAGGGGG 1 TTA-GGGG 75373 ATTTAGGGG 1 --TTAGGGG 75382 TTAGGGG 1 TTAGGGG * ** 75389 TTATGCT 1 TTAGGGG 75396 TTAGGGG 1 TTAGGGG 75403 TTAGGGG 1 TTAGGGG 75410 ATTTAGGGG 1 --TTAGGGG * 75419 TTAGGGT 1 TTAGGGG 75426 TTAGGG 1 TTAGGG 75432 TTTCAACGGT Statistics Matches: 96, Mismatches: 18, Indels: 20 0.72 0.13 0.15 Matches are distributed among these distances: 6 8 0.08 7 61 0.64 8 6 0.06 9 15 0.16 10 6 0.06 ACGTcount: A:0.16, C:0.02, G:0.46, T:0.36 Consensus pattern (7 bp): TTAGGGG Found at i:75355 original size:37 final size:37 Alignment explanation
Indices: 75300--75424 Score: 225 Period size: 37 Copynumber: 3.4 Consensus size: 37 75290 GGATTTAAGG * 75300 TTTAGGGGTTAGGTGTTATGCTTTAGGGTTAGGGGGA 1 TTTAGGGGTTAGGGGTTATGCTTTAGGGTTAGGGGGA 75337 TTTAGGGGTTAGGGGTTATGCTTTAGGGTTAGGGGGA 1 TTTAGGGGTTAGGGGTTATGCTTTAGGGTTAGGGGGA 75374 TTTAGGGGTTAGGGGTTATGCTTTAGGGGTTA-GGGGA 1 TTTAGGGGTTAGGGGTTATGCTTTA-GGGTTAGGGGGA 75411 TTTAGGGGTTAGGG 1 TTTAGGGGTTAGGG 75425 TTTAGGGTTT Statistics Matches: 86, Mismatches: 1, Indels: 2 0.97 0.01 0.02 Matches are distributed among these distances: 37 80 0.93 38 6 0.07 ACGTcount: A:0.16, C:0.02, G:0.46, T:0.36 Consensus pattern (37 bp): TTTAGGGGTTAGGGGTTATGCTTTAGGGTTAGGGGGA Found at i:75432 original size:7 final size:7 Alignment explanation
Indices: 75279--75434 Score: 68 Period size: 7 Copynumber: 21.4 Consensus size: 7 75269 AGGGTATGGA 75279 TTTAGGG 1 TTTAGGG 75286 TTT-GGG 1 TTTAGGG * 75292 ATTTAAGG 1 -TTTAGGG 75300 TTTAGGG 1 TTTAGGG * 75307 GTTA-GG 1 TTTAGGG * * 75313 TGTTATGC 1 T-TTAGGG 75321 TTTAGGG 1 TTTAGGG 75328 -TTAGGGGG 1 TTTA--GGG 75336 ATTTAGGG 1 -TTTAGGG * 75344 GTTAGGG 1 TTTAGGG * * * 75351 GTTATGC 1 TTTAGGG 75358 TTTAGGG 1 TTTAGGG 75365 -TTAGGGGG 1 TTTA--GGG 75373 ATTTAGGG 1 -TTTAGGG * 75381 GTTAGGG 1 TTTAGGG * * * 75388 GTTATGC 1 TTTAGGG 75395 TTTAGGG 1 TTTAGGG * 75402 GTTAGGGG 1 TTTA-GGG 75410 ATTTAGGG 1 -TTTAGGG * 75418 GTTAGGG 1 TTTAGGG 75425 TTTAGGG 1 TTTAGGG 75432 TTT 1 TTT 75435 CAACGGTTAA Statistics Matches: 112, Mismatches: 23, Indels: 28 0.69 0.14 0.17 Matches are distributed among these distances: 6 11 0.10 7 70 0.62 8 22 0.20 9 3 0.03 10 6 0.05 ACGTcount: A:0.16, C:0.02, G:0.44, T:0.38 Consensus pattern (7 bp): TTTAGGG Found at i:77772 original size:21 final size:24 Alignment explanation
Indices: 77734--77782 Score: 59 Period size: 21 Copynumber: 2.2 Consensus size: 24 77724 TGTGGTTCAA * 77734 ATTTTTCTCTTTTCTTTCAATTT- 1 ATTTTTCTCTTCTCTTTCAATTTG * 77757 ATTTTTCT-TTCT-TTTCCATTTG 1 ATTTTTCTCTTCTCTTTCAATTTG 77779 ATTT 1 ATTT 77783 GCTACACAAT Statistics Matches: 23, Mismatches: 2, Indels: 3 0.82 0.07 0.11 Matches are distributed among these distances: 21 8 0.35 22 7 0.30 23 8 0.35 ACGTcount: A:0.12, C:0.16, G:0.02, T:0.69 Consensus pattern (24 bp): ATTTTTCTCTTCTCTTTCAATTTG Found at i:81503 original size:22 final size:22 Alignment explanation
Indices: 81461--81504 Score: 56 Period size: 21 Copynumber: 2.0 Consensus size: 22 81451 AAAAGGTAGA * 81461 TTTTGATTTCTTTTTGGTTTTT 1 TTTTGATTTCTTTTTCGTTTTT 81483 TTTTG-TTTCGTTTTTC-TTTTT 1 TTTTGATTTC-TTTTTCGTTTTT 81504 T 1 T 81505 GCTTTCTTTC Statistics Matches: 20, Mismatches: 1, Indels: 3 0.83 0.04 0.12 Matches are distributed among these distances: 21 10 0.50 22 10 0.50 ACGTcount: A:0.02, C:0.07, G:0.11, T:0.80 Consensus pattern (22 bp): TTTTGATTTCTTTTTCGTTTTT Found at i:82123 original size:3 final size:3 Alignment explanation
Indices: 82117--82168 Score: 104 Period size: 3 Copynumber: 17.3 Consensus size: 3 82107 ATTAATCAAT 82117 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA 82165 TTA T 1 TTA T 82169 CGTCGATATC Statistics Matches: 49, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 49 1.00 ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67 Consensus pattern (3 bp): TTA Found at i:84086 original size:20 final size:21 Alignment explanation
Indices: 84064--84113 Score: 77 Period size: 20 Copynumber: 2.4 Consensus size: 21 84054 TTCCATGTGC 84064 TTTCCATTT-TTTCTTCTTTCT 1 TTTCCATTTCTTT-TTCTTTCT 84085 TTTCC-TTTCTTTTTCTTTCT 1 TTTCCATTTCTTTTTCTTTCT 84105 TTTCCATTT 1 TTTCCATTT 84114 GATTTGCTAC Statistics Matches: 27, Mismatches: 0, Indels: 4 0.87 0.00 0.13 Matches are distributed among these distances: 20 16 0.59 21 11 0.41 ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72 Consensus pattern (21 bp): TTTCCATTTCTTTTTCTTTCT Found at i:84094 original size:10 final size:10 Alignment explanation
Indices: 84079--84109 Score: 53 Period size: 10 Copynumber: 3.1 Consensus size: 10 84069 ATTTTTTCTT 84079 CTTTCTTTTC 1 CTTTCTTTTC * 84089 CTTTCTTTTT 1 CTTTCTTTTC 84099 CTTTCTTTTC 1 CTTTCTTTTC 84109 C 1 C 84110 ATTTGATTTG Statistics Matches: 19, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 10 19 1.00 ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71 Consensus pattern (10 bp): CTTTCTTTTC Found at i:87112 original size:19 final size:18 Alignment explanation
Indices: 87072--87136 Score: 51 Period size: 19 Copynumber: 3.4 Consensus size: 18 87062 ATAAACTTAA * * 87072 AAAAATTGTAAAATTCATT 1 AAAAATTCTAAAAAT-ATT 87091 AAAAATTCTAAAAATATCT 1 AAAAATTCTAAAAATAT-T * * 87110 AAATATTATAAAAACT-TAT 1 AAAAATTCTAAAAA-TAT-T 87129 AAAAATTC 1 AAAAATTC 87137 AAATAAATTA Statistics Matches: 37, Mismatches: 7, Indels: 4 0.77 0.15 0.08 Matches are distributed among these distances: 18 2 0.05 19 34 0.92 20 1 0.03 ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34 Consensus pattern (18 bp): AAAAATTCTAAAAATATT Found at i:87123 original size:29 final size:28 Alignment explanation
Indices: 87091--87152 Score: 72 Period size: 29 Copynumber: 2.1 Consensus size: 28 87081 AAAATTCATT * 87091 AAAAATTCTAAAAATATCTAAAT-ATTATA 1 AAAAATTATAAAAAT-TC-AAATAATTATA * 87120 AAAACTTATAAAAATTCAAATAAATTATA 1 AAAAATTATAAAAATTCAAAT-AATTATA 87149 AAAA 1 AAAA 87153 TAGAATTAGG Statistics Matches: 29, Mismatches: 2, Indels: 4 0.83 0.06 0.11 Matches are distributed among these distances: 27 4 0.14 28 2 0.07 29 23 0.79 ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31 Consensus pattern (28 bp): AAAAATTATAAAAATTCAAATAATTATA Found at i:87152 original size:57 final size:55 Alignment explanation
Indices: 87025--87153 Score: 136 Period size: 57 Copynumber: 2.3 Consensus size: 55 87015 AAAAATCATA * * * 87025 AAAAAATTAT-AAAATTATGAAAATATTAAAATCTTATATAAACTTAAAAAAATT 1 AAAAAATTATAAAAATTATAAAAATATTAAAATATTATAAAAACTTAAAAAAATT ** * * 87079 GTAAAATTCATTAAAAATTCTAAAAATATCT-AAATATTATAAAAACTTATAAAAATT 1 AAAAAATT-A-TAAAAATTATAAAAATAT-TAAAATATTATAAAAACTTAAAAAAATT 87136 CAAATAAATTATAAAAAT 1 -AAA-AAATTATAAAAAT 87154 AGAATTAGGG Statistics Matches: 60, Mismatches: 9, Indels: 9 0.77 0.12 0.12 Matches are distributed among these distances: 54 6 0.10 55 1 0.02 56 1 0.02 57 44 0.73 58 3 0.05 59 5 0.08 ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33 Consensus pattern (55 bp): AAAAAATTATAAAAATTATAAAAATATTAAAATATTATAAAAACTTAAAAAAATT Found at i:89356 original size:23 final size:24 Alignment explanation
Indices: 89311--89357 Score: 60 Period size: 23 Copynumber: 2.0 Consensus size: 24 89301 ATCAATGAGC * 89311 AAATCTTTATCATTTTGACAATTT 1 AAATCTTTATCATTTTGAAAATTT * * 89335 AAAT-TTTATTATTTTTAAAATTT 1 AAATCTTTATCATTTTGAAAATTT 89358 TATGGGGAAA Statistics Matches: 20, Mismatches: 3, Indels: 1 0.83 0.12 0.04 Matches are distributed among these distances: 23 16 0.80 24 4 0.20 ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55 Consensus pattern (24 bp): AAATCTTTATCATTTTGAAAATTT Found at i:93035 original size:3 final size:3 Alignment explanation
Indices: 93027--93058 Score: 64 Period size: 3 Copynumber: 10.7 Consensus size: 3 93017 AATTTAGTCA 93027 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA 1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA 93059 AATAATTTCT Statistics Matches: 29, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 29 1.00 ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66 Consensus pattern (3 bp): TAT Found at i:93340 original size:18 final size:18 Alignment explanation
Indices: 93234--93341 Score: 102 Period size: 18 Copynumber: 6.3 Consensus size: 18 93224 TAATATGTGT * * 93234 TATTATTTTTATCATCATA 1 TATTATTATTATTATCA-A ** * 93253 TATTATTATTAAAACCAA 1 TATTATTATTATTATCAA 93271 TATTATTATTATTAT--- 1 TATTATTATTATTATCAA 93286 TATTATTATTATTAT--- 1 TATTATTATTATTATCAA * * 93301 TATTATTATTATTATTAT 1 TATTATTATTATTATCAA 93319 TATTATTATTATTATCAA 1 TATTATTATTATTATCAA 93337 TATTA 1 TATTA 93342 CCGTTATTAT Statistics Matches: 77, Mismatches: 9, Indels: 7 0.83 0.10 0.08 Matches are distributed among these distances: 15 30 0.39 18 34 0.44 19 13 0.17 ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58 Consensus pattern (18 bp): TATTATTATTATTATCAA Found at i:93352 original size:3 final size:3 Alignment explanation
Indices: 93271--93333 Score: 126 Period size: 3 Copynumber: 21.0 Consensus size: 3 93261 TTAAAACCAA 93271 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT 1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT 93319 TAT TAT TAT TAT TAT 1 TAT TAT TAT TAT TAT 93334 CAATATTACC Statistics Matches: 60, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 60 1.00 ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67 Consensus pattern (3 bp): TAT Found at i:93633 original size:18 final size:18 Alignment explanation
Indices: 93585--93633 Score: 55 Period size: 18 Copynumber: 2.7 Consensus size: 18 93575 CATATCTTTG * 93585 ATTTATATATATATACTT 1 ATTTATATATATATACTA * * 93603 ATTTTTATCTATATTA-TA 1 ATTTATATATATA-TACTA 93621 ATTTATATATATA 1 ATTTATATATATA 93634 CATGTATTCA Statistics Matches: 25, Mismatches: 5, Indels: 2 0.78 0.16 0.06 Matches are distributed among these distances: 18 23 0.92 19 2 0.08 ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57 Consensus pattern (18 bp): ATTTATATATATATACTA Found at i:93692 original size:18 final size:18 Alignment explanation
Indices: 93669--93704 Score: 54 Period size: 18 Copynumber: 2.0 Consensus size: 18 93659 TTTCTAAATT * 93669 TTTATAAGTATATACATA 1 TTTATAAGTACATACATA * 93687 TTTATATGTACATACATA 1 TTTATAAGTACATACATA 93705 CTTACATATA Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 18 16 1.00 ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44 Consensus pattern (18 bp): TTTATAAGTACATACATA Found at i:96158 original size:2 final size:2 Alignment explanation
Indices: 96151--96179 Score: 58 Period size: 2 Copynumber: 14.5 Consensus size: 2 96141 TACAACTTTA 96151 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 96180 AACATGAAAT Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 27 1.00 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Found at i:96340 original size:70 final size:70 Alignment explanation
Indices: 96227--96365 Score: 242 Period size: 70 Copynumber: 2.0 Consensus size: 70 96217 TTCCAGTCAT * * 96227 TTATTTTATTCAAAATATCCTGATTCCTAAAGTACTTGCATGTCCATTTGCTCCCTAAACCATTC 1 TTATTTTATTCAAAATATCCAGATTCATAAAGTACTTGCATGTCCATTTGCTCCCTAAACCATTC 96292 AACAA 66 AACAA * * 96297 TTATTTTATTCAAAATATCCAGGTTCATAAAGTACTTGTATGTCCATTTGCTCCCTAAACCATTC 1 TTATTTTATTCAAAATATCCAGATTCATAAAGTACTTGCATGTCCATTTGCTCCCTAAACCATTC 96362 AACA 66 AACA 96366 CTTCTTTATT Statistics Matches: 65, Mismatches: 4, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 70 65 1.00 ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37 Consensus pattern (70 bp): TTATTTTATTCAAAATATCCAGATTCATAAAGTACTTGCATGTCCATTTGCTCCCTAAACCATTC AACAA Found at i:99146 original size:62 final size:62 Alignment explanation
Indices: 99029--99148 Score: 159 Period size: 62 Copynumber: 1.9 Consensus size: 62 99019 CACACACCCA * * * * 99029 TGTAGTTCGCCTATGTGTCTCAAATTTTAGCTCAGTCAGTTACACAGCTTGCCACACGCCTG 1 TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGTCAGTTACACAGCCTACCACACGCCTG * * * * * 99091 TGTAGTTCGTCTGTGTGTTTCAAATTTCAACTCATTCAGTTACACGGCCTACCACACG 1 TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGTCAGTTACACAGCCTACCACACG 99149 GCCCACCACA Statistics Matches: 49, Mismatches: 9, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 62 49 1.00 ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33 Consensus pattern (62 bp): TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGTCAGTTACACAGCCTACCACACGCCTG Found at i:100291 original size:34 final size:34 Alignment explanation
Indices: 100253--100326 Score: 139 Period size: 34 Copynumber: 2.2 Consensus size: 34 100243 TCGGTTGGAT 100253 TAAAAATCTACCAAGGGATCGATCTAATGAGAGG 1 TAAAAATCTACCAAGGGATCGATCTAATGAGAGG * 100287 TAAAAATCTACCAAGGTATCGATCTAATGAGAGG 1 TAAAAATCTACCAAGGGATCGATCTAATGAGAGG 100321 TAAAAA 1 TAAAAA 100327 GGACTATCAA Statistics Matches: 39, Mismatches: 1, Indels: 0 0.98 0.03 0.00 Matches are distributed among these distances: 34 39 1.00 ACGTcount: A:0.45, C:0.14, G:0.20, T:0.22 Consensus pattern (34 bp): TAAAAATCTACCAAGGGATCGATCTAATGAGAGG Found at i:100757 original size:17 final size:17 Alignment explanation
Indices: 100735--100773 Score: 69 Period size: 17 Copynumber: 2.3 Consensus size: 17 100725 CTAATCTATA * 100735 TGCAATAGGGACTAAAT 1 TGCAATAAGGACTAAAT 100752 TGCAATAAGGACTAAAT 1 TGCAATAAGGACTAAAT 100769 TGCAA 1 TGCAA 100774 AAAGTGTAAA Statistics Matches: 21, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 17 21 1.00 ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23 Consensus pattern (17 bp): TGCAATAAGGACTAAAT Found at i:102335 original size:36 final size:36 Alignment explanation
Indices: 102295--102392 Score: 94 Period size: 36 Copynumber: 2.7 Consensus size: 36 102285 TATATATATA 102295 TATATATGTATGCATTTGGCATATGTGGATT-ATAAG 1 TATATATGTATGCATTTGGCATATGTGG-TTGATAAG * * 102331 --TATATGTATGTACATTCGGCACATGTGGTTGATAAG 1 TATATATGTATG--CATTTGGCATATGTGGTTGATAAG * ** * 102367 TATAAAAATATGCTTTTGGCATATGT 1 TATATATGTATGCATTTGGCATATGT 102393 ATTTGAATAT Statistics Matches: 49, Mismatches: 8, Indels: 10 0.73 0.12 0.15 Matches are distributed among these distances: 34 10 0.20 35 2 0.04 36 30 0.61 38 7 0.14 ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40 Consensus pattern (36 bp): TATATATGTATGCATTTGGCATATGTGGTTGATAAG Found at i:102340 original size:34 final size:35 Alignment explanation
Indices: 102297--102370 Score: 98 Period size: 36 Copynumber: 2.1 Consensus size: 35 102287 TATATATATA * * 102297 TATATGTATG-CATTTGGCATATGTGGATT-ATAAG 1 TATATGTATGACATTCGGCACATGTGG-TTGATAAG 102331 TATATGTATGTACATTCGGCACATGTGGTTGATAAG 1 TATATGTATG-ACATTCGGCACATGTGGTTGATAAG 102367 TATA 1 TATA 102371 AAAATATGCT Statistics Matches: 35, Mismatches: 2, Indels: 4 0.85 0.05 0.10 Matches are distributed among these distances: 34 10 0.29 35 2 0.06 36 23 0.66 ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39 Consensus pattern (35 bp): TATATGTATGACATTCGGCACATGTGGTTGATAAG Found at i:106991 original size:49 final size:49 Alignment explanation
Indices: 106905--107027 Score: 138 Period size: 49 Copynumber: 2.5 Consensus size: 49 106895 GTTATGGATA * * * 106905 AACCACTGGTCGTTGTAGATAAACTATTGACTGAAATATGTTGTGAACG 1 AACCACTGGTCATTGTAGATAAACTATCGACTAAAATATGTTGTGAACG * * * * * * 106954 AACCACTGGTCATTTTAGTTAAATTGTCGACTAAAATATGTTGTGGATG 1 AACCACTGGTCATTGTAGATAAACTATCGACTAAAATATGTTGTGAACG * * * 107003 AACCACTAGTCATTGCAGAAAAACT 1 AACCACTGGTCATTGTAGATAAACT 107028 GCTAACTAAA Statistics Matches: 59, Mismatches: 15, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 49 59 1.00 ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31 Consensus pattern (49 bp): AACCACTGGTCATTGTAGATAAACTATCGACTAAAATATGTTGTGAACG Found at i:107256 original size:34 final size:34 Alignment explanation
Indices: 107125--107268 Score: 109 Period size: 34 Copynumber: 4.3 Consensus size: 34 107115 ATACAACATG * * 107125 ACATGCTTATAATAGATCAATA-CGATATCAA-TA 1 ACATGCTTATAATAGATCAATATAG-TAGCAATTA * * * * 107158 ACATCCCTATAGAAAG-TCGATATAGTAGC-ATATA 1 ACATGCTTATA-ATAGATCAATATAGTAGCAAT-TA * * 107192 TCATGCTTATAATAGATCAATA-AGGGAGCAATTA 1 ACATGCTTATAATAGATCAATATA-GTAGCAATTA * * * 107226 ACATGCTTATAATAGATTATTATAGTAGCAATAA 1 ACATGCTTATAATAGATCAATATAGTAGCAATTA * 107260 ACTTGCTTA 1 ACATGCTTA 107269 ACATGTATTT Statistics Matches: 85, Mismatches: 18, Indels: 15 0.72 0.15 0.13 Matches are distributed among these distances: 32 1 0.01 33 21 0.25 34 60 0.71 35 3 0.04 ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31 Consensus pattern (34 bp): ACATGCTTATAATAGATCAATATAGTAGCAATTA Found at i:108883 original size:22 final size:24 Alignment explanation
Indices: 108855--108902 Score: 64 Period size: 22 Copynumber: 2.1 Consensus size: 24 108845 AAAAAGGAAT * 108855 ATTTTATATATAAAT-ATT-AATA 1 ATTTTATATAAAAATAATTAAATA * 108877 ATTTTATTTAAAAATAATTAAATA 1 ATTTTATATAAAAATAATTAAATA 108901 AT 1 AT 108903 AATTAATTAT Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 22 13 0.59 23 3 0.14 24 6 0.27 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (24 bp): ATTTTATATAAAAATAATTAAATA Found at i:111221 original size:16 final size:16 Alignment explanation
Indices: 111200--111230 Score: 53 Period size: 16 Copynumber: 1.9 Consensus size: 16 111190 AAAAAAATTG * 111200 TATGTATATATAAATA 1 TATGTATACATAAATA 111216 TATGTATACATAAAT 1 TATGTATACATAAAT 111231 TATAGAACAT Statistics Matches: 14, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 16 14 1.00 ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42 Consensus pattern (16 bp): TATGTATACATAAATA Found at i:112203 original size:37 final size:37 Alignment explanation
Indices: 112153--112229 Score: 145 Period size: 37 Copynumber: 2.1 Consensus size: 37 112143 AAGGGCTTCT * 112153 ACGGTCTCGATGCACGGAAGGAGTCACTGACGGCGGC 1 ACGGTCTCGATGCACGGAAGGAGTCACCGACGGCGGC 112190 ACGGTCTCGATGCACGGAAGGAGTCACCGACGGCGGC 1 ACGGTCTCGATGCACGGAAGGAGTCACCGACGGCGGC 112227 ACG 1 ACG 112230 CCGCAATAGA Statistics Matches: 39, Mismatches: 1, Indels: 0 0.98 0.03 0.00 Matches are distributed among these distances: 37 39 1.00 ACGTcount: A:0.22, C:0.29, G:0.38, T:0.12 Consensus pattern (37 bp): ACGGTCTCGATGCACGGAAGGAGTCACCGACGGCGGC Found at i:117677 original size:11 final size:11 Alignment explanation
Indices: 117650--117739 Score: 101 Period size: 11 Copynumber: 8.2 Consensus size: 11 117640 ACTTAAATCC 117650 TTTCTCTCAAA 1 TTTCTCTCAAA * 117661 -TTCTCTCATA 1 TTTCTCTCAAA * 117671 TTTCTCTCCAA 1 TTTCTCTCAAA 117682 TATTCTCTCAAA 1 T-TTCTCTCAAA * 117694 TTCCTCTCAAA 1 TTTCTCTCAAA * 117705 TTCCTCTCAAA 1 TTTCTCTCAAA * 117716 TTCCTCTCAAA 1 TTTCTCTCAAA * * 117727 TTCCTCTTAAA 1 TTTCTCTCAAA 117738 TT 1 TT 117740 ACTTTTAAAG Statistics Matches: 71, Mismatches: 6, Indels: 4 0.88 0.07 0.05 Matches are distributed among these distances: 10 9 0.13 11 52 0.73 12 10 0.14 ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43 Consensus pattern (11 bp): TTTCTCTCAAA Found at i:119604 original size:18 final size:18 Alignment explanation
Indices: 119568--119610 Score: 50 Period size: 18 Copynumber: 2.4 Consensus size: 18 119558 TGCCAGGTGC * * * 119568 GTATCCTAGCCTTTTTAT 1 GTATCCTAACCCTTATAT 119586 GTATCCTAACCCTTATAT 1 GTATCCTAACCCTTATAT * 119604 GTTTCCT 1 GTATCCT 119611 TTTTTAAGTC Statistics Matches: 21, Mismatches: 4, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 18 21 1.00 ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47 Consensus pattern (18 bp): GTATCCTAACCCTTATAT Found at i:119885 original size:21 final size:22 Alignment explanation
Indices: 119839--119900 Score: 67 Period size: 21 Copynumber: 3.0 Consensus size: 22 119829 CCAACACCGA * * 119839 CAACCAG-ATCCCCTACCAGAG 1 CAACCAGAATCCCCTGCCGGAG * 119860 GAACCAGAATCCCC-GCCGGAG 1 CAACCAGAATCCCCTGCCGGAG * 119881 CAACCACAA-CCCCTGCCGGA 1 CAACCAGAATCCCCTGCCGGA 119901 AGCTAGACAA Statistics Matches: 34, Mismatches: 5, Indels: 4 0.79 0.12 0.09 Matches are distributed among these distances: 20 4 0.12 21 24 0.71 22 6 0.18 ACGTcount: A:0.31, C:0.44, G:0.19, T:0.06 Consensus pattern (22 bp): CAACCAGAATCCCCTGCCGGAG Found at i:120059 original size:34 final size:34 Alignment explanation
Indices: 120018--120120 Score: 144 Period size: 34 Copynumber: 3.1 Consensus size: 34 120008 TTTTGAATAT 120018 TTTTATATTATTTCATGTAATAAAATAGAAATTA 1 TTTTATATTATTTCATGTAATAAAATAGAAATTA 120052 TTTTATATTATTTCATGTAATAAAATAGAAATTTA 1 TTTTATATTATTTCATGTAATAAAATAGAAA-TTA * * 120087 CTTT-TA-TATTT--T-TAATAAAATAGAAATTC 1 TTTTATATTATTTCATGTAATAAAATAGAAATTA 120116 TTTTA 1 TTTTA 120121 AATAAGGCAA Statistics Matches: 64, Mismatches: 3, Indels: 8 0.85 0.04 0.11 Matches are distributed among these distances: 29 5 0.08 30 14 0.22 31 1 0.02 33 5 0.08 34 33 0.52 35 6 0.09 ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50 Consensus pattern (34 bp): TTTTATATTATTTCATGTAATAAAATAGAAATTA Found at i:120197 original size:58 final size:58 Alignment explanation
Indices: 120099--120406 Score: 239 Period size: 58 Copynumber: 5.3 Consensus size: 58 120089 TTTATATTTT * * 120099 TAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTGAATATTTCTATATTATTTCATG 1 TAATAAAATAGAAATTCTTTTAAATAA---AGTATATTGAATATTTCTATATTATTTCATG * * * 120160 TAATAAAATA-AAAGGTTGTTTTGAATAAAGTA-ATTGAA-ATTTACT-T-TTATATT--TT 1 TAATAAAATAGAAA--TTCTTTTAAATAAAGTATATTGAATATTT-CTATATTAT-TTCATG * * 120215 TAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTAAATATTTCTATATTATTTCATG 1 TAATAAAATAGAAATTCTTTTAAATAAAGT-ATA--TTGAATATTTCTATATTATTTCATG * * 120276 TAATAAAATA-AAAGGTTGTTTTGAATAAAGTA-ATTGAA-ATTTACTAT-TATATTT--T- 1 TAATAAAATAGAAA--TTCTTTTAAATAAAGTATATTGAATATTT-CTATAT-TATTTCATG * * * * 120331 TAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTAAATATTTCTATATTATTTCATT 1 TAATAAAATAGAAATTCTTTTAAATAA---AGTATATTGAATATTTCTATATTATTTCATG * 120392 TAATAAAATATAAAT 1 TAATAAAATAGAAAT 120407 AATACAACAT Statistics Matches: 199, Mismatches: 20, Indels: 56 0.72 0.07 0.20 Matches are distributed among these distances: 54 24 0.12 55 22 0.11 56 12 0.06 57 15 0.08 58 39 0.20 59 15 0.08 60 12 0.06 61 36 0.18 62 24 0.12 ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44 Consensus pattern (58 bp): TAATAAAATAGAAATTCTTTTAAATAAAGTATATTGAATATTTCTATATTATTTCATG Found at i:120200 original size:116 final size:116 Alignment explanation
Indices: 120079--120401 Score: 610 Period size: 116 Copynumber: 2.8 Consensus size: 116 120069 TAATAAAATA * 120079 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTGAATATT 1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTAAATATT 120144 TCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGTAATT 66 TCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGTAATT * 120195 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTAAATATT 1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTAAATATT 120260 TCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGTAATT 66 TCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGTAATT * 120311 GAAATTTACTATTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTAAATATT 1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTAAATATT * 120376 TCTATATTATTTCATTTAATAAAATA 66 TCTATATTATTTCATGTAATAAAATA 120402 TAAATAATAC Statistics Matches: 202, Mismatches: 5, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 116 202 1.00 ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46 Consensus pattern (116 bp): GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTAAATATT TCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAAGTAATT Found at i:120224 original size:55 final size:55 Alignment explanation
Indices: 120160--120340 Score: 197 Period size: 55 Copynumber: 3.2 Consensus size: 55 120150 TTATTTCATG 120160 TAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGAAATTTACTTTTATATTTT 1 TAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGAAATTTACTTTTATATTTT * * * * * * 120215 TAATAAAATAGAAA--TTCTTTTAAATAAGGTAATATTTTAAATATTTCTATATTAT-TTCATG 1 TAATAAAATA-AAAGGTTGTTTTGAATAAAGT-A-A-TTGAAAT-TTACT-T-TTATATT--TT * 120276 TAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGAAATTTACTATTATATTTT 1 TAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGAAATTTACTTTTATATTTT 120331 TAATAAAATA 1 TAATAAAATA 120341 GAAATTCTTT Statistics Matches: 101, Mismatches: 13, Indels: 24 0.73 0.09 0.17 Matches are distributed among these distances: 54 13 0.13 55 22 0.22 56 8 0.08 57 8 0.08 58 8 0.08 59 9 0.09 60 8 0.08 61 12 0.12 62 13 0.13 ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44 Consensus pattern (55 bp): TAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGAAATTTACTTTTATATTTT Found at i:123664 original size:127 final size:127 Alignment explanation
Indices: 123359--123781 Score: 597 Period size: 126 Copynumber: 3.4 Consensus size: 127 123349 TAGGCCAAAT * * * * * 123359 AAGAACTACTGTAGTAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGGA 1 AAGAACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAATGCA * * * * 123424 TCCTGCTTAAAGCATTTTTCATATTATTTGCTCAGAAACGTTTTCTCAAAATTA-TTTTTTC 66 TCCTGCTTAAAGCGTTTTTCACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTTC * * 123485 AGGAACTACTGTAGCAAAAGAA-CGTCCACATGGGAGCTTCTTTTAGTACTTTTGCTGACAATGC 1 AAGAACTACTGTAGCAAAA-AAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAATGC * * * 123549 ATCCTGCTTAAAGCGTTTTTTACACTATTTTCTTAGAAACGTCTTCTCAAAATTATTTTTTTC 65 ATCCTGCTTAAAGCGTTTTTCACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTTC * * 123612 AAGAACTACTGTAGCAAAAAAGCATCCACGTGGGAGTTTCTTTTAGTACTTTTGCTGACAATGCA 1 AAGAACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAATGCA * * 123677 TTCTGCTTAAAGCGTTTTTGC-CACTATTTGCTCAAAAACGTCTTCTCAAAATTATTTTTTT- 66 TCCTGCTTAAAGCGTTTTT-CACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTTC * * 123738 AGGAACTACTGTAG-AAAAATATCGTCCACGTGGGAGCTT-TTTTA 1 AAGAACTACTGTAGCAAAAA-AGCGTCCACGTGGGAGCTTCTTTTA 123782 AATTAACAAA Statistics Matches: 265, Mismatches: 27, Indels: 11 0.87 0.09 0.04 Matches are distributed among these distances: 125 10 0.04 126 134 0.51 127 121 0.46 ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36 Consensus pattern (127 bp): AAGAACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAATGCA TCCTGCTTAAAGCGTTTTTCACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTTC Found at i:123908 original size:102 final size:99 Alignment explanation
Indices: 123775--124152 Score: 301 Period size: 102 Copynumber: 3.9 Consensus size: 99 123765 ACGTGGGAGC * * * * 123775 TTTTTT-AAATTAACAAATAATTTAATTAAGTAACCCTAAACCCCAAACCTTAATTTATTTGAGT 1 TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAA-CCCAAACCTTAATTTATTTGA-T * * 123839 TTTTCCTTAAATACCT-TACACTAAAGCCTAATCTAAT 64 TTTTCCTTAAAAACCTAAACACTAAA-CCT-ATCTAAT * * 123876 TTTTTTTAAATTTATAATTGATTTAATCAAGTAACCCTAAA--C---CC-TAATTTATTTGATTT 1 TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAACCCAAACCTTAATTTATTTGATTT * * * 123935 TTTCGTAAAAACCCTCAACACTAAA-C--TCTAAT 66 TTCCTTAAAAA-CCTAAACACTAAACCTATCTAAT * * * * 123967 TTTTTAAAAATTTATAATTAATTTAATC-AG---CCCTAAACCTAAACCCTAATTTATTTTATTT 1 TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAACCCAAACCTTAATTTATTTGA-TT * 124028 TTTCCTTAAAAACCATAAACACGAAACCCTAGTCTAA- 65 TTTCCTTAAAAACC-TAAACACTAAA-CCTA-TCTAAT * * * * * 124065 -TTTTGAAAATTCTATAATTAATTTAATTAAGAAACCCTAAACCCCAATCCCTT-ATTTATTTAA 1 TTTTTTAAAATT-TATAATTAATTTAATCAAGTAACCCTAAA-CCCAA-ACCTTAATTTATTTGA * * 124128 TTTTT--TTAAAACCCTAAACCCTAAA 63 TTTTTCCTTAAAAACCTAAACACTAAA 124153 TCCAAAAACC Statistics Matches: 227, Mismatches: 27, Indels: 48 0.75 0.09 0.16 Matches are distributed among these distances: 87 7 0.03 90 2 0.01 91 31 0.14 92 2 0.01 93 13 0.06 94 33 0.15 95 15 0.07 96 11 0.05 97 10 0.04 98 15 0.07 99 17 0.07 100 8 0.04 101 6 0.03 102 41 0.18 103 13 0.06 104 3 0.01 ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39 Consensus pattern (99 bp): TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAACCCAAACCTTAATTTATTTGATTT TTCCTTAAAAACCTAAACACTAAACCTATCTAAT Found at i:124086 original size:93 final size:93 Alignment explanation
Indices: 123871--124091 Score: 259 Period size: 91 Copynumber: 2.3 Consensus size: 93 123861 AAAGCCTAAT ** * * 123871 CTAATTTTTTTTAAATTTATAATTGATTTAATCAAG---TAACCCTAAACCCTAATTTATTTGAT 1 CTAATTTTTTAAAAATTTATAATTAATTTAATC-AGCCCTAAACCTAAACCCTAATTTATTTGAT * * * * 123933 TTTTTCGTAAAAACCCTCAACACTAAACT 65 TTTTTCGTAAAAACCATAAACACGAAACC * 123962 CTAATTTTTTAAAAATTTATAATTAATTTAATCAGCCCTAAACCTAAACCCTAATTTATTTTATT 1 CTAATTTTTTAAAAATTTATAATTAATTTAATCAGCCCTAAACCTAAACCCTAATTTATTTGATT * 124027 TTTTCCTTAAAAACCATAAACACGAAACC 66 TTTT-CGTAAAAACCATAAACACGAAACC * * 124056 CTAGTCTAATTTTGAAAATTCTATAATTAATTTAAT 1 CTAAT-T--TTTTAAAAATT-TATAATTAATTTAAT 124092 TAAGAAACCC Statistics Matches: 110, Mismatches: 12, Indels: 9 0.84 0.09 0.07 Matches are distributed among these distances: 90 2 0.02 91 30 0.27 93 29 0.26 94 23 0.21 95 1 0.01 97 10 0.09 98 15 0.14 ACGTcount: A:0.38, C:0.17, G:0.04, T:0.41 Consensus pattern (93 bp): CTAATTTTTTAAAAATTTATAATTAATTTAATCAGCCCTAAACCTAAACCCTAATTTATTTGATT TTTTCGTAAAAACCATAAACACGAAACC Found at i:124148 original size:7 final size:7 Alignment explanation
Indices: 124136--124201 Score: 71 Period size: 7 Copynumber: 9.3 Consensus size: 7 124126 AATTTTTTTA 124136 AAACCCT 1 AAACCCT 124143 AAACCCT 1 AAACCCT ** 124150 AAATCCAA 1 AAA-CCCT * 124158 AAACCCCC 1 AAA-CCCT 124166 AAACCCT 1 AAACCCT * 124173 -AACCTT 1 AAACCCT 124179 AAACCCT 1 AAACCCT 124186 AAACCCT 1 AAACCCT 124193 AAACCCT 1 AAACCCT 124200 AA 1 AA 124202 CCCGCAGAGA Statistics Matches: 49, Mismatches: 8, Indels: 4 0.80 0.13 0.07 Matches are distributed among these distances: 6 5 0.10 7 34 0.69 8 10 0.20 ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14 Consensus pattern (7 bp): AAACCCT Found at i:124184 original size:13 final size:13 Alignment explanation
Indices: 124166--124204 Score: 60 Period size: 13 Copynumber: 2.9 Consensus size: 13 124156 AAAAACCCCC * 124166 AAACCCTAACCTT 1 AAACCCTAACCCT 124179 AAACCCTAAACCCT 1 AAACCCT-AACCCT 124193 AAACCCTAACCC 1 AAACCCTAACCC 124205 GCAGAGACAC Statistics Matches: 24, Mismatches: 1, Indels: 2 0.89 0.04 0.07 Matches are distributed among these distances: 13 12 0.50 14 12 0.50 ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15 Consensus pattern (13 bp): AAACCCTAACCCT Found at i:127630 original size:17 final size:17 Alignment explanation
Indices: 127604--127651 Score: 71 Period size: 17 Copynumber: 2.8 Consensus size: 17 127594 AAATAAACAC 127604 AAAAA-AAAAAGTATTTT 1 AAAAATAAAAA-TATTTT 127621 AAAAATAAAAAATATTTT 1 AAAAAT-AAAAATATTTT 127639 AAAAATAAAAATA 1 AAAAATAAAAATA 127652 AATATATTTA Statistics Matches: 29, Mismatches: 0, Indels: 4 0.88 0.00 0.12 Matches are distributed among these distances: 17 12 0.41 18 12 0.41 19 5 0.17 ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27 Consensus pattern (17 bp): AAAAATAAAAATATTTT Found at i:127630 original size:18 final size:18 Alignment explanation
Indices: 127604--127649 Score: 76 Period size: 18 Copynumber: 2.6 Consensus size: 18 127594 AAATAAACAC * 127604 AAAAA-AAAAAGTATTTT 1 AAAAATAAAAAATATTTT 127621 AAAAATAAAAAATATTTT 1 AAAAATAAAAAATATTTT 127639 AAAAATAAAAA 1 AAAAATAAAAA 127650 TAAATATATT Statistics Matches: 27, Mismatches: 1, Indels: 1 0.93 0.03 0.03 Matches are distributed among these distances: 17 5 0.19 18 22 0.81 ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26 Consensus pattern (18 bp): AAAAATAAAAAATATTTT Found at i:127892 original size:18 final size:20 Alignment explanation
Indices: 127863--127909 Score: 62 Period size: 19 Copynumber: 2.5 Consensus size: 20 127853 CCTATAATAA * * 127863 AATATATTTTTAT-TATTTT 1 AATATTTTTTTATAAATTTT 127882 AAT-TTTTTTTATAAATTTT 1 AATATTTTTTTATAAATTTT 127901 AATATTTTT 1 AATATTTTT 127910 ATTTTTCATC Statistics Matches: 24, Mismatches: 2, Indels: 3 0.83 0.07 0.10 Matches are distributed among these distances: 18 8 0.33 19 11 0.46 20 5 0.21 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (20 bp): AATATTTTTTTATAAATTTT Found at i:131011 original size:13 final size:13 Alignment explanation
Indices: 130993--131027 Score: 52 Period size: 13 Copynumber: 2.7 Consensus size: 13 130983 TCGACTAAAC * * 130993 TTTTCATAAGTAT 1 TTTTCAAAAGCAT 131006 TTTTCAAAAGCAT 1 TTTTCAAAAGCAT 131019 TTTTCAAAA 1 TTTTCAAAA 131028 ACAATGCTAA Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 13 20 1.00 ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46 Consensus pattern (13 bp): TTTTCAAAAGCAT Found at i:131630 original size:21 final size:20 Alignment explanation
Indices: 131606--131667 Score: 70 Period size: 21 Copynumber: 3.0 Consensus size: 20 131596 GAGTTTAGGG 131606 GTTTTTTTTTATATTTTTTAA 1 GTTTTTTTTTATATTTTTT-A * ** 131627 GTTTTTTTATATATCCTTTA 1 GTTTTTTTTTATATTTTTTA 131647 GTTTTTTTTTTATAATTTTTT 1 G-TTTTTTTTTAT-ATTTTTT 131668 TTAGATGTAA Statistics Matches: 33, Mismatches: 6, Indels: 3 0.79 0.14 0.07 Matches are distributed among these distances: 20 2 0.06 21 26 0.79 22 5 0.15 ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74 Consensus pattern (20 bp): GTTTTTTTTTATATTTTTTA Found at i:132217 original size:16 final size:17 Alignment explanation
Indices: 132196--132262 Score: 70 Period size: 16 Copynumber: 4.1 Consensus size: 17 132186 AAGCAAGAAT 132196 AAAAAAG-AAAGAAAGA 1 AAAAAAGAAAAGAAAGA * * 132212 AAAAAA-ACAAGCAAG- 1 AAAAAAGAAAAGAAAGA * 132227 AAAAAAGCAAAG-AAGA 1 AAAAAAGAAAAGAAAGA 132243 AAAAAAGAAAAGAAGAGA 1 AAAAAAGAAAAGAA-AGA 132261 AA 1 AA 132263 GGGAGGAGAA Statistics Matches: 41, Mismatches: 5, Indels: 8 0.76 0.09 0.15 Matches are distributed among these distances: 15 9 0.22 16 26 0.63 17 1 0.02 18 5 0.12 ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00 Consensus pattern (17 bp): AAAAAAGAAAAGAAAGA Found at i:132399 original size:28 final size:27 Alignment explanation
Indices: 132368--132455 Score: 96 Period size: 24 Copynumber: 3.4 Consensus size: 27 132358 AGAAGAGAAA * * 132368 AAAGAAAAAAGAAGAAGAAGAAAGAAAG 1 AAAGAAAAAAAAAGAAGAAGAAA-ACAG * * 132396 AAAGAAGAAGAAAGAAG-AGAAAA-A- 1 AAAGAAAAAAAAAGAAGAAGAAAACAG 132420 AAAGAAAAAAAAAG-AGAA-AAAACAG 1 AAAGAAAAAAAAAGAAGAAGAAAACAG 132445 AAAGAAAAAAA 1 AAAGAAAAAAA 132456 TTTTTAAACA Statistics Matches: 52, Mismatches: 5, Indels: 9 0.79 0.08 0.14 Matches are distributed among these distances: 23 6 0.12 24 14 0.27 25 12 0.23 26 1 0.02 27 5 0.10 28 14 0.27 ACGTcount: A:0.78, C:0.01, G:0.20, T:0.00 Consensus pattern (27 bp): AAAGAAAAAAAAAGAAGAAGAAAACAG Found at i:132428 original size:10 final size:10 Alignment explanation
Indices: 132365--132454 Score: 81 Period size: 10 Copynumber: 8.6 Consensus size: 10 132355 AGGAGAAGAG 132365 AAAAAAGAAA 1 AAAAAAGAAA * * 132375 AAAGAAGAAG 1 AAAAAAGAAA * 132385 AAGAAAGAAA 1 AAAAAAGAAA * * 132395 GAAAGAAGAAG 1 -AAAAAAGAAA * 132406 AAAGAAGAGAA 1 AAAAAAGA-AA 132417 AAAAAAGAAA 1 AAAAAAGAAA 132427 AAAAAAGAGAA 1 AAAAAAGA-AA * 132438 AAAACAGAAA 1 AAAAAAGAAA 132448 GAAAAAA 1 -AAAAAA 132455 ATTTTTAAAC Statistics Matches: 64, Mismatches: 12, Indels: 7 0.77 0.14 0.08 Matches are distributed among these distances: 10 35 0.55 11 29 0.45 ACGTcount: A:0.79, C:0.01, G:0.20, T:0.00 Consensus pattern (10 bp): AAAAAAGAAA Found at i:132435 original size:21 final size:20 Alignment explanation
Indices: 132365--132454 Score: 81 Period size: 21 Copynumber: 4.3 Consensus size: 20 132355 AGGAGAAGAG * * 132365 AAAAAAGAAAAAAGAAGAAG 1 AAAAAAGAAAAAAAAAGAAA * * * 132385 AAGAAAGAAAGAAAGAAGAAG 1 AAAAAAGAAA-AAAAAAGAAA * 132406 AAAGAAGAGAAAAAAAAGAAA 1 AAAAAAGA-AAAAAAAAGAAA * 132427 AAAAAAGAGAAAAAACAGAAA 1 AAAAAAGA-AAAAAAAAGAAA 132448 GAAAAAA 1 -AAAAAA 132455 ATTTTTAAAC Statistics Matches: 60, Mismatches: 7, Indels: 4 0.85 0.10 0.06 Matches are distributed among these distances: 20 9 0.15 21 43 0.72 22 8 0.13 ACGTcount: A:0.79, C:0.01, G:0.20, T:0.00 Consensus pattern (20 bp): AAAAAAGAAAAAAAAAGAAA Found at i:132794 original size:15 final size:15 Alignment explanation
Indices: 132769--132807 Score: 55 Period size: 14 Copynumber: 2.7 Consensus size: 15 132759 CAGCCCAACC 132769 AGAAA-AAAAAAAGA 1 AGAAAGAAAAAAAGA 132783 AGAAAGAAAAAAAGA 1 AGAAAGAAAAAAAGA * 132798 A-AAGGAAAAA 1 AGAAAGAAAAA 132808 GAAAAAAAAG Statistics Matches: 23, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 14 13 0.57 15 10 0.43 ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00 Consensus pattern (15 bp): AGAAAGAAAAAAAGA Found at i:132797 original size:12 final size:11 Alignment explanation
Indices: 132773--132816 Score: 52 Period size: 12 Copynumber: 3.7 Consensus size: 11 132763 CCAACCAGAA 132773 AAAAAAAAGAAG 1 AAAAAAAA-AAG 132785 AAAGAAAAAAAG 1 AAA-AAAAAAAG * 132797 AAAAGGAAAAAG 1 AAAA-AAAAAAG 132809 AAAAAAAA 1 AAAAAAAA 132817 GAGGAGCTCT Statistics Matches: 28, Mismatches: 2, Indels: 5 0.80 0.06 0.14 Matches are distributed among these distances: 11 4 0.14 12 19 0.68 13 5 0.18 ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00 Consensus pattern (11 bp): AAAAAAAAAAG Found at i:132818 original size:21 final size:20 Alignment explanation
Indices: 132771--132815 Score: 67 Period size: 20 Copynumber: 2.3 Consensus size: 20 132761 GCCCAACCAG 132771 AAAAAA-AAAAGAAGAAAGA 1 AAAAAAGAAAAGAAGAAAGA 132790 AAAAAAGAAAAGGAA-AAAGA 1 AAAAAAGAAAA-GAAGAAAGA 132810 AAAAAA 1 AAAAAA 132816 AGAGGAGCTC Statistics Matches: 24, Mismatches: 0, Indels: 3 0.89 0.00 0.11 Matches are distributed among these distances: 19 6 0.25 20 15 0.62 21 3 0.12 ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00 Consensus pattern (20 bp): AAAAAAGAAAAGAAGAAAGA Found at i:133368 original size:37 final size:36 Alignment explanation
Indices: 133300--133375 Score: 93 Period size: 35 Copynumber: 2.1 Consensus size: 36 133290 CGACCTTAAG * * 133300 AAAAAATTTTGTGTTTTCAACAATTCGTG-TTTCAA 1 AAAAAAATTTGTGTTTTCAACAATTCATGTTTTCAA 133335 AAAAAAATTTGTGTTTTC-ACAAATTTTCATGTTTTCAA 1 AAAAAAATTTGTGTTTTCAAC-AA--TTCATGTTTTCAA 133373 AAA 1 AAA 133376 TTTTTCATGT Statistics Matches: 35, Mismatches: 2, Indels: 5 0.83 0.05 0.12 Matches are distributed among these distances: 34 2 0.06 35 19 0.54 37 5 0.14 38 9 0.26 ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42 Consensus pattern (36 bp): AAAAAAATTTGTGTTTTCAACAATTCATGTTTTCAA Found at i:133382 original size:19 final size:18 Alignment explanation
Indices: 133346--133411 Score: 89 Period size: 18 Copynumber: 3.7 Consensus size: 18 133336 AAAAAATTTG * 133346 TGTTTTCACAAATTTTCA 1 TGTTTTCAAAAATTTTCA 133364 TGTTTTCAAAAATTTTTCA 1 TGTTTTCAAAAA-TTTTCA * * 133383 TG-TTTCAAAAATCTTCG 1 TGTTTTCAAAAATTTTCA 133400 TGTTTTCAAAAA 1 TGTTTTCAAAAA 133412 AAAAATTATG Statistics Matches: 43, Mismatches: 3, Indels: 4 0.86 0.06 0.08 Matches are distributed among these distances: 17 6 0.14 18 29 0.67 19 8 0.19 ACGTcount: A:0.32, C:0.14, G:0.08, T:0.47 Consensus pattern (18 bp): TGTTTTCAAAAATTTTCA Found at i:133452 original size:21 final size:21 Alignment explanation
Indices: 133389--133465 Score: 61 Period size: 21 Copynumber: 3.8 Consensus size: 21 133379 TTCATGTTTC * ** 133389 AAAAATCTTCGTGTTTTCAAA 1 AAAAATATTCGTGTTTTTTAA * * * * 133410 AAAAAAATT-ATG-TGTTTCA 1 AAAAATATTCGTGTTTTTTAA 133429 AAAAATATTCGTGTTTTTTAA 1 AAAAATATTCGTGTTTTTTAA 133450 AAAAAT-TCTCGTGTTT 1 AAAAATAT-TCGTGTTT 133466 CGTAATTTTT Statistics Matches: 42, Mismatches: 11, Indels: 6 0.71 0.19 0.10 Matches are distributed among these distances: 19 11 0.26 20 5 0.12 21 26 0.62 ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42 Consensus pattern (21 bp): AAAAATATTCGTGTTTTTTAA Found at i:133466 original size:39 final size:38 Alignment explanation
Indices: 133300--133454 Score: 99 Period size: 36 Copynumber: 4.1 Consensus size: 38 133290 CGACCTTAAG * * * 133300 AAAAAATTTTGTGTTTTC-AACA-ATTCGTG-TTTCAAA 1 AAAAAATTATGTG-TTTCAAAAATATTCGTGTTTTAAAA * * * * 133336 AAAAAATT-TGTGTTTTCACAAATTTTCATGTTTT---C 1 AAAAAATTATGTG-TTTCAAAAATATTCGTGTTTTAAAA * * * * 133371 AAAAATTTTTCATGTTTCAAAAATCTTCGTGTTTTCAAAA 1 AAAAAATTAT-GTGTTTCAAAAATATTCGTGTTTT-AAAA ** 133411 AAAAAATTATGTGTTTCAAAAAATATTCGTGTTTTTTAA 1 AAAAAATTATGTGTTTC-AAAAATATTCGTGTTTTAAAA 133450 AAAAA 1 AAAAA 133455 TTCTCGTGTT Statistics Matches: 92, Mismatches: 17, Indels: 17 0.73 0.13 0.13 Matches are distributed among these distances: 35 16 0.17 36 29 0.32 37 7 0.08 38 3 0.03 39 13 0.14 40 24 0.26 ACGTcount: A:0.39, C:0.10, G:0.09, T:0.43 Consensus pattern (38 bp): AAAAAATTATGTGTTTCAAAAATATTCGTGTTTTAAAA Found at i:136622 original size:20 final size:18 Alignment explanation
Indices: 136594--136647 Score: 63 Period size: 19 Copynumber: 2.8 Consensus size: 18 136584 GTTTAGGGGG 136594 TTTTTTATATTTTTTAAGT 1 TTTTTTATATTTTTT-AGT ** 136613 TTTTTATATATCCTTTAGT 1 TTTTT-TATATTTTTTAGT 136632 TTTTTTATAATTTTTT 1 TTTTTTAT-ATTTTTT 136648 TAGATGTAAA Statistics Matches: 29, Mismatches: 4, Indels: 4 0.78 0.11 0.11 Matches are distributed among these distances: 18 3 0.10 19 18 0.62 20 8 0.28 ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72 Consensus pattern (18 bp): TTTTTTATATTTTTTAGT Found at i:136649 original size:20 final size:18 Alignment explanation
Indices: 136593--136650 Score: 62 Period size: 20 Copynumber: 3.1 Consensus size: 18 136583 AGTTTAGGGG * 136593 GTTTTTTATATTTTTTAA 1 GTTTTTTATATTTTTTTA ** 136611 GTTTTTTATATATCCTTTA 1 GTTTTTTATAT-TTTTTTA 136630 GTTTTTTTATAATTTTTTTA 1 G-TTTTTTAT-ATTTTTTTA 136650 G 1 G 136651 ATGTAAAGTT Statistics Matches: 32, Mismatches: 5, Indels: 4 0.78 0.12 0.10 Matches are distributed among these distances: 18 11 0.34 19 5 0.16 20 14 0.44 21 2 0.06 ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69 Consensus pattern (18 bp): GTTTTTTATATTTTTTTA Done.