Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence Parameters: 2 7 7 80 10 50 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 3557051 ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33 File 15 of 17 Found at i:3106933 original size:15 final size:15 Alignment explanation
Indices: 3106910--3106972 Score: 90 Period size: 15 Copynumber: 4.2 Consensus size: 15 3106900 CGTAGGACTC 3106910 CTACATCCCGAAGGA 1 CTACATCCCGAAGGA * * 3106925 CTACGTCCCGAATGA 1 CTACATCCCGAAGGA 3106940 CTACATCCCGAAGGA 1 CTACATCCCGAAGGA * * 3106955 CTACGTCCTGAAGGA 1 CTACATCCCGAAGGA 3106970 CTA 1 CTA 3106973 TTATACCCTC Statistics Matches: 42, Mismatches: 6, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 15 42 1.00 ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17 Consensus pattern (15 bp): CTACATCCCGAAGGA Found at i:3106946 original size:30 final size:30 Alignment explanation
Indices: 3106910--3106972 Score: 108 Period size: 30 Copynumber: 2.1 Consensus size: 30 3106900 CGTAGGACTC * 3106910 CTACATCCCGAAGGACTACGTCCCGAATGA 1 CTACATCCCGAAGGACTACGTCCCGAAGGA * 3106940 CTACATCCCGAAGGACTACGTCCTGAAGGA 1 CTACATCCCGAAGGACTACGTCCCGAAGGA 3106970 CTA 1 CTA 3106973 TTATACCCTC Statistics Matches: 31, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 30 31 1.00 ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17 Consensus pattern (30 bp): CTACATCCCGAAGGACTACGTCCCGAAGGA Found at i:3107099 original size:29 final size:29 Alignment explanation
Indices: 3107057--3107134 Score: 149 Period size: 29 Copynumber: 2.7 Consensus size: 29 3107047 TTTCATATGT 3107057 TCATGTA-CTCATGTCATTTCTCTTGTGA 1 TCATGTAGCTCATGTCATTTCTCTTGTGA 3107085 TCATGTAGCTCATGTCATTTCTCTTGTGA 1 TCATGTAGCTCATGTCATTTCTCTTGTGA 3107114 TCATGTAGCTCATGTCATTTC 1 TCATGTAGCTCATGTCATTTC 3107135 ATATCATGTT Statistics Matches: 49, Mismatches: 0, Indels: 1 0.98 0.00 0.02 Matches are distributed among these distances: 28 7 0.14 29 42 0.86 ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45 Consensus pattern (29 bp): TCATGTAGCTCATGTCATTTCTCTTGTGA Found at i:3107163 original size:12 final size:12 Alignment explanation
Indices: 3107146--3107191 Score: 56 Period size: 12 Copynumber: 3.8 Consensus size: 12 3107136 TATCATGTTC * 3107146 TCATATCACAGG 1 TCATATCACAGA * 3107158 TCATATCACATA 1 TCATATCACAGA * 3107170 TCATATCACATA 1 TCATATCACAGA * 3107182 GCATATCACA 1 TCATATCACA 3107192 TGAACATATA Statistics Matches: 31, Mismatches: 3, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 12 31 1.00 ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28 Consensus pattern (12 bp): TCATATCACAGA Found at i:3107177 original size:24 final size:24 Alignment explanation
Indices: 3107146--3107192 Score: 69 Period size: 24 Copynumber: 2.0 Consensus size: 24 3107136 TATCATGTTC * 3107146 TCATATCACA-GGTCATATCACATA 1 TCATATCACATAG-CATATCACATA 3107170 TCATATCACATAGCATATCACAT 1 TCATATCACATAGCATATCACAT 3107193 GAACATATAT Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 24 20 0.95 25 1 0.05 ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30 Consensus pattern (24 bp): TCATATCACATAGCATATCACATA Found at i:3107192 original size:12 final size:12 Alignment explanation
Indices: 3107159--3107192 Score: 59 Period size: 12 Copynumber: 2.8 Consensus size: 12 3107149 TATCACAGGT * 3107159 CATATCACATAT 1 CATATCACATAG 3107171 CATATCACATAG 1 CATATCACATAG 3107183 CATATCACAT 1 CATATCACAT 3107193 GAACATATAT Statistics Matches: 21, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 12 21 1.00 ACGTcount: A:0.41, C:0.26, G:0.03, T:0.29 Consensus pattern (12 bp): CATATCACATAG Found at i:3107609 original size:64 final size:64 Alignment explanation
Indices: 3107541--3107661 Score: 179 Period size: 64 Copynumber: 1.9 Consensus size: 64 3107531 CATAAAAGGT * ** * * 3107541 ATTCGATGTAGTATTATTGCTGGGATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGC 1 ATTCGATGTAGTACTATTAATGGGATGCATCGATGCACTACTTATACATCGATGCACCAATTGC ** 3107605 ATTCGATGTTTTACTATTAATGGGATGCATCGATGCACTACTTATACATCGATGCAC 1 ATTCGATGTAGTACTATTAATGGGATGCATCGATGCACTACTTATACATCGATGCAC 3107662 ATTCATACAA Statistics Matches: 50, Mismatches: 7, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 64 50 1.00 ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34 Consensus pattern (64 bp): ATTCGATGTAGTACTATTAATGGGATGCATCGATGCACTACTTATACATCGATGCACCAATTGC Found at i:3108606 original size:12 final size:10 Alignment explanation
Indices: 3108580--3108609 Score: 60 Period size: 10 Copynumber: 3.0 Consensus size: 10 3108570 TTAGAATTAA 3108580 TTATATATTT 1 TTATATATTT 3108590 TTATATATTT 1 TTATATATTT 3108600 TTATATATTT 1 TTATATATTT 3108610 AAAAAAAATT Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 10 20 1.00 ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70 Consensus pattern (10 bp): TTATATATTT Found at i:3124566 original size:6 final size:6 Alignment explanation
Indices: 3124548--3124577 Score: 53 Period size: 6 Copynumber: 5.2 Consensus size: 6 3124538 TCGGAGATTT 3124548 GTTCGG G-TCGG GTTCGG GTTCGG GTTCGG G 1 GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG G 3124578 GCAAGGTATC Statistics Matches: 23, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 5 5 0.22 6 18 0.78 ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30 Consensus pattern (6 bp): GTTCGG Found at i:3124629 original size:9 final size:9 Alignment explanation
Indices: 3124603--3124670 Score: 52 Period size: 9 Copynumber: 7.6 Consensus size: 9 3124593 CGATTATATA * 3124603 TATATATATA 1 TATATAT-TT 3124613 TATAATATTT 1 TAT-ATATTT 3124623 TATATATTT 1 TATATATTT * 3124632 TATAT-TAAT 1 TATATAT-TT * 3124641 TATATA-TA 1 TATATATTT 3124649 TA-ATATTT 1 TATATATTT * 3124657 TATATTTTT 1 TATATATTT 3124666 TATAT 1 TATAT 3124671 TAATTATATA Statistics Matches: 47, Mismatches: 6, Indels: 11 0.73 0.09 0.17 Matches are distributed among these distances: 7 3 0.06 8 6 0.13 9 27 0.57 10 7 0.15 11 4 0.09 ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60 Consensus pattern (9 bp): TATATATTT Found at i:3124645 original size:25 final size:25 Alignment explanation
Indices: 3124617--3124681 Score: 69 Period size: 25 Copynumber: 2.5 Consensus size: 25 3124607 TATATATATA 3124617 ATATTTTATATATTTTATATTAATT 1 ATATTTTATATATTTTATATTAATT * ** 3124642 ATA-TATATAATATTTTATATTTTTT 1 ATATTTTAT-ATATTTTATATTAATT 3124667 ATATTAATTATATAT 1 ATATT--TTATATAT 3124682 AAAATATTTT Statistics Matches: 32, Mismatches: 4, Indels: 6 0.76 0.10 0.14 Matches are distributed among these distances: 24 4 0.12 25 20 0.62 26 1 0.03 27 4 0.12 28 3 0.09 ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62 Consensus pattern (25 bp): ATATTTTATATATTTTATATTAATT Found at i:3124646 original size:34 final size:34 Alignment explanation
Indices: 3124607--3124691 Score: 152 Period size: 34 Copynumber: 2.5 Consensus size: 34 3124597 TATATATATA 3124607 TATATATATAATATTTTATATATTTTATATTAAT 1 TATATATATAATATTTTATATATTTTATATTAAT * 3124641 TATATATATAATATTTTATATTTTTTATATTAAT 1 TATATATATAATATTTTATATATTTTATATTAAT * 3124675 TATATATAAAATATTTT 1 TATATATATAATATTTT 3124692 CGGGTTCGGG Statistics Matches: 49, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 34 49 1.00 ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59 Consensus pattern (34 bp): TATATATATAATATTTTATATATTTTATATTAAT Found at i:3125636 original size:13 final size:13 Alignment explanation
Indices: 3125618--3125642 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3125608 AAACTTAAAG 3125618 ATTTATAATTATT 1 ATTTATAATTATT 3125631 ATTTATAATTAT 1 ATTTATAATTAT 3125643 ACTAACATTT 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:0.40, C:0.00, G:0.00, T:0.60 Consensus pattern (13 bp): ATTTATAATTATT Found at i:3127160 original size:22 final size:19 Alignment explanation
Indices: 3127118--3127167 Score: 59 Period size: 19 Copynumber: 2.7 Consensus size: 19 3127108 ATAAAGCTAA 3127118 AAATAAAAAAATATTAAAT 1 AAATAAAAAAATATTAAAT * * 3127137 AAAT-CAAAAATA-TATAT 1 AAATAAAAAAATATTAAAT 3127154 AAGATAAAAAAATA 1 AA-ATAAAAAAATA 3127168 CAAGAAAGAA Statistics Matches: 26, Mismatches: 3, Indels: 4 0.79 0.09 0.12 Matches are distributed among these distances: 17 6 0.23 18 9 0.35 19 11 0.42 ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24 Consensus pattern (19 bp): AAATAAAAAAATATTAAAT Found at i:3127163 original size:18 final size:18 Alignment explanation
Indices: 3127118--3127164 Score: 51 Period size: 18 Copynumber: 2.6 Consensus size: 18 3127108 ATAAAGCTAA 3127118 AAATAAAAAAATATTAAAT 1 AAAT-AAAAAATATTAAAT * * 3127137 AAATCAAAAATA-TATAT 1 AAATAAAAAATATTAAAT 3127154 AAGATAAAAAA 1 AA-ATAAAAAA 3127165 ATACAAGAAA Statistics Matches: 24, Mismatches: 3, Indels: 3 0.80 0.10 0.10 Matches are distributed among these distances: 17 6 0.25 18 14 0.58 19 4 0.17 ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23 Consensus pattern (18 bp): AAATAAAAAATATTAAAT Found at i:3127370 original size:20 final size:20 Alignment explanation
Indices: 3127345--3127383 Score: 53 Period size: 20 Copynumber: 1.9 Consensus size: 20 3127335 TGCAATACAA 3127345 AAATAA-AAAAAGTAAAAAAT 1 AAATAATAAAAA-TAAAAAAT * 3127365 AAATAATAATAATAAAAAA 1 AAATAATAAAAATAAAAAA 3127384 GAATTATTAA Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 20 13 0.76 21 4 0.24 ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18 Consensus pattern (20 bp): AAATAATAAAAATAAAAAAT Found at i:3128544 original size:17 final size:16 Alignment explanation
Indices: 3128516--3128550 Score: 52 Period size: 17 Copynumber: 2.1 Consensus size: 16 3128506 GGAAAAAAAC * 3128516 AAAAAAAGAAATTAAT 1 AAAAAAAGAAATAAAT 3128532 AAAAAAAGAAAATAAAT 1 AAAAAAAG-AAATAAAT 3128549 AA 1 AA 3128551 TAATAATAAT Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 16 8 0.47 17 9 0.53 ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14 Consensus pattern (16 bp): AAAAAAAGAAATAAAT Found at i:3128721 original size:38 final size:37 Alignment explanation
Indices: 3128634--3129015 Score: 296 Period size: 38 Copynumber: 10.5 Consensus size: 37 3128624 AAAAAAAATC * * 3128634 AAAACTATATATTATAT-AGTTTTC-AAAAT-TAATAT 1 AAAACTATATATTATATAAGTTTTCAAAAATGT-TTTT 3128669 AAAA--A-ATATTATATAAGTTTTCAAAAAATGTTTTT 1 AAAACTATATATTATATAAGTTTTC-AAAAATGTTTTT * * 3128704 AAAACCATATATTATATAATTTTTCAAAAATGTTTTT 1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTT * * 3128741 AAAACTATATA-TATATAACTTTTTTCAAAAATGTTTTA 1 AAAACTATATATTATATAA--GTTTTCAAAAATGTTTTT * 3128779 AAAAC--TATA-TATATAAGTTTTTTCAAAAATG-TTTA 1 AAAACTATATATTATATAAG--TTTTCAAAAATGTTTTT * * 3128814 AAAACTATATATTATATAAGTTTTCAAAATTGTTTTA 1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTT * * * 3128851 AAAACTATATATTATATACA-TATTTCCAAAATGATTTC 1 AAAACTATATATTATATA-AGT-TTTCAAAAATGTTTTT * * ** 3128889 AAAACTATATATTAAATATA-TTTTCAAAAGCA-CTTTCA 1 AAAACTATATATTATATA-AGTTTTCAAAA--ATGTTTTT * * * ** 3128927 AAAATTATACATTATATATGTTTTC-AAAAT-TTTCC 1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTT * * * 3128962 AAAACTATATAATATATATA-TTTTC-GAAATGCTTTT 1 AAAACTATATATTATATA-AGTTTTCAAAAATGTTTTT * * 3128998 GAAACTATATAGTATATA 1 AAAACTATATATTATATA 3129016 TATTTTAGAA Statistics Matches: 291, Mismatches: 33, Indels: 45 0.79 0.09 0.12 Matches are distributed among these distances: 32 9 0.03 33 8 0.03 35 53 0.18 36 60 0.21 37 60 0.21 38 100 0.34 39 1 0.00 ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43 Consensus pattern (37 bp): AAAACTATATATTATATAAGTTTTCAAAAATGTTTTT Found at i:3129736 original size:84 final size:84 Alignment explanation
Indices: 3129648--3130476 Score: 735 Period size: 84 Copynumber: 10.0 Consensus size: 84 3129638 ACTATGTTGT * * * * * * ** * 3129648 AAATGATTTGTCTTGGAACTGAGCGTAGTAGAACTCGAATATCTTTGGTTGGAAGATAACCCTTC 1 AAATGATGTGCCTTCGAACTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC 3129713 TAGCCTTGAGTTATGCAGC 66 TAGCCTTGAGTTATGCAGC * * * * * * 3129732 AAATGATATGCCCTCGAAGCTAAGTGTAATCGAACTCG-AGG---GTGTTTGGCAGATAGCCCTT 1 AAATGATGTGCCTTCGAA-CTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT * * 3129793 CTAGCCTTGAGTTATACCGC 65 CTAGCCTTGAGTTATGCAGC * * * * 3129813 AAATGATGTGTCGTT-GAGA-TGAGTGTAATCGAACTCAAAGGTCTTT-GTTGACAGATAATCCT 1 AAATGATGTG-CCTTCGA-ACTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCT * 3129875 TCTAGCCTTGAGTTTTGCTA-C 64 TCTAGCCTTGAGTTATGC-AGC * * * * * * 3129896 AAATGATGTGCCCTCGAAGTTGATTATAATCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTT 1 AAATGATGTGCCTTCGAA-CTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT * * * * 3129961 CTCGACTTAAGCTATGCCA-C 65 CTAGCCTTGAGTTATG-CAGC * * * * * * 3129981 AAATGATGTGCCTTTGAGCTGAGTGTAGTCAAACTCGAAGGTCTAT-GTTGGTAGATAACCCTTC 1 AAATGATGTGCCTTCGAACTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC * * 3130045 TAGCCTTAAGTTATGCTGC 66 TAGCCTTGAGTTATGCAGC * * * * * 3130064 AAAAGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTTTTTGGTTGGCGGATAACCCTT 1 AAATGATGTGCCTTCGAA-CTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT * 3130129 CT---C--GA-TTATGCTGC 65 CTAGCCTTGAGTTATGCAGC * * * * * * * 3130143 AAATAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGTAGATAACCC-TC 1 AAATGATGTGCCTTCGAACTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC * * 3130207 TTAGCCTTGAGTTATACTGC 66 -TAGCCTTGAGTTATGCAGC * * * * * * * * 3130227 AAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCATATAGCCCTTC 1 AAATGATGTGCCTTCGAACTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC * 3130292 TAGCCTTGAGCTATGCTAG- 66 TAGCCTTGAGTTATGC-AGC * * * * * * * 3130311 AAATGTTGCGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGATCTTTTGG-TGGCAGATAACCCTT 1 AAATGATGTGCCTTCGAACTGAGTGTAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTT 3130375 CTAGCCTTGAGTTATGCTA-C 65 CTAGCCTTGAGTTATGC-AGC * * * * 3130395 AAATGATCTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTT 1 AAATGATGTGCCTTCGAA-CTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT 3130460 CTAGCCTTGAGTTATGC 65 CTAGCCTTGAGTTATGC 3130477 TGTAAATAAA Statistics Matches: 605, Mismatches: 111, Indels: 57 0.78 0.14 0.07 Matches are distributed among these distances: 77 2 0.00 78 38 0.06 79 22 0.04 80 17 0.03 81 49 0.08 82 8 0.01 83 86 0.14 84 247 0.41 85 135 0.22 86 1 0.00 ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31 Consensus pattern (84 bp): AAATGATGTGCCTTCGAACTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC TAGCCTTGAGTTATGCAGC Found at i:3130024 original size:168 final size:168 Alignment explanation
Indices: 3129648--3130463 Score: 884 Period size: 168 Copynumber: 4.9 Consensus size: 168 3129638 ACTATGTTGT * * * * * ** * 3129648 AAATGATTTGTCTTGGAACTGAGCGTAGTAGAACTCGAATATCTTTGGTTGGAAGATAACCCTTC 1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC * * 3129713 TAGCCTTGAGTTATGC-AGCAAATGATATGCCCTCGAAGCTAAGTGTAATCGAACTCG-AGG--- 65 TAGCCTTGAGTTATGCTA-CAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCT * * * * * * * 3129773 GTGTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATACCGC 129 TTGGTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCCAC * * * * * * * * 3129813 AAATGATGTGTCGTTGAGATGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAATCCTTCT 1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT * * * * * 3129878 AGCCTTGAGTTTTGCTACAAATGATGTGCCCTCGAAGTTGATTATAATCAAACTCGAAGGTCTTT 66 AGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT * 3129943 GGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCCAC 131 GGTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCCAC * * * * 3129981 AAATGATGTGCCTTTGAGCTGAGTGTAGTCAAACTCGAAGGTCTATGTTGGTAGATAACCCTTCT 1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT * * * * * 3130046 AGCCTTAAGTTATGCTGCAAAAGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTTTTT 66 AGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT * * * * 3130111 GGTTGGCGGATAACCCTTCTCGA-TTATGC--TG---C 131 GGTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCCAC * * 3130143 AAATAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGTAGATAACCC-TC 1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC * * * * * * 3130207 TTAGCCTTGAGTTATACTGCAAATGATGTGCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCT 65 -TAGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCT * * * * * * * 3130271 TTTGTTAGCATATAGCCCTTCTAGCCTTGAGCTATGCTAG 129 TTGGTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCCAC * * * * * 3130311 AAATGTTGCGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGATCTTTTGGTGGCAGATAACCCTTC 1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC * * 3130376 TAGCCTTGAGTTATGCTACAAATGATCTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGTCTT 65 TAGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT * * 3130441 TTGTTGGCAGATAACCCTTCTAG 130 TGGTTGGCAGATAGCCCTTCTAG 3130464 CCTTGAGTTA Statistics Matches: 543, Mismatches: 93, Indels: 26 0.82 0.14 0.04 Matches are distributed among these distances: 162 85 0.16 163 51 0.09 164 63 0.12 165 43 0.08 167 5 0.01 168 247 0.45 169 49 0.09 ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31 Consensus pattern (168 bp): AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT AGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT GGTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCCAC Found at i:3130456 original size:331 final size:332 Alignment explanation
Indices: 3129659--3130462 Score: 951 Period size: 331 Copynumber: 2.4 Consensus size: 332 3129649 AATGATTTGT * * * 3129659 CTTGGAACTGAGCGTAGTAGAACTCGAATATCTTTGGTTGGAAGATAACCCTTCTAGCCTTGAGT 1 CTTGGAGCTGAGCGTAGTCGAACTCGAAGATCTTTGG-TGGAAGATAACCCTTCTAGCCTTGAGT * * * 3129724 TATGC-AGCAAATGATATGCCCTCGAAGCTAAGTGTAATCGAACTCG-AGG-GTGT-TTGGCAGA 65 TATGCTA-CAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTTTTTGTTGGCAGA * * * * 3129785 TAGCCCTTCTAGCCTTGAGTTATACCGCAAATGATGTGTCGTTGAGATGAGTGTAATCGAACTCA 129 TAACCCTTCTA--C-TGAGTTATACCGCAAATAATGTGCCGTTGAGATGAGCGTAATCGAACTCA * * * * 3129850 AAGGTCTTTGTTGACAGATAATCCTTCTAGCCTTGAGTTTTGCTACAAATGATGTGCCCTCGAAG 191 AAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTACAAATGATGTGCCCTAGAAG * ** * * 3129915 TTGATTATAATCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCCA 256 CTGAGCATAATCAAACTCGAAGGTCTTTGGTTAGCAGATAGCCCTTCTAGACTTAAGCTATGCCA * 3129980 CAAATGATGTGC 321 CAAATGATGCGC * * * * * * * * 3129992 CTTTGAGCTGAGTGTAGTCAAACTCGAAGGTCTATGTTGGTAGATAACCCTTCTAGCCTTAAGTT 1 CTTGGAGCTGAGCGTAGTCGAACTCGAAGATCTTTGGTGGAAGATAACCCTTCTAGCCTTGAGTT * * * * * 3130057 ATGCTGCAAAAGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTTTTTGGTTGGCGGAT 66 ATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTTTTT-GTTGGCAGAT * * * * * * 3130122 AACCCTTCT-C-GA-TTATGCTGCAAATAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGG 130 AACCCTTCTACTGAGTTATACCGCAAATAATGTGCCGTTGAGATGAGCGTAATCGAACTCAAAGG ** * * 3130184 TCTTTTGTTGGTAGATAACCC-TCTTAGCCTTGAGTTATACTGCAAATGATGTGCCTTAG-AGCT 195 TC-TTTGTTGACAGATAACCCTTC-TAGCCTTGAGTTATACTACAAATGATGTGCCCTAGAAGCT * * * * * * * * * 3130247 GAGCGTAGTCGAACTCGAAGGTCTTTTGTTAGCATATAGCCCTTCTAGCCTTGAGCTATGCTAGA 258 GAGCATAATCAAACTCGAAGGTCTTTGGTTAGCAGATAGCCCTTCTAGACTTAAGCTATGCCACA * 3130312 AATGTTGCGC 323 AATGATGCGC * 3130322 CTTGGAGCTGAGCGTAGTCGAACTCGAAGATCTTTTGGTGGCAGATAACCCTTCTAGCCTTGAGT 1 CTTGGAGCTGAGCGTAGTCGAACTCGAAGATC-TTTGGTGGAAGATAACCCTTCTAGCCTTGAGT * * 3130387 TATGCTACAAATGATCTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGA 65 TATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGT-TTTTGTTGGCAGA 3130452 TAACCCTTCTA 129 TAACCCTTCTA 3130463 GCCTTGAGTT Statistics Matches: 394, Mismatches: 67, Indels: 21 0.82 0.14 0.04 Matches are distributed among these distances: 330 136 0.35 331 139 0.35 332 69 0.18 333 32 0.08 334 2 0.01 336 16 0.04 ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31 Consensus pattern (332 bp): CTTGGAGCTGAGCGTAGTCGAACTCGAAGATCTTTGGTGGAAGATAACCCTTCTAGCCTTGAGTT ATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTTTTTGTTGGCAGATA ACCCTTCTACTGAGTTATACCGCAAATAATGTGCCGTTGAGATGAGCGTAATCGAACTCAAAGGT CTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTACAAATGATGTGCCCTAGAAGCTGAG CATAATCAAACTCGAAGGTCTTTGGTTAGCAGATAGCCCTTCTAGACTTAAGCTATGCCACAAAT GATGCGC Found at i:3131786 original size:95 final size:94 Alignment explanation
Indices: 3131597--3131857 Score: 337 Period size: 95 Copynumber: 2.7 Consensus size: 94 3131587 GACTAGCTGG * * * * * 3131597 ATCCATAAAGCCGAGTCGTTTAACCAATTGCTCTAGAGGGATAGCTCAATATCATTGTATAG-AT 1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGA-AACTC-A-AGC-TT-TATTGTAT 3131661 ATTATAATCACCTTTATCAAGCTAGCTGAATATT 61 ATTATAATCACCTTTATCAAGCTAGCTGAATATT * * * 3131695 ATCCATAGAGCCGGGGCGTTTAACCAATTGCTCTAGCGGGACAACTCGAGCTTTATTGTATATTA 1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGA-AACTCAAGCTTTATTGTATATTA * * 3131760 TAATCACCTTTATCAGGCTAGCTGAATCTT 65 TAATCACCTTTATCAAGCTAGCTGAATATT * * 3131790 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGAAAGCTCAAGCTTTATTGTATA-TA 1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGAAA-CTCAAGCTTTATTGTATATTA 3131854 TAAT 65 TAAT 3131858 ATTATAATCT Statistics Matches: 145, Mismatches: 16, Indels: 8 0.86 0.09 0.05 Matches are distributed among these distances: 94 12 0.08 95 90 0.62 96 2 0.01 98 41 0.28 ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32 Consensus pattern (94 bp): ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGAAACTCAAGCTTTATTGTATATTAT AATCACCTTTATCAAGCTAGCTGAATATT Found at i:3134493 original size:22 final size:22 Alignment explanation
Indices: 3134448--3134528 Score: 56 Period size: 22 Copynumber: 3.5 Consensus size: 22 3134438 AAATTAAATG * * * 3134448 AAAAATAAAGCTAAAAAAAGTAA 1 AAAAATAAA-ATAAAAATATTAA 3134471 AAAAATAAAATAAAAATATTAA 1 AAAAATAAAATAAAAATATTAA * ** * 3134493 ATAAACCAAA-AAATATATATAA 1 AAAAATAAAATAAAAATAT-TAA 3134515 GATAAAATAAAATA 1 -A-AAAATAAAATA 3134529 CAAGAAAGAA Statistics Matches: 44, Mismatches: 10, Indels: 6 0.73 0.17 0.10 Matches are distributed among these distances: 21 7 0.16 22 20 0.45 23 10 0.23 24 6 0.14 25 1 0.02 ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20 Consensus pattern (22 bp): AAAAATAAAATAAAAATATTAA Found at i:3134496 original size:18 final size:20 Alignment explanation
Indices: 3134473--3134528 Score: 62 Period size: 21 Copynumber: 2.8 Consensus size: 20 3134463 AAAAGTAAAA 3134473 AAATAAAATAAAA-ATAT-T 1 AAATAAAATAAAATATATAT * 3134491 AAATAAACCAAAAAATATATAT 1 AAATAAA--ATAAAATATATAT 3134513 AAGATAAAATAAAATA 1 AA-ATAAAATAAAATA 3134529 CAAGAAAGAA Statistics Matches: 31, Mismatches: 2, Indels: 7 0.77 0.05 0.17 Matches are distributed among these distances: 18 7 0.23 20 5 0.16 21 11 0.35 22 3 0.10 23 5 0.16 ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23 Consensus pattern (20 bp): AAATAAAATAAAATATATAT Found at i:3134738 original size:3 final size:3 Alignment explanation
Indices: 3134732--3134763 Score: 64 Period size: 3 Copynumber: 10.7 Consensus size: 3 3134722 GTAAAAAATA 3134732 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA 1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA 3134764 AGAATTATTA 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:0.69, C:0.00, G:0.00, T:0.31 Consensus pattern (3 bp): AAT Found at i:3135288 original size:31 final size:32 Alignment explanation
Indices: 3135236--3135318 Score: 107 Period size: 33 Copynumber: 2.5 Consensus size: 32 3135226 TAATATAATA 3135236 TAAACTATATAATATATATTTTAAAAATA-TTTT- 1 TAAACTATAT-AT-TATATTTTAAAAA-AGTTTTC 3135269 TAAACTATATATTATATTTTTAAAAAAGTTTTC 1 TAAACTATATATTATA-TTTTAAAAAAGTTTTC * 3135302 AAAACTATATATTATAT 1 TAAACTATATATTATAT 3135319 AGTTTTGAAA Statistics Matches: 46, Mismatches: 1, Indels: 7 0.85 0.02 0.13 Matches are distributed among these distances: 31 5 0.11 32 16 0.35 33 25 0.54 ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47 Consensus pattern (32 bp): TAAACTATATATTATATTTTAAAAAAGTTTTC Found at i:3135318 original size:38 final size:37 Alignment explanation
Indices: 3135237--3135698 Score: 249 Period size: 39 Copynumber: 12.6 Consensus size: 37 3135227 AATATAATAT * 3135237 AAACTATATA--ATATATA-TTTTAAAAATA-TTTT-T 1 AAACTATATATTATATATATTTTTAAAAA-AGTTTTCA 3135270 AAAC--TATA-TAT-TATATTTTTAAAAAAGTTTTCA 1 AAACTATATATTATATATATTTTTAAAAAAGTTTTCA * * 3135303 AAACTATATATTATATA-GTTTTGAAAATTAA--TTT-- 1 AAACTATATATTATATATATTTTTAAAA--AAGTTTTCA * * 3135337 AAA--A-ATATTATATA-AGTTTTCAAAAAATGTTTTTA 1 AAACTATATATTATATATA-TTTTTAAAAAA-GTTTTCA * * * * 3135372 AAACCATACATTATATA-ATTTTTCAAAAATGTTTTTA 1 AAACTATATATTATATATATTTTT-AAAAAAGTTTTCA * * * 3135409 AAACTATATATTATATAAATTTTTTCAAAAATGTTTTAA 1 AAACTATATATTATATATA-TTTTT-AAAAAAGTTTTCA * * 3135448 AAACTATATATTATATA-AGCTTTTTCAAAAATGTTTTAA 1 AAACTATATATTATATATA--TTTTT-AAAAAAGTTTTCA * * 3135487 AAACTATATATTATATA-AGTTTTCAAAAAATGTTTTAA 1 AAACTATATATTATATATA-TTTTTAAAAAA-GTTTTCA * * * 3135525 AAACTATATATTATATATATATATTTCCAAAATGATTTCA 1 AAACTATATATTATATATAT-T-TTT-AAAAAAGTTTTCA * * * 3135565 AAACTATATATTATATATATATATT-CAAAAGCACTTTCAA 1 AAACTATATATTATATATAT-TTTTAAAAAAG--TTTTC-A * * * 3135605 AAACTATACATTATATAT-GTTTT-CAAAA-TTTTCCA 1 AAACTATATATTATATATATTTTTAAAAAAGTTTT-CA * * ** * * 3135640 AAACTATATAATATATATA-TATTCGAAATGTTTAT-G 1 AAACTATATATTATATATATTTTTAAAAAAGTTT-TCA * 3135676 AAACTATATAGTATATATATTTT 1 AAACTATATATTATATATATTTT 3135699 AGAAAATCGT Statistics Matches: 356, Mismatches: 36, Indels: 70 0.77 0.08 0.15 Matches are distributed among these distances: 30 2 0.01 31 19 0.05 32 24 0.07 33 11 0.03 34 3 0.01 35 30 0.08 36 36 0.10 37 43 0.12 38 57 0.16 39 80 0.22 40 47 0.13 41 4 0.01 ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44 Consensus pattern (37 bp): AAACTATATATTATATATATTTTTAAAAAAGTTTTCA Found at i:3135444 original size:39 final size:38 Alignment explanation
Indices: 3135341--3135698 Score: 315 Period size: 39 Copynumber: 9.4 Consensus size: 38 3135331 TAATTTAAAA * * * 3135341 ATATTATAT-AAGTTTTCAAAAAATGTTTTTAAAACCAT 1 ATATTATATAAATTTTTC-AAAAATGTTTTAAAAACTAT * * 3135379 ACATTATAT-AATTTTTCAAAAATGTTTTTAAAACTAT 1 ATATTATATAAATTTTTCAAAAATGTTTTAAAAACTAT 3135416 ATATTATATAAATTTTTTCAAAAATGTTTTAAAAACTAT 1 ATATTATATAAA-TTTTTCAAAAATGTTTTAAAAACTAT * 3135455 ATATTATATAAGCTTTTTCAAAAATGTTTTAAAAACTAT 1 ATATTATATAA-ATTTTTCAAAAATGTTTTAAAAACTAT * 3135494 ATATTATAT-AAGTTTTCAAAAAATGTTTTAAAAACTAT 1 ATATTATATAAATTTTTC-AAAAATGTTTTAAAAACTAT * * * * 3135532 ATATTATATATATATATTTCCAAAATGATTTCAAAACTAT 1 ATATTATATA-A-ATTTTTCAAAAATGTTTTAAAAACTAT * * * * 3135572 ATATTATATATATATATTCAAAAGCA-CTTTCAAAAACTAT 1 ATATTATATAAAT-TTTTCAAAA--ATGTTTTAAAAACTAT * ** 3135612 ACATTATAT--ATGTTTTC-AAAAT-TTTCCAAAACTAT 1 ATATTATATAAAT-TTTTCAAAAATGTTTTAAAAACTAT * * * * * 3135647 ATAATATATATA-TATTC-GAAATG-TTTATGAAACTAT 1 ATATTATATAAATTTTTCAAAAATGTTTTA-AAAACTAT * * 3135683 ATAGTATATATATTTT 1 ATATTATATAAATTTT 3135699 AGAAAATCGT Statistics Matches: 270, Mismatches: 34, Indels: 33 0.80 0.10 0.10 Matches are distributed among these distances: 35 30 0.11 36 18 0.07 37 38 0.14 38 55 0.20 39 77 0.29 40 46 0.17 41 6 0.02 ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43 Consensus pattern (38 bp): ATATTATATAAATTTTTCAAAAATGTTTTAAAAACTAT Found at i:3135682 original size:36 final size:36 Alignment explanation
Indices: 3135361--3135851 Score: 193 Period size: 39 Copynumber: 13.2 Consensus size: 36 3135351 AGTTTTCAAA * * * * * 3135361 AAATGTTTTTAAAACCATACATTATATA-ATTTTTCAA 1 AAATGTTTATAAAACTATATAATATATATA-TTTTC-G * * * * 3135398 AAATGTTTTTAAAACTATATATTATATAAATTTTTTCAA 1 AAATGTTTATAAAACTATATA--ATATATATATTTTC-G * * 3135437 AAATGTTT-TAAAAACTATATATTATATA-AGCTTTTTCAA 1 AAATGTTTAT-AAAACTATATAATATATATA---TTTTC-G * * 3135476 AAATGTTT-TAAAAACTATATATTATATA-AGTTTTCAAA 1 AAATGTTTAT-AAAACTATATAATATATATA-TTTTC--G * 3135514 AAATGTTT-TAAAAACTATATATTATATATATATATTTCCA 1 AAATGTTTAT-AAAACTATATA--ATATATATAT-TTT-CG * * 3135554 AAATGATTT-CAAAACTATATATTATATATATATATTC- 1 AAATG-TTTATAAAACTATATA--ATATATATATTTTCG * * * * * 3135591 AAAAGCACTTTCA-AAAACTATACATTATATATGTTTTCA 1 AAATG---TTT-ATAAAACTATATAATATATATATTTTCG ** * 3135630 AAAT-TTTCCAAAACTATATAATATATATATATTCG 1 AAATGTTTATAAAACTATATAATATATATATTTTCG * * * 3135665 AAATGTTTATGAAACTATATAGTATATATATTTTAG 1 AAATGTTTATAAAACTATATAATATATATATTTTCG * * * * ** 3135701 AAAATCGTTTAAAAACACTTTCA-AAGAT-TATATTATAT 1 -AAAT-GTTTATAAA-ACTAT-ATAATATATATATTTTCG * * * * * * * 3135739 TACT-TTCA-AAAACTATACATTATATATGTTTTCA 1 AAATGTTTATAAAACTATATAATATATATATTTTCG ** * 3135773 AAAT-TTTCCAAACCTATATAATATATATATTTTCG 1 AAATGTTTATAAAACTATATAATATATATATTTTCG * * * 3135808 AAATGTTTTTGAAACTATATAGTATATATATTTTCG 1 AAATGTTTATAAAACTATATAATATATATATTTTCG 3135844 AAATGTTT 1 AAATGTTT 3135852 TCAAAAAATA Statistics Matches: 363, Mismatches: 62, Indels: 59 0.75 0.13 0.12 Matches are distributed among these distances: 32 1 0.00 33 7 0.02 34 13 0.04 35 56 0.15 36 59 0.16 37 39 0.11 38 51 0.14 39 82 0.23 40 47 0.13 41 7 0.02 42 1 0.00 ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43 Consensus pattern (36 bp): AAATGTTTATAAAACTATATAATATATATATTTTCG Found at i:3139950 original size:63 final size:63 Alignment explanation
Indices: 3139837--3139972 Score: 143 Period size: 63 Copynumber: 2.2 Consensus size: 63 3139827 TTCAATGTGT * * 3139837 ATCGATGCACTCTCAAATAAATAAACATCGAATGCAATTAATGCATCGATGCATAAGGA-A-TGC 1 ATCGATGCACTCCCAAATAAATAAACATCGAATGCAATTAATGCACCGATG--TAAGGATAGTGC ** * ** * * 3139900 ATCGATGCACTCCCTTA-AAATGAAACATCGAATGTAATTTGTGTACCGATGTATGGATAGTGC 1 ATCGATGCACTCCCAAATAAAT-AAACATCGAATGCAATTAATGCACCGATGTAAGGATAGTGC 3139963 ATCGATGCAC 1 ATCGATGCAC 3139973 ATGTTAAGGA Statistics Matches: 61, Mismatches: 9, Indels: 6 0.80 0.12 0.08 Matches are distributed among these distances: 61 5 0.08 62 5 0.08 63 51 0.84 ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26 Consensus pattern (63 bp): ATCGATGCACTCCCAAATAAATAAACATCGAATGCAATTAATGCACCGATGTAAGGATAGTGC Found at i:3140707 original size:32 final size:31 Alignment explanation
Indices: 3140666--3140787 Score: 111 Period size: 32 Copynumber: 3.8 Consensus size: 31 3140656 AGTCGAGGGT 3140666 TTACCTATGTTCTACGGAACATATGGATAGAA 1 TTACCTATG-TCTACGGAACATATGGATAGAA * * * * 3140698 TTACCTATGTCTTTCGGGACATATGAACAGAA 1 TTACCTATGTC-TACGGAACATATGGATAGAA *** * 3140730 TTACCTATGTCTTTTGAGACATATGGATAGTA 1 TTACCTATGTCTACGGA-ACATATGGATAGAA * * 3140762 -TATCTATGTTCTAAGGAACATATGGA 1 TTACCTATG-TCTACGGAACATATGGA 3140788 CAGTTTACAT Statistics Matches: 73, Mismatches: 14, Indels: 7 0.78 0.15 0.07 Matches are distributed among these distances: 31 21 0.29 32 52 0.71 ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34 Consensus pattern (31 bp): TTACCTATGTCTACGGAACATATGGATAGAA Found at i:3144315 original size:20 final size:20 Alignment explanation
Indices: 3144290--3144353 Score: 76 Period size: 20 Copynumber: 3.2 Consensus size: 20 3144280 GAATCCCCTA ** 3144290 GAACCAATTTGAGTCAAGTC 1 GAACCAATTTGAGTCAACCC * * 3144310 GAACCAGTCTGAGTCAACCC 1 GAACCAATTTGAGTCAACCC 3144330 GAACCGAA-TTGAGTCAACCC 1 GAACC-AATTTGAGTCAACCC 3144350 GAAC 1 GAAC 3144354 AAACCCACAC Statistics Matches: 37, Mismatches: 6, Indels: 2 0.82 0.13 0.04 Matches are distributed among these distances: 20 36 0.97 21 1 0.03 ACGTcount: A:0.34, C:0.28, G:0.20, T:0.17 Consensus pattern (20 bp): GAACCAATTTGAGTCAACCC Found at i:3147849 original size:4 final size:4 Alignment explanation
Indices: 3147835--3147877 Score: 77 Period size: 4 Copynumber: 10.8 Consensus size: 4 3147825 TTTGGTAGAG * 3147835 AGAA GGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA 1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA 3147878 CAGAGAAAGC Statistics Matches: 37, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 4 37 1.00 ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00 Consensus pattern (4 bp): AGAA Found at i:3151827 original size:90 final size:90 Alignment explanation
Indices: 3151676--3151856 Score: 344 Period size: 90 Copynumber: 2.0 Consensus size: 90 3151666 CAGATGCAAC * * 3151676 CTGCAGCTGCGACGTCGGCACCATCATCGTCATCGCCTCCCCCTCCGGCTGATCAGAATTCTGAG 1 CTGCAGCTGCGACGGCAGCACCATCATCGTCATCGCCTCCCCCTCCGGCTGATCAGAATTCTGAG 3151741 AAATGGGGGACGCATATCATGGGAG 66 AAATGGGGGACGCATATCATGGGAG 3151766 CTGCAGCTGCGACGGCAGCACCATCATCGTCATCGCCTCCCCCTCCGGCTGATCAGAATTCTGAG 1 CTGCAGCTGCGACGGCAGCACCATCATCGTCATCGCCTCCCCCTCCGGCTGATCAGAATTCTGAG 3151831 AAATGGGGGACGCATATCATGGGAG 66 AAATGGGGGACGCATATCATGGGAG 3151856 C 1 C 3151857 ACCGGCCGTT Statistics Matches: 89, Mismatches: 2, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 90 89 1.00 ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19 Consensus pattern (90 bp): CTGCAGCTGCGACGGCAGCACCATCATCGTCATCGCCTCCCCCTCCGGCTGATCAGAATTCTGAG AAATGGGGGACGCATATCATGGGAG Found at i:3155380 original size:20 final size:20 Alignment explanation
Indices: 3155355--3155395 Score: 82 Period size: 20 Copynumber: 2.0 Consensus size: 20 3155345 CTACTATGGA 3155355 GGATATTTCATAATTCGGAG 1 GGATATTTCATAATTCGGAG 3155375 GGATATTTCATAATTCGGAG 1 GGATATTTCATAATTCGGAG 3155395 G 1 G 3155396 TTTCTTACGG Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 21 1.00 ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34 Consensus pattern (20 bp): GGATATTTCATAATTCGGAG Found at i:3156781 original size:40 final size:40 Alignment explanation
Indices: 3156733--3156825 Score: 134 Period size: 40 Copynumber: 2.3 Consensus size: 40 3156723 CTCCACGTTC 3156733 CAGCAGCTTCCAGCAACAACAGCTGGTTC-CTCACTCCACA 1 CAGCAGCTTCCAGCAACAACAGCTGGTTCTC-CACTCCACA * * * 3156773 CAGCAGCTTCCGGCAACAACATCTGGTTCTCCACTCCACG 1 CAGCAGCTTCCAGCAACAACAGCTGGTTCTCCACTCCACA * 3156813 CAGCAGCTGCCAG 1 CAGCAGCTTCCAG 3156826 TATCCCAGCT Statistics Matches: 47, Mismatches: 5, Indels: 2 0.87 0.09 0.04 Matches are distributed among these distances: 40 46 0.98 41 1 0.02 ACGTcount: A:0.25, C:0.40, G:0.18, T:0.17 Consensus pattern (40 bp): CAGCAGCTTCCAGCAACAACAGCTGGTTCTCCACTCCACA Found at i:3157795 original size:2 final size:2 Alignment explanation
Indices: 3157788--3157812 Score: 50 Period size: 2 Copynumber: 12.5 Consensus size: 2 3157778 ATTAATTCTT 3157788 TA TA TA TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA T 3157813 GCATGTATTT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 23 1.00 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (2 bp): TA Found at i:3170945 original size:20 final size:20 Alignment explanation
Indices: 3170920--3170958 Score: 60 Period size: 20 Copynumber: 1.9 Consensus size: 20 3170910 TTTTCAAGGG 3170920 CATGCACCGATGCACCAATC 1 CATGCACCGATGCACCAATC * * 3170940 CATGCATCGATGCATCAAT 1 CATGCACCGATGCACCAAT 3170959 TAATTTCTTG Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 17 1.00 ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21 Consensus pattern (20 bp): CATGCACCGATGCACCAATC Found at i:3176923 original size:24 final size:23 Alignment explanation
Indices: 3176896--3176977 Score: 82 Period size: 23 Copynumber: 3.6 Consensus size: 23 3176886 ACACTTAACA 3176896 GTGCATCGATGCATCCCTTTGAAT 1 GTGCATCGATGCA-CCCTTTGAAT * * 3176920 GTGCATCGATTCACCATGTTG-A- 1 GTGCATCGATGCACCCT-TTGAAT * 3176942 -TGCACCGATGCACGCC-TTGAAT 1 GTGCATCGATGCAC-CCTTTGAAT 3176964 GTGCATCGATGCAC 1 GTGCATCGATGCAC 3176978 AGGGTCATGC Statistics Matches: 47, Mismatches: 6, Indels: 11 0.73 0.09 0.17 Matches are distributed among these distances: 20 3 0.06 21 12 0.26 22 1 0.02 23 16 0.34 24 15 0.32 ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28 Consensus pattern (23 bp): GTGCATCGATGCACCCTTTGAAT Found at i:3179290 original size:16 final size:16 Alignment explanation
Indices: 3179269--3179301 Score: 66 Period size: 16 Copynumber: 2.1 Consensus size: 16 3179259 AGGGAGAAGT 3179269 GTAAAATGTTTTAAAG 1 GTAAAATGTTTTAAAG 3179285 GTAAAATGTTTTAAAG 1 GTAAAATGTTTTAAAG 3179301 G 1 G 3179302 GGGAGAAATG 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:0.42, C:0.00, G:0.21, T:0.36 Consensus pattern (16 bp): GTAAAATGTTTTAAAG Found at i:3179312 original size:19 final size:19 Alignment explanation
Indices: 3179272--3179327 Score: 55 Period size: 16 Copynumber: 3.0 Consensus size: 19 3179262 GAGAAGTGTA * 3179272 AAATGTTTTAAA--GGTA- 1 AAATGTTTTAAAGGGGGAG 3179288 AAATGTTTTAAAGGGGGAG 1 AAATGTTTTAAAGGGGGAG * 3179307 AAATGTTATAGTAAGGGGGAG 1 AAATGTTTTA--AAGGGGGAG 3179328 TAATTTCAAA Statistics Matches: 33, Mismatches: 2, Indels: 5 0.82 0.05 0.12 Matches are distributed among these distances: 16 12 0.36 18 3 0.09 19 9 0.27 21 9 0.27 ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29 Consensus pattern (19 bp): AAATGTTTTAAAGGGGGAG Found at i:3179687 original size:20 final size:20 Alignment explanation
Indices: 3179662--3179700 Score: 60 Period size: 20 Copynumber: 1.9 Consensus size: 20 3179652 TTTTCAAGGG 3179662 CATGCACCGATGCACCAATC 1 CATGCACCGATGCACCAATC * * 3179682 CATGCATCGATGCATCAAT 1 CATGCACCGATGCACCAAT 3179701 TAATTTCTTG Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 17 1.00 ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21 Consensus pattern (20 bp): CATGCACCGATGCACCAATC Found at i:3179769 original size:45 final size:46 Alignment explanation
Indices: 3179720--3179809 Score: 137 Period size: 45 Copynumber: 2.0 Consensus size: 46 3179710 GAACATCGAA * * * * 3179720 TGCATTTTATGCATCGATGCAC-ATACTATGCATCGATGCACTCAG 1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATACACTCAG 3179765 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATACACTCA 1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATACACTCA 3179810 AGCTTTTTCA Statistics Matches: 40, Mismatches: 4, Indels: 1 0.89 0.09 0.02 Matches are distributed among these distances: 45 21 0.52 46 19 0.47 ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28 Consensus pattern (46 bp): TGCATTTGATGCATCGATGCACAAGACCATGCATCGATACACTCAG Found at i:3191353 original size:23 final size:23 Alignment explanation
Indices: 3191327--3191392 Score: 59 Period size: 21 Copynumber: 3.0 Consensus size: 23 3191317 TGTTGTGTGT 3191327 AAGGGTAAGCCTTACAGTTTCCC 1 AAGGGTAAGCCTTACAGTTTCCC * * * * 3191350 AA-GGT--TCCTTTACTGTGT-GC 1 AAGGGTAAGCC-TTACAGTTTCCC 3191370 AAGGGTAAGCCTTACAGTTTCCC 1 AAGGGTAAGCCTTACAGTTTCCC 3191393 TAGGTTCCTT Statistics Matches: 30, Mismatches: 8, Indels: 10 0.62 0.17 0.21 Matches are distributed among these distances: 20 5 0.17 21 10 0.33 22 10 0.33 23 5 0.17 ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30 Consensus pattern (23 bp): AAGGGTAAGCCTTACAGTTTCCC Found at i:3191355 original size:43 final size:43 Alignment explanation
Indices: 3191278--3191733 Score: 594 Period size: 43 Copynumber: 10.6 Consensus size: 43 3191268 TCCTCTACTA * * * * * 3191278 TGTGCAAGGGTAAGTTCTTACCGTTACCACAGGTTCCTTTGTTG 1 TGTGCAAGGGTAAG-CCTTACAGTTTCCCCAGGTTCCTTTGCTG * * * 3191322 TGTGTAAGGGTAAGCCTTACAGTTTCCCAAGGTTCCTTTACTG 1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG * 3191365 TGTGCAAGGGTAAGCCTTACAGTTTCCCTAGGTTCCTTTGCTG 1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG * * * 3191408 TGTACAAGGGTAAGCCTTACAGTTTCCCCGGGTTCCTTAGCTG 1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG 3191451 TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG 1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG * 3191494 TGTGCAAGGGTAAGCCTTACAGTTT-CCCAGGTTCCTTTGTTG 1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG * * 3191536 TGTGCAAGGGTAAGCCTTACAATTTCCCCAGGTTCCTTTGTTG 1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG * * * 3191579 TGTGCCAGGGTAAGCCTTACAGTTTCCCCATGTTCATTTGCTG 1 TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG * * * * * 3191622 TGTACGAA-GGTAAGCCTTACAGTTTCCCCATGCTCCTTTGTTA 1 TGTGC-AAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG * * * * * 3191665 TGTGCAAGGGTAAGACCTTACCGTTT-CTCAGGCTCTTTTGCTA 1 TGTGCAAGGGTAAG-CCTTACAGTTTCCCCAGGTTCCTTTGCTG * 3191708 TGTGCAAGGGTAAGACCTTACCGTTT 1 TGTGCAAGGGTAAG-CCTTACAGTTT 3191734 TTGCATGCTC Statistics Matches: 371, Mismatches: 37, Indels: 9 0.89 0.09 0.02 Matches are distributed among these distances: 42 42 0.11 43 305 0.82 44 24 0.06 ACGTcount: A:0.18, C:0.23, G:0.24, T:0.34 Consensus pattern (43 bp): TGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTTCCTTTGCTG Found at i:3191676 original size:214 final size:216 Alignment explanation
Indices: 3191265--3191733 Score: 658 Period size: 214 Copynumber: 2.2 Consensus size: 216 3191255 AAGTATTTCT * * ** * * 3191265 GGCTCCTCTACTATGTGCAAGGGTAAGTTCTTACCGTTACCACAGGTTCCTTTGTTGTGTGTAAG 1 GGCTCCTTTGCTATGTGCAAGGGTAAGACCTTACCGTTTCCACAGGTTCCTTTGTTGTGTGCAAG * * 3191330 GGTAAGCCTTACAGTTTCCCAAGGTTCCTTTACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCTA 66 GGTAAGCCTTACAATTTCCCAAGGTTCCTTTACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCA * * * * 3191395 GGTTCCTTTGCTGTGTACAAGGGTAAGCCTTACAGTTTCCCCGGGTTCCTTAGCTGTGTGCAAGG 131 GGTTCATTTGCTGTGTACAAGGGTAAGCCTTACAGTTTCCCCAGGCTCCTTAGCTATGTGCAAGG 3191460 GTAAG-CCTTACAGTTTCCCCA 196 GTAAGACCTTACAGTTT-CCCA * * * 3191481 GGTTCCTTTGCTGTGTGCAAGGGTAAG-CCTTACAGTTTCC-CAGGTTCCTTTGTTGTGTGCAAG 1 GGCTCCTTTGCTATGTGCAAGGGTAAGACCTTACCGTTTCCACAGGTTCCTTTGTTGTGTGCAAG * ** * 3191544 GGTAAGCCTTACAATTTCCCCAGGTTCCTTTGTTGTGTGCCAGGGTAAGCCTTACAGTTTCCCCA 66 GGTAAGCCTTACAATTTCCCAAGGTTCCTTTACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCA * * * * 3191609 TGTTCATTTGCTGTGTACGAA-GGTAAGCCTTACAGTTTCCCCATGCTCCTTTGTTATGTGCAAG 131 GGTTCATTTGCTGTGTAC-AAGGGTAAGCCTTACAGTTTCCCCAGGCTCCTTAGCTATGTGCAAG * * 3191673 GGTAAGACCTTACCGTTTCTCA 195 GGTAAGACCTTACAGTTTCCCA * 3191695 GGCTCTTTTGCTATGTGCAAGGGTAAGACCTTACCGTTT 1 GGCTCCTTTGCTATGTGCAAGGGTAAGACCTTACCGTTT 3191734 TTGCATGCTC Statistics Matches: 222, Mismatches: 28, Indels: 7 0.86 0.11 0.03 Matches are distributed among these distances: 214 167 0.75 215 32 0.14 216 23 0.10 ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34 Consensus pattern (216 bp): GGCTCCTTTGCTATGTGCAAGGGTAAGACCTTACCGTTTCCACAGGTTCCTTTGTTGTGTGCAAG GGTAAGCCTTACAATTTCCCAAGGTTCCTTTACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCA GGTTCATTTGCTGTGTACAAGGGTAAGCCTTACAGTTTCCCCAGGCTCCTTAGCTATGTGCAAGG GTAAGACCTTACAGTTTCCCA Found at i:3192708 original size:70 final size:70 Alignment explanation
Indices: 3192595--3192740 Score: 274 Period size: 70 Copynumber: 2.1 Consensus size: 70 3192585 CCAAAGTTCA 3192595 CCAAATCATATTTTATAAAATTATGCATATACACGGGCCAGAACATTAAGCATGGAAAGATATTG 1 CCAAATCATATTTTATAAAATTATGCATATACACGGGCCAGAACATTAAGCATGGAAAGATATTG 3192660 CAAGT 66 CAAGT * * 3192665 CCAAATCATATTTTATAAAATTATGTATATAGACGGGCCAGAACATTAAGCATGGAAAGATATTG 1 CCAAATCATATTTTATAAAATTATGCATATACACGGGCCAGAACATTAAGCATGGAAAGATATTG 3192730 CAAGT 66 CAAGT 3192735 CCAAAT 1 CCAAAT 3192741 GTCAGTCAAG Statistics Matches: 74, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 70 74 1.00 ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27 Consensus pattern (70 bp): CCAAATCATATTTTATAAAATTATGCATATACACGGGCCAGAACATTAAGCATGGAAAGATATTG CAAGT Found at i:3194996 original size:149 final size:149 Alignment explanation
Indices: 3194726--3195024 Score: 598 Period size: 149 Copynumber: 2.0 Consensus size: 149 3194716 CATGTTACGC 3194726 ATTAGTTGTCCTATTTTGAGTTGAGAACAATTTTAAAAAATAATATAATAATTGGATAGTGTTAT 1 ATTAGTTGTCCTATTTTGAGTTGAGAACAATTTTAAAAAATAATATAATAATTGGATAGTGTTAT 3194791 AATGTAGTATTTGTTAAGAATTTTTTTAATTTATTGACAATACATGCATCTTGAAGGAGTTAATC 66 AATGTAGTATTTGTTAAGAATTTTTTTAATTTATTGACAATACATGCATCTTGAAGGAGTTAATC 3194856 GAACTCGAATAGTTTAAGT 131 GAACTCGAATAGTTTAAGT 3194875 ATTAGTTGTCCTATTTTGAGTTGAGAACAATTTTAAAAAATAATATAATAATTGGATAGTGTTAT 1 ATTAGTTGTCCTATTTTGAGTTGAGAACAATTTTAAAAAATAATATAATAATTGGATAGTGTTAT 3194940 AATGTAGTATTTGTTAAGAATTTTTTTAATTTATTGACAATACATGCATCTTGAAGGAGTTAATC 66 AATGTAGTATTTGTTAAGAATTTTTTTAATTTATTGACAATACATGCATCTTGAAGGAGTTAATC 3195005 GAACTCGAATAGTTTAAGT 131 GAACTCGAATAGTTTAAGT 3195024 A 1 A 3195025 GAATAAAATA Statistics Matches: 150, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 149 150 1.00 ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41 Consensus pattern (149 bp): ATTAGTTGTCCTATTTTGAGTTGAGAACAATTTTAAAAAATAATATAATAATTGGATAGTGTTAT AATGTAGTATTTGTTAAGAATTTTTTTAATTTATTGACAATACATGCATCTTGAAGGAGTTAATC GAACTCGAATAGTTTAAGT Found at i:3201670 original size:20 final size:21 Alignment explanation
Indices: 3201636--3201679 Score: 72 Period size: 20 Copynumber: 2.1 Consensus size: 21 3201626 ATAAATTACA 3201636 TAATTCTTTTAAATTAATATC 1 TAATTCTTTTAAATTAATATC * 3201657 TAATT-TTTTCAATTAATATC 1 TAATTCTTTTAAATTAATATC 3201677 TAA 1 TAA 3201680 ATTAGATATA Statistics Matches: 22, Mismatches: 1, Indels: 1 0.92 0.04 0.04 Matches are distributed among these distances: 20 17 0.77 21 5 0.23 ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52 Consensus pattern (21 bp): TAATTCTTTTAAATTAATATC Found at i:3204163 original size:57 final size:58 Alignment explanation
Indices: 3204097--3204211 Score: 223 Period size: 57 Copynumber: 2.0 Consensus size: 58 3204087 CGAAAATGTT 3204097 AATATTTTTTTTATCATTTTCAGTATAACACTACCTAAAATGTTAATTCGTTACCTAA 1 AATATTTTTTTTATCATTTTCAGTATAACACTACCTAAAATGTTAATTCGTTACCTAA 3204155 AATA-TTTTTTTATCATTTTCAGTATAACACTACCTAAAATGTTAATTCGTTACCTAA 1 AATATTTTTTTTATCATTTTCAGTATAACACTACCTAAAATGTTAATTCGTTACCTAA 3204212 TATGATAATC Statistics Matches: 57, Mismatches: 0, Indels: 1 0.98 0.00 0.02 Matches are distributed among these distances: 57 53 0.93 58 4 0.07 ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44 Consensus pattern (58 bp): AATATTTTTTTTATCATTTTCAGTATAACACTACCTAAAATGTTAATTCGTTACCTAA Found at i:3204320 original size:21 final size:21 Alignment explanation
Indices: 3204296--3204352 Score: 87 Period size: 21 Copynumber: 2.7 Consensus size: 21 3204286 AAACGTTAAA * 3204296 AAATTAACATTTTAGATAATG 1 AAATTAGCATTTTAGATAATG * 3204317 AAATTAGCTTTTTAGATAATG 1 AAATTAGCATTTTAGATAATG * 3204338 AAATTAGCACTTTAG 1 AAATTAGCATTTTAG 3204353 GTAGCGCTCC Statistics Matches: 32, Mismatches: 4, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 21 32 1.00 ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39 Consensus pattern (21 bp): AAATTAGCATTTTAGATAATG Found at i:3205040 original size:22 final size:22 Alignment explanation
Indices: 3204997--3205038 Score: 59 Period size: 22 Copynumber: 2.0 Consensus size: 22 3204987 TTATATTTTA * 3204997 TTTAGGGTTTAAAGATTTAAAT 1 TTTAAGGTTTAAAGATTTAAAT * 3205019 TTTAAGGTTTATA-ATTTAAA 1 TTTAAGGTTTAAAGATTTAAA 3205039 ATCTAATCAG Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 21 7 0.39 22 11 0.61 ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48 Consensus pattern (22 bp): TTTAAGGTTTAAAGATTTAAAT Found at i:3205956 original size:46 final size:46 Alignment explanation
Indices: 3205903--3205993 Score: 137 Period size: 46 Copynumber: 2.0 Consensus size: 46 3205893 CGGGTTAACC * ** * 3205903 TTTAGATTTTCGGGTCAATTTGGGTTGGTTTCGGTTCAAGTCAACA 1 TTTAGATTTTCAGGTCAATTCAGGTTGGTTTCAGTTCAAGTCAACA * 3205949 TTTAGATTTTTAGGTCAATTCAGGTTGGTTTCAGTTCAAGTCAAC 1 TTTAGATTTTCAGGTCAATTCAGGTTGGTTTCAGTTCAAGTCAAC 3205994 TGTCACCACT Statistics Matches: 40, Mismatches: 5, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 46 40 1.00 ACGTcount: A:0.22, C:0.13, G:0.23, T:0.42 Consensus pattern (46 bp): TTTAGATTTTCAGGTCAATTCAGGTTGGTTTCAGTTCAAGTCAACA Found at i:3206450 original size:2 final size:2 Alignment explanation
Indices: 3206443--3206470 Score: 56 Period size: 2 Copynumber: 14.0 Consensus size: 2 3206433 AATGAGAATA 3206443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 3206471 TATTTTATTA Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 26 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:3208676 original size:24 final size:24 Alignment explanation
Indices: 3208649--3208704 Score: 103 Period size: 24 Copynumber: 2.3 Consensus size: 24 3208639 CTATTCTTTC 3208649 GCTTCAATTAAGCTCAAATTTTAG 1 GCTTCAATTAAGCTCAAATTTTAG * 3208673 GCTTCAATTGAGCTCAAATTTTAG 1 GCTTCAATTAAGCTCAAATTTTAG 3208697 GCTTCAAT 1 GCTTCAAT 3208705 CGAACTTCTA Statistics Matches: 31, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 24 31 1.00 ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38 Consensus pattern (24 bp): GCTTCAATTAAGCTCAAATTTTAG Found at i:3209332 original size:23 final size:26 Alignment explanation
Indices: 3209280--3209336 Score: 70 Period size: 25 Copynumber: 2.3 Consensus size: 26 3209270 ATATATGACG 3209280 AAAATATATAAAAATGTATATTATAC 1 AAAATATATAAAAATGTATATTATAC 3209306 -AAATATATAAAATAT-TA-A-TA-AC 1 AAAATATATAAAA-ATGTATATTATAC 3209328 AAAATATAT 1 AAAATATAT 3209337 CTTCAACATT Statistics Matches: 29, Mismatches: 0, Indels: 7 0.81 0.00 0.19 Matches are distributed among these distances: 22 2 0.07 23 10 0.34 24 1 0.03 25 14 0.48 26 2 0.07 ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33 Consensus pattern (26 bp): AAAATATATAAAAATGTATATTATAC Found at i:3209466 original size:21 final size:21 Alignment explanation
Indices: 3209433--3209494 Score: 52 Period size: 22 Copynumber: 2.9 Consensus size: 21 3209423 ATCTGATTTG * * 3209433 TTTAAATTATTTAAATTTAAA 1 TTTAATTTTTTTAAATTTAAA * * 3209454 TTTAATTTTTTTACATATTAAT 1 TTTAATTTTTTTAAAT-TTAAA * * 3209476 TTTATTTTTCTTTGAATTT 1 TTTAATTTT-TTTAAATTT 3209495 TCAAGTATCA Statistics Matches: 32, Mismatches: 7, Indels: 3 0.76 0.17 0.07 Matches are distributed among these distances: 21 13 0.41 22 14 0.44 23 5 0.16 ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63 Consensus pattern (21 bp): TTTAATTTTTTTAAATTTAAA Found at i:3213384 original size:14 final size:15 Alignment explanation
Indices: 3213365--3213393 Score: 51 Period size: 14 Copynumber: 2.0 Consensus size: 15 3213355 AAAAAATATT 3213365 TGGGTGA-CAAAATG 1 TGGGTGATCAAAATG 3213379 TGGGTGATCAAAATG 1 TGGGTGATCAAAATG 3213394 AAATCAAAGT Statistics Matches: 14, Mismatches: 0, Indels: 1 0.93 0.00 0.07 Matches are distributed among these distances: 14 7 0.50 15 7 0.50 ACGTcount: A:0.34, C:0.07, G:0.34, T:0.24 Consensus pattern (15 bp): TGGGTGATCAAAATG Found at i:3213391 original size:74 final size:74 Alignment explanation
Indices: 3213304--3213451 Score: 296 Period size: 74 Copynumber: 2.0 Consensus size: 74 3213294 ATTTTTAACG 3213304 GTGGGTGATCAAAATGAAATCAAAGTGTAACATTAGGTATGATTTTGAAACAAAAAATATTTGGG 1 GTGGGTGATCAAAATGAAATCAAAGTGTAACATTAGGTATGATTTTGAAACAAAAAATATTTGGG 3213369 TGACAAAAT 66 TGACAAAAT 3213378 GTGGGTGATCAAAATGAAATCAAAGTGTAACATTAGGTATGATTTTGAAACAAAAAATATTTGGG 1 GTGGGTGATCAAAATGAAATCAAAGTGTAACATTAGGTATGATTTTGAAACAAAAAATATTTGGG 3213443 TGACAAAAT 66 TGACAAAAT 3213452 ATAACAAAAG Statistics Matches: 74, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 74 74 1.00 ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28 Consensus pattern (74 bp): GTGGGTGATCAAAATGAAATCAAAGTGTAACATTAGGTATGATTTTGAAACAAAAAATATTTGGG TGACAAAAT Found at i:3221051 original size:22 final size:22 Alignment explanation
Indices: 3221017--3221073 Score: 59 Period size: 22 Copynumber: 2.7 Consensus size: 22 3221007 TAAAAATTAT 3221017 TAATT-ATATTTATTAAATATAA 1 TAATTAATA-TTATTAAATATAA * * 3221039 TAATTAATATTATTTATTATAA 1 TAATTAATATTATTAAATATAA 3221061 -AA--AATATTATTAA 1 TAATTAATATTATTAA 3221074 TTTTAAAATA Statistics Matches: 31, Mismatches: 3, Indels: 5 0.79 0.08 0.13 Matches are distributed among these distances: 19 10 0.32 21 2 0.06 22 16 0.52 23 3 0.10 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (22 bp): TAATTAATATTATTAAATATAA Found at i:3221066 original size:26 final size:25 Alignment explanation
Indices: 3221008--3221075 Score: 66 Period size: 26 Copynumber: 2.6 Consensus size: 25 3220998 GTAATTTTTT * 3221008 AAAAATTATTAATTATATTTATTAA 1 AAAAATAATTAATTATATTTATTAA * 3221033 ATATAATAATTAA-TATTATTTATTATA 1 A-AAAATAATTAATTA-TATTTATTA-A 3221060 AAAAATATTATTAATT 1 AAAAATA--ATTAATT 3221076 TTAAAATATT Statistics Matches: 34, Mismatches: 3, Indels: 8 0.76 0.07 0.18 Matches are distributed among these distances: 25 3 0.09 26 23 0.68 27 2 0.06 28 5 0.15 29 1 0.03 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (25 bp): AAAAATAATTAATTATATTTATTAA Found at i:3221080 original size:19 final size:19 Alignment explanation
Indices: 3221044--3221081 Score: 58 Period size: 19 Copynumber: 2.0 Consensus size: 19 3221034 TATAATAATT * 3221044 AATATTATTTATTATAAAA 1 AATATTATTAATTATAAAA * 3221063 AATATTATTAATTTTAAAA 1 AATATTATTAATTATAAAA 3221082 TATTATAATA Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 19 17 1.00 ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47 Consensus pattern (19 bp): AATATTATTAATTATAAAA Found at i:3221387 original size:21 final size:21 Alignment explanation
Indices: 3221357--3221396 Score: 53 Period size: 21 Copynumber: 1.9 Consensus size: 21 3221347 TTTAATTGAA * * * 3221357 AAAATTAAAATATCGATAATC 1 AAAATAAAAAAATAGATAATC 3221378 AAAATAAAAAAATAGATAA 1 AAAATAAAAAAATAGATAA 3221397 ATAATAATAC Statistics Matches: 16, Mismatches: 3, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 21 16 1.00 ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23 Consensus pattern (21 bp): AAAATAAAAAAATAGATAATC Found at i:3229455 original size:183 final size:183 Alignment explanation
Indices: 3229147--3229511 Score: 730 Period size: 183 Copynumber: 2.0 Consensus size: 183 3229137 AAAGTCTTGG 3229147 AATTCAAATGTTTTTGGCTCTATTACCCATCAAAAGAAGACTGTAATGGCAAGACTATACGACAT 1 AATTCAAATGTTTTTGGCTCTATTACCCATCAAAAGAAGACTGTAATGGCAAGACTATACGACAT 3229212 TAAAAAAAGTATTGACCGAAGGCACAATCATTTTCTCATCACCTTGGAGGCACAACTTCAACTCG 66 TAAAAAAAGTATTGACCGAAGGCACAATCATTTTCTCATCACCTTGGAGGCACAACTTCAACTCG 3229277 AACTTGAAAAGATTCTTGATCAGGAAGAACTTATTTGGAAACTAAAATCCCGA 131 AACTTGAAAAGATTCTTGATCAGGAAGAACTTATTTGGAAACTAAAATCCCGA 3229330 AATTCAAATGTTTTTGGCTCTATTACCCATCAAAAGAAGACTGTAATGGCAAGACTATACGACAT 1 AATTCAAATGTTTTTGGCTCTATTACCCATCAAAAGAAGACTGTAATGGCAAGACTATACGACAT 3229395 TAAAAAAAGTATTGACCGAAGGCACAATCATTTTCTCATCACCTTGGAGGCACAACTTCAACTCG 66 TAAAAAAAGTATTGACCGAAGGCACAATCATTTTCTCATCACCTTGGAGGCACAACTTCAACTCG 3229460 AACTTGAAAAGATTCTTGATCAGGAAGAACTTATTTGGAAACTAAAATCCCG 131 AACTTGAAAAGATTCTTGATCAGGAAGAACTTATTTGGAAACTAAAATCCCG 3229512 GATGGATTGG Statistics Matches: 182, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 183 182 1.00 ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27 Consensus pattern (183 bp): AATTCAAATGTTTTTGGCTCTATTACCCATCAAAAGAAGACTGTAATGGCAAGACTATACGACAT TAAAAAAAGTATTGACCGAAGGCACAATCATTTTCTCATCACCTTGGAGGCACAACTTCAACTCG AACTTGAAAAGATTCTTGATCAGGAAGAACTTATTTGGAAACTAAAATCCCGA Found at i:3230598 original size:19 final size:20 Alignment explanation
Indices: 3230574--3230617 Score: 63 Period size: 20 Copynumber: 2.2 Consensus size: 20 3230564 TAATTTAATC * 3230574 GAATATATAAT-TTAAAATT 1 GAATATAAAATCTTAAAATT 3230593 GAATATAAAATCTTAAAATT 1 GAATATAAAATCTTAAAATT * 3230613 CAATA 1 GAATA 3230618 ATACTTTATT Statistics Matches: 22, Mismatches: 2, Indels: 1 0.88 0.08 0.04 Matches are distributed among these distances: 19 10 0.45 20 12 0.55 ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36 Consensus pattern (20 bp): GAATATAAAATCTTAAAATT Found at i:3230990 original size:9 final size:9 Alignment explanation
Indices: 3230976--3231010 Score: 70 Period size: 9 Copynumber: 3.9 Consensus size: 9 3230966 TCAAATTAAA 3230976 CATTCAAAC 1 CATTCAAAC 3230985 CATTCAAAC 1 CATTCAAAC 3230994 CATTCAAAC 1 CATTCAAAC 3231003 CATTCAAA 1 CATTCAAA 3231011 TCCAAAACAA Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 9 26 1.00 ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23 Consensus pattern (9 bp): CATTCAAAC Found at i:3231038 original size:22 final size:22 Alignment explanation
Indices: 3231012--3231055 Score: 70 Period size: 22 Copynumber: 2.0 Consensus size: 22 3231002 CCATTCAAAT * 3231012 CCAAAACAAACATATCCAAAAC 1 CCAAAACAAACAAATCCAAAAC * 3231034 CCAAAACACACAAATCCAAAAC 1 CCAAAACAAACAAATCCAAAAC 3231056 ATTCAAAATG Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 22 20 1.00 ACGTcount: A:0.59, C:0.34, G:0.00, T:0.07 Consensus pattern (22 bp): CCAAAACAAACAAATCCAAAAC Found at i:3235188 original size:17 final size:17 Alignment explanation
Indices: 3235166--3235199 Score: 68 Period size: 17 Copynumber: 2.0 Consensus size: 17 3235156 GAAATTACTC 3235166 CCCCTTACTTTAACACT 1 CCCCTTACTTTAACACT 3235183 CCCCTTACTTTAACACT 1 CCCCTTACTTTAACACT 3235200 TCTCTCATTT Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 17 1.00 ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35 Consensus pattern (17 bp): CCCCTTACTTTAACACT Found at i:3237482 original size:21 final size:21 Alignment explanation
Indices: 3237456--3237495 Score: 62 Period size: 21 Copynumber: 1.9 Consensus size: 21 3237446 CAGAACCCCA * 3237456 GGGGGGTATCGATTCCCCTGT 1 GGGGGGAATCGATTCCCCTGT * 3237477 GGGGGGAATCGGTTCCCCT 1 GGGGGGAATCGATTCCCCT 3237496 TCAAAGGGAG Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 21 17 1.00 ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25 Consensus pattern (21 bp): GGGGGGAATCGATTCCCCTGT Found at i:3245594 original size:40 final size:40 Alignment explanation
Indices: 3245545--3245638 Score: 163 Period size: 40 Copynumber: 2.3 Consensus size: 40 3245535 CCTCCATTTT 3245545 TGTCGTTAAGC-TCTATAAACCGACTCTTATCTTCGGTCATA 1 TGTC-TTAAGCATC-ATAAACCGACTCTTATCTTCGGTCATA 3245586 TGTCTTAAGCATCATAAACCGACTCTTATCTTCGGTCATA 1 TGTCTTAAGCATCATAAACCGACTCTTATCTTCGGTCATA 3245626 TGTCTTAAGCATC 1 TGTCTTAAGCATC 3245639 CACTATCAAG Statistics Matches: 52, Mismatches: 0, Indels: 3 0.95 0.00 0.05 Matches are distributed among these distances: 40 46 0.88 41 6 0.12 ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36 Consensus pattern (40 bp): TGTCTTAAGCATCATAAACCGACTCTTATCTTCGGTCATA Found at i:3248414 original size:19 final size:20 Alignment explanation
Indices: 3248390--3248428 Score: 62 Period size: 19 Copynumber: 2.0 Consensus size: 20 3248380 TAATTTAATC * 3248390 GAATATATAAT-TTAAAATT 1 GAATATAAAATCTTAAAATT 3248409 GAATATAAAATCTTAAAATT 1 GAATATAAAATCTTAAAATT 3248429 CAATGATATT Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 19 10 0.56 20 8 0.44 ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38 Consensus pattern (20 bp): GAATATAAAATCTTAAAATT Found at i:3250295 original size:20 final size:21 Alignment explanation
Indices: 3250258--3250296 Score: 53 Period size: 21 Copynumber: 1.9 Consensus size: 21 3250248 CGACTCGAAA * 3250258 TAATAAAAAATATTATTTATT 1 TAATAAAAAATATGATTTATT * 3250279 TAATAAAACA-ATGATTTA 1 TAATAAAAAATATGATTTA 3250297 ATTGAAAAAA Statistics Matches: 16, Mismatches: 2, Indels: 1 0.84 0.11 0.05 Matches are distributed among these distances: 20 7 0.44 21 9 0.56 ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41 Consensus pattern (21 bp): TAATAAAAAATATGATTTATT Found at i:3255237 original size:28 final size:28 Alignment explanation
Indices: 3255146--3255258 Score: 208 Period size: 29 Copynumber: 4.0 Consensus size: 28 3255136 AGTGTTGGCC 3255146 GTAGGTCGCCATGCACTCCGGGCGACCTT 1 GTAGGTCGCCATGCACTCC-GGCGACCTT 3255175 GTAGGTCGCCATGCACTCCGGTCGACCTT 1 GTAGGTCGCCATGCACTCCGG-CGACCTT 3255204 GTAGGTCGCCATGCACTCCGGCGACCTT 1 GTAGGTCGCCATGCACTCCGGCGACCTT 3255232 GTAGGTCGCCATGCACTCCGGCGACCT 1 GTAGGTCGCCATGCACTCCGGCGACCT 3255259 ACCCTTGCTC Statistics Matches: 83, Mismatches: 0, Indels: 3 0.97 0.00 0.03 Matches are distributed among these distances: 28 36 0.43 29 47 0.57 ACGTcount: A:0.14, C:0.35, G:0.29, T:0.21 Consensus pattern (28 bp): GTAGGTCGCCATGCACTCCGGCGACCTT Found at i:3255243 original size:57 final size:57 Alignment explanation
Indices: 3255146--3255258 Score: 210 Period size: 57 Copynumber: 2.0 Consensus size: 57 3255136 AGTGTTGGCC 3255146 GTAGGTCGCCATGCACTCCGGGCGACCTTGTAGGTCGCCATGCACTCCGGTCGACCTT 1 GTAGGTCGCCATGCACTCCGGGCGACCTTGTAGGTCGCCATGCACTCCGG-CGACCTT 3255204 GTAGGTCGCCATGCACTCC-GGCGACCTTGTAGGTCGCCATGCACTCCGGCGACCT 1 GTAGGTCGCCATGCACTCCGGGCGACCTTGTAGGTCGCCATGCACTCCGGCGACCT 3255259 ACCCTTGCTC Statistics Matches: 55, Mismatches: 0, Indels: 2 0.96 0.00 0.04 Matches are distributed among these distances: 56 6 0.11 57 30 0.55 58 19 0.35 ACGTcount: A:0.14, C:0.35, G:0.29, T:0.21 Consensus pattern (57 bp): GTAGGTCGCCATGCACTCCGGGCGACCTTGTAGGTCGCCATGCACTCCGGCGACCTT Found at i:3255432 original size:20 final size:20 Alignment explanation
Indices: 3255409--3255491 Score: 136 Period size: 20 Copynumber: 4.3 Consensus size: 20 3255399 GCTCGGCTTC 3255409 CCTCGGATGCTCTCGGATGG 1 CCTCGGATGCTCTCGGATGG 3255429 CCTCGGATGCTCTCGGATGG 1 CCTCGGATGCTCTCGGATGG * 3255449 CCTC-GATACTCTCGGATGG 1 CCTCGGATGCTCTCGGATGG 3255468 CCTC-GAT-CTCTCGGATGG 1 CCTCGGATGCTCTCGGATGG 3255486 CCTCGG 1 CCTCGG 3255492 TCGATGGCCT Statistics Matches: 61, Mismatches: 1, Indels: 3 0.94 0.02 0.05 Matches are distributed among these distances: 18 15 0.25 19 22 0.36 20 24 0.39 ACGTcount: A:0.11, C:0.33, G:0.31, T:0.25 Consensus pattern (20 bp): CCTCGGATGCTCTCGGATGG Found at i:3255462 original size:19 final size:18 Alignment explanation
Indices: 3255418--3255490 Score: 119 Period size: 19 Copynumber: 3.9 Consensus size: 18 3255408 CCCTCGGATG 3255418 CTCTCGGATGGCCTCGGAT 1 CTCTCGGATGGCCTC-GAT 3255437 GCTCTCGGATGGCCTCGAT 1 -CTCTCGGATGGCCTCGAT 3255456 ACTCTCGGATGGCCTCGAT 1 -CTCTCGGATGGCCTCGAT 3255475 CTCTCGGATGGCCTCG 1 CTCTCGGATGGCCTCG 3255491 GTCGATGGCC Statistics Matches: 52, Mismatches: 1, Indels: 2 0.95 0.02 0.04 Matches are distributed among these distances: 18 16 0.31 19 21 0.40 20 15 0.29 ACGTcount: A:0.11, C:0.33, G:0.30, T:0.26 Consensus pattern (18 bp): CTCTCGGATGGCCTCGAT Found at i:3255466 original size:39 final size:37 Alignment explanation
Indices: 3255409--3255490 Score: 128 Period size: 39 Copynumber: 2.1 Consensus size: 37 3255399 GCTCGGCTTC * 3255409 CCTCGGATGCTCTCGGATGGCCTCGGATGCTCTCGGATGG 1 CCTC-GATACTCTCGGATGGCCTC-GAT-CTCTCGGATGG 3255449 CCTCGATACTCTCGGATGGCCTCGATCTCTCGGATGG 1 CCTCGATACTCTCGGATGGCCTCGATCTCTCGGATGG 3255486 CCTCG 1 CCTCG 3255491 GTCGATGGCC Statistics Matches: 41, Mismatches: 1, Indels: 3 0.91 0.02 0.07 Matches are distributed among these distances: 37 16 0.39 38 3 0.07 39 18 0.44 40 4 0.10 ACGTcount: A:0.11, C:0.33, G:0.30, T:0.26 Consensus pattern (37 bp): CCTCGATACTCTCGGATGGCCTCGATCTCTCGGATGG Found at i:3255490 original size:10 final size:10 Alignment explanation
Indices: 3255409--3255507 Score: 77 Period size: 10 Copynumber: 9.9 Consensus size: 10 3255399 GCTCGGCTTC 3255409 CCTCGGAT-G 1 CCTCGGATGG 3255418 CTCTCGGATGG 1 C-CTCGGATGG 3255429 CCTCGGAT-G 1 CCTCGGATGG 3255438 CTCTCGGATGG 1 C-CTCGGATGG * 3255449 CCTC-GAT-A 1 CCTCGGATGG 3255457 CTCTCGGATGG 1 C-CTCGGATGG 3255468 CCTC-GAT-- 1 CCTCGGATGG 3255475 CTCTCGGATGG 1 C-CTCGGATGG 3255486 CCTCGGTCGATGG 1 CCTC-G--GATGG 3255499 CCTCGGATG 1 CCTCGGATG 3255508 CCCAGCGTGT Statistics Matches: 74, Mismatches: 2, Indels: 27 0.72 0.02 0.26 Matches are distributed among these distances: 7 1 0.01 8 4 0.05 9 15 0.20 10 37 0.50 11 7 0.09 12 1 0.01 13 9 0.12 ACGTcount: A:0.11, C:0.31, G:0.32, T:0.25 Consensus pattern (10 bp): CCTCGGATGG Found at i:3258780 original size:48 final size:48 Alignment explanation
Indices: 3258709--3258804 Score: 192 Period size: 48 Copynumber: 2.0 Consensus size: 48 3258699 TTTCTCTATT 3258709 ATCGGAAGAAAGCTAGAATGTTTTGGGATGATTTTGAAGCTAAATGAG 1 ATCGGAAGAAAGCTAGAATGTTTTGGGATGATTTTGAAGCTAAATGAG 3258757 ATCGGAAGAAAGCTAGAATGTTTTGGGATGATTTTGAAGCTAAATGAG 1 ATCGGAAGAAAGCTAGAATGTTTTGGGATGATTTTGAAGCTAAATGAG 3258805 CTAGAGTATT Statistics Matches: 48, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 48 48 1.00 ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29 Consensus pattern (48 bp): ATCGGAAGAAAGCTAGAATGTTTTGGGATGATTTTGAAGCTAAATGAG Found at i:3269353 original size:12 final size:12 Alignment explanation
Indices: 3269326--3269361 Score: 54 Period size: 12 Copynumber: 2.9 Consensus size: 12 3269316 TTGGTAATCA 3269326 CCGCCCCGATTAC 1 CCGCCCCGA-TAC 3269339 CCGCCCCGATAC 1 CCGCCCCGATAC * 3269351 CCGACCCGATA 1 CCGCCCCGATA 3269362 AATATTAAAA Statistics Matches: 22, Mismatches: 1, Indels: 1 0.92 0.04 0.04 Matches are distributed among these distances: 12 13 0.59 13 9 0.41 ACGTcount: A:0.19, C:0.53, G:0.17, T:0.11 Consensus pattern (12 bp): CCGCCCCGATAC Found at i:3269388 original size:2 final size:2 Alignment explanation
Indices: 3269381--3269412 Score: 57 Period size: 2 Copynumber: 16.5 Consensus size: 2 3269371 AATAATTATT 3269381 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 3269413 TAATAAATTT Statistics Matches: 29, Mismatches: 0, Indels: 2 0.94 0.00 0.06 Matches are distributed among these distances: 1 1 0.03 2 28 0.97 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): TA Found at i:3269507 original size:12 final size:12 Alignment explanation
Indices: 3269492--3269526 Score: 61 Period size: 12 Copynumber: 2.9 Consensus size: 12 3269482 CGATTCTCGG 3269492 CCCAATACCCGA 1 CCCAATACCCGA * 3269504 CCCAATACCCGG 1 CCCAATACCCGA 3269516 CCCAATACCCG 1 CCCAATACCCG 3269527 TTTAAATAAC Statistics Matches: 22, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 12 22 1.00 ACGTcount: A:0.29, C:0.51, G:0.11, T:0.09 Consensus pattern (12 bp): CCCAATACCCGA Found at i:3280500 original size:18 final size:18 Alignment explanation
Indices: 3280477--3280552 Score: 62 Period size: 18 Copynumber: 3.8 Consensus size: 18 3280467 GCGTAGAATT 3280477 TGTCCCGAAGGACCACTA 1 TGTCCCGAAGGACCACTA * 3280495 TGTCCCAAAGGACCACATATCACATA 1 TGTCCCGAAGG---AC----CAC-TA 3280521 TGTCCCGAAGGACCACTA 1 TGTCCCGAAGGACCACTA * 3280539 TGTCCCGAATGACC 1 TGTCCCGAAGGACC 3280553 GTGTAGAACC Statistics Matches: 47, Mismatches: 3, Indels: 16 0.71 0.05 0.24 Matches are distributed among these distances: 18 25 0.53 19 3 0.06 21 2 0.04 23 2 0.04 25 3 0.06 26 12 0.26 ACGTcount: A:0.30, C:0.33, G:0.18, T:0.18 Consensus pattern (18 bp): TGTCCCGAAGGACCACTA Found at i:3286132 original size:20 final size:21 Alignment explanation
Indices: 3286096--3286137 Score: 68 Period size: 20 Copynumber: 2.0 Consensus size: 21 3286086 ATGTTATAGG * 3286096 GGTATCGATACCCCTGCTACA 1 GGTACCGATACCCCTGCTACA 3286117 GGTACCGATA-CCCTGCTACA 1 GGTACCGATACCCCTGCTACA 3286137 G 1 G 3286138 TACTGTTACA Statistics Matches: 20, Mismatches: 1, Indels: 1 0.91 0.05 0.05 Matches are distributed among these distances: 20 11 0.55 21 9 0.45 ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21 Consensus pattern (21 bp): GGTACCGATACCCCTGCTACA Found at i:3286897 original size:24 final size:24 Alignment explanation
Indices: 3286865--3286920 Score: 112 Period size: 24 Copynumber: 2.3 Consensus size: 24 3286855 CATATATGTA 3286865 CCGAAGGAACACGTAAAGTTTGTC 1 CCGAAGGAACACGTAAAGTTTGTC 3286889 CCGAAGGAACACGTAAAGTTTGTC 1 CCGAAGGAACACGTAAAGTTTGTC 3286913 CCGAAGGA 1 CCGAAGGA 3286921 CCGAGTAGAC Statistics Matches: 32, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 24 32 1.00 ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18 Consensus pattern (24 bp): CCGAAGGAACACGTAAAGTTTGTC Found at i:3287047 original size:30 final size:31 Alignment explanation
Indices: 3287013--3287076 Score: 103 Period size: 31 Copynumber: 2.1 Consensus size: 31 3287003 TTATATTGCG * * 3287013 TAGACATATTA-TTTCCATACTTTTATCACA 1 TAGACATATTATTTTCCACACCTTTATCACA 3287043 TAGACATATTATTTTCCACACCTTTATCACA 1 TAGACATATTATTTTCCACACCTTTATCACA 3287074 TAG 1 TAG 3287077 CTCATATAAC Statistics Matches: 31, Mismatches: 2, Indels: 1 0.91 0.06 0.03 Matches are distributed among these distances: 30 11 0.35 31 20 0.65 ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41 Consensus pattern (31 bp): TAGACATATTATTTTCCACACCTTTATCACA Found at i:3292986 original size:29 final size:29 Alignment explanation
Indices: 3292928--3293088 Score: 150 Period size: 29 Copynumber: 5.7 Consensus size: 29 3292918 TTTTTTTAAA * * 3292928 TAATTACCAAAATAGC-CCT-TTTCGAAT 1 TAATTCCCAAAATAGCACCTATTTCAAAT * 3292955 TAATTCCCAAAATAGCACCAATTTCAAAT 1 TAATTCCCAAAATAGCACCTATTTCAAAT * * * * 3292984 TAATTCCCAGAATATCA-CTTTTTCAAAA 1 TAATTCCCAAAATAGCACCTATTTCAAAT * * * * 3293012 AAATTACCAAAATAGCACCCATTTCGAAT 1 TAATTCCCAAAATAGCACCTATTTCAAAT * * 3293041 TAATTCCCAGAATAGCA-CTATTACCAAAT 1 TAATTCCCAAAATAGCACCTATT-TCAAAT * * 3293070 TAATTCCCAGAATAACACC 1 TAATTCCCAAAATAGCACC 3293089 GGTCATCGGT Statistics Matches: 106, Mismatches: 23, Indels: 7 0.78 0.17 0.05 Matches are distributed among these distances: 27 15 0.14 28 27 0.25 29 63 0.59 30 1 0.01 ACGTcount: A:0.42, C:0.24, G:0.06, T:0.29 Consensus pattern (29 bp): TAATTCCCAAAATAGCACCTATTTCAAAT Found at i:3293114 original size:13 final size:13 Alignment explanation
Indices: 3293096--3293125 Score: 51 Period size: 13 Copynumber: 2.3 Consensus size: 13 3293086 ACCGGTCATC * 3293096 GGTCAACTGGTCG 1 GGTCAACGGGTCG 3293109 GGTCAACGGGTCG 1 GGTCAACGGGTCG 3293122 GGTC 1 GGTC 3293126 GGGTCAACGG Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 13 16 1.00 ACGTcount: A:0.13, C:0.23, G:0.43, T:0.20 Consensus pattern (13 bp): GGTCAACGGGTCG Found at i:3293127 original size:18 final size:17 Alignment explanation
Indices: 3293104--3293142 Score: 69 Period size: 18 Copynumber: 2.2 Consensus size: 17 3293094 TCGGTCAACT 3293104 GGTCGGGTCAACGGGTCG 1 GGTCGGGTCAAC-GGTCG 3293122 GGTCGGGTCAACGGTCG 1 GGTCGGGTCAACGGTCG 3293139 GGTC 1 GGTC 3293143 AACGGGTAAA Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 17 9 0.43 18 12 0.57 ACGTcount: A:0.10, C:0.23, G:0.49, T:0.18 Consensus pattern (17 bp): GGTCGGGTCAACGGTCG Found at i:3293139 original size:12 final size:12 Alignment explanation
Indices: 3293122--3293147 Score: 52 Period size: 12 Copynumber: 2.2 Consensus size: 12 3293112 CAACGGGTCG 3293122 GGTCGGGTCAAC 1 GGTCGGGTCAAC 3293134 GGTCGGGTCAAC 1 GGTCGGGTCAAC 3293146 GG 1 GG 3293148 GTAAACGGGT Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 14 1.00 ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15 Consensus pattern (12 bp): GGTCGGGTCAAC Found at i:3299939 original size:11 final size:11 Alignment explanation
Indices: 3299925--3299955 Score: 55 Period size: 10 Copynumber: 2.9 Consensus size: 11 3299915 TGTTTCTATG 3299925 TTGTTTTTTTT 1 TTGTTTTTTTT 3299936 TTG-TTTTTTT 1 TTGTTTTTTTT 3299946 TTGTTTTTTT 1 TTGTTTTTTT 3299956 CCTCTTTGTC Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 10 10 0.53 11 9 0.47 ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90 Consensus pattern (11 bp): TTGTTTTTTTT Found at i:3306212 original size:214 final size:214 Alignment explanation
Indices: 3305843--3306233 Score: 692 Period size: 214 Copynumber: 1.8 Consensus size: 214 3305833 CATTCATAAG * * 3305843 ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAATGATGTTTTAAGAAGATGGAAT 1 ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAAGAAGATGAAAT ** * 3305908 TTTTGAAAATGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA 66 TTTTGAAAACAAAGAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA * 3305973 GTCTTTCGAGCATGATGCTTAAATCTTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGT 131 GTCTTTCGAGCATGATGCTTAAATCTTTCGGGTAATCTGTAAGCCTTTAGAGCAAGATGATAAGT 3306038 CCTTCGGACCATCCGTAAA 196 CCTTCGGACCATCCGTAAA * * 3306057 ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAACGATGTTTTGAGAAGATGAAAT 1 ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAAGAAGATGAAAT * 3306122 TTTTGAAAACAAAGAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGTCCATCAGTAA 66 TTTTGAAAACAAAGAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA * 3306187 GTCTTTCGAGCATGATGCTTAAATCTTTCGGGTAATTTGTAAGCCTT 131 GTCTTTCGAGCATGATGCTTAAATCTTTCGGGTAATCTGTAAGCCTT 3306234 CACCGAAGAG Statistics Matches: 167, Mismatches: 10, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 214 167 1.00 ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33 Consensus pattern (214 bp): ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAAGAAGATGAAAT TTTTGAAAACAAAGAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA GTCTTTCGAGCATGATGCTTAAATCTTTCGGGTAATCTGTAAGCCTTTAGAGCAAGATGATAAGT CCTTCGGACCATCCGTAAA Found at i:3306275 original size:13 final size:13 Alignment explanation
Indices: 3306257--3306281 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3306247 TGAAGCAAAC 3306257 CCATCAGTAAGTG 1 CCATCAGTAAGTG 3306270 CCATCAGTAAGT 1 CCATCAGTAAGT 3306282 CTTTTGAGCA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24 Consensus pattern (13 bp): CCATCAGTAAGTG Found at i:3306331 original size:20 final size:20 Alignment explanation
Indices: 3306269--3306332 Score: 58 Period size: 20 Copynumber: 3.1 Consensus size: 20 3306259 ATCAGTAAGT * 3306269 GCCATCAGTAAGTCTTTTGA 1 GCCATCAGTAAGTCTTTCGA * * * 3306289 G-CATGATGATGAAATCCTTCGA 1 GCCATCA-G-T-AAGTCTTTCGA 3306311 GCCATCAGTAAGTCTTTCGA 1 GCCATCAGTAAGTCTTTCGA 3306331 GC 1 GC 3306333 ATGATGATTA Statistics Matches: 33, Mismatches: 7, Indels: 8 0.69 0.15 0.17 Matches are distributed among these distances: 19 4 0.12 20 13 0.39 21 2 0.06 22 10 0.30 23 4 0.12 ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30 Consensus pattern (20 bp): GCCATCAGTAAGTCTTTCGA Found at i:3306333 original size:42 final size:42 Alignment explanation
Indices: 3306269--3306351 Score: 148 Period size: 42 Copynumber: 2.0 Consensus size: 42 3306259 ATCAGTAAGT * 3306269 GCCATCAGTAAGTCTTTTGAGCATGATGATGAAATCCTTCGA 1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGA * 3306311 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCG 1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCG 3306352 GATAATTTGT Statistics Matches: 39, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 42 39 1.00 ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31 Consensus pattern (42 bp): GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGA Found at i:3306461 original size:42 final size:41 Alignment explanation
Indices: 3306398--3306484 Score: 115 Period size: 42 Copynumber: 2.1 Consensus size: 41 3306388 AAATTCATCA * 3306398 GTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT 1 GTAAGTCTTTCGAGCATGATGAT-AAATCCTTCGGGCCATTT * * 3306440 GTAAGTCTTTCGAGTGA-GATGATAAGTCCTTCGGGCCATTT 1 GTAAGTCTTTCGAG-CATGATGATAAATCCTTCGGGCCATTT 3306481 -TAAG 1 GTAAG 3306485 CCTTCTCGGA Statistics Matches: 41, Mismatches: 3, Indels: 4 0.85 0.06 0.08 Matches are distributed among these distances: 40 4 0.10 41 16 0.39 42 20 0.49 43 1 0.02 ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34 Consensus pattern (41 bp): GTAAGTCTTTCGAGCATGATGATAAATCCTTCGGGCCATTT Found at i:3306919 original size:53 final size:53 Alignment explanation
Indices: 3306856--3307058 Score: 273 Period size: 53 Copynumber: 3.8 Consensus size: 53 3306846 AGAATTACAC * * 3306856 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG 1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG 3306909 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG 1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG * * * *** 3306962 CAGAAGATTGTTCGAGTTCTACTTCCTGAAGAAATAGGGAGCGAACTCGTTTT 1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG * * * * 3307015 TAGAAGATTGTTCAAGTTCCTTAATCCCTGAA-CAAGATGGAGCG 1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCG 3307059 GACACATCAT Statistics Matches: 133, Mismatches: 15, Indels: 3 0.88 0.10 0.02 Matches are distributed among these distances: 53 114 0.86 54 10 0.08 55 9 0.07 ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24 Consensus pattern (53 bp): CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG Found at i:3313902 original size:29 final size:29 Alignment explanation
Indices: 3313870--3314036 Score: 100 Period size: 29 Copynumber: 5.7 Consensus size: 29 3313860 CTTTTTTAAA * ** * 3313870 TAATTACCAAAATAGCACCCTTTTCGAAT 1 TAATTCCCAAAATAGCACCAATTTCAAAT 3313899 TAATTCCCAAAATAGCACCAATTTCAAAT 1 TAATTCCCAAAATAGCACCAATTTCAAAT * * **** * 3313928 TAATTCCCAGAATATCATTTTTTTTTTCAAAA 1 TAATTCCCAAAATAGCA---CCAATTTCAAAT * * * 3313960 AAATTACCAAAATAGCACCCATTTCAAAT 1 TAATTCCCAAAATAGCACCAATTTCAAAT * * * * ** * 3313989 TAATTCCTAGAATATCACTAAAATCGAAT 1 TAATTCCCAAAATAGCACCAATTTCAAAT * * 3314018 TAATTCCCAGAATAACACC 1 TAATTCCCAAAATAGCACC 3314037 GGTCAACGGT Statistics Matches: 102, Mismatches: 33, Indels: 6 0.72 0.23 0.04 Matches are distributed among these distances: 29 82 0.80 32 20 0.20 ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31 Consensus pattern (29 bp): TAATTCCCAAAATAGCACCAATTTCAAAT Found at i:3314979 original size:65 final size:65 Alignment explanation
Indices: 3314863--3315025 Score: 206 Period size: 64 Copynumber: 2.5 Consensus size: 65 3314853 AATTAAATTG * * * 3314863 AACATCGAAGGCATTTCATGCATCGACGATGCA-CATACCATGCATCGATGCACTGAGGAT-TTT 1 AACATCGAATGCATTTGATGCAT---CGATGCACCATACCATGCATCGATGCACTCAGGATATTT 3314926 ATGAA 63 -TG-A * * 3314931 AACATCGAATGCATTTGATGCATCGATGCACCA-ACCATGCATCGATGCACTCTGGCTATTTTGA 1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATATTTTGA * 3314995 AACATCGAATGCACTTGATGCATCGATGCAC 1 AACATCGAATGCATTTGATGCATCGATGCAC 3315026 TCTTAGTGCA Statistics Matches: 87, Mismatches: 6, Indels: 8 0.86 0.06 0.08 Matches are distributed among these distances: 64 31 0.36 65 30 0.34 66 5 0.06 68 21 0.24 ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26 Consensus pattern (65 bp): AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATATTTTGA Found at i:3318860 original size:15 final size:15 Alignment explanation
Indices: 3318836--3318870 Score: 61 Period size: 15 Copynumber: 2.3 Consensus size: 15 3318826 ATCAAAGGAA 3318836 GAAACAAAAAATGAG 1 GAAACAAAAAATGAG * 3318851 GAAACGAAAAATGAG 1 GAAACAAAAAATGAG 3318866 GAAAC 1 GAAAC 3318871 TCATGATCCT Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 15 19 1.00 ACGTcount: A:0.63, C:0.09, G:0.23, T:0.06 Consensus pattern (15 bp): GAAACAAAAAATGAG Found at i:3323027 original size:2 final size:2 Alignment explanation
Indices: 3323020--3323046 Score: 54 Period size: 2 Copynumber: 13.5 Consensus size: 2 3323010 CAGCTTAAGC 3323020 TA TA TA TA TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA T 3323047 TTAATCAATT Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 25 1.00 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (2 bp): TA Found at i:3323640 original size:65 final size:63 Alignment explanation
Indices: 3323510--3323719 Score: 228 Period size: 65 Copynumber: 3.3 Consensus size: 63 3323500 ATTTTCAGAG * * * * ** 3323510 TGATGCACCGACGCACCAATCCATGCATCGATGCACCATGGATTAAATTG-AACATCGAATGCAT 1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTACGGATTTTA-TGAAACATCGAATGCAT 3323574 T 63 T * 3323575 TCATGCATCGATGCACATACCATGCATCGATGCACTACGGATTTTATGAAAACATCGAATGCATT 1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTACGGATTTTATG-AAACATCGAATGCATT * * * * 3323640 TGATGCATCGATGCACCAGCCATGTATCGATGCACT-CTGGCTATTT-TGAAACATCGAATGCAC 1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTAC-GGAT-TTTATGAAACATCGAATGCAT 3323703 T 63 T 3323704 TGATGCATCGATGCAC 1 TGATGCATCGATGCAC 3323720 TCTTAGTGCA Statistics Matches: 127, Mismatches: 12, Indels: 14 0.83 0.08 0.09 Matches are distributed among these distances: 63 3 0.02 64 56 0.44 65 63 0.50 66 5 0.04 ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26 Consensus pattern (63 bp): TGATGCATCGATGCACAACCATGCATCGATGCACTACGGATTTTATGAAACATCGAATGCATT Found at i:3323719 original size:17 final size:19 Alignment explanation
Indices: 3323691--3323739 Score: 57 Period size: 19 Copynumber: 2.6 Consensus size: 19 3323681 TATTTTGAAA 3323691 CATCGAATGCACT-TGA-TG 1 CATCG-ATGCACTCTGAGTG * 3323709 CATCGATGCACTCTTAGTG 1 CATCGATGCACTCTGAGTG * 3323728 CACCGATGCACT 1 CATCGATGCACT 3323740 AAGGGTCCAA Statistics Matches: 27, Mismatches: 2, Indels: 3 0.84 0.06 0.09 Matches are distributed among these distances: 17 7 0.26 18 7 0.26 19 13 0.48 ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27 Consensus pattern (19 bp): CATCGATGCACTCTGAGTG Found at i:3326303 original size:21 final size:21 Alignment explanation
Indices: 3326246--3326293 Score: 96 Period size: 21 Copynumber: 2.3 Consensus size: 21 3326236 ATTTGAACTC 3326246 ATATTAAGAAAATATGATAAT 1 ATATTAAGAAAATATGATAAT 3326267 ATATTAAGAAAATATGATAAT 1 ATATTAAGAAAATATGATAAT 3326288 ATATTA 1 ATATTA 3326294 TTAAATTATG Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 27 1.00 ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35 Consensus pattern (21 bp): ATATTAAGAAAATATGATAAT Found at i:3326490 original size:20 final size:20 Alignment explanation
Indices: 3326465--3326547 Score: 98 Period size: 19 Copynumber: 4.2 Consensus size: 20 3326455 ATACCCCTAT * 3326465 TACAGGTACCGATACCTTGC 1 TACAGGTACCGATACCCTGC 3326485 TACAGGTACCGATACCCTGC 1 TACAGGTACCGATACCCTGC * * * 3326505 TACA-GTACTGCTATCCTGC 1 TACAGGTACCGATACCCTGC * * 3326524 TACA-GTACTGCTACCCTGC 1 TACAGGTACCGATACCCTGC 3326543 TACAG 1 TACAG 3326548 TACTGCTACA Statistics Matches: 57, Mismatches: 5, Indels: 2 0.89 0.08 0.03 Matches are distributed among these distances: 19 34 0.60 20 23 0.40 ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25 Consensus pattern (20 bp): TACAGGTACCGATACCCTGC Found at i:3326517 original size:11 final size:11 Alignment explanation
Indices: 3326501--3326562 Score: 64 Period size: 11 Copynumber: 6.2 Consensus size: 11 3326491 TACCGATACC 3326501 CTGCTACAGTA 1 CTGCTACAGTA * 3326512 CTGCT--A-TC 1 CTGCTACAGTA 3326520 CTGCTACAGTA 1 CTGCTACAGTA * 3326531 CTGCTAC---C 1 CTGCTACAGTA 3326539 CTGCTACAGTA 1 CTGCTACAGTA 3326550 CTGCTACAGTA 1 CTGCTACAGTA 3326561 CT 1 CT 3326563 TCCATAAAAC Statistics Matches: 41, Mismatches: 4, Indels: 12 0.72 0.07 0.21 Matches are distributed among these distances: 8 13 0.32 9 1 0.02 10 1 0.02 11 26 0.63 ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29 Consensus pattern (11 bp): CTGCTACAGTA Found at i:3326522 original size:19 final size:19 Alignment explanation
Indices: 3326477--3326556 Score: 115 Period size: 19 Copynumber: 4.2 Consensus size: 19 3326467 CAGGTACCGA * * * 3326477 TACCTTGCTACAGGTACCGA 1 TACCCTGCTACA-GTACTGC 3326497 TACCCTGCTACAGTACTGC 1 TACCCTGCTACAGTACTGC * 3326516 TATCCTGCTACAGTACTGC 1 TACCCTGCTACAGTACTGC 3326535 TACCCTGCTACAGTACTGC 1 TACCCTGCTACAGTACTGC 3326554 TAC 1 TAC 3326557 AGTACTTCCA Statistics Matches: 55, Mismatches: 5, Indels: 1 0.90 0.08 0.02 Matches are distributed among these distances: 19 44 0.80 20 11 0.20 ACGTcount: A:0.23, C:0.34, G:0.16, T:0.28 Consensus pattern (19 bp): TACCCTGCTACAGTACTGC Found at i:3327458 original size:30 final size:31 Alignment explanation
Indices: 3327424--3327487 Score: 85 Period size: 31 Copynumber: 2.1 Consensus size: 31 3327414 TTATATCGCG * * * 3327424 TAGACATATTA-TTTGCATACTTTTATCACA 1 TAGACATATCATTTTCCATACATTTATCACA * 3327454 TAGACGTATCATTTTCCATACATTTATCACA 1 TAGACATATCATTTTCCATACATTTATCACA 3327485 TAG 1 TAG 3327488 CTCATATAAC Statistics Matches: 29, Mismatches: 4, Indels: 1 0.85 0.12 0.03 Matches are distributed among these distances: 30 9 0.31 31 20 0.69 ACGTcount: A:0.33, C:0.19, G:0.08, T:0.41 Consensus pattern (31 bp): TAGACATATCATTTTCCATACATTTATCACA Found at i:3327611 original size:17 final size:17 Alignment explanation
Indices: 3327589--3327630 Score: 75 Period size: 17 Copynumber: 2.5 Consensus size: 17 3327579 AAATATTGAA 3327589 TCTAGACTTATCACAAG 1 TCTAGACTTATCACAAG 3327606 TCTAGACTTATCACAAG 1 TCTAGACTTATCACAAG * 3327623 TCGAGACT 1 TCTAGACT 3327631 GATTATAATA Statistics Matches: 24, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 17 24 1.00 ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29 Consensus pattern (17 bp): TCTAGACTTATCACAAG Found at i:3337065 original size:16 final size:16 Alignment explanation
Indices: 3337044--3337074 Score: 62 Period size: 16 Copynumber: 1.9 Consensus size: 16 3337034 TGAAACTCGA 3337044 CTCGAACTCGAAAAAG 1 CTCGAACTCGAAAAAG 3337060 CTCGAACTCGAAAAA 1 CTCGAACTCGAAAAA 3337075 AATTCAAAAG Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 15 1.00 ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13 Consensus pattern (16 bp): CTCGAACTCGAAAAAG Found at i:3337913 original size:15 final size:13 Alignment explanation
Indices: 3337893--3337930 Score: 51 Period size: 12 Copynumber: 2.8 Consensus size: 13 3337883 CTTTCTTAGC 3337893 ATTATCATATATATT 1 ATTATCAT-TAT-TT 3337908 ATTATCATTATTT 1 ATTATCATTATTT 3337921 A-TATCATTAT 1 ATTATCATTAT 3337931 CATCAAATTA Statistics Matches: 23, Mismatches: 0, Indels: 3 0.88 0.00 0.12 Matches are distributed among these distances: 12 9 0.39 13 3 0.13 14 3 0.13 15 8 0.35 ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55 Consensus pattern (13 bp): ATTATCATTATTT Found at i:3338208 original size:23 final size:23 Alignment explanation
Indices: 3338190--3338250 Score: 79 Period size: 23 Copynumber: 2.7 Consensus size: 23 3338180 CTCGTATATA 3338190 TACACCGAAGTGCCACGTAGAAT 1 TACACCGAAGTGCCACGTAGAAT * * 3338213 TGCACCGTAGTGCCACGTAGAAT 1 TACACCGAAGTGCCACGTAGAAT * 3338236 TGCACC-ATAGTGCCA 1 TACACCGA-AGTGCCA 3338251 TATAATAATG Statistics Matches: 34, Mismatches: 3, Indels: 2 0.87 0.08 0.05 Matches are distributed among these distances: 23 34 1.00 ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20 Consensus pattern (23 bp): TACACCGAAGTGCCACGTAGAAT Found at i:3343155 original size:18 final size:17 Alignment explanation
Indices: 3343116--3343156 Score: 55 Period size: 18 Copynumber: 2.4 Consensus size: 17 3343106 ACTTTCTTAG 3343116 CATTATCATATATATAT 1 CATTATCATATATATAT * * 3343133 TATTATCATTATTTATAT 1 CATTATCA-TATATATAT 3343151 CATTAT 1 CATTAT 3343157 TATCAAATTA Statistics Matches: 20, Mismatches: 3, Indels: 1 0.83 0.12 0.04 Matches are distributed among these distances: 17 7 0.35 18 13 0.65 ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54 Consensus pattern (17 bp): CATTATCATATATATAT Found at i:3343173 original size:21 final size:21 Alignment explanation
Indices: 3343126--3343171 Score: 67 Period size: 21 Copynumber: 2.1 Consensus size: 21 3343116 CATTATCATA 3343126 TATAT-ATTATTATCATTATT 1 TATATCATTATTATCATTATT 3343146 TATATCATTATTATCAAATTATT 1 TATATCATTATTATC--ATTATT 3343169 TAT 1 TAT 3343172 CACATGATCT Statistics Matches: 23, Mismatches: 0, Indels: 3 0.88 0.00 0.12 Matches are distributed among these distances: 20 5 0.22 21 9 0.39 23 9 0.39 ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57 Consensus pattern (21 bp): TATATCATTATTATCATTATT Found at i:3343298 original size:2 final size:2 Alignment explanation
Indices: 3343291--3343318 Score: 56 Period size: 2 Copynumber: 14.0 Consensus size: 2 3343281 AAACATATTC 3343291 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 3343319 GTATTTGTTA Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 26 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:3343452 original size:22 final size:23 Alignment explanation
Indices: 3343427--3343481 Score: 58 Period size: 23 Copynumber: 2.4 Consensus size: 23 3343417 CGTATATATA * * 3343427 CACCGAAGT-ACGCGTAGAATTG 1 CACCGAAGTGACACCTAGAATTG * * 3343449 CACCGTAGTGCCACCTAGAATTG 1 CACCGAAGTGACACCTAGAATTG * 3343472 CACCGTAGTG 1 CACCGAAGTG 3343482 CCATATAATA Statistics Matches: 28, Mismatches: 4, Indels: 1 0.85 0.12 0.03 Matches are distributed among these distances: 22 8 0.29 23 20 0.71 ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20 Consensus pattern (23 bp): CACCGAAGTGACACCTAGAATTG Found at i:3343468 original size:23 final size:23 Alignment explanation
Indices: 3343441--3343484 Score: 88 Period size: 23 Copynumber: 1.9 Consensus size: 23 3343431 GAAGTACGCG 3343441 TAGAATTGCACCGTAGTGCCACC 1 TAGAATTGCACCGTAGTGCCACC 3343464 TAGAATTGCACCGTAGTGCCA 1 TAGAATTGCACCGTAGTGCCA 3343485 TATAATAATG Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 23 21 1.00 ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23 Consensus pattern (23 bp): TAGAATTGCACCGTAGTGCCACC Found at i:3349137 original size:6 final size:7 Alignment explanation
Indices: 3349114--3349220 Score: 80 Period size: 7 Copynumber: 15.9 Consensus size: 7 3349104 GTGTATAACT 3349114 TAAACCC 1 TAAACCC 3349121 TAAACCC 1 TAAACCC 3349128 TAAA-CC 1 TAAACCC 3349134 TAAACCC 1 TAAACCC * * 3349141 CACACCC 1 TAAACCC 3349148 TAAACCC 1 TAAACCC 3349155 TAAA--C 1 TAAACCC * 3349160 T-AACCT 1 TAAACCC * * 3349166 TAAATCA 1 TAAACCC * * 3349173 T-ATCACA 1 TAAAC-CC 3349180 TAAACCC 1 TAAACCC 3349187 TAAACCC 1 TAAACCC * 3349194 TAAACCA 1 TAAACCC 3349201 TAAACCC 1 TAAACCC * * 3349208 TAATCTC 1 TAAACCC 3349215 TAAACC 1 TAAACC 3349221 TTTATATTTA Statistics Matches: 77, Mismatches: 17, Indels: 12 0.73 0.16 0.11 Matches are distributed among these distances: 4 2 0.03 5 2 0.03 6 8 0.10 7 63 0.82 8 2 0.03 ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19 Consensus pattern (7 bp): TAAACCC Found at i:3349438 original size:14 final size:14 Alignment explanation
Indices: 3349421--3349461 Score: 52 Period size: 14 Copynumber: 3.1 Consensus size: 14 3349411 TTTATTCATC 3349421 AATAATGTATTTTT 1 AATAATGTATTTTT 3349435 AAT-A--TATTTTT 1 AATAATGTATTTTT * 3349446 AATAATGTAATTTT 1 AATAATGTATTTTT 3349460 AA 1 AA 3349462 AAAATTTAAA Statistics Matches: 23, Mismatches: 1, Indels: 6 0.77 0.03 0.20 Matches are distributed among these distances: 11 10 0.43 12 1 0.04 13 1 0.04 14 11 0.48 ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54 Consensus pattern (14 bp): AATAATGTATTTTT Found at i:3349468 original size:25 final size:25 Alignment explanation
Indices: 3349421--3349468 Score: 69 Period size: 25 Copynumber: 1.9 Consensus size: 25 3349411 TTTATTCATC * * * 3349421 AATAATGTATTTTTAATATATTTTT 1 AATAATGTAATTTTAAAAAATTTTT 3349446 AATAATGTAATTTTAAAAAATTT 1 AATAATGTAATTTTAAAAAATTT 3349469 AAAATTATAA Statistics Matches: 20, Mismatches: 3, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 25 20 1.00 ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52 Consensus pattern (25 bp): AATAATGTAATTTTAAAAAATTTTT Done.