Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_A10 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: 110302803 ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32 Warning! 1825971 characters in sequence are not A, C, G, or T File 210 of 343 Found at i:69155296 original size:44 final size:44 Alignment explanation
Indices: 69155229--69155316 Score: 167 Period size: 44 Copynumber: 2.0 Consensus size: 44 69155219 AAAAGGTGTA 69155229 AGAATCCTAACCCTCCAGCAGAGTAGGTACGATTTTTCAATGTC 1 AGAATCCTAACCCTCCAGCAGAGTAGGTACGATTTTTCAATGTC * 69155273 AGAATCCTAACCCTCCAGTAGAGTAGGTACGATTTTTCAATGTC 1 AGAATCCTAACCCTCCAGCAGAGTAGGTACGATTTTTCAATGTC 69155317 GTTTCAAGGA Statistics Matches: 43, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 44 43 1.00 ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28 Consensus pattern (44 bp): AGAATCCTAACCCTCCAGCAGAGTAGGTACGATTTTTCAATGTC Found at i:69158368 original size:16 final size:17 Alignment explanation
Indices: 69158347--69158379 Score: 50 Period size: 17 Copynumber: 2.0 Consensus size: 17 69158337 TAATTTAGCC 69158347 ACTTTTA-TTTTATTTT 1 ACTTTTAGTTTTATTTT * 69158363 ACTTTTAGTTTTGTTTT 1 ACTTTTAGTTTTATTTT 69158380 TAGTTTAATT Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 16 7 0.47 17 8 0.53 ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73 Consensus pattern (17 bp): ACTTTTAGTTTTATTTT Found at i:69159810 original size:43 final size:43 Alignment explanation
Indices: 69159749--69159896 Score: 133 Period size: 43 Copynumber: 3.5 Consensus size: 43 69159739 CAATGTCGAC * * * * 69159749 GTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTCT 1 GTCCCAGACATGGTCTTACAAGTAATTCAATATCGATGCCTAT * * * * * 69159792 GTCCCAAACAGGGTCTTACACG-AAATCAGATA-CGATGCCGAT 1 GTCCCAGACATGGTCTTACAAGTAATTCA-ATATCGATGCCTAT * * * 69159834 GTCCCAGACATGGTCTTATAAGTAAATCTC-A-ATCGAGGCCTGT 1 GTCCCAGACATGGTCTTACAAGT-AAT-TCAATATCGATGCCTAT 69159877 GTCCCAGACATGGTCTTACA 1 GTCCCAGACATGGTCTTACA 69159897 CGATGTCTCA Statistics Matches: 83, Mismatches: 17, Indels: 10 0.75 0.15 0.09 Matches are distributed among these distances: 42 32 0.39 43 47 0.57 44 2 0.02 45 2 0.02 ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26 Consensus pattern (43 bp): GTCCCAGACATGGTCTTACAAGTAATTCAATATCGATGCCTAT Found at i:69164640 original size:19 final size:18 Alignment explanation
Indices: 69164616--69164721 Score: 128 Period size: 17 Copynumber: 5.8 Consensus size: 18 69164606 TCATATCTTT 69164616 TAAGATTGTATATCATATC 1 TAAGATTG-ATATCATATC * 69164635 TAAGATTTCA-ATCATATC 1 TAAGA-TTGATATCATATC 69164653 TAAGATTG-TATCATATC 1 TAAGATTGATATCATATC 69164670 TAAGATTG-TATCATATC 1 TAAGATTGATATCATATC * * 69164687 TAAGATTGCATATAACATC 1 TAAGATTG-ATATCATATC 69164706 TAAGATTGCATATCAT 1 TAAGATTG-ATATCAT 69164722 TGAAGATTAT Statistics Matches: 77, Mismatches: 6, Indels: 8 0.85 0.07 0.09 Matches are distributed among these distances: 17 35 0.45 18 13 0.17 19 27 0.35 20 2 0.03 ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39 Consensus pattern (18 bp): TAAGATTGATATCATATC Found at i:69165585 original size:207 final size:207 Alignment explanation
Indices: 69165119--69166039 Score: 1405 Period size: 207 Copynumber: 4.5 Consensus size: 207 69165109 AAATCTGATT * * * * 69165119 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC 1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC * * * * 69165184 GCGAAAGCCAAATCAGCTATGTCTTCAATTT-TCTCCTTATAAGCACAAGGATACCAAACCATCT 66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGT-TCCTTGTAAGCACAAGGATGCCAAACCATCT * * * ** * * * 69165248 TGGATC-TACTTCAGTCTAATCATCCGAAGGTTAGATCTGCTATATGTCTGTCCGCCGTCGAATA 130 TGGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA * 69165312 TGGAGATGCCAAA 195 TGGAGACGCCAAA * * 69165325 ATTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC 1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC * * * 69165390 GTGAAAGCCAAATCAGTTATGTCTTTGATTTGTTCCATGTAAGCACAAGGATGCCAAACCATCTT 66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT * * * * * 69165455 GGATCTTGCTTCGGTATAAAAATCTGAAGGCCAGATCTACTATGTGTCTGCCTTCCGTCGAATAT 131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT 69165520 GGAGACGCCAAA 196 GGAGACGCCAAA * * 69165532 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAAACTTGCTTCAACGTAAACAC 1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC * * * 69165597 GTGAAAGCGAAATTAGCTATGTCTTCGATTTGTTCCTCGTAAGCACAAGGATGCCAAACCATCTT 66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT * * * * 69165662 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGGTCTGCTATGTGTCTGCCCTCCATCAAATAT 131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT 69165727 GGAGACGCCAAA 196 GGAGACGCCAAA ** 69165739 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAAAATAAACAC 1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC * * 69165804 GTGAAAGCCAAATCAGCTATTTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATATT 66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT 69165869 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT 131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT 69165934 GGAGACGCCAAA 196 GGAGACGCCAAA * * * * ** 69165946 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGTAC 1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC 69166011 GTGAAAGCCAAATCAGCTATGTCTTCGAT 66 GTGAAAGCCAAATCAGCTATGTCTTCGAT 69166040 CTACTCTCCG Statistics Matches: 649, Mismatches: 64, Indels: 3 0.91 0.09 0.00 Matches are distributed among these distances: 206 120 0.18 207 529 0.82 ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30 Consensus pattern (207 bp): CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT GGAGACGCCAAA Found at i:69166268 original size:43 final size:43 Alignment explanation
Indices: 69166219--69166527 Score: 146 Period size: 43 Copynumber: 7.3 Consensus size: 43 69166209 ATCTACTCCA * 69166219 CTACTGCTTAGGGAGATAAGATCCGTAATTTTGACCTGTTACC 1 CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC * * * * * 69166262 CTACTGCTTAGGG-GATTAAG-GCGAGTCATCGTTGATCTATT-CC 1 CTACTGCTTAGGGAGA-TAAGATC-AGTAAT-TTTGACCTGTTACC 69166305 GCTACTGCTTAGGGAGATAAGATCTA-TAATTTT-AGCCTGTTACC 1 -CTACTGCTTAGGGAGATAAGATC-AGTAATTTTGA-CCTGTTACC * * * * ** ** * * 69166349 CTACTGCTTAGGGGGTTAAGGTGAGTTCTTGTCAATCTGCTT-CA 1 CTACTGCTTAGGGAGATAAGATCAGTAATT-TTGACCTG-TTACC * * 69166393 CTACTGCTTAGGGAGATAAGATCTGTGA-----ACCTGTTACC 1 CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC * * * * * * 69166431 CTACTGCTTAAGGGA-TTAAG-GCGAGT--CTTCGATCTGCT-CC 1 CTACTGCTT-AGGGAGATAAGATC-AGTAATTTTGACCTGTTACC * * * * * 69166471 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTGACC 1 -CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC 69166515 CTACTGCTTAGGG 1 CTACTGCTTAGGG 69166528 GATTAAGGCG Statistics Matches: 195, Mismatches: 45, Indels: 52 0.67 0.15 0.18 Matches are distributed among these distances: 37 3 0.02 38 20 0.10 39 5 0.03 40 7 0.04 41 19 0.10 42 6 0.03 43 70 0.36 44 58 0.30 45 7 0.04 ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32 Consensus pattern (43 bp): CTACTGCTTAGGGAGATAAGATCAGTAATTTTGACCTGTTACC Found at i:69166325 original size:87 final size:84 Alignment explanation
Indices: 69166168--69166537 Score: 439 Period size: 87 Copynumber: 4.4 Consensus size: 84 69166158 CTATACTTTA * * * 69166168 ACCTGTTACCTTACTACTTAGGGGGTTAAGGCGCA-TCT-TCGATCTACTCCACTACTGCTTAGG 1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTCTCGATCTACTCCACTACTGCTTAGG * 69166231 GAGATAAGATCCGTAATTTT 65 GAGATAAGATCTGTAATTTT * * * 69166251 GACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTTGATCTATTCCGCTACTGCTTA 1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-TC-TCGATCTACTCCACTACTGCTTA * 69166316 GGGAGATAAGATCTATAATTTT 63 GGGAGATAAGATCTGTAATTTT * * * * * * 69166338 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTGAGTTCTTGTCAATCTGCTTCACTACTGCTTA 1 A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAG-TC-TCTCGATCTACTCCACTACTGCTTA * 69166403 GGGAGATAAGATCTGTGA---- 63 GGGAGATAAGATCTGTAATTTT * * 69166421 ACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCT-TCGATCTGCTCCACTACTGCTTAGGG 1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTCTCGATCTACTCCACTACTGCTTAGGG * * 69166485 AGATAAGATCTGCAAATTTA 66 AGATAAGATCTG-TAATTTT * 69166505 ACCTGTGACCCTACTGCTTAGGGGATTAAGGCG 1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG 69166538 CTGAATTTTG Statistics Matches: 246, Mismatches: 29, Indels: 22 0.83 0.10 0.07 Matches are distributed among these distances: 79 36 0.15 80 2 0.01 81 2 0.01 82 31 0.13 83 2 0.01 84 63 0.26 85 1 0.00 86 1 0.00 87 105 0.43 88 3 0.01 ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31 Consensus pattern (84 bp): ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTCTCGATCTACTCCACTACTGCTTAGGG AGATAAGATCTGTAATTTT Found at i:69167500 original size:23 final size:23 Alignment explanation
Indices: 69167466--69167533 Score: 81 Period size: 22 Copynumber: 3.0 Consensus size: 23 69167456 TGGACTCTCC 69167466 ATTTTT-TCTTTTTTCTCTTTTTT 1 ATTTTTAT-TTTTTTCTCTTTTTT 69167489 ATTTTTATTTTTTT-TCTCTTTTT 1 ATTTTTATTTTTTTCTCT-TTTTT 69167512 A-TTTTATTTTTTTGC-CTTTTTT 1 ATTTTTATTTTTTT-CTCTTTTTT 69167534 TTGAAATAGA Statistics Matches: 41, Mismatches: 0, Indels: 9 0.82 0.00 0.18 Matches are distributed among these distances: 22 20 0.49 23 20 0.49 24 1 0.02 ACGTcount: A:0.07, C:0.10, G:0.01, T:0.81 Consensus pattern (23 bp): ATTTTTATTTTTTTCTCTTTTTT Found at i:69167534 original size:23 final size:23 Alignment explanation
Indices: 69167466--69167534 Score: 72 Period size: 23 Copynumber: 3.0 Consensus size: 23 69167456 TGGACTCTCC 69167466 ATTTTT-TCTTTTTTCTC-TTTTTT 1 ATTTTTAT-TTTTTTC-CTTTTTTT * * 69167489 ATTTTTATTTTTTTTCTCTTTTT 1 ATTTTTATTTTTTTCCTTTTTTT 69167512 A-TTTTATTTTTTTGCCTTTTTTT 1 ATTTTTATTTTTTT-CCTTTTTTT 69167535 TGAAATAGAA Statistics Matches: 39, Mismatches: 4, Indels: 6 0.80 0.08 0.12 Matches are distributed among these distances: 22 13 0.33 23 25 0.64 24 1 0.03 ACGTcount: A:0.07, C:0.10, G:0.01, T:0.81 Consensus pattern (23 bp): ATTTTTATTTTTTTCCTTTTTTT Found at i:69172376 original size:24 final size:24 Alignment explanation
Indices: 69172344--69172391 Score: 96 Period size: 24 Copynumber: 2.0 Consensus size: 24 69172334 TCCGAAAGTA 69172344 TACAAACATCACATCCAGCATGTG 1 TACAAACATCACATCCAGCATGTG 69172368 TACAAACATCACATCCAGCATGTG 1 TACAAACATCACATCCAGCATGTG 69172392 AGGACATGAT Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 24 24 1.00 ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21 Consensus pattern (24 bp): TACAAACATCACATCCAGCATGTG Found at i:69173025 original size:17 final size:18 Alignment explanation
Indices: 69172974--69173097 Score: 171 Period size: 17 Copynumber: 6.8 Consensus size: 18 69172964 TCATATCTTT * 69172974 TAAGATTGTATATCATATC 1 TAAGATTG-CTATCATATC * 69172993 TAAGATTGCAATCATATC 1 TAAGATTGCTATCATATC 69173011 TAAGATTG-TATCATATC 1 TAAGATTGCTATCATATC * 69173028 TAAGATTGCAATCATATC 1 TAAGATTGCTATCATATC 69173046 TAAGATTG-TATCATATC 1 TAAGATTGCTATCATATC * 69173063 TAAGATTGCATATCACATC 1 TAAGATTGC-TATCATATC 69173082 TAAGATTGCATATCAT 1 TAAGATTGC-TATCAT 69173098 TGAAGATTAT Statistics Matches: 95, Mismatches: 7, Indels: 6 0.88 0.06 0.06 Matches are distributed among these distances: 17 32 0.34 18 32 0.34 19 31 0.33 ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37 Consensus pattern (18 bp): TAAGATTGCTATCATATC Found at i:69173029 original size:35 final size:35 Alignment explanation
Indices: 69172974--69173089 Score: 196 Period size: 35 Copynumber: 3.2 Consensus size: 35 69172964 TCATATCTTT 69172974 TAAGATTGTATATCATATCTAAGATTGCAATCATATC 1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC 69173011 TAAGATTGTATCATATCTAAGATTGCAATCATATC 1 TAAGATTGTATCATATCTAAGATTGCAATCATATC * 69173046 TAAGATTGTATCATATCTAAGATTGCATATCACATC 1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC 69173082 TAAGATTG 1 TAAGATTG 69173090 CATATCATTG Statistics Matches: 77, Mismatches: 1, Indels: 3 0.95 0.01 0.04 Matches are distributed among these distances: 35 54 0.70 36 15 0.19 37 8 0.10 ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37 Consensus pattern (35 bp): TAAGATTGTATCATATCTAAGATTGCAATCATATC Found at i:69177385 original size:48 final size:48 Alignment explanation
Indices: 69177310--69177452 Score: 214 Period size: 48 Copynumber: 3.0 Consensus size: 48 69177300 ACTTGGGAGT * 69177310 CTCGCACCCTAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA 1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA * * 69177358 CTTGCACCCGAAGTGCCAATATTATGGCCCAAAGCCAAATCAATGTAA 1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA * * * ** 69177406 CTCGCACTCGAATTGCCAATATCATAGCCTGAAGCCAAATCAATGTA 1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTA 69177453 TTCCCTAATG Statistics Matches: 85, Mismatches: 10, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 48 85 1.00 ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21 Consensus pattern (48 bp): CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA Found at i:69182629 original size:18 final size:18 Alignment explanation
Indices: 69182608--69182646 Score: 53 Period size: 18 Copynumber: 2.2 Consensus size: 18 69182598 TAAATAAGAT * 69182608 AAATAAAGATAA-AAGTAA 1 AAATAAA-ATAATAAATAA 69182626 AAATAAAATAATAAATAA 1 AAATAAAATAATAAATAA 69182644 AAA 1 AAA 69182647 GTTTTTAAAA Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 17 4 0.21 18 15 0.79 ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18 Consensus pattern (18 bp): AAATAAAATAATAAATAA Found at i:69182631 original size:12 final size:11 Alignment explanation
Indices: 69182550--69182645 Score: 59 Period size: 11 Copynumber: 8.4 Consensus size: 11 69182540 AAAAATTATA * 69182550 AAAACTAAAATT 1 AAAA-TAAAAAT * 69182562 AAAAT-AATAT 1 AAAATAAAAAT * * 69182572 TAAAGAAAAAT 1 AAAATAAAAAT * 69182583 GAAATAAAAAT 1 AAAATAAAAAT * * * 69182594 TAATTAAATAAG 1 AAAATAAA-AAT * 69182606 ATAAATAAAGAT 1 A-AAATAAAAAT 69182618 AAAAGTAAAAAT 1 AAAA-TAAAAAT 69182630 AAAATAATAAAT 1 AAAATAA-AAAT 69182642 AAAA 1 AAAA 69182646 AGTTTTTAAA Statistics Matches: 64, Mismatches: 15, Indels: 10 0.72 0.17 0.11 Matches are distributed among these distances: 10 6 0.09 11 26 0.41 12 26 0.41 13 6 0.09 ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23 Consensus pattern (11 bp): AAAATAAAAAT Found at i:69193947 original size:43 final size:43 Alignment explanation
Indices: 69193898--69194015 Score: 160 Period size: 36 Copynumber: 2.9 Consensus size: 43 69193888 TTTTTATAAG * 69193898 TATATATTTATGTATTACGTAAATTATGTAAGTTATGATATGA 1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA * 69193941 TATATATTTATG---T-C---AGTTATGTAAGTTATAATATGA 1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA * 69193977 TATATATTTATGTATTATGTAAGTTATGTAAGTTATGAT 1 TATATATTTATGTATTACGTAAGTTATGTAAGTTATGAT 69194016 CCAAAGTATT Statistics Matches: 64, Mismatches: 4, Indels: 14 0.78 0.05 0.17 Matches are distributed among these distances: 36 32 0.50 39 2 0.03 40 1 0.02 43 29 0.45 ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48 Consensus pattern (43 bp): TATATATTTATGTATTACGTAAGTTATGTAAGTTATGATATGA Found at i:69194098 original size:35 final size:35 Alignment explanation
Indices: 69194035--69194115 Score: 119 Period size: 35 Copynumber: 2.3 Consensus size: 35 69194025 TTTTTTTATT * 69194035 CTTTAAATATTTACTTAAATTATGATAATCATAAA 1 CTTTAAATATTTACTTAAATTATAATAATCATAAA * * 69194070 CTTTAAATGTTTA-TATAAGTTATAATAATCATAAA 1 CTTTAAATATTTACT-TAAATTATAATAATCATAAA 69194105 CTTTAAATATT 1 CTTTAAATATT 69194116 ATTAAAATTT Statistics Matches: 41, Mismatches: 4, Indels: 2 0.87 0.09 0.04 Matches are distributed among these distances: 34 1 0.02 35 40 0.98 ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44 Consensus pattern (35 bp): CTTTAAATATTTACTTAAATTATAATAATCATAAA Found at i:69196281 original size:18 final size:20 Alignment explanation
Indices: 69196258--69196307 Score: 77 Period size: 18 Copynumber: 2.6 Consensus size: 20 69196248 TTATGATTTT 69196258 GATTTGGGGAAAATTT-AGG 1 GATTTGGGGAAAATTTGAGG 69196277 G-TTTGGGGAAAATTTGAGG 1 GATTTGGGGAAAATTTGAGG * 69196296 GATTTAGGGAAA 1 GATTTGGGGAAA 69196308 TTTTTTATGG Statistics Matches: 28, Mismatches: 1, Indels: 3 0.88 0.03 0.09 Matches are distributed among these distances: 18 14 0.50 19 5 0.18 20 9 0.32 ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30 Consensus pattern (20 bp): GATTTGGGGAAAATTTGAGG Found at i:69197098 original size:7 final size:7 Alignment explanation
Indices: 69197088--69197149 Score: 67 Period size: 7 Copynumber: 8.9 Consensus size: 7 69197078 ACCCTAAATA 69197088 ATAAACC 1 ATAAACC 69197095 ATAAACC 1 ATAAACC 69197102 ATAAAACC 1 AT-AAACC 69197110 AT-AACC 1 ATAAACC 69197116 ACTAAA-C 1 A-TAAACC * 69197123 ATGAAGCC 1 AT-AAACC 69197131 -TAAACC 1 ATAAACC 69197137 ATAAACC 1 ATAAACC 69197144 ATAAAC 1 ATAAAC 69197150 TCTAAACTTT Statistics Matches: 47, Mismatches: 2, Indels: 12 0.77 0.03 0.20 Matches are distributed among these distances: 6 10 0.21 7 27 0.57 8 10 0.21 ACGTcount: A:0.55, C:0.27, G:0.03, T:0.15 Consensus pattern (7 bp): ATAAACC Found at i:69197115 original size:21 final size:21 Alignment explanation
Indices: 69197089--69197156 Score: 70 Period size: 21 Copynumber: 3.2 Consensus size: 21 69197079 CCCTAAATAA 69197089 TAAACCATAAACCATAAAACC 1 TAAACCATAAACCATAAAACC * * 69197110 -ATAACCACTAAA-CATGAAGCC 1 TA-AACCA-TAAACCATAAAACC 69197131 TAAACCATAAACCAT-AAACTC 1 TAAACCATAAACCATAAAAC-C 69197152 TAAAC 1 TAAAC 69197157 TTTAAATCCT Statistics Matches: 39, Mismatches: 3, Indels: 10 0.75 0.06 0.19 Matches are distributed among these distances: 20 8 0.21 21 26 0.67 22 5 0.13 ACGTcount: A:0.53, C:0.28, G:0.03, T:0.16 Consensus pattern (21 bp): TAAACCATAAACCATAAAACC Found at i:69197553 original size:84 final size:83 Alignment explanation
Indices: 69197420--69197591 Score: 256 Period size: 84 Copynumber: 2.1 Consensus size: 83 69197410 AGTAAAAACA * 69197420 CCACTAAAACTTAATTCCCTATAGTGAAACGATGCTGCCCAAGGCAAATTGGTATTGCAATTTTG 1 CCACTAAAACTTAATTCCCTATAGTGAAACGACGCTGCCCAAGGCAAATTGGTATTGCAATTTTG 69197485 CGGCGTTTATGAAAAATG 66 CGGCGTTTATGAAAAATG * * * * * 69197503 CCACTAAAAATTTAATTCCCTGTAGTGAAACGACG-TCGTCTAGGGCAAATTGGTATTGCAATTT 1 CCACT-AAAACTTAATTCCCTATAGTGAAACGACGCT-GCCCAAGGCAAATTGGTATTGCAATTT * 69197567 TGTGGCGTTTATGAAAAATG 64 TGCGGCGTTTATGAAAAATG 69197587 CCACT 1 CCACT 69197592 GATACAAAAC Statistics Matches: 80, Mismatches: 7, Indels: 3 0.89 0.08 0.03 Matches are distributed among these distances: 83 6 0.08 84 74 0.93 ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30 Consensus pattern (83 bp): CCACTAAAACTTAATTCCCTATAGTGAAACGACGCTGCCCAAGGCAAATTGGTATTGCAATTTTG CGGCGTTTATGAAAAATG Found at i:69199098 original size:21 final size:21 Alignment explanation
Indices: 69199073--69199125 Score: 52 Period size: 21 Copynumber: 2.5 Consensus size: 21 69199063 TTAGAGATTC * * 69199073 CACACGGGCGTGTGTTTTGGA 1 CACACGGGCGTGTCTTGTGGA * * * * 69199094 CACACAGCCATGTCTTGTGGG 1 CACACGGGCGTGTCTTGTGGA 69199115 CACACGGGCGT 1 CACACGGGCGT 69199126 ATGAGACCCT Statistics Matches: 23, Mismatches: 9, Indels: 0 0.72 0.28 0.00 Matches are distributed among these distances: 21 23 1.00 ACGTcount: A:0.17, C:0.26, G:0.34, T:0.23 Consensus pattern (21 bp): CACACGGGCGTGTCTTGTGGA Found at i:69202093 original size:17 final size:17 Alignment explanation
Indices: 69202059--69202097 Score: 53 Period size: 17 Copynumber: 2.3 Consensus size: 17 69202049 TTTAAGTTAA * 69202059 TATTTTTAATTATTTTT 1 TATTTTTAATTATATTT 69202076 TATTTTTAATT-TAATTT 1 TATTTTTAATTAT-ATTT 69202093 TATTT 1 TATTT 69202098 ATTTTTTCTC Statistics Matches: 20, Mismatches: 1, Indels: 2 0.87 0.04 0.09 Matches are distributed among these distances: 16 1 0.05 17 19 0.95 ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74 Consensus pattern (17 bp): TATTTTTAATTATATTT Found at i:69202104 original size:22 final size:22 Alignment explanation
Indices: 69202063--69202103 Score: 66 Period size: 21 Copynumber: 1.9 Consensus size: 22 69202053 AGTTAATATT * 69202063 TTTAATTATTTTTTATTTTTAA 1 TTTAATTATTATTTATTTTTAA 69202085 TTTAATT-TTATTTATTTTT 1 TTTAATTATTATTTATTTTT 69202104 TCTCCATTCT Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 21 11 0.61 22 7 0.39 ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76 Consensus pattern (22 bp): TTTAATTATTATTTATTTTTAA Found at i:69202495 original size:20 final size:20 Alignment explanation
Indices: 69202470--69202507 Score: 58 Period size: 20 Copynumber: 1.9 Consensus size: 20 69202460 CACTGGGGTT * 69202470 TTCACATGGGCATGTGCTAG 1 TTCACATGAGCATGTGCTAG * 69202490 TTCACATGATCATGTGCT 1 TTCACATGAGCATGTGCT 69202508 TTTAGGAATT Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 16 1.00 ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34 Consensus pattern (20 bp): TTCACATGAGCATGTGCTAG Found at i:69202917 original size:21 final size:21 Alignment explanation
Indices: 69202888--69202940 Score: 61 Period size: 21 Copynumber: 2.5 Consensus size: 21 69202878 TTCACACAGG * * 69202888 CGTGAGCCTTTATCACATGGG 1 CGTGTGCCTTTATCACATGGC * * * 69202909 TGTGTGCCTCTGTCACATGGC 1 CGTGTGCCTTTATCACATGGC 69202930 CGTGTGCCTTT 1 CGTGTGCCTTT 69202941 TTTTACACGG Statistics Matches: 25, Mismatches: 7, Indels: 0 0.78 0.22 0.00 Matches are distributed among these distances: 21 25 1.00 ACGTcount: A:0.11, C:0.26, G:0.28, T:0.34 Consensus pattern (21 bp): CGTGTGCCTTTATCACATGGC Found at i:69209519 original size:28 final size:28 Alignment explanation
Indices: 69209486--69209544 Score: 109 Period size: 28 Copynumber: 2.1 Consensus size: 28 69209476 GAAGTAAGGA 69209486 ATTCTCATCTTATACCCATTCAGGAAAC 1 ATTCTCATCTTATACCCATTCAGGAAAC * 69209514 ATTCTCCTCTTATACCCATTCAGGAAAC 1 ATTCTCATCTTATACCCATTCAGGAAAC 69209542 ATT 1 ATT 69209545 TCTAGATGAA Statistics Matches: 30, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 28 30 1.00 ACGTcount: A:0.31, C:0.29, G:0.07, T:0.34 Consensus pattern (28 bp): ATTCTCATCTTATACCCATTCAGGAAAC Found at i:69216622 original size:47 final size:47 Alignment explanation
Indices: 69216564--69216685 Score: 226 Period size: 47 Copynumber: 2.6 Consensus size: 47 69216554 GCATTGGCAT 69216564 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG 1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG 69216611 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG 1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG * * 69216658 TAAGATAAGGATATCATGTAAGACCATG 1 TAAGACAAGGATACCATGTAAGACCATG 69216686 CCAAGGCATG Statistics Matches: 73, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 47 73 1.00 ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25 Consensus pattern (47 bp): TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG Found at i:69216793 original size:55 final size:54 Alignment explanation
Indices: 69216664--69216915 Score: 305 Period size: 55 Copynumber: 4.6 Consensus size: 54 69216654 TTGGTAAGAT * * 69216664 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC 1 AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC ** ** * 69216718 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGC 1 AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC * * 69216773 AAAGG-TCTCATATAAGACCATGCCAAGGCATGGCATTCATGAGTTACTATAAGGC 1 -AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC * * 69216828 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC 1 -AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC * * * 69216881 AAGGATAC-CACGTAAGACCATGTCAAGACATGGCA 1 AAGGAT-CTCATGTAAGACCATGCCAAGGCATGGCA 69216916 ATGGTAAGTT Statistics Matches: 175, Mismatches: 19, Indels: 9 0.86 0.09 0.04 Matches are distributed among these distances: 52 4 0.02 53 31 0.18 54 42 0.24 55 94 0.54 56 4 0.02 ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23 Consensus pattern (54 bp): AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC Found at i:69220254 original size:16 final size:18 Alignment explanation
Indices: 69220218--69220257 Score: 57 Period size: 16 Copynumber: 2.3 Consensus size: 18 69220208 CTATTATTCA 69220218 GAACAACCTCTACATTGG 1 GAACAACCTCTACATTGG * 69220236 GAACAA-CTC-ACATTTG 1 GAACAACCTCTACATTGG 69220252 GAACAA 1 GAACAA 69220258 GTCAAAGTTA Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 16 12 0.57 17 3 0.14 18 6 0.29 ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20 Consensus pattern (18 bp): GAACAACCTCTACATTGG Found at i:69220308 original size:17 final size:17 Alignment explanation
Indices: 69220276--69220309 Score: 50 Period size: 17 Copynumber: 2.0 Consensus size: 17 69220266 TATCATTATT ** 69220276 CAAGAACAACTCTCATC 1 CAAGAACAACAATCATC 69220293 CAAGAACAACAATCATC 1 CAAGAACAACAATCATC 69220310 TTGTGTTTCA Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 17 15 1.00 ACGTcount: A:0.47, C:0.32, G:0.06, T:0.15 Consensus pattern (17 bp): CAAGAACAACAATCATC Found at i:69220989 original size:24 final size:24 Alignment explanation
Indices: 69220962--69221018 Score: 62 Period size: 24 Copynumber: 2.4 Consensus size: 24 69220952 TGTTATGGTA * 69220962 AGTTGTTCCAGAAACACTATATC-T 1 AGTTGTTCCAGAAACAAT-TATCTT * * * 69220986 AGTTATTCTAGAAACAATTTTCTT 1 AGTTGTTCCAGAAACAATTATCTT 69221010 AGTTGTTCC 1 AGTTGTTCC 69221019 CATTTTCTTT Statistics Matches: 26, Mismatches: 6, Indels: 2 0.76 0.18 0.06 Matches are distributed among these distances: 23 3 0.12 24 23 0.88 ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40 Consensus pattern (24 bp): AGTTGTTCCAGAAACAATTATCTT Found at i:69222855 original size:45 final size:45 Alignment explanation
Indices: 69222789--69222874 Score: 129 Period size: 45 Copynumber: 1.9 Consensus size: 45 69222779 CACCGAACAC * * 69222789 AACCAATTTACCCTCCAAACACAACCAAGTATAACCTCCAAGCAT 1 AACCAATATACCCTCCAAACACAACCAAATATAACCTCCAAGCAT * 69222834 AACCAAATATACCCTCC-AACACAACCAAATATACCCTCCAA 1 AACC-AATATACCCTCCAAACACAACCAAATATAACCTCCAA 69222875 ACACATCCAC Statistics Matches: 37, Mismatches: 3, Indels: 2 0.88 0.07 0.05 Matches are distributed among these distances: 45 26 0.70 46 11 0.30 ACGTcount: A:0.44, C:0.37, G:0.02, T:0.16 Consensus pattern (45 bp): AACCAATATACCCTCCAAACACAACCAAATATAACCTCCAAGCAT Found at i:69222888 original size:22 final size:23 Alignment explanation
Indices: 69222784--69222879 Score: 133 Period size: 23 Copynumber: 4.3 Consensus size: 23 69222774 TCACCCACCG * 69222784 AACACAACC-AATTTACCCTCCA 1 AACACAACCAAATATACCCTCCA * * 69222806 AACACAACCAAGTATAACCTCCA 1 AACACAACCAAATATACCCTCCA * * 69222829 AGCATAACCAAATATACCCTCC- 1 AACACAACCAAATATACCCTCCA 69222851 AACACAACCAAATATACCCTCCA 1 AACACAACCAAATATACCCTCCA 69222874 AACACA 1 AACACA 69222880 TCCACTATAT Statistics Matches: 63, Mismatches: 9, Indels: 3 0.84 0.12 0.04 Matches are distributed among these distances: 22 29 0.46 23 34 0.54 ACGTcount: A:0.46, C:0.38, G:0.02, T:0.15 Consensus pattern (23 bp): AACACAACCAAATATACCCTCCA Found at i:69223690 original size:3 final size:3 Alignment explanation
Indices: 69223682--69223717 Score: 58 Period size: 3 Copynumber: 12.7 Consensus size: 3 69223672 TGTGTGTTCT 69223682 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT 69223718 TTTCACAAAT Statistics Matches: 31, Mismatches: 0, Indels: 4 0.89 0.00 0.11 Matches are distributed among these distances: 2 4 0.13 3 27 0.87 ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72 Consensus pattern (3 bp): TTA Found at i:69228140 original size:3 final size:3 Alignment explanation
Indices: 69228132--69228169 Score: 55 Period size: 3 Copynumber: 13.7 Consensus size: 3 69228122 TGTGTGTTCT 69228132 TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT- TTA TT 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT 69228170 TTTTCACACA Statistics Matches: 32, Mismatches: 0, Indels: 6 0.84 0.00 0.16 Matches are distributed among these distances: 2 6 0.19 3 26 0.81 ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74 Consensus pattern (3 bp): TTA Found at i:69228143 original size:6 final size:5 Alignment explanation
Indices: 69228131--69228171 Score: 55 Period size: 5 Copynumber: 7.6 Consensus size: 5 69228121 TTGTGTGTTC 69228131 TTTAT TATTAT TATTAT TATTAT TTTAT TTTAT TTTAT TTT 1 TTTAT T-TTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTT 69228172 TTCACACAAA Statistics Matches: 35, Mismatches: 0, Indels: 2 0.95 0.00 0.05 Matches are distributed among these distances: 5 18 0.51 6 17 0.49 ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76 Consensus pattern (5 bp): TTTAT Found at i:69229484 original size:16 final size:19 Alignment explanation
Indices: 69229463--69229506 Score: 60 Period size: 16 Copynumber: 2.5 Consensus size: 19 69229453 AGCATCACCA 69229463 AGAACAACTCT-TAC-TT- 1 AGAACAACTCTCTACATTG 69229479 AGAACAACT-TCTACATTG 1 AGAACAACTCTCTACATTG 69229497 AGAACAACTC 1 AGAACAACTC 69229507 ATGTTTCGAA Statistics Matches: 24, Mismatches: 0, Indels: 5 0.83 0.00 0.17 Matches are distributed among these distances: 15 1 0.04 16 12 0.50 17 2 0.08 18 9 0.38 ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25 Consensus pattern (19 bp): AGAACAACTCTCTACATTG Found at i:69229570 original size:17 final size:17 Alignment explanation
Indices: 69229538--69229571 Score: 50 Period size: 17 Copynumber: 2.0 Consensus size: 17 69229528 AATCATTTTT ** 69229538 CAAGAACAACTTTCATC 1 CAAGAACAACCATCATC 69229555 CAAGAACAACCATCATC 1 CAAGAACAACCATCATC 69229572 TTGCGTTTCA Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 17 15 1.00 ACGTcount: A:0.44, C:0.32, G:0.06, T:0.18 Consensus pattern (17 bp): CAAGAACAACCATCATC Found at i:69230485 original size:16 final size:16 Alignment explanation
Indices: 69230464--69230494 Score: 53 Period size: 16 Copynumber: 1.9 Consensus size: 16 69230454 AGATGGGATA 69230464 TATTACATTCAAATTT 1 TATTACATTCAAATTT * 69230480 TATTACATTTAAATT 1 TATTACATTCAAATT 69230495 ACCTTGAATT 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:0.39, C:0.10, G:0.00, T:0.52 Consensus pattern (16 bp): TATTACATTCAAATTT Found at i:69231897 original size:16 final size:15 Alignment explanation
Indices: 69231876--69231905 Score: 51 Period size: 16 Copynumber: 1.9 Consensus size: 15 69231866 ATTACTCACA 69231876 TATTTAAATTTAATTT 1 TATTTAAA-TTAATTT 69231892 TATTTAAATTAATT 1 TATTTAAATTAATT 69231906 ACATATTATG Statistics Matches: 14, Mismatches: 0, Indels: 1 0.93 0.00 0.07 Matches are distributed among these distances: 15 6 0.43 16 8 0.57 ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60 Consensus pattern (15 bp): TATTTAAATTAATTT Found at i:69251152 original size:15 final size:14 Alignment explanation
Indices: 69251132--69251174 Score: 50 Period size: 15 Copynumber: 2.9 Consensus size: 14 69251122 TCGGCCCAAC * 69251132 AAAACAAACAAATCA 1 AAAACAAAAAAAT-A 69251147 AAAACAACAAAAATA 1 AAAACAA-AAAAATA 69251162 AAAACAAATAAAA 1 AAAACAAA-AAAA 69251175 AAATAAAAAA Statistics Matches: 25, Mismatches: 1, Indels: 4 0.83 0.03 0.13 Matches are distributed among these distances: 14 1 0.04 15 19 0.76 16 5 0.20 ACGTcount: A:0.79, C:0.14, G:0.00, T:0.07 Consensus pattern (14 bp): AAAACAAAAAAATA Found at i:69254139 original size:20 final size:20 Alignment explanation
Indices: 69254091--69254138 Score: 64 Period size: 20 Copynumber: 2.5 Consensus size: 20 69254081 TATAAATAAC 69254091 TTGAA-TTTTAAAAATTATT 1 TTGAATTTTTAAAAATTATT * * 69254110 TTGCATTTTTGAAAATTATT 1 TTGAATTTTTAAAAATTATT 69254130 TT-AATTTTT 1 TTGAATTTTT 69254139 TTTGGTAATT Statistics Matches: 25, Mismatches: 3, Indels: 2 0.83 0.10 0.07 Matches are distributed among these distances: 19 10 0.40 20 15 0.60 ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58 Consensus pattern (20 bp): TTGAATTTTTAAAAATTATT Found at i:69257635 original size:30 final size:29 Alignment explanation
Indices: 69257579--69257639 Score: 72 Period size: 30 Copynumber: 2.1 Consensus size: 29 69257569 ATGTAATATA 69257579 AACATATAAGAAAAATAATAGATATAAAGT 1 AACATATAAGAAAAATAATAGATAT-AAGT * 69257609 AACATATAA-AACAATATATATG-TATAAGT 1 AACATATAAGAAAAATA-ATA-GATATAAGT 69257638 AA 1 AA 69257640 TTAATAAATA Statistics Matches: 28, Mismatches: 1, Indels: 5 0.82 0.03 0.15 Matches are distributed among these distances: 29 12 0.43 30 15 0.54 31 1 0.04 ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26 Consensus pattern (29 bp): AACATATAAGAAAAATAATAGATATAAGT Found at i:69257694 original size:25 final size:27 Alignment explanation
Indices: 69257641--69257698 Score: 75 Period size: 27 Copynumber: 2.1 Consensus size: 27 69257631 TATAAGTAAT 69257641 TAATAA-ATATAATAAATGTGAAAATA 1 TAATAATATATAATAAATGTGAAAATA * 69257667 TAATAATATATAAAAAGATGT-AAAATAA 1 TAATAATATATAATAA-ATGTGAAAAT-A 69257695 TAAT 1 TAAT 69257699 TTAAGGAAAA Statistics Matches: 28, Mismatches: 1, Indels: 4 0.85 0.03 0.12 Matches are distributed among these distances: 26 6 0.21 27 13 0.46 28 9 0.32 ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31 Consensus pattern (27 bp): TAATAATATATAATAAATGTGAAAATA Found at i:69257749 original size:20 final size:20 Alignment explanation
Indices: 69257713--69257750 Score: 51 Period size: 20 Copynumber: 1.9 Consensus size: 20 69257703 GGAAAATAAT * 69257713 ATATATAATAAGTAATAACA 1 ATATATAATAAGAAATAACA 69257733 ATATATAATTAA-AAATAA 1 ATATATAA-TAAGAAATAA 69257751 TACTCATAAT Statistics Matches: 16, Mismatches: 1, Indels: 2 0.84 0.05 0.11 Matches are distributed among these distances: 20 13 0.81 21 3 0.19 ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32 Consensus pattern (20 bp): ATATATAATAAGAAATAACA Found at i:69257832 original size:19 final size:19 Alignment explanation
Indices: 69257808--69257845 Score: 58 Period size: 19 Copynumber: 2.0 Consensus size: 19 69257798 AAAATAAACA * 69257808 AATAATACAATATATATAG 1 AATAATACAATAAATATAG * 69257827 AATAATATAATAAATATAG 1 AATAATACAATAAATATAG 69257846 GACTAAATTT 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:0.61, C:0.03, G:0.05, T:0.32 Consensus pattern (19 bp): AATAATACAATAAATATAG Found at i:69258980 original size:17 final size:20 Alignment explanation
Indices: 69258958--69258994 Score: 53 Period size: 17 Copynumber: 2.0 Consensus size: 20 69258948 TAGTTTTAAT 69258958 TGGGTC-AC-GGGT-GTTTG 1 TGGGTCTACTGGGTAGTTTG 69258975 TGGGTCTACTGGGTAGTTTG 1 TGGGTCTACTGGGTAGTTTG 69258995 GGCCTGATTA Statistics Matches: 17, Mismatches: 0, Indels: 3 0.85 0.00 0.15 Matches are distributed among these distances: 17 6 0.35 18 2 0.12 19 4 0.24 20 5 0.29 ACGTcount: A:0.08, C:0.11, G:0.43, T:0.38 Consensus pattern (20 bp): TGGGTCTACTGGGTAGTTTG Found at i:69260661 original size:17 final size:17 Alignment explanation
Indices: 69260639--69260671 Score: 50 Period size: 17 Copynumber: 1.9 Consensus size: 17 69260629 CTTTTCAACA 69260639 TCAAATCAAT-ACATATT 1 TCAAAT-AATCACATATT 69260656 TCAAATAATCACATAT 1 TCAAATAATCACATAT 69260672 AATCATACTT Statistics Matches: 15, Mismatches: 0, Indels: 2 0.88 0.00 0.12 Matches are distributed among these distances: 16 3 0.20 17 12 0.80 ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33 Consensus pattern (17 bp): TCAAATAATCACATATT Found at i:69264231 original size:6 final size:5 Alignment explanation
Indices: 69264204--69264256 Score: 52 Period size: 5 Copynumber: 10.2 Consensus size: 5 69264194 ATATATTATA * * * * 69264204 ATAAT ATAAT ATAGT GTAAT ATTAAT ATAAT AATAAA ATAAT ATATT ATAAT 1 ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT -ATAAT ATAAT ATAAT ATAAT 69264256 A 1 A 69264257 AAAATCTTAA Statistics Matches: 38, Mismatches: 8, Indels: 4 0.76 0.16 0.08 Matches are distributed among these distances: 5 29 0.76 6 9 0.24 ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40 Consensus pattern (5 bp): ATAAT Found at i:69264254 original size:18 final size:18 Alignment explanation
Indices: 69264194--69264259 Score: 68 Period size: 18 Copynumber: 3.9 Consensus size: 18 69264184 ATATATCTAT * 69264194 ATATATTATAATAATATA 1 ATATATTATAATAAAATA * * * 69264212 ATATAGTGTAAT--ATTA 1 ATATATTATAATAAAATA 69264228 ATATA--ATAATAAAATA 1 ATATATTATAATAAAATA 69264244 ATATATTATAATAAAA 1 ATATATTATAATAAAA 69264260 ATCTTAACTA Statistics Matches: 38, Mismatches: 6, Indels: 8 0.73 0.12 0.15 Matches are distributed among these distances: 14 4 0.11 16 15 0.39 18 19 0.50 ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39 Consensus pattern (18 bp): ATATATTATAATAAAATA Found at i:69264256 original size:32 final size:32 Alignment explanation
Indices: 69264196--69264256 Score: 86 Period size: 32 Copynumber: 1.9 Consensus size: 32 69264186 ATATCTATAT * * * 69264196 ATATTATAATAATATAATATAGTGTAATATTA 1 ATATAATAATAAAATAATATAGTATAATATTA * 69264228 ATATAATAATAAAATAATATATTATAATA 1 ATATAATAATAAAATAATATAGTATAATA 69264257 AAAATCTTAA Statistics Matches: 25, Mismatches: 4, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 32 25 1.00 ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41 Consensus pattern (32 bp): ATATAATAATAAAATAATATAGTATAATATTA Found at i:69273419 original size:5 final size:5 Alignment explanation
Indices: 69273406--69273438 Score: 57 Period size: 5 Copynumber: 6.6 Consensus size: 5 69273396 ATACACTATG * 69273406 AATCC AATCT AATCC AATCC AATCC AATCC AAT 1 AATCC AATCC AATCC AATCC AATCC AATCC AAT 69273439 AGCAAGACAT Statistics Matches: 26, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 5 26 1.00 ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24 Consensus pattern (5 bp): AATCC Found at i:69277951 original size:20 final size:20 Alignment explanation
Indices: 69277926--69277969 Score: 79 Period size: 20 Copynumber: 2.2 Consensus size: 20 69277916 CGGGTAGGGG 69277926 ACACGGACATGTCCCAAAGC 1 ACACGGACATGTCCCAAAGC * 69277946 ACACGGGCATGTCCCAAAGC 1 ACACGGACATGTCCCAAAGC 69277966 ACAC 1 ACAC 69277970 AGGCGTGTGC Statistics Matches: 23, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 20 23 1.00 ACGTcount: A:0.34, C:0.36, G:0.20, T:0.09 Consensus pattern (20 bp): ACACGGACATGTCCCAAAGC Found at i:69282985 original size:45 final size:45 Alignment explanation
Indices: 69282914--69283006 Score: 141 Period size: 45 Copynumber: 2.1 Consensus size: 45 69282904 CTATTACCGC * * 69282914 TACTGCTACTGTTATCGATTCAGCACTTTGTGTGTCGAATATTGT 1 TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT * * * 69282959 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGGATATTGT 1 TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT 69283004 TAC 1 TAC 69283007 CGTACTATTA Statistics Matches: 43, Mismatches: 5, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 45 43 1.00 ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41 Consensus pattern (45 bp): TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT Found at i:69283086 original size:59 final size:59 Alignment explanation
Indices: 69283009--69283136 Score: 202 Period size: 59 Copynumber: 2.2 Consensus size: 59 69282999 ATTGTTACCG * * * * 69283009 TACTATTACTGTTGCTGTTCTGGATTTATTCTGATGAGGTACTCTGTGTACCATACTGC 1 TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC * * 69283068 TACTGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGC 1 TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC 69283127 TACTGTTACT 1 TACTGTTACT 69283137 ATTCCGGCTT Statistics Matches: 63, Mismatches: 6, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 59 63 1.00 ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41 Consensus pattern (59 bp): TACTGTTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCATACTGC Found at i:69283416 original size:18 final size:18 Alignment explanation
Indices: 69283244--69283418 Score: 57 Period size: 18 Copynumber: 9.3 Consensus size: 18 69283234 AAAGGTATAA * * 69283244 AATAACTGAATATTACTG 1 AATAACTGACTGTTACTG * * 69283262 AATAATTGA-TCATTACTG 1 AATAACTGACT-GTTACTG * * * 69283280 AATAACTCAATTGTTACTA 1 AATAACT-GACTGTTACTG * * * 69283299 AATATCTGA-TTTTACTA 1 AATAACTGACTGTTACTG * 69283316 AATAATTGACTGTTACTG 1 AATAACTGACTGTTACTG * * 69283334 GATAACCGATCAATTGATCGATACTG 1 AATAACTGA-C---TG-T---TACTG ** * * 69283360 AATAACTGGTTATTATTG 1 AATAACTGACTGTTACTG * * * 69283378 AATAATTGATTGTTACCG 1 AATAACTGACTGTTACTG * 69283396 AATAACTGACTGTTGCTG 1 AATAACTGACTGTTACTG 69283414 AATAA 1 AATAA 69283419 ATAATTGTTC Statistics Matches: 115, Mismatches: 30, Indels: 24 0.68 0.18 0.14 Matches are distributed among these distances: 17 15 0.13 18 70 0.61 19 13 0.11 20 1 0.01 21 1 0.01 22 3 0.03 23 1 0.01 26 11 0.10 ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37 Consensus pattern (18 bp): AATAACTGACTGTTACTG Found at i:69287195 original size:12 final size:12 Alignment explanation
Indices: 69287178--69287202 Score: 50 Period size: 12 Copynumber: 2.1 Consensus size: 12 69287168 CAGTTGGGTA 69287178 TACGGATTGGAT 1 TACGGATTGGAT 69287190 TACGGATTGGAT 1 TACGGATTGGAT 69287202 T 1 T 69287203 GAATCCCCTG Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 13 1.00 ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36 Consensus pattern (12 bp): TACGGATTGGAT Found at i:69293314 original size:47 final size:47 Alignment explanation
Indices: 69293193--69293314 Score: 208 Period size: 47 Copynumber: 2.6 Consensus size: 47 69293183 GCATTGGCAC * * 69293193 TAAGACCAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGG 1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG 69293240 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG 1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG * * 69293287 TAAGATAAGGATATCATGTAAGACCATG 1 TAAGACAAGGATACCATGTAAGACCATG 69293315 CCAAGGCATG Statistics Matches: 71, Mismatches: 4, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 47 71 1.00 ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25 Consensus pattern (47 bp): TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG Found at i:69293422 original size:55 final size:54 Alignment explanation
Indices: 69293293--69293489 Score: 229 Period size: 54 Copynumber: 3.6 Consensus size: 54 69293283 TTGGTAAGAT * * * 69293293 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT 1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC * * * * * 69293347 AAGGAAATCATGTACGACCATGTCAAGATATGGCATTGATAAGTTACTATAAGGC 1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC * * * 69293402 AAAGG-TCCCATGTAAGACCATGCCAAGCCATGGCATT-AGTGAGTTC-ATAAGGC 1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGA-TAAGTTCTATAAGGC * * 69293455 AAGGATACCATATAAGACCATGTCAAGACATGGCA 1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA 69293490 ATGGTAAATT Statistics Matches: 121, Mismatches: 18, Indels: 9 0.82 0.12 0.06 Matches are distributed among these distances: 52 4 0.03 53 33 0.27 54 42 0.35 55 38 0.31 56 4 0.03 ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23 Consensus pattern (54 bp): AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC Found at i:69297832 original size:33 final size:33 Alignment explanation
Indices: 69297785--69297850 Score: 123 Period size: 33 Copynumber: 2.0 Consensus size: 33 69297775 GAAAGCTACA 69297785 GTAAGTTTTAACCATGAGATTGCTAAATGTTAT 1 GTAAGTTTTAACCATGAGATTGCTAAATGTTAT * 69297818 GTAAGTTTTGACCATGAGATTGCTAAATGTTAT 1 GTAAGTTTTAACCATGAGATTGCTAAATGTTAT 69297851 TGCATGTCAC Statistics Matches: 32, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 33 32 1.00 ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39 Consensus pattern (33 bp): GTAAGTTTTAACCATGAGATTGCTAAATGTTAT Found at i:69300432 original size:23 final size:23 Alignment explanation
Indices: 69300238--69300436 Score: 231 Period size: 23 Copynumber: 8.7 Consensus size: 23 69300228 GGAATCTATA * * 69300238 GGCTACAATAGAGTGGTAGCTTT 1 GGCTACAATACAGTGGTAGCTTC * 69300261 GGCTAC-ATCTCAGTGGTAGCTTC 1 GGCTACAAT-ACAGTGGTAGCTTC * 69300284 GGCTACAATATAGTGGTAGCTTC 1 GGCTACAATACAGTGGTAGCTTC * * 69300307 GGTTAC-ATCTCAGTGGTAGCTTC 1 GGCTACAAT-ACAGTGGTAGCTTC * 69300330 AGCTACAATACAGTGGTAGCTTC 1 GGCTACAATACAGTGGTAGCTTC 69300353 GGCTACAATACAGTGGTAGCTTC 1 GGCTACAATACAGTGGTAGCTTC * * 69300376 GGCTACAACATAGTGGTAGCTTC 1 GGCTACAATACAGTGGTAGCTTC * ** * 69300399 GGTTACGTTACAGTGATAGCTTC 1 GGCTACAATACAGTGGTAGCTTC * * 69300422 GGCTATATTACAGTG 1 GGCTACAATACAGTG 69300437 TGGCACTTTG Statistics Matches: 149, Mismatches: 23, Indels: 8 0.83 0.13 0.04 Matches are distributed among these distances: 22 4 0.03 23 141 0.95 24 4 0.03 ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30 Consensus pattern (23 bp): GGCTACAATACAGTGGTAGCTTC Found at i:69303365 original size:54 final size:53 Alignment explanation
Indices: 69303302--69303459 Score: 178 Period size: 55 Copynumber: 2.9 Consensus size: 53 69303292 AGATAAGGAT * * 69303302 ATCATGTAAGACCATGCCAAGCATTGGCATTGATAAGTTCTATAAGGCAAGAA-A 1 ATCATGTAAGACCATGCCAAGCA-TGACATTGATGAGTTCTATAAGGCAA-AATA * * * 69303356 ATCATGTAAGACCATGTCAAGACATGCCATTGATGAGTTACTATAAGG-AAAATTT 1 ATCATGTAAGACCATGCCAAG-CATGACATTGATGAGTT-CTATAAGGCAAAA-TA * * 69303411 CTCATGTAAGACCATGCCAATGCATGACATTGGTGAGTTC-ATAAGGCAA 1 ATCATGTAAGACCATGCCAA-GCATGACATTGATGAGTTCTATAAGGCAA 69303460 TGATACCACG Statistics Matches: 90, Mismatches: 8, Indels: 12 0.82 0.07 0.11 Matches are distributed among these distances: 53 8 0.09 54 38 0.42 55 43 0.48 56 1 0.01 ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26 Consensus pattern (53 bp): ATCATGTAAGACCATGCCAAGCATGACATTGATGAGTTCTATAAGGCAAAATA Found at i:69310823 original size:40 final size:39 Alignment explanation
Indices: 69310770--69310930 Score: 128 Period size: 40 Copynumber: 4.0 Consensus size: 39 69310760 AAAATCGAAT * * * 69310770 AGATCGAGTATTAGCAGCGCTTTTTAAAAAACGCGGCTAA 1 AGATCAAGCATTAGC-GCGCTTTTTAAAAAACGCCGCTAA * * 69310810 AGATCAAGCATTAGTG-GCATTTTTAAGAAACAGCCGCTAA 1 AGATCAAGCATTAGCGCGC-TTTTTAAAAAAC-GCCGCTAA * * * * * * 69310850 ATATCGAGCATTAGCGGGGTTTTTAAGAAAGCGCCGCTAT 1 AGATCAAGCATTAGCGCGCTTTTTAA-AAAACGCCGCTAA * * * 69310890 AGGTCAATC-TATAGCGGCGCTTTTTTAAAAACGCCGCTAA 1 AGATCAAGCAT-TAGC-GCGCTTTTTAAAAAACGCCGCTAA 69310930 A 1 A 69310931 AGATTAAAGC Statistics Matches: 94, Mismatches: 21, Indels: 12 0.74 0.17 0.09 Matches are distributed among these distances: 38 2 0.02 39 13 0.14 40 67 0.71 41 12 0.13 ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26 Consensus pattern (39 bp): AGATCAAGCATTAGCGCGCTTTTTAAAAAACGCCGCTAA Found at i:69311099 original size:22 final size:22 Alignment explanation
Indices: 69311059--69311100 Score: 57 Period size: 22 Copynumber: 1.9 Consensus size: 22 69311049 TCTAAACTAT * * 69311059 TTTAAGGTTTATGGATTATGGG 1 TTTAAGGGTTAGGGATTATGGG * 69311081 TTTAAGGGTTAGGGTTTATG 1 TTTAAGGGTTAGGGATTATG 69311101 TTTGATGGTT Statistics Matches: 17, Mismatches: 3, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 22 17 1.00 ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45 Consensus pattern (22 bp): TTTAAGGGTTAGGGATTATGGG Found at i:69311565 original size:21 final size:21 Alignment explanation
Indices: 69311541--69311580 Score: 55 Period size: 21 Copynumber: 1.9 Consensus size: 21 69311531 TCTCTAGTCG 69311541 TAAACCATAAACTA-TAAACTA 1 TAAACCATAAA-TATTAAACTA * 69311562 TAAACCCTAAATATTAAAC 1 TAAACCATAAATATTAAAC 69311581 CTTGAATCCT Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 20 2 0.12 21 15 0.88 ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25 Consensus pattern (21 bp): TAAACCATAAATATTAAACTA Found at i:69311753 original size:21 final size:21 Alignment explanation
Indices: 69311703--69311755 Score: 70 Period size: 21 Copynumber: 2.5 Consensus size: 21 69311693 TATAAAACTT * * 69311703 AAAATTATAAACCCTAAATCT 1 AAAATCATAAACCCTAAATCC * * 69311724 TAAACCATAAACCCTAAATCC 1 AAAATCATAAACCCTAAATCC 69311745 AAAATCATAAA 1 AAAATCATAAA 69311756 ACCTTAAACT Statistics Matches: 26, Mismatches: 6, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 21 26 1.00 ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23 Consensus pattern (21 bp): AAAATCATAAACCCTAAATCC Found at i:69312450 original size:75 final size:75 Alignment explanation
Indices: 69312365--69312510 Score: 181 Period size: 75 Copynumber: 1.9 Consensus size: 75 69312355 TTTTCACTAG * * * 69312365 AAAATGCCAC-AAACATCTATTAATAGATTGCAAAACGGCGTCGTTAT-TA-CCTTGTTATTAGT 1 AAAATGCCACAAAACATCTA--AAGAGATTGCAAAACAGCATCGTTATATAGCCTT-TTATTAGT 69312427 GGCGCTTTTTGGA 63 GGCGCTTTTTGGA * * * * 69312440 AAAATGCCACAAAACATCTAAAGAGATTTCAAAACATCATCGTTTTATAGCCTTTTATTAGTGGT 1 AAAATGCCACAAAACATCTAAAGAGATTGCAAAACAGCATCGTTATATAGCCTTTTATTAGTGGC 69312505 GCTTTT 66 GCTTTT 69312511 ATAAACGCCA Statistics Matches: 61, Mismatches: 7, Indels: 6 0.82 0.09 0.08 Matches are distributed among these distances: 74 20 0.33 75 28 0.46 76 13 0.21 ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34 Consensus pattern (75 bp): AAAATGCCACAAAACATCTAAAGAGATTGCAAAACAGCATCGTTATATAGCCTTTTATTAGTGGC GCTTTTTGGA Found at i:69312597 original size:188 final size:189 Alignment explanation
Indices: 69312301--69312640 Score: 458 Period size: 188 Copynumber: 1.8 Consensus size: 189 69312291 TCATTTACAT * * * ** 69312301 CCTTGTTATTAGTGGTGCTTCTATAAACACCGCAACAGGTGTAAATTACCGGTGTTTTCACTAGA 1 CCTTGTTATTAGTGGTGCTTCTATAAACACCACAAAAGATGTAAATTACCGGCATTTTCACTAGA * * * * * 69312366 AAATGCCACAAACATCTATTAATAGATTGCAAAACGGCGTCG-TTATTA-CCTT-GTTATTAGTG 66 AAACGCCACAAAAATCTATTAATAGATTGCAAAACGACGTCGTTTA-TAGCCTTCCTAATTAGTG * 69312428 GCGCTTTTTGGAAAAATGCCACAAAACATCTAAAGAGATTTCAAAACATCATCGTTTTATAG 130 GCGCTTTAT--AAAAATGCCACAAAACATCTAAAGAGATTTCAAAACATCATCGTTTTATAG * * * 69312490 CCTT-TTATTAGTGGTGCTTTTATAAACGCCACAAAAGATGTGAAA-TACCGGCATTTTCGCTAG 1 CCTTGTTATTAGTGGTGCTTCTATAAACACCACAAAAGATGT-AAATTACCGGCATTTTCACTAG * 69312553 -AAACGCCACAAAAATCTATTAATAGATTGCAAAAACTACGTCGTTTATAGCCTTCCTAATTAGT 65 AAAACGCCACAAAAATCTATTAATAGATTGC-AAAACGACGTCGTTTATAGCCTTCCTAATTAGT 69312617 GGCGCTTTATAAAAATGCCACAAA 129 GGCGCTTTATAAAAATGCCACAAA 69312641 TATTTTTGAA Statistics Matches: 131, Mismatches: 15, Indels: 11 0.83 0.10 0.07 Matches are distributed among these distances: 187 28 0.21 188 73 0.56 189 14 0.11 190 16 0.12 ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31 Consensus pattern (189 bp): CCTTGTTATTAGTGGTGCTTCTATAAACACCACAAAAGATGTAAATTACCGGCATTTTCACTAGA AAACGCCACAAAAATCTATTAATAGATTGCAAAACGACGTCGTTTATAGCCTTCCTAATTAGTGG CGCTTTATAAAAATGCCACAAAACATCTAAAGAGATTTCAAAACATCATCGTTTTATAG Found at i:69314477 original size:24 final size:24 Alignment explanation
Indices: 69314450--69314496 Score: 76 Period size: 24 Copynumber: 2.0 Consensus size: 24 69314440 ATTATTATTG * * 69314450 AAATATTCTCGTTCGTTTTATCAC 1 AAATATTATCGTCCGTTTTATCAC 69314474 AAATATTATCGTCCGTTTTATCA 1 AAATATTATCGTCCGTTTTATCA 69314497 TTTAAGTTAA Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 24 21 1.00 ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45 Consensus pattern (24 bp): AAATATTATCGTCCGTTTTATCAC Found at i:69314736 original size:19 final size:19 Alignment explanation
Indices: 69314712--69314827 Score: 87 Period size: 19 Copynumber: 5.8 Consensus size: 19 69314702 CAATCTTATT 69314712 TTAATTAATATAATTTGGA 1 TTAATTAATATAATTTGGA * * 69314731 TTAATTTATTTAAATATT--A 1 TTAATTAATAT-AAT-TTGGA 69314750 TTTAATTAATATAATTTGGA 1 -TTAATTAATATAATTTGGA 69314770 TTAATTAATAATATAATTTGGA 1 TTAA-T--TAATATAATTTGGA * * 69314792 TTAATTTATTTAAATATT--A 1 TTAATTAATAT-AAT-TTGGA 69314811 TTAAATTAATATAATTT 1 TT-AATTAATATAATTT 69314828 TTATAAATAC Statistics Matches: 78, Mismatches: 8, Indels: 23 0.72 0.07 0.21 Matches are distributed among these distances: 18 4 0.05 19 27 0.35 20 24 0.31 21 5 0.06 22 18 0.23 ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52 Consensus pattern (19 bp): TTAATTAATATAATTTGGA Found at i:69314784 original size:22 final size:23 Alignment explanation
Indices: 69314746--69314797 Score: 88 Period size: 22 Copynumber: 2.3 Consensus size: 23 69314736 TTATTTAAAT * 69314746 ATTATTTAATTAATATAATTTGG 1 ATTAATTAATTAATATAATTTGG 69314769 ATTAATTAA-TAATATAATTTGG 1 ATTAATTAATTAATATAATTTGG 69314791 ATTAATT 1 ATTAATT 69314798 TATTTAAATA Statistics Matches: 28, Mismatches: 1, Indels: 1 0.93 0.03 0.03 Matches are distributed among these distances: 22 20 0.71 23 8 0.29 ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50 Consensus pattern (23 bp): ATTAATTAATTAATATAATTTGG Found at i:69314793 original size:61 final size:62 Alignment explanation
Indices: 69314712--69314827 Score: 216 Period size: 61 Copynumber: 1.9 Consensus size: 62 69314702 CAATCTTATT * 69314712 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAATATAATTTGGATTAA 1 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA 69314774 TTAA-TAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTT 1 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTT 69314828 TTATAAATAC Statistics Matches: 53, Mismatches: 1, Indels: 1 0.96 0.02 0.02 Matches are distributed among these distances: 61 49 0.92 62 4 0.08 ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52 Consensus pattern (62 bp): TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA Found at i:69314827 original size:29 final size:29 Alignment explanation
Indices: 69314732--69314856 Score: 103 Period size: 29 Copynumber: 4.2 Consensus size: 29 69314722 TAATTTGGAT * 69314732 TAATTTATTTAAATATTATTTAATTAATA 1 TAATTTATTTAAATATTATTAAATTAATA * * * * 69314761 TAATTTGGA-TTAATTAATAATATAATTTGGAT- 1 TAATTT--ATTTAAAT-ATTAT-TAAATT-AATA 69314793 TAATTTATTTAAATATTATTAAATTAATA 1 TAATTTATTTAAATATTATTAAATTAATA * * * 69314822 TAATTT-TTATAAATACTATTTAATTAAAA 1 TAATTTATT-TAAATATTATTAAATTAATA 69314851 TAATTT 1 TAATTT 69314857 TTTTTCCATG Statistics Matches: 76, Mismatches: 12, Indels: 16 0.73 0.12 0.15 Matches are distributed among these distances: 28 4 0.05 29 40 0.53 30 10 0.13 31 10 0.13 32 10 0.13 33 2 0.03 ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51 Consensus pattern (29 bp): TAATTTATTTAAATATTATTAAATTAATA Found at i:69315148 original size:9 final size:9 Alignment explanation
Indices: 69315131--69315242 Score: 104 Period size: 9 Copynumber: 12.7 Consensus size: 9 69315121 TATATACTTG 69315131 AACTTACAT 1 AACTTACAT * 69315140 AACTCACAT 1 AACTTACAT * 69315149 AACTCACAT 1 AACTTACAT * 69315158 AACTCACAT 1 AACTTACAT * 69315167 AACTTACAG 1 AACTTACAT * 69315176 AAGTTACAT 1 AACTTACAT * 69315185 AATTTACAT 1 AACTTACAT 69315194 AACTTACAT 1 AACTTACAT 69315203 AA--TACAT 1 AACTTACAT * * 69315210 AA-ATATAT 1 AACTTACAT * * 69315218 ATCATATCAT 1 AACTTA-CAT 69315228 AACTTACAT 1 AACTTACAT 69315237 AACTTA 1 AACTTA 69315243 ATTAGAGTTA Statistics Matches: 88, Mismatches: 12, Indels: 6 0.83 0.11 0.06 Matches are distributed among these distances: 7 7 0.08 8 5 0.06 9 70 0.80 10 6 0.07 ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31 Consensus pattern (9 bp): AACTTACAT Found at i:69315149 original size:32 final size:31 Alignment explanation
Indices: 69315088--69315150 Score: 74 Period size: 32 Copynumber: 2.0 Consensus size: 31 69315078 TTCTAAAAAT * * 69315088 ATATATACTTGAATACATCACTAGTACATAAA 1 ATATATACTTGAATACATAACTA-CACATAAA 69315120 ATATATACTTGAACTTACATAACT-CACATAA 1 ATATATACTTGAA--TACATAACTACACATAA 69315151 CTCACATAAC Statistics Matches: 27, Mismatches: 2, Indels: 4 0.82 0.06 0.12 Matches are distributed among these distances: 32 19 0.70 34 8 0.30 ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32 Consensus pattern (31 bp): ATATATACTTGAATACATAACTACACATAAA Found at i:69320762 original size:15 final size:15 Alignment explanation
Indices: 69320739--69320775 Score: 56 Period size: 15 Copynumber: 2.5 Consensus size: 15 69320729 TAGAGCAGAA * * 69320739 GCAGTAGAGAGGGAG 1 GCAGCAGAGAGGAAG 69320754 GCAGCAGAGAGGAAG 1 GCAGCAGAGAGGAAG 69320769 GCAGCAG 1 GCAGCAG 69320776 CAGCAGCGAG Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 15 20 1.00 ACGTcount: A:0.35, C:0.14, G:0.49, T:0.03 Consensus pattern (15 bp): GCAGCAGAGAGGAAG Found at i:69320803 original size:21 final size:21 Alignment explanation
Indices: 69320751--69320805 Score: 76 Period size: 21 Copynumber: 2.6 Consensus size: 21 69320741 AGTAGAGAGG * * 69320751 GAGGCAGCAGAGAGGAAGGCA 1 GAGGCAGCAGCGAGAAAGGCA 69320772 GCA-GCAGCAGCGAGAAAGGCA 1 G-AGGCAGCAGCGAGAAAGGCA 69320793 GAGGCAGCAGCGA 1 GAGGCAGCAGCGA 69320806 TGACAGCAAA Statistics Matches: 30, Mismatches: 2, Indels: 4 0.83 0.06 0.11 Matches are distributed among these distances: 20 1 0.03 21 28 0.93 22 1 0.03 ACGTcount: A:0.36, C:0.20, G:0.44, T:0.00 Consensus pattern (21 bp): GAGGCAGCAGCGAGAAAGGCA Found at i:69321081 original size:31 final size:31 Alignment explanation
Indices: 69321046--69321111 Score: 96 Period size: 31 Copynumber: 2.1 Consensus size: 31 69321036 TTATATTTTT * * * 69321046 ATGCTACATTTGTTGTTTTTGGTTGGATTTC 1 ATGCTACATTTGCTATTTTTGGTTGGATTTA * 69321077 ATGCTATATTTGCTATTTTTGGTTGGATTTA 1 ATGCTACATTTGCTATTTTTGGTTGGATTTA 69321108 ATGC 1 ATGC 69321112 AGGAAGGGTT Statistics Matches: 31, Mismatches: 4, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 31 31 1.00 ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53 Consensus pattern (31 bp): ATGCTACATTTGCTATTTTTGGTTGGATTTA Found at i:69324179 original size:16 final size:17 Alignment explanation
Indices: 69324160--69324202 Score: 54 Period size: 17 Copynumber: 2.5 Consensus size: 17 69324150 TTTTTAGATT 69324160 TTTTTAAA-ATAT-TATA 1 TTTTTAAATATATATA-A 69324176 TTTTTAAATATATATAA 1 TTTTTAAATATATATAA 69324193 TTTTTGAAAT 1 TTTTT-AAAT 69324203 TTTTATAAAT Statistics Matches: 24, Mismatches: 0, Indels: 4 0.86 0.00 0.14 Matches are distributed among these distances: 16 8 0.33 17 10 0.42 18 6 0.25 ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56 Consensus pattern (17 bp): TTTTTAAATATATATAA Found at i:69324179 original size:17 final size:16 Alignment explanation
Indices: 69324160--69324202 Score: 52 Period size: 16 Copynumber: 2.6 Consensus size: 16 69324150 TTTTTAGATT 69324160 TTTTTAAA-ATATTATA 1 TTTTTAAATATA-TATA 69324176 TTTTTAAATATATATAA 1 TTTTTAAATATATAT-A 69324193 TTTTTGAAAT 1 TTTTT-AAAT 69324203 TTTTATAAAT Statistics Matches: 24, Mismatches: 0, Indels: 4 0.86 0.00 0.14 Matches are distributed among these distances: 16 11 0.46 17 9 0.38 18 4 0.17 ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56 Consensus pattern (16 bp): TTTTTAAATATATATA Found at i:69324209 original size:18 final size:18 Alignment explanation
Indices: 69324171--69324256 Score: 50 Period size: 19 Copynumber: 4.7 Consensus size: 18 69324161 TTTTAAAATA * 69324171 TTAT-ATTTTT-AAATAT 1 TTATAATTTTTGAAATTT * 69324187 ATATAATTTTTGAAATTT 1 TTATAATTTTTGAAATTT * * 69324205 TTATAAATATTTGGAATTT 1 TTAT-AATTTTTGAAATTT * * ** 69324224 TGAAAATTATTTTGATTTTTT 1 TTATAA-T-TTTTGA-AATTT 69324245 TTATAATTTTTG 1 TTATAATTTTTG 69324257 TTGAGAGAGA Statistics Matches: 51, Mismatches: 13, Indels: 9 0.70 0.18 0.12 Matches are distributed among these distances: 16 3 0.06 17 6 0.12 18 10 0.20 19 20 0.39 20 5 0.10 21 7 0.14 ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59 Consensus pattern (18 bp): TTATAATTTTTGAAATTT Found at i:69324234 original size:19 final size:20 Alignment explanation
Indices: 69324191--69324235 Score: 51 Period size: 19 Copynumber: 2.4 Consensus size: 20 69324181 AAATATATAT * 69324191 AATT-TTTGAAATTTTTATA 1 AATTATTTGAAATTTTGATA * 69324210 AA-TATTTGGAATTTTGA-A 1 AATTATTTGAAATTTTGATA 69324228 AATTATTT 1 AATTATTT 69324236 TGATTTTTTT Statistics Matches: 22, Mismatches: 2, Indels: 4 0.79 0.07 0.14 Matches are distributed among these distances: 18 4 0.18 19 18 0.82 ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53 Consensus pattern (20 bp): AATTATTTGAAATTTTGATA Found at i:69325053 original size:14 final size:14 Alignment explanation
Indices: 69325034--69325070 Score: 74 Period size: 14 Copynumber: 2.6 Consensus size: 14 69325024 AAAATTAAAA 69325034 TTTATTTTTTTTCT 1 TTTATTTTTTTTCT 69325048 TTTATTTTTTTTCT 1 TTTATTTTTTTTCT 69325062 TTTATTTTT 1 TTTATTTTT 69325071 CTTCATCCTC Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 23 1.00 ACGTcount: A:0.08, C:0.05, G:0.00, T:0.86 Consensus pattern (14 bp): TTTATTTTTTTTCT Found at i:69327254 original size:23 final size:23 Alignment explanation
Indices: 69327202--69327252 Score: 63 Period size: 23 Copynumber: 2.3 Consensus size: 23 69327192 GAATTTTTCT 69327202 TTTA-TTATTATTTACTTACTTA 1 TTTATTTATTATTTACTTACTTA * 69327224 TTTATTTATTATTGT-CTTGCTT- 1 TTTATTTATTATT-TACTTACTTA 69327246 TTTATTT 1 TTTATTT 69327253 TAAAATTTAT Statistics Matches: 26, Mismatches: 1, Indels: 4 0.84 0.03 0.13 Matches are distributed among these distances: 22 11 0.42 23 14 0.54 24 1 0.04 ACGTcount: A:0.20, C:0.08, G:0.04, T:0.69 Consensus pattern (23 bp): TTTATTTATTATTTACTTACTTA Found at i:69333616 original size:27 final size:27 Alignment explanation
Indices: 69333586--69333899 Score: 344 Period size: 27 Copynumber: 11.7 Consensus size: 27 69333576 TAATAAAGAG * * * 69333586 AAATTACTGAAATACCCCCAATTTGTA 1 AAATTACCGAAACACCCTCAATTTGTA * * * 69333613 AAATTATCGAAATACCCTCAA-TTGTG 1 AAATTACCGAAACACCCTCAATTTGTA * * * 69333639 AAATTACTGAAATACCCTTAATTTGTA 1 AAATTACCGAAACACCCTCAATTTGTA * * * * * 69333666 AAATTACCAAAATACCCCCGATTTGTG 1 AAATTACCGAAACACCCTCAATTTGTA * * * 69333693 AAATTACCAAAACACCTTCGATTTGTA 1 AAATTACCGAAACACCCTCAATTTGTA * 69333720 AAATTACCGAAACACCCTTAATTTGTA 1 AAATTACCGAAACACCCTCAATTTGTA * 69333747 AAATTACCAAAACACCCTCAATTTGTA 1 AAATTACCGAAACACCCTCAATTTGTA * * 69333774 AAATTATCGAAACACCCTCGATTTGTA 1 AAATTACCGAAACACCCTCAATTTGTA * * * 69333801 AAATTACCGAAACATCTTCGATTTGTA 1 AAATTACCGAAACACCCTCAATTTGTA * * 69333828 AAATTACCGAAATACCCTCGATTTGTA 1 AAATTACCGAAACACCCTCAATTTGTA * 69333855 AAATTACCGAAACACTCCT-ACTTTGTA 1 AAATTACCGAAACAC-CCTCAATTTGTA * * 69333882 AAATTATCGAAATACCCT 1 AAATTACCGAAACACCCT 69333900 TGTAGTATAA Statistics Matches: 247, Mismatches: 38, Indels: 5 0.85 0.13 0.02 Matches are distributed among these distances: 26 25 0.10 27 219 0.89 28 3 0.01 ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30 Consensus pattern (27 bp): AAATTACCGAAACACCCTCAATTTGTA Found at i:69333910 original size:27 final size:27 Alignment explanation
Indices: 69333880--69333939 Score: 111 Period size: 27 Copynumber: 2.2 Consensus size: 27 69333870 TCCTACTTTG 69333880 TAAAATTATCGAAATACCCTTGTAGTA 1 TAAAATTATCGAAATACCCTTGTAGTA * 69333907 TAAAATTATCGAAATACCCTTGTAGTG 1 TAAAATTATCGAAATACCCTTGTAGTA 69333934 TAAAAT 1 TAAAAT 69333940 GACCGACATA Statistics Matches: 32, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 27 32 1.00 ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33 Consensus pattern (27 bp): TAAAATTATCGAAATACCCTTGTAGTA Found at i:69333950 original size:27 final size:27 Alignment explanation
Indices: 69333824--69333969 Score: 100 Period size: 27 Copynumber: 5.4 Consensus size: 27 69333814 ATCTTCGATT * * * 69333824 TGTAAAATTACCGAAATACCCTCG-ATT 1 TGTAAAATGACCGAAATACCCTTGTA-G * * ** * 69333851 TGTAAAATTACCGAAACACTCCTACT-T 1 TGTAAAATGACCGAAATAC-CCTTGTAG * * 69333878 TGTAAAATTATCGAAATACCCTTGTAG 1 TGTAAAATGACCGAAATACCCTTGTAG * * * 69333905 TATAAAATTATCGAAATACCCTTGTAG 1 TGTAAAATGACCGAAATACCCTTGTAG * * 69333932 TGTAAAATGACCGACATA-CCTCTATAG 1 TGTAAAATGACCGAAATACCCT-TGTAG * 69333959 GGTAAAATGAC 1 TGTAAAATGAC 69333970 TATTTTTCCC Statistics Matches: 100, Mismatches: 15, Indels: 8 0.81 0.12 0.07 Matches are distributed among these distances: 26 7 0.07 27 90 0.90 28 3 0.03 ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29 Consensus pattern (27 bp): TGTAAAATGACCGAAATACCCTTGTAG Found at i:69338304 original size:19 final size:19 Alignment explanation
Indices: 69338280--69338324 Score: 56 Period size: 19 Copynumber: 2.4 Consensus size: 19 69338270 CGACGTCTTT * * 69338280 TGCATT-CATTTCATGCATC 1 TGCATTACATTACAT-CATA 69338299 TGCATTACATTACATCATA 1 TGCATTACATTACATCATA 69338318 TGCATTA 1 TGCATTA 69338325 AAGTCCACCA Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 19 16 0.70 20 7 0.30 ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40 Consensus pattern (19 bp): TGCATTACATTACATCATA Found at i:69339212 original size:25 final size:25 Alignment explanation
Indices: 69339167--69339214 Score: 62 Period size: 25 Copynumber: 1.9 Consensus size: 25 69339157 ACAACTTCTA * * 69339167 AAGAAAACTCAAGAGAGAATTCTTG 1 AAGAAAACCCAAGAGAAAATTCTTG 69339192 AAGAAAACCCCAA-AGAAAATTCT 1 AAGAAAA-CCCAAGAGAAAATTCT 69339215 GCACTCAACA Statistics Matches: 20, Mismatches: 2, Indels: 2 0.83 0.08 0.08 Matches are distributed among these distances: 25 16 0.80 26 4 0.20 ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17 Consensus pattern (25 bp): AAGAAAACCCAAGAGAAAATTCTTG Found at i:69340880 original size:23 final size:23 Alignment explanation
Indices: 69340854--69340897 Score: 63 Period size: 23 Copynumber: 1.9 Consensus size: 23 69340844 TTTCTTTTGT 69340854 TTCTTT-TTCTAACTCATTTTCTC 1 TTCTTTCTTC-AACTCATTTTCTC * 69340877 TTCTTTCTTCAACTCTTTTTC 1 TTCTTTCTTCAACTCATTTTC 69340898 AATTTTCTTT Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 23 16 0.84 24 3 0.16 ACGTcount: A:0.11, C:0.27, G:0.00, T:0.61 Consensus pattern (23 bp): TTCTTTCTTCAACTCATTTTCTC Found at i:69343121 original size:25 final size:25 Alignment explanation
Indices: 69343076--69343123 Score: 62 Period size: 25 Copynumber: 1.9 Consensus size: 25 69343066 ACAACTTCTA * * 69343076 AAGAAAACTCAAGAGAGAATTCTTG 1 AAGAAAACCCAAGAGAAAATTCTTG 69343101 AAGAAAACCCCAA-AGAAAATTCT 1 AAGAAAA-CCCAAGAGAAAATTCT 69343124 GCACTCAACA Statistics Matches: 20, Mismatches: 2, Indels: 2 0.83 0.08 0.08 Matches are distributed among these distances: 25 16 0.80 26 4 0.20 ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17 Consensus pattern (25 bp): AAGAAAACCCAAGAGAAAATTCTTG Found at i:69350536 original size:28 final size:27 Alignment explanation
Indices: 69350500--69350564 Score: 71 Period size: 28 Copynumber: 2.4 Consensus size: 27 69350490 TTTTGTTTAT * 69350500 TACTAATTTTAA-ATTTCCTTTCATATAA 1 TACTTATTTTAAGA-TTCCTTT-ATATAA * * 69350528 TACTTATTTTAAGATTCGTTTATATAT 1 TACTTATTTTAAGATTCCTTTATATAA 69350555 TA-TTATTTTA 1 TACTTATTTTA 69350565 TATATTATTT Statistics Matches: 33, Mismatches: 3, Indels: 4 0.82 0.08 0.10 Matches are distributed among these distances: 26 8 0.24 27 7 0.21 28 17 0.52 29 1 0.03 ACGTcount: A:0.32, C:0.09, G:0.03, T:0.55 Consensus pattern (27 bp): TACTTATTTTAAGATTCCTTTATATAA Found at i:69350687 original size:22 final size:22 Alignment explanation
Indices: 69350632--69350687 Score: 53 Period size: 22 Copynumber: 2.5 Consensus size: 22 69350622 TATATTACAT * 69350632 ATTTTAAAATTTTTATACGTATA 1 ATTTT-AAATTTGTATACGTATA * 69350655 A-TTTATTATTTGTATATCG-ATA 1 ATTTTA-AATTTGTATA-CGTATA 69350677 ATTTTAAATTT 1 ATTTTAAATTT 69350688 CATTTCTTTC Statistics Matches: 27, Mismatches: 3, Indels: 7 0.73 0.08 0.19 Matches are distributed among these distances: 21 1 0.04 22 19 0.70 23 7 0.26 ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55 Consensus pattern (22 bp): ATTTTAAATTTGTATACGTATA Found at i:69353021 original size:5 final size:5 Alignment explanation
Indices: 69353001--69353033 Score: 50 Period size: 5 Copynumber: 6.8 Consensus size: 5 69352991 CCAGCTTATT * 69353001 AATAA AA-AA TATAA AATAA AATAA AATAA AATA 1 AATAA AATAA AATAA AATAA AATAA AATAA AATA 69353034 CATATTTAAA Statistics Matches: 25, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 4 3 0.12 5 22 0.88 ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21 Consensus pattern (5 bp): AATAA Found at i:69356502 original size:24 final size:24 Alignment explanation
Indices: 69356474--69356524 Score: 66 Period size: 24 Copynumber: 2.1 Consensus size: 24 69356464 TTAGCAAGTC * * 69356474 AAATAAACTATGCTAATAAATGCT 1 AAATAAACTATACTAATAAATACT * * 69356498 AAATATATTATACTAATAAATACT 1 AAATAAACTATACTAATAAATACT 69356522 AAA 1 AAA 69356525 CCTTCTAGAA Statistics Matches: 23, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 24 23 1.00 ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31 Consensus pattern (24 bp): AAATAAACTATACTAATAAATACT Found at i:69358473 original size:24 final size:24 Alignment explanation
Indices: 69358445--69358493 Score: 62 Period size: 24 Copynumber: 2.0 Consensus size: 24 69358435 TTAGCAAGTC * * 69358445 AAATAAACTATGCTAATAAATGCT 1 AAATAAACTATACAAATAAATGCT * * 69358469 AAATATATTATACAAATAAATGCT 1 AAATAAACTATACAAATAAATGCT 69358493 A 1 A 69358494 CTTCTAGAAA Statistics Matches: 21, Mismatches: 4, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 24 21 1.00 ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31 Consensus pattern (24 bp): AAATAAACTATACAAATAAATGCT Found at i:69359437 original size:50 final size:50 Alignment explanation
Indices: 69359378--69359489 Score: 134 Period size: 50 Copynumber: 2.2 Consensus size: 50 69359368 GATAATTTGG * * * 69359378 CACAAAGGCTTTCTAGAAAATTCACCATAAAGGCTTTCCAAATGATACGC 1 CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC * ** * ** * 69359428 CACAGAGGCTTTCCAGGGAATTCATCACAAAAGCTTTCCAAATTCTACGG 1 CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC 69359478 CACAAAGGCTTT 1 CACAAAGGCTTT 69359490 TGAGAGTTTT Statistics Matches: 51, Mismatches: 11, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 50 51 1.00 ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24 Consensus pattern (50 bp): CACAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC Found at i:69360286 original size:24 final size:24 Alignment explanation
Indices: 69360259--69360309 Score: 93 Period size: 24 Copynumber: 2.1 Consensus size: 24 69360249 TTTATATTAG * 69360259 AATCCTCATTATAGGCATTTTACT 1 AATCCTCATTATAGACATTTTACT 69360283 AATCCTCATTATAGACATTTTACT 1 AATCCTCATTATAGACATTTTACT 69360307 AAT 1 AAT 69360310 ATTTCAACTA Statistics Matches: 26, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 24 26 1.00 ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41 Consensus pattern (24 bp): AATCCTCATTATAGACATTTTACT Found at i:69362956 original size:22 final size:22 Alignment explanation
Indices: 69362918--69362975 Score: 55 Period size: 22 Copynumber: 2.6 Consensus size: 22 69362908 ATATTTTTAC * * * 69362918 TATTATCTATTATTATCATATT 1 TATTATATATTTTTATCATATA * 69362940 TATTAT-TATTTTCTATCCTATA 1 TATTATATATTTT-TATCATATA 69362962 TATTTATATATTTT 1 TA-TTATATATTTT 69362976 ATTTTTAGTA Statistics Matches: 30, Mismatches: 3, Indels: 4 0.81 0.08 0.11 Matches are distributed among these distances: 21 5 0.17 22 15 0.50 23 4 0.13 24 6 0.20 ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62 Consensus pattern (22 bp): TATTATATATTTTTATCATATA Found at i:69363282 original size:57 final size:56 Alignment explanation
Indices: 69363172--69363319 Score: 134 Period size: 57 Copynumber: 2.7 Consensus size: 56 69363162 TTTTTTCGTA * * 69363172 TTTTATTATTATTAGTATTACT-AT-TAT-TATTATTGTTA--A-TATTAATGTATAT 1 TTTTACTATTATTACTATTACTAATATATATATTA-TG-TAGCATTATTAATGTATAT * 69363224 TTTTA-TATGTATATACTATTACT-ATATATCTATTTATGTAGCATTATTAATGGT-TAT 1 TTTTACTAT-TAT-TACTATTACTAATATATATA-TTATGTAGCATTATTAAT-GTATAT * * 69363281 TTTTACTATTATTATTATTCCTAATATATATATTATGTA 1 TTTTACTATTATTACTATTACTAATATATATATTATGTA 69363320 TACATTTTTT Statistics Matches: 81, Mismatches: 4, Indels: 18 0.79 0.04 0.17 Matches are distributed among these distances: 51 3 0.04 52 8 0.10 53 11 0.14 54 5 0.06 55 4 0.05 56 19 0.23 57 26 0.32 58 5 0.06 ACGTcount: A:0.32, C:0.05, G:0.06, T:0.56 Consensus pattern (56 bp): TTTTACTATTATTACTATTACTAATATATATATTATGTAGCATTATTAATGTATAT Found at i:69363342 original size:27 final size:26 Alignment explanation
Indices: 69363309--69363372 Score: 83 Period size: 27 Copynumber: 2.4 Consensus size: 26 69363299 TCCTAATATA * 69363309 TATATTATGTATACATTTTTTAAATAC 1 TATATTATGTATACAATTTTT-AATAC * * 69363336 TATATTATATATATAATTTTTAATAC 1 TATATTATGTATACAATTTTTAATAC * 69363362 CATATTATGTA 1 TATATTATGTA 69363373 CATATTATTA Statistics Matches: 32, Mismatches: 5, Indels: 1 0.84 0.13 0.03 Matches are distributed among these distances: 26 14 0.44 27 18 0.56 ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52 Consensus pattern (26 bp): TATATTATGTATACAATTTTTAATAC Found at i:69363417 original size:12 final size:12 Alignment explanation
Indices: 69363402--69363513 Score: 51 Period size: 12 Copynumber: 9.3 Consensus size: 12 69363392 TTTTTGTCCC 69363402 TATTATATTTAT 1 TATTATATTTAT 69363414 TATTA-A--TAT 1 TATTATATTTAT * 69363423 TAGTATATATT-T 1 TATTATAT-TTAT * 69363435 TATTATACGTGTA- 1 TATTATA--TTTAT 69363448 TATATATACTTT-T 1 TAT-TATA-TTTAT 69363461 TATATATAGTATTAT 1 TAT-TATA-T-TTAT * 69363476 T-TT-TATATAT 1 TATTATATTTAT * 69363486 CATTATATTTAT 1 TATTATATTTAT * 69363498 TATTATACTTAT 1 TATTATATTTAT 69363510 TATT 1 TATT 69363514 TTCACTATTG Statistics Matches: 76, Mismatches: 11, Indels: 26 0.67 0.10 0.23 Matches are distributed among these distances: 9 7 0.09 10 4 0.05 11 4 0.05 12 34 0.45 13 17 0.22 14 8 0.11 15 2 0.03 ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59 Consensus pattern (12 bp): TATTATATTTAT Found at i:69363480 original size:18 final size:18 Alignment explanation
Indices: 69363457--69363515 Score: 68 Period size: 18 Copynumber: 3.2 Consensus size: 18 69363447 ATATATATAC * 69363457 TTTTTATATATAGTATTA 1 TTTTTATATATATTATTA 69363475 TTTTTATATATCATTA-TA 1 TTTTTATATAT-ATTATTA 69363493 TTTATTAT-TATACTTATTA 1 TTT-TTATATATA-TTATTA 69363512 TTTT 1 TTTT 69363516 CACTATTGTC Statistics Matches: 36, Mismatches: 1, Indels: 8 0.80 0.02 0.18 Matches are distributed among these distances: 17 1 0.03 18 23 0.64 19 12 0.33 ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64 Consensus pattern (18 bp): TTTTTATATATATTATTA Found at i:69367322 original size:22 final size:22 Alignment explanation
Indices: 69367296--69367340 Score: 81 Period size: 22 Copynumber: 2.0 Consensus size: 22 69367286 ATTCATGTCT 69367296 AACATTCATTCGTCATTTATTC 1 AACATTCATTCGTCATTTATTC * 69367318 AACATTCATTTGTCATTTATTC 1 AACATTCATTCGTCATTTATTC 69367340 A 1 A 69367341 TTCATCCATT Statistics Matches: 22, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 22 22 1.00 ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47 Consensus pattern (22 bp): AACATTCATTCGTCATTTATTC Found at i:69375630 original size:73 final size:73 Alignment explanation
Indices: 69375464--69375631 Score: 187 Period size: 75 Copynumber: 2.3 Consensus size: 73 69375454 TACTCTGATG * ** * * 69375464 TTTT-AATTTCTGTTTTTTAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGTCACAT 1 TTTTCAATTTCTGTTTTTTAAAATCAACTCATATTGCGAGAGACGAGTTAAGCCTCAGGTCACA- * 69375528 GCCGAGGTA 65 GCCAAGGTA * * * * 69375537 TTTTCAATTCCTGTTTTTTAAAAGTCAAGTCGTATTGCGAGAGACGAGTTAAGCCTCAGGTTACA 1 TTTTCAATTTCTGTTTTTTAAAA-TCAACTCATATTGCGAGAGACGAGTTAAGCCTCAGGTCACA * * 69375602 -CTAAGTTA 65 GCCAAGGTA * 69375610 TTTTCAATTTCTGTTGTTTAAA 1 TTTTCAATTTCTGTTTTTTAAA 69375632 TTTCTATTTT Statistics Matches: 79, Mismatches: 14, Indels: 4 0.81 0.14 0.04 Matches are distributed among these distances: 73 29 0.37 74 17 0.22 75 33 0.42 ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39 Consensus pattern (73 bp): TTTTCAATTTCTGTTTTTTAAAATCAACTCATATTGCGAGAGACGAGTTAAGCCTCAGGTCACAG CCAAGGTA Found at i:69375758 original size:90 final size:88 Alignment explanation
Indices: 69375644--69375892 Score: 331 Period size: 88 Copynumber: 2.8 Consensus size: 88 69375634 TCTATTTTTC * * 69375644 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTTCACATGCCGAGGTATTTCCAAAT 1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACATGCCGAGGTATTTTCAAAT 69375709 TCTGTTTTCAAACTATGTTTTCCA 65 TCTGTTTTCAAACTATGTTTTCCA * * * 69375733 AAAAACTCAACTCATATTGCCAGAGGTGAGTTGAACTTTGG--ACATGCCGAGGTATTTTCAAAT 1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTTCAAAT *** 69375796 TCTGTTTTTCAGTTTATGTTTTCCAA 65 TCTG-TTTTCAAACTATGTTTTCC-A * * * * 69375822 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAATT 1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG-GTCACATGCCGAGGTATTTTCAAAT 69375887 TCTGTT 65 TCTGTT 69375893 CGTCAAAAAT Statistics Matches: 139, Mismatches: 15, Indels: 11 0.84 0.09 0.07 Matches are distributed among these distances: 87 25 0.18 88 47 0.34 89 11 0.08 90 33 0.24 91 23 0.17 ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34 Consensus pattern (88 bp): AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTTCAAATT CTGTTTTCAAACTATGTTTTCCA Found at i:69376093 original size:149 final size:147 Alignment explanation
Indices: 69375823--69376380 Score: 624 Period size: 149 Copynumber: 3.7 Consensus size: 147 69375813 GTTTTCCAAA * ** 69375823 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAATTT 1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGCTGAGGTATTTTCAATTT * * * 69375888 CTGTTCGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT 64 CTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGT 69375952 ATTTTCAATTCCTGTTTTTT 128 ATTTTCAATTCCTGTTTTTT * * 69375972 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTAATTTT-AATTTC 1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTC * * 69376036 TGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGT 65 TGTTCTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACATGCTGAGGT * ** 69376101 ATTTTCAATTTCTGTTTTCA 128 ATTTTCAATTCCTGTTTTTT * * * 69376121 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAATTCT 1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT * * 69376186 G-TCTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTA 66 GTTC-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGT- * 69376248 ATTTT-AATTTTTGTTCCTCAATTTATGTTT 128 ATTTTCAA------TTCCT---GTT-T-TTT * * * * 69376278 CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTTATTTTTAAT 1 ----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAT * * 69376343 TTCTGTTTTTCATCAAAATCAACTCATATTGCGAGAGG 62 TTCTGTTCTTCA-AAAAATCAACTCATATTGCGAGAGG 69376381 GTCACGGGCC Statistics Matches: 351, Mismatches: 33, Indels: 37 0.83 0.08 0.09 Matches are distributed among these distances: 146 12 0.03 147 28 0.08 148 54 0.15 149 162 0.46 152 4 0.01 155 2 0.01 156 1 0.00 157 1 0.00 161 63 0.18 162 24 0.07 ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33 Consensus pattern (147 bp): AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT GTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTATT TTCAATTCCTGTTTTTT Found at i:69376232 original size:74 final size:73 Alignment explanation
Indices: 69375801--69376262 Score: 522 Period size: 74 Copynumber: 6.2 Consensus size: 73 69375791 CAAATTCTGT * * * ** 69375801 TTTTCAGTTTATGTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCA 1 TTTTCAATTTCTGTTTT-C-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGA 69375866 CACGCTGAGGTA 62 CACGCTGAGGTA * * * 69375878 TTTTCAATTTCTGTTCGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCAC 1 TTTTCAATTTCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC * * 69375942 ATGCCGAGGTA 63 ACGCTGAGGTA * ** * * 69375953 TTTTCAATTCCTGTTTT-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATG 1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG * 69376017 TTGAGGTAA 66 CTGAGGT-A * 69376026 TTTT-AATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTC 1 TTTTCAATTTCTGTT-TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--- * * 69376089 ACATGTTGAGGTA 61 ACACGCTGAGGTA * * 69376102 TTTTCAATTTCTGTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACG 1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG * 69376166 TTGAGGTA 66 CTGAGGTA * * 69376174 TTTTCAAATTCTGTCTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC 1 TTTTCAATTTCTGT-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC 69376239 GCTGAGGTAA 65 GCTGAGGT-A * 69376249 TTTT-AATTTTTGTT 1 TTTTCAATTTCTGTT 69376263 CCTCAATTTA Statistics Matches: 335, Mismatches: 34, Indels: 36 0.83 0.08 0.09 Matches are distributed among these distances: 72 44 0.13 73 11 0.03 74 133 0.40 75 103 0.31 76 7 0.02 77 36 0.11 78 1 0.00 ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34 Consensus pattern (73 bp): TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG CTGAGGTA Found at i:69376340 original size:87 final size:86 Alignment explanation
Indices: 69376189--69376349 Score: 268 Period size: 87 Copynumber: 1.9 Consensus size: 86 69376179 AAATTCTGTC * 69376189 TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA 1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA * 69376254 ATTTTTGTTCCTCAATTTATG 66 ATTTCTGTTCCTCAATTTATG * * * 69376275 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTTATTTTT 1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT 69376340 AATTTCTGTT 65 AATTTCTGTT 69376350 TTTCATCAAA Statistics Matches: 69, Mismatches: 5, Indels: 1 0.92 0.07 0.01 Matches are distributed among these distances: 86 4 0.06 87 65 0.94 ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35 Consensus pattern (86 bp): TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA ATTTCTGTTCCTCAATTTATG Found at i:69376687 original size:42 final size:42 Alignment explanation
Indices: 69376605--69376687 Score: 96 Period size: 42 Copynumber: 2.0 Consensus size: 42 69376595 CCACAAATCT * ** * 69376605 CATATCCTTGAAGTTACGTTGGAGTAGATTGAAGCTACAAGG 1 CATATCCTTGAAGTTACGGTGGAGTAGATCAAAGCAACAAGG * * 69376647 CATAT-CTCTGAAGTTGCGGTGGAGTGGATCAAAGCAACAAG 1 CATATCCT-TGAAGTTACGGTGGAGTAGATCAAAGCAACAAG 69376688 ATACAGTGGA Statistics Matches: 34, Mismatches: 6, Indels: 2 0.81 0.14 0.05 Matches are distributed among these distances: 41 2 0.06 42 32 0.94 ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25 Consensus pattern (42 bp): CATATCCTTGAAGTTACGGTGGAGTAGATCAAAGCAACAAGG Found at i:69377418 original size:10 final size:10 Alignment explanation
Indices: 69377403--69377444 Score: 54 Period size: 10 Copynumber: 4.5 Consensus size: 10 69377393 ACATATTTTT 69377403 TAAAAAATAA 1 TAAAAAATAA 69377413 TAAAAAAT-- 1 TAAAAAATAA * 69377421 CAAAAAATAA 1 TAAAAAATAA 69377431 TAAAAAATAA 1 TAAAAAATAA 69377441 -AAAA 1 TAAAA 69377445 TACCTTTTTT Statistics Matches: 28, Mismatches: 2, Indels: 5 0.80 0.06 0.14 Matches are distributed among these distances: 8 7 0.25 9 4 0.14 10 17 0.61 ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17 Consensus pattern (10 bp): TAAAAAATAA Found at i:69377427 original size:18 final size:17 Alignment explanation
Indices: 69377403--69377446 Score: 79 Period size: 18 Copynumber: 2.5 Consensus size: 17 69377393 ACATATTTTT 69377403 TAAAAAATAATAAAAAA 1 TAAAAAATAATAAAAAA 69377420 TCAAAAAATAATAAAAAA 1 T-AAAAAATAATAAAAAA 69377438 TAAAAAATA 1 TAAAAAATA 69377447 CCTTTTTTTA Statistics Matches: 26, Mismatches: 0, Indels: 2 0.93 0.00 0.07 Matches are distributed among these distances: 17 9 0.35 18 17 0.65 ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18 Consensus pattern (17 bp): TAAAAAATAATAAAAAA Found at i:69378087 original size:22 final size:23 Alignment explanation
Indices: 69378049--69378108 Score: 61 Period size: 22 Copynumber: 2.7 Consensus size: 23 69378039 ATATTTTTGC * * * 69378049 TATTATCTATTAT-TATCATATT 1 TATTATATATTTTCTATCATATA * 69378071 TATTAT-TATTTTCTATCCTATA 1 TATTATATATTTTCTATCATATA 69378093 TATTTATATATTTTCT 1 TA-TTATATATTTTCT 69378109 TTTTAGTATC Statistics Matches: 32, Mismatches: 3, Indels: 4 0.82 0.08 0.10 Matches are distributed among these distances: 21 5 0.16 22 15 0.47 23 4 0.12 24 8 0.25 ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62 Consensus pattern (23 bp): TATTATATATTTTCTATCATATA Found at i:69378320 original size:3 final size:3 Alignment explanation
Indices: 69378308--69378359 Score: 61 Period size: 3 Copynumber: 17.7 Consensus size: 3 69378298 TTTGTTTTTG * * * * 69378308 TAT T-T TAT TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT TAT TGT TAA 1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT 69378355 TAT TA 1 TAT TA 69378360 ATGTATATTT Statistics Matches: 40, Mismatches: 8, Indels: 2 0.80 0.16 0.04 Matches are distributed among these distances: 2 2 0.05 3 38 0.95 ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62 Consensus pattern (3 bp): TAT Found at i:69378521 original size:27 final size:28 Alignment explanation
Indices: 69378452--69378521 Score: 78 Period size: 24 Copynumber: 2.7 Consensus size: 28 69378442 GTCCTAATAT * * 69378452 ATATTATGTATACATT-TTTTAAATACT 1 ATATTATGTATATATTATTTTAAATACC 69378479 ATATTA--TATATA-TATTTT-AATACC 1 ATATTATGTATATATTATTTTAAATACC * 69378503 ATATTATGTACATATTATT 1 ATATTATGTATATATTATT 69378522 ATTATATCTA Statistics Matches: 36, Mismatches: 3, Indels: 8 0.77 0.06 0.17 Matches are distributed among these distances: 24 12 0.33 25 9 0.25 26 5 0.14 27 10 0.28 ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51 Consensus pattern (28 bp): ATATTATGTATATATTATTTTAAATACC Found at i:69378620 original size:18 final size:18 Alignment explanation
Indices: 69378597--69378655 Score: 68 Period size: 18 Copynumber: 3.2 Consensus size: 18 69378587 ATATATATAC * 69378597 TTTTTATATACAGTATTA 1 TTTTTATATACATTATTA 69378615 TTTTTATATATCATTA-TA 1 TTTTTATATA-CATTATTA 69378633 TTTATTATTATAC-TTATTA 1 TTT-TTA-TATACATTATTA 69378652 TTTT 1 TTTT 69378656 CACTATTGTC Statistics Matches: 36, Mismatches: 1, Indels: 8 0.80 0.02 0.18 Matches are distributed among these distances: 18 19 0.53 19 13 0.36 20 4 0.11 ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63 Consensus pattern (18 bp): TTTTTATATACATTATTA Found at i:69382491 original size:49 final size:49 Alignment explanation
Indices: 69382435--69382680 Score: 303 Period size: 49 Copynumber: 5.0 Consensus size: 49 69382425 GTAGACAAGG * * * 69382435 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA 1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA * ** 69382484 TTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTTACCTAA 1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA ** * * * 69382534 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA 1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA * * * * * 69382584 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAA 1 -TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA * * 69382634 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC 1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC 69382681 TCACTATAGA Statistics Matches: 166, Mismatches: 28, Indels: 6 0.83 0.14 0.03 Matches are distributed among these distances: 49 82 0.49 50 46 0.28 51 38 0.23 ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26 Consensus pattern (49 bp): TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA Found at i:69382957 original size:27 final size:27 Alignment explanation
Indices: 69382927--69382980 Score: 72 Period size: 27 Copynumber: 2.0 Consensus size: 27 69382917 TCATACAACC * * 69382927 CATGTAATAGTAATTTAACATTCAATT 1 CATGTAACAATAATTTAACATTCAATT ** 69382954 CATGTAACAATAATTTGTCATTCAATT 1 CATGTAACAATAATTTAACATTCAATT 69382981 TCACATTACA Statistics Matches: 23, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 27 23 1.00 ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41 Consensus pattern (27 bp): CATGTAACAATAATTTAACATTCAATT Found at i:69388308 original size:49 final size:49 Alignment explanation
Indices: 69388236--69388409 Score: 231 Period size: 49 Copynumber: 3.5 Consensus size: 49 69388226 TGAGGTCACG * * 69388236 TGTGTAGTACTAAGTGTAGGCTACTACTTGTACCGGATAATTGGTCGCA 1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA * * ** * * 69388285 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG 1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGCA * * * * 69388335 TGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAA 1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA 69388384 TGTGTAGTACTAAGTGCAGGCTACTA 1 TGTGTAGTACTAAGTGCAGGCTACTA 69388410 TGTGTACCAA Statistics Matches: 104, Mismatches: 20, Indels: 2 0.83 0.16 0.02 Matches are distributed among these distances: 49 64 0.62 50 40 0.38 ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30 Consensus pattern (49 bp): TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA Done.