Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Chr01 ID=Chr01-JGI_221_v2.0 Parameters: 2 7 7 80 10 50 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 55868233 ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33 Warning! 983842 characters in sequence are not A, C, G, or T File 51 of 187 Found at i:15178211 original size:42 final size:42 Alignment explanation
Indices: 15178094--15178275 Score: 242 Period size: 42 Copynumber: 4.3 Consensus size: 42 15178084 AAGAACATGA * * 15178094 CGCTTAGAAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGG 1 CGCTTAGAAAAAAACGCCACTAAAGACAATGTTCTTTAGCGG * * 15178136 CGCTTAGAAAAAAAACG-CAGCTAAAGGCAATGTTCTTTAGTGG 1 CGCTTAG-AAAAAAACGCCA-CTAAAGACAATGTTCTTTAGCGG * * 15178179 CGCTTAGAAAGAAACGCCACTAAAGACCATGTTCTTTCA-CGG 1 CGCTTAGAAAAAAACGCCACTAAAGACAATGTTCTTT-AGCGG * * * 15178221 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGAGG 1 CGCTTAGAAAAAAACGCCACTAAAGACAATGTTCTTTAGCGG 15178263 CGCTTAGAAAAAA 1 CGCTTAGAAAAAA 15178276 CGCTGCAAAT Statistics Matches: 124, Mismatches: 11, Indels: 10 0.86 0.08 0.07 Matches are distributed among these distances: 41 1 0.01 42 84 0.68 43 39 0.31 ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22 Consensus pattern (42 bp): CGCTTAGAAAAAAACGCCACTAAAGACAATGTTCTTTAGCGG Found at i:15179490 original size:26 final size:27 Alignment explanation
Indices: 15179461--15179512 Score: 88 Period size: 26 Copynumber: 1.9 Consensus size: 27 15179451 AAGGTCTCAA 15179461 AAAATTTAAAAATTT-TATCTCTTTAG 1 AAAATTTAAAAATTTATATCTCTTTAG 15179487 AAAATTTAAAAATTTAATATCTCTTT 1 AAAATTTAAAAATTT-ATATCTCTTT 15179513 TTCAATATTA Statistics Matches: 24, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 26 15 0.62 28 9 0.38 ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46 Consensus pattern (27 bp): AAAATTTAAAAATTTATATCTCTTTAG Found at i:15180049 original size:18 final size:18 Alignment explanation
Indices: 15180007--15180062 Score: 58 Period size: 19 Copynumber: 3.0 Consensus size: 18 15179997 ATGTAAGTCA * * 15180007 TGTTAATAATTAATTAAAT 1 TGTTAAAAATTAA-AAAAT * 15180026 TTTTAAAAATTAAAAAAT 1 TGTTAAAAATTAAAAAAT * 15180044 TGTTAACAATTTAAAAAAT 1 TGTTAA-AAATTAAAAAAT 15180063 ATAAATTTTT Statistics Matches: 31, Mismatches: 5, Indels: 2 0.82 0.13 0.05 Matches are distributed among these distances: 18 9 0.29 19 22 0.71 ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41 Consensus pattern (18 bp): TGTTAAAAATTAAAAAAT Found at i:15180103 original size:16 final size:16 Alignment explanation
Indices: 15180082--15180116 Score: 61 Period size: 16 Copynumber: 2.2 Consensus size: 16 15180072 TTTAATTATA 15180082 TAAAAATAATAAAAAT 1 TAAAAATAATAAAAAT * 15180098 TAAAAATGATAAAAAT 1 TAAAAATAATAAAAAT 15180114 TAA 1 TAA 15180117 TTAATTTTTT Statistics Matches: 18, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 16 18 1.00 ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26 Consensus pattern (16 bp): TAAAAATAATAAAAAT Found at i:15183498 original size:30 final size:30 Alignment explanation
Indices: 15183462--15183522 Score: 113 Period size: 30 Copynumber: 2.0 Consensus size: 30 15183452 AAGACAAAGG * 15183462 ATTGTCACTAGTTTTGGACCTAATTTCCTT 1 ATTGTCACTAGTTTCGGACCTAATTTCCTT 15183492 ATTGTCACTAGTTTCGGACCTAATTTCCTT 1 ATTGTCACTAGTTTCGGACCTAATTTCCTT 15183522 A 1 A 15183523 CTTCTTTTGT Statistics Matches: 30, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 30 30 1.00 ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44 Consensus pattern (30 bp): ATTGTCACTAGTTTCGGACCTAATTTCCTT Found at i:15185713 original size:15 final size:15 Alignment explanation
Indices: 15185693--15185728 Score: 72 Period size: 15 Copynumber: 2.4 Consensus size: 15 15185683 GGATTCACTC 15185693 AGTTCATTATGTACT 1 AGTTCATTATGTACT 15185708 AGTTCATTATGTACT 1 AGTTCATTATGTACT 15185723 AGTTCA 1 AGTTCA 15185729 AATCCACAAG Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 21 1.00 ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44 Consensus pattern (15 bp): AGTTCATTATGTACT Found at i:15187807 original size:36 final size:35 Alignment explanation
Indices: 15187764--15187840 Score: 86 Period size: 36 Copynumber: 2.1 Consensus size: 35 15187754 AATCTTTATA * 15187764 TTTTAT-AA-TTCATAATTTTTTATATTATTAAAATTT 1 TTTTATAAATTTCATAATTTTTTAAATT-TT--AATTT * 15187800 TTTTATAAAATTTTATAATTTTTTAAATTTTAATTT 1 TTTTAT-AAATTTCATAATTTTTTAAATTTTAATTT 15187836 TTTTA 1 TTTTA 15187841 AATAATTATT Statistics Matches: 36, Mismatches: 2, Indels: 6 0.82 0.05 0.14 Matches are distributed among these distances: 36 16 0.44 38 4 0.11 39 16 0.44 ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64 Consensus pattern (35 bp): TTTTATAAATTTCATAATTTTTTAAATTTTAATTT Found at i:15187839 original size:16 final size:17 Alignment explanation
Indices: 15187749--15187843 Score: 63 Period size: 16 Copynumber: 5.5 Consensus size: 17 15187739 TATTTTTTAC 15187749 TTTTAAATCTTTAT-ATT 1 TTTTAAAT-TTTATAATT * * 15187766 TTAT-AA-TTCATAATT 1 TTTTAAATTTTATAATT * * 15187781 TTTTATATTATTAAAATTTT 1 TTTTAAATT-TTATAA--TT 15187801 TTTATAAAATTTTATAATT 1 TTT-T-AAATTTTATAATT * 15187820 TTTTAAATTTTA-ATTT 1 TTTTAAATTTTATAATT 15187836 TTTTAAAT 1 TTTTAAAT 15187844 AATTATTGAT Statistics Matches: 61, Mismatches: 9, Indels: 17 0.70 0.10 0.20 Matches are distributed among these distances: 14 4 0.07 15 6 0.10 16 14 0.23 17 12 0.20 18 5 0.08 19 5 0.08 20 5 0.08 21 6 0.10 22 4 0.07 ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62 Consensus pattern (17 bp): TTTTAAATTTTATAATT Found at i:15189989 original size:27 final size:27 Alignment explanation
Indices: 15189959--15190085 Score: 146 Period size: 27 Copynumber: 4.7 Consensus size: 27 15189949 AAGTCCTTAT * * ** 15189959 TACAGAATACGCCACAAAGGTGATCCA 1 TACAGAGTATGCCACAAAGGTGATATA *** * 15189986 TACAGAGTACATCACAAAGGTTATATA 1 TACAGAGTATGCCACAAAGGTGATATA * * * * 15190013 TAGAGAGTATACCACAAAGGCGACATA 1 TACAGAGTATGCCACAAAGGTGATATA 15190040 TACAGAGTATGCCACAAAGGTGATATA 1 TACAGAGTATGCCACAAAGGTGATATA 15190067 TACAGAGTATGCCACAAAG 1 TACAGAGTATGCCACAAAG 15190086 ACAATTCATT Statistics Matches: 84, Mismatches: 16, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 27 84 1.00 ACGTcount: A:0.43, C:0.19, G:0.20, T:0.19 Consensus pattern (27 bp): TACAGAGTATGCCACAAAGGTGATATA Found at i:15190099 original size:27 final size:27 Alignment explanation
Indices: 15190008--15190112 Score: 95 Period size: 27 Copynumber: 3.9 Consensus size: 27 15189998 CACAAAGGTT * * * * 15190008 ATATATAGAGAGTATACCACAAAGGCG 1 ATATATACAGAGTATGCCACAAAGACA * *** 15190035 ACATATACAGAGTATGCCACAAAGGTG 1 ATATATACAGAGTATGCCACAAAGACA 15190062 ATATATACAGAGTATGCCACAAAGACA 1 ATATATACAGAGTATGCCACAAAGACA * * * 15190089 AT-TCATTCAGAGTACGCCATAAAG 1 ATAT-ATACAGAGTATGCCACAAAG 15190113 GCTGACAGGA Statistics Matches: 66, Mismatches: 11, Indels: 2 0.84 0.14 0.03 Matches are distributed among these distances: 26 1 0.02 27 65 0.98 ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20 Consensus pattern (27 bp): ATATATACAGAGTATGCCACAAAGACA Found at i:15190100 original size:54 final size:54 Alignment explanation
Indices: 15189985--15190113 Score: 145 Period size: 54 Copynumber: 2.4 Consensus size: 54 15189975 AAGGTGATCC ** * * * 15189985 ATACAGAGTACATCACAAAGGTTATATATAGAGAGTATACCACAAAGGCGACAT 1 ATACAGAGTACGCCACAAAGGTGATATATACAGAGTATACCACAAAGACGACAT * * 15190039 ATACAGAGTATGCCACAAAGGTGATATATACAGAGTATGCCACAAAGAC-A-ATT 1 ATACAGAGTACGCCACAAAGGTGATATATACAGAGTATACCACAAAGACGACA-T * * 15190092 CATTCAGAGTACGCCATAAAGG 1 -ATACAGAGTACGCCACAAAGG 15190114 CTGACAGGAT Statistics Matches: 63, Mismatches: 10, Indels: 4 0.82 0.13 0.05 Matches are distributed among these distances: 52 1 0.02 53 2 0.03 54 60 0.95 ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20 Consensus pattern (54 bp): ATACAGAGTACGCCACAAAGGTGATATATACAGAGTATACCACAAAGACGACAT Found at i:15190611 original size:18 final size:18 Alignment explanation
Indices: 15190585--15190821 Score: 156 Period size: 18 Copynumber: 13.4 Consensus size: 18 15190575 CGATCAGATC * * 15190585 AAAATACGAGAATTTTTA 1 AAAACACGAGAATTTTTG 15190603 AAAACACGA-AGATTTTTG 1 AAAACACGAGA-ATTTTTG ** ** 15190621 -AAACATTTA-TTTTTTTG 1 AAAACA-CGAGAATTTTTG * 15190638 AAAACACGAAAAATTTTT- 1 AAAACACG-AGAATTTTTG * 15190656 AAAACACGAGAATTTTAG 1 AAAACACGAGAATTTTTG * * * * 15190674 -AGACACGAAAATTCTTA 1 AAAACACGAGAATTTTTG * * 15190691 AAAATACGAAAATTTTTG 1 AAAACACGAGAATTTTTG 15190709 AAAACACG-GAAATTTTT- 1 AAAACACGAG-AATTTTTG 15190726 AAAACAC-AGGAATTTTTG 1 AAAACACGA-GAATTTTTG * * 15190744 AAAACATGAAAATTTTTG 1 AAAACACGAGAATTTTTG 15190762 -AAACACCG-GAA-TTTTG 1 AAAACA-CGAGAATTTTTG * * 15190778 AAAACACGAGGATTCTTG 1 AAAACACGAGAATTTTTG * 15190796 AAAACACGA-AGATTTTTT 1 AAAACACGAGA-ATTTTTG 15190814 AAAACACG 1 AAAACACG 15190822 GAAGAAAATA Statistics Matches: 170, Mismatches: 32, Indels: 34 0.72 0.14 0.14 Matches are distributed among these distances: 16 7 0.04 17 59 0.35 18 98 0.58 19 6 0.04 ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30 Consensus pattern (18 bp): AAAACACGAGAATTTTTG Found at i:15190680 original size:35 final size:35 Alignment explanation
Indices: 15190585--15190821 Score: 189 Period size: 35 Copynumber: 6.7 Consensus size: 35 15190575 CGATCAGATC * * * 15190585 AAAATACGAGAATTTTTAAAAACACGAAGATTTTT 1 AAAACACGAGAATTTTTGAAAACACGAAAATTTTT * ** ** 15190620 GAAACATTTA-TTTTTTTGAAAACACGAAAAATTTTT 1 AAAACA-CGAGAATTTTTGAAAACACG-AAAATTTTT * * * 15190656 AAAACACGAGAATTTTAG-AGACACGAAAATTCTTA 1 AAAACACGAGAATTTTTGAAAACACGAAAATT-TTT * * * 15190691 AAAATACGAAAATTTTTGAAAACACGGAAATTTTT 1 AAAACACGAGAATTTTTGAAAACACGAAAATTTTT * 15190726 AAAACAC-AGGAATTTTTGAAAACATGAAAATTTTT 1 AAAACACGA-GAATTTTTGAAAACACGAAAATTTTT * ** * 15190761 GAAACACCG-GAA-TTTTGAAAACACGAGGATTCTTG 1 AAAACA-CGAGAATTTTTGAAAACACGAAAATT-TTT * 15190796 AAAACACGA-AGATTTTTTAAAACACG 1 AAAACACGAGA-ATTTTTGAAAACACG 15190822 GAAGAAAATA Statistics Matches: 157, Mismatches: 33, Indels: 23 0.74 0.15 0.11 Matches are distributed among these distances: 34 26 0.17 35 88 0.56 36 43 0.27 ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30 Consensus pattern (35 bp): AAAACACGAGAATTTTTGAAAACACGAAAATTTTT Found at i:15190755 original size:53 final size:53 Alignment explanation
Indices: 15190635--15190824 Score: 196 Period size: 53 Copynumber: 3.6 Consensus size: 53 15190625 ATTTATTTTT * * 15190635 TTGAAAACACGAAAAATTTTT-AAAACAC-GAGAA-TTTTAGAGACAC-GAAAATTC 1 TTGAAAACACG-AAAATTTTTGAAAACACGGA-AATTTTTA-AAACACAG-GAATTC * * * 15190688 TTAAAAATACGAAAATTTTTGAAAACACGGAAATTTTTAAAACACAGGAATTT 1 TTGAAAACACGAAAATTTTTGAAAACACGGAAATTTTTAAAACACAGGAATTC * * 15190741 TTGAAAACATGAAAATTTTTG-AAACACCGG-AATTTTGAAAACACGAGG-ATTC 1 TTGAAAACACGAAAATTTTTGAAAACA-CGGAAATTTTTAAAACAC-AGGAATTC * * 15190793 TTGAAAACACGAAGATTTTTTAAAACACGGAA 1 TTGAAAACACGAAAATTTTTGAAAACACGGAA 15190825 GAAAATACAG Statistics Matches: 116, Mismatches: 13, Indels: 16 0.80 0.09 0.11 Matches are distributed among these distances: 52 51 0.44 53 57 0.49 54 8 0.07 ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27 Consensus pattern (53 bp): TTGAAAACACGAAAATTTTTGAAAACACGGAAATTTTTAAAACACAGGAATTC Found at i:15192169 original size:18 final size:18 Alignment explanation
Indices: 15192128--15192182 Score: 51 Period size: 18 Copynumber: 3.1 Consensus size: 18 15192118 GTCGCCGGCG * * 15192128 TCTCCTCTTCTCTCCTTCT 1 TCTCTTCTTCTCTTCTT-T 15192147 T-TCTTCTTCTCTTCTTT 1 TCTCTTCTTCTCTTCTTT * 15192164 TCTCTT-TTCCTTTTCTTT 1 TCTCTTCTT-CTCTTCTTT 15192182 T 1 T 15192183 TGGTTGCTAT Statistics Matches: 31, Mismatches: 3, Indels: 5 0.79 0.08 0.13 Matches are distributed among these distances: 17 4 0.13 18 26 0.84 19 1 0.03 ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65 Consensus pattern (18 bp): TCTCTTCTTCTCTTCTTT Found at i:15193293 original size:74 final size:74 Alignment explanation
Indices: 15193194--15194064 Score: 731 Period size: 77 Copynumber: 11.6 Consensus size: 74 15193184 GCTAGCCCAT * * * 15193194 AAATTGAAAAATACATC-GACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT 1 AAATTAAAAAATACCTCAG-CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT * 15193258 TGAAAAGCAA 65 TGAAAAACAA * * * 15193268 AAATTAAAAAATACCTCAACATGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT 1 AAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT * 15193333 GAAAAAACAG 66 G-AAAAACAA * * * 15193343 AAATTGAAAAGAATACCTCGGCATGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT 1 AAATT-AAAA-AATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT *** 15193408 TTTT----TTGAA 62 TTTTGAAAAACAA ** ** * * * 15193417 AAA-T---ACCT-CAGCA-TGTGACCCGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTT 1 AAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT * 15193476 GAACAACAGA 66 GAAAAACA-A * * * * * * 15193486 AATTTAAACGAAATACCTCGGCATGACCCGAGACTCAACTCACCTCT-GTATTATGAGTTGATTT 1 AAATTAAA--AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT * 15193550 TTGAAAAACAT 64 TTGAAAAACAA * * * * * * 15193561 AAATTGAAAAGAAATACCTCGGCCTACGACCCGAGGATCAACTCACCCCTCGCAGTATGAATTGA 1 AAATT--AAA-AAATACCTCAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA * 15193626 TTTTTGAAAAATAGA 61 TTTTTGAAAAACA-A * * * ** * 15193641 AATTTAAAAGAAATACCTCGGCATGGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT 1 AAATT-AAA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--- 15193706 TTTTTATGAAAAACAGA 61 -TTTT-TGAAAAACA-A * * 15193723 AATTTAAAAAAAAACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT 1 AAATT-AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT * 15193788 TGAAAAAAAAACAG 65 TG----AAAAACAA * * ** 15193802 AAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTAA 1 AAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT * * 15193866 AAAAAGACAT 66 GAAAA-ACAA * 15193876 AAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCA-CTCT-G-TATATGAGTTGA-TTTT 1 AAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT * 15193936 -AAAAAAAA 66 GAAAAACAA * * * * 15193944 AGACATAAATAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTC-GGTATTATGAGTTGAT 1 A-A-AT-TA-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT * * 15194008 TTTTAAAAAAAAGGCAT 62 TTTT--GAAAAA--CAA 15194025 AAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCAC 1 AAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCAC 15194065 NNNNNNNNNN Statistics Matches: 657, Mismatches: 91, Indels: 96 0.78 0.11 0.11 Matches are distributed among these distances: 64 41 0.06 67 2 0.00 68 5 0.01 69 9 0.01 70 5 0.01 71 10 0.02 72 1 0.00 73 43 0.07 74 111 0.17 75 27 0.04 76 85 0.13 77 122 0.19 78 20 0.03 79 93 0.14 80 12 0.02 81 52 0.08 82 19 0.03 ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26 Consensus pattern (74 bp): AAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT GAAAAACAA Found at i:15193449 original size:64 final size:64 Alignment explanation
Indices: 15193354--15193475 Score: 199 Period size: 64 Copynumber: 1.9 Consensus size: 64 15193344 AATTGAAAAG * 15193354 AATACCTCGGCATGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAA 1 AATACCTCAGCATGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAA * * * * 15193418 AATACCTCAGCATGTGACCCGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTT 1 AATACCTCAGCATGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTT 15193476 GAACAACAGA Statistics Matches: 53, Mismatches: 5, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 64 53 1.00 ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30 Consensus pattern (64 bp): AATACCTCAGCATGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAA Found at i:15193465 original size:143 final size:138 Alignment explanation
Indices: 15193274--15193551 Score: 405 Period size: 143 Copynumber: 2.0 Consensus size: 138 15193264 GCAAAAATTA * 15193274 AAAAATACCTCAACATGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA 1 AAAAATACCTCAACATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA * 15193339 ACAGAAATTGAAAAG-AATACCTCGGCATGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAG 65 ACAGAAATTGAAAAGAAATACCTCGGCAT--GACCCGAGACTCAACTCACCTCT-GCAATATGAG 15193403 TTGATTTTTTTG 127 TTGATTTTTTTG * * * * 15193415 AAAAATACCTCAGCATGTGACCCGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAC 1 AAAAATACCTCAACA--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA * * * * 15193480 AACAGAAATTTAAACGAAATACCTCGGCATGACCCGAGACTCAACTCACCTCTGTATTATGAGTT 64 AACAGAAATTGAAAAGAAATACCTCGGCATGACCCGAGACTCAACTCACCTCTGCAATATGAGTT 15193545 GATTTTT 129 GATTTTT 15193552 GAAAAACATA Statistics Matches: 124, Mismatches: 10, Indels: 7 0.88 0.07 0.05 Matches are distributed among these distances: 140 17 0.14 141 36 0.29 142 16 0.13 143 55 0.44 ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28 Consensus pattern (138 bp): AAAAATACCTCAACATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA CAGAAATTGAAAAGAAATACCTCGGCATGACCCGAGACTCAACTCACCTCTGCAATATGAGTTGA TTTTTTTG Found at i:15195061 original size:1 final size:1 Alignment explanation
Indices: 15195050--15195144 Score: 73 Period size: 1 Copynumber: 95.0 Consensus size: 1 15195040 TTCATCTTGA * * * * * * * * * * 15195050 TTTTTTCTTTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTGTTTTGTCTGTTTTTTGTTTTTTTG 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT * * * 15195115 TTTTTTTTGTTTTTTTTGTTTGTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 15195145 AAGCATAATA Statistics Matches: 68, Mismatches: 26, Indels: 0 0.72 0.28 0.00 Matches are distributed among these distances: 1 68 1.00 ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86 Consensus pattern (1 bp): T Found at i:15195061 original size:8 final size:8 Alignment explanation
Indices: 15195058--15195143 Score: 106 Period size: 8 Copynumber: 10.9 Consensus size: 8 15195048 GATTTTTTCT 15195058 TTTTTTTG 1 TTTTTTTG 15195066 TTTTTTTTG 1 -TTTTTTTG 15195075 TTTTTTTG 1 TTTTTTTG 15195083 TTTTTTTG 1 TTTTTTTG * 15195091 TTTTGTCTG 1 TTTT-TTTG 15195100 -TTTTTTG 1 TTTTTTTG 15195107 TTTTTTTG 1 TTTTTTTG 15195115 TTTTTTT- 1 TTTTTTTG * 15195122 TGTTTTT- 1 TTTTTTTG * 15195129 TTTGTTTG 1 TTTTTTTG 15195137 TTTTTTT 1 TTTTTTT 15195144 TAAGCATAAT Statistics Matches: 68, Mismatches: 6, Indels: 7 0.84 0.07 0.09 Matches are distributed among these distances: 7 14 0.21 8 43 0.63 9 11 0.16 ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86 Consensus pattern (8 bp): TTTTTTTG Found at i:15195064 original size:9 final size:9 Alignment explanation
Indices: 15195050--15195141 Score: 113 Period size: 9 Copynumber: 10.7 Consensus size: 9 15195040 TTCATCTTGA * 15195050 TTTTTTCTT 1 TTTTTTGTT 15195059 TTTTTTGTT 1 TTTTTTGTT 15195068 TTTTTTG-T 1 TTTTTTGTT 15195076 TTTTTTG-T 1 TTTTTTGTT 15195084 TTTTTTGTT 1 TTTTTTGTT * * 15195093 TTGTCTG-- 1 TTTTTTGTT 15195100 TTTTTTG-T 1 TTTTTTGTT 15195108 TTTTTTGTT 1 TTTTTTGTT 15195117 TTTTTTGTT 1 TTTTTTGTT 15195126 TTTTTTGTT 1 TTTTTTGTT 15195135 TGTTTTT 1 T-TTTTT 15195142 TTTAAGCATA Statistics Matches: 74, Mismatches: 5, Indels: 7 0.86 0.06 0.08 Matches are distributed among these distances: 7 5 0.07 8 23 0.31 9 41 0.55 10 5 0.07 ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86 Consensus pattern (9 bp): TTTTTTGTT Found at i:15195137 original size:41 final size:39 Alignment explanation
Indices: 15195052--15195144 Score: 127 Period size: 41 Copynumber: 2.3 Consensus size: 39 15195042 CATCTTGATT * 15195052 TTTTCTTTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTG 1 TTTTGTTTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTG 15195091 TTTTGTCTGTTTTTTG-TTTTTTTGTTTTTTTTGTTTTTTT- 1 TTTTGT-T-TTTTTTGTTTTTTTTG-TTTTTTTGTTTTTTTG 15195131 TGTTTGTTTTTTTT 1 T-TTTGTTTTTTTT 15195145 AAGCATAATA Statistics Matches: 49, Mismatches: 1, Indels: 8 0.84 0.02 0.14 Matches are distributed among these distances: 39 11 0.22 40 11 0.22 41 27 0.55 ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86 Consensus pattern (39 bp): TTTTGTTTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTG Found at i:15206159 original size:18 final size:17 Alignment explanation
Indices: 15206133--15206365 Score: 127 Period size: 18 Copynumber: 13.2 Consensus size: 17 15206123 CGATCAGATC * 15206133 AAAATACGAGAATTTTT 1 AAAACACGAGAATTTTT 15206150 AAAAACACGA-AGATTTTT 1 -AAAACACGAGA-ATTTTT * *** * 15206168 GAAACA-TTTATTTTTTT 1 AAAACACGAGAAT-TTTT * 15206185 GAAAACACGAAAAATTTTT 1 -AAAACACG-AGAATTTTT 15206204 AAAACACGAGAA-TTTT 1 AAAACACGAGAATTTTT * * * 15206220 AGAGACACGAAAATTCTTA 1 A-AAACACGAGAATT-TTT * * * 15206239 AAAATATGAAAATTTTT 1 AAAACACGAGAATTTTT 15206256 GAAAACACG-GAAATTTTT 1 -AAAACACGAG-AATTTTT * 15206274 AAAACACGGGAATTTTT 1 AAAACACGAGAATTTTT * * 15206291 GAAAACATGAAAATTTTT 1 -AAAACACGAGAATTTTT * * 15206309 GAAACACCG-GAATTTTG 1 AAAACA-CGAGAATTTTT * 15206326 AAAACACGAAGATTTTTT 1 AAAACACG-AGAATTTTT 15206344 AAAACACG-GAAATTTTT 1 AAAACACGAG-AATTTTT 15206361 GAAAA 1 -AAAA 15206366 TACAGAAATT Statistics Matches: 165, Mismatches: 32, Indels: 36 0.71 0.14 0.15 Matches are distributed among these distances: 16 9 0.05 17 62 0.38 18 85 0.52 19 7 0.04 20 2 0.01 ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31 Consensus pattern (17 bp): AAAACACGAGAATTTTT Found at i:15206228 original size:35 final size:34 Alignment explanation
Indices: 15206133--15206365 Score: 200 Period size: 35 Copynumber: 6.6 Consensus size: 34 15206123 CGATCAGATC * * * 15206133 AAAATACGAGAATTTTTAAAAACACGAAGATTTTT 1 AAAACACG-GAATTTTTGAAAACACGAAAATTTTT * *** * 15206168 GAAACATTTATTTTTTTGAAAACACGAAAAATTTTT 1 AAAACACGGA-ATTTTTGAAAACACG-AAAATTTTT * * * 15206204 AAAACACGAGAATTTTAG-AGACACGAAAATTCTTA 1 AAAACACG-GAATTTTTGAAAACACGAAAATT-TTT * * * * 15206239 AAAATATGAAAATTTTTGAAAACACGGAAATTTTT 1 AAAACACG-GAATTTTTGAAAACACGAAAATTTTT * 15206274 AAAACACGGGAATTTTTGAAAACATGAAAATTTTT 1 AAAACAC-GGAATTTTTGAAAACACGAAAATTTTT * * 15206309 GAAACACCGGAA-TTTTGAAAACACGAAGATTTTTT 1 AAAACA-CGGAATTTTTGAAAACACGAA-AATTTTT 15206344 AAAACACGGAAATTTTTGAAAA 1 AAAACACGG-AATTTTTGAAAA 15206366 TACAGAAATT Statistics Matches: 156, Mismatches: 32, Indels: 19 0.75 0.15 0.09 Matches are distributed among these distances: 34 24 0.15 35 91 0.58 36 40 0.26 37 1 0.01 ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31 Consensus pattern (34 bp): AAAACACGGAATTTTTGAAAACACGAAAATTTTT Found at i:15206373 original size:18 final size:18 Alignment explanation
Indices: 15206180--15206376 Score: 128 Period size: 18 Copynumber: 11.2 Consensus size: 18 15206170 AACATTTATT * 15206180 TTTTTGAAAACACGAAAAA 1 TTTTTGAAAACAC-AGAAA 15206199 TTTTT-AAAACAC-GAGAA 1 TTTTTGAAAACACAGA-AA * * 15206216 TTTTAG-AGACAC-GAAAA 1 TTTTTGAAAACACAG-AAA * * 15206233 TTCTT-AAAA-ATATGAAAA 1 TTTTTGAAAACACA-G-AAA * 15206251 TTTTTGAAAACACGGAAA 1 TTTTTGAAAACACAGAAA * * 15206269 TTTTT-AAAACACGGGAA 1 TTTTTGAAAACACAGAAA * 15206286 TTTTTGAAAACA-TGAAAA 1 TTTTTGAAAACACAG-AAA * * 15206304 TTTTTG-AAACACCGGAA 1 TTTTTGAAAACACAGAAA 15206321 -TTTTGAAAACAC-GAAGA 1 TTTTTGAAAACACAGAA-A * * 15206338 TTTTTTAAAACACGGAAA 1 TTTTTGAAAACACAGAAA * 15206356 TTTTTGAAAATACAGAAA 1 TTTTTGAAAACACAGAAA 15206374 TTT 1 TTT 15206377 GAAATACAGA Statistics Matches: 143, Mismatches: 20, Indels: 31 0.74 0.10 0.16 Matches are distributed among these distances: 16 9 0.06 17 50 0.35 18 70 0.49 19 13 0.09 20 1 0.01 ACGTcount: A:0.46, C:0.10, G:0.13, T:0.30 Consensus pattern (18 bp): TTTTTGAAAACACAGAAA Found at i:15206378 original size:52 final size:51 Alignment explanation
Indices: 15206180--15206434 Score: 167 Period size: 53 Copynumber: 4.7 Consensus size: 51 15206170 AACATTTATT * * * 15206180 TTTTTGAAAACACGAAAAATTTTT-AAAACAC-GAGAATTTTAGAGACACGAAAA 1 TTTTTGAAAACACG-AAAATTTTTGAAAA-ACGGA-AATTTGA-AAACACGAGAA * * * * * * 15206233 TTCTTAAAAATATGAAAATTTTTGAAAACACGGAAATTTTTAAAACACGGGAA 1 TTTTTGAAAACACGAAAATTTTTGAAAA-ACGGAAA-TTTGAAAACACGAGAA * * * 15206286 TTTTTGAAAACATGAAAATTTTTGAAACACCGGAATTTTGAAAACACGA-AGA 1 TTTTTGAAAACACGAAAATTTTTGAAA-AACGGAAATTTGAAAACACGAGA-A * * * * 15206338 TTTTTTAAAACACGGAAATTTTTGAAAATACAGAAATTTGAAATACA-GAAATTA 1 TTTTTGAAAACACGAAAATTTTTGAAAA-ACGGAAATTTGAAA-ACACGAGA--A * * 15206392 TTTTTAAAAAACAAGAATATATTTTTTGAAAAACGGTAAATTT 1 TTTTT-GAAAACACGAA-A-A-TTTTTGAAAAACGG-AAATTT 15206435 CATTATTATT Statistics Matches: 163, Mismatches: 25, Indels: 23 0.77 0.12 0.11 Matches are distributed among these distances: 51 2 0.01 52 58 0.36 53 60 0.37 54 14 0.09 55 8 0.05 56 1 0.01 57 4 0.02 58 16 0.10 ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31 Consensus pattern (51 bp): TTTTTGAAAACACGAAAATTTTTGAAAAACGGAAATTTGAAAACACGAGAA Found at i:15206383 original size:15 final size:16 Alignment explanation
Indices: 15206358--15206390 Score: 59 Period size: 15 Copynumber: 2.1 Consensus size: 16 15206348 CACGGAAATT 15206358 TTTGAAAATACAGAAA 1 TTTGAAAATACAGAAA 15206374 TTTG-AAATACAGAAA 1 TTTGAAAATACAGAAA 15206389 TT 1 TT 15206391 ATTTTTAAAA Statistics Matches: 17, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 15 13 0.76 16 4 0.24 ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30 Consensus pattern (16 bp): TTTGAAAATACAGAAA Found at i:15206394 original size:18 final size:19 Alignment explanation
Indices: 15206322--15206394 Score: 52 Period size: 18 Copynumber: 4.2 Consensus size: 19 15206312 ACACCGGAAT * 15206322 TTTGAAAACAC-GAAGATT- 1 TTTGAAAATACAGAA-ATTA * * * 15206340 TTTTAAAACACGGAAATT- 1 TTTGAAAATACAGAAATTA 15206358 TTTGAAAATACAG-AA--A 1 TTTGAAAATACAGAAATTA 15206374 TTTG-AAATACAGAAATTA 1 TTTGAAAATACAGAAATTA 15206392 TTT 1 TTT 15206395 TTAAAAAACA Statistics Matches: 46, Mismatches: 4, Indels: 10 0.77 0.07 0.17 Matches are distributed among these distances: 15 8 0.17 16 6 0.13 17 2 0.04 18 27 0.59 19 3 0.07 ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33 Consensus pattern (19 bp): TTTGAAAATACAGAAATTA Found at i:15206994 original size:15 final size:15 Alignment explanation
Indices: 15206959--15206994 Score: 54 Period size: 15 Copynumber: 2.4 Consensus size: 15 15206949 GCAATTCGGG 15206959 CCTTTTTTGTTTTTT 1 CCTTTTTTGTTTTTT ** 15206974 GTTTTTTTGTTTTTT 1 CCTTTTTTGTTTTTT 15206989 CCTTTT 1 CCTTTT 15206995 CTCCTCTTTT Statistics Matches: 17, Mismatches: 4, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 15 17 1.00 ACGTcount: A:0.00, C:0.11, G:0.08, T:0.81 Consensus pattern (15 bp): CCTTTTTTGTTTTTT Found at i:15207294 original size:9 final size:9 Alignment explanation
Indices: 15207280--15207338 Score: 52 Period size: 9 Copynumber: 6.8 Consensus size: 9 15207270 CTGTAATGTA 15207280 TTTCTTTTT 1 TTTCTTTTT 15207289 TTTC-TTTT 1 TTTCTTTTT * 15207297 TTTC-TTTC 1 TTTCTTTTT * 15207305 TCTCTTTTT 1 TTTCTTTTT * 15207314 TCTT-TCTTT 1 T-TTCTTTTT * 15207323 TTTCTCTTT 1 TTTCTTTTT 15207332 TTTCTTT 1 TTTCTTT 15207339 CTTTCTTTCT Statistics Matches: 41, Mismatches: 6, Indels: 6 0.77 0.11 0.11 Matches are distributed among these distances: 8 16 0.39 9 24 0.59 10 1 0.02 ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81 Consensus pattern (9 bp): TTTCTTTTT Found at i:15207304 original size:4 final size:4 Alignment explanation
Indices: 15207289--15207349 Score: 72 Period size: 4 Copynumber: 15.5 Consensus size: 4 15207279 ATTTCTTTTT * * * 15207289 TTTC TTTT TTTC TTTC TCTC TTT- TTTC TTTC TTT- TTTC TCTTT TTTC 1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC 15207336 TTTC TTTC TTTC TT 1 TTTC TTTC TTTC TT 15207350 CTTCCTTCCC Statistics Matches: 48, Mismatches: 6, Indels: 6 0.80 0.10 0.10 Matches are distributed among these distances: 3 6 0.12 4 39 0.81 5 3 0.06 ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79 Consensus pattern (4 bp): TTTC Found at i:15207333 original size:35 final size:36 Alignment explanation
Indices: 15207280--15207352 Score: 112 Period size: 35 Copynumber: 2.1 Consensus size: 36 15207270 CTGTAATGTA * * 15207280 TTTCTTTTTTTTCTTTTTTTCTTTCTCTCTTTTTTC 1 TTTCTTTTTTCTCTTTTTTTCTTTCTCTCTTTCTTC * 15207316 TTTCTTTTTTCTC-TTTTTTCTTTCTTTCTTTCTTC 1 TTTCTTTTTTCTCTTTTTTTCTTTCTCTCTTTCTTC 15207351 TT 1 TT 15207353 CCTTCCCTTC Statistics Matches: 34, Mismatches: 3, Indels: 1 0.89 0.08 0.03 Matches are distributed among these distances: 35 22 0.65 36 12 0.35 ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79 Consensus pattern (36 bp): TTTCTTTTTTCTCTTTTTTTCTTTCTCTCTTTCTTC Found at i:15207651 original size:23 final size:23 Alignment explanation
Indices: 15207607--15207651 Score: 56 Period size: 23 Copynumber: 2.0 Consensus size: 23 15207597 GCCCTTTGGC * * 15207607 TTGCTGCTTTTTGTTTGATTTTT 1 TTGCTGCTTTTTCTTAGATTTTT 15207630 TTGCTGCTGTTTTCTTAG-TTTT 1 TTGCTGCT-TTTTCTTAGATTTT 15207652 CTTTCTTTCT Statistics Matches: 19, Mismatches: 2, Indels: 2 0.83 0.09 0.09 Matches are distributed among these distances: 23 12 0.63 24 7 0.37 ACGTcount: A:0.04, C:0.11, G:0.18, T:0.67 Consensus pattern (23 bp): TTGCTGCTTTTTCTTAGATTTTT Found at i:15207964 original size:30 final size:29 Alignment explanation
Indices: 15207911--15208066 Score: 131 Period size: 30 Copynumber: 5.2 Consensus size: 29 15207901 AAATATGGGC * * * 15207911 CAAAATGTAATTTCTTGAGAGTTTAGGGGT 1 CAAAATGAAATTT-TAGAAAGTTTAGGGGT * * * 15207941 CAAAGTGCAATTTTGAGAAAGTTTAAGGGT 1 CAAAATGAAATTTT-AGAAAGTTTAGGGGT * 15207971 CGAAAT-ATAATTTTAGAAAGTTTTA-GGGT 1 CAAAATGA-AATTTTAGAAAG-TTTAGGGGT 15208000 CAAAATGTAAATTTTAGAAAAGTTT-GGGGT 1 CAAAATG-AAATTTTAG-AAAGTTTAGGGGT * 15208030 CAAAATGTAAATTTT-GAAAAGTATAGGGGT 1 CAAAATG-AAATTTTAG-AAAGTTTAGGGGT * 15208060 TAAAATG 1 CAAAATG 15208067 CAAAAAATAA Statistics Matches: 107, Mismatches: 11, Indels: 16 0.80 0.08 0.12 Matches are distributed among these distances: 29 24 0.22 30 78 0.73 31 5 0.05 ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33 Consensus pattern (29 bp): CAAAATGAAATTTTAGAAAGTTTAGGGGT Found at i:15213631 original size:38 final size:38 Alignment explanation
Indices: 15213580--15213692 Score: 127 Period size: 38 Copynumber: 3.0 Consensus size: 38 15213570 GTTATATCGT * * * 15213580 TATTCAAGTTTTGTGCATAGCAGGCTTAGTGCTGGTGA 1 TATTCAGGATTTGTGCCTAGCAGGCTTAGTGCTGGTGA * ** * 15213618 TATTCAGGATTTGTGCCTAGCATGCTTAGTGCCAGTGT 1 TATTCAGGATTTGTGCCTAGCAGGCTTAGTGCTGGTGA * * * * 15213656 TATTCAGGCTTAGTGCCTAGCAGGTTTATTGCTGGTG 1 TATTCAGGATTTGTGCCTAGCAGGCTTAGTGCTGGTG 15213693 TAATTAAAGT Statistics Matches: 61, Mismatches: 14, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 38 61 1.00 ACGTcount: A:0.19, C:0.16, G:0.28, T:0.37 Consensus pattern (38 bp): TATTCAGGATTTGTGCCTAGCAGGCTTAGTGCTGGTGA Found at i:15217700 original size:11 final size:11 Alignment explanation
Indices: 15217684--15217717 Score: 61 Period size: 11 Copynumber: 3.2 Consensus size: 11 15217674 AAGGTTTTTG 15217684 AATTATTAATT 1 AATTATTAATT 15217695 AATTATTAATT 1 AATTATTAATT 15217706 AATTA-TAATT 1 AATTATTAATT 15217716 AA 1 AA 15217718 ATAATTGAAG Statistics Matches: 23, Mismatches: 0, Indels: 1 0.96 0.00 0.04 Matches are distributed among these distances: 10 7 0.30 11 16 0.70 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (11 bp): AATTATTAATT Found at i:15219881 original size:41 final size:41 Alignment explanation
Indices: 15219769--15219888 Score: 141 Period size: 41 Copynumber: 2.9 Consensus size: 41 15219759 TGATAATCGA * * * * * 15219769 GCTTTGTGCCTAGTAGGCTTTATGCCGGTGAATTATATCAG 1 GCTTTATGCCTAGCAGGCTTAATGCCGGTGTATCATATCAG ** * * 15219810 ATTTTACGCCTAGCAGGCTTAATGCCGGTGTACCATATCAG 1 GCTTTATGCCTAGCAGGCTTAATGCCGGTGTATCATATCAG ** 15219851 GCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCATAT 1 GCTTTATGCCTAGCAGGCTTAATGCCGGTGTATCATAT 15219889 TAAGATTTGT Statistics Matches: 64, Mismatches: 15, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 41 64 1.00 ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33 Consensus pattern (41 bp): GCTTTATGCCTAGCAGGCTTAATGCCGGTGTATCATATCAG Found at i:15231951 original size:6 final size:6 Alignment explanation
Indices: 15231918--15231942 Score: 50 Period size: 6 Copynumber: 4.2 Consensus size: 6 15231908 AATAAATATA 15231918 TATTTT TATTTT TATTTT TATTTT T 1 TATTTT TATTTT TATTTT TATTTT T 15231943 TAATTTTAAA Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 19 1.00 ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84 Consensus pattern (6 bp): TATTTT Found at i:15233787 original size:15 final size:16 Alignment explanation
Indices: 15233730--15233785 Score: 55 Period size: 17 Copynumber: 3.6 Consensus size: 16 15233720 ATTTTAATAG 15233730 TTTAATATTAATATTAA 1 TTTAATATT-ATATTAA * 15233747 TTTAATACTTATCTTAA 1 TTTAATA-TTATATTAA * 15233764 --TAGTATT-TATTAA 1 TTTAATATTATATTAA 15233777 TTTAATATT 1 TTTAATATT 15233786 TAAGTGATTA Statistics Matches: 32, Mismatches: 4, Indels: 8 0.73 0.09 0.18 Matches are distributed among these distances: 13 5 0.16 14 2 0.06 15 10 0.31 17 13 0.41 18 2 0.06 ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55 Consensus pattern (16 bp): TTTAATATTATATTAA Found at i:15233788 original size:25 final size:24 Alignment explanation
Indices: 15233714--15233788 Score: 60 Period size: 25 Copynumber: 2.8 Consensus size: 24 15233704 TTCCAAAAAA * * 15233714 AATATTATTTTAATAGTTTAATATT 1 AATATTAATTTAATA-TTTAATAGT 15233739 AATATTAATTTAATACTTATCTTAATAGT 1 AATATTAATTT-A-A--TAT-TTAATAGT * 15233768 ATTTATTAATTTAATATTTAA 1 A-ATATTAATTTAATATTTAA 15233789 GTGATTATCT Statistics Matches: 41, Mismatches: 3, Indels: 12 0.73 0.05 0.21 Matches are distributed among these distances: 25 14 0.34 26 4 0.10 27 1 0.02 28 2 0.05 29 11 0.27 30 9 0.22 ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53 Consensus pattern (24 bp): AATATTAATTTAATATTTAATAGT Found at i:15233807 original size:67 final size:64 Alignment explanation
Indices: 15233730--15233926 Score: 168 Period size: 67 Copynumber: 3.0 Consensus size: 64 15233720 ATTTTAATAG * 15233730 TTTAATATTAATATTAATTTAATACTTATCTTAATAGTATTTATTAATTTAATATTTAAGTGATT 1 TTTAATATTAA-ATTAATTTAATATTTATCTT-ATAGTATTTATTAATTTAATATTTAAGTGATT 15233795 A 64 A * * * * * ** * * 15233796 TCTTAATATTAAAATAAATTTAATGTTTATATTGTAG-A-TAAACAATTTATTATTTTAA-T-AA 1 T-TTAATATT-AAATTAATTTAATATTTATCTTATAGTATTTATTAATTTAATA-TTTAAGTGAT 15233857 TA 63 TA * * * 15233859 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGA 1 TTTAATATTAAA-TTAATTTAATATTTATCTT-AT-AGTATT-TATTAATTTAATATTTAAGTGA 15233924 TTA 62 TTA 15233927 GGTTTAATCA Statistics Matches: 98, Mismatches: 22, Indels: 20 0.70 0.16 0.14 Matches are distributed among these distances: 61 3 0.03 62 23 0.23 63 5 0.05 64 12 0.12 65 7 0.07 66 9 0.09 67 34 0.35 68 5 0.05 ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50 Consensus pattern (64 bp): TTTAATATTAAATTAATTTAATATTTATCTTATAGTATTTATTAATTTAATATTTAAGTGATTA Found at i:15234053 original size:25 final size:24 Alignment explanation
Indices: 15234024--15234072 Score: 64 Period size: 25 Copynumber: 2.0 Consensus size: 24 15234014 AGTTGCAAAG 15234024 AGAAAA-TTCTTAAAGAGATTATTTC 1 AGAAAATTTC-TAAAGAGATT-TTTC * 15234049 AGAAAATTTCTAAAGATATTTTTC 1 AGAAAATTTCTAAAGAGATTTTTC 15234073 TGATTTACAA Statistics Matches: 22, Mismatches: 1, Indels: 3 0.85 0.04 0.12 Matches are distributed among these distances: 24 4 0.18 25 15 0.68 26 3 0.14 ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39 Consensus pattern (24 bp): AGAAAATTTCTAAAGAGATTTTTC Found at i:15237079 original size:5 final size:5 Alignment explanation
Indices: 15237058--15237113 Score: 58 Period size: 5 Copynumber: 10.4 Consensus size: 5 15237048 TTTTTTGAAG * * 15237058 TATAT TATTAT TTTAT TATATT GTAAAT TATAT TATAT TATAT TATTAT 1 TATAT TA-TAT TATAT TATA-T -TATAT TATAT TATAT TATAT TA-TAT 15237107 TATAT TA 1 TATAT TA 15237114 GGTAAAATAA Statistics Matches: 43, Mismatches: 4, Indels: 8 0.78 0.07 0.15 Matches are distributed among these distances: 5 29 0.67 6 11 0.26 7 3 0.07 ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61 Consensus pattern (5 bp): TATAT Found at i:15237347 original size:13 final size:13 Alignment explanation
Indices: 15237316--15237356 Score: 57 Period size: 13 Copynumber: 3.2 Consensus size: 13 15237306 GACGAAACAG * 15237316 AGAAGGAAAG-AA 1 AGAAAGAAAGAAA * 15237328 GGAAAGAAAGAAA 1 AGAAAGAAAGAAA 15237341 AGAAAGAAAGAAA 1 AGAAAGAAAGAAA 15237354 AGA 1 AGA 15237357 GAAAATTGAG Statistics Matches: 25, Mismatches: 3, Indels: 1 0.86 0.10 0.03 Matches are distributed among these distances: 12 8 0.32 13 17 0.68 ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00 Consensus pattern (13 bp): AGAAAGAAAGAAA Found at i:15238692 original size:37 final size:37 Alignment explanation
Indices: 15238591--15238692 Score: 91 Period size: 37 Copynumber: 2.6 Consensus size: 37 15238581 CGACCTTGAG 15238591 TCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGAT 1 TCGATGAGACACTGGGTGTCA-AC--TTACTTCGGATA-AT ** ** * 15238632 TCGATGAGGTACTGGGTACCAACTTACTTCGG-T-TT 1 TCGATGAGACACTGGGTGTCAACTTACTTCGGATAAT 15238667 TGCCGATGAGACACTGGGTGTCAACT 1 T--CGATGAGACACTGGGTGTCAACT 15238693 ATTGCTTCGA Statistics Matches: 50, Mismatches: 9, Indels: 8 0.75 0.13 0.12 Matches are distributed among these distances: 35 2 0.04 37 20 0.40 38 9 0.18 40 2 0.04 41 17 0.34 ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30 Consensus pattern (37 bp): TCGATGAGACACTGGGTGTCAACTTACTTCGGATAAT Found at i:15245652 original size:45 final size:46 Alignment explanation
Indices: 15245557--15245654 Score: 171 Period size: 46 Copynumber: 2.2 Consensus size: 46 15245547 TGTGTATATC * * 15245557 TATTTTCTTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAA 1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA 15245603 TATTTTGTTTTAATTAGGAGATTAGATGCT-AAGTTTAAGAGATAA 1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA 15245648 TATTTTG 1 TATTTTG 15245655 GTTTCTATCT Statistics Matches: 50, Mismatches: 2, Indels: 1 0.94 0.04 0.02 Matches are distributed among these distances: 45 21 0.42 46 29 0.58 ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44 Consensus pattern (46 bp): TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA Found at i:15250242 original size:45 final size:46 Alignment explanation
Indices: 15250147--15250244 Score: 171 Period size: 46 Copynumber: 2.2 Consensus size: 46 15250137 TGTGTATATC * * 15250147 TATTTTCTTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAA 1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA 15250193 TATTTTGTTTTAATTAGGAGATTAGATGCT-AAGTTTAAGAGATAA 1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA 15250238 TATTTTG 1 TATTTTG 15250245 GTTTCTATCT Statistics Matches: 50, Mismatches: 2, Indels: 1 0.94 0.04 0.02 Matches are distributed among these distances: 45 21 0.42 46 29 0.58 ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44 Consensus pattern (46 bp): TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA Found at i:15258191 original size:20 final size:20 Alignment explanation
Indices: 15258166--15258205 Score: 62 Period size: 20 Copynumber: 2.0 Consensus size: 20 15258156 CGTAAAATGA * 15258166 TTTCTGGAAAATGTTTTACT 1 TTTCTGGAAAATGATTTACT * 15258186 TTTCTGTAAAATGATTTACT 1 TTTCTGGAAAATGATTTACT 15258206 GAAAAATATT Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 20 18 1.00 ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50 Consensus pattern (20 bp): TTTCTGGAAAATGATTTACT Found at i:15258195 original size:34 final size:35 Alignment explanation
Indices: 15258151--15258217 Score: 100 Period size: 34 Copynumber: 1.9 Consensus size: 35 15258141 CAATAAAATA * * 15258151 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC 1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC * 15258185 TTTTCTGTAAAATGATTTACTGAAAAATATTTT 1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT 15258218 CTGGTGTTTG Statistics Matches: 29, Mismatches: 3, Indels: 1 0.88 0.09 0.03 Matches are distributed among these distances: 34 17 0.59 35 12 0.41 ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46 Consensus pattern (35 bp): TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC Found at i:15260000 original size:14 final size:14 Alignment explanation
Indices: 15259981--15260010 Score: 51 Period size: 14 Copynumber: 2.1 Consensus size: 14 15259971 AGGTGAACTA 15259981 GCAGAGAAGATGAG 1 GCAGAGAAGATGAG * 15259995 GCAGAGATGATGAG 1 GCAGAGAAGATGAG 15260009 GC 1 GC 15260011 TGCAATCGTT Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 14 15 1.00 ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10 Consensus pattern (14 bp): GCAGAGAAGATGAG Found at i:15260058 original size:33 final size:33 Alignment explanation
Indices: 15260021--15260087 Score: 116 Period size: 33 Copynumber: 2.0 Consensus size: 33 15260011 TGCAATCGTT 15260021 AGGGTGAAGAGAGTGAAAAGAGGAGCTGTGGAA 1 AGGGTGAAGAGAGTGAAAAGAGGAGCTGTGGAA * * 15260054 AGGGTGAAGAGAGTGAAGAGATGAGCTGTGGAA 1 AGGGTGAAGAGAGTGAAAAGAGGAGCTGTGGAA 15260087 A 1 A 15260088 ATGTCTTACC Statistics Matches: 32, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 33 32 1.00 ACGTcount: A:0.39, C:0.03, G:0.45, T:0.13 Consensus pattern (33 bp): AGGGTGAAGAGAGTGAAAAGAGGAGCTGTGGAA Found at i:15262776 original size:30 final size:30 Alignment explanation
Indices: 15262710--15262777 Score: 75 Period size: 30 Copynumber: 2.3 Consensus size: 30 15262700 GACGACGACG 15262710 CAGGCCCATCAACGAGGCCCAGAAATTCAC 1 CAGGCCCATCAACGAGGCCCAGAAATTCAC * * * * * 15262740 CCGGCCCATCATC-AGTGCCCATAACTTCAT 1 CAGGCCCATCAACGAG-GCCCAGAAATTCAC 15262770 CAGGCCCA 1 CAGGCCCA 15262778 GCAATAGCAC Statistics Matches: 31, Mismatches: 6, Indels: 2 0.79 0.15 0.05 Matches are distributed among these distances: 29 2 0.06 30 29 0.94 ACGTcount: A:0.28, C:0.40, G:0.18, T:0.15 Consensus pattern (30 bp): CAGGCCCATCAACGAGGCCCAGAAATTCAC Found at i:15262884 original size:18 final size:18 Alignment explanation
Indices: 15262861--15262903 Score: 59 Period size: 18 Copynumber: 2.4 Consensus size: 18 15262851 TGCCAGGTGC * * 15262861 GTATCCTAGCCCTTTTAT 1 GTATCCTAACCCTTATAT 15262879 GTATCCTAACCCTTATAT 1 GTATCCTAACCCTTATAT * 15262897 GTTTCCT 1 GTATCCT 15262904 TTTCCTAGTC Statistics Matches: 22, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 18 22 1.00 ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44 Consensus pattern (18 bp): GTATCCTAACCCTTATAT Found at i:15263340 original size:49 final size:49 Alignment explanation
Indices: 15263285--15263454 Score: 295 Period size: 49 Copynumber: 3.5 Consensus size: 49 15263275 GTTTATATTA * * 15263285 ATGTAATAAAGTACAAAATAGTTTATTTTGAATATTTTGATATTATTTG 1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC * * 15263334 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATAATTTT 1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC 15263383 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC 1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC * 15263432 ATTTAATAAAATACAAAATAGTT 1 ATGTAATAAAATACAAAATAGTT 15263455 AATATTCTTA Statistics Matches: 115, Mismatches: 6, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 49 115 1.00 ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45 Consensus pattern (49 bp): ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC Found at i:15266775 original size:125 final size:125 Alignment explanation
Indices: 15266553--15266965 Score: 673 Period size: 125 Copynumber: 3.3 Consensus size: 125 15266543 CCCAAACATG * 15266553 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTTTTCTGATAAAGCATCCTGC 1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC * 15266618 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC 66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC * * 15266678 CTACTGTAGCAAAAGTGCGTCCACATGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC 1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC * * 15266743 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGAAT 66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC * * * * 15266803 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGTGATTTCAGAAATTCTTCTGATAAAACATCTTGC 1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC * * * 15266868 TTGAAACTTTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTTCAGGAC 66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC * * * * 15266928 CTACTGTATCAAAAACGCGTCAACGTAGGAGCGATTTC 1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC 15266966 CTTAATAAAT Statistics Matches: 266, Mismatches: 22, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 125 266 1.00 ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33 Consensus pattern (125 bp): CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC Found at i:15267154 original size:6 final size:6 Alignment explanation
Indices: 15267143--15267174 Score: 64 Period size: 6 Copynumber: 5.3 Consensus size: 6 15267133 AAAAACCTTA 15267143 AACCCT AACCCT AACCCT AACCCT AACCCT AA 1 AACCCT AACCCT AACCCT AACCCT AACCCT AA 15267175 AAACCCAAAA Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 26 1.00 ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16 Consensus pattern (6 bp): AACCCT Found at i:15268621 original size:19 final size:18 Alignment explanation
Indices: 15268592--15268627 Score: 63 Period size: 19 Copynumber: 1.9 Consensus size: 18 15268582 AGTCAAAATG 15268592 CAAAAATGGTATCGATAT 1 CAAAAATGGTATCGATAT 15268610 CAAAAGATGGTATCGATA 1 CAAAA-ATGGTATCGATA 15268628 AAAATACAAT Statistics Matches: 17, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 18 5 0.29 19 12 0.71 ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25 Consensus pattern (18 bp): CAAAAATGGTATCGATAT Found at i:15272159 original size:41 final size:40 Alignment explanation
Indices: 15272112--15272219 Score: 117 Period size: 41 Copynumber: 2.6 Consensus size: 40 15272102 ACCGGCACGT * * * 15272112 AGCCTGCTAGGCTTGAAGCCTGATTCAGTACACCGGCATTA 1 AGCCTGCTAGGCATAAAGCCTGATT-AGTACACCAGCATTA * * * * * * 15272153 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTA 1 AGCCTGCTAGGCATAAAGCCTG-ATTAGTACACCAGCATTA 15272194 AGCCTGCTAGGCATAAAGCCTGATTA 1 AGCCTGCTAGGCATAAAGCCTGATTA 15272220 TCTCAGATAC Statistics Matches: 54, Mismatches: 12, Indels: 3 0.78 0.17 0.04 Matches are distributed among these distances: 40 3 0.06 41 49 0.91 42 2 0.04 ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25 Consensus pattern (40 bp): AGCCTGCTAGGCATAAAGCCTGATTAGTACACCAGCATTA Found at i:15272350 original size:2 final size:2 Alignment explanation
Indices: 15272345--15272379 Score: 70 Period size: 2 Copynumber: 17.5 Consensus size: 2 15272335 TTCAAACCAC 15272345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 15272380 ATTCACAACA Statistics Matches: 33, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 33 1.00 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (2 bp): AT Found at i:15272451 original size:67 final size:66 Alignment explanation
Indices: 15272368--15272578 Score: 291 Period size: 67 Copynumber: 3.2 Consensus size: 66 15272358 TATATATATA * * * 15272368 TATATATATATAATTCACAACATTAAATTCAGCTCACAGAGATTGAAACATATATTCGAACCACA 1 TATATATATATAATTCATAACATTAAATTCAGCTCA-AGAAATTGAAACATACATTCGAACCACA 15272433 TG 65 TG * * * * * * * 15272435 TATGTATATATAATTCATAACATTAAGTTCAGCTAAAAAAATTTGTAACATACATTCCAACCTCA 1 TATATATATATAATTCATAACATTAAATTCAGCTCAAGAAA-TTGAAACATACATTCGAACCACA 15272500 -- 65 TG 15272500 TATATATATATAATTCATAACATTAAATTCAGCTCAAGGAAATTGAAACATACATTCGAACCACA 1 TATATATATATAATTCATAACATTAAATTCAGCTCAA-GAAATTGAAACATACATTCGAACCACA 15272565 TG 65 TG 15272567 TATATATATATA 1 TATATATATATA 15272579 TATTATACTA Statistics Matches: 123, Mismatches: 17, Indels: 8 0.83 0.11 0.05 Matches are distributed among these distances: 65 54 0.44 66 6 0.05 67 63 0.51 ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32 Consensus pattern (66 bp): TATATATATATAATTCATAACATTAAATTCAGCTCAAGAAATTGAAACATACATTCGAACCACAT G Found at i:15272531 original size:65 final size:65 Alignment explanation
Indices: 15272367--15272576 Score: 278 Period size: 65 Copynumber: 3.2 Consensus size: 65 15272357 ATATATATAT * * * * 15272367 ATATATATATATAATTCACAACATTAAATTCAGCTCACAGAGATTGAAACATATATTCGAACCAC 1 ATATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCAC * * * * * 15272432 ATGTATGTATATATAATTCATAACATTAAGTTCAGCT-AAAAAAATTTGTAACATACATTCCAAC 1 A--TATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAA-TTGAAACATACATTCGAAC * 15272496 CTC 63 CAC * 15272499 ATATATATATATAATTCATAACATTAAATTCAGCTCAAGGAAATTGAAACATACATTCGAACCAC 1 ATATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCAC * 15272564 ATGTATATATATA 1 ATATATATATATA 15272577 TATATTATAC Statistics Matches: 123, Mismatches: 18, Indels: 8 0.83 0.12 0.05 Matches are distributed among these distances: 65 64 0.52 66 9 0.07 67 50 0.41 ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32 Consensus pattern (65 bp): ATATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCAC Found at i:15274257 original size:126 final size:126 Alignment explanation
Indices: 15274029--15274280 Score: 441 Period size: 126 Copynumber: 2.0 Consensus size: 126 15274019 AAACAACGTG * * * 15274029 TAGGCAAAGGTTTTAAAAAAAAATTTCAAAATTTTGACTAAGTTTAGGTAACCTCCTACAAGAAA 1 TAGGCAAAGGGTTTAAAAAAAAATTTCAAAATTTTAACTAAGTTTAGGCAACCTCCTACAAGAAA * 15274094 ATACAATATATAGGTTCCAAATAAACCTAAAAACATAATTTTCAACCAATAATTTGATAAA 66 ATACAATATATAGGTTCCAAATAAACCTAAAAACATAATTTTAAACCAATAATTTGATAAA * * 15274155 TAGGCAAAGGGTTTAAAGAAAATTTTCAAAATTTTAACTAAGTTTAGGCAACCTCCTACAAGAAA 1 TAGGCAAAGGGTTTAAAAAAAAATTTCAAAATTTTAACTAAGTTTAGGCAACCTCCTACAAGAAA * 15274220 ATACAATATATAGGTTCCAAATAAACCTAAAACCATAATTTTAAACCAATAATTTGATAAA 66 ATACAATATATAGGTTCCAAATAAACCTAAAAACATAATTTTAAACCAATAATTTGATAAA 15274281 AATTCAATAA Statistics Matches: 119, Mismatches: 7, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 126 119 1.00 ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29 Consensus pattern (126 bp): TAGGCAAAGGGTTTAAAAAAAAATTTCAAAATTTTAACTAAGTTTAGGCAACCTCCTACAAGAAA ATACAATATATAGGTTCCAAATAAACCTAAAAACATAATTTTAAACCAATAATTTGATAAA Found at i:15276357 original size:23 final size:23 Alignment explanation
Indices: 15276313--15276357 Score: 54 Period size: 23 Copynumber: 2.0 Consensus size: 23 15276303 TCTTATTTTG * * 15276313 TTGATTTGTGTATAATTTATTTA 1 TTGATTTGTATATAATTGATTTA ** 15276336 TTGATTTGTATATTGTTGATTT 1 TTGATTTGTATATAATTGATTT 15276358 CAAATCTCTT Statistics Matches: 18, Mismatches: 4, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 23 18 1.00 ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62 Consensus pattern (23 bp): TTGATTTGTATATAATTGATTTA Found at i:15276827 original size:23 final size:22 Alignment explanation
Indices: 15276798--15276841 Score: 70 Period size: 23 Copynumber: 2.0 Consensus size: 22 15276788 ATAATTCACA * 15276798 TACATATATATTTTTCTTATATG 1 TACATATATATATTT-TTATATG 15276821 TACATATATATATTTTTATAT 1 TACATATATATATTTTTATAT 15276842 TTTATATTTT Statistics Matches: 20, Mismatches: 1, Indels: 1 0.91 0.05 0.05 Matches are distributed among these distances: 22 6 0.30 23 14 0.70 ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57 Consensus pattern (22 bp): TACATATATATATTTTTATATG Found at i:15280920 original size:57 final size:57 Alignment explanation
Indices: 15280809--15280947 Score: 165 Period size: 57 Copynumber: 2.4 Consensus size: 57 15280799 TTTAATTCAT * * * * 15280809 ATAATAATTATATTAAGAATGTTATTAAATTATATTTTATTTTATTAAATTATATTTA 1 ATAATAATTATATTAA-AATATGATTAAATTATATTTTATTTTAATAAAATATATTTA * 15280867 ATAATAATTATGTTAAAATATGATTAAATTAT-TTATT-TTTTAAATAAAATATATTTA 1 ATAATAATTATATTAAAATATGATTAAATTATATT-TTATTTT-AATAAAATATATTTA * * * 15280924 ACAATAATTTTATTAAAATTTGAT 1 ATAATAATTATATTAAAATATGAT 15280948 AACAAACAAT Statistics Matches: 70, Mismatches: 9, Indels: 5 0.83 0.11 0.06 Matches are distributed among these distances: 56 6 0.09 57 49 0.70 58 15 0.21 ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50 Consensus pattern (57 bp): ATAATAATTATATTAAAATATGATTAAATTATATTTTATTTTAATAAAATATATTTA Found at i:15280941 original size:26 final size:26 Alignment explanation
Indices: 15280847--15280942 Score: 75 Period size: 26 Copynumber: 3.5 Consensus size: 26 15280837 ATTATATTTT * 15280847 ATTTTATTAAATTATATTTAATAATA 1 ATTTTATTAAAATATATTTAATAATA * * * * 15280873 ATTATGTTAAAATATGATTAAATTATTTA 1 ATTTTATTAAAATAT-ATTTAA-TA-ATA * * * 15280902 TTTTTTAAATAAAATATATTTAACAATA 1 -ATTTT-ATTAAAATATATTTAATAATA 15280930 ATTTTATTAAAAT 1 ATTTTATTAAAAT 15280943 TTGATAACAA Statistics Matches: 51, Mismatches: 14, Indels: 10 0.68 0.19 0.13 Matches are distributed among these distances: 26 19 0.37 27 9 0.18 28 4 0.08 29 3 0.06 30 8 0.16 31 8 0.16 ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50 Consensus pattern (26 bp): ATTTTATTAAAATATATTTAATAATA Found at i:15281104 original size:44 final size:45 Alignment explanation
Indices: 15281035--15281123 Score: 103 Period size: 44 Copynumber: 2.0 Consensus size: 45 15281025 TATAACATCT * * 15281035 ATTCCATTCATCTAAACACAAGAATT-TTATTACAGCTCTATTCC 1 ATTCCATTCAACTAAACACAAGAATTATGATTACAGCTCTATTCC * 15281079 ATTCCATTCAAC-AAA-ACAATTGAATTACTGATTATAGCTCTATTC 1 ATTCCATTCAACTAAACACAA--GAATTA-TGATTACAGCTCTATTC 15281124 AATTACAGCT Statistics Matches: 38, Mismatches: 3, Indels: 6 0.81 0.06 0.13 Matches are distributed among these distances: 42 4 0.11 43 3 0.08 44 16 0.42 46 15 0.39 ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36 Consensus pattern (45 bp): ATTCCATTCAACTAAACACAAGAATTATGATTACAGCTCTATTCC Found at i:15281106 original size:39 final size:39 Alignment explanation
Indices: 15281032--15281106 Score: 89 Period size: 39 Copynumber: 1.9 Consensus size: 39 15281022 TATTATAACA * * ** 15281032 TCTATTCCATTCATCTAAACACAAGAATTTTATTACAGC 1 TCTATTCCATTCATCTAAACAAAACAATTGAATTACAGC * 15281071 TCTATTCCATTCCAT-TCAACAAAACAATTGAATTAC 1 TCTATTCCATT-CATCTAAACAAAACAATTGAATTAC 15281107 TGATTATAGC Statistics Matches: 30, Mismatches: 5, Indels: 2 0.81 0.14 0.05 Matches are distributed among these distances: 39 27 0.90 40 3 0.10 ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35 Consensus pattern (39 bp): TCTATTCCATTCATCTAAACAAAACAATTGAATTACAGC Found at i:15281189 original size:16 final size:16 Alignment explanation
Indices: 15281168--15281206 Score: 78 Period size: 16 Copynumber: 2.4 Consensus size: 16 15281158 GTACCCTAAG 15281168 TTTCATTACAGCTCTA 1 TTTCATTACAGCTCTA 15281184 TTTCATTACAGCTCTA 1 TTTCATTACAGCTCTA 15281200 TTTCATT 1 TTTCATT 15281207 TCAATTACAG Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 23 1.00 ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49 Consensus pattern (16 bp): TTTCATTACAGCTCTA Found at i:15281215 original size:22 final size:21 Alignment explanation
Indices: 15281183--15281225 Score: 77 Period size: 22 Copynumber: 2.0 Consensus size: 21 15281173 TTACAGCTCT 15281183 ATTTCATTACAGCTCTATTTC 1 ATTTCATTACAGCTCTATTTC 15281204 ATTTCAATTACAGCTCTATTTC 1 ATTTC-ATTACAGCTCTATTTC 15281226 TTCTTACAAT Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 21 5 0.24 22 16 0.76 ACGTcount: A:0.26, C:0.23, G:0.05, T:0.47 Consensus pattern (21 bp): ATTTCATTACAGCTCTATTTC Found at i:15282419 original size:16 final size:17 Alignment explanation
Indices: 15282384--15282418 Score: 52 Period size: 17 Copynumber: 2.1 Consensus size: 17 15282374 CGCATATTAT * * 15282384 AATAAGCATTTTTAAAA 1 AATAAACATTTATAAAA 15282401 AATAAACATTTATAAAA 1 AATAAACATTTATAAAA 15282418 A 1 A 15282419 TTTAATTTTG Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 17 16 1.00 ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31 Consensus pattern (17 bp): AATAAACATTTATAAAA Found at i:15291141 original size:3 final size:3 Alignment explanation
Indices: 15291133--15291166 Score: 59 Period size: 3 Copynumber: 11.0 Consensus size: 3 15291123 CTTTAAAAAC 15291133 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT 1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT 15291167 CATGATTACA Statistics Matches: 30, Mismatches: 0, Indels: 2 0.94 0.00 0.06 Matches are distributed among these distances: 3 27 0.90 4 3 0.10 ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32 Consensus pattern (3 bp): AAT Found at i:15295447 original size:3 final size:3 Alignment explanation
Indices: 15295439--15295469 Score: 62 Period size: 3 Copynumber: 10.3 Consensus size: 3 15295429 GCGCTGAGAA 15295439 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T 1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T 15295470 ACTACGTCTG Statistics Matches: 28, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 28 1.00 ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68 Consensus pattern (3 bp): TTC Found at i:15300841 original size:5 final size:6 Alignment explanation
Indices: 15300823--15300847 Score: 50 Period size: 6 Copynumber: 4.2 Consensus size: 6 15300813 AAATATAGGG 15300823 AAGAAA AAGAAA AAGAAA AAGAAA A 1 AAGAAA AAGAAA AAGAAA AAGAAA A 15300848 TGGTGTATTT Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 19 1.00 ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00 Consensus pattern (6 bp): AAGAAA Found at i:15302779 original size:25 final size:25 Alignment explanation
Indices: 15302736--15302817 Score: 87 Period size: 25 Copynumber: 3.3 Consensus size: 25 15302726 AATACTCATA * 15302736 CGAG-CATGTAATCGGGAAGCTCTTT 1 CGAGCCATGTAA-CGAGAAGCTCTTT * 15302761 CGAGCCATGTAACGAGAAGCTCATGT 1 CGAGCCATGTAACGAGAAGCTC-TTT * * * 15302787 -GAGCCATTTATCGAGAAGCTCTTG 1 CGAGCCATGTAACGAGAAGCTCTTT 15302811 CGAGCCA 1 CGAGCCA 15302818 ATTATCAGGA Statistics Matches: 48, Mismatches: 6, Indels: 6 0.80 0.10 0.10 Matches are distributed among these distances: 24 1 0.02 25 38 0.79 26 9 0.19 ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23 Consensus pattern (25 bp): CGAGCCATGTAACGAGAAGCTCTTT Found at i:15302822 original size:25 final size:24 Alignment explanation
Indices: 15302746--15302869 Score: 106 Period size: 25 Copynumber: 5.0 Consensus size: 24 15302736 CGAGCATGTA * * * 15302746 ATCGGGAAGCTCTTTCGAGCCATGT 1 ATCGAGAAGCTCATGCGAGCCAT-T * * 15302771 AACGAGAAGCTCATGTGAGCCATTT 1 ATCGAGAAGCTCATGCGAGCCA-TT * 15302796 ATCGAGAAGCTCTTGCGAGCCAATT 1 ATCGAGAAGCTCATGCGAGCC-ATT * * 15302821 ATC-AGGAAGCTCATACGAGCCATA 1 ATCGA-GAAGCTCATGCGAGCCATT * * * 15302845 ATCGAGAAACTCAAGAGAGCCATT 1 ATCGAGAAGCTCATGCGAGCCATT 15302869 A 1 A 15302870 ATCGGGAAAC Statistics Matches: 79, Mismatches: 16, Indels: 9 0.76 0.15 0.09 Matches are distributed among these distances: 24 21 0.27 25 56 0.71 26 2 0.03 ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22 Consensus pattern (24 bp): ATCGAGAAGCTCATGCGAGCCATT Found at i:15302830 original size:50 final size:49 Alignment explanation
Indices: 15302746--15302931 Score: 123 Period size: 50 Copynumber: 3.7 Consensus size: 49 15302736 CGAGCATGTA * * * * 15302746 ATCGGGAAGCTCTTTCGAGCCATGTAAC-GAGAAGCTCATGTGAGCCATTT 1 ATCGAGAAGCTCTTGCGAGCCAT-TATCAG-GAAGCTCATGAGAGCCATTT * 15302796 ATCGAGAAGCTCTTGCGAGCCAATTATCAGGAAGCTCAT-ACGAGCCA-TA 1 ATCGAGAAGCTCTTGCGAGCC-ATTATCAGGAAGCTCATGA-GAGCCATTT * ** * * * * 15302845 ATCGAGAAACTCAAGAGAGCCATTAATCGGGAAACT-ACGGAGAGCCATTT 1 ATCGAGAAGCTCTTGCGAGCCATT-ATCAGGAAGCTCA-TGAGAGCCATTT * * 15302895 ATC-AGGAAGCTCATT-TGAGCCAATTATTAGGAAGCTC 1 ATCGA-GAAGCTC-TTGCGAGCC-ATTATCAGGAAGCTC 15302932 CGAAGAGCTA Statistics Matches: 105, Mismatches: 20, Indels: 21 0.72 0.14 0.14 Matches are distributed among these distances: 48 4 0.04 49 34 0.32 50 61 0.58 51 6 0.06 ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23 Consensus pattern (49 bp): ATCGAGAAGCTCTTGCGAGCCATTATCAGGAAGCTCATGAGAGCCATTT Found at i:15302914 original size:25 final size:24 Alignment explanation
Indices: 15302762--15302931 Score: 92 Period size: 25 Copynumber: 6.8 Consensus size: 24 15302752 AAGCTCTTTC * * 15302762 GAGCCATGTAACGAGAAGCTCATGT 1 GAGCCATTTATCG-GAAGCTCATGT * * 15302787 GAGCCATTTATCGAGAAGCTCTTGC 1 GAGCCATTTATCG-GAAGCTCATGT * ** 15302812 GAGCCAATTATCAGGAAGCTCATAC 1 GAGCCATTTATC-GGAAGCTCATGT * * * * 15302837 GAGCCA-TAATCGAGAAACTCAAGA 1 GAGCCATTTATCG-GAAGCTCATGT * * * * 15302861 GAGCCATTAATCGGGAAACT-ACGGA 1 GAGCCATTTATC-GGAAGCTCA-TGT * 15302886 GAGCCATTTATCAGGAAGCTCATTT 1 GAGCCATTTATC-GGAAGCTCATGT * * 15302911 GAGCCAATTATTAGGAAGCTC 1 GAGCCATTTA-TCGGAAGCTC 15302932 CGAAGAGCTA Statistics Matches: 117, Mismatches: 21, Indels: 14 0.77 0.14 0.09 Matches are distributed among these distances: 23 1 0.01 24 18 0.15 25 94 0.80 26 4 0.03 ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22 Consensus pattern (24 bp): GAGCCATTTATCGGAAGCTCATGT Found at i:15303306 original size:21 final size:21 Alignment explanation
Indices: 15303282--15303323 Score: 57 Period size: 21 Copynumber: 2.0 Consensus size: 21 15303272 TGAATTTATC * 15303282 TCAACTTAATACAATTCACAT 1 TCAACTTAATACAATACACAT * * 15303303 TCAATTTAATCCAATACACAT 1 TCAACTTAATACAATACACAT 15303324 CTTTGGAAAA Statistics Matches: 18, Mismatches: 3, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 21 18 1.00 ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33 Consensus pattern (21 bp): TCAACTTAATACAATACACAT Found at i:15305928 original size:23 final size:25 Alignment explanation
Indices: 15305902--15305983 Score: 80 Period size: 26 Copynumber: 3.3 Consensus size: 25 15305892 CATATATCGA * * 15305902 GAAGTTCAAGCGAGCCA-T-ATCAG 1 GAAGCTCAAGAGAGCCATTAATCAG * 15305925 GAAGCTCCAGAGAGCCATTAATCAG 1 GAAGCTCAAGAGAGCCATTAATCAG * * 15305950 GAAGCTCACAGAGAGTCTTTAAT-AG 1 GAAGCTCA-AGAGAGCCATTAATCAG 15305975 AGAAGCTCA 1 -GAAGCTCA 15305984 CGAAGAGCTA Statistics Matches: 49, Mismatches: 6, Indels: 5 0.82 0.10 0.08 Matches are distributed among these distances: 23 14 0.29 24 1 0.02 25 14 0.29 26 20 0.41 ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18 Consensus pattern (25 bp): GAAGCTCAAGAGAGCCATTAATCAG Found at i:15305971 original size:26 final size:26 Alignment explanation
Indices: 15305913--15305984 Score: 89 Period size: 26 Copynumber: 2.9 Consensus size: 26 15305903 AAGTTCAAGC 15305913 GAGCCA-T-ATCAGGAAGCTC-CAGA 1 GAGCCATTAATCAGGAAGCTCACAGA 15305936 GAGCCATTAATCAGGAAGCTCACAGA 1 GAGCCATTAATCAGGAAGCTCACAGA * * 15305962 GAGTCTTTAAT-AGAGAAGCTCAC 1 GAGCCATTAATCAG-GAAGCTCAC 15305985 GAAGAGCTAT Statistics Matches: 43, Mismatches: 2, Indels: 5 0.86 0.04 0.10 Matches are distributed among these distances: 23 6 0.14 24 1 0.02 25 14 0.33 26 22 0.51 ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18 Consensus pattern (26 bp): GAGCCATTAATCAGGAAGCTCACAGA Found at i:15311853 original size:198 final size:198 Alignment explanation
Indices: 15311515--15311914 Score: 764 Period size: 198 Copynumber: 2.0 Consensus size: 198 15311505 ATATAATGGC * 15311515 ATGTATAACTAGACTGTACATTCTACGTTATTCTGAGAATCGACTAAACCGTATCTCTGATACCA 1 ATGTATAACTAGACTGTACATGCTACGTTATTCTGAGAATCGACTAAACCGTATCTCTGATACCA 15311580 ATAAATGTAACACCCCTAACCTATATATGCCGCCAGAATAGTGTTACGAAACATTACCAAAATTT 66 ATAAATGTAACACCCCTAACCTATATATGCCGCCAGAATAGTGTTACGAAACATTACCAAAATTT 15311645 ACAGAACCAATAACAGACTTTTCATATCATTTAGCACTTATATAATAAACCAGTTGTAATCAAGC 131 ACAGAACCAATAACAGACTTTTCATATCATTTAGCACTTATATAATAAACCAGTTGTAATCAAGC 15311710 ATA 196 ATA 15311713 ATGTATAACTAGACTGTACATGCTACGTTATTCTGAGAATCGACTAAACCGTATCTCTGATACCA 1 ATGTATAACTAGACTGTACATGCTACGTTATTCTGAGAATCGACTAAACCGTATCTCTGATACCA * * * 15311778 ATAAATGTAACACCCTTAACCTATATATGTCGCCAGAATAGTGTTACGAAGCATTACCAAAATTT 66 ATAAATGTAACACCCCTAACCTATATATGCCGCCAGAATAGTGTTACGAAACATTACCAAAATTT 15311843 ACAGAACCAATAACAGACTTTTCATATCATTTAGCACTTATATAATAAACCAGTTGTAATCAAGC 131 ACAGAACCAATAACAGACTTTTCATATCATTTAGCACTTATATAATAAACCAGTTGTAATCAAGC 15311908 ATA 196 ATA 15311911 ATGT 1 ATGT 15311915 CCCTTATTTG Statistics Matches: 198, Mismatches: 4, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 198 198 1.00 ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30 Consensus pattern (198 bp): ATGTATAACTAGACTGTACATGCTACGTTATTCTGAGAATCGACTAAACCGTATCTCTGATACCA ATAAATGTAACACCCCTAACCTATATATGCCGCCAGAATAGTGTTACGAAACATTACCAAAATTT ACAGAACCAATAACAGACTTTTCATATCATTTAGCACTTATATAATAAACCAGTTGTAATCAAGC ATA Found at i:15314092 original size:18 final size:19 Alignment explanation
Indices: 15314054--15314092 Score: 53 Period size: 19 Copynumber: 2.1 Consensus size: 19 15314044 TTTATAGTTT * 15314054 TATAATTTTTATTTCTTTA 1 TATAATTTTTATTTCTGTA * 15314073 TATATTTTTTATTT-TGTA 1 TATAATTTTTATTTCTGTA 15314091 TA 1 TA 15314093 AATGTATGTA Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 18 5 0.28 19 13 0.72 ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69 Consensus pattern (19 bp): TATAATTTTTATTTCTGTA Found at i:15314778 original size:13 final size:13 Alignment explanation
Indices: 15314755--15314786 Score: 55 Period size: 13 Copynumber: 2.4 Consensus size: 13 15314745 GATTCAATTA 15314755 GCTTGATGAAGCTT 1 GCTT-ATGAAGCTT 15314769 GCTTATGAAGCTT 1 GCTTATGAAGCTT 15314782 GCTTA 1 GCTTA 15314787 AGACAAGGTC Statistics Matches: 18, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 13 14 0.78 14 4 0.22 ACGTcount: A:0.22, C:0.16, G:0.25, T:0.38 Consensus pattern (13 bp): GCTTATGAAGCTT Found at i:15318774 original size:43 final size:43 Alignment explanation
Indices: 15318699--15318864 Score: 160 Period size: 43 Copynumber: 4.0 Consensus size: 43 15318689 AAACACATAT * * * * * 15318699 ATCACATA-CAATGCC-ATATCCCAAATATGGTCTTACATGTT 1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGTA ** * * ** 15318740 ATCACATATCGATGCCTCTATCCCAGACAGGGTCTTACA-CAA 1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGTA * * * * 15318782 ATCATATA-CGGTGCCAATGTCCTAGACATGGTCTTACACGTA 1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGTA * 15318824 ATCTCATATCGATGCCAATGTCCCAGACATGGTCTTACATG 1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATG 15318865 AAACCACACC Statistics Matches: 99, Mismatches: 22, Indels: 6 0.78 0.17 0.05 Matches are distributed among these distances: 41 32 0.32 42 20 0.20 43 47 0.47 ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28 Consensus pattern (43 bp): ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGTA Found at i:15320357 original size:30 final size:30 Alignment explanation
Indices: 15320323--15320386 Score: 83 Period size: 30 Copynumber: 2.1 Consensus size: 30 15320313 TCAATTAGAC ** * 15320323 TAAGGAAATGTGTAGGTTTTTCTACTAATA 1 TAAGGAAATGTGTAGGTTCATCTACCAATA * * 15320353 TAAGGACATGTTTAGGTTCATCTACCAATA 1 TAAGGAAATGTGTAGGTTCATCTACCAATA 15320383 TAAG 1 TAAG 15320387 TTGTCTTTTT Statistics Matches: 29, Mismatches: 5, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 30 29 1.00 ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36 Consensus pattern (30 bp): TAAGGAAATGTGTAGGTTCATCTACCAATA Found at i:15326570 original size:21 final size:17 Alignment explanation
Indices: 15326544--15326598 Score: 56 Period size: 18 Copynumber: 2.9 Consensus size: 17 15326534 TATAAAATTT 15326544 GTTTAATTTTTTTAGAAA 1 GTTTAATTTTTTTA-AAA 15326562 CTGTTTTAAGTTTTTTTAAAA 1 --G-TTTAA-TTTTTTTAAAA 15326583 GTTTAATTTTTATTAA 1 GTTTAATTTTT-TTAA 15326599 TCTGTTTCGA Statistics Matches: 32, Mismatches: 0, Indels: 8 0.80 0.00 0.20 Matches are distributed among these distances: 17 5 0.16 18 9 0.28 19 1 0.03 20 1 0.03 21 8 0.25 22 8 0.25 ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58 Consensus pattern (17 bp): GTTTAATTTTTTTAAAA Found at i:15331378 original size:2 final size:2 Alignment explanation
Indices: 15331371--15331408 Score: 76 Period size: 2 Copynumber: 19.0 Consensus size: 2 15331361 TCTCAATCCA 15331371 AT AT AT AT AT 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 AT AT AT AT AT 15331409 TTCAATCATC Statistics Matches: 36, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 36 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:15334425 original size:17 final size:17 Alignment explanation
Indices: 15334392--15334425 Score: 50 Period size: 17 Copynumber: 2.0 Consensus size: 17 15334382 ACTACAAAAT * 15334392 CAAATCTTCTAATATTA 1 CAAATCTTCTAAGATTA * 15334409 CAAATCTTTTAAGATTA 1 CAAATCTTCTAAGATTA 15334426 GTTTTCATAT 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:0.41, C:0.15, G:0.03, T:0.41 Consensus pattern (17 bp): CAAATCTTCTAAGATTA Found at i:15335239 original size:21 final size:21 Alignment explanation
Indices: 15335197--15335239 Score: 50 Period size: 21 Copynumber: 2.0 Consensus size: 21 15335187 ACAAACACAA * ** 15335197 CTCTGCCTCTGTCACCTGCGC 1 CTCTGCCTCTGCCACCAACGC * 15335218 CTCTTCCTCTGCCACCAACGC 1 CTCTGCCTCTGCCACCAACGC 15335239 C 1 C 15335240 ACGCCTGTTT Statistics Matches: 18, Mismatches: 4, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 21 18 1.00 ACGTcount: A:0.09, C:0.51, G:0.14, T:0.26 Consensus pattern (21 bp): CTCTGCCTCTGCCACCAACGC Found at i:15340910 original size:35 final size:34 Alignment explanation
Indices: 15340867--15340934 Score: 93 Period size: 35 Copynumber: 2.0 Consensus size: 34 15340857 CTATTGAATT 15340867 AAATTTTAAATTATATTCT-AATTTAATGCATATG 1 AAATTTTAAATTATATTCTCAATTTAAT-CATATG * * 15340901 AAATATTTAAATTTTATTTTCAATTTAATCATAT 1 AAAT-TTTAAATTATATTCTCAATTTAATCATAT 15340935 ATTATTTTTT Statistics Matches: 30, Mismatches: 2, Indels: 3 0.86 0.06 0.09 Matches are distributed among these distances: 34 4 0.13 35 18 0.60 36 8 0.27 ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50 Consensus pattern (34 bp): AAATTTTAAATTATATTCTCAATTTAATCATATG Found at i:15343986 original size:20 final size:22 Alignment explanation
Indices: 15343961--15344002 Score: 61 Period size: 21 Copynumber: 2.0 Consensus size: 22 15343951 TATTGTTTTC 15343961 AAAAAAA-CCAAAAGTT-TGTT 1 AAAAAAAGCCAAAAGTTGTGTT * 15343981 AAAAAAAGTCAAAAGTTGTGTT 1 AAAAAAAGCCAAAAGTTGTGTT 15344003 TTGAAATGTA Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 20 7 0.37 21 8 0.42 22 4 0.21 ACGTcount: A:0.52, C:0.07, G:0.14, T:0.26 Consensus pattern (22 bp): AAAAAAAGCCAAAAGTTGTGTT Found at i:15348584 original size:22 final size:19 Alignment explanation
Indices: 15348532--15348573 Score: 84 Period size: 19 Copynumber: 2.2 Consensus size: 19 15348522 ATGGGAAATT 15348532 TCATGTGGAAATCTTTTTA 1 TCATGTGGAAATCTTTTTA 15348551 TCATGTGGAAATCTTTTTA 1 TCATGTGGAAATCTTTTTA 15348570 TCAT 1 TCAT 15348574 CAAGGTGAAA Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 19 23 1.00 ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48 Consensus pattern (19 bp): TCATGTGGAAATCTTTTTA Found at i:15349431 original size:12 final size:12 Alignment explanation
Indices: 15349414--15349439 Score: 52 Period size: 12 Copynumber: 2.2 Consensus size: 12 15349404 TAATGTTCTA 15349414 TTTATTTAAAAT 1 TTTATTTAAAAT 15349426 TTTATTTAAAAT 1 TTTATTTAAAAT 15349438 TT 1 TT 15349440 AATTACATAA 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:0.38, C:0.00, G:0.00, T:0.62 Consensus pattern (12 bp): TTTATTTAAAAT Found at i:15356951 original size:16 final size:19 Alignment explanation
Indices: 15356915--15356951 Score: 53 Period size: 16 Copynumber: 2.1 Consensus size: 19 15356905 CAACTTAAAC 15356915 AATTATACATTTCATAATA 1 AATTATACATTTCATAATA 15356934 AATTAT-CA-TTCA-AATA 1 AATTATACATTTCATAATA 15356950 AA 1 AA 15356952 AAACTATTCA Statistics Matches: 18, Mismatches: 0, Indels: 3 0.86 0.00 0.14 Matches are distributed among these distances: 16 6 0.33 17 4 0.22 18 2 0.11 19 6 0.33 ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38 Consensus pattern (19 bp): AATTATACATTTCATAATA Found at i:15359966 original size:43 final size:43 Alignment explanation
Indices: 15359914--15360056 Score: 135 Period size: 43 Copynumber: 3.3 Consensus size: 43 15359904 ATGCTATTAC * * * * * * 15359914 GTGCTAGTATGATTA-TTCCAGTTTATCTAATGATGCACTATGT 1 GTGCCAGTATAATTACTT-CAGTTTATCCAATAATGAACTACGT * 15359957 GTGCCAGTATAATTACTTCAGTTTATCCAATAATGAATTACGT 1 GTGCCAGTATAATTACTTCAGTTTATCCAATAATGAACTACGT * ** * * * * 15360000 GTGCCAGTATAATTGCTTTGGTTCATCCAATGATGCACTTCGT 1 GTGCCAGTATAATTACTTCAGTTTATCCAATAATGAACTACGT * 15360043 GTGCCAATATAATT 1 GTGCCAGTATAATT 15360057 GCTTTGGTTC Statistics Matches: 83, Mismatches: 16, Indels: 2 0.82 0.16 0.02 Matches are distributed among these distances: 43 81 0.98 44 2 0.02 ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38 Consensus pattern (43 bp): GTGCCAGTATAATTACTTCAGTTTATCCAATAATGAACTACGT Found at i:15360057 original size:43 final size:43 Alignment explanation
Indices: 15359942--15360102 Score: 182 Period size: 43 Copynumber: 3.7 Consensus size: 43 15359932 CAGTTTATCT * * ** * 15359942 AATGATGCACTAT-GTGTGCCAGTATAATTACTTCAGTTTATCC 1 AATGATGCACT-TCGTGTGCCAATATAATTGCTTTGGTTCATCC * * * 15359985 AATAATG-AATTACGTGTGCCAGTATAATTGCTTTGGTTCATCC 1 AATGATGCACTT-CGTGTGCCAATATAATTGCTTTGGTTCATCC * 15360028 AATGATGCACTTCGTGTGCCAATATAATTGCTTTGGTTCATTC 1 AATGATGCACTTCGTGTGCCAATATAATTGCTTTGGTTCATCC * * * 15360071 GATGATGCACCTCGTGTGCCAATACAATTGCT 1 AATGATGCACTTCGTGTGCCAATATAATTGCT 15360103 GCGACTTGCT Statistics Matches: 102, Mismatches: 13, Indels: 6 0.84 0.11 0.05 Matches are distributed among these distances: 41 1 0.01 42 2 0.02 43 96 0.94 44 3 0.03 ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36 Consensus pattern (43 bp): AATGATGCACTTCGTGTGCCAATATAATTGCTTTGGTTCATCC Found at i:15360116 original size:43 final size:42 Alignment explanation
Indices: 15359997--15360122 Score: 110 Period size: 43 Copynumber: 2.9 Consensus size: 42 15359987 TAATGAATTA * * ** * * * 15359997 CGTGTGCCAGTATAATTGCTTTGGTTCATCCAATGATGCACTT 1 CGTGTGCCAATACAATTGCTGCGCTTCAT-CGATGATGCACCT * ** * 15360040 CGTGTGCCAATATAATTGCTTTGGTTCATTCGATGATGCACCT 1 CGTGTGCCAATACAATTGCTGCGCTTCA-TCGATGATGCACCT 15360083 CGTGTGCCAATACAATTGCTGCGACTTGC-TCGATGATGCA 1 CGTGTGCCAATACAATTGCTGCG-CTT-CATCGATGATGCA 15360123 TTATGTGTGC Statistics Matches: 73, Mismatches: 7, Indels: 6 0.85 0.08 0.07 Matches are distributed among these distances: 43 69 0.95 44 3 0.04 45 1 0.01 ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34 Consensus pattern (42 bp): CGTGTGCCAATACAATTGCTGCGCTTCATCGATGATGCACCT Found at i:15363057 original size:9 final size:9 Alignment explanation
Indices: 15363037--15363111 Score: 91 Period size: 9 Copynumber: 8.4 Consensus size: 9 15363027 GTAGTGATTC * 15363037 AATTTGGTT 1 AATTCGGTT * 15363046 AATTCGGGT 1 AATTCGGTT 15363055 AATTCGGTT 1 AATTCGGTT * 15363064 AATTCGGGT 1 AATTCGGTT * 15363073 AATCCGGTT 1 AATTCGGTT 15363082 AATTCTGG-T 1 AATTC-GGTT 15363091 AATT-GGTT 1 AATTCGGTT 15363099 AATTCGGTT 1 AATTCGGTT 15363108 AATT 1 AATT 15363112 TTTAACCAAA Statistics Matches: 56, Mismatches: 7, Indels: 6 0.81 0.10 0.09 Matches are distributed among these distances: 7 2 0.04 8 5 0.09 9 47 0.84 10 2 0.04 ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43 Consensus pattern (9 bp): AATTCGGTT Found at i:15363063 original size:18 final size:18 Alignment explanation
Indices: 15363037--15363111 Score: 107 Period size: 18 Copynumber: 4.2 Consensus size: 18 15363027 GTAGTGATTC * 15363037 AATTTGGTTAATTCGGGT 1 AATTCGGTTAATTCGGGT 15363055 AATTCGGTTAATTCGGGT 1 AATTCGGTTAATTCGGGT * * 15363073 AATCCGGTTAATTCTGGT 1 AATTCGGTTAATTCGGGT * 15363091 AATT-GGTTAATTCGGTT 1 AATTCGGTTAATTCGGGT 15363108 AATT 1 AATT 15363112 TTTAACCAAA Statistics Matches: 51, Mismatches: 6, Indels: 1 0.88 0.10 0.02 Matches are distributed among these distances: 17 15 0.29 18 36 0.71 ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43 Consensus pattern (18 bp): AATTCGGTTAATTCGGGT Found at i:15369099 original size:7 final size:7 Alignment explanation
Indices: 15369087--15369123 Score: 74 Period size: 7 Copynumber: 5.3 Consensus size: 7 15369077 TAATTACTAT 15369087 AATTTAA 1 AATTTAA 15369094 AATTTAA 1 AATTTAA 15369101 AATTTAA 1 AATTTAA 15369108 AATTTAA 1 AATTTAA 15369115 AATTTAA 1 AATTTAA 15369122 AA 1 AA 15369124 AATTAATTAA Statistics Matches: 30, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 7 30 1.00 ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41 Consensus pattern (7 bp): AATTTAA Found at i:15369592 original size:3 final size:3 Alignment explanation
Indices: 15369586--15369616 Score: 62 Period size: 3 Copynumber: 10.3 Consensus size: 3 15369576 CCATCTTCGA 15369586 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C 1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C 15369617 GTCAATTACT Statistics Matches: 28, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 28 1.00 ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65 Consensus pattern (3 bp): CTT Found at i:15375229 original size:27 final size:27 Alignment explanation
Indices: 15375191--15375244 Score: 108 Period size: 27 Copynumber: 2.0 Consensus size: 27 15375181 AACATCGTCC 15375191 GCGTCATCACTTTCCCCAAACGGTGGT 1 GCGTCATCACTTTCCCCAAACGGTGGT 15375218 GCGTCATCACTTTCCCCAAACGGTGGT 1 GCGTCATCACTTTCCCCAAACGGTGGT 15375245 CTTACCTTCG Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 27 27 1.00 ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26 Consensus pattern (27 bp): GCGTCATCACTTTCCCCAAACGGTGGT Found at i:15378189 original size:25 final size:25 Alignment explanation
Indices: 15378183--15378289 Score: 133 Period size: 25 Copynumber: 4.0 Consensus size: 25 15378173 GGAACAAATA * 15378183 ACCAGCAGAGGAACAAAAAACCAGC 1 ACCAGCAGAGGAACAAAGAACCAGC 15378208 ACCAGCAGAGGAACAAAGAACCAGC 1 ACCAGCAGAGGAACAAAGAACCAGC 15378233 ACCAGCACTAGCAGAAGAACAAAGAACCAGC 1 ACCAG--C-AG-AG--GAACAAAGAACCAGC * * 15378264 ACCAGCAGAGGATCAAAGAAGCAGC 1 ACCAGCAGAGGAACAAAGAACCAGC 15378289 A 1 A 15378290 GAGAACAAAA Statistics Matches: 73, Mismatches: 3, Indels: 12 0.83 0.03 0.14 Matches are distributed among these distances: 25 43 0.59 27 3 0.04 28 4 0.05 29 3 0.04 31 20 0.27 ACGTcount: A:0.49, C:0.27, G:0.22, T:0.02 Consensus pattern (25 bp): ACCAGCAGAGGAACAAAGAACCAGC Found at i:15378233 original size:19 final size:19 Alignment explanation
Indices: 15378151--15378208 Score: 89 Period size: 19 Copynumber: 3.1 Consensus size: 19 15378141 GTGGTGGAGA ** 15378151 AGAGGAACAAAGCACCAGC 1 AGAGGAACAAAAAACCAGC * 15378170 AGAGGAACAAATAACCAGC 1 AGAGGAACAAAAAACCAGC 15378189 AGAGGAACAAAAAACCAGC 1 AGAGGAACAAAAAACCAGC 15378208 A 1 A 15378209 CCAGCAGAGG Statistics Matches: 36, Mismatches: 3, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 19 36 1.00 ACGTcount: A:0.53, C:0.22, G:0.22, T:0.02 Consensus pattern (19 bp): AGAGGAACAAAAAACCAGC Found at i:15378240 original size:31 final size:31 Alignment explanation
Indices: 15378202--15378270 Score: 120 Period size: 31 Copynumber: 2.2 Consensus size: 31 15378192 GGAACAAAAA * 15378202 ACCAGCACCAGCAGAGGAACAAAGAACCAGC 1 ACCAGCACCAGCAGAAGAACAAAGAACCAGC * 15378233 ACCAGCACTAGCAGAAGAACAAAGAACCAGC 1 ACCAGCACCAGCAGAAGAACAAAGAACCAGC 15378264 ACCAGCA 1 ACCAGCA 15378271 GAGGATCAAA Statistics Matches: 36, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 31 36 1.00 ACGTcount: A:0.46, C:0.32, G:0.20, T:0.01 Consensus pattern (31 bp): ACCAGCACCAGCAGAAGAACAAAGAACCAGC Found at i:15378306 original size:18 final size:19 Alignment explanation
Indices: 15378264--15378307 Score: 54 Period size: 18 Copynumber: 2.4 Consensus size: 19 15378254 AAGAACCAGC * * 15378264 ACCAGCAGAGGATCAAAGA 1 ACCAGCAGAGGAACAAAAA * 15378283 AGCAGCAGA-GAACAAAAA 1 ACCAGCAGAGGAACAAAAA 15378301 ACCAGCA 1 ACCAGCA 15378308 ATGAGAGAAG Statistics Matches: 21, Mismatches: 4, Indels: 1 0.81 0.15 0.04 Matches are distributed among these distances: 18 13 0.62 19 8 0.38 ACGTcount: A:0.52, C:0.23, G:0.23, T:0.02 Consensus pattern (19 bp): ACCAGCAGAGGAACAAAAA Found at i:15402623 original size:25 final size:25 Alignment explanation
Indices: 15402595--15402654 Score: 59 Period size: 26 Copynumber: 2.4 Consensus size: 25 15402585 TATAATGAAT 15402595 TTTACAATTTTTT-CCTAATTTGATA 1 TTTA-AATTTTTTACCTAATTTGATA * * 15402620 TTTAATTTTTTTAGTCTAATTTGATA 1 TTTAAATTTTTTA-CCTAATTTGATA * * 15402646 CTTGAATTT 1 TTTAAATTT 15402655 GACATTTTTT Statistics Matches: 28, Mismatches: 5, Indels: 3 0.78 0.14 0.08 Matches are distributed among these distances: 24 7 0.25 25 4 0.14 26 17 0.61 ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58 Consensus pattern (25 bp): TTTAAATTTTTTACCTAATTTGATA Found at i:15413478 original size:2 final size:2 Alignment explanation
Indices: 15413471--15413497 Score: 54 Period size: 2 Copynumber: 13.5 Consensus size: 2 15413461 ATTATACATG 15413471 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 15413498 TAACCTAACT 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:15413849 original size:41 final size:41 Alignment explanation
Indices: 15413778--15413883 Score: 158 Period size: 41 Copynumber: 2.6 Consensus size: 41 15413768 NNNNNNNATT * * * 15413778 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA 1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA * * 15413819 AGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGTATCA 1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA * 15413860 AGCCTGTTAGACGTAAAGTCTGAA 1 AGCCTGCTAGACGTAAAGTCTGAA 15413884 TTATCTCATT Statistics Matches: 58, Mismatches: 7, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 41 58 1.00 ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25 Consensus pattern (41 bp): AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA Found at i:15419357 original size:22 final size:22 Alignment explanation
Indices: 15419333--15419375 Score: 59 Period size: 23 Copynumber: 1.9 Consensus size: 22 15419323 GCCTATATAT * 15419333 AAAACTATAAAGCATTATTATTA 1 AAAAATATAAAGC-TTATTATTA * 15419356 AAAAATTTAAAGCTTATTAT 1 AAAAATATAAAGCTTATTAT 15419376 ATGTATATGC Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 22 7 0.39 23 11 0.61 ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37 Consensus pattern (22 bp): AAAAATATAAAGCTTATTATTA Found at i:15421273 original size:3 final size:3 Alignment explanation
Indices: 15421260--15421289 Score: 51 Period size: 3 Copynumber: 9.7 Consensus size: 3 15421250 AATACACCAT 15421260 TTC TCTC TTC TTC TTC TTC TTC TTC TTC TT 1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TT 15421290 TTGGGTTAAT Statistics Matches: 26, Mismatches: 0, Indels: 2 0.93 0.00 0.07 Matches are distributed among these distances: 3 23 0.88 4 3 0.12 ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67 Consensus pattern (3 bp): TTC Found at i:15422102 original size:2 final size:2 Alignment explanation
Indices: 15422095--15422132 Score: 76 Period size: 2 Copynumber: 19.0 Consensus size: 2 15422085 AAGGGTGCTC 15422095 AT AT AT AT AT 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 AT AT AT AT AT 15422133 TTGTTATGAA Statistics Matches: 36, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 36 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:15422613 original size:40 final size:38 Alignment explanation
Indices: 15422546--15422664 Score: 114 Period size: 42 Copynumber: 3.0 Consensus size: 38 15422536 ACATCAACAA * * 15422546 TTAATTATTTTTTAAAATTTTAAATTTTAAAATATATGT 1 TTAATT-TTTTTAAAAATATTAAATTTTAAAATATATGT * * 15422585 TATAATTTTTTTAAAAATATATATATTTTTTAAAATATGTGCT 1 T-TAATTTTTTTAAAAATAT-TA-A-ATTTTAAAATATATG-T * * * 15422628 TTAA-TTTTTTAAAATTATTAAATTTAAAAATCTATGT 1 TTAATTTTTTTAAAAATATTAAATTTTAAAATATATGT 15422665 GGCAATATTC Statistics Matches: 66, Mismatches: 9, Indels: 12 0.76 0.10 0.14 Matches are distributed among these distances: 37 1 0.02 38 11 0.17 39 13 0.20 40 9 0.14 41 14 0.21 42 16 0.24 43 2 0.03 ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54 Consensus pattern (38 bp): TTAATTTTTTTAAAAATATTAAATTTTAAAATATATGT Found at i:15422665 original size:40 final size:38 Alignment explanation
Indices: 15422552--15422665 Score: 108 Period size: 40 Copynumber: 2.9 Consensus size: 38 15422542 ACAATTAATT 15422552 ATTTTTTAAAATT-TTAAATTTTAAAATATATGT-TATA 1 ATTTTTTAAAATTATTAAATTTTAAAAT-TATGTGTATA ** * 15422589 ATTTTTTTAAAAATATATATATTTTTTAAAA-TATGTGCTTTA 1 A-TTTTTT-AAAAT-TAT-TAAATTTTAAAATTATGTG-TATA * 15422631 ATTTTTTAAAATTATTAAATTTAAAAATCTATGTG 1 ATTTTTTAAAATTATTAAATTTTAAAAT-TATGTG 15422666 GCAATATTCC Statistics Matches: 62, Mismatches: 6, Indels: 15 0.75 0.07 0.18 Matches are distributed among these distances: 37 1 0.02 38 15 0.24 39 8 0.13 40 17 0.27 41 7 0.11 42 14 0.23 ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53 Consensus pattern (38 bp): ATTTTTTAAAATTATTAAATTTTAAAATTATGTGTATA Found at i:15432011 original size:23 final size:23 Alignment explanation
Indices: 15431981--15432026 Score: 92 Period size: 23 Copynumber: 2.0 Consensus size: 23 15431971 GGTCTGGTGT 15431981 ACAACCCCAATTTTCACTCTTAA 1 ACAACCCCAATTTTCACTCTTAA 15432004 ACAACCCCAATTTTCACTCTTAA 1 ACAACCCCAATTTTCACTCTTAA 15432027 CATTTGTATC Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 23 23 1.00 ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30 Consensus pattern (23 bp): ACAACCCCAATTTTCACTCTTAA Found at i:15433982 original size:46 final size:44 Alignment explanation
Indices: 15433879--15434194 Score: 351 Period size: 46 Copynumber: 7.6 Consensus size: 44 15433869 TACGTATGAT * 15433879 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAC 1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTA-GCTAC 15433922 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC 1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-A-GCTAC 15433968 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC 1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT--AGCTAC * 15434014 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA---A- 1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC 15434050 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG---- 1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC 15434086 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG---- 1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC 15434122 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC 1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT--AGCTAC * * 15434168 CACTTATCACTTTATCTCTTGATCAGA 1 CACTTATCACTTTTTCACTTGATCAGA 15434195 AGTACTCAAA Statistics Matches: 253, Mismatches: 5, Indels: 27 0.89 0.02 0.09 Matches are distributed among these distances: 36 100 0.40 37 1 0.00 38 3 0.01 40 2 0.01 42 3 0.01 43 10 0.04 44 7 0.03 45 21 0.08 46 104 0.41 47 2 0.01 ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36 Consensus pattern (44 bp): CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC Found at i:15434055 original size:36 final size:36 Alignment explanation
Indices: 15434014--15434158 Score: 263 Period size: 36 Copynumber: 4.0 Consensus size: 36 15434004 CTAAAGCTAC * * 15434014 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA 1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG 15434050 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG 1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG 15434086 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG 1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG * 15434122 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG 1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG 15434158 C 1 C 15434159 TAAAGCTACC Statistics Matches: 106, Mismatches: 3, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 36 106 1.00 ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38 Consensus pattern (36 bp): CACTTATCACTTTTTCACTTGATCAGATAAGTATAG Found at i:15444590 original size:29 final size:29 Alignment explanation
Indices: 15444549--15444631 Score: 85 Period size: 29 Copynumber: 2.9 Consensus size: 29 15444539 TTGTTCTGGG * * 15444549 AAAAATAATTTTGACAAGATGGGTTCTGA 1 AAAAATAAATTTGACAAGATGGATTCTGA * * * 15444578 AAAAATAAATTTGACATGATGTATTTTGA 1 AAAAATAAATTTGACAAGATGGATTCTGA * * ** 15444607 AAAAATTATTTTGATGAGATGGATT 1 AAAAATAAATTTGACAAGATGGATT 15444632 TTTTTTTGAA Statistics Matches: 43, Mismatches: 11, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 29 43 1.00 ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36 Consensus pattern (29 bp): AAAAATAAATTTGACAAGATGGATTCTGA Found at i:15444769 original size:59 final size:59 Alignment explanation
Indices: 15444672--15444875 Score: 327 Period size: 59 Copynumber: 3.4 Consensus size: 59 15444662 CACAGCCAGT * 15444672 AATATATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAA 1 AATA-ATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATAAAACAATATAAA * * 15444732 AATAATTTGTACAAAATTATTCAAAAGAACTTCTATTTTATTAAATAAAACAATATTAA 1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATAAAACAATATAAA * * 15444791 AATAATTTTTACAAAAATATTGAAAAGAACTTCTATTTTATTAAATAAAACAATATAAA 1 AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATAAAACAATATAAA * * * 15444850 AACAATTTGTATAAAAAAATTCAAAA 1 AATAATTTGTACAAAAATATTCAAAA 15444876 ATAAATCAAT Statistics Matches: 132, Mismatches: 12, Indels: 1 0.91 0.08 0.01 Matches are distributed among these distances: 59 128 0.97 60 4 0.03 ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35 Consensus pattern (59 bp): AATAATTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATAAAACAATATAAA Done.