Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Scaffold26 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: 1656043 ACGTcount: A:0.27, C:0.13, G:0.13, T:0.27 Warning! 334368 characters in sequence are not A, C, G, or T File 4 of 8 Found at i:841140 original size:31 final size:31 Alignment explanation
Indices: 841102--841166 Score: 121 Period size: 31 Copynumber: 2.1 Consensus size: 31 841092 GAGCTCATCT 841102 ACACTCTCTCGGGGTAATTTAGGACAAGGAG 1 ACACTCTCTCGGGGTAATTTAGGACAAGGAG * 841133 ACACTCTCTTGGGGTAATTTAGGACAAGGAG 1 ACACTCTCTCGGGGTAATTTAGGACAAGGAG 841164 ACA 1 ACA 841167 GGCCATTGAC Statistics Matches: 33, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 31 33 1.00 ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23 Consensus pattern (31 bp): ACACTCTCTCGGGGTAATTTAGGACAAGGAG Found at i:841764 original size:32 final size:32 Alignment explanation
Indices: 841723--841785 Score: 126 Period size: 32 Copynumber: 2.0 Consensus size: 32 841713 TGGAGATACA 841723 CTGTGGCATTTTGATAGAATACATATCACAAC 1 CTGTGGCATTTTGATAGAATACATATCACAAC 841755 CTGTGGCATTTTGATAGAATACATATCACAA 1 CTGTGGCATTTTGATAGAATACATATCACAA 841786 GGACCATATC Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 32 31 1.00 ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32 Consensus pattern (32 bp): CTGTGGCATTTTGATAGAATACATATCACAAC Found at i:842629 original size:19 final size:20 Alignment explanation
Indices: 842605--842651 Score: 78 Period size: 19 Copynumber: 2.4 Consensus size: 20 842595 TGCATGTATT 842605 GATACATTGAAAAA-ATATC 1 GATACATTGAAAAATATATC 842624 GATACATTGAAAAATATATC 1 GATACATTGAAAAATATATC * 842644 GACACATT 1 GATACATT 842652 TGGATCAAAA Statistics Matches: 26, Mismatches: 1, Indels: 1 0.93 0.04 0.04 Matches are distributed among these distances: 19 14 0.54 20 12 0.46 ACGTcount: A:0.49, C:0.13, G:0.11, T:0.28 Consensus pattern (20 bp): GATACATTGAAAAATATATC Found at i:842756 original size:21 final size:20 Alignment explanation
Indices: 842712--842762 Score: 75 Period size: 20 Copynumber: 2.5 Consensus size: 20 842702 CATGGTCCTA * * 842712 TATCGATACATTCACTTATG 1 TATCGATATATTCACTAATG 842732 TATCGATATATTCACTAATTG 1 TATCGATATATTCACTAA-TG 842753 TATCGATATA 1 TATCGATATA 842763 AATTGTAGAG Statistics Matches: 28, Mismatches: 2, Indels: 1 0.90 0.06 0.03 Matches are distributed among these distances: 20 16 0.57 21 12 0.43 ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41 Consensus pattern (20 bp): TATCGATATATTCACTAATG Found at i:846457 original size:41 final size:42 Alignment explanation
Indices: 846366--846467 Score: 134 Period size: 41 Copynumber: 2.5 Consensus size: 42 846356 TTAAGTGTGC * * * * 846366 CATGTTCTTCGAGGACAAAGGAGAAAAAGAAATAAAGTGCGT 1 CATGCTCTTTGAGGACAAAGGAGAAAAAGAAATAAAATACGT * * * 846408 CTTACTCTTTGAGGACAAAGGA-AAAAGGAAATAAAATACGT 1 CATGCTCTTTGAGGACAAAGGAGAAAAAGAAATAAAATACGT 846449 CATGCTCTTTGAGGACAAA 1 CATGCTCTTTGAGGACAAA 846468 AAGGTACCAC Statistics Matches: 51, Mismatches: 9, Indels: 1 0.84 0.15 0.02 Matches are distributed among these distances: 41 33 0.65 42 18 0.35 ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22 Consensus pattern (42 bp): CATGCTCTTTGAGGACAAAGGAGAAAAAGAAATAAAATACGT Found at i:846624 original size:61 final size:61 Alignment explanation
Indices: 846446--847575 Score: 1146 Period size: 62 Copynumber: 18.4 Consensus size: 61 846436 AAATAAAATA * * * 846446 CGTCATGCTCTTTGAGGACAAAAAGGTACCACCAACTTGTGTGGGCTTT-AAAAGGAAAAAGGAA 1 CGTCCTGCTCTTTGAGGAC-TAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA-G-- 846510 AG 61 -G * * * * 846512 TGTCCTGCTCTTTGAGGACTGTAAGGTGCCACCAACTTGTGTGGGCCTT-AAAAGGAAAAGG 1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * * * * 846573 CGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAATTTATGTAGGCGTT-AAAAGGAAAAGG 1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * 846634 CATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGGAAAAGG 1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * 846695 CATCCTACTCTTTGAGGATTGAAAGGTGCCACCAAC---T-T--G---T--AAA-AAAAAGG 1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * ** * * * * * 846745 CATCCTACTCTTTGAGGGTTAGAAAGTGTCACCAACTTGTATGAGCTTT-AAAAGGAAAAGG 1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * 846806 CGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTGAAAAGAAAAA-A 1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * * 846867 CATCCTGCTCTTTGAGGACTAAAGTGTGCAACTAACTCGTGTGGGCTTTGAAAAGAAAGAGG 1 CGTCCTGCTCTTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * * ** 846929 CATCCTGCTCTTTAAGGACTAAATAGTTCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAAA 1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAAGG * * 846992 TGTCCTGCTCTTTGAGGACTAAAGTGTGCCACCAACTTATGTGGGCTTTGAAAAGAAAAAAAGG 1 CGTCCTGCTCTTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTTGAAAAG--AAAAAGG * * * * 847056 AGTCTTGCTCTTTGAGGATTAAATGGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAAGG 1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * 847118 CATCCTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAACG 1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * 847180 CATCCTGCTCTTTGAGAATTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGG 1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * * 847242 TGTCCTGTTCTTTGAGGTCTAAAGGGTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAAGG 1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * 847304 CATCCTACTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGG 1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAAGG * * * * * * 847367 CGTCCTGCTCTTTGAGGACTAAAGGGTGCCACTAACTCGTGTGAGTTTTGAAAGGAAAAATG 1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * * 847429 TGTCCTACTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGC-TTGAAAAGAAAAAGA 1 CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * * 847489 TGTCCTGTTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGG 1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG * * 847551 TGTCTTGCTCTTTGAGGACTAAAGG 1 CGTCCTGCTCTTTGAGGACTAAAGG 847576 GCTAAAAGGG Statistics Matches: 917, Mismatches: 121, Indels: 57 0.84 0.11 0.05 Matches are distributed among these distances: 49 1 0.00 50 37 0.04 51 3 0.00 52 1 0.00 53 1 0.00 54 1 0.00 55 1 0.00 56 1 0.00 57 1 0.00 58 1 0.00 59 1 0.00 60 38 0.04 61 283 0.31 62 331 0.36 63 109 0.12 64 55 0.06 65 6 0.01 66 46 0.05 ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26 Consensus pattern (61 bp): CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG Found at i:846759 original size:50 final size:50 Alignment explanation
Indices: 846689--846785 Score: 160 Period size: 50 Copynumber: 1.9 Consensus size: 50 846679 CTTTAAAAGG 846689 AAAAGGCATCCTACTCTTTGAGGATT-GAAAGGTGCCACCAACTTGTAAAA 1 AAAAGGCATCCTACTCTTTGAGGATTAGAAA-GTGCCACCAACTTGTAAAA * * 846739 AAAAGGCATCCTACTCTTTGAGGGTTAGAAAGTGTCACCAACTTGTA 1 AAAAGGCATCCTACTCTTTGAGGATTAGAAAGTGCCACCAACTTGTA 846786 TGAGCTTTAA Statistics Matches: 44, Mismatches: 2, Indels: 2 0.92 0.04 0.04 Matches are distributed among these distances: 50 40 0.91 51 4 0.09 ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26 Consensus pattern (50 bp): AAAAGGCATCCTACTCTTTGAGGATTAGAAAGTGCCACCAACTTGTAAAA Found at i:846822 original size:111 final size:111 Alignment explanation
Indices: 846628--846843 Score: 337 Period size: 111 Copynumber: 1.9 Consensus size: 111 846618 CGTTAAAAGG * 846628 AAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAA 1 AAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGAGCTTTAAAAGGAAAA * 846693 GGCATCCTACTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTAAAA 66 GGCATCCTACTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTAAAA ** * 846739 AAAAGGCATCCTACTCTTTGAGGGTTAGAAA-GTGTCACCAACTTGTATGAGCTTTAAAAGGAAA 1 AAAAGGCATCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTATGAGCTTTAAAAGGAAA * * 846803 AGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTT 65 AGGCATCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTT 846844 ATGTGGGCTT Statistics Matches: 96, Mismatches: 7, Indels: 4 0.90 0.07 0.04 Matches are distributed among these distances: 111 87 0.91 112 9 0.09 ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25 Consensus pattern (111 bp): AAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGAGCTTTAAAAGGAAAA GGCATCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTAAAA Found at i:848275 original size:13 final size:13 Alignment explanation
Indices: 848257--848281 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 848247 CATAAAGTGT 848257 TGTATCGATACAA 1 TGTATCGATACAA 848270 TGTATCGATACA 1 TGTATCGATACA 848282 TATTTTTTTG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:848279 original size:33 final size:33 Alignment explanation
Indices: 848237--848303 Score: 98 Period size: 33 Copynumber: 2.0 Consensus size: 33 848227 ATCAACGATT 848237 TGTATCGATACATAAAGTGTTGTATCGATACAA 1 TGTATCGATACATAAAGTGTTGTATCGATACAA *** * 848270 TGTATCGATACATATTTTTTTGTATCGATACAA 1 TGTATCGATACATAAAGTGTTGTATCGATACAA 848303 T 1 T 848304 TTAAGCTACT Statistics Matches: 30, Mismatches: 4, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 33 30 1.00 ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40 Consensus pattern (33 bp): TGTATCGATACATAAAGTGTTGTATCGATACAA Found at i:848362 original size:13 final size:13 Alignment explanation
Indices: 848344--848368 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 848334 ATCACTTAAA 848344 TGTATCGATACAT 1 TGTATCGATACAT 848357 TGTATCGATACA 1 TGTATCGATACA 848369 CTGATCTTTG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:857403 original size:51 final size:51 Alignment explanation
Indices: 857345--857461 Score: 164 Period size: 51 Copynumber: 2.3 Consensus size: 51 857335 TCGAAAATAA 857345 CGGGGTTGGAGTATCACCAATTGTGGAAAATCGGTATTTTGAAAATAAAA- 1 CGGGGTTGGAGTATCACCAATTGTGGAAAATCGGTATTTTGAAAATAAAAT * * * * * * 857395 CTGGGGTTGGAGTATCCCCGATTGTGGAACATTGGTGTTTTGGAAATAAAAT 1 C-GGGGTTGGAGTATCACCAATTGTGGAAAATCGGTATTTTGAAAATAAAAT 857447 CGGGGTTGGAGTATC 1 CGGGGTTGGAGTATC 857462 TCCTCGAAAA Statistics Matches: 59, Mismatches: 6, Indels: 3 0.87 0.09 0.04 Matches are distributed among these distances: 50 1 0.02 51 57 0.97 52 1 0.02 ACGTcount: A:0.28, C:0.11, G:0.31, T:0.30 Consensus pattern (51 bp): CGGGGTTGGAGTATCACCAATTGTGGAAAATCGGTATTTTGAAAATAAAAT Found at i:857481 original size:79 final size:77 Alignment explanation
Indices: 857398--857545 Score: 206 Period size: 79 Copynumber: 1.9 Consensus size: 77 857388 AATAAAACTG * * ** * * * * 857398 GGGTTGGAGTATCCCCGATTGTGGAACATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCT 1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGAGTTGAAGTA-C- 857463 CCTCGAAAATAAAA 64 CCTCGAAAATAAAA 857477 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGAGTTGAAGTACCC 1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGAGTTGAAGTACCC 857542 TCGA 66 TCGA 857546 TGGTGAAAAA Statistics Matches: 61, Mismatches: 8, Indels: 2 0.86 0.11 0.03 Matches are distributed among these distances: 77 6 0.10 78 1 0.02 79 54 0.89 ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27 Consensus pattern (77 bp): GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGAGTTGAAGTACCC TCGAAAATAAAA Found at i:857550 original size:51 final size:51 Alignment explanation
Indices: 857479--857575 Score: 142 Period size: 51 Copynumber: 1.9 Consensus size: 51 857469 AAATAAAAGG * * * 857479 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGA 1 GTTGAAGTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCGGA * 857530 GTTGAAGTA-CCCTCGATGGTGAAAAATCGGTATTTTAGAAATAAAA 1 GTTGAAGTATCCC-CGATGGTGAAAAATCAGTATTTTAGAAATAAAA 857576 ACATGAATGA Statistics Matches: 41, Mismatches: 4, Indels: 2 0.87 0.09 0.04 Matches are distributed among these distances: 50 3 0.07 51 38 0.93 ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27 Consensus pattern (51 bp): GTTGAAGTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCGGA Found at i:857571 original size:130 final size:130 Alignment explanation
Indices: 857300--857577 Score: 328 Period size: 130 Copynumber: 2.1 Consensus size: 130 857290 AAAAATTTAA * * ** 857300 TATTTTGGAGATAAAAACGTGGTTGAAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCACCAA 1 TATTTTGGAAATAAAAACGGGGTTGAAGTATTCCCTCGAAAATAAAAGGGTTGGAGTATCACCAA * * * * * * * * * 857365 TTGTGGAAAATCGGTATTTTGAAAATAAAACTGGGGTTGGAGTATCCCCGATTGTGGAACATTGG 66 TGGTGGAAAATCAGTATTTTGAAAATAAAACCGGAGTTGAAGTATCCCCGATGGTGAAAAATCGG * * * * * 857430 TGTTTTGGAAATAAAATCGGGGTTGGAGTA-TCTCCTCGAAAATAAAAGGGTTGGAGTATCCCCG 1 TATTTTGGAAATAAAAACGGGGTTGAAGTATTC-CCTCGAAAATAAAAGGGTTGGAGTATCACCA * 857494 ATGGTGGAAAATCAGTGTTTT-AGAAATAAAACCGGAGTTGAAGTA-CCCTCGATGGTGAAAAAT 65 ATGGTGGAAAATCAGTATTTTGA-AAATAAAACCGGAGTTGAAGTATCCC-CGATGGTGAAAAAT 857557 CGG 128 CGG * 857560 TATTTTAGAAATAAAAAC 1 TATTTTGGAAATAAAAAC 857578 ATGAATGAAA Statistics Matches: 123, Mismatches: 22, Indels: 6 0.81 0.15 0.04 Matches are distributed among these distances: 129 6 0.05 130 117 0.95 ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28 Consensus pattern (130 bp): TATTTTGGAAATAAAAACGGGGTTGAAGTATTCCCTCGAAAATAAAAGGGTTGGAGTATCACCAA TGGTGGAAAATCAGTATTTTGAAAATAAAACCGGAGTTGAAGTATCCCCGATGGTGAAAAATCGG Found at i:860749 original size:51 final size:51 Alignment explanation
Indices: 860689--860786 Score: 160 Period size: 51 Copynumber: 1.9 Consensus size: 51 860679 CATTCATGTT * * 860689 TTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCTGAC 1 TTTATTTCTAAAATATCGATTTTCCACAATCGAGGATACTCAAACCCTGAC * * 860740 TTTATTTCTAAAATATCGATTTTTCACAATCGGGGATACTCAAACCC 1 TTTATTTCTAAAATATCGATTTTCCACAATCGAGGATACTCAAACCC 860787 CATTATTTCC Statistics Matches: 43, Mismatches: 4, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 51 43 1.00 ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36 Consensus pattern (51 bp): TTTATTTCTAAAATATCGATTTTCCACAATCGAGGATACTCAAACCCTGAC Found at i:860878 original size:51 final size:51 Alignment explanation
Indices: 860818--860915 Score: 137 Period size: 51 Copynumber: 1.9 Consensus size: 51 860808 TCAACCCTAT ** * 860818 TTTTATTTCCAAAACACCGATTTT-TCACCATCG-GTGATACTTCAACCTCGG 1 TTTTATTTCCAAAACACAAATTTTCT-ACCATCGAG-GATACTCCAACCTCGG 860869 TTTTATTTCCAAAACACAAATTTTCTACCATCGAGGATACTCCAACC 1 TTTTATTTCCAAAACACAAATTTTCTACCATCGAGGATACTCCAACC 860916 CTGTTATTTT Statistics Matches: 42, Mismatches: 3, Indels: 4 0.86 0.06 0.08 Matches are distributed among these distances: 51 40 0.95 52 2 0.05 ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34 Consensus pattern (51 bp): TTTTATTTCCAAAACACAAATTTTCTACCATCGAGGATACTCCAACCTCGG Found at i:860923 original size:130 final size:130 Alignment explanation
Indices: 860687--861090 Score: 383 Period size: 130 Copynumber: 3.1 Consensus size: 130 860677 TTCATTCATG * * * * * * * * ** * 860687 TTTTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCTGACTTTATTTCTAAA 1 TTTTTATTTCCAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAA * * * * ** * * * 860752 ATATC-GATTTTTC-ACAATCGGGGATACTCAAACCCCATTATTTCCAAGGGGATACTTCAACCC 66 ACA-CAGAATTTTCTAC-ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCC 860815 TA 129 TA * * * * 860817 TTTTTATTTCCAAAACACCGATTTTTCACCATCGGTGATACTT-CAA-CCTCGGTTTTATTTCCA 1 TTTTTATTTCCAAAACACCAATGTTCCACCATCGGGGATA-TTCCAACCCT-GGTTTTATTTCCA * * 860880 AAACACA-AATTTTCTACCATCGAGGATACTCCAACCCTGTTATTTTTGAGAGGAT-CTCCAATC 64 AAACACAGAATTTTCTA-CATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-C 860943 CC-A 127 CCTA * * ** 860946 ATTTTATTTCTAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCTGA 1 TTTTTATTTCCAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAA * * * 861011 ACACAGATTTTTCATA-ATCGAAGATACTCCGACCCTGTTATTTTCGAGGGGATACTCCAACCCT 66 ACACAGAATTTTC-TACATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCT 861075 A 130 A * 861076 TTTTTATCTCCAAAA 1 TTTTTATTTCCAAAA 861091 TATTAAATTT Statistics Matches: 224, Mismatches: 38, Indels: 24 0.78 0.13 0.08 Matches are distributed among these distances: 128 2 0.01 129 107 0.48 130 111 0.50 131 4 0.02 ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35 Consensus pattern (130 bp): TTTTTATTTCCAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAA ACACAGAATTTTCTACATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCTA Found at i:861000 original size:129 final size:128 Alignment explanation
Indices: 860688--861079 Score: 389 Period size: 129 Copynumber: 3.0 Consensus size: 128 860678 TCATTCATGT * * * * * ** * 860688 TTTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCTGACTTTATTTCTAAAA 1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAAA * * * * ** * * * 860753 TATCGATTTTTC-ACAATCGGGGATACTCAAACCCCATTATTTCCAAGGGGATACTTCAACCCTA 66 CA-CAATTTTTCTAC-ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCC-A * 860817 T 128 A * * * 860818 TTTTATTTCCAAAACACCGATTTTTCACCATCGGTGATACTT-CAA-CCTCGGTTTTATTTCCAA 1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATA-TTCCAACCCT-GGTTTTATTTCCAA * * * 860881 AACACAAATTTTCTACCATCGAGGATACTCCAACCCTGTTATTTTTGAGAGGAT-CTCCAATCCC 64 AACACAATTTTTCTA-CATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-CCC 860945 AA 127 AA * * ** 860947 TTTTATTTCTAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCTGAA 1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAAA * * * 861012 CACAGATTTTTCATA-ATCGAAGATACTCCGACCCTGTTATTTTCGAGGGGATACTCCAACCCTA 66 CACA-ATTTTTC-TACATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCAA 861076 TTTT 1 TTTT 861080 TATCTCCAAA Statistics Matches: 215, Mismatches: 37, Indels: 21 0.79 0.14 0.08 Matches are distributed among these distances: 128 2 0.01 129 112 0.52 130 97 0.45 131 4 0.02 ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35 Consensus pattern (128 bp): TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAAA CACAATTTTTCTACATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCAA Found at i:863400 original size:13 final size:13 Alignment explanation
Indices: 863382--863406 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 863372 ATAATGCACA 863382 GTATCGATACATT 1 GTATCGATACATT 863395 GTATCGATACAT 1 GTATCGATACAT 863407 GACCACTGTA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): GTATCGATACATT Found at i:867523 original size:654 final size:654 Alignment explanation
Indices: 866275--867587 Score: 2563 Period size: 654 Copynumber: 2.0 Consensus size: 654 866265 GCTTATTCTC * 866275 AGAAATCAAAACAAAAGAAGGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATCGAAG 1 AGAAATCAAAACAAAAGAAGGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATAGAAG 866340 GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA 66 GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA 866405 AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA 131 AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA * * 866470 AGAATGTCACGTAATTGATATTTGTAGTAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA 196 AGAATGCCACGTAATTGATATTTGTAATAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA 866535 TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC 261 TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC 866600 ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG 326 ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG * 866665 GAAGAACCTTGTTATTGGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG 391 GAAGAACCTTGTTATTAGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG 866730 TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG 456 TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG 866795 CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG 521 CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG 866860 TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG 586 TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG 866925 CTTT 651 CTTT * * 866929 AGAAATCAAAACAAAATAATGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATAGAAG 1 AGAAATCAAAACAAAAGAAGGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATAGAAG 866994 GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA 66 GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA 867059 AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA 131 AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA 867124 AGAATGCCACGTAATTGATATTTGTAATAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA 196 AGAATGCCACGTAATTGATATTTGTAATAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA 867189 TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC 261 TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC 867254 ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG 326 ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG * 867319 GAAGGACCTTGTTATTAGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG 391 GAAGAACCTTGTTATTAGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG 867384 TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG 456 TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG 867449 CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG 521 CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG 867514 TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG 586 TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG 867579 CTTT 651 CTTT 867583 AGAAA 1 AGAAA 867588 AACTCATCAC Statistics Matches: 652, Mismatches: 7, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 654 652 1.00 ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32 Consensus pattern (654 bp): AGAAATCAAAACAAAAGAAGGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATAGAAG GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA AGAATGCCACGTAATTGATATTTGTAATAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG GAAGAACCTTGTTATTAGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG CTTT Found at i:872756 original size:20 final size:20 Alignment explanation
Indices: 872731--872771 Score: 73 Period size: 20 Copynumber: 2.0 Consensus size: 20 872721 AAAGGTCAAA 872731 ACCTTCAAATGTATCGATAC 1 ACCTTCAAATGTATCGATAC * 872751 ACCTTCAGATGTATCGATAC 1 ACCTTCAAATGTATCGATAC 872771 A 1 A 872772 TAATGCACAG Statistics Matches: 20, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 20 20 1.00 ACGTcount: A:0.34, C:0.24, G:0.12, T:0.29 Consensus pattern (20 bp): ACCTTCAAATGTATCGATAC Found at i:872805 original size:19 final size:20 Alignment explanation
Indices: 872760--872809 Score: 66 Period size: 19 Copynumber: 2.5 Consensus size: 20 872750 CACCTTCAGA * 872760 TGTATCGATACATAATGCAC 1 TGTATCGATACATAATCCAC * * 872780 AGTATCGATACATGA-CCAC 1 TGTATCGATACATAATCCAC 872799 TGTATCGATAC 1 TGTATCGATAC 872810 TTGCAAAGGT Statistics Matches: 26, Mismatches: 4, Indels: 1 0.84 0.13 0.03 Matches are distributed among these distances: 19 13 0.50 20 13 0.50 ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28 Consensus pattern (20 bp): TGTATCGATACATAATCCAC Found at i:875634 original size:28 final size:28 Alignment explanation
Indices: 875603--875659 Score: 105 Period size: 28 Copynumber: 2.0 Consensus size: 28 875593 CAAGTTGACT 875603 AAGCCAAATTTCATTAACTGGATCTACA 1 AAGCCAAATTTCATTAACTGGATCTACA * 875631 AAGCCAAATTTCATTAATTGGATCTACA 1 AAGCCAAATTTCATTAACTGGATCTACA 875659 A 1 A 875660 TCTTAAAATT Statistics Matches: 28, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 28 28 1.00 ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30 Consensus pattern (28 bp): AAGCCAAATTTCATTAACTGGATCTACA Found at i:878316 original size:15 final size:16 Alignment explanation
Indices: 878282--878320 Score: 53 Period size: 15 Copynumber: 2.4 Consensus size: 16 878272 ATATTGTTGG * 878282 ATTAAATTTGAGATTTA 1 ATTAAATTT-AGACTTA 878299 ATTAAATTT-GACTTA 1 ATTAAATTTAGACTTA 878314 ATTAAAT 1 ATTAAAT 878321 AAAAGATAAT Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 15 12 0.57 17 9 0.43 ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46 Consensus pattern (16 bp): ATTAAATTTAGACTTA Found at i:879021 original size:51 final size:52 Alignment explanation
Indices: 878940--879041 Score: 143 Period size: 51 Copynumber: 2.0 Consensus size: 52 878930 TATCGGTACA * * 878940 TTATGTTTTTTACCCAGATGTTTTGATACATTTTTCAATGTATCGATACATT 1 TTATGTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATT * * * * 878992 TTAT-TTTTTTACTCATATGTATCGATACATTTTTTAATGTATTGATACAT 1 TTATGTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT 879042 CTAGTTAATT Statistics Matches: 44, Mismatches: 6, Indels: 1 0.86 0.12 0.02 Matches are distributed among these distances: 51 40 0.91 52 4 0.09 ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52 Consensus pattern (52 bp): TTATGTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATT Found at i:894067 original size:20 final size:20 Alignment explanation
Indices: 894042--894096 Score: 101 Period size: 20 Copynumber: 2.8 Consensus size: 20 894032 AAAATCCGCT 894042 ACAACTTGTGACATTCTGTC 1 ACAACTTGTGACATTCTGTC 894062 ACAACTTGTGACATTCTGTC 1 ACAACTTGTGACATTCTGTC * 894082 ATAACTTGTGACATT 1 ACAACTTGTGACATT 894097 TCATCATAAT Statistics Matches: 34, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 20 34 1.00 ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36 Consensus pattern (20 bp): ACAACTTGTGACATTCTGTC Found at i:896431 original size:3 final size:3 Alignment explanation
Indices: 896415--896470 Score: 67 Period size: 3 Copynumber: 18.7 Consensus size: 3 896405 CAAATAAATG * * * * 896415 ATC ATC ATT TTC ATC ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC TTC 1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC * 896463 ATA ATC AT 1 ATC ATC AT 896471 ATTCATCTTC Statistics Matches: 43, Mismatches: 10, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 3 43 1.00 ACGTcount: A:0.30, C:0.29, G:0.00, T:0.41 Consensus pattern (3 bp): ATC Found at i:896432 original size:12 final size:12 Alignment explanation
Indices: 896415--896477 Score: 72 Period size: 12 Copynumber: 5.2 Consensus size: 12 896405 CAAATAAATG * 896415 ATCATCATTTTC 1 ATCATCATCTTC * 896427 ATCATCATCATC 1 ATCATCATCTTC * * 896439 TTCATCATCATC 1 ATCATCATCTTC 896451 ATCATCATCTTC 1 ATCATCATCTTC * * 896463 ATAATCATATTC 1 ATCATCATCTTC 896475 ATC 1 ATC 896478 TTCTTCATCA Statistics Matches: 43, Mismatches: 8, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 12 43 1.00 ACGTcount: A:0.30, C:0.29, G:0.00, T:0.41 Consensus pattern (12 bp): ATCATCATCTTC Found at i:896469 original size:21 final size:21 Alignment explanation
Indices: 896425--896485 Score: 88 Period size: 21 Copynumber: 2.9 Consensus size: 21 896415 ATCATCATTT * 896425 TCATCATCATCATCTTCATCA 1 TCATCATCATCATCTTCATAA 896446 TCATCATCATCATCTTCATAA 1 TCATCATCATCATCTTCATAA * 896467 TCAT-ATTCATCTTCTTCAT 1 TCATCA-TCATCATCTTCAT 896486 CACCCTTTTG Statistics Matches: 37, Mismatches: 2, Indels: 2 0.90 0.05 0.05 Matches are distributed among these distances: 20 1 0.03 21 36 0.97 ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43 Consensus pattern (21 bp): TCATCATCATCATCTTCATAA Found at i:901350 original size:2 final size:2 Alignment explanation
Indices: 901343--901376 Score: 68 Period size: 2 Copynumber: 17.0 Consensus size: 2 901333 TCTTGATTGC 901343 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 901377 GTGTGTGTGT Statistics Matches: 32, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 32 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:902304 original size:2 final size:2 Alignment explanation
Indices: 902297--902329 Score: 66 Period size: 2 Copynumber: 16.5 Consensus size: 2 902287 CAAATATTAG 902297 TA TA TA 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 TA TA TA T 902330 GAAAATAAGC Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 31 1.00 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (2 bp): TA Found at i:903475 original size:2 final size:2 Alignment explanation
Indices: 903468--903508 Score: 82 Period size: 2 Copynumber: 20.5 Consensus size: 2 903458 AATTCAAGGA 903468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 903509 GAGAGAGAGA Statistics Matches: 39, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 39 1.00 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (2 bp): AT Found at i:903513 original size:2 final size:2 Alignment explanation
Indices: 903508--903556 Score: 89 Period size: 2 Copynumber: 24.5 Consensus size: 2 903498 ATATATATAT * 903508 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG 1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG 903550 AG AG AG A 1 AG AG AG A 903557 CAAAGATGCA Statistics Matches: 45, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 2 45 1.00 ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00 Consensus pattern (2 bp): AG Found at i:905870 original size:144 final size:144 Alignment explanation
Indices: 905606--905871 Score: 352 Period size: 144 Copynumber: 1.8 Consensus size: 144 905596 GAGTTTCTGA * * 905606 AGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCATGAAGGTAAAG 1 AGATGCTTCAACAATCCAATCTCTTGAGGAATAGAACCAGAGAGTTTGTTGGCATGAAGGTAAAG ** * * * * 905671 AAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTATTATGGGATA 66 AACAGATAAATGCACCAAGTTTCCAATTGAAGTTGGGATAGAACCCATCAAATTATTATGGGATA 905736 TGTCAAGCTCTTGG 131 TGTCAAGCTCTTGG * * * * * 905750 AGATGTTTCAAGAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG 1 AGATGCTTCAACAATCCAATCTCTTGAGGAATAGAACCAGAGAGTTTGTTGGCATGAAGGTAAAG * * ** * * * 905815 AACAGATATATTCGTCAAGTTTCCAATTGAAGTTGGGATTGGACCCGTCAAATTATT 66 AACAGATAAATGCACCAAGTTTCCAATTGAAGTTGGGATAGAACCCATCAAATTATT 905872 TTGAGACAAA Statistics Matches: 102, Mismatches: 20, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 144 102 1.00 ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30 Consensus pattern (144 bp): AGATGCTTCAACAATCCAATCTCTTGAGGAATAGAACCAGAGAGTTTGTTGGCATGAAGGTAAAG AACAGATAAATGCACCAAGTTTCCAATTGAAGTTGGGATAGAACCCATCAAATTATTATGGGATA TGTCAAGCTCTTGG Found at i:905960 original size:360 final size:360 Alignment explanation
Indices: 905403--906234 Score: 1418 Period size: 360 Copynumber: 2.3 Consensus size: 360 905393 GATCTCATAT ** * * * * * * 905403 ATCCAATCTCTTTG-GGAATGGAACCAGAGAGATTATTGCTTTGAAGGTAAAGAA-AGGATAAAT 1 ATCCAATCTC-TTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACA-GATATAT * * * * * * 905466 TCACCAAGTTTCCTATTGAAGCTGGTATTGGACCCATCAAAATATTTTCAGACAAATAAAGCTCA 64 TCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGAGACAAATAAAGCTCA 905531 GAAAGAGATCTCAAATATACAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCT 129 GAAAGAGATCTCAAATATACAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCT 905596 GAGTTTCTGAAGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCAT 194 GAGTTTCTGAAGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCAT 905661 GAAGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTA 259 GAAGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTA 905726 TTATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA 324 TTATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA 905763 ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACAGATATATTC 1 ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACAGATATATTC * * 905828 GTCAAGTTTCCAATTGAAGTTGGGATTGGACCCGTCAAATTATTTTGAGACAAATAAAGCTCCA- 66 ATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGAGACAAATAAAGCT-CAG * * * 905892 TAAGGGATCTCAAATATCCAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCTG 130 AAAGAGATCTCAAATATACAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCTG * * 905957 AGTTTCTGAAGATGCTTCAACAATCTAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCTTG 195 AGTTTCTGAAGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCATG 906022 AAGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTAT 260 AAGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTAT 906087 TATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA 325 TATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA * 906123 ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAGCAGATATATTC 1 ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACAGATATATTC 906188 ATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTG 66 ATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTG 906235 GGATAATTCA Statistics Matches: 445, Mismatches: 24, Indels: 6 0.94 0.05 0.01 Matches are distributed among these distances: 359 3 0.01 360 439 0.99 361 3 0.01 ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29 Consensus pattern (360 bp): ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACAGATATATTC ATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGAGACAAATAAAGCTCAGA AAGAGATCTCAAATATACAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCTGA GTTTCTGAAGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCATGA AGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTATT ATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA Found at i:906566 original size:144 final size:144 Alignment explanation
Indices: 905966--906516 Score: 773 Period size: 144 Copynumber: 3.8 Consensus size: 144 905956 GAGTTTCTGA * * * ** * 905966 AGATGCTTCAACAATCTAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCT-TGAAGGTAAA 1 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGG-TATGAAGGTAAA ** * * * * * * * * * * * * 906030 GAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTATTATGGGAT 65 GAACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATTATTATGGGAT * * * 906095 -ATGTCAAGCTCTTGG 130 AAT-TCAAGATCATAG * * 906110 AGATGTTTCAAGAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG 1 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG * * * 906175 AGCAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGGGATA 66 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATTATTATGGGATA 906240 ATTCAAGATCATAG 131 ATTCAAGATCATAG 906254 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG 1 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG * * 906319 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTGAGATTATTATGGGATA 66 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATTATTATGGGATA 906384 ATTCAAGATCATAG 131 ATTCAAGATCATAG * * 906398 AGATGCTTCAATAATCCTATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG 1 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG * 906463 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCATCAAATT 66 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATT 906517 GTTGTGAGAT Statistics Matches: 368, Mismatches: 37, Indels: 4 0.90 0.09 0.01 Matches are distributed among these distances: 143 1 0.00 144 365 0.99 145 2 0.01 ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31 Consensus pattern (144 bp): AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATTATTATGGGATA ATTCAAGATCATAG Found at i:906627 original size:288 final size:288 Alignment explanation
Indices: 906046--906598 Score: 677 Period size: 288 Copynumber: 1.9 Consensus size: 288 906036 ATAAATGCAC * * * * * * 906046 CAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTATTATGGGATATGTCAAGCTCTTGGA 1 CAAGTTTCCAATTGAAGCTGGGATAGAACCCATGAGATTATTATGGGATATGTCAAGATCATAGA * * 906111 GATGTTTCAAGAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGA 66 GATGCTTCAAGAATCCAATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGA * * * * 906176 GCAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGGGATAA 131 ACAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCATCAAATTATTGTGAGATAA * * * * * * *** * * 906241 TTCAAGATCATAGAGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGG 196 ATAAAGATCAAAGAGATGCTTCAATAATCCAAGCTCTTGAGGAATATAACCAGAAAAACTATTGA * * * 906306 TATGAAGGTAAAGAACAGATATATTCAT 261 AAAGAAGGTAAAGAACAGACATATTCAT * * * * 906334 CAAGTTTCCAATTGAAGCTGGTATTGGACCCGTGAGATTATTATGGGATAAT-TCAAGATCATAG 1 CAAGTTTCCAATTGAAGCTGGGATAGAACCCATGAGATTATTATGGGAT-ATGTCAAGATCATAG * * 906398 AGATGCTTCAATAATCCTATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG 65 AGATGCTTCAAGAATCCAATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG * * 906463 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCATCAAATTGTTGTGAGATA 130 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCATCAAATTATTGTGAGATA * * * * 906528 AATAAAGTTCTGAAAGGGAT-C-TCAA-ATATCCAAGCTCTTTAGGTATGA-AACCAGAAAAACT 195 AATAAAGATC--AAAGAGATGCTTCAATA-ATCCAAGCTCTTGAGGAAT-ATAACCAGAAAAACT 906589 ATT-AAAAGAA 256 ATTGAAAAGAA 906599 AGGATAAGAT Statistics Matches: 223, Mismatches: 37, Indels: 11 0.82 0.14 0.04 Matches are distributed among these distances: 287 5 0.02 288 208 0.93 289 4 0.02 290 6 0.03 ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31 Consensus pattern (288 bp): CAAGTTTCCAATTGAAGCTGGGATAGAACCCATGAGATTATTATGGGATATGTCAAGATCATAGA GATGCTTCAAGAATCCAATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGA ACAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCATCAAATTATTGTGAGATAA ATAAAGATCAAAGAGATGCTTCAATAATCCAAGCTCTTGAGGAATATAACCAGAAAAACTATTGA AAAGAAGGTAAAGAACAGACATATTCAT Found at i:908229 original size:20 final size:20 Alignment explanation
Indices: 908206--908244 Score: 53 Period size: 20 Copynumber: 1.9 Consensus size: 20 908196 AATTTTTTTA * 908206 TTCATTCATCATT-TTTAAAG 1 TTCATACAT-ATTATTTAAAG 908226 TTCATACATATTATTTAAA 1 TTCATACATATTATTTAAA 908245 AAATATTTTA Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 19 3 0.18 20 14 0.82 ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49 Consensus pattern (20 bp): TTCATACATATTATTTAAAG Found at i:908451 original size:18 final size:17 Alignment explanation
Indices: 908431--908484 Score: 62 Period size: 13 Copynumber: 3.4 Consensus size: 17 908421 AAGATTATAA 908431 AAAAATAAAATATTAAT 1 AAAAATAAAATATTAAT * 908448 AAAAAT----TATAAAT 1 AAAAATAAAATATTAAT 908461 AAAAATAAAATATTAATT 1 AAAAATAAAATATTAA-T 908479 AAAAAT 1 AAAAAT 908485 TTTAAAAATA Statistics Matches: 30, Mismatches: 2, Indels: 9 0.73 0.05 0.22 Matches are distributed among these distances: 13 12 0.40 17 11 0.37 18 7 0.23 ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30 Consensus pattern (17 bp): AAAAATAAAATATTAAT Found at i:908467 original size:30 final size:30 Alignment explanation
Indices: 908418--908492 Score: 109 Period size: 30 Copynumber: 2.5 Consensus size: 30 908408 GTACGTACTT * 908418 TTAAAGATTAT-AAAAAAATAAAATATTAA 1 TTAAAAATTATAAAAAAAATAAAATATTAA 908447 -TAAAAATTATAAATAAAAATAAAATATTAA 1 TTAAAAATTATAAA-AAAAATAAAATATTAA * 908477 TTAAAAATTTTAAAAA 1 TTAAAAATTATAAAAA 908493 TATTATATAT Statistics Matches: 41, Mismatches: 2, Indels: 5 0.85 0.04 0.10 Matches are distributed among these distances: 28 9 0.22 29 2 0.05 30 18 0.44 31 12 0.29 ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32 Consensus pattern (30 bp): TTAAAAATTATAAAAAAAATAAAATATTAA Found at i:909472 original size:29 final size:28 Alignment explanation
Indices: 909425--909479 Score: 83 Period size: 29 Copynumber: 1.9 Consensus size: 28 909415 TATATAAATA * 909425 CATTAATAAATATATTTATATAATTATT 1 CATTAATAAATATACTTATATAATTATT * 909453 CATTACATAAATTTACTTATATAATTA 1 CATTA-ATAAATATACTTATATAATTA 909480 ATTGCATATG Statistics Matches: 24, Mismatches: 2, Indels: 1 0.89 0.07 0.04 Matches are distributed among these distances: 28 5 0.21 29 19 0.79 ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47 Consensus pattern (28 bp): CATTAATAAATATACTTATATAATTATT Found at i:909560 original size:18 final size:21 Alignment explanation
Indices: 909533--909574 Score: 54 Period size: 21 Copynumber: 2.1 Consensus size: 21 909523 AATATTTTTA 909533 ATAATAATTT-TCTT-TTATC 1 ATAATAATTTATCTTATTATC 909552 ATAAT-ATTTCATCTTATTATC 1 ATAATAATTT-ATCTTATTATC 909573 AT 1 AT 909575 TATTGCATTT Statistics Matches: 20, Mismatches: 0, Indels: 4 0.83 0.00 0.17 Matches are distributed among these distances: 18 4 0.20 19 5 0.25 20 4 0.20 21 7 0.35 ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55 Consensus pattern (21 bp): ATAATAATTTATCTTATTATC Found at i:909653 original size:21 final size:21 Alignment explanation
Indices: 909623--909676 Score: 63 Period size: 21 Copynumber: 2.6 Consensus size: 21 909613 TTAATTTTAT * * 909623 TATTACAATACTCAATCTCAC 1 TATTATAATAATCAATCTCAC * * 909644 TATTATAATAATTAATTTCAC 1 TATTATAATAATCAATCTCAC * 909665 TATTATTATAAT 1 TATTATAATAAT 909677 TTTTAATTTT Statistics Matches: 28, Mismatches: 5, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 21 28 1.00 ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44 Consensus pattern (21 bp): TATTATAATAATCAATCTCAC Found at i:910046 original size:24 final size:25 Alignment explanation
Indices: 910003--910051 Score: 64 Period size: 27 Copynumber: 1.9 Consensus size: 25 909993 GCCACCCATT * 910003 TGTTTGTCAAAAATGGTGGTTATTTTA 1 TGTTTGTCAAAAA--GTGGTGATTTTA 910030 TGTTTGTCAAAAA-TGGTGATTT 1 TGTTTGTCAAAAAGTGGTGATTT 910052 CTTTTGTATT Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 24 8 0.38 27 13 0.62 ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47 Consensus pattern (25 bp): TGTTTGTCAAAAAGTGGTGATTTTA Found at i:910063 original size:28 final size:27 Alignment explanation
Indices: 910005--910094 Score: 85 Period size: 28 Copynumber: 3.4 Consensus size: 27 909995 CACCCATTTG * 910005 TTTGTCAAAAATGGTGGTTATTTTATG 1 TTTGTCAAAAATGGTGGTTATTTTATA * * * 910032 TTTGTCAAAAATGGTGATTTCTTTTGTA 1 TTTGTCAAAAATGGTG-GTTATTTTATA * * * * 910060 TTTGTCAAATATGGAGGCT-TGTT-TA 1 TTTGTCAAAAATGGTGGTTATTTTATA 910085 TTTGTCAAAA 1 TTTGTCAAAA 910095 TTTGTGACTA Statistics Matches: 52, Mismatches: 10, Indels: 4 0.79 0.15 0.06 Matches are distributed among these distances: 25 11 0.21 26 3 0.06 27 17 0.33 28 21 0.40 ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47 Consensus pattern (27 bp): TTTGTCAAAAATGGTGGTTATTTTATA Found at i:910175 original size:20 final size:20 Alignment explanation
Indices: 910150--910195 Score: 56 Period size: 20 Copynumber: 2.3 Consensus size: 20 910140 AAATAGAAGC * 910150 TCCCTCCTCCCTCTCAAGTA 1 TCCCTCATCCCTCTCAAGTA * ** 910170 TCCCTCATCTCTCTCTTGTA 1 TCCCTCATCCCTCTCAAGTA 910190 TCCCTC 1 TCCCTC 910196 TTCAATTCTT Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 20 22 1.00 ACGTcount: A:0.11, C:0.48, G:0.04, T:0.37 Consensus pattern (20 bp): TCCCTCATCCCTCTCAAGTA Found at i:914611 original size:27 final size:28 Alignment explanation
Indices: 914579--914647 Score: 95 Period size: 28 Copynumber: 2.5 Consensus size: 28 914569 CACCCATTTC * 914579 TTTGTCAAAAATGGTGG-TTATTTTATG 1 TTTGTCAAAAATGGTGGTTTATTTTATA * * 914606 TTTGTCAAAAATGGTGGTTTCTTTTGTA 1 TTTGTCAAAAATGGTGGTTTATTTTATA * 914634 TTTGTCAAATATGG 1 TTTGTCAAAAATGG 914648 AGGCTTGTTT Statistics Matches: 37, Mismatches: 4, Indels: 1 0.88 0.10 0.02 Matches are distributed among these distances: 27 17 0.46 28 20 0.54 ACGTcount: A:0.25, C:0.06, G:0.22, T:0.48 Consensus pattern (28 bp): TTTGTCAAAAATGGTGGTTTATTTTATA Found at i:914637 original size:28 final size:27 Alignment explanation
Indices: 914579--914668 Score: 94 Period size: 28 Copynumber: 3.4 Consensus size: 27 914569 CACCCATTTC * 914579 TTTGTCAAAAATGGTGGTTATTTTATG 1 TTTGTCAAAAATGGTGGTTATTTTATA * * 914606 TTTGTCAAAAATGGTGGTTTCTTTTGTA 1 TTTGTCAAAAATGGTGG-TTATTTTATA * * * * 914634 TTTGTCAAATATGGAGGCT-TGTT-TA 1 TTTGTCAAAAATGGTGGTTATTTTATA 914659 TTTGTCAAAA 1 TTTGTCAAAA 914669 TTTGTGGCTA Statistics Matches: 54, Mismatches: 8, Indels: 4 0.82 0.12 0.06 Matches are distributed among these distances: 25 11 0.20 26 3 0.06 27 18 0.33 28 22 0.41 ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47 Consensus pattern (27 bp): TTTGTCAAAAATGGTGGTTATTTTATA Found at i:914749 original size:20 final size:20 Alignment explanation
Indices: 914724--914769 Score: 56 Period size: 20 Copynumber: 2.3 Consensus size: 20 914714 AAATAGAAGC * 914724 TCCCTCCTCCCTCTCAAGTA 1 TCCCTCATCCCTCTCAAGTA * ** 914744 TCCCTCATCTCTCTCTTGTA 1 TCCCTCATCCCTCTCAAGTA 914764 TCCCTC 1 TCCCTC 914770 TTCAATTCTT Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 20 22 1.00 ACGTcount: A:0.11, C:0.48, G:0.04, T:0.37 Consensus pattern (20 bp): TCCCTCATCCCTCTCAAGTA Found at i:915570 original size:104 final size:107 Alignment explanation
Indices: 915396--915607 Score: 324 Period size: 104 Copynumber: 2.0 Consensus size: 107 915386 TTAATGTCCA 915396 TTTATATACATGCATGCAAATATATATATATGTATACTGATAAAGTGTAATATTCTTAAATTTTA 1 TTTATATACATGCATGCAAATATATATATA-GTATAC-GATAAAGTGTAATATTCTTAAATTTTA * * * * 915461 AATGCATTGATAAAAAATTTTATTTTTTACATAGTTGGACCATAG 64 AATGCATCGATAAAAAA-TTTATTTTTCACACAATTGGACCATAG * 915506 TTTATATACATGCATGC-AA-ATATATATA-TATAC-ATAAAGTGTAATATTTTTAAATTTTAAA 1 TTTATATACATGCATGCAAATATATATATAGTATACGATAAAGTGTAATATTCTTAAATTTTAAA 915567 TGCATCGATAAAAAATTTATTTTTCACACAATTGGACCATA 66 TGCATCGATAAAAAATTTATTTTTCACACAATTGGACCATA 915608 CAATGAAATT Statistics Matches: 97, Mismatches: 5, Indels: 7 0.89 0.05 0.06 Matches are distributed among these distances: 103 23 0.24 104 41 0.42 106 5 0.05 108 9 0.09 109 2 0.02 110 17 0.18 ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41 Consensus pattern (107 bp): TTTATATACATGCATGCAAATATATATATAGTATACGATAAAGTGTAATATTCTTAAATTTTAAA TGCATCGATAAAAAATTTATTTTTCACACAATTGGACCATAG Found at i:915866 original size:45 final size:45 Alignment explanation
Indices: 915801--915890 Score: 135 Period size: 45 Copynumber: 2.0 Consensus size: 45 915791 CATAATAGAG * * 915801 ATGTCTATATTTAAGACTTTCAATGAAGATTATTCTTGATTGGAC 1 ATGTCTATATTCAAGACTTTCAATGAAAATTATTCTTGATTGGAC * * * 915846 ATGTCTATATTCAAGCCTTTCGATGAAAATTATTTTTGATTGGAC 1 ATGTCTATATTCAAGACTTTCAATGAAAATTATTCTTGATTGGAC 915891 TACACTTTTA Statistics Matches: 40, Mismatches: 5, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 45 40 1.00 ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42 Consensus pattern (45 bp): ATGTCTATATTCAAGACTTTCAATGAAAATTATTCTTGATTGGAC Found at i:919157 original size:16 final size:16 Alignment explanation
Indices: 919136--919168 Score: 66 Period size: 16 Copynumber: 2.1 Consensus size: 16 919126 TACTTCAAGC 919136 TTACATTGAAGATTGT 1 TTACATTGAAGATTGT 919152 TTACATTGAAGATTGT 1 TTACATTGAAGATTGT 919168 T 1 T 919169 CTTGACTGGA Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 17 1.00 ACGTcount: A:0.30, C:0.06, G:0.18, T:0.45 Consensus pattern (16 bp): TTACATTGAAGATTGT Found at i:919760 original size:10 final size:9 Alignment explanation
Indices: 919739--919783 Score: 53 Period size: 8 Copynumber: 5.4 Consensus size: 9 919729 CAAGTAACAC 919739 ATATATTAT 1 ATATATTAT 919748 AT-TATTAT 1 ATATATTAT * 919756 ATAT-TAAT 1 ATATATTAT 919764 ATATA-TAT 1 ATATATTAT 919772 ATATATT-T 1 ATATATTAT 919780 ATAT 1 ATAT 919784 CATAACATTT Statistics Matches: 31, Mismatches: 2, Indels: 7 0.77 0.05 0.17 Matches are distributed among these distances: 8 27 0.87 9 4 0.13 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (9 bp): ATATATTAT Found at i:920213 original size:21 final size:17 Alignment explanation
Indices: 920168--920209 Score: 52 Period size: 17 Copynumber: 2.6 Consensus size: 17 920158 ATCAATAAAA * 920168 AATAAAATTAAAAATAT 1 AATATAATTAAAAATAT * 920185 AATATAATTAAATA-AT 1 AATATAATTAAAAATAT 920201 AAT-TAATTA 1 AATATAATTA 920210 TAATAGACAT Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 15 6 0.26 16 5 0.22 17 12 0.52 ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36 Consensus pattern (17 bp): AATATAATTAAAAATAT Found at i:920487 original size:18 final size:20 Alignment explanation
Indices: 920448--920495 Score: 64 Period size: 18 Copynumber: 2.4 Consensus size: 20 920438 AACATTTTCA 920448 TATATTTATATTATTATTATAT 1 TATATTT-T-TTATTATTATAT 920470 TAT-TTTTTTATT-TTATAT 1 TATATTTTTTATTATTATAT 920488 TATATTTT 1 TATATTTT 920496 AATTATTTTT Statistics Matches: 25, Mismatches: 0, Indels: 5 0.83 0.00 0.17 Matches are distributed among these distances: 18 9 0.36 19 9 0.36 20 1 0.04 21 3 0.12 22 3 0.12 ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71 Consensus pattern (20 bp): TATATTTTTTATTATTATAT Found at i:920507 original size:28 final size:28 Alignment explanation
Indices: 920419--920507 Score: 85 Period size: 28 Copynumber: 3.1 Consensus size: 28 920409 TTGTGTCTCA * * 920419 TTTATTTTATA-TAGATTTTAA-CATTT 1 TTTATTTTATATTATATTTTAATTATTT * * 920445 TCATATATTTATATTAT-TATTATATTATTTT 1 T-TTAT-TTTATATTATATTTTA-ATTA-TTT 920476 TTTATTTTATATTATATTTTAATTATTT 1 TTTATTTTATATTATATTTTAATTATTT 920504 TTTA 1 TTTA 920508 CTTCATGTTC Statistics Matches: 50, Mismatches: 6, Indels: 12 0.74 0.09 0.18 Matches are distributed among these distances: 26 1 0.02 27 3 0.06 28 17 0.34 29 17 0.34 30 8 0.16 31 4 0.08 ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66 Consensus pattern (28 bp): TTTATTTTATATTATATTTTAATTATTT Found at i:920973 original size:16 final size:18 Alignment explanation
Indices: 920952--920985 Score: 54 Period size: 18 Copynumber: 2.0 Consensus size: 18 920942 ATTTGTATTG 920952 TATTTAT-A-TTATTTTA 1 TATTTATAATTTATTTTA 920968 TATTTATAATTTATTTTA 1 TATTTATAATTTATTTTA 920986 AAAAATCTTC Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 16 7 0.44 17 1 0.06 18 8 0.50 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (18 bp): TATTTATAATTTATTTTA Found at i:922007 original size:84 final size:84 Alignment explanation
Indices: 921908--922084 Score: 345 Period size: 84 Copynumber: 2.1 Consensus size: 84 921898 TTAGCAGATA * 921908 TGACTTTTATTAAAATTTTATTTTTGATGATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT 1 TGACTTTTATTAAAATTTTATTTTTGATAATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT 921973 TTTTTTCAAGTTTTTTATC 66 TTTTTTCAAGTTTTTTATC 921992 TGACTTTTATTAAAATTTTATTTTTGATAATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT 1 TGACTTTTATTAAAATTTTATTTTTGATAATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT 922057 TTTTTTCAAGTTTTTTATC 66 TTTTTTCAAGTTTTTTATC 922076 TGACTTTTA 1 TGACTTTTA 922085 AAAGTTTATA Statistics Matches: 92, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 84 92 1.00 ACGTcount: A:0.24, C:0.07, G:0.09, T:0.59 Consensus pattern (84 bp): TGACTTTTATTAAAATTTTATTTTTGATAATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT TTTTTTCAAGTTTTTTATC Found at i:923174 original size:26 final size:25 Alignment explanation
Indices: 923145--923197 Score: 79 Period size: 26 Copynumber: 2.1 Consensus size: 25 923135 TTTTTAACCT * * 923145 TATTTATTTTTATTTAATTTTTATAA 1 TATTTATTGTTATCTAATTTTTA-AA 923171 TATTTATTGTTATCTAATTTTTAAA 1 TATTTATTGTTATCTAATTTTTAAA 923196 TA 1 TA 923198 ATATTCAACA Statistics Matches: 25, Mismatches: 2, Indels: 1 0.89 0.07 0.04 Matches are distributed among these distances: 25 4 0.16 26 21 0.84 ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64 Consensus pattern (25 bp): TATTTATTGTTATCTAATTTTTAAA Found at i:923299 original size:16 final size:16 Alignment explanation
Indices: 923259--923302 Score: 51 Period size: 16 Copynumber: 3.0 Consensus size: 16 923249 TTTATATAAC * 923259 TAATTAATTAGTTATA 1 TAATTAATTACTTATA 923275 -AA-T--TTACTTATA 1 TAATTAATTACTTATA 923287 TAATTAATTACTTATA 1 TAATTAATTACTTATA 923303 CTAAAAGTTA Statistics Matches: 23, Mismatches: 1, Indels: 8 0.72 0.03 0.25 Matches are distributed among these distances: 12 8 0.35 13 2 0.09 14 2 0.09 15 2 0.09 16 9 0.39 ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50 Consensus pattern (16 bp): TAATTAATTACTTATA Found at i:923638 original size:21 final size:21 Alignment explanation
Indices: 923573--923630 Score: 107 Period size: 21 Copynumber: 2.8 Consensus size: 21 923563 AAAATATGTA 923573 TTTGGATGAAAGAATGCATTT 1 TTTGGATGAAAGAATGCATTT 923594 TTTGGATGAAAGAATGCATTT 1 TTTGGATGAAAGAATGCATTT * 923615 TTTGGATGAAAAAATG 1 TTTGGATGAAAGAATG 923631 TAACTTTTAA Statistics Matches: 36, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 21 36 1.00 ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36 Consensus pattern (21 bp): TTTGGATGAAAGAATGCATTT Found at i:926863 original size:21 final size:21 Alignment explanation
Indices: 926824--926863 Score: 53 Period size: 21 Copynumber: 1.9 Consensus size: 21 926814 AATCTTTACA * 926824 TTTTAATTTTCAAGCAAATAT 1 TTTTAATTTTCAAACAAATAT * * 926845 TTTTATTTTTCAAATAAAT 1 TTTTAATTTTCAAACAAAT 926864 TTAGTATTTT Statistics Matches: 16, Mismatches: 3, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 21 16 1.00 ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53 Consensus pattern (21 bp): TTTTAATTTTCAAACAAATAT Found at i:926945 original size:27 final size:27 Alignment explanation
Indices: 926914--926971 Score: 98 Period size: 27 Copynumber: 2.1 Consensus size: 27 926904 TTAATTTAAA * 926914 ATTAAATTTGCTAATAATGTTATTAGT 1 ATTAAATTTGCTAATAATGTTATTAGC * 926941 ATTAAATTTGTTAATAATGTTATTAGC 1 ATTAAATTTGCTAATAATGTTATTAGC 926968 ATTA 1 ATTA 926972 CACAAAACAG Statistics Matches: 29, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 27 29 1.00 ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48 Consensus pattern (27 bp): ATTAAATTTGCTAATAATGTTATTAGC Found at i:933676 original size:48 final size:48 Alignment explanation
Indices: 933624--933729 Score: 140 Period size: 48 Copynumber: 2.2 Consensus size: 48 933614 AAATAATATT * * * * 933624 AAAATTAAAACCAATCTAAAACACACGGAAAAAGCAATTGAAATCTGA 1 AAAATTAAAACCAATCCAAAACACAAGAAAAAAGCAACTGAAATCTGA * * * 933672 AAAATTAAAATCAGTCCAAAACACAAGAAAAAAGCAACTGAAATTTGA 1 AAAATTAAAACCAATCCAAAACACAAGAAAAAAGCAACTGAAATCTGA * 933720 AAAAGTAAAA 1 AAAATTAAAA 933730 AGCTGGTAAA Statistics Matches: 50, Mismatches: 8, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 48 50 1.00 ACGTcount: A:0.59, C:0.14, G:0.10, T:0.16 Consensus pattern (48 bp): AAAATTAAAACCAATCCAAAACACAAGAAAAAAGCAACTGAAATCTGA Found at i:933872 original size:14 final size:14 Alignment explanation
Indices: 933853--933882 Score: 60 Period size: 14 Copynumber: 2.1 Consensus size: 14 933843 ATTTCAGTTT 933853 TATTCACACAATCA 1 TATTCACACAATCA 933867 TATTCACACAATCA 1 TATTCACACAATCA 933881 TA 1 TA 933883 ATAATAAGCA Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 16 1.00 ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30 Consensus pattern (14 bp): TATTCACACAATCA Found at i:934737 original size:3 final size:3 Alignment explanation
Indices: 934729--934756 Score: 56 Period size: 3 Copynumber: 9.3 Consensus size: 3 934719 ATATTAGATT 934729 TTA TTA TTA TTA TTA TTA TTA TTA TTA T 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T 934757 ACATAAATAA Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 25 1.00 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (3 bp): TTA Found at i:937430 original size:18 final size:19 Alignment explanation
Indices: 937395--937430 Score: 56 Period size: 18 Copynumber: 1.9 Consensus size: 19 937385 TAATTAAATA * 937395 ATTTAATCTATTTTGTATT 1 ATTTAATCTATATTGTATT 937414 ATTTAAT-TATATTGTAT 1 ATTTAATCTATATTGTAT 937431 AAGTATTGTT Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 18 9 0.56 19 7 0.44 ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61 Consensus pattern (19 bp): ATTTAATCTATATTGTATT Found at i:938892 original size:18 final size:18 Alignment explanation
Indices: 938853--938916 Score: 67 Period size: 18 Copynumber: 3.6 Consensus size: 18 938843 TTATCAACTC * * * 938853 CAAATGTATCCTCTGCCA 1 CAAATGTATCCCCTACCT 938871 CAAATGTATCCCCTACCT 1 CAAATGTATCCCCTACCT * * 938889 CAAATATATTCTCC-ACCT 1 CAAATGTA-TCCCCTACCT 938907 CAAATGTATC 1 CAAATGTATC 938917 AACGAGAGAA Statistics Matches: 39, Mismatches: 6, Indels: 3 0.81 0.12 0.06 Matches are distributed among these distances: 17 2 0.05 18 33 0.85 19 4 0.10 ACGTcount: A:0.31, C:0.33, G:0.06, T:0.30 Consensus pattern (18 bp): CAAATGTATCCCCTACCT Found at i:939239 original size:30 final size:32 Alignment explanation
Indices: 939203--939262 Score: 81 Period size: 32 Copynumber: 1.9 Consensus size: 32 939193 ACTTTTTTAA 939203 TATGAA-TATTTTACT-ATA-ATAATAAAAAAT 1 TATGAATTATTTTACTCATATA-AATAAAAAAT * 939233 TATGAATTATTTTTCTCATATAAATAAAAA 1 TATGAATTATTTTACTCATATAAATAAAAA 939263 TTCATTATGT Statistics Matches: 26, Mismatches: 1, Indels: 4 0.84 0.03 0.13 Matches are distributed among these distances: 30 6 0.23 31 8 0.31 32 11 0.42 33 1 0.04 ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42 Consensus pattern (32 bp): TATGAATTATTTTACTCATATAAATAAAAAAT Found at i:939264 original size:31 final size:30 Alignment explanation
Indices: 939203--939262 Score: 77 Period size: 31 Copynumber: 1.9 Consensus size: 30 939193 ACTTTTTTAA 939203 TATGAATATTTTACTATAATAATAAAAAAT 1 TATGAATATTTTACTATAATAATAAAAAAT * 939233 TATGAATTATTTTTCTCAT-ATAAATAAAAA 1 TATGAA-TATTTTACT-ATAAT-AATAAAAA 939263 TTCATTATGT Statistics Matches: 26, Mismatches: 1, Indels: 4 0.84 0.03 0.13 Matches are distributed among these distances: 30 6 0.23 31 10 0.38 32 10 0.38 ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42 Consensus pattern (30 bp): TATGAATATTTTACTATAATAATAAAAAAT Found at i:941279 original size:23 final size:22 Alignment explanation
Indices: 941253--941297 Score: 56 Period size: 23 Copynumber: 2.0 Consensus size: 22 941243 TAAATAGAAT 941253 TTAT-TTAAATAATATCATCTTAA 1 TTATATTAAATAAT-T-ATCTTAA 941276 TTATAATTAAATAATTATCTTA 1 TTAT-ATTAAATAATTATCTTA 941298 TTCTACTTAT Statistics Matches: 20, Mismatches: 0, Indels: 4 0.83 0.00 0.17 Matches are distributed among these distances: 23 10 0.50 24 1 0.05 25 9 0.45 ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49 Consensus pattern (22 bp): TTATATTAAATAATTATCTTAA Found at i:941523 original size:29 final size:29 Alignment explanation
Indices: 941491--941553 Score: 90 Period size: 29 Copynumber: 2.2 Consensus size: 29 941481 TAAGGATACA * * 941491 TTTAATATTTAAACAAATTTGATCAAATT 1 TTTAATATTCAAACAAATTTGATCAAAAT * * 941520 TTTAATATTCAATCAAATTTGTTCAAAAT 1 TTTAATATTCAAACAAATTTGATCAAAAT 941549 TTTAA 1 TTTAA 941554 GACCCATTGA Statistics Matches: 30, Mismatches: 4, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 29 30 1.00 ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46 Consensus pattern (29 bp): TTTAATATTCAAACAAATTTGATCAAAAT Found at i:942763 original size:8 final size:8 Alignment explanation
Indices: 942750--942784 Score: 52 Period size: 8 Copynumber: 4.4 Consensus size: 8 942740 TGAGTCTAAG 942750 AATATATA 1 AATATATA 942758 AATATATA 1 AATATATA * 942766 TATATATA 1 AATATATA * 942774 TATATATA 1 AATATATA 942782 AAT 1 AAT 942785 GGTATAAATG Statistics Matches: 25, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 8 25 1.00 ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43 Consensus pattern (8 bp): AATATATA Found at i:942764 original size:2 final size:2 Alignment explanation
Indices: 942751--942781 Score: 53 Period size: 2 Copynumber: 15.5 Consensus size: 2 942741 GAGTCTAAGA * 942751 AT AT AT AA 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 A 942782 AATGGTATAA Statistics Matches: 27, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 2 27 1.00 ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45 Consensus pattern (2 bp): AT Found at i:950374 original size:24 final size:27 Alignment explanation
Indices: 950301--950371 Score: 99 Period size: 27 Copynumber: 2.6 Consensus size: 27 950291 AAACAAGCCT * * 950301 CCATATTTGACAAATACAAAGGA-AACCA 1 CCATTTTTGACAAACACAAA--ATAACCA 950329 CCATTTTTGACAAACACAAAATAACCA 1 CCATTTTTGACAAACACAAAATAACCA 950356 CCATTTTTGACAAACA 1 CCATTTTTGACAAACA 950372 AATGGGTGGC Statistics Matches: 40, Mismatches: 2, Indels: 3 0.89 0.04 0.07 Matches are distributed among these distances: 26 1 0.03 27 21 0.52 28 18 0.45 ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23 Consensus pattern (27 bp): CCATTTTTGACAAACACAAAATAACCA Found at i:954922 original size:24 final size:27 Alignment explanation
Indices: 954849--954919 Score: 99 Period size: 27 Copynumber: 2.6 Consensus size: 27 954839 AAACAAGCCT * * 954849 CCATATTTGACAAATACAAAGGA-AACCA 1 CCATTTTTGACAAACACAAA--ATAACCA 954877 CCATTTTTGACAAACACAAAATAACCA 1 CCATTTTTGACAAACACAAAATAACCA 954904 CCATTTTTGACAAACA 1 CCATTTTTGACAAACA 954920 AATGGGTGGC Statistics Matches: 40, Mismatches: 2, Indels: 3 0.89 0.04 0.07 Matches are distributed among these distances: 26 1 0.03 27 21 0.52 28 18 0.45 ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23 Consensus pattern (27 bp): CCATTTTTGACAAACACAAAATAACCA Found at i:956528 original size:16 final size:18 Alignment explanation
Indices: 956497--956533 Score: 60 Period size: 17 Copynumber: 2.2 Consensus size: 18 956487 AATTTCCGAA 956497 TATCAAAACTAAATTT-T 1 TATCAAAACTAAATTTAT 956514 TATCAAAAC-AAATTTAT 1 TATCAAAACTAAATTTAT 956531 TAT 1 TAT 956534 TCCGTGTAGG Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 16 6 0.32 17 13 0.68 ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41 Consensus pattern (18 bp): TATCAAAACTAAATTTAT Found at i:956822 original size:2 final size:2 Alignment explanation
Indices: 956815--956854 Score: 80 Period size: 2 Copynumber: 20.0 Consensus size: 2 956805 AAACTCCTCT 956815 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 956855 GATGAAAGAA Statistics Matches: 38, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 38 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): TA Found at i:958353 original size:22 final size:23 Alignment explanation
Indices: 958317--958375 Score: 84 Period size: 22 Copynumber: 2.6 Consensus size: 23 958307 ATTTAAGGTT * 958317 TAAAAATATATTATTATTTTTAAA 1 TAAAAATA-ATTATTATTTTAAAA * 958341 T-ATAATAATTATTATTTTAAAA 1 TAAAAATAATTATTATTTTAAAA 958363 TAAAAATAATTAT 1 TAAAAATAATTAT 958376 ATAAATAAGA Statistics Matches: 31, Mismatches: 3, Indels: 3 0.84 0.08 0.08 Matches are distributed among these distances: 22 15 0.48 23 15 0.48 24 1 0.03 ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47 Consensus pattern (23 bp): TAAAAATAATTATTATTTTAAAA Found at i:958374 original size:20 final size:21 Alignment explanation
Indices: 958329--958375 Score: 60 Period size: 20 Copynumber: 2.2 Consensus size: 21 958319 AAAATATATT * * 958329 ATTATTTTTAAATATAATAATT 1 ATTA-TTTTAAATATAAAAATA 958351 ATTATTTTAAA-ATAAAAATA 1 ATTATTTTAAATATAAAAATA 958371 ATTAT 1 ATTAT 958376 ATAAATAAGA Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 20 12 0.52 21 7 0.30 22 4 0.17 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (21 bp): ATTATTTTAAATATAAAAATA Found at i:958418 original size:23 final size:22 Alignment explanation
Indices: 958388--958433 Score: 58 Period size: 23 Copynumber: 2.0 Consensus size: 22 958378 AAATAAGACA * 958388 TAAATAATTTA-TTAATACATTT 1 TAAATAATATATTTAAT-CATTT 958410 TAAAGTAATATATTTAATCATTT 1 TAAA-TAATATATTTAATCATTT 958433 T 1 T 958434 TTTTCTATCC Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 22 4 0.19 23 12 0.57 24 5 0.24 ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50 Consensus pattern (22 bp): TAAATAATATATTTAATCATTT Found at i:958773 original size:8 final size:8 Alignment explanation
Indices: 958749--958798 Score: 52 Period size: 8 Copynumber: 6.6 Consensus size: 8 958739 AATAAAAAAT * 958749 TATTTTTA 1 TATTTATA 958757 TA-TTA-A 1 TATTTATA 958763 TATTTATA 1 TATTTATA * 958771 TATTTTTA 1 TATTTATA * 958779 TAATTA-A 1 TATTTATA 958786 TATTTATA 1 TATTTATA 958794 TATTT 1 TATTT 958799 TTTAAAATAT Statistics Matches: 34, Mismatches: 5, Indels: 6 0.76 0.11 0.13 Matches are distributed among these distances: 6 3 0.09 7 11 0.32 8 20 0.59 ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64 Consensus pattern (8 bp): TATTTATA Found at i:958784 original size:23 final size:22 Alignment explanation
Indices: 958749--958800 Score: 95 Period size: 23 Copynumber: 2.3 Consensus size: 22 958739 AATAAAAAAT 958749 TATTTTTATATTAATATTTATA 1 TATTTTTATATTAATATTTATA 958771 TATTTTTATAATTAATATTTATA 1 TATTTTTAT-ATTAATATTTATA 958794 TATTTTT 1 TATTTTT 958801 TAAAATATCA Statistics Matches: 29, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 22 9 0.31 23 20 0.69 ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65 Consensus pattern (22 bp): TATTTTTATATTAATATTTATA Found at i:958855 original size:20 final size:20 Alignment explanation
Indices: 958810--958857 Score: 55 Period size: 20 Copynumber: 2.4 Consensus size: 20 958800 TTAAAATATC 958810 AAAATATAATCTAAATTAAAT 1 AAAATATAA-CTAAATTAAAT * 958831 -TAATATAA-TAAATTAAAT 1 AAAATATAACTAAATTAAAT 958849 AAAAATATA 1 -AAAATATA 958858 TTTAAAATTC Statistics Matches: 23, Mismatches: 2, Indels: 5 0.77 0.07 0.17 Matches are distributed among these distances: 18 10 0.43 20 13 0.57 ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33 Consensus pattern (20 bp): AAAATATAACTAAATTAAAT Found at i:963280 original size:2 final size:2 Alignment explanation
Indices: 963273--963300 Score: 56 Period size: 2 Copynumber: 14.0 Consensus size: 2 963263 GTGTATCCCC 963273 CT CT CT CT CT CT CT CT CT CT CT CT CT CT 1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT 963301 ATATATATAT Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 26 1.00 ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50 Consensus pattern (2 bp): CT Found at i:963305 original size:2 final size:2 Alignment explanation
Indices: 963300--963344 Score: 90 Period size: 2 Copynumber: 22.5 Consensus size: 2 963290 TCTCTCTCTC 963300 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 963342 TA T 1 TA T 963345 GAGAAGGGAT Statistics Matches: 43, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 43 1.00 ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51 Consensus pattern (2 bp): TA Found at i:963781 original size:2 final size:2 Alignment explanation
Indices: 963776--963806 Score: 62 Period size: 2 Copynumber: 15.5 Consensus size: 2 963766 TCTCTCTCTC 963776 TA TA 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 TA TA T 963807 GAGAAGGGAT Statistics Matches: 29, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 29 1.00 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (2 bp): TA Found at i:964614 original size:2 final size:2 Alignment explanation
Indices: 964609--964650 Score: 84 Period size: 2 Copynumber: 21.0 Consensus size: 2 964599 TTAATTTAAT 964609 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 964651 AAACCTGGAG Statistics Matches: 40, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 40 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): TA Found at i:965211 original size:3 final size:3 Alignment explanation
Indices: 965203--965239 Score: 74 Period size: 3 Copynumber: 12.3 Consensus size: 3 965193 TTTTGATTGC 965203 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T 1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T 965240 CAAATGGAAT Statistics Matches: 34, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 34 1.00 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (3 bp): TAT Found at i:967199 original size:13 final size:13 Alignment explanation
Indices: 967181--967205 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 967171 CATAAAGTGT 967181 TGTATCGATACAA 1 TGTATCGATACAA 967194 TGTATCGATACA 1 TGTATCGATACA 967206 TATTTTTTTG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:967203 original size:33 final size:33 Alignment explanation
Indices: 967161--967227 Score: 98 Period size: 33 Copynumber: 2.0 Consensus size: 33 967151 TTCAACGATT 967161 TGTATCGATACATAAAGTGTTGTATCGATACAA 1 TGTATCGATACATAAAGTGTTGTATCGATACAA *** * 967194 TGTATCGATACATATTTTTTTGTATCGATACAA 1 TGTATCGATACATAAAGTGTTGTATCGATACAA 967227 T 1 T 967228 TTAAGCTACT Statistics Matches: 30, Mismatches: 4, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 33 30 1.00 ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40 Consensus pattern (33 bp): TGTATCGATACATAAAGTGTTGTATCGATACAA Found at i:967286 original size:13 final size:13 Alignment explanation
Indices: 967268--967295 Score: 56 Period size: 13 Copynumber: 2.2 Consensus size: 13 967258 ATTACTCAAA 967268 TGTATCGATACAT 1 TGTATCGATACAT 967281 TGTATCGATACAT 1 TGTATCGATACAT 967294 TG 1 TG 967296 ATCTTTGTAT Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 15 1.00 ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39 Consensus pattern (13 bp): TGTATCGATACAT Found at i:967345 original size:52 final size:52 Alignment explanation
Indices: 967301--967452 Score: 250 Period size: 52 Copynumber: 2.9 Consensus size: 52 967291 CATTGATCTT * 967301 TGTATCGATACATGCAGGCAAGTTTGCCCAGATGTATCGATACATTATAAAA 1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA * 967353 TGTATCCATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA 1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA * 967405 TGTATCGATACATGTAGGCAAATTTGCCCAGATAGTGTATCGATACAT 1 TGTATCGATACATGCAGGCAAATTTGCCCAG--A-TGTATCGATACAT 967453 GCAGGCAAAT Statistics Matches: 93, Mismatches: 4, Indels: 3 0.93 0.04 0.03 Matches are distributed among these distances: 52 79 0.85 54 1 0.01 55 13 0.14 ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30 Consensus pattern (52 bp): TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA Found at i:970972 original size:29 final size:29 Alignment explanation
Indices: 970940--971001 Score: 81 Period size: 30 Copynumber: 2.1 Consensus size: 29 970930 TGAATTTAAA * 970940 AATAATT-TTACTTATTTTTTTAAAGTTT 1 AATAATTATTACTTATTTTTTTAAAATTT * * 970968 GAATAATTATTTCTTTTTTTTTTAAAATTT 1 -AATAATTATTACTTATTTTTTTAAAATTT 970998 AATA 1 AATA 971002 TCAAATATAT Statistics Matches: 29, Mismatches: 3, Indels: 2 0.85 0.09 0.06 Matches are distributed among these distances: 29 11 0.38 30 18 0.62 ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60 Consensus pattern (29 bp): AATAATTATTACTTATTTTTTTAAAATTT Found at i:971559 original size:23 final size:21 Alignment explanation
Indices: 971523--971564 Score: 57 Period size: 23 Copynumber: 1.9 Consensus size: 21 971513 TCATTATCAC * 971523 TAATTTTTAAATAATAATAAT 1 TAATTTTTAAATAAAAATAAT 971544 TAATTTATTGAAATAAAAATA 1 TAATTT-TT-AAATAAAAATA 971565 TTTTAATAAA Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 21 6 0.33 22 2 0.11 23 10 0.56 ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43 Consensus pattern (21 bp): TAATTTTTAAATAAAAATAAT Found at i:972190 original size:17 final size:18 Alignment explanation
Indices: 972168--972205 Score: 51 Period size: 17 Copynumber: 2.2 Consensus size: 18 972158 AGTTGTCTAC * 972168 TATTATTATT-ATAATAT 1 TATTATTATTAAAAATAT * 972185 TATTATTTTTAAAAATAT 1 TATTATTATTAAAAATAT 972203 TAT 1 TAT 972206 AAGAGTTATT Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 17 9 0.50 18 9 0.50 ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58 Consensus pattern (18 bp): TATTATTATTAAAAATAT Found at i:975386 original size:20 final size:22 Alignment explanation
Indices: 975349--975393 Score: 58 Period size: 20 Copynumber: 2.1 Consensus size: 22 975339 AGATATAGAT * 975349 AAAATAGATAGATAAAAAATAA 1 AAAATAGATAGATAAAAAAGAA * 975371 AAAATA-ATA-ATGAAAAAGAA 1 AAAATAGATAGATAAAAAAGAA 975391 AAA 1 AAA 975394 GAAAAAGAAA Statistics Matches: 21, Mismatches: 2, Indels: 2 0.84 0.08 0.08 Matches are distributed among these distances: 20 12 0.57 21 3 0.14 22 6 0.29 ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16 Consensus pattern (22 bp): AAAATAGATAGATAAAAAAGAA Found at i:988381 original size:60 final size:60 Alignment explanation
Indices: 988288--988440 Score: 297 Period size: 60 Copynumber: 2.5 Consensus size: 60 988278 ATAAGCTAAT 988288 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGAAAAAA 1 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGAAAAAA * 988348 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGACAAAA 1 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGAAAAAA 988408 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAG 1 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAG 988441 AAAATGTAGA Statistics Matches: 92, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 60 92 1.00 ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31 Consensus pattern (60 bp): AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGAAAAAA Found at i:989911 original size:13 final size:13 Alignment explanation
Indices: 989893--989919 Score: 54 Period size: 13 Copynumber: 2.1 Consensus size: 13 989883 ACATTATGCT 989893 TTATATCGATACA 1 TTATATCGATACA 989906 TTATATCGATACA 1 TTATATCGATACA 989919 T 1 T 989920 GTTCATTGTA Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 14 1.00 ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41 Consensus pattern (13 bp): TTATATCGATACA Found at i:989931 original size:19 final size:19 Alignment explanation
Indices: 989904--989959 Score: 76 Period size: 19 Copynumber: 2.9 Consensus size: 19 989894 TATATCGATA * * 989904 CATTATATCGATACATGTT 1 CATTGTATCGATACATGCT * 989923 CATTGTATCGATACATACT 1 CATTGTATCGATACATGCT 989942 CAATTGTATCGATACATG 1 C-ATTGTATCGATACATG 989960 AAAGTGACAG Statistics Matches: 32, Mismatches: 4, Indels: 1 0.86 0.11 0.03 Matches are distributed among these distances: 19 17 0.53 20 15 0.47 ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38 Consensus pattern (19 bp): CATTGTATCGATACATGCT Found at i:991629 original size:3 final size:3 Alignment explanation
Indices: 991614--991648 Score: 52 Period size: 3 Copynumber: 11.7 Consensus size: 3 991604 AACTATCAAA * * 991614 GAT GAT GAA GAT GAT GAT GAT GAT GAT AAT GAT GA 1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA 991649 GGTTGACTCG Statistics Matches: 28, Mismatches: 4, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 3 28 1.00 ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29 Consensus pattern (3 bp): GAT Found at i:993212 original size:30 final size:30 Alignment explanation
Indices: 993176--993281 Score: 90 Period size: 30 Copynumber: 3.5 Consensus size: 30 993166 CATTGTTCAT 993176 TGTATCGATACATTCTGGGTTTTATCCAGA 1 TGTATCGATACATTCTGGGTTTTATCCAGA * * *** * * * 993206 TGTATCGATATATTGTTCATTGTATCGATACA 1 TGTATCGATACATTCTGGGTTTTATC--CAGA 993238 TTGTATCGATACATTCTGGG-TTTA-CCTAGA 1 -TGTATCGATACATTCTGGGTTTTATCC-AGA 993268 TGTATCGATACATT 1 TGTATCGATACATT 993282 TTTCAATGCA Statistics Matches: 56, Mismatches: 16, Indels: 9 0.69 0.20 0.11 Matches are distributed among these distances: 29 14 0.25 30 22 0.39 31 1 0.02 32 5 0.09 33 14 0.25 ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42 Consensus pattern (30 bp): TGTATCGATACATTCTGGGTTTTATCCAGA Found at i:993241 original size:13 final size:13 Alignment explanation
Indices: 993223--993252 Score: 60 Period size: 13 Copynumber: 2.3 Consensus size: 13 993213 ATATATTGTT 993223 CATTGTATCGATA 1 CATTGTATCGATA 993236 CATTGTATCGATA 1 CATTGTATCGATA 993249 CATT 1 CATT 993253 CTGGGTTTAC Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 17 1.00 ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40 Consensus pattern (13 bp): CATTGTATCGATA Found at i:993300 original size:62 final size:63 Alignment explanation
Indices: 993173--993301 Score: 199 Period size: 62 Copynumber: 2.1 Consensus size: 63 993163 ATACATTGTT * * * 993173 CATTGTATCGATACATTCTGGGTTTTATCCAGATGTATCGATATATTGTTCATTGTATCGATA 1 CATTGTATCGATACATTCTGGGTTTTATCCAGATGTATCGATACATTGTTCAATGCATCGATA * 993236 CATTGTATCGATACATTCTGGG-TTTA-CCTAGATGTATCGATACATTTTTCAATGCATCGATA 1 CATTGTATCGATACATTCTGGGTTTTATCC-AGATGTATCGATACATTGTTCAATGCATCGATA 993298 CATT 1 CATT 993302 CAGGCATTTT Statistics Matches: 61, Mismatches: 4, Indels: 3 0.90 0.06 0.04 Matches are distributed among these distances: 61 2 0.03 62 37 0.61 63 22 0.36 ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41 Consensus pattern (63 bp): CATTGTATCGATACATTCTGGGTTTTATCCAGATGTATCGATACATTGTTCAATGCATCGATA Found at i:994769 original size:1 final size:1 Alignment explanation
Indices: 994763--994820 Score: 53 Period size: 1 Copynumber: 58.0 Consensus size: 1 994753 ACATTGCTTT * * * * * * * 994763 AAAAAAAATAAAACAAAACAAAACAAAAAAACAAAAAAAATAAAAAAAAAGAAAAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 994821 GAGAAAAGAA Statistics Matches: 43, Mismatches: 14, Indels: 0 0.75 0.25 0.00 Matches are distributed among these distances: 1 43 1.00 ACGTcount: A:0.88, C:0.07, G:0.02, T:0.03 Consensus pattern (1 bp): A Found at i:994785 original size:10 final size:9 Alignment explanation
Indices: 994763--994820 Score: 59 Period size: 9 Copynumber: 6.6 Consensus size: 9 994753 ACATTGCTTT 994763 AAAAA-AAA 1 AAAAACAAA * 994771 TAAAACAAA 1 AAAAACAAA 994780 ACAAAAC-AA 1 A-AAAACAAA 994789 AAAAACAAA 1 AAAAACAAA * 994798 AAAAATAAA 1 AAAAACAAA 994807 AAAAA-AGAA 1 AAAAACA-AA 994816 AAAAA 1 AAAAA 994821 GAGAAAAGAA Statistics Matches: 43, Mismatches: 3, Indels: 7 0.81 0.06 0.13 Matches are distributed among these distances: 8 10 0.23 9 28 0.65 10 5 0.12 ACGTcount: A:0.88, C:0.07, G:0.02, T:0.03 Consensus pattern (9 bp): AAAAACAAA Found at i:994793 original size:18 final size:17 Alignment explanation
Indices: 994763--994819 Score: 64 Period size: 17 Copynumber: 3.4 Consensus size: 17 994753 ACATTGCTTT * 994763 AAAAAA-AATAAAACAA 1 AAAAAACAAAAAAACAA 994779 AACAAAACAAAAAAACAA 1 AA-AAAACAAAAAAACAA * 994797 AAAAAATAAAAAAA-AA 1 AAAAAACAAAAAAACAA 994813 GAAAAAA 1 -AAAAAA 994820 AGAGAAAAGA Statistics Matches: 36, Mismatches: 2, Indels: 5 0.84 0.05 0.12 Matches are distributed among these distances: 16 4 0.11 17 21 0.58 18 11 0.31 ACGTcount: A:0.88, C:0.07, G:0.02, T:0.04 Consensus pattern (17 bp): AAAAAACAAAAAAACAA Found at i:994819 original size:19 final size:20 Alignment explanation
Indices: 994787--994835 Score: 64 Period size: 19 Copynumber: 2.5 Consensus size: 20 994777 AAAACAAAAC * * 994787 AAAAAAACAAAAAAA-ATAA 1 AAAAAAAGAAAAAAAGAGAA 994806 AAAAAAAGAAAAAAAGAGAA 1 AAAAAAAGAAAAAAAGAGAA * 994826 AAGAAAAGAA 1 AAAAAAAGAA 994836 CCTACTTAAG Statistics Matches: 26, Mismatches: 3, Indels: 1 0.87 0.10 0.03 Matches are distributed among these distances: 19 14 0.54 20 12 0.46 ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02 Consensus pattern (20 bp): AAAAAAAGAAAAAAAGAGAA Found at i:994835 original size:10 final size:9 Alignment explanation
Indices: 994787--994835 Score: 53 Period size: 10 Copynumber: 5.1 Consensus size: 9 994777 AAAACAAAAC * 994787 AAAAAAACA 1 AAAAAAAGA * 994796 AAAAAAATAA 1 AAAAAAA-GA 994806 AAAAAAAGA 1 AAAAAAAGA 994815 AAAAAAGAGA 1 AAAAAA-AGA 994825 AAAGAAAAGA 1 AAA-AAAAGA 994835 A 1 A 994836 CCTACTTAAG Statistics Matches: 35, Mismatches: 2, Indels: 5 0.83 0.05 0.12 Matches are distributed among these distances: 9 14 0.40 10 18 0.51 11 3 0.09 ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02 Consensus pattern (9 bp): AAAAAAAGA Found at i:996043 original size:61 final size:62 Alignment explanation
Indices: 995912--996060 Score: 183 Period size: 61 Copynumber: 2.4 Consensus size: 62 995902 AGGATGCCTT * * * * * * 995912 TTAAAGCCCACACAAGTTAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGACATCTTTTCCTT 1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTAAAAAAGCAGGACACCTTCTCCTC * * * *** 995974 TTAAAGCCCACACAGGTTGGTGGCACCTTTC-GGTCCTCAAAAAGCAGGGTGCCTTCTCCTC 1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTAAAAAAGCAGGACACCTTCTCCTC 996035 TTAAAGCCCACACAAGTTGGTGGCAC 1 TTAAAGCCCACACAAGTTGGTGGCAC 996061 TTCCCAATCC Statistics Matches: 74, Mismatches: 13, Indels: 1 0.84 0.15 0.01 Matches are distributed among these distances: 61 46 0.62 62 28 0.38 ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27 Consensus pattern (62 bp): TTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTAAAAAAGCAGGACACCTTCTCCTC Found at i:996072 original size:61 final size:60 Alignment explanation
Indices: 995912--996084 Score: 175 Period size: 61 Copynumber: 2.8 Consensus size: 60 995902 AGGATGCCTT * * * * * * * 995912 TTAAAGCCCACACAAGTTAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGACATCTTTTCCTT 1 TTAAAGCCCACACAAGTTGGTGGCAC--TTCCAGTCCTCAAAAAGCAGGACACCTTCTCCTC * * * *** 995974 TTAAAGCCCACACAGGTTGGTGGCACCTTTCGGTCCTCAAAAAGCAGGGTGCCTTCTCCTC 1 TTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAAAGCAGGACACCTTCTCCTC * * 996035 TTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGAC 1 TTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAAAGCAGGAC 996085 GCTCTCTTCT Statistics Matches: 89, Mismatches: 20, Indels: 5 0.78 0.18 0.04 Matches are distributed among these distances: 60 3 0.03 61 62 0.70 62 23 0.26 63 1 0.01 ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25 Consensus pattern (60 bp): TTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAAAGCAGGACACCTTCTCCTC Found at i:996269 original size:210 final size:211 Alignment explanation
Indices: 995784--996295 Score: 642 Period size: 217 Copynumber: 2.4 Consensus size: 211 995774 TCCTTTCACT * * * * * 995784 TTTCAATCCTCAAATAGCAAGATGCCTTCTCTTTTTAAAGCCCACACAAGTTAGTGGCACTTTCT 1 TTTCAGTCCTCAAA-AACAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCC * * * 995849 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCATCCTTTAGTCCTCAAAGAGCAGGATGCCTTTT 64 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTC * * 995914 AAAGCCCACACAAGTTAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGACATCTTTTCCTTTTAAA 129 AAAGCCCACACAAGTGAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGA-ATC--TGCCTTTTAAA * 995979 GCCCACACAGGTTGGTGGCACC 191 GCCCACACAAGTTGGTGGCA-C * * * * 996001 TTTCGGTCCTCAAAAAGCAGGGTGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCC 1 TTTCAGTCCTCAAAAA-CAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT-CC * * * 996066 AATCCTCAAAGAGCAGGACGCTCTCTTCTTTCACCCTTTAGTCCTCAAAGTGCAGGACGCCTTTC 64 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTC * * * 996131 AAAGCCCACACCAGCTGA-TGGCA-TTTTCTAGTCCTCAAAGAGTAGG-A-C-GCCTTTTAAAGC 129 AAAGCCCACACAAG-TGAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGAATCTGCCTTTTAAAGC 996191 CCACACAAGTTGGTGGCAC 193 CCACACAAGTTGGTGGCAC * 996210 TTTCCAGTCCTCAAAGAACAGGATGCCATT-TCTTTTTAAAGCCCACACAAGCTGGTGGCACCTT 1 TTT-CAGTCCTCAAA-AACAGGATGCC-TTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTT * * 996274 -CAGTCCTCAAAAAGTAGGACGC 62 CCAGTCCTCAAAGAGCAGGACGC 996296 CTTTTCCTTT Statistics Matches: 259, Mismatches: 29, Indels: 22 0.84 0.09 0.07 Matches are distributed among these distances: 209 23 0.09 210 73 0.28 211 7 0.03 213 1 0.00 214 1 0.00 216 24 0.09 217 128 0.49 218 2 0.01 ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27 Consensus pattern (211 bp): TTTCAGTCCTCAAAAACAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAG TCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAA AGCCCACACAAGTGAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGAATCTGCCTTTTAAAGCCCA CACAAGTTGGTGGCAC Found at i:996306 original size:61 final size:61 Alignment explanation
Indices: 996105--996552 Score: 476 Period size: 61 Copynumber: 7.5 Consensus size: 61 996095 TTCACCCTTT * * * * 996105 AGTCCTCAAAGTGCAGGACGCC-TTTC-----AAAGCCCACACCAGCTGATGGCA-TTTTC 1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC * * 996159 TAGTCCTCAAAGAGTAGGACG-C----C-TTTTAAAGCCCACACAAGTTGGTGGCACTTTCC 1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC * * * * * 996215 AGTCCTCAAAGAACAGGATGCCATTTCTTTTTAAAGCCCACACAAGCTGGTGGCAC-CTTC 1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC * * * 996275 AGTCCTCAAAAAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC 1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC * * * * * * 996336 ATTCCTCAAGGGGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACTTTTC 1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC * ** * * 996397 TAGACCTCAAAGAGCAGGACATCTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT- 1 -AGTCCTCAAAGAGCAGGACGCCTTTTCT-TTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTC * * * * 996460 AGTCCTCAAAGAGCAGGACGGCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT 1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC * * 996521 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT 1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTT 996553 CTCCTTTGCC Statistics Matches: 330, Mismatches: 47, Indels: 26 0.82 0.12 0.06 Matches are distributed among these distances: 51 1 0.00 54 1 0.00 55 55 0.17 56 5 0.02 60 57 0.17 61 138 0.42 62 43 0.13 63 25 0.08 64 5 0.02 ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28 Consensus pattern (61 bp): AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC Found at i:996326 original size:121 final size:122 Alignment explanation
Indices: 996101--996552 Score: 497 Period size: 124 Copynumber: 3.8 Consensus size: 122 996091 TTCTTTCACC * * 996101 CTTT-AGTCCTCAAAGTGCAGGACGCC-TTTC-----AAAGCCCACACCAGCTGATGGCA-TTTT 1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTTT * 996158 CTAGTCCTCAAAGAGTAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCA 66 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * * * 996209 CTTTCCAGTCCTCAAAGAACAGGATGCCATTTCTTTTTAAAGCCCACACAAGCTGGTGGCAC-CT 1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTT * * 996273 TC-AGTCCTCAAAAAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA 65 TCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * * * * 996330 CTTTTCATTCCTCAAGGGGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACTTT 1 C-TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTT * * * * * 996395 TCTAGACCTCAAAGAGCAGGACATCTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA 65 TCTAGTCCTCAAAGAGCAGGAC-GCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA * * * * * * 996454 CCTTTTAGTCCTCAAAGAGCAGGACGGCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTT 1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTT * 996519 T-TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT 65 TCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT 996553 CTCCTTTGCC Statistics Matches: 284, Mismatches: 40, Indels: 26 0.81 0.11 0.07 Matches are distributed among these distances: 108 4 0.01 110 19 0.07 111 4 0.01 115 19 0.07 116 24 0.08 121 77 0.27 122 16 0.06 123 34 0.12 124 86 0.30 125 1 0.00 ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29 Consensus pattern (122 bp): CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTTT CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA Found at i:996510 original size:185 final size:182 Alignment explanation
Indices: 996125--996552 Score: 512 Period size: 185 Copynumber: 2.4 Consensus size: 182 996115 GTGCAGGACG * * * * * 996125 CCTTTCAAAGCCCACACCAGCTGATGGCA-TTTTCTAGTCCTCAAAGAGTAGGACG------CCT 1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCT * * ** 996183 TTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAACAGGATGCCATTTCTTTTTA 65 TTTAAAGCCCACACAAGTTGATGGCACTTTCCAGACCTCAAAGAACAGGACACCATTTCTTTTTA * 996248 AAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGTAGGACGCCTTTT 130 AAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTTT * * * * 996301 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCATTCCTCAAGGGGCAGGACGCTTTTTCCTT 1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTT * * * * * 996366 TTAAAGCCCACACAAGTTGATGGCACTTTTCTAGACCTCAAAGAGCAGGACATCTTTTTTCTTTT 66 TTAAAGCCCACACAAGTTGATGGCAC-TTTCCAGACCTCAAAGAACAGGACACCATTTCT-TTTT * * * * * 996431 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGGCTTTT 129 AAAGCCCACACAAGCTGGTGGCACC-TTCAGTCCTCAAAAAGCAGGACGCCTTTT * * * 996486 -CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCT 1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCT 996550 TTT 65 TTT 996553 CTCCTTTGCC Statistics Matches: 211, Mismatches: 30, Indels: 13 0.83 0.12 0.05 Matches are distributed among these distances: 176 41 0.19 177 5 0.02 182 29 0.14 183 25 0.12 184 32 0.15 185 79 0.37 ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29 Consensus pattern (182 bp): CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTT TTAAAGCCCACACAAGTTGATGGCACTTTCCAGACCTCAAAGAACAGGACACCATTTCTTTTTAA AGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTTT Found at i:996572 original size:37 final size:36 Alignment explanation
Indices: 996531--996601 Score: 115 Period size: 37 Copynumber: 1.9 Consensus size: 36 996521 AGTCCTCAAA 996531 GAGCAGGATGCCTTTTCCTTTTCTCCTTTGCCCTCTT 1 GAGCAGGATGCCTTTTCCTTTT-TCCTTTGCCCTCTT * * 996568 GAGCAGGATGCCTTTTTCTTTTTCCTTTGTCCTC 1 GAGCAGGATGCCTTTTCCTTTTTCCTTTGCCCTC 996602 AAAGAGTAGG Statistics Matches: 32, Mismatches: 2, Indels: 1 0.91 0.06 0.03 Matches are distributed among these distances: 36 11 0.34 37 21 0.66 ACGTcount: A:0.08, C:0.30, G:0.17, T:0.45 Consensus pattern (36 bp): GAGCAGGATGCCTTTTCCTTTTTCCTTTGCCCTCTT Found at i:996717 original size:41 final size:41 Alignment explanation
Indices: 996585--996900 Score: 204 Period size: 41 Copynumber: 7.8 Consensus size: 41 996575 ATGCCTTTTT * * * * 996585 CTTTTTCCTTTGTCCTCAAAGAGTAGGACACATTTCATTTTC 1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTT-AATTTC * * * * ** 996627 TTCTTTTCCATTTTGTCCTCGAAGAGCATGATGCTTTTTTTTTC 1 CT-TTTTCC--TTTGTCCTCAAAGAGCATGACGCATTTAATTTC * * * 996671 TTTTTTCCTCTGTCCTCAAAGAGCAAGACGCACTTT-ATTTC 1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGCA-TTTAATTTC ** * * * 996712 CTTTTT--TTCCTTCT-ATAG-G-ATG-CAC-TTT-ATTCTC 1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTAATT-TC * 996746 CTTTTTCCTTTGTCCTCAGAA-AGCATGACACATTTAATTTC 1 CTTTTTCCTTTGTCCTCA-AAGAGCATGACGCATTTAATTTC * * * * 996787 CTTTTTCCTTTGTCTTCAAAGGGCAAGATGCATTTAATTTC 1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTAATTTC * * * * 996828 CTTTTTTCCTTAGTCCCCAAAGAGCATGACCCATTTCATTCTC 1 C-TTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTAATT-TC ** * 996871 C-TTTTCCTTAATCCTCAAAGAGCAGGACGC 1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGC 996901 CTCCTTCCTT Statistics Matches: 214, Mismatches: 43, Indels: 35 0.73 0.15 0.12 Matches are distributed among these distances: 33 6 0.03 34 8 0.04 35 2 0.01 36 7 0.03 37 2 0.01 38 5 0.02 39 7 0.03 40 5 0.02 41 92 0.43 42 37 0.17 43 15 0.07 44 7 0.03 45 21 0.10 ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42 Consensus pattern (41 bp): CTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTAATTTC Found at i:996889 original size:83 final size:83 Alignment explanation
Indices: 996730--996890 Score: 195 Period size: 83 Copynumber: 1.9 Consensus size: 83 996720 CCTTCTATAG * * 996730 GATGCACTTTATTCTCCTTTTTCCTTTGTCCTCAGAAAGCATGACACATTTAATTTCCTTTTTCC 1 GATGCACTTTATTCTCCTTTTTCCTTAGTCCCCAGAAAGCATGACACATTTAATTTCCTTTTTCC ** * 996795 TTTGTCTTCAAAGGGCAA 66 TTAATCCTCAAAGGGCAA * * 996813 GATGCA-TTTAATT-TCCTTTTTTCCTTAGTCCCCA-AAGAGCATGACCCATTTCATTCTCC-TT 1 GATGCACTTT-ATTCTCC-TTTTTCCTTAGTCCCCAGAA-AGCATGACACATTTAATT-TCCTTT 996874 TTCCTTAATCCTCAAAG 62 TTCCTTAATCCTCAAAG 996891 AGCAGGACGC Statistics Matches: 67, Mismatches: 7, Indels: 8 0.82 0.09 0.10 Matches are distributed among these distances: 82 8 0.12 83 56 0.84 84 3 0.04 ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41 Consensus pattern (83 bp): GATGCACTTTATTCTCCTTTTTCCTTAGTCCCCAGAAAGCATGACACATTTAATTTCCTTTTTCC TTAATCCTCAAAGGGCAA Found at i:997510 original size:13 final size:13 Alignment explanation
Indices: 997494--997519 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 997484 ATACATTGTT 997494 CATTGTATCGATA 1 CATTGTATCGATA 997507 CATTGTATCGATA 1 CATTGTATCGATA 997520 TATTCAGGCA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38 Consensus pattern (13 bp): CATTGTATCGATA Done.