Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Chr9 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: 48574783 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32 Warning! 2023350 characters in sequence are not A, C, G, or T File 135 of 135 Found at i:48292508 original size:27 final size:27 Alignment explanation
Indices: 48292468--48292523 Score: 103 Period size: 27 Copynumber: 2.1 Consensus size: 27 48292458 TACTACTCAA 48292468 AATCTTGAGAAAGAAAAGTAATGGAGT 1 AATCTTGAGAAAGAAAAGTAATGGAGT * 48292495 AATCTTGAGTAAGAAAAGTAATGGAGT 1 AATCTTGAGAAAGAAAAGTAATGGAGT 48292522 AA 1 AA 48292524 GTTCAATTAA Statistics Matches: 28, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 27 28 1.00 ACGTcount: A:0.48, C:0.04, G:0.25, T:0.23 Consensus pattern (27 bp): AATCTTGAGAAAGAAAAGTAATGGAGT Found at i:48296774 original size:39 final size:41 Alignment explanation
Indices: 48296711--48296800 Score: 112 Period size: 39 Copynumber: 2.2 Consensus size: 41 48296701 AAAAATTATA * * * * * 48296711 TTTAATACAATAAAATATTTATTATATTTAT-TTA-TGTTC 1 TTTAATATAATAAAACATTCATTATACTTATGGTAGTGTTC * 48296750 TTTAATATAATAAAACATTCATTATACTTATGGTAGTGTTT 1 TTTAATATAATAAAACATTCATTATACTTATGGTAGTGTTC 48296791 TTTAATATAA 1 TTTAATATAA 48296801 ATAATTTTTA Statistics Matches: 43, Mismatches: 6, Indels: 2 0.84 0.12 0.04 Matches are distributed among these distances: 39 27 0.63 40 2 0.05 41 14 0.33 ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50 Consensus pattern (41 bp): TTTAATATAATAAAACATTCATTATACTTATGGTAGTGTTC Found at i:48298832 original size:16 final size:16 Alignment explanation
Indices: 48298811--48298843 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 48298801 TATAATCATT 48298811 TTAAATTACTAG-TATA 1 TTAAATTA-TAGATATA 48298827 TTAAATTATAGATATA 1 TTAAATTATAGATATA 48298843 T 1 T 48298844 ATTAGTTTAC Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 15 3 0.19 16 13 0.81 ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45 Consensus pattern (16 bp): TTAAATTATAGATATA Found at i:48299214 original size:11 final size:11 Alignment explanation
Indices: 48299200--48299229 Score: 60 Period size: 11 Copynumber: 2.7 Consensus size: 11 48299190 CTCAACTTTC 48299200 TCTCAATTTAT 1 TCTCAATTTAT 48299211 TCTCAATTTAT 1 TCTCAATTTAT 48299222 TCTCAATT 1 TCTCAATT 48299230 CTCTCTTAAT Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 11 19 1.00 ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53 Consensus pattern (11 bp): TCTCAATTTAT Found at i:48312692 original size:16 final size:16 Alignment explanation
Indices: 48312671--48312704 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 48312661 CCAATATCCA * * 48312671 ATTATCATATTTGCAC 1 ATTATCACATTTACAC 48312687 ATTATCACATTTACAC 1 ATTATCACATTTACAC 48312703 AT 1 AT 48312705 ATATATTCAT Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 16 16 1.00 ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41 Consensus pattern (16 bp): ATTATCACATTTACAC Found at i:48318482 original size:20 final size:20 Alignment explanation
Indices: 48318466--48318513 Score: 64 Period size: 20 Copynumber: 2.5 Consensus size: 20 48318456 ATATAAATAT * 48318466 TATAAAAAAATTTTAAAGAA 1 TATAAAAAAATGTTAAAGAA * 48318486 TATATAAAAATGTTAAA-AA 1 TATAAAAAAATGTTAAAGAA 48318505 TA-AAAAAAA 1 TATAAAAAAA 48318514 GTTTCCTAAA Statistics Matches: 25, Mismatches: 3, Indels: 2 0.83 0.10 0.07 Matches are distributed among these distances: 18 6 0.24 19 4 0.16 20 15 0.60 ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27 Consensus pattern (20 bp): TATAAAAAAATGTTAAAGAA Found at i:48321158 original size:28 final size:26 Alignment explanation
Indices: 48321117--48321170 Score: 63 Period size: 28 Copynumber: 2.0 Consensus size: 26 48321107 TTTCACATTT * 48321117 AATATTTATATTTACATAAAATGTTTAA 1 AATATTTATATTTA-A-AAAATATTTAA * * 48321145 AATATTTGTGTTTAAAAAATATTTAA 1 AATATTTATATTTAAAAAATATTTAA 48321171 TGTGTACTTA Statistics Matches: 23, Mismatches: 3, Indels: 2 0.82 0.11 0.07 Matches are distributed among these distances: 26 10 0.43 27 1 0.04 28 12 0.52 ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46 Consensus pattern (26 bp): AATATTTATATTTAAAAAATATTTAA Found at i:48322396 original size:95 final size:95 Alignment explanation
Indices: 48322060--48322389 Score: 619 Period size: 95 Copynumber: 3.5 Consensus size: 95 48322050 TTTAGGGTTT * * 48322060 CTTAATTAAATTAATTATAAATTTTT--CAAAATTAGATTAGGGTTTCATGTTTATGGTTTTTAA 1 CTTAAGTAAATTAATTAT-AATTTTTAAAAAAATTAGATTAGGGTTTCATGTTTATGGTTTTTAA 48322123 GAAAAAACCAATTAAATTAGGGTTAAGGGTA 65 GAAAAAACCAATTAAATTAGGGTTAAGGGTA 48322154 CTTAAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTTCATGTTTATGGTTTTTAAG 1 CTTAAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTTCATGTTTATGGTTTTTAAG 48322219 AAAAAACCAATTAAATTAGGGTTAAGGGTA 66 AAAAAACCAATTAAATTAGGGTTAAGGGTA 48322249 CTTAAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTTCATGTTTATGGTTTTTAAG 1 CTTAAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTTCATGTTTATGGTTTTTAAG 48322314 AAAAAACCAATTAAATTAGGGTTAAGGGTA 66 AAAAAACCAATTAAATTAGGGTTAAGGGTA 48322344 CTTAAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTT 1 CTTAAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTT 48322390 AGTGTTTGTT Statistics Matches: 232, Mismatches: 2, Indels: 3 0.98 0.01 0.01 Matches are distributed among these distances: 93 7 0.03 94 17 0.07 95 208 0.90 ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40 Consensus pattern (95 bp): CTTAAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTTCATGTTTATGGTTTTTAAG AAAAAACCAATTAAATTAGGGTTAAGGGTA Found at i:48322665 original size:126 final size:125 Alignment explanation
Indices: 48322409--48322698 Score: 454 Period size: 126 Copynumber: 2.3 Consensus size: 125 48322399 TAATTTAAAA * * * * 48322409 AAGCTCCCACGTGGACACTTTTTTGCTACAGTAGTTACTGAAAAAATAATTTTGAGAAGACGTTT 1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTT * * * 48322474 CTGAGGAAAAGTGGCAAAAACGCTTTAAGTAAGATGCATTGTCAGCAAAAGTACTGAAAG 66 CTGAGCAAAAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG * 48322534 AAGCTCCTACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTT 1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTT * * * * 48322599 TTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGCACTGAAAG 66 CTGAGCAAA-AGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG * 48322660 AAGCTCCCACGTGGAAGCTCTTTTGCTACAGTAGTTCCT 1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT 48322699 ATTTGGCATG Statistics Matches: 150, Mismatches: 14, Indels: 1 0.91 0.08 0.01 Matches are distributed among these distances: 125 67 0.45 126 83 0.55 ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27 Consensus pattern (125 bp): AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTT CTGAGCAAAAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG Found at i:48323492 original size:60 final size:59 Alignment explanation
Indices: 48323313--48323526 Score: 205 Period size: 59 Copynumber: 3.7 Consensus size: 59 48323303 ATTATTTATA 48323313 TATTTT-TTAAATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTTC 1 TATTTTATTAAA-GAAA-AATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTTC * * * * * * * * * 48323373 TATTTTATTAAA-AATATTAAAGTAA-ATT--ACA-ATTACTTTATTCAAAACAACGTTT- 1 TATTTTATTAAAGAAAAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAA--TTTC 48323428 TATTTTATTAAACGAAAAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTTC 1 TATTTTATTAAA-GAAAAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTTC 48323488 TATTTTATTAAA-AATATAA-A-AGTAAATATTCAAAATATT 1 TATTTTATTAAAGAA-A-AATATAG-AAATATTCAAAATATT 48323527 TGTACAAATA Statistics Matches: 123, Mismatches: 18, Indels: 27 0.73 0.11 0.16 Matches are distributed among these distances: 54 15 0.12 55 14 0.11 56 3 0.02 57 12 0.10 58 14 0.11 59 23 0.19 60 22 0.18 61 20 0.16 ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41 Consensus pattern (59 bp): TATTTTATTAAAGAAAAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTTC Found at i:48323944 original size:18 final size:18 Alignment explanation
Indices: 48323918--48323960 Score: 59 Period size: 18 Copynumber: 2.4 Consensus size: 18 48323908 GACTAGAAAA * * * 48323918 AGGAAACATATAAGGGTT 1 AGGATACATAAAAGGGCT 48323936 AGGATACATAAAAGGGCT 1 AGGATACATAAAAGGGCT 48323954 AGGATAC 1 AGGATAC 48323961 TTACCTGGCA 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:0.44, C:0.09, G:0.28, T:0.19 Consensus pattern (18 bp): AGGATACATAAAAGGGCT Found at i:48324061 original size:30 final size:30 Alignment explanation
Indices: 48324022--48324081 Score: 84 Period size: 30 Copynumber: 2.0 Consensus size: 30 48324012 GTTGGGCAGA * * 48324022 GTGACTGTGTCGGTGCTGTTGCTGGGCCTG 1 GTGACTGTGTCGGCGCTGTTGATGGGCCTG * * 48324052 GTGATTGTGTGGGCGCTGTTGATGGGCCTG 1 GTGACTGTGTCGGCGCTGTTGATGGGCCTG 48324082 CGTCATCGTC Statistics Matches: 26, Mismatches: 4, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 30 26 1.00 ACGTcount: A:0.05, C:0.17, G:0.45, T:0.33 Consensus pattern (30 bp): GTGACTGTGTCGGCGCTGTTGATGGGCCTG Found at i:48325776 original size:11 final size:11 Alignment explanation
Indices: 48325762--48325834 Score: 85 Period size: 11 Copynumber: 6.6 Consensus size: 11 48325752 GAGAGCTTTA 48325762 AGAGAAATTTG 1 AGAGAAATTTG * 48325773 AGAGGAATTTG 1 AGAGAAATTTG * 48325784 AGAGAAATATG 1 AGAGAAATTTG * 48325795 AGAGAATATTGG 1 AGAGAA-ATTTG * 48325807 AGAGAAATATG 1 AGAGAAATTTG * 48325818 AAAG-AATTTG 1 AGAGAAATTTG 48325828 AGAGAAA 1 AGAGAAA 48325835 GGATTTAAGT Statistics Matches: 50, Mismatches: 10, Indels: 4 0.78 0.16 0.06 Matches are distributed among these distances: 10 8 0.16 11 33 0.66 12 9 0.18 ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22 Consensus pattern (11 bp): AGAGAAATTTG Found at i:48325813 original size:23 final size:21 Alignment explanation
Indices: 48325762--48325834 Score: 101 Period size: 23 Copynumber: 3.3 Consensus size: 21 48325752 GAGAGCTTTA * 48325762 AGAGAAATTTGAGAGGAATTTG 1 AGAGAAATATGAGA-GAATTTG 48325784 AGAGAAATATGAGAGAATATTGG 1 AGAGAAATATGAGAGAAT-TT-G * 48325807 AGAGAAATATGAAAGAATTTG 1 AGAGAAATATGAGAGAATTTG 48325828 AGAGAAA 1 AGAGAAA 48325835 GGATTTAAGT Statistics Matches: 47, Mismatches: 2, Indels: 5 0.87 0.04 0.09 Matches are distributed among these distances: 21 12 0.26 22 17 0.36 23 18 0.38 ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22 Consensus pattern (21 bp): AGAGAAATATGAGAGAATTTG Found at i:48326625 original size:20 final size:18 Alignment explanation
Indices: 48326596--48326638 Score: 50 Period size: 20 Copynumber: 2.3 Consensus size: 18 48326586 TTTTCTCGAT * 48326596 TCTTTTGTTCTCCTTTCTC 1 TCTTTCGTTCTCC-TTCTC * 48326615 ATCTTTCGTTCTTCTTCTC 1 -TCTTTCGTTCTCCTTCTC 48326634 TCTTT 1 TCTTT 48326639 AGCAAACCCT Statistics Matches: 21, Mismatches: 2, Indels: 2 0.84 0.08 0.08 Matches are distributed among these distances: 18 5 0.24 19 5 0.24 20 11 0.52 ACGTcount: A:0.02, C:0.30, G:0.05, T:0.63 Consensus pattern (18 bp): TCTTTCGTTCTCCTTCTC Found at i:48345939 original size:3 final size:3 Alignment explanation
Indices: 48345931--48345999 Score: 138 Period size: 3 Copynumber: 23.0 Consensus size: 3 48345921 TTGTCAACTT 48345931 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA 1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA 48345979 ATA ATA ATA ATA ATA ATA ATA 1 ATA ATA ATA ATA ATA ATA ATA 48346000 GGGGAATGAC Statistics Matches: 66, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 66 1.00 ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33 Consensus pattern (3 bp): ATA Found at i:48351434 original size:38 final size:38 Alignment explanation
Indices: 48351383--48351460 Score: 147 Period size: 38 Copynumber: 2.1 Consensus size: 38 48351373 ATACAAAGTA 48351383 AGGTTTAAATACCAAAGTGCAAATAATAGAAAAGCTAT 1 AGGTTTAAATACCAAAGTGCAAATAATAGAAAAGCTAT * 48351421 AGGTTTAAATACCAAAGTGCAGATAATAGAAAAGCTAT 1 AGGTTTAAATACCAAAGTGCAAATAATAGAAAAGCTAT 48351459 AG 1 AG 48351461 TAAAAACTAA Statistics Matches: 39, Mismatches: 1, Indels: 0 0.98 0.03 0.00 Matches are distributed among these distances: 38 39 1.00 ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23 Consensus pattern (38 bp): AGGTTTAAATACCAAAGTGCAAATAATAGAAAAGCTAT Found at i:48352654 original size:43 final size:43 Alignment explanation
Indices: 48352607--48352697 Score: 130 Period size: 43 Copynumber: 2.1 Consensus size: 43 48352597 AAAAAAATAA * * * 48352607 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT 1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT * * 48352650 GGTAATAAAAGATGCAATACATTTACTTAATCAAGGAAATCTT 1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT 48352693 -GTAAT 1 GGTAAT 48352698 GAACTCAAAG Statistics Matches: 43, Mismatches: 5, Indels: 1 0.88 0.10 0.02 Matches are distributed among these distances: 42 5 0.12 43 38 0.88 ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33 Consensus pattern (43 bp): GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT Found at i:48355330 original size:24 final size:23 Alignment explanation
Indices: 48355277--48355323 Score: 58 Period size: 24 Copynumber: 1.9 Consensus size: 23 48355267 ATTAAGTTTT * 48355277 AACATGTTAGTCATATTCTATAC 1 AACATGTTAGTCATATTATATAC 48355300 AAGCATGTTAGTCTTATATTATAT 1 AA-CATGTTAGTC--ATATTATAT 48355324 GCACATGCCA Statistics Matches: 20, Mismatches: 1, Indels: 3 0.83 0.04 0.12 Matches are distributed among these distances: 23 2 0.10 24 10 0.50 26 8 0.40 ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43 Consensus pattern (23 bp): AACATGTTAGTCATATTATATAC Found at i:48359037 original size:41 final size:41 Alignment explanation
Indices: 48358984--48359167 Score: 194 Period size: 41 Copynumber: 4.5 Consensus size: 41 48358974 GCCCTTTCAA * * * * 48358984 AAAAACGTCGCTAAAAACCTGAGCATTAGCGACGCCTTTTC 1 AAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCCTTTTC * * 48359025 AAAAACGCCGCTAAAACCCCGAGCATTAGCGGTG-CTTAATC 1 AAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCCTT-TTC * * 48359066 AAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTTTTA 1 AAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCCTTTTC ** * * 48359107 AAAAACGTTGCTAAAACCCAC-AGCATTAGCGGCG-CTACTCC 1 AAAAACGCCGCTAAAACCC-CGAGCATTAGCGGCGCCT-TTTC * * 48359148 AAAAACGCCACTAAAGCCCC 1 AAAAACGCCGCTAAAACCCC 48359168 TGATAGGTCA Statistics Matches: 119, Mismatches: 20, Indels: 9 0.80 0.14 0.06 Matches are distributed among these distances: 40 5 0.04 41 111 0.93 42 3 0.03 ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17 Consensus pattern (41 bp): AAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCCTTTTC Found at i:48359121 original size:82 final size:82 Alignment explanation
Indices: 48358984--48359167 Score: 228 Period size: 82 Copynumber: 2.2 Consensus size: 82 48358974 GCCCTTTCAA * * * * 48358984 AAAAACGTCGCTAAAAACCTGAGCATTAGCGACGCCTTTTCAAAAACGCCGCTAAAACCC-CGAG 1 AAAAACGCCGCTAAAACCCCGAGCATTAGCGACGCCTTTTAAAAAACGCCGCTAAAACCCAC-AG * 48359048 CATTAGCGGTGCTTAAT-C 65 CATTAGCGGCGC-TAATCC * * ** 48359066 AAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTTTTAAAAAACGTTGCTAAAACCCACAGC 1 AAAAACGCCGCTAAAACCCCGAGCATTAGCGACGCCTTTTAAAAAACGCCGCTAAAACCCACAGC * 48359131 ATTAGCGGCGCTACTCC 66 ATTAGCGGCGCTAATCC * * 48359148 AAAAACGCCACTAAAGCCCC 1 AAAAACGCCGCTAAAACCCC 48359168 TGATAGGTCA Statistics Matches: 88, Mismatches: 12, Indels: 4 0.85 0.12 0.04 Matches are distributed among these distances: 81 3 0.03 82 84 0.95 83 1 0.01 ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17 Consensus pattern (82 bp): AAAAACGCCGCTAAAACCCCGAGCATTAGCGACGCCTTTTAAAAAACGCCGCTAAAACCCACAGC ATTAGCGGCGCTAATCC Found at i:48365620 original size:16 final size:16 Alignment explanation
Indices: 48365583--48365613 Score: 53 Period size: 16 Copynumber: 1.9 Consensus size: 16 48365573 AGACATAAAG * 48365583 GAAAAAACCCAACAAC 1 GAAACAACCCAACAAC 48365599 GAAACAACCCAACAA 1 GAAACAACCCAACAA 48365614 GCTAACAGCT Statistics Matches: 14, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 16 14 1.00 ACGTcount: A:0.61, C:0.32, G:0.06, T:0.00 Consensus pattern (16 bp): GAAACAACCCAACAAC Found at i:48366498 original size:21 final size:21 Alignment explanation
Indices: 48366469--48366511 Score: 52 Period size: 21 Copynumber: 2.0 Consensus size: 21 48366459 CATCCATTTC * 48366469 AAATTTATTGATT-TTTCAAAT 1 AAATATATT-ATTCTTTCAAAT * 48366490 AAATATATTATTCTTTTAAAT 1 AAATATATTATTCTTTCAAAT 48366511 A 1 A 48366512 TTCAATTGAT Statistics Matches: 19, Mismatches: 2, Indels: 2 0.83 0.09 0.09 Matches are distributed among these distances: 20 3 0.16 21 16 0.84 ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51 Consensus pattern (21 bp): AAATATATTATTCTTTCAAAT Found at i:48379760 original size:11 final size:11 Alignment explanation
Indices: 48379722--48379764 Score: 50 Period size: 11 Copynumber: 3.7 Consensus size: 11 48379712 AGATGTGAGA 48379722 AAAAATTATAT 1 AAAAATTATAT * 48379733 AATAAATTTATAA 1 AA-AAA-TTATAT * 48379746 AAAAATGATAT 1 AAAAATTATAT 48379757 AAAAATTA 1 AAAAATTA 48379765 AATGTGATTG Statistics Matches: 26, Mismatches: 4, Indels: 4 0.76 0.12 0.12 Matches are distributed among these distances: 11 13 0.50 12 6 0.23 13 7 0.27 ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33 Consensus pattern (11 bp): AAAAATTATAT Found at i:48387811 original size:21 final size:20 Alignment explanation
Indices: 48387785--48387839 Score: 65 Period size: 21 Copynumber: 2.6 Consensus size: 20 48387775 AAGAACAAAT 48387785 GAAAAAAGAAAGGAAAGAAAA 1 GAAAAAAGAAAGGAAAG-AAA * * 48387806 GAAAAACGGAAGGAAAGAAA 1 GAAAAAAGAAAGGAAAGAAA * 48387826 GAATAAAGACAAGG 1 GAAAAAAGA-AAGG 48387840 CTAGGGTTTC Statistics Matches: 28, Mismatches: 5, Indels: 2 0.80 0.14 0.06 Matches are distributed among these distances: 20 9 0.32 21 19 0.68 ACGTcount: A:0.67, C:0.04, G:0.27, T:0.02 Consensus pattern (20 bp): GAAAAAAGAAAGGAAAGAAA Found at i:48388648 original size:41 final size:40 Alignment explanation
Indices: 48388600--48388708 Score: 138 Period size: 37 Copynumber: 2.8 Consensus size: 40 48388590 TCGACTTCGA * 48388600 GTCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT 1 GTCGATGAGGCACTGGGTGTCAATTTATTACTTC-GATT--TT * 48388643 -T-GATGAGGCACTGGGTGCCAA--T-TTACTTCGATTTT 1 GTCGATGAGGCACTGGGTGTCAATTTATTACTTCGATTTT 48388678 GTCGATGAGGCACTGGGTGTCAATTTATTAC 1 GTCGATGAGGCACTGGGTGTCAATTTATTAC 48388709 CTTAAATTAT Statistics Matches: 58, Mismatches: 3, Indels: 13 0.78 0.04 0.18 Matches are distributed among these distances: 35 2 0.03 36 1 0.02 37 23 0.40 38 7 0.12 39 2 0.03 40 4 0.07 41 18 0.31 42 1 0.02 ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36 Consensus pattern (40 bp): GTCGATGAGGCACTGGGTGTCAATTTATTACTTCGATTTT Found at i:48403476 original size:22 final size:21 Alignment explanation
Indices: 48403440--48403480 Score: 57 Period size: 22 Copynumber: 1.9 Consensus size: 21 48403430 AAAATAAGGT 48403440 GAATTTTTTTAATTTCATTTTA 1 GAATTTTTTTAATTT-ATTTTA 48403462 GAATTTTTCTT-ATTTATTT 1 GAATTTTT-TTAATTTATTT 48403481 AATTTTAAAA Statistics Matches: 18, Mismatches: 0, Indels: 3 0.86 0.00 0.14 Matches are distributed among these distances: 21 4 0.22 22 12 0.67 23 2 0.11 ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66 Consensus pattern (21 bp): GAATTTTTTTAATTTATTTTA Found at i:48405163 original size:18 final size:18 Alignment explanation
Indices: 48405136--48405193 Score: 66 Period size: 19 Copynumber: 3.2 Consensus size: 18 48405126 TTACTTGAAA 48405136 TTTA-AATATTTTTTATT 1 TTTATAATATTTTTTATT * 48405153 TTTATAATATTTTTCAATT 1 TTTATAATATTTTT-TATT 48405172 TTTAT-ATATTATTTTGATT 1 TTTATAATATT-TTTT-ATT 48405191 TTT 1 TTT 48405194 TAAATTTATA Statistics Matches: 35, Mismatches: 2, Indels: 6 0.81 0.05 0.14 Matches are distributed among these distances: 17 4 0.11 18 14 0.40 19 17 0.49 ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69 Consensus pattern (18 bp): TTTATAATATTTTTTATT Found at i:48405172 original size:19 final size:18 Alignment explanation
Indices: 48405136--48405225 Score: 61 Period size: 19 Copynumber: 5.3 Consensus size: 18 48405126 TTACTTGAAA * 48405136 TTTA-AATATTTTTTATT 1 TTTATAATATTTTTAATT 48405153 TTTATAATATTTTTCAATT 1 TTTATAATATTTTT-AATT * 48405172 TTTAT-ATATTATTTTGATT 1 TTTATAATA-T-TTTTAATT * 48405191 TTT-TAA-ATTTATAA-- 1 TTTATAATATTTTTAATT * 48405205 -TTAT-ATATTTTTAAAT 1 TTTATAATATTTTTAATT 48405221 TTTAT 1 TTTAT 48405226 TAAAAATATT Statistics Matches: 58, Mismatches: 5, Indels: 20 0.70 0.06 0.24 Matches are distributed among these distances: 13 3 0.05 14 8 0.14 16 4 0.07 17 9 0.16 18 14 0.24 19 16 0.28 20 4 0.07 ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66 Consensus pattern (18 bp): TTTATAATATTTTTAATT Found at i:48405216 original size:22 final size:22 Alignment explanation
Indices: 48405190--48405257 Score: 77 Period size: 22 Copynumber: 3.0 Consensus size: 22 48405180 TTATTTTGAT 48405190 TTTTTAAATTTATAATTATATA 1 TTTTTAAATTTATAATTATATA * 48405212 TTTTTAAATTT-T-ATTAAAAATA 1 TTTTTAAATTTATAATT--ATATA * 48405234 TTTTTAAAATTATATATTATATA 1 TTTTTAAATTTATA-ATTATATA 48405257 T 1 T 48405258 GATTTTTTTA Statistics Matches: 38, Mismatches: 3, Indels: 9 0.76 0.06 0.18 Matches are distributed among these distances: 20 3 0.08 21 1 0.03 22 25 0.66 23 6 0.16 25 3 0.08 ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57 Consensus pattern (22 bp): TTTTTAAATTTATAATTATATA Found at i:48407696 original size:25 final size:25 Alignment explanation
Indices: 48407663--48407775 Score: 140 Period size: 25 Copynumber: 4.5 Consensus size: 25 48407653 ATACATGTAT * 48407663 GCTCATACGAGCTATGAATCGGTAT 1 GCTCATACGAGCTATGAATCGGTAA * * 48407688 GCTCTTACGAGCTGTGAATCGGTAA 1 GCTCATACGAGCTATGAATCGGTAA * 48407713 GCTCATACGAGCTGA-GAATCAGTAA 1 GCTCATACGAGCT-ATGAATCGGTAA ** 48407738 GCTC-TCACGAGCTACAAATCGGTAA 1 GCTCAT-ACGAGCTATGAATCGGTAA 48407763 GCTCATACGAGCT 1 GCTCATACGAGCT 48407776 GTGTGTGTCC Statistics Matches: 76, Mismatches: 8, Indels: 8 0.83 0.09 0.09 Matches are distributed among these distances: 24 2 0.03 25 73 0.96 26 1 0.01 ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24 Consensus pattern (25 bp): GCTCATACGAGCTATGAATCGGTAA Found at i:48407722 original size:50 final size:50 Alignment explanation
Indices: 48407663--48407776 Score: 158 Period size: 50 Copynumber: 2.3 Consensus size: 50 48407653 ATACATGTAT * * * *** 48407663 GCTCATACGAGCT-ATGAATCGGTATGCTCTTACGAGCTGTGAATCGGTAA 1 GCTCATACGAGCTGA-GAATCAGTAAGCTCTCACGAGCTACAAATCGGTAA 48407713 GCTCATACGAGCTGAGAATCAGTAAGCTCTCACGAGCTACAAATCGGTAA 1 GCTCATACGAGCTGAGAATCAGTAAGCTCTCACGAGCTACAAATCGGTAA 48407763 GCTCATACGAGCTG 1 GCTCATACGAGCTG 48407777 TGTGTGTCCA Statistics Matches: 57, Mismatches: 6, Indels: 2 0.88 0.09 0.03 Matches are distributed among these distances: 50 56 0.98 51 1 0.02 ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24 Consensus pattern (50 bp): GCTCATACGAGCTGAGAATCAGTAAGCTCTCACGAGCTACAAATCGGTAA Found at i:48415061 original size:25 final size:25 Alignment explanation
Indices: 48415025--48415115 Score: 112 Period size: 25 Copynumber: 3.6 Consensus size: 25 48415015 ATACATGTAT 48415025 GCTCATACGAGCTGTGAATCGGTAA 1 GCTCATACGAGCTGTGAATCGGTAA * * 48415050 GTTCATACGAGCTGAGAATCGGTAA 1 GCTCATACGAGCTGTGAATCGGTAA ** * 48415075 GCTC-TCACGAGCTGCAAATTGGTAA 1 GCTCAT-ACGAGCTGTGAATCGGTAA * 48415100 GCTCATACTAGCTGTG 1 GCTCATACGAGCTGTG 48415116 GTATGTCCAC Statistics Matches: 55, Mismatches: 9, Indels: 4 0.81 0.13 0.06 Matches are distributed among these distances: 24 1 0.02 25 53 0.96 26 1 0.02 ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25 Consensus pattern (25 bp): GCTCATACGAGCTGTGAATCGGTAA Found at i:48431748 original size:21 final size:21 Alignment explanation
Indices: 48431724--48431763 Score: 62 Period size: 21 Copynumber: 1.9 Consensus size: 21 48431714 CGTATAAGAA * * 48431724 ATTAATTTATTAGAGAAATGC 1 ATTAATTTATCAGAAAAATGC 48431745 ATTAATTTATCAGAAAAAT 1 ATTAATTTATCAGAAAAAT 48431764 AAAATACCAT Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 21 17 1.00 ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38 Consensus pattern (21 bp): ATTAATTTATCAGAAAAATGC Found at i:48434798 original size:344 final size:344 Alignment explanation
Indices: 48434157--48434852 Score: 1284 Period size: 344 Copynumber: 2.0 Consensus size: 344 48434147 TTCATTGTCA * 48434157 GTATACTAGTCAAGGAATGAAGTAAAGTGTCTTAATCATTACTATTTATGCAAGCCTAAACATTG 1 GTATACCAGTCAAGGAATGAAGTAAAGTGTCTTAATCATTACTATTTATGCAAGCCTAAACATTG 48434222 TGAAACGAAGAACTTTGTGGAACCATCTTACTTTGTTGGCTTTCGAAGAGGAGGTACCATGACTT 66 TGAAACGAAGAACTTTGTGGAACCATCTTACTTTGTTGGCTTTCGAAGAGGAGGTACCATGACTT * * * 48434287 TTTGGGGGTGACTTCAATGCTATTGTCTCTTGTGAATAAAGAAAAGGAGGTATAGGGAATCGAAT 131 TTTGGGGGTAACTTCAATGCTATTGTCTCTTGTGAAGAAAGAAAAGGAGGTACAGGGAATCGAAT * * 48434352 TGGTATTGATCATTTATTCTGAGACTTCTTATTTGATAATGGACTGCAAGACATGTGTAACACCC 196 TGGTATTGATAATTTATTCTAAGACTTCTTATTTGATAATGGACTGCAAGACATGTGTAACACCC 48434417 CGAGCCTAGCCTAGACGTTATGGTCGAATCTGAGAATGTTACAAAGAAAAGTTATAAAACCAACC 261 CGAGCCTAGCCTAGACGTTATGGTCGAATCTGAGAATGTTACAAAGAAAAGTTATAAAACCAACC 48434482 TTATCATTTTGAAAACACC 326 TTATCATTTTGAAAACACC * 48434501 GTATACCAGTCAATGAATGAAGTAAAGTGTCTTAATCATTACTATTTATGCAAGCCTAAACATTG 1 GTATACCAGTCAAGGAATGAAGTAAAGTGTCTTAATCATTACTATTTATGCAAGCCTAAACATTG * 48434566 TGAAACGAAGAACTTTGTGGAACCATCTTGCTTTGTTGGCTTTCGAAGAGGAGGTACCATGACTT 66 TGAAACGAAGAACTTTGTGGAACCATCTTACTTTGTTGGCTTTCGAAGAGGAGGTACCATGACTT * * 48434631 TTTGGGGGTAACTTTAATGCTATTGTCTCTTGTGAAGAAAGAAAAGGAGGTGCAGGGAATCGAAT 131 TTTGGGGGTAACTTCAATGCTATTGTCTCTTGTGAAGAAAGAAAAGGAGGTACAGGGAATCGAAT 48434696 TGGTATTGATAATTTATTCTAAGACTTCTTATTTGATAATGGACTGCAAGACATGTGTAACACCC 196 TGGTATTGATAATTTATTCTAAGACTTCTTATTTGATAATGGACTGCAAGACATGTGTAACACCC * 48434761 CGAGCTTAGCCTAGACGTTATGGTCGAATCTGAGAATGTTACAAAGAAAAGTTATAAAACCAACC 261 CGAGCCTAGCCTAGACGTTATGGTCGAATCTGAGAATGTTACAAAGAAAAGTTATAAAACCAACC * 48434826 TTATCATTTTGAAAACATC 326 TTATCATTTTGAAAACACC 48434845 GTATACCA 1 GTATACCA 48434853 TTGTTAATAA Statistics Matches: 340, Mismatches: 12, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 344 340 1.00 ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31 Consensus pattern (344 bp): GTATACCAGTCAAGGAATGAAGTAAAGTGTCTTAATCATTACTATTTATGCAAGCCTAAACATTG TGAAACGAAGAACTTTGTGGAACCATCTTACTTTGTTGGCTTTCGAAGAGGAGGTACCATGACTT TTTGGGGGTAACTTCAATGCTATTGTCTCTTGTGAAGAAAGAAAAGGAGGTACAGGGAATCGAAT TGGTATTGATAATTTATTCTAAGACTTCTTATTTGATAATGGACTGCAAGACATGTGTAACACCC CGAGCCTAGCCTAGACGTTATGGTCGAATCTGAGAATGTTACAAAGAAAAGTTATAAAACCAACC TTATCATTTTGAAAACACC Found at i:48447719 original size:164 final size:164 Alignment explanation
Indices: 48447448--48447850 Score: 716 Period size: 164 Copynumber: 2.5 Consensus size: 164 48447438 TTTATTTTGG 48447448 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG 1 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG * * * 48447513 CTACAAGAGCCTTGTTGATAGCTCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC 66 CTACAAGAGCCTTGGTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC * ** 48447578 ATGTCTGAACTCAAAATAGAAAATAAAACACAGT 131 ATGTCAGAACTCAAAATAGAAAATAAAACACAAA * 48447612 TTGCTCTCGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG 1 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG * * 48447677 CTACAAGAGCCTTGGTGAGAGCCCAATCGAAAGTATTTTAAAGATTCATAACTTAAGTAGATTAC 66 CTACAAGAGCCTTGGTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC * 48447742 ATGTCAGAACTCAAAATAGAAAATAAAGCACAAA 131 ATGTCAGAACTCAAAATAGAAAATAAAACACAAA 48447776 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG 1 TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG 48447841 CTACAAGAGC 66 CTACAAGAGC 48447851 TGCCTGATAA Statistics Matches: 228, Mismatches: 11, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 164 228 1.00 ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25 Consensus pattern (164 bp): TTGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACTAAACGGGTGCTCTAACCAACTGAG CTACAAGAGCCTTGGTGAGAGCCCAATCGAAAGTAATTTAAAGATTCATAACTAAAGTAGATTAC ATGTCAGAACTCAAAATAGAAAATAAAACACAAA Found at i:48454436 original size:27 final size:26 Alignment explanation
Indices: 48454381--48454443 Score: 67 Period size: 27 Copynumber: 2.4 Consensus size: 26 48454371 TTTAAAGCAC * * 48454381 AAAAGTATATATACATAAATATTTAA 1 AAAAGTATATAAAAATAAATATTTAA * 48454407 AAAAGTATCATAAAAATAAA-ATTATTA 1 AAAAGTAT-ATAAAAATAAATATT-TAA 48454434 AAAA-TATATA 1 AAAAGTATATA 48454444 GATAATATTA Statistics Matches: 32, Mismatches: 3, Indels: 5 0.80 0.08 0.12 Matches are distributed among these distances: 25 3 0.09 26 14 0.44 27 15 0.47 ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32 Consensus pattern (26 bp): AAAAGTATATAAAAATAAATATTTAA Found at i:48459520 original size:6 final size:6 Alignment explanation
Indices: 48459509--48459552 Score: 79 Period size: 6 Copynumber: 7.2 Consensus size: 6 48459499 AAGCATGTTA 48459509 TATCTG TATCTG TATCTG TATCTG TATCTG TATTCTG TATCTG T 1 TATCTG TATCTG TATCTG TATCTG TATCTG TA-TCTG TATCTG T 48459553 TTTTGGGGTG Statistics Matches: 37, Mismatches: 0, Indels: 2 0.95 0.00 0.05 Matches are distributed among these distances: 6 31 0.84 7 6 0.16 ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52 Consensus pattern (6 bp): TATCTG Found at i:48468133 original size:123 final size:124 Alignment explanation
Indices: 48467903--48468150 Score: 480 Period size: 123 Copynumber: 2.0 Consensus size: 124 48467893 CAATAATTTA 48467903 ACCTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAATGTGTTTATTTTGATGTTTTATGATA 1 ACCTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAATGTGTTTATTTTGATGTTTTATGATA 48467968 GAATATGAAGTCTTAATTTATGTTAAACAACTTTTGCTAAGTGATTTTAAGTGAAAACG 66 GAATATGAAGTCTTAATTTATGTTAAACAACTTTTGCTAAGTGATTTTAAGTGAAAACG 48468027 ACCTAGGGTT-ATATTTGGAAAAATACCCATAGGTGAAATGTGTTTATTTTGATGTTTTATGATA 1 ACCTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAATGTGTTTATTTTGATGTTTTATGATA * 48468091 GAATATGAAGTCTTAATTTATGTTAAACCACTTTTGCTAAGTGATTTTAAGTGAAAACG 66 GAATATGAAGTCTTAATTTATGTTAAACAACTTTTGCTAAGTGATTTTAAGTGAAAACG 48468150 A 1 A 48468151 GTAAAACGAC Statistics Matches: 123, Mismatches: 1, Indels: 1 0.98 0.01 0.01 Matches are distributed among these distances: 123 113 0.92 124 10 0.08 ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39 Consensus pattern (124 bp): ACCTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAATGTGTTTATTTTGATGTTTTATGATA GAATATGAAGTCTTAATTTATGTTAAACAACTTTTGCTAAGTGATTTTAAGTGAAAACG Found at i:48473115 original size:33 final size:31 Alignment explanation
Indices: 48473073--48473158 Score: 95 Period size: 31 Copynumber: 2.7 Consensus size: 31 48473063 CTTGTGGTGA * * 48473073 TGGG-CCACACGGGCTAGGCCA-AGTTGGGCTTG 1 TGGGCCCACACGGGC-AGGCCACA--CGGGCGTG * 48473105 TGGGCCCACACGGGCATGCCACACGGGCGTG 1 TGGGCCCACACGGGCAGGCCACACGGGCGTG * 48473136 TGGGCCCACACGGGCAAGCCACA 1 TGGGCCCACACGGGCAGGCCACA 48473159 TGGCTATGTG Statistics Matches: 48, Mismatches: 4, Indels: 5 0.84 0.07 0.09 Matches are distributed among these distances: 31 28 0.58 32 9 0.19 33 11 0.23 ACGTcount: A:0.19, C:0.33, G:0.37, T:0.12 Consensus pattern (31 bp): TGGGCCCACACGGGCAGGCCACACGGGCGTG Found at i:48473119 original size:18 final size:17 Alignment explanation
Indices: 48473098--48473150 Score: 51 Period size: 18 Copynumber: 3.2 Consensus size: 17 48473088 AGGCCAAGTT 48473098 GGGCTTGTGGGCCCACAC 1 GGGC-TGTGGGCCCACAC * 48473116 GGGC-AT--G-CCACAC 1 GGGCTGTGGGCCCACAC 48473129 GGGCGTGTGGGCCCACAC 1 GGGC-TGTGGGCCCACAC 48473147 GGGC 1 GGGC 48473151 AAGCCACATG Statistics Matches: 28, Mismatches: 2, Indels: 10 0.70 0.05 0.25 Matches are distributed among these distances: 13 10 0.36 14 1 0.04 15 1 0.04 16 1 0.04 17 1 0.04 18 14 0.50 ACGTcount: A:0.13, C:0.34, G:0.42, T:0.11 Consensus pattern (17 bp): GGGCTGTGGGCCCACAC Found at i:48473169 original size:31 final size:31 Alignment explanation
Indices: 48473098--48473174 Score: 111 Period size: 31 Copynumber: 2.5 Consensus size: 31 48473088 AGGCCAAGTT * 48473098 GGGCTTGTGGGCCCACACGGGCATGCCACAC 1 GGGCTTGTGGGCCCACACGGGCAAGCCACAC * 48473129 GGGCGTGTGGGCCCACACGGGCAAGCCACA- 1 GGGCTTGTGGGCCCACACGGGCAAGCCACAC * 48473159 TGGCTATGTGGGCCCA 1 GGGCT-TGTGGGCCCA 48473175 TATTTTTGAA Statistics Matches: 41, Mismatches: 4, Indels: 2 0.87 0.09 0.04 Matches are distributed among these distances: 30 3 0.07 31 38 0.93 ACGTcount: A:0.17, C:0.32, G:0.38, T:0.13 Consensus pattern (31 bp): GGGCTTGTGGGCCCACACGGGCAAGCCACAC Found at i:48474779 original size:37 final size:37 Alignment explanation
Indices: 48474724--48474796 Score: 112 Period size: 37 Copynumber: 2.0 Consensus size: 37 48474714 CTTTGAGAGG * 48474724 GTTGAATCTTAAGGTTTTGG-TAGAAACCTTAAGGGA 1 GTTGAATCTTAAGATTTTGGTTAGAAACCTTAAGGGA * 48474760 GTTGCAATCTTAAGATTTTGGTTAGAAATCTTAAGGG 1 GTTG-AATCTTAAGATTTTGGTTAGAAACCTTAAGGG 48474797 GGATTGTAAG Statistics Matches: 33, Mismatches: 2, Indels: 2 0.89 0.05 0.05 Matches are distributed among these distances: 36 4 0.12 37 15 0.45 38 14 0.42 ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36 Consensus pattern (37 bp): GTTGAATCTTAAGATTTTGGTTAGAAACCTTAAGGGA Found at i:48476496 original size:20 final size:19 Alignment explanation
Indices: 48476460--48476512 Score: 63 Period size: 19 Copynumber: 2.7 Consensus size: 19 48476450 TAATTATTTT * 48476460 TAATTAATTTAATTAAACA 1 TAATTAATTAAATTAAACA * 48476479 TAATTAATTAATATTAAACT 1 TAATTAATTAA-ATTAAACA 48476499 TAATTTAA-TAAATT 1 TAA-TTAATTAAATT 48476513 TAATGGATGA Statistics Matches: 30, Mismatches: 2, Indels: 4 0.83 0.06 0.11 Matches are distributed among these distances: 19 13 0.43 20 13 0.43 21 4 0.13 ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45 Consensus pattern (19 bp): TAATTAATTAAATTAAACA Found at i:48476515 original size:20 final size:20 Alignment explanation
Indices: 48476471--48476515 Score: 56 Period size: 20 Copynumber: 2.2 Consensus size: 20 48476461 AATTAATTTA * 48476471 ATTAAACATAATTAATTAAT 1 ATTAAACATAATTAATAAAT * 48476491 ATTAAACTTAATTTAATAAAT 1 ATTAAACATAA-TTAATAAAT 48476512 -TTAA 1 ATTAA 48476516 TGGATGAAAA Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 20 14 0.64 21 8 0.36 ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42 Consensus pattern (20 bp): ATTAAACATAATTAATAAAT Found at i:48478809 original size:16 final size:15 Alignment explanation
Indices: 48478776--48478830 Score: 53 Period size: 16 Copynumber: 3.8 Consensus size: 15 48478766 TAATTGGGTT * 48478776 ATTATTT-ATATT-A 1 ATTATTTAAAATTGA 48478789 ATTATTTAAAATTGA 1 ATTATTTAAAATTGA ** 48478804 ACTTATTTCTAATTGA 1 A-TTATTTAAAATTGA 48478820 A-TATTTAAAAT 1 ATTATTTAAAAT 48478831 CTTCAAAAAA Statistics Matches: 34, Mismatches: 5, Indels: 5 0.77 0.11 0.11 Matches are distributed among these distances: 13 7 0.21 14 12 0.35 15 2 0.06 16 13 0.38 ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51 Consensus pattern (15 bp): ATTATTTAAAATTGA Found at i:48479158 original size:14 final size:15 Alignment explanation
Indices: 48479132--48479169 Score: 62 Period size: 14 Copynumber: 2.7 Consensus size: 15 48479122 GGAGTATATA 48479132 TATGGATTTAGGGAT 1 TATGGATTTAGGGAT 48479147 TATGGA-TTAGGGAT 1 TATGGATTTAGGGAT 48479161 TATGG-TTTA 1 TATGGATTTA 48479170 ATTAAGGGTT Statistics Matches: 22, Mismatches: 0, Indels: 3 0.88 0.00 0.12 Matches are distributed among these distances: 14 16 0.73 15 6 0.27 ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42 Consensus pattern (15 bp): TATGGATTTAGGGAT Found at i:48479479 original size:14 final size:14 Alignment explanation
Indices: 48479460--48479486 Score: 54 Period size: 14 Copynumber: 1.9 Consensus size: 14 48479450 ATATATGGAT 48479460 TTAGGGATTATAGA 1 TTAGGGATTATAGA 48479474 TTAGGGATTATAG 1 TTAGGGATTATAG 48479487 TTTAATTAAG Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 13 1.00 ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37 Consensus pattern (14 bp): TTAGGGATTATAGA Found at i:48479548 original size:22 final size:23 Alignment explanation
Indices: 48479523--48479580 Score: 61 Period size: 22 Copynumber: 2.6 Consensus size: 23 48479513 AGGTTTACGG 48479523 GTTAGCGGTTTAGAGGTT-A-GAT 1 GTTAG-GGTTTAGAGGTTAAGGAT * 48479545 GTTAGTGGTTAAGA-GTTAAGGAT 1 GTTAG-GGTTTAGAGGTTAAGGAT 48479568 -TTAGGGTTTAGAG 1 GTTAGGGTTTAGAG 48479581 TTTTAGGGGT Statistics Matches: 30, Mismatches: 3, Indels: 6 0.77 0.08 0.15 Matches are distributed among these distances: 21 10 0.33 22 17 0.57 23 3 0.10 ACGTcount: A:0.26, C:0.02, G:0.36, T:0.36 Consensus pattern (23 bp): GTTAGGGTTTAGAGGTTAAGGAT Found at i:48479857 original size:47 final size:49 Alignment explanation
Indices: 48479799--48479903 Score: 146 Period size: 47 Copynumber: 2.1 Consensus size: 49 48479789 AAACGAAATA 48479799 AAAAAACTAAAATTT-TGAA-TTTTATCTA-AT-TTTTATAAATATTACTT 1 AAAAAACTAAAATTTAT-AATTTTTA-CTACATATTTTATAAATATTACTT 48479846 AAAAAACTAAAATTTATAATTTTTACTACTATATTTTATAAATATTACTT 1 AAAAAACTAAAATTTATAATTTTTACTAC-ATATTTTATAAATATTACTT 48479896 AAACAAAC 1 AAA-AAAC 48479904 CTATGGAATA Statistics Matches: 52, Mismatches: 0, Indels: 8 0.87 0.00 0.13 Matches are distributed among these distances: 47 20 0.38 48 6 0.12 49 2 0.04 50 20 0.38 51 4 0.08 ACGTcount: A:0.48, C:0.09, G:0.01, T:0.43 Consensus pattern (49 bp): AAAAAACTAAAATTTATAATTTTTACTACATATTTTATAAATATTACTT Found at i:48480479 original size:21 final size:22 Alignment explanation
Indices: 48480444--48480485 Score: 59 Period size: 21 Copynumber: 2.0 Consensus size: 22 48480434 TAAATATTAC 48480444 TTAAACAAAACTAATAAATAAG 1 TTAAACAAAACTAATAAATAAG * * 48480466 TTAAA-AAAATTAATATATAA 1 TTAAACAAAACTAATAAATAA 48480486 CATTTGATAA Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 21 13 0.72 22 5 0.28 ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29 Consensus pattern (22 bp): TTAAACAAAACTAATAAATAAG Found at i:48480607 original size:153 final size:153 Alignment explanation
Indices: 48480302--48480610 Score: 484 Period size: 153 Copynumber: 2.0 Consensus size: 153 48480292 TAAATAGAGT 48480302 TAATAAATAAGTTAAAAAATGTAATAGATAACATTTGATAATTTAGGAGAGGACCAAATTATAAG 1 TAATAAATAAGTTAAAAAATGTAATAGATAACATTTGATAATTTAGGAGAGGACCAAATTATAAG * * 48480367 AAATAAAATTAAAATAGAAAAAAATGAAATAAAAACACTAAAATTGTTAATTTTATCTAATTTAT 66 AAATAAAATTAAAATAAAAAAAAATGAAATAAAAACACTAAAATTGTTAATTTTATCTAATATAT 48480432 TATAAATATTACTTAAACAAAAC 131 TATAAATATTACTTAAACAAAAC * * 48480455 TAATAAATAAGTTAAAAAAAT-TAATATATAACATTTGATAATTTAGGAGAGGACCAACTTATAA 1 TAATAAATAAGTT-AAAAAATGTAATAGATAACATTTGATAATTTAGGAGAGGACCAAATTATAA * 48480519 GAAATAAAATTAAAATAAAAAGAAAAAATGAAATAAAAACACTAGAATT-TTGAATTTTATCTAA 65 GAAATAAAATTAAAAT--AAA-AAAAAATGAAATAAAAACACTAAAATTGTT-AATTTTATCTAA * 48480583 TAT-TTATAACTATTACTT-AA-AAAAC 126 TATATTATAAATATTACTTAAACAAAAC 48480608 TAA 1 TAA 48480611 AATTTATAAT Statistics Matches: 145, Mismatches: 6, Indels: 10 0.90 0.04 0.06 Matches are distributed among these distances: 153 78 0.54 154 9 0.06 155 18 0.12 156 40 0.28 ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31 Consensus pattern (153 bp): TAATAAATAAGTTAAAAAATGTAATAGATAACATTTGATAATTTAGGAGAGGACCAAATTATAAG AAATAAAATTAAAATAAAAAAAAATGAAATAAAAACACTAAAATTGTTAATTTTATCTAATATAT TATAAATATTACTTAAACAAAAC Found at i:48480622 original size:47 final size:50 Alignment explanation
Indices: 48480552--48480653 Score: 124 Period size: 50 Copynumber: 2.1 Consensus size: 50 48480542 AAAAATGAAA * * 48480552 TAAAAACACTAGAATTTTGAA-TTTTATCTA-ATA-TTTATAACTATTACT 1 TAAAAACACTAAAATTTTGAATTTTTA-CTACATATTTTATAAATATTACT 48480600 TAAAAA-ACTAAAATTTAT-AATTTTTACTACTATATTTTATAAATATTACT 1 TAAAAACACTAAAATTT-TGAATTTTTACTAC-ATATTTTATAAATATTACT 48480650 TAAA 1 TAAA 48480654 CAAAACTATG Statistics Matches: 47, Mismatches: 2, Indels: 8 0.82 0.04 0.14 Matches are distributed among these distances: 47 14 0.30 48 12 0.26 49 3 0.06 50 18 0.38 ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44 Consensus pattern (50 bp): TAAAAACACTAAAATTTTGAATTTTTACTACATATTTTATAAATATTACT Found at i:48481247 original size:16 final size:16 Alignment explanation
Indices: 48481198--48481248 Score: 57 Period size: 16 Copynumber: 3.2 Consensus size: 16 48481188 CCGGTGCTCG * 48481198 TCTACCGTCGCACTCG 1 TCTACCGTCGCACTCC ** ** 48481214 TGGACCGTCGCAGGCC 1 TCTACCGTCGCACTCC 48481230 TCTACCGTCGCACTCC 1 TCTACCGTCGCACTCC 48481246 TCT 1 TCT 48481249 GCTGTCGGAG Statistics Matches: 26, Mismatches: 9, Indels: 0 0.74 0.26 0.00 Matches are distributed among these distances: 16 26 1.00 ACGTcount: A:0.12, C:0.43, G:0.22, T:0.24 Consensus pattern (16 bp): TCTACCGTCGCACTCC Found at i:48481767 original size:14 final size:14 Alignment explanation
Indices: 48481748--48481777 Score: 60 Period size: 14 Copynumber: 2.1 Consensus size: 14 48481738 TAAAAGGTTT 48481748 TTTAGTTAATCATC 1 TTTAGTTAATCATC 48481762 TTTAGTTAATCATC 1 TTTAGTTAATCATC 48481776 TT 1 TT 48481778 GCTGTTCGAG 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:0.27, C:0.13, G:0.07, T:0.53 Consensus pattern (14 bp): TTTAGTTAATCATC Found at i:48482025 original size:22 final size:22 Alignment explanation
Indices: 48481993--48482036 Score: 79 Period size: 22 Copynumber: 2.0 Consensus size: 22 48481983 CATTTGATCA 48481993 ATTGTTGTAGCCAATGCAAATT 1 ATTGTTGTAGCCAATGCAAATT * 48482015 ATTGTTTTAGCCAATGCAAATT 1 ATTGTTGTAGCCAATGCAAATT 48482037 TTATTATTTA Statistics Matches: 21, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 22 21 1.00 ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39 Consensus pattern (22 bp): ATTGTTGTAGCCAATGCAAATT Found at i:48482626 original size:12 final size:12 Alignment explanation
Indices: 48482586--48482633 Score: 52 Period size: 12 Copynumber: 4.3 Consensus size: 12 48482576 AAACTTATAT 48482586 ATAATAACTTAC 1 ATAATAACTTAC 48482598 AT-AT-A--TA- 1 ATAATAACTTAC 48482605 ATACATAACTTAC 1 ATA-ATAACTTAC 48482618 ATAATAACTTAC 1 ATAATAACTTAC 48482630 ATAA 1 ATAA 48482634 CTTATATAGA Statistics Matches: 30, Mismatches: 0, Indels: 12 0.71 0.00 0.29 Matches are distributed among these distances: 7 2 0.07 8 2 0.07 9 2 0.07 10 2 0.07 11 2 0.07 12 17 0.57 13 3 0.10 ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33 Consensus pattern (12 bp): ATAATAACTTAC Found at i:48482632 original size:21 final size:20 Alignment explanation
Indices: 48482581--48482637 Score: 75 Period size: 20 Copynumber: 2.9 Consensus size: 20 48482571 TATTGAAACT 48482581 TATAT-ATA-ATAACTTACA 1 TATATAATACATAACTTACA 48482599 TATATAATACATAACTTACA 1 TATATAATACATAACTTACA 48482619 TA-ATAACTTACATAACTTA 1 TATATAA--TACATAACTTA 48482638 TATAGAAAGT Statistics Matches: 35, Mismatches: 0, Indels: 5 0.88 0.00 0.12 Matches are distributed among these distances: 18 5 0.14 19 7 0.20 20 12 0.34 21 11 0.31 ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37 Consensus pattern (20 bp): TATATAATACATAACTTACA Found at i:48482636 original size:55 final size:54 Alignment explanation
Indices: 48482543--48482731 Score: 151 Period size: 54 Copynumber: 3.5 Consensus size: 54 48482533 ATATATATAT * 48482543 ATATATAATACATAACTTACATAACTTATA-TTGA-AACTTATATATAATAACTTAC 1 ATATATAATACATAACTTACATAA--TA-ACTTAATAACTTATATATAATAACTTAC * * * 48482598 ATATATAATACATAACTTACATAATAACTTACATAACTTATATA-GA-AAGTTAT 1 ATATATAATACATAACTTACATAATAACTTA-ATAACTTATATATAATAACTTAC * * * * * * 48482651 ATATA-AACTTGCATAACTTACATAATAACATAACAACTTAGATAATACATAGCCTAC 1 ATATATAA--TACATAACTTACATAATAACTTAATAACTTATAT-ATA-ATAACTTAC 48482708 ATA-ACT--TACATAACTTACATAATA 1 ATATA-TAATACATAACTTACATAATA 48482732 CACCACTTAC Statistics Matches: 109, Mismatches: 14, Indels: 23 0.75 0.10 0.16 Matches are distributed among these distances: 52 3 0.03 53 23 0.21 54 41 0.38 55 34 0.31 56 2 0.02 57 6 0.06 ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34 Consensus pattern (54 bp): ATATATAATACATAACTTACATAATAACTTAATAACTTATATATAATAACTTAC Found at i:48482674 original size:9 final size:9 Alignment explanation
Indices: 48482656--48482853 Score: 99 Period size: 9 Copynumber: 23.7 Consensus size: 9 48482646 GTTATATATA * 48482656 AACTTGCAT 1 AACTTACAT 48482665 AACTTACAT 1 AACTTACAT * 48482674 AA-TAACAT 1 AACTTACAT * 48482682 AACAACTTAGAT 1 ---AACTTACAT 48482694 AA--TACAT 1 AACTTACAT * * 48482701 AGCCTACAT 1 AACTTACAT 48482710 AACTTACAT 1 AACTTACAT 48482719 AACTTACAT 1 AACTTACAT * 48482728 AA--TACAC 1 AACTTACAT * 48482735 CACTTACAT 1 AACTTACAT 48482744 -A---A-AT 1 AACTTACAT * 48482748 AACTTGCAT 1 AACTTACAT 48482757 AA--TACAT 1 AACTTACAT * * 48482764 AGCCTACAT 1 AACTTACAT * 48482773 AACTTATAT 1 AACTTACAT 48482782 AACTTACAT 1 AACTTACAT * 48482791 AA--TACAC 1 AACTTACAT * 48482798 CACTTACAT 1 AACTTACAT 48482807 AA--TACAT 1 AACTTACAT * 48482814 TACTTACAT 1 AACTTACAT 48482823 AACTTACAT 1 AACTTACAT * * 48482832 TA--TACAC 1 AACTTACAT 48482839 AACTTACAT 1 AACTTACAT 48482848 AACTTA 1 AACTTA 48482854 ATTAATATTA Statistics Matches: 140, Mismatches: 28, Indels: 42 0.67 0.13 0.20 Matches are distributed among these distances: 4 2 0.01 5 2 0.01 7 31 0.22 8 6 0.04 9 93 0.66 11 2 0.01 12 4 0.03 ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30 Consensus pattern (9 bp): AACTTACAT Found at i:48482714 original size:54 final size:56 Alignment explanation
Indices: 48482656--48482794 Score: 158 Period size: 63 Copynumber: 2.4 Consensus size: 56 48482646 GTTATATATA * 48482656 AACTTGCATAACTTACATAATA-ACAT-AACAACTTAG-ATAATACATAGCCTACAT 1 AACTTACATAACTTACATAATATACATAAACAACTT-GCATAATACATAGCCTACAT * 48482710 AACTTACATAACTTACATAATACACCACTTACATAAATAACTTGCATAATACATAGCCTACAT 1 AACTTACATAACTTACATAAT-----A--TACATAAACAACTTGCATAATACATAGCCTACAT * 48482773 AACTTATATAACTTACATAATA 1 AACTTACATAACTTACATAATA 48482795 CACCACTTAC Statistics Matches: 72, Mismatches: 3, Indels: 16 0.79 0.03 0.18 Matches are distributed among these distances: 54 20 0.28 58 1 0.01 59 1 0.01 62 5 0.07 63 45 0.62 ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29 Consensus pattern (56 bp): AACTTACATAACTTACATAATATACATAAACAACTTGCATAATACATAGCCTACAT Found at i:48482723 original size:63 final size:63 Alignment explanation
Indices: 48482674--48482808 Score: 193 Period size: 63 Copynumber: 2.2 Consensus size: 63 48482664 TAACTTACAT 48482674 AATAACAT-AACAACTTAG-ATAATACATAGCCTACATAACTTACATAACTTACATAATACACC 1 AATAACATAAACAACTT-GCATAATACATAGCCTACATAACTTACATAACTTACATAATACACC * * * * 48482736 ACTTACATAAATAACTTGCATAATACATAGCCTACATAACTTATATAACTTACATAATACACC 1 AATAACATAAACAACTTGCATAATACATAGCCTACATAACTTACATAACTTACATAATACACC * * 48482799 ACTTACATAA 1 AATAACATAA 48482809 TACATTACTT Statistics Matches: 67, Mismatches: 4, Indels: 3 0.91 0.05 0.04 Matches are distributed among these distances: 62 7 0.10 63 60 0.90 ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28 Consensus pattern (63 bp): AATAACATAAACAACTTGCATAATACATAGCCTACATAACTTACATAACTTACATAATACACC Found at i:48482733 original size:25 final size:25 Alignment explanation
Indices: 48482685--48482831 Score: 78 Period size: 25 Copynumber: 6.0 Consensus size: 25 48482675 ATAACATAAC * * * 48482685 AACTTAGATAATACATAGCCTACAT 1 AACTTACATAATACATAACTTACAT * 48482710 AACTTACATAACTTACATAA--TACAC 1 AACTTACATAA--TACATAACTTACAT * * 48482735 CACTTACAT-A-A-ATAACTTGCAT 1 AACTTACATAATACATAACTTACAT * * 48482757 AA--TACATAGCCTACATAACTTATAT 1 AACTTACATA--ATACATAACTTACAT ** 48482782 AACTTACATAATACACCACTTACAT 1 AACTTACATAATACATAACTTACAT * 48482807 AA--TACATTACTTACATAACTTACAT 1 AACTTACA-TA-ATACATAACTTACAT 48482832 TATACACAAC Statistics Matches: 92, Mismatches: 17, Indels: 26 0.68 0.13 0.19 Matches are distributed among these distances: 20 9 0.10 21 1 0.01 22 4 0.04 23 4 0.04 24 4 0.04 25 58 0.63 27 12 0.13 ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31 Consensus pattern (25 bp): AACTTACATAATACATAACTTACAT Found at i:48482819 original size:41 final size:41 Alignment explanation
Indices: 48482768--48482849 Score: 128 Period size: 41 Copynumber: 2.0 Consensus size: 41 48482758 ATACATAGCC * * 48482768 TACATAACTTATATAACTTACATAATACACCACTTACATAA 1 TACATAACTTACATAACTTACATAATACACAACTTACATAA * * 48482809 TACATTACTTACATAACTTACATTATACACAACTTACATAA 1 TACATAACTTACATAACTTACATAATACACAACTTACATAA 48482850 CTTAATTAAT Statistics Matches: 37, Mismatches: 4, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 41 37 1.00 ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33 Consensus pattern (41 bp): TACATAACTTACATAACTTACATAATACACAACTTACATAA Found at i:48482836 original size:25 final size:25 Alignment explanation
Indices: 48482799--48482876 Score: 92 Period size: 25 Copynumber: 3.3 Consensus size: 25 48482789 ATAATACACC * 48482799 ACTTACATAATACATTACTTACATA 1 ACTTACATTATACATTACTTACATA ** 48482824 ACTTACATTATACACAACTTACATA 1 ACTTACATTATACATTACTTACATA * 48482849 ACTTA-ATTA-ATATTA--TACATA 1 ACTTACATTATACATTACTTACATA 48482870 ACTTACA 1 ACTTACA 48482877 GCCAAGATAC Statistics Matches: 46, Mismatches: 6, Indels: 5 0.81 0.11 0.09 Matches are distributed among these distances: 21 11 0.24 22 1 0.02 23 3 0.07 24 4 0.09 25 27 0.59 ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36 Consensus pattern (25 bp): ACTTACATTATACATTACTTACATA Found at i:48482837 original size:16 final size:16 Alignment explanation
Indices: 48482662--48482824 Score: 125 Period size: 16 Copynumber: 9.9 Consensus size: 16 48482652 TATAAACTTG 48482662 CATAACTTACATAATAA 1 CATAACTTACATAAT-A * 48482679 CATAACAACTTAGATAATA 1 CAT---AACTTACATAATA * * 48482698 CATAGCCTACATAACTTA 1 CATAACTTACATAA--TA 48482716 CATAACTTACATAATA 1 CATAACTTACATAATA ** 48482732 CACCACTTACAT-A-A 1 CATAACTTACATAATA * 48482746 -ATAACTTGCATAATA 1 CATAACTTACATAATA * * 48482761 CATAGCCTACATAACTTA 1 CATAACTTACATAA--TA * 48482779 TATAACTTACATAATA 1 CATAACTTACATAATA ** 48482795 CACCACTTACATAATA 1 CATAACTTACATAATA * 48482811 CATTACTTACATAA 1 CATAACTTACATAA 48482825 CTTACATTAT Statistics Matches: 114, Mismatches: 22, Indels: 21 0.73 0.14 0.13 Matches are distributed among these distances: 13 8 0.07 14 2 0.02 15 2 0.02 16 57 0.50 17 3 0.03 18 27 0.24 19 4 0.04 20 11 0.10 ACGTcount: A:0.46, C:0.22, G:0.02, T:0.29 Consensus pattern (16 bp): CATAACTTACATAATA Found at i:48484686 original size:21 final size:21 Alignment explanation
Indices: 48484616--48484673 Score: 116 Period size: 21 Copynumber: 2.8 Consensus size: 21 48484606 CAGCAACTTA 48484616 AAGCAGAGGCTGCAGCAAAAG 1 AAGCAGAGGCTGCAGCAAAAG 48484637 AAGCAGAGGCTGCAGCAAAAG 1 AAGCAGAGGCTGCAGCAAAAG 48484658 AAGCAGAGGCTGCAGC 1 AAGCAGAGGCTGCAGC 48484674 GAGGGAAGCA Statistics Matches: 37, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 37 1.00 ACGTcount: A:0.40, C:0.21, G:0.34, T:0.05 Consensus pattern (21 bp): AAGCAGAGGCTGCAGCAAAAG Found at i:48485140 original size:42 final size:42 Alignment explanation
Indices: 48485013--48485148 Score: 166 Period size: 43 Copynumber: 3.2 Consensus size: 42 48485003 GTCATAACAA * * 48485013 TAGCGGCGCTTGT-GGTAGAAGCGCCGCTAAAGAACATGGCCTT 1 TAGCGGCGTTTGTAGG-A-AAGCGCCGCTAAAGAACATGACCTT * * 48485056 TAGCTGCGTTTGTGGGAAATGCGCCGCTAAAGAACATGACCTT 1 TAGCGGCGTTTGTAGGAAA-GCGCCGCTAAAGAACATGACCTT * * * * 48485099 TAGCGGCGTTTTTATGAAAGCGTCGCTAAAGAACATCACCTT 1 TAGCGGCGTTTGTAGGAAAGCGCCGCTAAAGAACATGACCTT 48485141 TAGCGGCG 1 TAGCGGCG 48485149 ATGACAACAG Statistics Matches: 82, Mismatches: 9, Indels: 5 0.85 0.09 0.05 Matches are distributed among these distances: 42 31 0.38 43 49 0.60 44 2 0.02 ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24 Consensus pattern (42 bp): TAGCGGCGTTTGTAGGAAAGCGCCGCTAAAGAACATGACCTT Found at i:48486420 original size:24 final size:24 Alignment explanation
Indices: 48486389--48486436 Score: 71 Period size: 24 Copynumber: 2.0 Consensus size: 24 48486379 AAAAATTATA 48486389 AAAATATTAAAAATTTCA-AAAAAT 1 AAAATATTAAAAATTT-ATAAAAAT * 48486413 AAAATATTAATAATTTATAAAAAT 1 AAAATATTAAAAATTTATAAAAAT 48486437 TATACATATG Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 23 1 0.05 24 21 0.95 ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33 Consensus pattern (24 bp): AAAATATTAAAAATTTATAAAAAT Found at i:48487576 original size:22 final size:22 Alignment explanation
Indices: 48487551--48487603 Score: 63 Period size: 21 Copynumber: 2.5 Consensus size: 22 48487541 ATATTTTTAT * 48487551 ATTTTTTAAAATGATATAAATA 1 ATTTTTTAAAATGATAAAAATA * ** 48487573 ATTTTTT-AATTTTTAAAAATA 1 ATTTTTTAAAATGATAAAAATA 48487594 ATTTTTTAAA 1 ATTTTTTAAA 48487604 TTTTTAATTT Statistics Matches: 26, Mismatches: 4, Indels: 2 0.81 0.12 0.06 Matches are distributed among these distances: 21 17 0.65 22 9 0.35 ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53 Consensus pattern (22 bp): ATTTTTTAAAATGATAAAAATA Found at i:48487577 original size:29 final size:27 Alignment explanation
Indices: 48487525--48487590 Score: 71 Period size: 29 Copynumber: 2.4 Consensus size: 27 48487515 TTAATTGATT * 48487525 TTTTTTAAAATTAAATATATTTTTATA 1 TTTTTTAAAATTAAATATAATTTTATA * 48487552 TTTTTTAAAATGATATAA-ATAATTTTTTA 1 TTTTTTAAAAT--TA-AATATAATTTTATA * 48487581 ATTTTTAAAA 1 TTTTTTAAAA 48487591 ATAATTTTTT Statistics Matches: 33, Mismatches: 3, Indels: 4 0.82 0.08 0.10 Matches are distributed among these distances: 27 11 0.33 29 20 0.61 30 2 0.06 ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56 Consensus pattern (27 bp): TTTTTTAAAATTAAATATAATTTTATA Found at i:48487592 original size:21 final size:22 Alignment explanation
Indices: 48487568--48487610 Score: 79 Period size: 21 Copynumber: 2.0 Consensus size: 22 48487558 AAAATGATAT 48487568 AAATAATTTTTT-AATTTTTAA 1 AAATAATTTTTTAAATTTTTAA 48487589 AAATAATTTTTTAAATTTTTAA 1 AAATAATTTTTTAAATTTTTAA 48487611 TTTCAAATAA Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 21 12 0.57 22 9 0.43 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (22 bp): AAATAATTTTTTAAATTTTTAA Found at i:48487704 original size:157 final size:158 Alignment explanation
Indices: 48487455--48487770 Score: 625 Period size: 157 Copynumber: 2.0 Consensus size: 158 48487445 GCATTGTTTG 48487455 TCAAATAACCCCAAAATATTGTGGAAAAGGGTGGCATCCACATTTATGTCATGTAAGTAATTAAT 1 TCAAATAACCCCAAAATATTGTGGAAAAGGGTGGCATCCACATTTATGTCATGTAAGTAATTAAT 48487520 TGATTTTTTTTAAAATTAAATATATTTTTATATTTTTTAAAATGATATAAATAATTTTTTAATTT 66 TGATTTTTTTTAAAATTAAATATATTTTTATATTTTTTAAAATGATATAAATAATTTTTTAATTT 48487585 TTAAAAATAATTTTTTAAATTTTTAATT 131 TTAAAAATAATTTTTTAAATTTTTAATT 48487613 TCAAATAA-CCCAAAATATTGTGGAAAAGGGTGGCATCCACATTTATGTCATGTAAGTAATTAAT 1 TCAAATAACCCCAAAATATTGTGGAAAAGGGTGGCATCCACATTTATGTCATGTAAGTAATTAAT 48487677 TGATTTTTTTTAAAATTAAATATATTTTTATATTTTTTAAAATGATATAAATAATTTTTTAATTT 66 TGATTTTTTTTAAAATTAAATATATTTTTATATTTTTTAAAATGATATAAATAATTTTTTAATTT 48487742 TTAAAAATAATTTTTTAAATTTTTAATT 131 TTAAAAATAATTTTTTAAATTTTTAATT 48487770 T 1 T 48487771 TTAAATTTTA Statistics Matches: 158, Mismatches: 0, Indels: 1 0.99 0.00 0.01 Matches are distributed among these distances: 157 150 0.95 158 8 0.05 ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47 Consensus pattern (158 bp): TCAAATAACCCCAAAATATTGTGGAAAAGGGTGGCATCCACATTTATGTCATGTAAGTAATTAAT TGATTTTTTTTAAAATTAAATATATTTTTATATTTTTTAAAATGATATAAATAATTTTTTAATTT TTAAAAATAATTTTTTAAATTTTTAATT Found at i:48487733 original size:22 final size:22 Alignment explanation
Indices: 48487708--48487760 Score: 63 Period size: 21 Copynumber: 2.5 Consensus size: 22 48487698 ATATTTTTAT * 48487708 ATTTTTTAAAATGATATAAATA 1 ATTTTTTAAAATGATAAAAATA * ** 48487730 ATTTTTT-AATTTTTAAAAATA 1 ATTTTTTAAAATGATAAAAATA 48487751 ATTTTTTAAA 1 ATTTTTTAAA 48487761 TTTTTAATTT Statistics Matches: 26, Mismatches: 4, Indels: 2 0.81 0.12 0.06 Matches are distributed among these distances: 21 17 0.65 22 9 0.35 ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53 Consensus pattern (22 bp): ATTTTTTAAAATGATAAAAATA Found at i:48487734 original size:29 final size:27 Alignment explanation
Indices: 48487682--48487747 Score: 71 Period size: 29 Copynumber: 2.4 Consensus size: 27 48487672 TTAATTGATT * 48487682 TTTTTTAAAATTAAATATATTTTTATA 1 TTTTTTAAAATTAAATATAATTTTATA * 48487709 TTTTTTAAAATGATATAA-ATAATTTTTTA 1 TTTTTTAAAAT--TA-AATATAATTTTATA * 48487738 ATTTTTAAAA 1 TTTTTTAAAA 48487748 ATAATTTTTT Statistics Matches: 33, Mismatches: 3, Indels: 4 0.82 0.08 0.10 Matches are distributed among these distances: 27 11 0.33 29 20 0.61 30 2 0.06 ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56 Consensus pattern (27 bp): TTTTTTAAAATTAAATATAATTTTATA Found at i:48487749 original size:21 final size:22 Alignment explanation
Indices: 48487725--48487767 Score: 79 Period size: 21 Copynumber: 2.0 Consensus size: 22 48487715 AAAATGATAT 48487725 AAATAATTTTTT-AATTTTTAA 1 AAATAATTTTTTAAATTTTTAA 48487746 AAATAATTTTTTAAATTTTTAA 1 AAATAATTTTTTAAATTTTTAA 48487768 TTTTTAAATT Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 21 12 0.57 22 9 0.43 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (22 bp): AAATAATTTTTTAAATTTTTAA Found at i:48487749 original size:30 final size:29 Alignment explanation
Indices: 48487690--48487775 Score: 84 Period size: 29 Copynumber: 2.9 Consensus size: 29 48487680 TTTTTTTTAA * 48487690 AATTAAAT-ATATTTTTATATTTTTTAAAAT 1 AATTAAATAAT-TTTTTA-ATTTTTAAAAAT * 48487720 GATATAAATAATTTTTTAATTTTTAAAAAT 1 AAT-TAAATAATTTTTTAATTTTTAAAAAT *** * 48487750 AATTTTTTAAATTTTTAATTTTTAAA 1 AATTAAATAATTTTTTAATTTTTAAA 48487776 TTTTAAAAAC Statistics Matches: 47, Mismatches: 7, Indels: 5 0.80 0.12 0.08 Matches are distributed among these distances: 29 19 0.40 30 15 0.32 31 11 0.23 32 2 0.04 ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56 Consensus pattern (29 bp): AATTAAATAATTTTTTAATTTTTAAAAAT Found at i:48494192 original size:31 final size:32 Alignment explanation
Indices: 48494157--48494219 Score: 74 Period size: 31 Copynumber: 2.0 Consensus size: 32 48494147 CTTTTCAGAC * * * 48494157 TTTGAGCAAATTTTTCTTTGCT-TTTTATTCT 1 TTTGAACAAACTTATCTTTGCTCTTTTATTCT * * 48494188 TTTGAACGAACTTATCTTTGTTCTTTTATTCT 1 TTTGAACAAACTTATCTTTGCTCTTTTATTCT 48494220 CTCTCTCTTT Statistics Matches: 26, Mismatches: 5, Indels: 1 0.81 0.16 0.03 Matches are distributed among these distances: 31 17 0.65 32 9 0.35 ACGTcount: A:0.17, C:0.14, G:0.10, T:0.59 Consensus pattern (32 bp): TTTGAACAAACTTATCTTTGCTCTTTTATTCT Found at i:48494975 original size:22 final size:22 Alignment explanation
Indices: 48494925--48494968 Score: 61 Period size: 22 Copynumber: 2.0 Consensus size: 22 48494915 AATTATTAAC * * 48494925 ATATTGAATTTTAATTAATTTT 1 ATATTAAATTTTAATAAATTTT * 48494947 ATATTAAATTTTCATAAATTTT 1 ATATTAAATTTTAATAAATTTT 48494969 GATTTAATTT Statistics Matches: 19, Mismatches: 3, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 22 19 1.00 ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57 Consensus pattern (22 bp): ATATTAAATTTTAATAAATTTT Found at i:48510958 original size:22 final size:22 Alignment explanation
Indices: 48510912--48510975 Score: 119 Period size: 22 Copynumber: 2.9 Consensus size: 22 48510902 CACTCTTGGG 48510912 TCTTTGGACATCTTGTTGGGACA 1 TCTTTGGACATCTTGTT-GGACA 48510935 TCTTTGGACATCTTGTTGGACA 1 TCTTTGGACATCTTGTTGGACA 48510957 TCTTTGGACATCTTGTTGG 1 TCTTTGGACATCTTGTTGG 48510976 GTCTTTGGAC Statistics Matches: 41, Mismatches: 0, Indels: 1 0.98 0.00 0.02 Matches are distributed among these distances: 22 24 0.59 23 17 0.41 ACGTcount: A:0.16, C:0.17, G:0.25, T:0.42 Consensus pattern (22 bp): TCTTTGGACATCTTGTTGGACA Found at i:48510990 original size:10 final size:10 Alignment explanation
Indices: 48510912--48510970 Score: 73 Period size: 10 Copynumber: 5.4 Consensus size: 10 48510902 CACTCTTGGG 48510912 TCTTTGGACA 1 TCTTTGGACA 48510922 TCTTGTTGGGACA 1 TC-T-TT-GGACA 48510935 TCTTTGGACA 1 TCTTTGGACA 48510945 TCTTGTTGGACA 1 TC-T-TTGGACA 48510957 TCTTTGGACA 1 TCTTTGGACA 48510967 TCTT 1 TCTT 48510971 GTTGGGTCTT Statistics Matches: 44, Mismatches: 0, Indels: 10 0.81 0.00 0.19 Matches are distributed among these distances: 10 20 0.45 11 5 0.11 12 12 0.27 13 7 0.16 ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42 Consensus pattern (10 bp): TCTTTGGACA Found at i:48516736 original size:17 final size:17 Alignment explanation
Indices: 48516704--48516737 Score: 50 Period size: 17 Copynumber: 1.9 Consensus size: 17 48516694 TATCCTTGAA * 48516704 AAAATAAAAATAAAAAC 1 AAAATAAAAAGAAAAAC 48516721 AAAATAAAAAGGAAAAA 1 AAAATAAAAA-GAAAAA 48516738 GGAAAGAGGA Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 17 10 0.67 18 5 0.33 ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09 Consensus pattern (17 bp): AAAATAAAAAGAAAAAC Found at i:48524386 original size:43 final size:43 Alignment explanation
Indices: 48524321--48524440 Score: 222 Period size: 43 Copynumber: 2.8 Consensus size: 43 48524311 ATCGACCGCA * 48524321 GCATGAATACTTAGTTCAATGGAAGGGACTTCCTAACAGCGCG 1 GCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAGCGCG * 48524364 GCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAGTGCG 1 GCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAGCGCG 48524407 GCATGAATACTTAGTTCGATGGAAGGGACTTCCT 1 GCATGAATACTTAGTTCGATGGAAGGGACTTCCT 48524441 GACATCGAAG Statistics Matches: 75, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 43 75 1.00 ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26 Consensus pattern (43 bp): GCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAGCGCG Found at i:48531371 original size:45 final size:45 Alignment explanation
Indices: 48531298--48531464 Score: 153 Period size: 45 Copynumber: 3.7 Consensus size: 45 48531288 GCTATGCGCC * * 48531298 TAAAATGAGTAAGACCATAACTGAAAGATGTTATGATATTAT-GA 1 TAAAATGAGTAAGACCATAACTGAAAGATGCTATGATATCATGGA ** * * 48531342 TAAAGATGAGTAAGACCATAGTTGTAAGATGCTATGGTATCATGGA 1 TAAA-ATGAGTAAGACCATAACTGAAAGATGCTATGATATCATGGA ** * * * * 48531388 -ATAAATGAGTAAGACCATGGCTAAAACATACTATGACATCATGG- 1 TA-AAATGAGTAAGACCATAACTGAAAGATGCTATGATATCATGGA * * 48531432 TAAACATGACT-AGACCATAACTGAAAGACGCTA 1 TAAA-ATGAGTAAGACCATAACTGAAAGATGCTA 48531465 CAGAATCATA Statistics Matches: 97, Mismatches: 21, Indels: 10 0.76 0.16 0.08 Matches are distributed among these distances: 44 22 0.23 45 71 0.73 46 4 0.04 ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25 Consensus pattern (45 bp): TAAAATGAGTAAGACCATAACTGAAAGATGCTATGATATCATGGA Found at i:48531628 original size:27 final size:27 Alignment explanation
Indices: 48531549--48531629 Score: 83 Period size: 27 Copynumber: 3.0 Consensus size: 27 48531539 CATCATAAAA * * 48531549 AGTCCAACGAGACATTAAATATA-GGAT 1 AGTCTAACGGGACATTAAATA-AGGGAT * * * * 48531576 AGCCTAATGGGACATTAAACATGGGAT 1 AGTCTAACGGGACATTAAATAAGGGAT * 48531603 AGTCTAACGGGACACTAAATAAGGGAT 1 AGTCTAACGGGACATTAAATAAGGGAT 48531630 GGTTCGTCAA Statistics Matches: 42, Mismatches: 11, Indels: 2 0.76 0.20 0.04 Matches are distributed among these distances: 27 42 1.00 ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21 Consensus pattern (27 bp): AGTCTAACGGGACATTAAATAAGGGAT Found at i:48560555 original size:24 final size:25 Alignment explanation
Indices: 48560523--48560574 Score: 72 Period size: 24 Copynumber: 2.1 Consensus size: 25 48560513 CATATTTTTA 48560523 GAGAAATAAGGAAGGTGAGA-G-AAG 1 GAGAAATAAGG-AGGTGAGATGTAAG * 48560547 GAGAAATAAGGCGGTGAGATGTAAG 1 GAGAAATAAGGAGGTGAGATGTAAG 48560572 GAG 1 GAG 48560575 GGAATTGGGA Statistics Matches: 25, Mismatches: 1, Indels: 3 0.86 0.03 0.10 Matches are distributed among these distances: 23 7 0.28 24 12 0.48 25 6 0.24 ACGTcount: A:0.44, C:0.02, G:0.42, T:0.12 Consensus pattern (25 bp): GAGAAATAAGGAGGTGAGATGTAAG Found at i:48565016 original size:19 final size:19 Alignment explanation
Indices: 48564992--48565030 Score: 78 Period size: 19 Copynumber: 2.1 Consensus size: 19 48564982 CCCTCTTGTT 48564992 AGGGACTGACAATGTACTA 1 AGGGACTGACAATGTACTA 48565011 AGGGACTGACAATGTACTA 1 AGGGACTGACAATGTACTA 48565030 A 1 A 48565031 CCTTGTTTCA Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 19 20 1.00 ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21 Consensus pattern (19 bp): AGGGACTGACAATGTACTA Found at i:48566669 original size:30 final size:31 Alignment explanation
Indices: 48566633--48566693 Score: 88 Period size: 30 Copynumber: 2.0 Consensus size: 31 48566623 GGTATCAAAT 48566633 AAAGTCAAAGATAAGGGTATC-AAATATTGG 1 AAAGTCAAAGATAAGGGTATCGAAATATTGG ** * 48566663 AAAGTCAAAGATTTGGGTATCGAGATATTGG 1 AAAGTCAAAGATAAGGGTATCGAAATATTGG 48566694 CATAAGAAAT Statistics Matches: 27, Mismatches: 3, Indels: 1 0.87 0.10 0.03 Matches are distributed among these distances: 30 19 0.70 31 8 0.30 ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26 Consensus pattern (31 bp): AAAGTCAAAGATAAGGGTATCGAAATATTGG Found at i:48571251 original size:15 final size:15 Alignment explanation
Indices: 48571231--48571302 Score: 58 Period size: 15 Copynumber: 4.8 Consensus size: 15 48571221 TGATGGAAAG * 48571231 TCAAATATATGGTTA 1 TCAAATATATGGATA * 48571246 TCAAATA-ATGGAAA 1 TCAAATATATGGATA * * 48571260 GTCAAAGATATGGGTA 1 -TCAAATATATGGATA * 48571276 TCAAATAT-TGGAAAA 1 TCAAATATATGG-ATA * 48571291 TCAAAGATATGG 1 TCAAATATATGG 48571303 GTATTGAGAT Statistics Matches: 44, Mismatches: 9, Indels: 7 0.73 0.15 0.12 Matches are distributed among these distances: 14 8 0.18 15 28 0.64 16 8 0.18 ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28 Consensus pattern (15 bp): TCAAATATATGGATA Found at i:48571259 original size:30 final size:30 Alignment explanation
Indices: 48571223--48571306 Score: 132 Period size: 30 Copynumber: 2.8 Consensus size: 30 48571213 GAGATTATTG * * 48571223 ATGGAAAGTCAAATATATGGTTATCAAATA 1 ATGGAAAGTCAAAGATATGGGTATCAAATA 48571253 ATGGAAAGTCAAAGATATGGGTATCAAATA 1 ATGGAAAGTCAAAGATATGGGTATCAAATA * * 48571283 TTGGAAAATCAAAGATATGGGTAT 1 ATGGAAAGTCAAAGATATGGGTAT 48571307 TGAGATATTG Statistics Matches: 50, Mismatches: 4, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 30 50 1.00 ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27 Consensus pattern (30 bp): ATGGAAAGTCAAAGATATGGGTATCAAATA Found at i:48571469 original size:2 final size:2 Alignment explanation
Indices: 48571462--48571488 Score: 54 Period size: 2 Copynumber: 13.5 Consensus size: 2 48571452 AAGGCATTGT 48571462 TC TC TC TC TC TC TC TC TC TC TC TC TC T 1 TC TC TC TC TC TC TC TC TC TC TC TC TC T 48571489 TTGTAAATTC 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:0.00, C:0.48, G:0.00, T:0.52 Consensus pattern (2 bp): TC Found at i:48574162 original size:170 final size:169 Alignment explanation
Indices: 48573874--48574212 Score: 669 Period size: 170 Copynumber: 2.0 Consensus size: 169 48573864 ACATTTTGCC 48573874 CCCTTTAAAAAAAATCTTTTTCTAGGTGTTACAATACAACTCAAATTCTTTGACTATAATGAAAA 1 CCCTTTAAAAAAAATCTTTTTCTAGGTGTTACAATACAACTCAAATTCTTTGACTATAATGAAAA 48573939 TGACTTAAGAAGATCAAAGCTCAACCAGCACCACCACTCTTATTGAAACAATCATATGACAGTTT 66 TGACTTAAGAAGATCAAAGCTCAACCAGCACCACCACTCTTATTGAAACAATCATATGACAGTTT 48574004 AGGCTTTAAGATGAAAAAGAAAATATCAGAAGCACAACA 131 AGGCTTTAAGATGAAAAAGAAAATATCAGAAGCACAACA 48574043 CCCTTTAAAAAAAATTCTTTTTCTAGGTGTTACAATACAACTCAAATTCTTTGACTATAATGAAA 1 CCCTTTAAAAAAAA-TCTTTTTCTAGGTGTTACAATACAACTCAAATTCTTTGACTATAATGAAA 48574108 ATGACTTAAGAAGATCAAAGCTCAACCAGCACCACCACTCTTATTGAAACAATCATATGACAGTT 65 ATGACTTAAGAAGATCAAAGCTCAACCAGCACCACCACTCTTATTGAAACAATCATATGACAGTT 48574173 TAGGCTTTAAGATGAAAAAGAAAATATCAGAAGCACAACA 130 TAGGCTTTAAGATGAAAAAGAAAATATCAGAAGCACAACA 48574213 TTAAAATCTG Statistics Matches: 169, Mismatches: 0, Indels: 1 0.99 0.00 0.01 Matches are distributed among these distances: 169 14 0.08 170 155 0.92 ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27 Consensus pattern (169 bp): CCCTTTAAAAAAAATCTTTTTCTAGGTGTTACAATACAACTCAAATTCTTTGACTATAATGAAAA TGACTTAAGAAGATCAAAGCTCAACCAGCACCACCACTCTTATTGAAACAATCATATGACAGTTT AGGCTTTAAGATGAAAAAGAAAATATCAGAAGCACAACA Done.