Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 33 of 344
Found at i:11366422 original size:21 final size:22
Alignment explanation
Indices: 11366383--11366436 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
11366373 CATACAATTG
* *
11366383 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATAA
*
11366405 TTAATATAA-ATTACAATATAA
1 TTAAAATAATATTACAATATAA
11366426 TTAAAATAATA
1 TTAAAATAATA
11366437 ATATAGTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAATAATATTACAATATAA
Found at i:11369773 original size:565 final size:566
Alignment explanation
Indices: 11368392--11370078 Score: 3200
Period size: 565 Copynumber: 3.0 Consensus size: 566
11368382 ATTTTTTATT
* *
11368392 GTATCTAGTAGACTTAAAGATATTTAATGTGTATGGTCTGATTTTCGTTTGATATACTATAGCTT
1 GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
11368457 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTTAAGTTTGC
66 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTTAAGTTTGC
11368522 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
131 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
11368587 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAA-GGGTT
196 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
11368651 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTTCG
261 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTTCG
11368716 TTGATTATTGATATATTGTATTATTCGGTTTGCCATAATTACCAAATTGATTTATAGAGAGTGAA
326 TTGATTATTGATATATTGTATTATTCGGTTTGCCATAATTACCAAATTGATTTATAGAGAGTGAA
11368781 AGAACACTGATTGTACTTCTATATTGTTTCGTCGAGTTCAATTTCATTCTAA-AAAATAGTATCA
391 AGAACACTGATTGTACTTCTATATTGTTTCGTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
11368845 GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
456 GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
*
11368910 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTCAATTTCAG
521 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTCAATTTCAA
11368956 GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
1 GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
11369021 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTTAAGTTTGC
66 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTTAAGTTTGC
11369086 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
131 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
11369151 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
196 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
11369216 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTTCG
261 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTTCG
11369281 TTGATTATTGATATATTGTATTATTCGGTTTGCCATAATTACCAAATTGATTTATAGAGAGTGAA
326 TTGATTATTGATATATTGTATTATTCGGTTTGCCATAATTACCAAATTGATTTATAGAGAGTGAA
11369346 AGAACACTGATTGTACTTCTATATTGTTTCGTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
391 AGAACACTGATTGTACTTCTATATTGTTTCGTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
11369411 GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
456 GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
11369476 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTCAATTTCAA
521 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTCAATTTCAA
11369522 GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
1 GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
*
11369587 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTAAAGTTTGC
66 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTTAAGTTTGC
11369652 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
131 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
* *
11369717 ATTATAGTGAAAATTTTGGCGTACTTTTAAGTTCTGTAG-TTTTACCCTTTGCTTTAAAGGGGTT
196 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
*
11369781 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTGCG
261 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTTCG
* * * *
11369846 TTAATTGTTGATATATTGTATTATTCGATTTGCCATAATTACCAAATTGATTTATAGGGAGTGAA
326 TTGATTATTGATATATTGTATTATTCGGTTTGCCATAATTACCAAATTGATTTATAGAGAGTGAA
* * * * *
11369911 AGAACATTGATTGTGCTTCTACATTGTTTCCTCGAGTTCAATTTCATTCTAACAAAATGGTATCA
391 AGAACACTGATTGTACTTCTATATTGTTTCGTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
*
11369976 GAGCTTGATTTTCGTGTTTAGTAATCATGTAAATTATCATTAGTAAGATGATTATATTGAATGAC
456 GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
11370041 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTC
521 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTC
11370079 TGTTAGTGAA
Statistics
Matches: 1104, Mismatches: 17, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
564 252 0.23
565 498 0.45
566 354 0.32
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (566 bp):
GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTTAAGTTTGC
TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTTCG
TTGATTATTGATATATTGTATTATTCGGTTTGCCATAATTACCAAATTGATTTATAGAGAGTGAA
AGAACACTGATTGTACTTCTATATTGTTTCGTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTCAATTTCAA
Found at i:11375128 original size:24 final size:24
Alignment explanation
Indices: 11375101--11375147 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11375091 ATATGTTGAC
11375101 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
11375125 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
11375148 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:11375181 original size:24 final size:24
Alignment explanation
Indices: 11375111--11375173 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
11375101 ATTCAAATCA
* * * *
11375111 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
11375135 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
11375159 GCACACATAGTGCCA
1 GCACACATAGTGCCA
11375174 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:11379149 original size:26 final size:26
Alignment explanation
Indices: 11379113--11379163 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11379103 TTCAAGTAAG
11379113 TTCAACTCTTGATTATTTCTTAAAAA
1 TTCAACTCTTGATTATTTCTTAAAAA
*
11379139 TTCAATTCTTGATTATTTCTTAAAA
1 TTCAACTCTTGATTATTTCTTAAAA
11379164 TTTTTGTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (26 bp):
TTCAACTCTTGATTATTTCTTAAAAA
Found at i:11380606 original size:50 final size:51
Alignment explanation
Indices: 11380529--11380655 Score: 193
Period size: 50 Copynumber: 2.5 Consensus size: 51
11380519 GACCATGGCA
* * *
11380529 ACAAGTGATGAGTGATAGCTTCGGCTACACTTATCTGATCAAGTACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
11380580 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGGTCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
11380630 ACAAGTGAAAAGTGGTAGCTTCGGCT
1 ACAAGTGATAAGTGATAGCTTCGGCT
11380656 CCCTGATCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 46 0.67
51 23 0.33
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:11380670 original size:31 final size:31
Alignment explanation
Indices: 11380633--11380750 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
11380623 ACAAATGACA
* * *
11380633 AGTGAAAAGTGGTAGCTTCGGCTCCCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
*
11380664 ATTGAAAAGTGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
*
11380695 AGTGAAAAATGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
* *
11380726 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
11380751 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
Found at i:11380890 original size:46 final size:47
Alignment explanation
Indices: 11380770--11380891 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
11380760 GTGATTTCCA
* * * *
11380770 TATAAAACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* * *
11380817 TATAAGACCATATCTGGGATATAGCATCAGTGAGATATGTGATTC-G
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* * *
11380863 TGTAAGACCATAGCTGGGCTATGGCATCA
1 TATAAGACCATATCTGGGATATGGCATCA
11380892 TTATGTGAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 26 0.41
47 38 0.59
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
Found at i:11381657 original size:24 final size:24
Alignment explanation
Indices: 11381630--11381679 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
11381620 CCGAATTATA
*
11381630 TAATAA-ATATATATTTTTTATTTT
1 TAATAATATATATA-TTTATATTTT
* *
11381654 TAATCATATTTATATTTATATTTT
1 TAATAATATATATATTTATATTTT
11381678 TA
1 TA
11381680 TTTTAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TAATAATATATATATTTATATTTT
Found at i:11381768 original size:40 final size:41
Alignment explanation
Indices: 11381696--11381790 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 41
11381686 TATAATCAAT
* *
11381696 TTTTATTATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATATTTTAATTTGTGTATTGTTTTAAGAATTG
* * * *
11381737 TTTTAATATATATTTT-ATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATATTTTAATTTGTGTATTGTTTTAAGAATTG
*
11381777 TTTTAA-ATGTATTT
1 TTTTAATATATATTT
11381791 GGTTATTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 7 0.15
40 26 0.55
41 14 0.30
ACGTcount: A:0.24, C:0.01, G:0.09, T:0.65
Consensus pattern (41 bp):
TTTTAATATATATTTTAATTTGTGTATTGTTTTAAGAATTG
Found at i:11383530 original size:18 final size:18
Alignment explanation
Indices: 11383503--11383538 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11383493 GGAATTCGAG
11383503 AGCTTCGATTCCCTCTTA
1 AGCTTCGATTCCCTCTTA
*
11383521 AGCTTTGATTCCCTCTTA
1 AGCTTCGATTCCCTCTTA
11383539 TTCCTACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (18 bp):
AGCTTCGATTCCCTCTTA
Found at i:11385508 original size:238 final size:238
Alignment explanation
Indices: 11385090--11385568 Score: 958
Period size: 238 Copynumber: 2.0 Consensus size: 238
11385080 CGATTCGTCA
11385090 AGTCTGGGGATTACCTACATAGATTAAGTAGAAGGGGTGAGTTTATGTAAACTCAGTATGTAATT
1 AGTCTGGGGATTACCTACATAGATTAAGTAGAAGGGGTGAGTTTATGTAAACTCAGTATGTAATT
11385155 CCCCGCGCAAACAAACAGACAGTATACAAAATAAACTTAGTCTGGGCCTAAGCCCTTTTCAGTAT
66 CCCCGCGCAAACAAACAGACAGTATACAAAATAAACTTAGTCTGGGCCTAAGCCCTTTTCAGTAT
11385220 CAGTGACAGTATCAGTTAGGGCTTTAACCTATCTTAGTACAAAAGCAGTCATGCATTTGGGCTTT
131 CAGTGACAGTATCAGTTAGGGCTTTAACCTATCTTAGTACAAAAGCAGTCATGCATTTGGGCTTT
11385285 GGCCCATTACAGTATCAGTAATCAATACAGTAATAGATTATGC
196 GGCCCATTACAGTATCAGTAATCAATACAGTAATAGATTATGC
11385328 AGTCTGGGGATTACCTACATAGATTAAGTAGAAGGGGTGAGTTTATGTAAACTCAGTATGTAATT
1 AGTCTGGGGATTACCTACATAGATTAAGTAGAAGGGGTGAGTTTATGTAAACTCAGTATGTAATT
11385393 CCCCGCGCAAACAAACAGACAGTATACAAAATAAACTTAGTCTGGGCCTAAGCCCTTTTCAGTAT
66 CCCCGCGCAAACAAACAGACAGTATACAAAATAAACTTAGTCTGGGCCTAAGCCCTTTTCAGTAT
11385458 CAGTGACAGTATCAGTTAGGGCTTTAACCTATCTTAGTACAAAAGCAGTCATGCATTTGGGCTTT
131 CAGTGACAGTATCAGTTAGGGCTTTAACCTATCTTAGTACAAAAGCAGTCATGCATTTGGGCTTT
11385523 GGCCCATTACAGTATCAGTAATCAATACAGTAATAGATTATGC
196 GGCCCATTACAGTATCAGTAATCAATACAGTAATAGATTATGC
11385566 AGT
1 AGT
11385569 AAACGAGTCC
Statistics
Matches: 241, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 241 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (238 bp):
AGTCTGGGGATTACCTACATAGATTAAGTAGAAGGGGTGAGTTTATGTAAACTCAGTATGTAATT
CCCCGCGCAAACAAACAGACAGTATACAAAATAAACTTAGTCTGGGCCTAAGCCCTTTTCAGTAT
CAGTGACAGTATCAGTTAGGGCTTTAACCTATCTTAGTACAAAAGCAGTCATGCATTTGGGCTTT
GGCCCATTACAGTATCAGTAATCAATACAGTAATAGATTATGC
Found at i:11386019 original size:18 final size:18
Alignment explanation
Indices: 11385996--11386030 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11385986 ATGTGATCTG
*
11385996 CCCGTGTGAGCCCACACA
1 CCCGTGTAAGCCCACACA
11386014 CCCGTGTAAGCCCACAC
1 CCCGTGTAAGCCCACAC
11386031 GGCCCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.46, G:0.20, T:0.11
Consensus pattern (18 bp):
CCCGTGTAAGCCCACACA
Found at i:11389029 original size:33 final size:35
Alignment explanation
Indices: 11388976--11389040 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
11388966 TATATAAACT
*
11388976 ATATTTTAAATATTTGTAATTAGT-ATTTTAAAAA
1 ATATTTTAAATATTTGTAATTAATGATTTTAAAAA
* *
11389010 ATATTTT-ATTATTTTTAATTAATGATTTTAA
1 ATATTTTAAATATTTGTAATTAATGATTTTAA
11389041 CACATTTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (35 bp):
ATATTTTAAATATTTGTAATTAATGATTTTAAAAA
Found at i:11392687 original size:14 final size:15
Alignment explanation
Indices: 11392662--11392690 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11392652 AAAAAAAATT
11392662 ACAAAATGAAAAACA
1 ACAAAATGAAAAACA
11392677 ACAAAAT-AAAAACA
1 ACAAAATGAAAAACA
11392691 TATACTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.76, C:0.14, G:0.03, T:0.07
Consensus pattern (15 bp):
ACAAAATGAAAAACA
Found at i:11393530 original size:12 final size:12
Alignment explanation
Indices: 11393513--11393540 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11393503 TCTCTTTCAA
11393513 AAAAGGTATTTT
1 AAAAGGTATTTT
11393525 AAAAGGTATTTT
1 AAAAGGTATTTT
11393537 AAAA
1 AAAA
11393541 TACCTCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (12 bp):
AAAAGGTATTTT
Found at i:11393810 original size:30 final size:31
Alignment explanation
Indices: 11393776--11393837 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
11393766 TATATATAAT
*
11393776 ATTATATATTTGAA-ATAAAT-TTAAAAAATA
1 ATTATATATCT-AATATAAATATTAAAAAATA
*
11393806 ATTATATATCTAATATAAATATTAAATAATA
1 ATTATATATCTAATATAAATATTAAAAAATA
11393837 A
1 A
11393838 ATGAGAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 16 0.57
31 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (31 bp):
ATTATATATCTAATATAAATATTAAAAAATA
Found at i:11396625 original size:33 final size:32
Alignment explanation
Indices: 11396567--11396629 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
11396557 ATTATTTAAT
11396567 TAATAAATATCTCTTAATTATAATAATAATAAA
1 TAATAAATATCTCTTAATTATAATAA-AATAAA
11396600 TAATAAATATCTAC-TAATT-TAAATAAAATA
1 TAATAAATATCT-CTTAATTAT-AATAAAATA
11396630 TTATAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.18
33 22 0.79
34 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAAATATCTCTTAATTATAATAAAATAAA
Found at i:11404633 original size:21 final size:24
Alignment explanation
Indices: 11404608--11404677 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
11404598 GAATCAAGCT
11404608 TCGTTACA-TTT-AT-CAAATAAA
1 TCGTTACATTTTAATCCAAATAAA
**
11404629 TCGTTTTATTTTAATCCAAATAAA
1 TCGTTACATTTTAATCCAAATAAA
** *
11404653 TCGTTTTATTTTAATCCAAACAAA
1 TCGTTACATTTTAATCCAAATAAA
11404677 T
1 T
11404678 AATGCAAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.14
22 3 0.07
23 2 0.05
24 32 0.74
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (24 bp):
TCGTTACATTTTAATCCAAATAAA
Found at i:11404679 original size:28 final size:24
Alignment explanation
Indices: 11404621--11404677 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
11404611 TTACATTTAT
11404621 CAAATAAATCGTTTTATTTTAATC
1 CAAATAAATCGTTTTATTTTAATC
11404645 CAAATAAATCGTTTTATTTTAATC
1 CAAATAAATCGTTTTATTTTAATC
*
11404669 CAAACAAAT
1 CAAATAAAT
11404678 AATGCAAGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (24 bp):
CAAATAAATCGTTTTATTTTAATC
Found at i:11415111 original size:24 final size:20
Alignment explanation
Indices: 11415065--11415104 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11415055 ATGCCAAACT
*
11415065 AGGAAGGACCTTATGTAATA
1 AGGAAGGACCTTATATAATA
11415085 AGGAAGGACCTTATATAATA
1 AGGAAGGACCTTATATAATA
11415105 CAGAAGGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (20 bp):
AGGAAGGACCTTATATAATA
Found at i:11416457 original size:64 final size:64
Alignment explanation
Indices: 11416334--11416457 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
11416324 TCATTCATAA
* * *
11416334 CACATCTAGTTAGGAGCATTGGATTCATTTTGATCATAGCATCCTAATTATTTTACATAATCAT
1 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAAATATTTGACATAATCAT
* * * *
11416398 CACATCTAGTTAGGAGCATTTGATTCATTTCGATTATAGTATCCTAAATATTTGGCATAA
1 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAAATATTTGACATAA
11416458 GCATAGATAC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAAATATTTGACATAATCAT
Found at i:11416861 original size:178 final size:178
Alignment explanation
Indices: 11416562--11416892 Score: 520
Period size: 178 Copynumber: 1.9 Consensus size: 178
11416552 GGGTAATAGG
*** **
11416562 CTAAAAATTACAGATCTTATCTCCAAGTATCGGCTATGGAGCAGATTGGAAATGGTGAGTCTTAT
1 CTAAAAATTACAGATCTTATCTCCAAGTATCGGCTATGGAGCAGATCAAAAATGGCAAGTCTTAT
* * **
11416627 CTCCATGTATCGACTATGGAGTAGATTTTAGCCACCAGTCGTATCTCTCTGAGGTAGCAAGAGAG
66 ATCCATGTATCGACTATGGAGCAGATTTTAGCCACCAACCGTATCTCTCTGAGGTAGCAAGAGAG
* *
11416692 TAGGTTGAAGATACAAGTCTTATATTCCTGAGGTAACAAGGAAGCAGA
131 CAGGTTGAAGATACAAATCTTATATTCCTGAGGTAACAAGGAAGCAGA
* *
11416740 CTAAAAATTACAGATCTTATCTCCATGTATCGGTTATGGAGCAGATCAAAAATGGCAAGTCTTAT
1 CTAAAAATTACAGATCTTATCTCCAAGTATCGGCTATGGAGCAGATCAAAAATGGCAAGTCTTAT
*
11416805 ATCCATGTATCTG-CTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGA
66 ATCCATGTATC-GACTATGGAGCAGATTTTAGCCACCAACCGTATCTCTCTGAGGTAGCAAGAGA
11416869 GCAGGTTGAAGATACAAATCTTAT
130 GCAGGTTGAAGATACAAATCTTAT
11416893 CTTCTTGAAG
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
178 137 0.99
179 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (178 bp):
CTAAAAATTACAGATCTTATCTCCAAGTATCGGCTATGGAGCAGATCAAAAATGGCAAGTCTTAT
ATCCATGTATCGACTATGGAGCAGATTTTAGCCACCAACCGTATCTCTCTGAGGTAGCAAGAGAG
CAGGTTGAAGATACAAATCTTATATTCCTGAGGTAACAAGGAAGCAGA
Found at i:11416960 original size:44 final size:44
Alignment explanation
Indices: 11416844--11416953 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
11416834 AGCCACCAAC
* *
11416844 CTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAAT
1 CTTATCTTC-CTGAGGTAGCAAGAGAGCAGGTCGAAGATACAAGT
* * *
11416888 CTTATCTTCTTGAAGTAGTAAGAGAGCAGGTCGAAGATACAAGT
1 CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTCGAAGATACAAGT
11416932 CTTATCTTCCTGAGGTAGCAAG
1 CTTATCTTCCTGAGGTAGCAAG
11416954 GAAGCAGACT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 55 0.96
45 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTCGAAGATACAAGT
Found at i:11420237 original size:19 final size:19
Alignment explanation
Indices: 11420215--11420251 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11420205 GTCGGCATTC
11420215 AAAAA-AAAAGAGAAAAAAG
1 AAAAAGAAAA-AGAAAAAAG
11420234 AAAAAGAAAAAGAAAAAA
1 AAAAAGAAAAAGAAAAAA
11420252 AGGATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAAG
Found at i:11434826 original size:46 final size:46
Alignment explanation
Indices: 11434774--11435181 Score: 521
Period size: 46 Copynumber: 8.9 Consensus size: 46
11434764 TTTTGAAATG
*
11434774 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
11434820 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
11434866 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
11434912 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
11434958 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
****
11435004 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG-GCGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* ** * ** * * *
11435049 GAATGAATAAGACCATGGTTGAAAGATACTATGGCAATGTAACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*** * * * *
11435095 AAATGAACAAGACCGTGGTTGAAAGATACCATGGCAACCTGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* * * * * * *
11435141 AAATGAGTAAGACTATAGTCGAAAGACACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
11435182 TCAAAGATAA
Statistics
Matches: 319, Mismatches: 42, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
45 34 0.11
46 285 0.89
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
Found at i:11435483 original size:16 final size:17
Alignment explanation
Indices: 11435462--11435494 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11435452 ATGATGGAGC
11435462 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
11435478 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
11435495 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:11437870 original size:43 final size:43
Alignment explanation
Indices: 11437737--11437879 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 43
11437727 GCCACTAACT
*
11437737 TTATCTCCCTGAAGTTGCAAGGAATAGGTTAAAGTTACAAGTC
1 TTATCCCCCTGAAGTTGCAAGGAATAGGTTAAAGTTACAAGTC
* * * * ** * * *
11437780 TTAT-CCCCTGAAATTACAACGGGACAGACTGAAGATAGCAAATC
1 TTATCCCCCTGAAGTTGCAA-GGAATAGGTTAAAGTTA-CAAGTC
** *
11437824 TTATTTCCTTGAAGTTGCAAGGAATAGGTTAAAGTTACAAGTC
1 TTATCCCCCTGAAGTTGCAAGGAATAGGTTAAAGTTACAAGTC
*
11437867 TTATCCCCTTGAA
1 TTATCCCCCTGAA
11437880 ATTACAAAGG
Statistics
Matches: 74, Mismatches: 23, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
42 12 0.16
43 31 0.42
44 20 0.27
45 11 0.15
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (43 bp):
TTATCCCCCTGAAGTTGCAAGGAATAGGTTAAAGTTACAAGTC
Found at i:11438030 original size:44 final size:44
Alignment explanation
Indices: 11437967--11438124 Score: 158
Period size: 44 Copynumber: 3.6 Consensus size: 44
11437957 CATGGCAAAT
* * * *
11437967 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATGGAAGCCATTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAAAC
* * *
11438011 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAG--ATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA-AA-C
** * ** * *
11438055 CTTATCTCCCTGAAGTTATAGTAGAATAGATTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAAAC
11438099 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
11438125 TGGATCAAAG
Statistics
Matches: 89, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 81 0.91
45 2 0.02
46 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAAAC
Found at i:11438135 original size:44 final size:44
Alignment explanation
Indices: 11437962--11438140 Score: 151
Period size: 44 Copynumber: 4.1 Consensus size: 44
11437952 TCTATCATGG
* * * * **
11437962 CAAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATGGAAGCCA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
** * * * * **
11438006 TTAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
** ** * *
11438050 CAAGTCTTATCTCCCTGAAGTTATAGTAGAATAGATTAAAGCCA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
* * *
11438094 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTGGATCAAAGCAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
11438138 CAA
1 CAA
11438141 TTCCTATACC
Statistics
Matches: 102, Mismatches: 33, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
44 102 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
Found at i:11442487 original size:24 final size:23
Alignment explanation
Indices: 11442458--11442502 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
11442448 TTAATTATAC
11442458 TTAATTATTAGTTTTGTTAATTTG
1 TTAATTATTAG-TTTGTTAATTTG
11442482 TTAATTATTAGTTTGTTAATT
1 TTAATTATTAGTTTGTTAATT
11442503 GGCATTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (23 bp):
TTAATTATTAGTTTGTTAATTTG
Found at i:11442996 original size:127 final size:129
Alignment explanation
Indices: 11442679--11443002 Score: 510
Period size: 129 Copynumber: 2.5 Consensus size: 129
11442669 CCTTAAAAAA
* * *
11442679 AAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCC
1 AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTTCC
* * *
11442744 GTTTGTTCAAAATAATCGAATGTTCCTTTAGAATTTCACTCGTATTTTTTTCAAATTCTGAAAC
66 GTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTAGTTTTATCAAATTCTGAAAC
* *
11442808 AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTTGATTTTCG
1 AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTTCC
*
11442873 GTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGT-GTTTTAT-AAATTCT-AAAGC
66 GTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTAGTTTTATCAAATTCTGAAA-C
* * *
11442935 AAGGCAATGTTCAATGTTTAGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCGATTTTTC
1 AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTTCC
11443000 GTT
66 GTT
11443003 GGACTAAATA
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
126 3 0.02
127 71 0.39
128 5 0.03
129 101 0.56
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (129 bp):
AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTTCC
GTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTAGTTTTATCAAATTCTGAAAC
Found at i:11450729 original size:24 final size:24
Alignment explanation
Indices: 11450688--11450733 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11450678 ATTGTACTTA
*
11450688 AATAAATTTTAAAGGAAACATATAT
1 AATAAATTTTAAAAGAAA-ATATAT
11450713 AATAAA-TTTAAAAGAAAATAT
1 AATAAATTTTAAAAGAAAATAT
11450734 TTGCATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (24 bp):
AATAAATTTTAAAAGAAAATATAT
Found at i:11452364 original size:45 final size:45
Alignment explanation
Indices: 11452291--11452402 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 45
11452281 GTTTTCTCTA
* * * *
11452291 TTGCGACCTCAGGGAGATAA-AACTTGTAATTTTGAGCCTGCTTTAC
1 TTGCAACCTCAGGAAGATAAGATC-TGTAATTTTCAGCCTGC-TTAC
* * *
11452337 -TGCAACTTCAGGAAGATAAGATCTGTAATTTTCAGTCTGCTTCC
1 TTGCAACCTCAGGAAGATAAGATCTGTAATTTTCAGCCTGCTTAC
*
11452381 TTGCTACCTCAGGAAGATAAGA
1 TTGCAACCTCAGGAAGATAAGA
11452403 CTTGTACCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 3 0.05
45 50 0.91
46 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (45 bp):
TTGCAACCTCAGGAAGATAAGATCTGTAATTTTCAGCCTGCTTAC
Found at i:11452610 original size:44 final size:44
Alignment explanation
Indices: 11452555--11452841 Score: 200
Period size: 44 Copynumber: 6.5 Consensus size: 44
11452545 AGTCTGCTTC
* *
11452555 CTGCAACTTCAGGAAGATAAGACTTGCATATTGAGCCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCATATTCAACCTGCTCCA
* * *
11452599 CTGCAACTTCAGGGAGATAAGACTTGTCA-CTTCAACATGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTG-CATATTCAACCTGCTCCA
* ** * * *
11452643 CTGCAACTTCAGGGAGATAAGGTTTACCATAATCTA-CT-CT--A
1 CTGCAACTTCAGGAAGATAAGACTT-GCATATTCAACCTGCTCCA
** * *
11452684 CTGCAACTTCA-GAGAGATAAGATCTGTTTATAGCTTCAATCTGTTCCA
1 CTGCAACTTCAGGA-AGATAAGA-CT-TGCATA--TTCAACCTGCTCCA
**
11452732 CTGCAACTTCAGGGAA-ATAAGA-TT-CACTATCTTCAGTCTGCTCCA
1 CTGCAACTTCA-GGAAGATAAGACTTGCA-TA--TTCAACCTGCTCCA
* *
11452777 CTACAACTTCAATG-AGATAAGACTTGTCAT-TTCAACCTGCTCCA
1 CTGCAACTTC-AGGAAGATAAGACTTG-CATATTCAACCTGCTCCA
*
11452821 CTTCAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGAAGATAAG
11452842 GTTCACTTCT
Statistics
Matches: 192, Mismatches: 30, Indels: 42
0.73 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 19 0.10
42 4 0.02
43 5 0.03
44 95 0.49
45 39 0.20
46 5 0.03
47 1 0.01
48 20 0.10
49 1 0.01
50 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGGAAGATAAGACTTGCATATTCAACCTGCTCCA
Found at i:11452784 original size:45 final size:44
Alignment explanation
Indices: 11452717--11452856 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 44
11452707 CTGTTTATAG
* *
11452717 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
1 CTTCAATCTGCTCCACTACAACTTCA-GGAAATAAGATTCACTAT
* * * **
11452762 CTTCAGTCTGCTCCACTACAACTTCAATGAGATAAGACTTGTC-AT
1 CTTCAATCTGCTCCACTACAACTTC-AGGAAATAAGA-TTCACTAT
* * *
11452807 -TTCAACCTGCTCCACTTCAACTTCAGGAAGATAAGGTTCACT-T
1 CTTCAATCTGCTCCACTACAACTTCAGGAA-ATAAGATTCACTAT
11452850 CTTCAAT
1 CTTCAAT
11452857 GTTACTACAC
Statistics
Matches: 74, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
43 7 0.09
44 31 0.42
45 32 0.43
46 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGAAATAAGATTCACTAT
Found at i:11452811 original size:89 final size:87
Alignment explanation
Indices: 11452591--11452856 Score: 258
Period size: 89 Copynumber: 3.0 Consensus size: 87
11452581 CATATTGAGC
* *
11452591 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCACTTCAACATGCTCCACTGCAACTTCAGG
1 CTGCTCCACTGCAACTTCA-AGAGATAAGACTTGTCATTTCAAC-TGCTCCACTGCAACTTCAGG
* * *
11452656 GAGATAAGGTT---TACCAT-AAT
64 GAAATAAGGTTCACTATCTTCAAT
* * * *
11452676 CTACTCTACTGCAACTTCAGAGAGATAAGA-TCTGTTTATAGCTTCAATCTGTTCCACTGCAACT
1 CTGCTCCACTGCAACTTCA-AGAGATAAGACT-TG-TCAT---TTCAA-CTGCTCCACTGCAACT
* *
11452740 TCAGGGAAATAAGATTCACTATCTTCAGT
59 TCAGGGAAATAAGGTTCACTATCTTCAAT
* *
11452769 CTGCTCCACTACAACTTCAATGAGATAAGACTTGTCATTTCAACCTGCTCCACTTCAACTTCA-G
1 CTGCTCCACTGCAACTTCAA-GAGATAAGACTTGTCATTTCAA-CTGCTCCACTGCAACTTCAGG
11452833 GAAGATAAGGTTCACT-TCTTCAAT
64 GAA-ATAAGGTTCACTATCTTCAAT
11452857 GTTACTACAC
Statistics
Matches: 148, Mismatches: 20, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
84 1 0.01
85 29 0.20
86 2 0.01
88 11 0.07
89 66 0.45
90 1 0.01
92 8 0.05
93 29 0.20
94 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (87 bp):
CTGCTCCACTGCAACTTCAAGAGATAAGACTTGTCATTTCAACTGCTCCACTGCAACTTCAGGGA
AATAAGGTTCACTATCTTCAAT
Found at i:11453010 original size:64 final size:64
Alignment explanation
Indices: 11452909--11453030 Score: 190
Period size: 64 Copynumber: 1.9 Consensus size: 64
11452899 TCATATATCT
* *
11452909 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATACTCCCAACTAGATGTG
** * *
11452973 ATGCTTATGTTAAGTAATTAGGATGCTATGATCGAAATGAATCAAATACTCCCAACTA
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATACTCCCAACTA
11453031 TATTTGTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATACTCCCAACTAGATGTG
Found at i:11467261 original size:12 final size:12
Alignment explanation
Indices: 11467239--11467274 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
11467229 AAATATCTTT
11467239 AAAAG-TATAAA
1 AAAAGTTATAAA
11467250 AAAAGTTATAAA
1 AAAAGTTATAAA
11467262 AAAA-TTATAAA
1 AAAAGTTATAAA
11467273 AA
1 AA
11467275 TTATAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (12 bp):
AAAAGTTATAAA
Found at i:11467262 original size:9 final size:9
Alignment explanation
Indices: 11467261--11467294 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11467251 AAAGTTATAA
11467261 AAAAATTAT
1 AAAAATTAT
11467270 AAAAATTAT
1 AAAAATTAT
11467279 AAAAATATAT
1 AAAAAT-TAT
*
11467289 ATAAAT
1 AAAAAT
11467295 AAAATTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:11467273 original size:20 final size:21
Alignment explanation
Indices: 11467239--11467293 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
11467229 AAATATCTTT
* *
11467239 AAAAGTATAAAAAAAGTTATAA
1 AAAAATATATAAAAA-TTATAA
11467261 AAAAAT-TATAAAAATTATAA
1 AAAAATATATAAAAATTATAA
*
11467281 AAATATATATAAA
1 AAAAATATATAAA
11467294 TAAAATTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.38
21 13 0.45
22 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAAATATATAAAAATTATAA
Found at i:11467280 original size:32 final size:33
Alignment explanation
Indices: 11467239--11467302 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
11467229 AAATATCTTT
11467239 AAAAGTATAAAAAAAGT-TATAAA-AAAATTATA
1 AAAAGTATAAAAAAA-TATATAAATAAAATTATA
* *
11467271 AAAATTATAAAAATATATATAAATAAAATTAT
1 AAAAGTATAAAAAAATATATAAATAAAATTAT
11467303 GTGTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 1 0.04
32 19 0.68
33 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (33 bp):
AAAAGTATAAAAAAATATATAAATAAAATTATA
Found at i:11467367 original size:39 final size:40
Alignment explanation
Indices: 11467311--11467413 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 40
11467301 ATGTGTAATT
* *
11467311 TTTTAAAAAATTTTAAAAAAATTAT-AAAACTATTAGAAA
1 TTTTAAAAAATTGTAAAAAAATTATAAAAAATATTAGAAA
* *
11467350 TTTTAAAATATTGTAAAAAAATTTTAAAAAATATTAGAAA
1 TTTTAAAAAATTGTAAAAAAATTATAAAAAATATTAGAAA
** * *
11467390 TCATAAAAGATTGT-GAAAAATTAT
1 TTTTAAAAAATTGTAAAAAAATTAT
11467414 TAATTTTTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 30 0.56
40 24 0.44
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (40 bp):
TTTTAAAAAATTGTAAAAAAATTATAAAAAATATTAGAAA
Found at i:11470038 original size:16 final size:17
Alignment explanation
Indices: 11470004--11470042 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
11469994 GAATTTTAAA
11470004 AAAAAAATTCAGAAATTT
1 AAAAAAATT-AGAAATTT
*
11470022 AAAAAAATT-GAATTTT
1 AAAAAAATTAGAAATTT
11470038 AAAAA
1 AAAAA
11470043 TTATAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAAAAATTAGAAATTT
Found at i:11470148 original size:25 final size:25
Alignment explanation
Indices: 11470089--11470149 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
11470079 CATTTAAGAA
* * *
11470089 TATTTTTTCTCTTTTCATTTTCCTTT
1 TATTCTTTC-CTTTCCATTTTCCCTT
*
11470115 TATTTTTTCCTTTCCATTTTCCCCTT
1 TATTCTTTCCTTTCCATTTT-CCCTT
11470141 T-TTCTTTCC
1 TATTCTTTCC
11470150 AAGTTTCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTCTTTCCTTTCCATTTTCCCTT
Found at i:11470156 original size:21 final size:21
Alignment explanation
Indices: 11470118--11470157 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11470108 TTCCTTTTAT
*
11470118 TTTTTCCTTTCCATTTTCCCC
1 TTTTTCCTTTCCAGTTTCCCC
11470139 TTTTT-CTTTCCAAGTTTCC
1 TTTTTCCTTTCC-AGTTTCC
11470158 ATAAAACCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.07, C:0.33, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTTCCTTTCCAGTTTCCCC
Found at i:11470780 original size:31 final size:32
Alignment explanation
Indices: 11470732--11470796 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 32
11470722 AAAGGGAAAG
11470732 ATAGAAAAAAGAAAAAAAAATTAAGTTATATT
1 ATAGAAAAAAGAAAAAAAAATTAAGTTATATT
*
11470764 ATAGAAAAAAG-GAAAAAAATTAAGTTATATT
1 ATAGAAAAAAGAAAAAAAAATTAAGTTATATT
11470795 AT
1 AT
11470797 TTTTAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 21 0.66
32 11 0.34
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (32 bp):
ATAGAAAAAAGAAAAAAAAATTAAGTTATATT
Found at i:11473026 original size:66 final size:65
Alignment explanation
Indices: 11472856--11473030 Score: 235
Period size: 65 Copynumber: 2.7 Consensus size: 65
11472846 TAGAATGTGA
* * * * *
11472856 TTTTTGTATTGAAATTTCATTATCT-TATCAACTTCAATTATTTATATATATTTGCATTATGTTT
1 TTTTTTTATTGAATTTTCATTAT-TGTATCAACTTAAATTATTTACATATATTTGCATTACGTTT
11472920 C
65 C
* ** *
11472921 TATTTTTATACAATTTTCATTATTGTATTAACTTAAATTATTTACATATATTTGCATTACGTTTC
1 TTTTTTTATTGAATTTTCATTATTGTATCAACTTAAATTATTTACATATATTTGCATTACGTTTC
*
11472986 TGTTTTTTATTGAATTTTCATTATTGTATCAACTTTAATTATTTA
1 T-TTTTTTATTGAATTTTCATTATTGTATCAACTTAAATTATTTA
11473031 GATGAACTTG
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
64 1 0.01
65 55 0.59
66 38 0.40
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.56
Consensus pattern (65 bp):
TTTTTTTATTGAATTTTCATTATTGTATCAACTTAAATTATTTACATATATTTGCATTACGTTTC
Found at i:11480345 original size:42 final size:43
Alignment explanation
Indices: 11480281--11480487 Score: 179
Period size: 42 Copynumber: 4.7 Consensus size: 43
11480271 CTTCGTTTTC
* ** * *
11480281 TCGACGCCATAGTTCAACTATGGTCTCACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATAA
* *
11480324 T-GATGCCATAGCCTAGCTATGGTCTTACACATATTCACAT-A
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATAA
*
11480365 TCGATGCCATAGCCCAACTATGGTCTTACACATAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCAC--AT---A-A
* *
11480414 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATATC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA-A
* *
11480457 TCACTGATGCCATATCCCAAATATGGTCTTA
1 T--C-GATGCCATAGCCCAACTATGGTCTTA
11480488 TATAGTAGCA
Statistics
Matches: 137, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.01
42 66 0.48
43 4 0.03
44 2 0.01
45 1 0.01
46 25 0.18
48 4 0.03
49 32 0.23
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (43 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATAA
Found at i:11480413 original size:49 final size:48
Alignment explanation
Indices: 11480351--11480487 Score: 188
Period size: 49 Copynumber: 2.9 Consensus size: 48
11480341 TATGGTCTTA
*
11480351 CACATATTCACATATCGATGCCATAGCCCAACTATGGTCTTACACATAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACTATGGTCTTACAC-GAAT
*
11480401 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
* * * *
11480449 CACATATCTCA-CT-GATGCCATATCCCAAATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTA
11480488 TATAGTAGCA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 23 0.29
47 1 0.01
48 13 0.16
49 37 0.46
50 6 0.08
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
Found at i:11480482 original size:46 final size:47
Alignment explanation
Indices: 11480366--11480528 Score: 150
Period size: 47 Copynumber: 3.4 Consensus size: 47
11480356 ATTCACATAT
* * * * *
11480366 CGATGCCATAGCCCA-ACTATGGTCTTACACATAATCACATATCACATAT
1 CGATGCCATATCCCAGA-TATGGTCTTACATAGAAGCACATATCAC--AC
* * * * *
11480415 CGATGCCATAGCCCAGCTATGGTCTTACA-CGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
* * * * *
11480461 TGATGCCATATCCCAAATATGGTCTTATATAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
11480508 CGATGCCATATCCCAGATATG
1 CGATGCCATATCCCAGATATG
11480529 ATTTTATACG
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 25 0.26
47 31 0.33
48 12 0.13
49 27 0.28
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
Found at i:11485201 original size:30 final size:30
Alignment explanation
Indices: 11485165--11485237 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
11485155 TGTCAAGGGA
*
11485165 TGAGGGCTTAATTGAGTACTTAAACTCGAC
1 TGAGGGCTTAATTGAGTACTTAAACTAGAC
* * *
11485195 TGAGGGCTCAATTGAGTACTTAAACTATAT
1 TGAGGGCTTAATTGAGTACTTAAACTAGAC
11485225 TGAGGGCTTAATT
1 TGAGGGCTTAATT
11485238 AGTTATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (30 bp):
TGAGGGCTTAATTGAGTACTTAAACTAGAC
Found at i:11486635 original size:17 final size:16
Alignment explanation
Indices: 11486613--11486655 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11486603 CACAATGCCA
11486613 ATGAAAAAAATTGATAT
1 ATGAAAAAAATT-ATAT
*
11486630 ATGAAAAATA-TATAT
1 ATGAAAAAAATTATAT
*
11486645 AAGAAAAAAAT
1 ATGAAAAAAAT
11486656 ATCAAATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 12 0.55
16 1 0.05
17 9 0.41
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
ATGAAAAAAATTATAT
Found at i:11491682 original size:51 final size:51
Alignment explanation
Indices: 11491627--11491857 Score: 262
Period size: 51 Copynumber: 4.7 Consensus size: 51
11491617 TGGAAACATG
*
11491627 ATCTTAAAAGATAAGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* * * *
11491678 ATCTTATAAGATATTATATTATAATCTTAGAGATCTTGGATATGATAT-G-
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
11491727 A---T--ATGATATGATATTATAATCTTAGAGATCTTAGATATGATATGAA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* * * * *
11491773 ATCTTATAAGATATTATTTTATATTCTTAGAGATCTTAGATACGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* *
11491824 ATCTTAGAAA-ATATGATTTTATATTCTTCGAGAT
1 ATCTTA-AAAGATATGATTTTATAATCTTAGAGAT
11491858 TTGATTTGTA
Statistics
Matches: 154, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
44 38 0.25
46 2 0.01
49 2 0.01
50 1 0.01
51 109 0.71
52 2 0.01
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (51 bp):
ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:11491726 original size:5 final size:5
Alignment explanation
Indices: 11491716--11491740 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11491706 AGAGATCTTG
11491716 GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT
11491741 TATAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:11491787 original size:95 final size:95
Alignment explanation
Indices: 11491636--11491821 Score: 309
Period size: 95 Copynumber: 2.0 Consensus size: 95
11491626 GATCTTAAAA
* *
11491636 GATAAGATTTTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATAAGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
* *
11491701 ATCTTAGAGATCTTGGATATGATATGATAT
66 ATCTTAGAGATCTTAGATACGATATGATAT
* *
11491731 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATTTTATA
1 GATAAGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
*
11491796 TTCTTAGAGATCTTAGATACGATATG
66 ATCTTAGAGATCTTAGATACGATATG
11491822 TAATCTTAGA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (95 bp):
GATAAGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
ATCTTAGAGATCTTAGATACGATATGATAT
Found at i:11500636 original size:14 final size:14
Alignment explanation
Indices: 11500617--11500645 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11500607 GATCCATAGG
11500617 TGTAGATGCTGGTA
1 TGTAGATGCTGGTA
11500631 TGTAGATGCTGGTA
1 TGTAGATGCTGGTA
11500645 T
1 T
11500646 ACAGTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (14 bp):
TGTAGATGCTGGTA
Found at i:11503369 original size:26 final size:26
Alignment explanation
Indices: 11503333--11503416 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
11503323 CATGAAATTC
11503333 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
11503359 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11503385 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11503411 TTATCA
1 TTATCA
11503417 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11507933 original size:27 final size:28
Alignment explanation
Indices: 11507901--11507953 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
11507891 AATTTTTTTT
**
11507901 TTAAAATTTATTGTATTTTA-ATTTAAA
1 TTAAAATTTAAAGTATTTTATATTTAAA
11507928 TTAAAATTTAAAGTATTTTATATTTA
1 TTAAAATTTAAAGTATTTTATATTTA
11507954 TTTTTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
TTAAAATTTAAAGTATTTTATATTTAAA
Found at i:11508357 original size:11 final size:12
Alignment explanation
Indices: 11508341--11508370 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11508331 TCCAATTACT
11508341 AAATTAA-TAAA
1 AAATTAATTAAA
11508352 AAATTAATTAAA
1 AAATTAATTAAA
11508364 AAATTAA
1 AAATTAA
11508371 AAATTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTAATTAAA
Found at i:11510475 original size:24 final size:24
Alignment explanation
Indices: 11510443--11510491 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
11510433 CTTAAGTGAT
*
11510443 CAATGATTCAATGGCCAAATGCTA
1 CAATGATTCAAGGGCCAAATGCTA
11510467 CAATGATTCAAGGGCCAAATGCTA
1 CAATGATTCAAGGGCCAAATGCTA
11510491 C
1 C
11510492 CGAAGTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (24 bp):
CAATGATTCAAGGGCCAAATGCTA
Found at i:11511891 original size:52 final size:51
Alignment explanation
Indices: 11511829--11511944 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
11511819 AGAAATGGTG
* *
11511829 AAAATGGAGAAATGGGAAACATTTGAAAATGAATGTGGTTTTCTCCAAAATA
1 AAAAT-GAGAAATGGGAAACATTTAAAAATGAATGTAGTTTTCTCCAAAATA
*
11511881 AAAATAGAGAAAT-GGAAACATTTAAAAATGAATGTAGTTTTCTCCAAAATG
1 AAAAT-GAGAAATGGGAAACATTTAAAAATGAATGTAGTTTTCTCCAAAATA
*
11511932 AAAATGAAAAATG
1 AAAATGAGAAATG
11511945 AAAATGATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 6 0.10
51 40 0.69
52 12 0.21
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (51 bp):
AAAATGAGAAATGGGAAACATTTAAAAATGAATGTAGTTTTCTCCAAAATA
Found at i:11511944 original size:13 final size:13
Alignment explanation
Indices: 11511926--11511951 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11511916 AGTTTTCTCC
11511926 AAAATGAAAATGA
1 AAAATGAAAATGA
11511939 AAAATGAAAATGA
1 AAAATGAAAATGA
11511952 TATAGAAATG
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:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:11511961 original size:51 final size:51
Alignment explanation
Indices: 11511845--11511964 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
11511835 GAGAAATGGG
* * * * *
11511845 AAACATTTGAAAATGAATGTGGTTTTCTCCAAAATAAAAATAGAGAAATGG
1 AAACATATAAAAATGAATGTAGTTTTCTCCAAAATAAAAATAGAAAAATGA
* *
11511896 AAACATTTAAAAATGAATGTAGTTTTCTCCAAAATGAAAAT-GAAAAATGA
1 AAACATATAAAAATGAATGTAGTTTTCTCCAAAATAAAAATAGAAAAATGA
* *
11511946 AAATGATATAGAAATGAAT
1 AAA-CATATAAAAATGAAT
11511965 TTATGGTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 10 0.17
51 50 0.83
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.28
Consensus pattern (51 bp):
AAACATATAAAAATGAATGTAGTTTTCTCCAAAATAAAAATAGAAAAATGA
Found at i:11512694 original size:86 final size:86
Alignment explanation
Indices: 11512544--11512717 Score: 285
Period size: 86 Copynumber: 2.0 Consensus size: 86
11512534 AACTATTTCT
*
11512544 GCATCTGTGTTTGATTCGAATCGTTCAAGCCCACACTCGAAGCAATTCGTGGTACAAGAATAGCG
1 GCATCTGTGTTTGATTCGAATCGTTCAAGCCCACACTCAAAGCAATTCGTGGTACAAGAATAGCG
*
11512609 GAGAAGACTATTCGGTTGAAA
66 GAGAAGACTATTCGGTTAAAA
* * * *
11512630 GCATTTGTGTTTGATTCGAATCGTTCGAGCCCACACTCAAAGCAGTTCGTGGTACAAGACTAGCG
1 GCATCTGTGTTTGATTCGAATCGTTCAAGCCCACACTCAAAGCAATTCGTGGTACAAGAATAGCG
*
11512695 GAGAAGACTGTTCGGTTAAAA
66 GAGAAGACTATTCGGTTAAAA
11512716 GC
1 GC
11512718 CAGGAACGAC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (86 bp):
GCATCTGTGTTTGATTCGAATCGTTCAAGCCCACACTCAAAGCAATTCGTGGTACAAGAATAGCG
GAGAAGACTATTCGGTTAAAA
Found at i:11514516 original size:21 final size:19
Alignment explanation
Indices: 11514489--11514530 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11514479 AAAAATTCAG
* *
11514489 AATATATATAATTTAGAAA
1 AATACATATAAATTAGAAA
*
11514508 AATACATATAAATTATAAA
1 AATACATATAAATTAGAAA
11514527 AATA
1 AATA
11514531 AAATTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATACATATAAATTAGAAA
Found at i:11514745 original size:18 final size:18
Alignment explanation
Indices: 11514711--11514747 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11514701 GCAATTAAAA
*
11514711 ATATTTTTTTTAATTTTT
1 ATATTTTTTTGAATTTTT
*
11514729 ATATTTTTTTGACTTTTT
1 ATATTTTTTTGAATTTTT
11514747 A
1 A
11514748 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (18 bp):
ATATTTTTTTGAATTTTT
Found at i:11515553 original size:17 final size:18
Alignment explanation
Indices: 11515518--11515555 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11515508 GGTTTGTTTC
* *
11515518 ATTTTTTTATATATATTT
1 ATTTTTTAAAATATATTT
11515536 ATTTTTTAAAATAT-TTT
1 ATTTTTTAAAATATATTT
11515553 ATT
1 ATT
11515556 ATATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTTAAAATATATTT
Found at i:11516640 original size:13 final size:13
Alignment explanation
Indices: 11516614--11516648 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
11516604 ATCATATAAC
11516614 TTTATTTATTTATT
1 TTTATTT-TTTATT
11516628 TTTATTTTTTATT
1 TTTATTTTTTATT
11516641 TTTATTTT
1 TTTATTTT
11516649 ACTAAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:11517211 original size:18 final size:18
Alignment explanation
Indices: 11517190--11517226 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11517180 ACAATTCATA
11517190 TCACGTTCAATTTCAATT
1 TCACGTTCAATTTCAATT
* *
11517208 TCACTTTCACTTTCAATT
1 TCACGTTCAATTTCAATT
11517226 T
1 T
11517227 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.49
Consensus pattern (18 bp):
TCACGTTCAATTTCAATT
Found at i:11517303 original size:34 final size:33
Alignment explanation
Indices: 11517239--11517304 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
11517229 ATCACAAATT
* *
11517239 ATTCAAATCAATTCAAATATACTATTAATATCC
1 ATTCAAATCAATTCAAATATAATATCAATATCC
*
11517272 ATTCACATACAATTCAAAATATAATA-CAATATC
1 ATTCAAAT-CAATTC-AAATATAATATCAATATC
11517305 AACACATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 7 0.25
34 12 0.43
35 9 0.32
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (33 bp):
ATTCAAATCAATTCAAATATAATATCAATATCC
Found at i:11518112 original size:15 final size:15
Alignment explanation
Indices: 11518092--11518130 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11518082 ATACACTAAT
11518092 TAATAATAATAATTA
1 TAATAATAATAATTA
*
11518107 TAATAATAATTATTA
1 TAATAATAATAATTA
*
11518122 TTATAATAA
1 TAATAATAA
11518131 ATATCTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:11518128 original size:12 final size:12
Alignment explanation
Indices: 11518088--11518119 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
11518078 ATATATACAC
11518088 TAATTAATAATAA
1 TAATT-ATAATAA
11518101 TAATTATAATAA
1 TAATTATAATAA
11518113 TAATTAT
1 TAATTAT
11518120 TATTATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTATAATAA
Found at i:11518371 original size:3 final size:3
Alignment explanation
Indices: 11518363--11518394 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11518353 AATTTATTTG
11518363 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11518395 TTAATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11522134 original size:60 final size:60
Alignment explanation
Indices: 11522056--11522173 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 60
11522046 AGTATAACTC
* *
11522056 AAATGCTCCACTTACTAGCCTGAAAAAGGATTCATCCTTTCTAAAGTTGCGACTCCCCCA
1 AAATGCTCCACTTACTAGCCTGAAAAAGGATTCATCCATTCTAAAGTCGCGACTCCCCCA
* * *
11522116 AAATGTTCCACTTTCTAGCCTGAAAAAGGATTCATCCATTCTAAGGTCGCGACTCCCC
1 AAATGCTCCACTTACTAGCCTGAAAAAGGATTCATCCATTCTAAAGTCGCGACTCCCC
11522174 TATAAATTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (60 bp):
AAATGCTCCACTTACTAGCCTGAAAAAGGATTCATCCATTCTAAAGTCGCGACTCCCCCA
Found at i:11528827 original size:9 final size:9
Alignment explanation
Indices: 11528813--11528862 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
11528803 ATAAGTATAA
11528813 AATTAACCG
1 AATTAACCG
**
11528822 AATTAATTG
1 AATTAACCG
*
11528831 AATTAACTG
1 AATTAACCG
*
11528840 AATTACCCG
1 AATTAACCG
11528849 AATTAACCG
1 AATTAACCG
11528858 AATTA
1 AATTA
11528863 TTTATATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTAACCG
Found at i:11528897 original size:5 final size:6
Alignment explanation
Indices: 11528882--11528922 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
11528872 AATTATATGT
*
11528882 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
11528923 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:11530264 original size:10 final size:9
Alignment explanation
Indices: 11530241--11530437 Score: 54
Period size: 9 Copynumber: 21.6 Consensus size: 9
11530231 TTACTTTTAT
11530241 TAAAAATTA
1 TAAAAATTA
*
11530250 AAAAAATATA
1 TAAAAAT-TA
11530260 TAAAAA-T-
1 TAAAAATTA
*
11530267 T-AAAATCAA
1 TAAAAAT-TA
**
11530276 TAAAAGCTA
1 TAAAAATTA
*
11530285 TAAATATTA
1 TAAAAATTA
**
11530294 TTAAATTTTAA
1 -TAAAAATT-A
11530305 TAAAAATT-
1 TAAAAATTA
*
11530313 TAAATATTA
1 TAAAAATTA
*
11530322 -AAAATTTA
1 TAAAAATTA
11530330 TTAAAAA-TA
1 -TAAAAATTA
* *
11530339 GAAAAAAGTA
1 -TAAAAATTA
*
11530349 TAAAAATCA
1 TAAAAATTA
11530358 TAACAAA-TA
1 TAA-AAATTA
*
11530367 TACAAAATTG
1 TA-AAAATTA
**
11530377 TGAAATTTTA
1 T-AAAAATTA
11530387 TAAAAA-TA
1 TAAAAATTA
*
11530395 GTGAAAATT-
1 -TAAAAATTA
11530404 TATAAAATATA
1 TA-AAAAT-TA
*
11530415 TAGAAA-TA
1 TAAAAATTA
11530423 TAAAAAATTA
1 T-AAAAATTA
11530433 TAAAA
1 TAAAA
11530438 TTTTATAAAG
Statistics
Matches: 134, Mismatches: 32, Indels: 44
0.64 0.15 0.21
Matches are distributed among these distances:
6 4 0.03
7 1 0.01
8 20 0.15
9 57 0.43
10 48 0.36
11 4 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:11530316 original size:28 final size:26
Alignment explanation
Indices: 11530238--11530337 Score: 73
Period size: 26 Copynumber: 3.8 Consensus size: 26
11530228 CCCTTACTTT
11530238 TATTAAAAA-TTAA-AAAAATATATAAA
1 TATTAAAAATTTAATAAAAAT-T-TAAA
* * * *
11530264 AATT-AAAA-TCAATAAAAGCTATAAA
1 TATTAAAAATTTAATAAAA-ATTTAAA
*
11530289 TATTATTAAATTTTAATAAAAATTTAAA
1 TATTA--AAAATTTAATAAAAATTTAAA
*
11530317 TATTAAAAATTTATTAAAAAT
1 TATTAAAAATTTAATAAAAAT
11530338 AGAAAAAAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
25 14 0.25
26 21 0.37
27 1 0.02
28 13 0.23
29 8 0.14
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (26 bp):
TATTAAAAATTTAATAAAAATTTAAA
Found at i:11530392 original size:19 final size:19
Alignment explanation
Indices: 11530365--11530410 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
11530355 TCATAACAAA
* *
11530365 TATACAAAATTGTGAAATTT
1 TATA-AAAATAGTGAAAATT
11530385 TATAAAAATAGTGAAAATT
1 TATAAAAATAGTGAAAATT
11530404 TATAAAA
1 TATAAAA
11530411 TATATAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (19 bp):
TATAAAAATAGTGAAAATT
Found at i:11530393 original size:28 final size:27
Alignment explanation
Indices: 11530296--11530446 Score: 85
Period size: 28 Copynumber: 5.4 Consensus size: 27
11530286 AAATATTATT
* *
11530296 AAATTTTAATAAAAAT-TTAAATA-TTA
1 AAATTTT-ATAAAAATATAAAAAATTTA
* * *
11530322 AAAATTTATTAAAAATAGAAAAAAGTATA
1 AAATTTTA-TAAAAATATAAAAAA-TTTA
* * * *
11530351 AAA-ATCATAACAAATATACAAAATTGTG
1 AAATTTTATAA-AAATATAAAAAATT-TA
*
11530379 AAATTTTATAAAAATAGT-GAAAATTTA
1 AAATTTTATAAAAATA-TAAAAAATTTA
* * *
11530406 TAAAATATATAGAAATATAAAAAATTATA
1 -AAATTTTATAAAAATATAAAAAATT-TA
11530435 AAATTTTATAAA
1 AAATTTTATAAA
11530447 GTCATAAGAA
Statistics
Matches: 92, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
25 1 0.01
26 13 0.14
27 10 0.11
28 55 0.60
29 13 0.14
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (27 bp):
AAATTTTATAAAAATATAAAAAATTTA
Found at i:11530420 original size:20 final size:20
Alignment explanation
Indices: 11530378--11530460 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 20
11530368 ACAAAATTGT
*
11530378 GAAATTTTATAAAA-ATAGT-
1 GAAAATTTATAAAATATA-TA
11530397 GAAAATTTATAAAATATATA
1 GAAAATTTATAAAATATATA
* *
11530417 G-AAATATAAAAAAT-TATA
1 GAAAATTTATAAAATATATA
* *
11530435 -AAATTTTATAAAGTCATA-A
1 GAAAATTTATAAAAT-ATATA
11530454 GAAAATT
1 GAAAATT
11530461 ATACAAATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
18 13 0.26
19 26 0.52
20 11 0.22
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (20 bp):
GAAAATTTATAAAATATATA
Found at i:11530463 original size:56 final size:57
Alignment explanation
Indices: 11530320--11530468 Score: 137
Period size: 56 Copynumber: 2.6 Consensus size: 57
11530310 ATTTAAATAT
* ** * * * *
11530320 TAAAAATTTATTAAAAATAGA-AAAAAGTATAAAAATCATA-ACAAATATACAAAATTG
1 TAAAATTTTA-TAAAAATAGAGAAAATTTATACAAAT-ATATAGAAATATAAAAAATTA
* *
11530377 TGAAATTTTATAAAAATAGTGAAAATTTATA-AAATATATAGAAATATAAAAAATTA
1 TAAAATTTTATAAAAATAGAGAAAATTTATACAAATATATAGAAATATAAAAAATTA
*
11530433 TAAAATTTTATAAAGTCATA-AGAAAA-TTATACAAAT
1 TAAAATTTTATAAA--AATAGAGAAAATTTATACAAAT
11530469 GTAAAAAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
55 3 0.04
56 45 0.59
57 25 0.33
58 3 0.04
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (57 bp):
TAAAATTTTATAAAAATAGAGAAAATTTATACAAATATATAGAAATATAAAAAATTA
Found at i:11530677 original size:19 final size:19
Alignment explanation
Indices: 11530655--11530702 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11530645 TTTTTTATGA
11530655 TTTTATAAAATTTTACAAT
1 TTTTATAAAATTTTACAAT
* ***
11530674 TTTTTTATTTTTTTACAAT
1 TTTTATAAAATTTTACAAT
11530693 TTTTATAAAA
1 TTTTATAAAA
11530703 AAATTCTAAT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATTTTACAAT
Found at i:11530742 original size:26 final size:28
Alignment explanation
Indices: 11530710--11530780 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
11530700 AAAAAATTCT
11530710 AATTTTTAATAAATTTTA-TATTTTT-A
1 AATTTTTAATAAATTTTATTATTTTTAA
* * *
11530736 TATTTTTATTAAAATTTATTATTTTTAA
1 AATTTTTAATAAATTTTATTATTTTTAA
11530764 AATTTTTTAA-AAATTTT
1 AA-TTTTTAATAAATTTT
11530781 CTAATTTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 15 0.42
27 7 0.19
28 8 0.22
29 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
AATTTTTAATAAATTTTATTATTTTTAA
Found at i:11530750 original size:27 final size:29
Alignment explanation
Indices: 11530710--11530780 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 29
11530700 AAAAAATTCT
*
11530710 AATTTTTAAT-AAATTTTA-TATTTTT-A
1 AATTTTTATTAAAATTTTATTATTTTTAA
*
11530736 TATTTTTATTAAAA-TTTATTATTTTTAA
1 AATTTTTATTAAAATTTTATTATTTTTAA
*
11530764 AATTTTT-TAAAAATTTT
1 AATTTTTATTAAAATTTT
11530781 CTAATTTCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 12 0.32
27 15 0.41
28 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
AATTTTTATTAAAATTTTATTATTTTTAA
Found at i:11530980 original size:12 final size:12
Alignment explanation
Indices: 11530963--11530987 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11530953 ATTGAGTGTA
11530963 AGAAAAAAAAGT
1 AGAAAAAAAAGT
11530975 AGAAAAAAAAGT
1 AGAAAAAAAAGT
11530987 A
1 A
11530988 ACTTAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AGAAAAAAAAGT
Found at i:11531494 original size:16 final size:17
Alignment explanation
Indices: 11531473--11531506 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11531463 TTTTCTCATT
11531473 TTTATATT-TAAATTTG
1 TTTATATTCTAAATTTG
11531489 TTTATATTCTAAATTTG
1 TTTATATTCTAAATTTG
11531506 T
1 T
11531507 ATTTAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TTTATATTCTAAATTTG
Found at i:11533110 original size:3 final size:3
Alignment explanation
Indices: 11533102--11533149 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
11533092 AATTTTCTTA
11533102 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11533150 ATGTTCTCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11542149 original size:86 final size:86
Alignment explanation
Indices: 11541916--11542325 Score: 588
Period size: 86 Copynumber: 4.8 Consensus size: 86
11541906 ATAACCCCCA
* * *
11541916 AAAAAAACATGTTACTCATCTTGTACGATAAAAATTGTATAATATTATATACAAGCAAGCATTTA
1 AAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTTA
* *
11541981 GTCATATTTCAAAAATAATTCA
66 GTCATATTTCAAAAATAA-CCC
* * *
11542003 AAAAAAAAATTTTACTCATCTTGTACAATAAGAGTTGTATGATATTATATACAAGCAAGCATTTA
1 AAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTTA
11542068 GTCATATTTCAAAAATAACCC
66 GTCATATTTCAAAAATAACCC
* * * *
11542089 AAAAAAACATGTTACTCATCTTGTACCATAAGAGTTGTATAAAATTATATACAAGTAAGCATTTA
1 AAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTTA
* *
11542154 GTTATATTTCGAAAATAACCC
66 GTCATATTTCAAAAATAACCC
* *
11542175 AAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATATAAGTAAGCATTTA
1 AAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTTA
* * **
11542240 GTTATATTTCGAACAA-AACTT
66 GTCATATTTC-AAAAATAACCC
* * *
11542261 AAAAAAACATGTTACTCATCTTGTACGATAAAAGTTGTATGATATTATATATAAGCAAACATTTA
1 AAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTTA
11542326 ATTATACGAT
Statistics
Matches: 295, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
86 215 0.73
87 80 0.27
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (86 bp):
AAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTTA
GTCATATTTCAAAAATAACCC
Found at i:11547790 original size:43 final size:42
Alignment explanation
Indices: 11547628--11547791 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
11547618 AAGCTCATAA
* * *
11547628 AATG-CAATATCCCAGATATGGTCTTACATGTTAA--CACATATC
1 AATGCCAATGTCCCAGACATGGTCTTACACG-TAATCCA-ATA-C
* * * * * * * *
11547670 GATGCCACTGTCCCAGATAGGGTCTTATACGAAATCGATTAAC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAAT-AC
11547713 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAATAC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATC-CAATAC
*
11547756 AATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATC
11547792 ACATCTCGAT
Statistics
Matches: 99, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 5 0.05
43 90 0.91
44 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAATAC
Found at i:11552880 original size:46 final size:46
Alignment explanation
Indices: 11552736--11552949 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 46
11552726 GTTGTGTGCT
* * *
11552736 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAACCTCGA-GATGTA-AGCC
* * * * * * * *
11552782 AGTGTAAGACCGTGTCTGGGATATGGCATCAGCATTGAGACGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAACCTCGAGATGTAAGCC
11552830 AGTGTAAGATC-TGTCTGGGACATGCATCAACCTCGAGATGTAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGCATCAACCTCGAGATGTAAGCC
* * * *
11552876 AGTGTAAGACATGTATGGAACATGCATCAA-CTATGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCAACCT-CGAGATGTAAGCC
11552920 AGTGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATC
11552950 GTCACGTATA
Statistics
Matches: 138, Mismatches: 22, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 64 0.46
47 23 0.17
48 23 0.17
49 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATGTAAGCC
Found at i:11552973 original size:48 final size:48
Alignment explanation
Indices: 11552875--11553097 Score: 169
Period size: 48 Copynumber: 4.7 Consensus size: 48
11552865 AGATGTAAGC
* * * *
11552875 CAGTGTAAGA-CATGTATGGAACAT-GCATC--AAC-TATGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTAT-AGAGGTGT
*
11552919 CAGTGTAAGACTATGTCTGGGACATGGCATCGTCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTATAGAGGTGT
* * * *
11552967 CAGTGTAAGGCCATGTCTGGGACATGGCATCGGCACG-A-AAATGTGTGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTATAGA-G-GTG-T
* * * * *
11553016 CTAGTGAAAGACCATG-CTTGGGACATGGCGTCGGTCTCGATTTCGA--TAGT
1 C-AGTGTAAGACCATGTC-TGGGACATGGCATC-GTCACG-TATAGAGGT-GT
11553066 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
11553098 ACTTGATGGA
Statistics
Matches: 142, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
44 10 0.07
45 11 0.08
46 7 0.05
47 2 0.01
48 47 0.33
49 31 0.22
50 28 0.20
51 5 0.04
54 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTATAGAGGTGT
Found at i:11561676 original size:43 final size:44
Alignment explanation
Indices: 11561623--11561733 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 44
11561613 TGCCATATCT
* * *
11561623 CAGATATGGTCTTACATGTTATCACA-T-ATCGATGCCACTGTCC
1 CAGACATGGTCTTACATGTAATCACATTAAT-GATGCCAATGTCC
* *
11561666 CAGACATGGTCTTACACGAAATCA-ATTAATGATGCCAATGTCC
1 CAGACATGGTCTTACATGTAATCACATTAATGATGCCAATGTCC
11561709 CAGACATGGTCTTACATGTAATCAC
1 CAGACATGGTCTTACATGTAATCAC
11561734 CTCTCGATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.02
43 55 0.95
44 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
CAGACATGGTCTTACATGTAATCACATTAATGATGCCAATGTCC
Found at i:11564136 original size:27 final size:27
Alignment explanation
Indices: 11564083--11564236 Score: 186
Period size: 27 Copynumber: 5.7 Consensus size: 27
11564073 CAAATTATTG
* *
11564083 CCACAAAGGCTTTTTCTTTCATATTTCA
1 CCACAAAGGC-TTTCCTTTCATGTTTCA
11564111 CCACAAAGGCTTTCCTTTCATGTTTCA
1 CCACAAAGGCTTTCCTTTCATGTTTCA
11564138 CCACAAAGGCTTTCCTTTCATGTTTCA
1 CCACAAAGGCTTTCCTTTCATGTTTCA
* * *
11564165 CTATAAAGGCTTTCCTTTCATGATTT-G
1 CCACAAAGGCTTTCCTTTCATG-TTTCA
* * * *
11564192 CTACAAAGGCTTTTCTTTCATGATTCG
1 CCACAAAGGCTTTCCTTTCATGTTTCA
11564219 CCA-ATAAGGCTTTCCTTT
1 CCACA-AAGGCTTTCCTTT
11564237 TCTAACGTGT
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
26 3 0.03
27 97 0.86
28 13 0.12
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (27 bp):
CCACAAAGGCTTTCCTTTCATGTTTCA
Found at i:11564201 original size:81 final size:82
Alignment explanation
Indices: 11564087--11564236 Score: 207
Period size: 81 Copynumber: 1.8 Consensus size: 82
11564077 TTATTGCCAC
* *
11564087 AAAGGCTTTTTCTTTCATATTTCACCACAAAGGCTTTCCTTTCATGTTTCACCACA-AAGGCTTT
1 AAAGGCTTTTCCTTTCATATTTCACCACAAAGGCTTTCCTTTCATGATTCACCA-ATAAGGCTTT
11564151 CCTTTCATGTTTCACTAT
65 CCTTTCATGTTTCACTAT
* * * *
11564169 AAAGGC-TTTCCTTTCATGATTT-GCTACAAAGGCTTTTCTTTCATGATTCGCCAATAAGGCTTT
1 AAAGGCTTTTCCTTTCAT-ATTTCACCACAAAGGCTTTCCTTTCATGATTCACCAATAAGGCTTT
11564232 CCTTT
65 CCTTT
11564237 TCTAACGTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
80 1 0.02
81 49 0.82
82 10 0.17
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (82 bp):
AAAGGCTTTTCCTTTCATATTTCACCACAAAGGCTTTCCTTTCATGATTCACCAATAAGGCTTTC
CTTTCATGTTTCACTAT
Found at i:11565185 original size:51 final size:49
Alignment explanation
Indices: 11565126--11565222 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 49
11565116 GAAGACCCCC
*
11565126 TCTTTCTTTATCTGATTATCCATTAATGTAATCTAAGTCTTTATTGGGACT
1 TCTTTCTTTATCTAATTATCCATTAA--TAATCTAAGTCTTTATTGGGACT
11565177 TCTTTCTTTATCTAATTATCCATTAATAATCTAAGTCTTTATTGGG
1 TCTTTCTTTATCTAATTATCCATTAATAATCTAAGTCTTTATTGGG
11565223 GCTTAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 20 0.44
51 25 0.56
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (49 bp):
TCTTTCTTTATCTAATTATCCATTAATAATCTAAGTCTTTATTGGGACT
Found at i:11565492 original size:17 final size:17
Alignment explanation
Indices: 11565467--11565501 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11565457 AACCTAATTG
*
11565467 ACATGGAACCTTCATTA
1 ACATAGAACCTTCATTA
11565484 ACATAGAACCTTCATTA
1 ACATAGAACCTTCATTA
11565501 A
1 A
11565502 AAGATCACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (17 bp):
ACATAGAACCTTCATTA
Found at i:11574095 original size:18 final size:18
Alignment explanation
Indices: 11574072--11574111 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
11574062 ATTTATTTAA
11574072 TATTTTAATAAGATATTT
1 TATTTTAATAAGATATTT
11574090 TATTTTAATAAGATATTT
1 TATTTTAATAAGATATTT
11574108 TATT
1 TATT
11574112 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTTTAATAAGATATTT
Found at i:11574143 original size:2 final size:2
Alignment explanation
Indices: 11574138--11574169 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11574128 AGTCTATATA
11574138 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
11574170 GAAAAACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:11578023 original size:26 final size:24
Alignment explanation
Indices: 11577962--11578036 Score: 66
Period size: 26 Copynumber: 3.1 Consensus size: 24
11577952 AGCTCGTATA
*
11577962 AGCTTACTGATCA-A-CTCA-ATAG
1 AGCTTACCGATCATAGCTCAGA-AG
* *
11577984 AGCTTACTGTTCATCAGCTCAGGAAG
1 AGCTTACCGATCAT-AGCTCA-GAAG
*
11578010 AGCTTACCGATCATGGCTCAGAAG
1 AGCTTACCGATCATAGCTCAGAAG
11578034 AGC
1 AGC
11578037 ATATATGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 12 0.27
24 8 0.18
25 9 0.20
26 14 0.32
27 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (24 bp):
AGCTTACCGATCATAGCTCAGAAG
Found at i:11583721 original size:16 final size:18
Alignment explanation
Indices: 11583702--11583743 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
11583692 GAGACTGTTT
11583702 TATT-ATGGG-CCAACTG
1 TATTAATGGGCCCAACTG
11583718 TATTGAATGGGCCCAACTG
1 TATT-AATGGGCCCAACTG
*
11583737 TGTTAAT
1 TATTAAT
11583744 ATGGGCAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
18 8 0.36
19 10 0.45
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (18 bp):
TATTAATGGGCCCAACTG
Found at i:11592300 original size:3 final size:3
Alignment explanation
Indices: 11592292--11592328 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11592282 TTAATTTATT
11592292 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11592329 TAAATCTACT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11592432 original size:38 final size:38
Alignment explanation
Indices: 11592381--11592454 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
11592371 GCCATTGTGG
*
11592381 TCCCCCTTTCTTTTTATTAATCTATAATTAATCTTTAA
1 TCCCCCTTTCTTTTTATTAATCTATAATTAAACTTTAA
11592419 TCCCCCTTTCTTTTTATTAATCTATAATTAAACTTT
1 TCCCCCTTTCTTTTTATTAATCTATAATTAAACTTT
11592455 TACCTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.53
Consensus pattern (38 bp):
TCCCCCTTTCTTTTTATTAATCTATAATTAAACTTTAA
Found at i:11593807 original size:51 final size:52
Alignment explanation
Indices: 11593741--11593849 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
11593731 TTCATTTTTG
*
11593741 TTTTCATTTTGGAGAAAACCATATTCATTTCCAAATGATT-CCATTTCTCCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCCATTTCTCCA
* * *
11593792 TTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTTTCCCATTTCTTCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCCATTTCTCCA
11593844 TTTTCA
1 TTTTCA
11593850 CCATTTCCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 37 0.70
52 16 0.30
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (52 bp):
TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCCATTTCTCCA
Found at i:11597563 original size:40 final size:41
Alignment explanation
Indices: 11597504--11597735 Score: 303
Period size: 40 Copynumber: 5.8 Consensus size: 41
11597494 CATTTGAATG
* * *
11597504 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
11597544 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
11597584 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
11597624 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
11597664 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
11597704 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
11597736 TTGTGGTTAT
Statistics
Matches: 168, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 161 0.96
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:11597718 original size:120 final size:120
Alignment explanation
Indices: 11597504--11597755 Score: 418
Period size: 120 Copynumber: 2.1 Consensus size: 120
11597494 CATTTGAATG
* * *
11597504 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
11597569 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
11597624 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
11597688 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
11597744 ATATCC-GGCTAA
1 ATATCCGGGCTAA
11597756 ATTCCGAAGA
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
119 6 0.05
120 114 0.93
121 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:11597751 original size:80 final size:80
Alignment explanation
Indices: 11597504--11597735 Score: 340
Period size: 80 Copynumber: 2.9 Consensus size: 80
11597494 CATTTGAATG
* *
11597504 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
11597569 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * *
11597584 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
11597649 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
11597664 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
*
11597728 AATTGTGC
65 ATTTGTGC
11597736 TTGTGGTTAT
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 134 0.99
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:11599600 original size:17 final size:18
Alignment explanation
Indices: 11599568--11599601 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11599558 AAAAGTTCTG
*
11599568 ATAATTATACATTTAAAA
1 ATAATTAGACATTTAAAA
11599586 ATAATTAGA-ATTTAAA
1 ATAATTAGACATTTAAA
11599602 TTACAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTAGACATTTAAAA
Found at i:11600523 original size:32 final size:32
Alignment explanation
Indices: 11600487--11600550 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
11600477 TCATAAAATG
11600487 ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
1 ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
11600519 ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
1 ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
11600551 CATTCTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (32 bp):
ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
Found at i:11604428 original size:21 final size:23
Alignment explanation
Indices: 11604396--11604459 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 23
11604386 GTACCTGATC
*
11604396 AAAATACAACACATAAAGTGCCT
1 AAAATACGACACATAAAGTGCCT
** *
11604419 -AAA-ACGACACACGAGGTGCCT
1 AAAATACGACACATAAAGTGCCT
11604440 AAAATACGACACATAAAGTG
1 AAAATACGACACATAAAGTG
11604460 TCTGATCGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 14 0.44
22 6 0.19
23 12 0.38
ACGTcount: A:0.48, C:0.22, G:0.16, T:0.14
Consensus pattern (23 bp):
AAAATACGACACATAAAGTGCCT
Found at i:11605638 original size:23 final size:23
Alignment explanation
Indices: 11605610--11605665 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
11605600 ATTAGTTATT
* * *
11605610 TTTATTACAAGTGTACCTATCTA
1 TTTATTACAAATGTACCAATATA
*
11605633 TTTATTACAAATGTACCAATATT
1 TTTATTACAAATGTACCAATATA
11605656 TTTATTACAA
1 TTTATTACAA
11605666 TTGTCATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (23 bp):
TTTATTACAAATGTACCAATATA
Found at i:11605935 original size:12 final size:12
Alignment explanation
Indices: 11605909--11605947 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
11605899 GAAATATGTG
*
11605909 TATTGTTTTAATA
1 TATT-TTTTATTA
11605922 TATTTTTTATTA
1 TATTTTTTATTA
11605934 TA-TTTTTATTA
1 TATTTTTTATTA
11605945 TAT
1 TAT
11605948 AATCAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 11 0.46
12 9 0.38
13 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TATTTTTTATTA
Found at i:11606027 original size:40 final size:39
Alignment explanation
Indices: 11605910--11606041 Score: 115
Period size: 41 Copynumber: 3.3 Consensus size: 39
11605900 AAATATGTGT
* *
11605910 ATTGTTTTAATATATTTTTTATTATATTTTTATTATATAATCA
1 ATTGTTTTAATATATTTTTTATT-TGTTTTTGTT-T-TAA-CA
* * * *
11605953 A-T-TTTTATTATATTTTTCAATTTGTGTATTGTTTTAAGA
1 ATTGTTTTAATATATTTTT-TATTTGT-TTTTGTTTTAACA
*
11605992 ATTGTTTTAATATATTTTTTATTTGTTTCTTGTTTTAATA
1 ATTGTTTTAATATATTTTTTATTTGTTT-TTGTTTTAACA
*
11606032 TTTGTTTTAA
1 ATTGTTTTAA
11606042 ATGTATTTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 13
0.75 0.11 0.13
Matches are distributed among these distances:
39 3 0.04
40 29 0.40
41 31 0.42
42 9 0.12
43 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (39 bp):
ATTGTTTTAATATATTTTTTATTTGTTTTTGTTTTAACA
Found at i:11606361 original size:3 final size:3
Alignment explanation
Indices: 11606353--11606417 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
11606343 ATATGAAACC
* *
11606353 ATA ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ATC ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11606398 ATTA ATA ATA ATA ATA ATA A
1 A-TA ATA ATA ATA ATA ATA A
11606418 AATCTTAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 46 0.85
4 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11606369 original size:36 final size:37
Alignment explanation
Indices: 11606323--11606411 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
11606313 TAATAATACC
* *
11606323 AATTAAATAATTATAACTTAATATGAAACCATAATAAT
1 AATT-AATAATAATAACTTAATATAAAACCATAATAAT
* *
11606361 AA-TAATAATAATAATTTAATATAAAATCATAATAAT
1 AATTAATAATAATAACTTAATATAAAACCATAATAAT
11606397 AATTAATAATAATAA
1 AATTAATAATAATAA
11606412 TAATAAAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 31 0.67
37 13 0.28
38 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (37 bp):
AATTAATAATAATAACTTAATATAAAACCATAATAAT
Found at i:11607261 original size:25 final size:26
Alignment explanation
Indices: 11607205--11607285 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
11607195 TGATACAAAT
11607205 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11607231 TGATAATGGGTTAGGTAAGTG-TCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11607256 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11607282 TGAT
1 TGAT
11607286 TGGAATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 24 0.46
26 28 0.54
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11610299 original size:175 final size:176
Alignment explanation
Indices: 11609990--11610316 Score: 559
Period size: 175 Copynumber: 1.9 Consensus size: 176
11609980 TCAATTCTTA
* * *
11609990 GTAAATGTTTTTGTTGTAATGAATTGTATTCGGATAGATGTAATATTATATTTCTAGATACTCTC
1 GTAAATGTTTTTGTTGTAATGAACTATATTCGGATAAATGTAATATTATATTTCTAGATACTCTC
* * *
11610055 TTTTTTTTCATTTGATAATGAATCTTTAAATGAAATAGTAAGAAAAATGTTTTAAGTAAAGAGTT
66 TTTTGTTTCATTTGATAATGAATATTTAAATGAAATAGTAAGAAAAATGTTTTAAGTAAAGAATT
11610120 TTGGTCAACTGTGTGTAAATTTATTTTTTTTATACTCTCTTTTGTT
131 TTGGTCAACTGTGTGTAAATTTATTTTTTTTATACTCTCTTTTGTT
11610166 GTAAATGTTTTTGTTGTAATGAACTATATTC-GATCAAATGTAATATTATATTTCTAGATACTCT
1 GTAAATGTTTTTGTTGTAATGAACTATATTCGGAT-AAATGTAATATTATATTTCTAGATACTCT
* *
11610230 CTTTTGTTTC-TTTGATAATGAATATTTAAATGAAATAGTACGCAAAATGTTTTAAGTAAAGAAT
65 CTTTTGTTTCATTTGATAATGAATATTTAAATGAAATAGTAAGAAAAATGTTTTAAGTAAAGAAT
11610294 TTTGGTCAACTGTGTGTAAATTT
130 TTTGGTCAACTGTGTGTAAATTT
11610317 TGTTTGGTAT
Statistics
Matches: 142, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
175 76 0.54
176 66 0.46
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (176 bp):
GTAAATGTTTTTGTTGTAATGAACTATATTCGGATAAATGTAATATTATATTTCTAGATACTCTC
TTTTGTTTCATTTGATAATGAATATTTAAATGAAATAGTAAGAAAAATGTTTTAAGTAAAGAATT
TTGGTCAACTGTGTGTAAATTTATTTTTTTTATACTCTCTTTTGTT
Found at i:11611262 original size:6 final size:6
Alignment explanation
Indices: 11611251--11611381 Score: 235
Period size: 6 Copynumber: 21.8 Consensus size: 6
11611241 CAAAAAATAA
11611251 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
11611299 TATATG TATATA TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* *
11611347 TATTTG TATATG TATTTG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
11611382 ATGTAACATC
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 119 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:11612871 original size:24 final size:24
Alignment explanation
Indices: 11612839--11612921 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
11612829 AGAATTAATA
*
11612839 AAGATCATTTATGTATATTCAATC
1 AAGATCATTCATGTATATTCAATC
*
11612863 AAGATCATTCATGTATATTCACTC
1 AAGATCATTCATGTATATTCAATC
*
11612887 AAGATCATTCATGTATATTTAATC
1 AAGATCATTCATGTATATTCAATC
*
11612911 AAAATCATTCA
1 AAGATCATTCA
11612922 AGTGTACTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (24 bp):
AAGATCATTCATGTATATTCAATC
Done.