Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 43 of 163
Found at i:10903063 original size:28 final size:28
Alignment explanation
Indices: 10903031--10903093 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
10903021 AAAACGGGAC
*
10903031 TTTTGGA-TACCCGGGGGCAAAATGGTAA
1 TTTTGGACT-CCCGAGGGCAAAATGGTAA
** *
10903059 TTTTGGACTTTCGAGGGCAAAATTGTAA
1 TTTTGGACTCCCGAGGGCAAAATGGTAA
10903087 TTTTGGA
1 TTTTGGA
10903094 GAAATCAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (28 bp):
TTTTGGACTCCCGAGGGCAAAATGGTAA
Found at i:10903103 original size:28 final size:28
Alignment explanation
Indices: 10903045--10903265 Score: 90
Period size: 29 Copynumber: 7.6 Consensus size: 28
10903035 GGATACCCGG
* ***
10903045 GGGCAAAATGGTAATTTTGGACTTTCGA
1 GGGCAAAATTGTAATTTTGGAAAATCGA
10903073 GGGCAAAATTGTAATTTTGGAGAAATC-A
1 GGGCAAAATTGTAATTTTGGA-AAATCGA
* * *
10903101 GGGCTAAAATTGTAACTTTGGAAAGTTCGGG
1 GGGC-AAAATTGTAATTTTGGAAA-ATC-GA
* * *
10903132 GGGTAAAATGGTAAATTTTGGTAAAACCGA
1 GGGCAAAATTGT-AATTTTGG-AAAATCGA
* ** * *
10903162 GGTCAAAA--AAAATTTTGGAAAGTTCGG
1 GGGCAAAATTGTAATTTTGGAAA-ATCGA
* * *
10903189 GGGTAAAATGGTAAATTTTGGTGAAATCG-
1 GGGCAAAATTGT-AATTTTGG-AAAATCGA
* * * ** *
10903218 GGGTTAAAAATGGAATTTTGGAAGGTTCAA
1 GGG-CAAAATTGTAATTTTGGAA-AATCGA
*
10903248 GGGCAAAATGGTAATTTT
1 GGGCAAAATTGTAATTTT
10903266 TGGTGAAATC
Statistics
Matches: 141, Mismatches: 37, Indels: 29
0.68 0.18 0.14
Matches are distributed among these distances:
26 3 0.02
27 16 0.11
28 28 0.20
29 44 0.31
30 34 0.24
31 13 0.09
32 3 0.02
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (28 bp):
GGGCAAAATTGTAATTTTGGAAAATCGA
Found at i:10903234 original size:29 final size:30
Alignment explanation
Indices: 10903185--10903355 Score: 112
Period size: 29 Copynumber: 5.8 Consensus size: 30
10903175 TTTGGAAAGT
*
10903185 TCGGGGGT-AAAATGGTAAATTTTGGTGAAA
1 TCGGGGTTAAAAATGGT-AATTTTGGTGAAA
*
10903215 TCGGGGTTAAAAATGG-AATTTT-G-GAAGGT
1 TCGGGGTTAAAAATGGTAATTTTGGTGAA--A
* *
10903244 TCAAGGG--CAAAATGGTAATTTTTGGTGAAA
1 TC-GGGGTTAAAAATGGTAA-TTTTGGTGAAA
*
10903274 TCGGGGTTAAAAATGG-AATTTT-G-GAAGGT
1 TCGGGGTTAAAAATGGTAATTTTGGTGAA--A
* *
10903303 TCGGGGGT-AAAATGGTAATTTTTGTGAAA
1 TCGGGGTTAAAAATGGTAATTTTGGTGAAA
* * *
10903332 CCGAGGTTAAAAAT-GAAATTTTGG
1 TCGGGGTTAAAAATGGTAATTTTGG
10903356 AAAGTTTGGG
Statistics
Matches: 110, Mismatches: 15, Indels: 33
0.70 0.09 0.21
Matches are distributed among these distances:
27 6 0.05
28 16 0.15
29 43 0.39
30 24 0.22
31 18 0.16
32 3 0.03
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (30 bp):
TCGGGGTTAAAAATGGTAATTTTGGTGAAA
Found at i:10903238 original size:117 final size:116
Alignment explanation
Indices: 10903068--10903389 Score: 369
Period size: 117 Copynumber: 2.8 Consensus size: 116
10903058 ATTTTGGACT
* * * * * * * * *
10903068 TTCGAGGGCAAAATTGTAATTTTGGAGAAATCAGGGCTAAAATTGTAACTTTGGAAAGTTCGGGG
1 TTCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTC-GGG
10903133 GGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAA-AAATTTTGGAAAG
65 GGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAAGAAATTTTGGAAAG
* * **
10903184 TTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGGTTCAAG
1 TTCGGGGGTAAAATGGT-AATTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTCGGG
* * * * * * * *
10903249 GGCAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGG
65 GGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAA-GAAATTTTGGAAAG
* * * *
10903302 TTCGGGGGTAAAATGGTAATTTTTGTGAAACCGAGGTTAAAAATGAAATTTTGGAAAGTTTGGGG
1 TTCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTCGGGG
*
10903367 GTAAAATGGTAAATTATGG-AAAA
66 GTAAAATGGTAAATTTTGGTAAAA
10903390 GTTTAGGGGT
Statistics
Matches: 171, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
116 50 0.29
117 93 0.54
118 28 0.16
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (116 bp):
TTCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTCGGGG
GTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAAGAAATTTTGGAAAG
Found at i:10903267 original size:59 final size:59
Alignment explanation
Indices: 10903049--10903381 Score: 370
Period size: 59 Copynumber: 5.7 Consensus size: 59
10903039 ACCCGGGGGC
** * * * * * *
10903049 AAAATGGTAATTTTGG-ACTTTCGAGGGCAAAATTGT-AATTTTGGAGAAATCAGGGCTA
1 AAAATGG-AATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTA
* * * * * * *
10903107 AAATTGTAACTTTGGAAAGTTCGGGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCA
1 AAAATGGAATTTTGGAAAGTTC-GGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTA
*
10903167 AAAA--AAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTA
1 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTA
* ** * *
10903224 AAAATGGAATTTTGGAAGGTTCAAGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTA
* * * *
10903283 AAAATGGAATTTTGGAAGGTTCGGGGGTAAAATGGT-AATTTTTGTGAAACCGAGGTTA
1 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTA
* *
10903341 AAAATGAAATTTTGGAAAGTTTGGGGGTAAAATGGTAAATT
1 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATT
10903382 ATGGAAAAGT
Statistics
Matches: 231, Mismatches: 38, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
57 44 0.19
58 74 0.32
59 95 0.41
60 18 0.08
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.30
Consensus pattern (59 bp):
AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTA
Found at i:10903419 original size:30 final size:30
Alignment explanation
Indices: 10903341--10903477 Score: 163
Period size: 30 Copynumber: 4.5 Consensus size: 30
10903331 ACCGAGGTTA
* *
10903341 AAAATGAAATTTTGG-AAAGTTTGGGGGT-
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTC
*
10903369 AAAATGGTAAATTATGGAAAAGTTTAGGGGTC
1 AAAAT-GT-AATTTTGGAAAAGTTTAGGGGTC
10903401 AAAATGTAATTTTGGAAAAGTTTTA-GGGTC
1 AAAATGTAATTTTGGAAAAG-TTTAGGGGTC
* * *
10903431 AAAGTGTAATTTTAGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTC
10903461 AAAATGTAATTTCTGGA
1 AAAATGTAATTT-TGGA
10903478 CTGTTTTGGG
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
28 5 0.05
29 4 0.04
30 58 0.62
31 21 0.23
32 5 0.05
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGTC
Found at i:10905414 original size:12 final size:12
Alignment explanation
Indices: 10905363--10905414 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
10905353 TAAATTCAAG
* *
10905363 TTAAATTCAAAT
1 TTAAATTTAAAA
10905375 TTAAATTTAAAA
1 TTAAATTTAAAA
* *
10905387 TTGAATATAAAA
1 TTAAATTTAAAA
10905399 -TAAATTTAAAA
1 TTAAATTTAAAA
10905410 TTAAA
1 TTAAA
10905415 ATAATTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:10907393 original size:54 final size:56
Alignment explanation
Indices: 10907311--10907443 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
10907301 TCTACATAAA
* * * *
10907311 AGTATTTCAACATGACAATTGATTTAAATATATAAA-AATATATTCAAAAGAAGC-
1 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
*
10907365 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATCGATTCAAAAGAAGCT
1 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
* *
10907421 A-TATTCCATCATAACAATCGATT
1 AGTATTCCAACATGACAATCGATT
10907444 CAATCCAGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (56 bp):
AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
Found at i:10914455 original size:54 final size:56
Alignment explanation
Indices: 10914373--10914505 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
10914363 TCTACATAAA
* * * *
10914373 AGTATTTCAACATGACAATTGATTTAAATATATAAA-AATATATTCAAAAGAAGC-
1 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
*
10914427 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATCGATTCAAAAGAAGCT
1 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
* *
10914483 A-TATTCCATCATAACAATCGATT
1 AGTATTCCAACATGACAATCGATT
10914506 CAATCCAGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (56 bp):
AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
Found at i:10921467 original size:54 final size:56
Alignment explanation
Indices: 10921385--10921517 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
10921375 TCTACATAAA
* * * *
10921385 AGTATTTCAACATGACAATTGATTTAAATATATAAA-AATATATTCAAAAGAAGC-
1 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
*
10921439 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATCGATTCAAAAGAAGCT
1 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
* *
10921495 A-TATTCCATCATAACAATCGATT
1 AGTATTCCAACATGACAATCGATT
10921518 CAATCCAGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (56 bp):
AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
Found at i:10928525 original size:54 final size:56
Alignment explanation
Indices: 10928443--10928575 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
10928433 TCTACATAAA
* * * *
10928443 AGTATTTCAACATGACAATTGATTTAAATATATAAA-AATATATTCAAAAGAAGC-
1 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
*
10928497 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATCGATTCAAAAGAAGCT
1 AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
* *
10928553 A-TATTCCATCATAACAATCGATT
1 AGTATTCCAACATGACAATCGATT
10928576 CAATCCAGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (56 bp):
AGTATTCCAACATGACAATCGATTTAAATATAAAAACAATAGATTCAAAAGAAGCT
Found at i:10929373 original size:24 final size:25
Alignment explanation
Indices: 10929328--10929375 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
10929318 ATATATTATA
*
10929328 AAATATATTATTTAATTAAAATATT
1 AAATATATTATTTAATCAAAATATT
10929353 AAAT-TATTATTTAA-CACAAATAT
1 AAATATATTATTTAATCA-AAATAT
10929376 CATTCAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 16 0.76
25 4 0.19
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATATATTATTTAATCAAAATATT
Found at i:10934391 original size:27 final size:28
Alignment explanation
Indices: 10934361--10934414 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
10934351 TTGGATACCC
10934361 GGGGG-AAAATGGTAATTTTGGACTTTT
1 GGGGGCAAAATGGTAATTTTGGACTTTT
10934388 GGGGGCAAAATGGTAATTTTGGACTTT
1 GGGGGCAAAATGGTAATTTTGGACTTT
10934415 CAATTGGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.26, C:0.06, G:0.33, T:0.35
Consensus pattern (28 bp):
GGGGGCAAAATGGTAATTTTGGACTTTT
Found at i:10934527 original size:29 final size:29
Alignment explanation
Indices: 10934428--10934527 Score: 71
Period size: 29 Copynumber: 3.4 Consensus size: 29
10934418 TTGGGAGAAA
* * * *
10934428 TCGGGGCTAAAATTGTAACTTTGGAAAGT
1 TCGGGGGTAAAAATGAAATTTTGGAAAGT
10934457 TCGGGGGT-AAAATGGTAAATTTTGGTAAA--
1 TCGGGGGTAAAAAT-G-AAATTTTGG-AAAGT
* * **
10934486 ACCGATGTCAAAAATGAAATTTTGGAAAGT
1 TCGGGGGT-AAAAATGAAATTTTGGAAAGT
10934516 TCGGGGGTAAAA
1 TCGGGGGTAAAA
10934528 TGGTATTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
28 7 0.13
29 25 0.48
30 12 0.23
31 8 0.15
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (29 bp):
TCGGGGGTAAAAATGAAATTTTGGAAAGT
Found at i:10934550 original size:41 final size:41
Alignment explanation
Indices: 10934500--10934586 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
10934490 ATGTCAAAAA
* *
10934500 TGAAATTTTGGAAAGTTCGGGGGTAAAATGGT-A-TTTTGG
1 TGAAATTTTGGAAAGTTCAGGGGCAAAATGGTAATTTTTGG
*
10934539 TTGAAATTTTTGGAAGGTTCAGGGGCAAAATGGTAATTTTTGG
1 -TGAAA-TTTTGGAAAGTTCAGGGGCAAAATGGTAATTTTTGG
10934582 TGAAA
1 TGAAA
10934587 CCGAGGTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
40 5 0.12
41 24 0.59
42 6 0.15
43 6 0.15
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.36
Consensus pattern (41 bp):
TGAAATTTTGGAAAGTTCAGGGGCAAAATGGTAATTTTTGG
Found at i:10934552 original size:100 final size:96
Alignment explanation
Indices: 10934447--10934628 Score: 265
Period size: 100 Copynumber: 1.9 Consensus size: 96
10934437 AAATTGTAAC
* * *
10934447 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTAAAACCGATGTCAAAAATGAAATTTTGGA
1 TTTGGAAAGTTCAGGGGCAAAATGGTAAATTTTGGTAAAACCGAGGTC---AA-GAAATTTTGGA
10934512 AAGTTCGGGGGTAAAATGGTATTTTGGTTGAAATT
62 AAGTTCGGGGGTAAAATGGTATTTTGGTTGAAATT
* * * *
10934547 TTTGGAAGGTTCAGGGGCAAAATGGTAATTTTTGGTGAAACCGAGGTCAAGAATTTTTGGAAAGT
1 TTTGGAAAGTTCAGGGGCAAAATGGTAAATTTTGGTAAAACCGAGGTCAAGAAATTTTGGAAAGT
10934612 TCGGGGGTAAAATGGTA
66 TCGGGGGTAAAATGGTA
10934629 AATTTTGGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
96 31 0.41
97 2 0.03
100 42 0.56
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.31
Consensus pattern (96 bp):
TTTGGAAAGTTCAGGGGCAAAATGGTAAATTTTGGTAAAACCGAGGTCAAGAAATTTTGGAAAGT
TCGGGGGTAAAATGGTATTTTGGTTGAAATT
Found at i:10934636 original size:30 final size:28
Alignment explanation
Indices: 10934601--10934722 Score: 102
Period size: 30 Copynumber: 4.1 Consensus size: 28
10934591 GGTCAAGAAT
*
10934601 TTTTGGAAAGTTCGGGGGT-AAAATGGTAAA
1 TTTTGGAAAGTT-GAGGGTCAAAAT-GT-AA
*
10934631 TTTTGGAAAAGTTTAGGGTCAAAATGTAA
1 TTTTGG-AAAGTTGAGGGTCAAAATGTAA
* *
10934660 TTTTGGAAAAGTTTTAGGGTCAAAGTGTAA
1 TTTTGG-AAAG-TTGAGGGTCAAAATGTAA
* ** *
10934690 TTTTAGAAAAGTTTTGGGTTAAAATGTAA
1 TTTT-GGAAAGTTGAGGGTCAAAATGTAA
10934719 TTTT
1 TTTT
10934723 TGGACTATTT
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
29 32 0.40
30 37 0.46
31 12 0.15
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.38
Consensus pattern (28 bp):
TTTTGGAAAGTTGAGGGTCAAAATGTAA
Found at i:10934669 original size:29 final size:29
Alignment explanation
Indices: 10934616--10934722 Score: 144
Period size: 30 Copynumber: 3.6 Consensus size: 29
10934606 GAAAGTTCGG
10934616 GGGT-AAAATGGTAAATTTTGGAAAAGTTTA
1 GGGTCAAAAT-GT-AATTTTGGAAAAGTTTA
10934646 GGGTCAAAATGTAATTTTGGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTGGAAAAG-TTTA
* * *
10934676 GGGTCAAAGTGTAATTTTAGAAAAGTTTT
1 GGGTCAAAATGTAATTTTGGAAAAGTTTA
*
10934705 GGGTTAAAATGTAATTTT
1 GGGTCAAAATGTAATTTT
10934723 TGGACTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
29 32 0.46
30 33 0.47
31 5 0.07
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTA
Found at i:10935253 original size:30 final size:28
Alignment explanation
Indices: 10935198--10935253 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
10935188 AAAAGAACTT
10935198 TCTCTTCCCCCTTTCTTTCTCTCCTTAC
1 TCTCTTCCCCCTTTCTTTCTCTCCTTAC
* *
10935226 TCTCTTCTTCCCTTTTTTTCTTCTCCTT
1 TCTCTTC-CCCCTTTCTTTC-TCTCCTT
10935254 GGCCGGCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 10 0.42
30 7 0.29
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (28 bp):
TCTCTTCCCCCTTTCTTTCTCTCCTTAC
Found at i:10936629 original size:6 final size:6
Alignment explanation
Indices: 10936612--10936663 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
10936602 TAAATTCAAG
* * * * *
10936612 TTAAAT TCAAAT TTAAAT TTAAAA TTGAAT TTAAA- ATAAAT TTAAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
10936659 TTAAA
1 TTAAA
10936664 ATAATTTTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:10936642 original size:12 final size:12
Alignment explanation
Indices: 10936612--10936663 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
10936602 TAAATTCAAG
* *
10936612 TTAAATTCAAAT
1 TTAAATTTAAAA
10936624 TTAAATTTAAAA
1 TTAAATTTAAAA
*
10936636 TTGAATTTAAAA
1 TTAAATTTAAAA
10936648 -TAAATTTAAAA
1 TTAAATTTAAAA
10936659 TTAAA
1 TTAAA
10936664 ATAATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:10936655 original size:11 final size:11
Alignment explanation
Indices: 10936625--10936659 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
10936615 AATTCAAATT
10936625 TAAATTTAAAA
1 TAAATTTAAAA
*
10936636 TTGAATTTAAAA
1 -TAAATTTAAAA
10936648 TAAATTTAAAA
1 TAAATTTAAAA
10936659 T
1 T
10936660 TAAAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:10937552 original size:93 final size:93
Alignment explanation
Indices: 10937004--10938011 Score: 867
Period size: 93 Copynumber: 10.9 Consensus size: 93
10936994 CATCTTACTC
* * * * *
10937004 TTACTTCAATTTC-AGAGG-GACGAAAATGATG-TTGGTGCTTCATCTTGCTCTTACTTCAATTT
1 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTT
* ** * *
10937066 CAGAGGGACGAAGGCTTGATATCCAGCT
66 CAGAGAGATAAAGACTTGATATCCAACT
* * * * *
10937094 CTACTTCAATTTCAAGAGGATAGGAAAA-GATG-TCGGTGCTTCATCTTGCTCTTACTTCAATTT
1 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTT
* * *
10937157 CAGAGAGACAAAGGCTTGATATCCAGCT
66 CAGAGAGATAAAGACTTGATATCCAACT
* *
10937185 CTACTTCAATTTCAAGAGGATAGGAAAATGATG-TTGGTG-TTTCATCTTA-CTCTTACTTCAAT
1 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTT-ATC-TAGCTCTTACTTCAAT
* *
10937247 TTCAGAGAGACAAAGGCTTGATATCCAACT
64 TTCAGAGAGATAAAGACTTGATATCCAACT
* * * *
10937277 CTACTTCAATTTCAAGAGGATAGGAAAATGATG-TTGGTGCTTCATCTTGCTCTTACTTCAATTT
1 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTT
* ** * *
10937341 CAGAGGGACGAAGGCTTGATATCCAGCT
66 CAGAGAGATAAAGACTTGATATCCAACT
* * * *
10937369 CTACTTCAATTTCAAGAGGATAGGAAAATGATG-TTGGTGCTTCATCTTGCTCTTACTTCAATTT
1 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTT
* ** * * *
10937433 CAGAGGGACGAAGGCTTGTTATCCAGCT
66 CAGAGAGATAAAGACTTGATATCCAACT
10937461 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTT
1 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTT
*
10937526 CAGAGAGATAAAGACTTGATATCCAGCT
66 CAGAGAGATAAAGACTTGATATCCAACT
* *
10937554 CTACTTCAATTTCAAGAGGATAGGATAGGAAAATGATGTTTGATGCCTTATCTAGCTCTTACTTC
1 TTACTTCAATTTC-A-A-G--AGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTC
* * *
10937619 AACTTCAGTGAGATAAAGA-TTCATTATCCAACT
61 AATTTCAGAGAGATAAAGACTTGA-TATCCAACT
* ** *
10937652 TTACTAT-AACTTCAAGAGGATA--AAAATCTGACATTTGAAGCTTTATCTTA-CTCTTACTAT-
1 TTACT-TCAATTTCAAGAGGATAGGAAAA--TGATGTTTGATGCTTTATC-TAGCTCTTACT-TC
* *
10937712 AACTTCAGAGAGATAAAGA-TTCATTATCCAACT
61 AATTTCAGAGAGATAAAGACTTGA-TATCCAACT
* * ** *
10937745 TTACTAT-AACTTCAAGATGATA--AAAATCTGACATTTGAAGCTTTATCTTA-CTCTTACTAT-
1 TTACT-TCAATTTCAAGAGGATAGGAAAA--TGATGTTTGATGCTTTATC-TAGCTCTTACT-TC
* *
10937805 AACTTCAGAGAGATAAAGA-TTCATTATCCAACT
61 AATTTCAGAGAGATAAAGACTTGA-TATCCAACT
* ** *
10937838 TTACTAT-AACTTCAAGAGGATA--AAAATTTGACATTTGAAGCTTTATCTTA-CTCTTACTAT-
1 TTACT-TCAATTTCAAGAGGATAGGAAAA--TGATGTTTGATGCTTTATC-TAGCTCTTACT-TC
* *
10937898 AACTTCAGAGAGATAAAGA-TTCATTATCCAACT
61 AATTTCAGAGAGATAAAGACTTGA-TATCCAACT
* ** * * *
10937931 TTACTAT-AACTTCAAGAGGATA--AAAATTGACATTTAAAGCTTTATCTTGCTCTTACTAT-AA
1 TTACT-TCAATTTCAAGAGGATAGGAAAA-TGATGTTTGATGCTTTATCTAGCTCTTACT-TCAA
*
10937992 CTTCAGAGAGATAAAGACTT
63 TTTCAGAGAGATAAAGACTT
10938012 TTCCCTTTTG
Statistics
Matches: 854, Mismatches: 43, Indels: 39
0.91 0.05 0.04
Matches are distributed among these distances:
90 12 0.01
91 101 0.12
92 313 0.37
93 338 0.40
94 4 0.00
95 2 0.00
96 2 0.00
97 4 0.00
98 77 0.09
99 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (93 bp):
TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTT
CAGAGAGATAAAGACTTGATATCCAACT
Found at i:10937637 original size:98 final size:92
Alignment explanation
Indices: 10937005--10937636 Score: 948
Period size: 92 Copynumber: 6.8 Consensus size: 92
10936995 ATCTTACTCT
* *
10937005 TACTTCAATTTC-AGAGG-GACGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* *
10937068 GAGGGACGAAGGCTTGATATCCAGCTC
66 GAGAGACAAAGGCTTGATATCCAGCTC
*
10937095 TACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
10937159 GAGAGACAAAGGCTTGATATCCAGCTC
66 GAGAGACAAAGGCTTGATATCCAGCTC
* *
10937186 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGTTTCATCTTACTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
*
10937251 GAGAGACAAAGGCTTGATATCCAACTC
66 GAGAGACAAAGGCTTGATATCCAGCTC
10937278 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* *
10937343 GAGGGACGAAGGCTTGATATCCAGCTC
66 GAGAGACAAAGGCTTGATATCCAGCTC
10937370 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* * * *
10937435 GAGGGACGAAGGCTTGTTATCCAGCTT
66 GAGAGACAAAGGCTTGATATCCAGCTC
* * *
10937462 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTC
1 TACTTCAATTTCAAGAGGATAGGAAAATGATG-TTGGTGCTTCATCTTGCTCTTACTTCAATTTC
* *
10937527 AGAGAGATAAAGACTTGATATCCAGCTC
65 AGAGAGACAAAGGCTTGATATCCAGCTC
* *
10937555 TACTTCAATTTCAAGAGGATAGGATAGGAAAATGATGTTTGATGCCTT-ATCTAGCTCTTACTTC
1 TACTTCAATTTC-A-A-G--AGGATAGGAAAATGATG-TTGGTG-CTTCATCTTGCTCTTACTTC
* * *
10937619 AACTTCAGTGAGATAAAG
59 AATTTCAGAGAGACAAAG
10937637 ATTCATTATC
Statistics
Matches: 505, Mismatches: 27, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
90 12 0.02
91 93 0.18
92 275 0.54
93 63 0.12
94 1 0.00
95 1 0.00
96 1 0.00
98 56 0.11
99 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (92 bp):
TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
GAGAGACAAAGGCTTGATATCCAGCTC
Found at i:10937727 original size:53 final size:51
Alignment explanation
Indices: 10937652--10938006 Score: 253
Period size: 40 Copynumber: 7.5 Consensus size: 51
10937642 TTATCCAACT
10937652 TTACTATAACTTCAAGAGGATAAAAATCTGACATTTGAAGCTTTATCTTACTC
1 TTACTATAACTTCAAGAGGATAAAAAT-TGACATTT-AAGCTTTATCTTACTC
* **
10937705 TTACTATAACTTC-AGAGAGAT--AAA--G--A-TT---CATTATCCAACT-
1 TTACTATAACTTCAAGAG-GATAAAAATTGACATTTAAGCTTTATCTTACTC
*
10937745 TTACTATAACTTCAAGATGATAAAAATCTGACATTTGAAGCTTTATCTTACTC
1 TTACTATAACTTCAAGAGGATAAAAAT-TGACATTT-AAGCTTTATCTTACTC
* **
10937798 TTACTATAACTTC-AGAGAGAT--AAA--G--A-TT---CATTATCCAACT-
1 TTACTATAACTTCAAGAG-GATAAAAATTGACATTTAAGCTTTATCTTACTC
10937838 TTACTATAACTTCAAGAGGATAAAAATTTGACATTTGAAGCTTTATCTTACTC
1 TTACTATAACTTCAAGAGGATAAAAA-TTGACATTT-AAGCTTTATCTTACTC
* **
10937891 TTACTATAACTTC-AGAGAGAT--AAA--G--A-TT---CATTATCCAACT-
1 TTACTATAACTTCAAGAG-GATAAAAATTGACATTTAAGCTTTATCTTACTC
*
10937931 TTACTATAACTTCAAGAGGATAAAAATTGACATTTAAAGCTTTATCTTGCTC
1 TTACTATAACTTCAAGAGGATAAAAATTGACATTT-AAGCTTTATCTTACTC
10937983 TTACTATAACTTC-AGAGAGATAAA
1 TTACTATAACTTCAAGAG-GATAAA
10938007 GACTTTTCCC
Statistics
Matches: 236, Mismatches: 21, Indels: 91
0.68 0.06 0.26
Matches are distributed among these distances:
40 48 0.20
41 38 0.16
42 9 0.04
44 1 0.00
45 8 0.03
46 4 0.02
47 4 0.02
48 7 0.03
51 21 0.09
52 48 0.20
53 48 0.20
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (51 bp):
TTACTATAACTTCAAGAGGATAAAAATTGACATTTAAGCTTTATCTTACTC
Found at i:10938099 original size:51 final size:49
Alignment explanation
Indices: 10938044--10938192 Score: 126
Period size: 50 Copynumber: 3.0 Consensus size: 49
10938034 ACTGAATCTG
*
10938044 CCGTTGCGGTCTTAGATCTTTCCCGTCGTGTCTTTTGAGGTACACGGTTCA
1 CCGTTGC-GTCTTAGATCTTTCCCGTC-TGTCTTTTGAGGTACACGGTCCA
* * * *
10938095 CCGTTGCGACTTAGACCTTTCCCTTTTCTGT-TTTT-ACGGTACTA-GATCCA
1 CCGTTGCGTCTTAGATCTTTCCC--GTCTGTCTTTTGA-GGTAC-ACGGTCCA
* * *
10938145 CCATTGCAGTCTTAGATCTATCCCGTCATG-CTTCTGAGGTACACGGTC
1 CCGTTGC-GTCTTAGATCTTTCCCGTC-TGTCTTTTGAGGTACACGGTC
10938193 TGCCATTGTG
Statistics
Matches: 77, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
49 4 0.05
50 46 0.60
51 25 0.32
52 2 0.03
ACGTcount: A:0.15, C:0.28, G:0.21, T:0.36
Consensus pattern (49 bp):
CCGTTGCGTCTTAGATCTTTCCCGTCTGTCTTTTGAGGTACACGGTCCA
Found at i:10938228 original size:100 final size:101
Alignment explanation
Indices: 10938006--10938216 Score: 257
Period size: 101 Copynumber: 2.1 Consensus size: 101
10937996 AGAGAGATAA
* * * * ** * * *
10938006 AGACTTTTCCCTTTTGTCTTTTTGCGGTACT-GAATCTGCCGTTGCGGTCTTAGATCTTTCCCGT
1 AGACCTTTCCCTTTTCTGTTTTTACGGTACTAG-ATCCACCATTGCAGTCTTAGATCTATCCCGT
* * *
10938070 CGTGTCTTTTGAGGTACACGGTTCACCGTTGCGACTT
65 CATGTCTTCTGAGGTACACGGTTCACCATTGCGACTT
10938107 AGACCTTTCCCTTTTCTGTTTTTACGGTACTAGATCCACCATTGCAGTCTTAGATCTATCCCGTC
1 AGACCTTTCCCTTTTCTGTTTTTACGGTACTAGATCCACCATTGCAGTCTTAGATCTATCCCGTC
* *
10938172 ATG-CTTCTGAGGTACACGG-TCTGCCATTGTGACTT
66 ATGTCTTCTGAGGTACACGGTTC-ACCATTGCGACTT
10938207 AGACCTTTCC
1 AGACCTTTCC
10938217 TTGTTGTGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
99 2 0.02
100 35 0.37
101 56 0.60
102 1 0.01
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (101 bp):
AGACCTTTCCCTTTTCTGTTTTTACGGTACTAGATCCACCATTGCAGTCTTAGATCTATCCCGTC
ATGTCTTCTGAGGTACACGGTTCACCATTGCGACTT
Found at i:10939537 original size:25 final size:23
Alignment explanation
Indices: 10939500--10939551 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
10939490 TTTCTTTTTC
* *
10939500 TTTTTCTCTTTTTTGTTTTTTGTTT
1 TTTTTCTC-CTTTT-TTATTTGTTT
10939525 TTTTTCTCCTTTTTTATTTGTTT
1 TTTTTCTCCTTTTTTATTTGTTT
10939548 TTTT
1 TTTT
10939552 CTTCATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.52
24 4 0.16
25 8 0.32
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.83
Consensus pattern (23 bp):
TTTTTCTCCTTTTTTATTTGTTT
Found at i:10939551 original size:22 final size:21
Alignment explanation
Indices: 10939484--10939553 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
10939474 CACCTCGACC
* *
10939484 TCTCCTTTTCTTTTTCTTTTTC
1 TCTCCTTTT-TTTTTGTTTTTT
**
10939506 TCTTTTTTGTTTTTTGTTTTTTT
1 TCTCCTTT-TTTTTTG-TTTTTT
10939529 TCTCCTTTTTTATTTGTTTTTT
1 TCTCCTTTTTT-TTTGTTTTTT
10939551 TCT
1 TCT
10939554 TCATTGTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 23 0.59
23 16 0.41
ACGTcount: A:0.01, C:0.16, G:0.04, T:0.79
Consensus pattern (21 bp):
TCTCCTTTTTTTTTGTTTTTT
Found at i:10940413 original size:11 final size:12
Alignment explanation
Indices: 10940396--10940426 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
10940386 TGACCCATCT
10940396 CTTTTTTTTTGA
1 CTTTTTTTTTGA
10940408 -TTTTTTTTTGA
1 CTTTTTTTTTGA
10940419 CTTTTTTT
1 CTTTTTTT
10940427 ATTTGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (12 bp):
CTTTTTTTTTGA
Found at i:10944120 original size:30 final size:29
Alignment explanation
Indices: 10944010--10944359 Score: 125
Period size: 29 Copynumber: 11.9 Consensus size: 29
10944000 TTTGGATACC
* * **
10944010 CGGGGGCAAAATGGTAATTTTGG-ACTTT
1 CGGGGGTAAAATGGTAAATTTGGAAAGTT
* * * *
10944038 CGAGGGGCAAAATTGTAATTTTGGAGAA-AT
1 CG-GGGGTAAAATGGTAAATTTGGA-AAGTT
* * * *
10944068 CAGGGATAAAATTGTAACTTTGGAAAGTT
1 CGGGGGTAAAATGGTAAATTTGGAAAGTT
**
10944097 CGGGGGGTAAAATGGTAAATTTGGTAAA-AC
1 C-GGGGGTAAAATGGTAAATTTGG-AAAGTT
* * ***
10944127 CGAGGTTAAAA-ACAAAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAAA-TTTGGAAAGTT
10944156 CGGGGGTAAAATGGTAAATTTTGGTGAAA--T
1 CGGGGGTAAAATGGTAAA-TTT-G-GAAAGTT
* * *
10944186 CGGGGTTAAAAATGG-AATTTTGGAAGGTT
1 CGGGGGT-AAAATGGTAAATTTGGAAAGTT
** * *
10944215 CAAGGGCAAAATGGTAATTTTTGGTGAAA-TT
1 CGGGGGTAAAATGGTAA-ATTT-G-GAAAGTT
* * * *
10944246 -AGGGTTAAAAATGG-AATTTTGGAAGGTT
1 CGGGGGT-AAAATGGTAAATTTGGAAAGTT
* *
10944274 CGGGGGTAAAATGGTAATTTTTGATGAAA--C
1 CGGGGGTAAAATGGTAA-ATTTG--GAAAGTT
* *
10944304 CGAGGTTAAAAAT-G-AAATTTTGGAAAGTT
1 CGGGGGT-AAAATGGTAAA-TTTGGAAAGTT
10944333 CGGGGGTAAAATGGTAAATTTTGGAAA
1 CGGGGGTAAAATGGTAAA-TTTGGAAA
10944360 AGTTTAAGGG
Statistics
Matches: 243, Mismatches: 48, Indels: 60
0.69 0.14 0.17
Matches are distributed among these distances:
27 10 0.04
28 33 0.14
29 94 0.39
30 69 0.28
31 27 0.11
32 10 0.04
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.29
Consensus pattern (29 bp):
CGGGGGTAAAATGGTAAATTTGGAAAGTT
Found at i:10944355 original size:59 final size:59
Alignment explanation
Indices: 10944086--10944356 Score: 357
Period size: 59 Copynumber: 4.6 Consensus size: 59
10944076 AAATTGTAAC
* **
10944086 TTTGGAAAGTTCGGGGGGTAAAATGGTAAA-TTTGGTAAAACCGAGGTTAAAAACAAAAT
1 TTTGGAAAGTTC-GGGGGTAAAATGGTAAATTTTGGTGAAACCGAGGTTAAAAATGAAAT
* * *
10944145 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATGGAAT
1 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAACCGAGGTTAAAAATGAAAT
* ** * * ** *
10944204 TTTGGAAGGTTCAAGGGCAAAATGGTAATTTTTGGTGAAA-TTAGGGTTAAAAATGGAAT
1 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAACCGA-GGTTAAAAATGAAAT
* * *
10944263 TTTGGAAGGTTCGGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGAAAT
1 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAACCGAGGTTAAAAATGAAAT
10944322 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGG
1 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGG
10944357 AAAAGTTTAA
Statistics
Matches: 185, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
58 17 0.09
59 167 0.90
60 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.30
Consensus pattern (59 bp):
TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAACCGAGGTTAAAAATGAAAT
Found at i:10944355 original size:118 final size:118
Alignment explanation
Indices: 10944017--10944360 Score: 367
Period size: 118 Copynumber: 2.9 Consensus size: 118
10944007 ACCCGGGGGC
** * * * *
10944017 AAAATGGTAATTTTGG-ACTTTCGAGGGGCAAAATTGTAATTTTGGA-GAAATC-AGGGATAAAA
1 AAAATGG-AATTTTGGAAAGTTCG-GGGGTAAAATGGTAATTTTTGATGAAATCGA-GGTTAAAA
* * * *
10944079 TTGTAACTTTGGAAAGTTCGGGGGGTAAAATGGTAAA-TTTGGTAAAACCGAGGTTA
63 ATGAAATTTTGGAAAGTTC-GGGGGTAAAATGGTAAATTTTGGTAAAACAGAGGTTA
*** * * *
10944135 AAAACAAAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATG
1 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATG
* * ** * * **
10944200 GAATTTTGGAAGGTTCAAGGGCAAAATGGTAATTTTTGGTGAAATTAG-GGTTA
66 AAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGT-AAAACAGAGGTTA
* *
10944253 AAAATGGAATTTTGGAAGGTTCGGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATG
1 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATG
10944318 AAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGG-AAAA
66 AAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTAAAA
10944361 GTTTAAGGGT
Statistics
Matches: 183, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
116 3 0.02
117 38 0.21
118 138 0.75
119 4 0.02
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (118 bp):
AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATG
AAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTAAAACAGAGGTTA
Found at i:10944383 original size:30 final size:30
Alignment explanation
Indices: 10944312--10944418 Score: 128
Period size: 30 Copynumber: 3.5 Consensus size: 30
10944302 ACCGAGGTTA
* **
10944312 AAAATGAAATTTTGG-AAAGTTCGGGGGT-
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTC
*
10944340 AAAATGGTAAATTTTGGAAAAGTTTAAGGGTC
1 AAAAT-GT-AATTTTGGAAAAGTTTAGGGGTC
*
10944372 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTC
10944402 AAAATGTAATTTCTGGA
1 AAAATGTAATTT-TGGA
10944419 CTATTTGGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.07
29 1 0.01
30 41 0.60
31 16 0.24
32 5 0.07
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGTC
Found at i:10944876 original size:13 final size:14
Alignment explanation
Indices: 10944858--10944914 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 14
10944848 ATTAAGAGAA
10944858 CTTTCTCTTC-CCC
1 CTTTCTCTTCTCCC
10944871 CTTTCT-TTCTCCC
1 CTTTCTCTTCTCCC
10944884 CTTACTCTCTTCTTCCC
1 CTT--TCTCTTC-TCCC
*
10944901 CTTTTTTCTTCTCC
1 C-TTTCTCTTCTCC
10944915 TTGGCCGGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 3 0.08
13 12 0.32
15 6 0.16
16 9 0.24
17 5 0.14
18 2 0.05
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.53
Consensus pattern (14 bp):
CTTTCTCTTCTCCC
Found at i:10946309 original size:12 final size:12
Alignment explanation
Indices: 10946277--10946343 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
10946267 AATTTATGAT
10946277 AAAATTAAATTC
1 AAAATTAAATTC
*
10946289 -AAGTTAAATTC
1 AAAATTAAATTC
* *
10946300 AAATTTAAATTT
1 AAAATTAAATTC
10946312 AAAATTAAATAT-
1 AAAATTAAAT-TC
*
10946324 AAAA-TAAATTT
1 AAAATTAAATTC
10946335 AAAATTAAA
1 AAAATTAAA
10946344 ATAATTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
10 1 0.02
11 19 0.40
12 26 0.55
13 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (12 bp):
AAAATTAAATTC
Found at i:10946331 original size:23 final size:22
Alignment explanation
Indices: 10946305--10946347 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
10946295 AATTCAAATT
10946305 TAAATTTAAAATTAAATATAAAA
1 TAAATTTAAAATTAAA-ATAAAA
10946328 TAAATTTAAAATTAAAATAA
1 TAAATTTAAAATTAAAATAA
10946348 TTTTAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATTTAAAATTAAAATAAAA
Found at i:10946336 original size:17 final size:17
Alignment explanation
Indices: 10946318--10946353 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10946308 ATTTAAAATT
10946318 AAATATAAAATAAATTTA
1 AAAT-TAAAATAAATTTA
*
10946336 AAATTAAAATAATTTTA
1 AAATTAAAATAAATTTA
10946353 A
1 A
10946354 TTTCAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAAAATAAATTTA
Found at i:10949687 original size:55 final size:54
Alignment explanation
Indices: 10949562--10949692 Score: 174
Period size: 55 Copynumber: 2.4 Consensus size: 54
10949552 TACATAAAAG
* * * *
10949562 TATTTCAACATGACAATTGATTTAAATATATAAAAATATATTCAAAAGAAGCAA
1 TATTCCAACATAACAATCGATTTAAATATAAAAAAATATATTCAAAAGAAGCAA
* *
10949616 TATTCCAACATGACAATCGATTTAAATATAAAAACAAT-TGATTCAAAAGAAGCTA
1 TATTCCAACATAACAATCGATTTAAATATAAAAA-AATAT-ATTCAAAAGAAGCAA
*
10949671 TATTCCATCATAACAATCGATT
1 TATTCCAACATAACAATCGATT
10949693 CAATCCAGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
54 32 0.46
55 37 0.54
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.31
Consensus pattern (54 bp):
TATTCCAACATAACAATCGATTTAAATATAAAAAAATATATTCAAAAGAAGCAA
Found at i:10956084 original size:58 final size:59
Alignment explanation
Indices: 10955906--10956121 Score: 294
Period size: 59 Copynumber: 3.7 Consensus size: 59
10955896 AAATTGTAAC
**
10955906 TTTGGAAAGTTTGGGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
1 TTTGGAAAG-TTCAGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
* * * * *
10955966 TTTGGAAAGTTC-GAGGGTAAAATGGTAAATTTTGGTTAAATCGGGGTTAAAAATGGAAT
1 TTTGGAAAGTTCAG-GGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
* * * *
10956025 TTTGGAAGGTTCAGGGG-AAAATGGTAATTTTTGGTGAAACCGAGGTCAAGAATGAAAT
1 TTTGGAAAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
10956083 TTTGGAAAGTTCAGGGGTAAAATGGTAAATTTTGG-AAAA
1 TTTGGAAAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAA
10956122 GTTTAAGGGT
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
58 54 0.40
59 72 0.53
60 10 0.07
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.30
Consensus pattern (59 bp):
TTTGGAAAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
Found at i:10956150 original size:60 final size:59
Alignment explanation
Indices: 10955906--10956150 Score: 243
Period size: 59 Copynumber: 4.1 Consensus size: 59
10955896 AAATTGTAAC
** *
10955906 TTTGGAAAGTTTGGGGGGTAAAATGGTAAATTTTGGTAAAACCGA-GGTCAAAAATGAAAT
1 TTTGGAAAG-TTCAGGGGTAAAATGGTAAATTTTGGTAAAACTGAGGGTC-AAAATGAAAT
* * *
10955966 TTTGGAAAGTTC-GAGGGTAAAATGGTAAATTTTGGTTAAA-TCG-GGGTTAAAAATGGAAT
1 TTTGGAAAGTTCAG-GGGTAAAATGGTAAATTTTGGTAAAACT-GAGGG-TCAAAATGAAAT
* * * *
10956025 TTTGGAAGGTTCAGGGG-AAAATGGTAATTTTTGGTGAAACCGA-GGTCAAGAATGAAAT
1 TTTGGAAAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAACTGAGGGTCAA-AATGAAAT
* * **
10956083 TTTGGAAAGTTCAGGGGTAAAATGGTAAATTTTGG-AAAAGTTTAAGGGTCAAAATGTTAT
1 TTTGGAAAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAA--CTGAGGGTCAAAATGAAAT
10956143 TTTGGAAA
1 TTTGGAAA
10956151 AGTTTTGGGG
Statistics
Matches: 154, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
57 3 0.02
58 50 0.32
59 69 0.45
60 26 0.17
61 6 0.04
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (59 bp):
TTTGGAAAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAACTGAGGGTCAAAATGAAAT
Found at i:10956151 original size:30 final size:30
Alignment explanation
Indices: 10956068--10956204 Score: 152
Period size: 30 Copynumber: 4.5 Consensus size: 30
10956058 GTGAAACCGA
* * *
10956068 GGTCAAGAATGAAATTTTGG-AAAGTTCAGG
1 GGTCAA-AATGTAATTTTGGAAAAGTTTAAG
10956098 GGT-AAAATGGTAAATTTTGGAAAAGTTTAAG
1 GGTCAAAAT-GT-AATTTTGGAAAAGTTTAAG
* **
10956129 GGTCAAAATGTTATTTTGGAAAAGTTTTGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
* * *
10956159 GGTCAAAGTGTAATTTTAGAAAAGTTTTAG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
10956189 GGTCAAAATGTAATTT
1 GGTCAAAATGTAATTT
10956205 CTAGACTATT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.03
29 3 0.03
30 68 0.74
31 13 0.14
32 5 0.05
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTGGAAAAGTTTAAG
Found at i:10956720 original size:30 final size:28
Alignment explanation
Indices: 10956665--10956720 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
10956655 AAAAGAACTT
10956665 TCTCTTCCCCCTTTCTTTCTCTCCTTAC
1 TCTCTTCCCCCTTTCTTTCTCTCCTTAC
* *
10956693 TCTCTTCTTCCCTTTTTTTCTTCTCCTT
1 TCTCTTC-CCCCTTTCTTTC-TCTCCTT
10956721 GGCCGGCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 10 0.42
30 7 0.29
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (28 bp):
TCTCTTCCCCCTTTCTTTCTCTCCTTAC
Found at i:10958112 original size:6 final size:6
Alignment explanation
Indices: 10958095--10958146 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
10958085 TAAATTCAAG
* * * * *
10958095 TTAAAT TCAAAT TTAAAT TTAAAA TTGAAT TTAAA- ATAAAT TTAAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
10958142 TTAAA
1 TTAAA
10958147 ATAATTTTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:10958125 original size:12 final size:12
Alignment explanation
Indices: 10958095--10958146 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
10958085 TAAATTCAAG
* *
10958095 TTAAATTCAAAT
1 TTAAATTTAAAA
10958107 TTAAATTTAAAA
1 TTAAATTTAAAA
*
10958119 TTGAATTTAAAA
1 TTAAATTTAAAA
10958131 -TAAATTTAAAA
1 TTAAATTTAAAA
10958142 TTAAA
1 TTAAA
10958147 ATAATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:10958138 original size:11 final size:11
Alignment explanation
Indices: 10958108--10958142 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
10958098 AATTCAAATT
10958108 TAAATTTAAAA
1 TAAATTTAAAA
*
10958119 TTGAATTTAAAA
1 -TAAATTTAAAA
10958131 TAAATTTAAAA
1 TAAATTTAAAA
10958142 T
1 T
10958143 TAAAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:10958749 original size:92 final size:92
Alignment explanation
Indices: 10958488--10959153 Score: 1122
Period size: 92 Copynumber: 7.3 Consensus size: 92
10958478 ATCTTACTCT
* *
10958488 TACTTCAATTTC-AGAGG-GACGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
10958551 GAGGGACGAAGGCTTGATATCCAGCTC
66 GAGGGACGAAGGCTTGATATCCAGCTC
*
10958578 TACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* *
10958642 GAGAGACAAAGGCTTGATATCCAGCTC
66 GAGGGACGAAGGCTTGATATCCAGCTC
* *
10958669 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGTTTCATCTTACTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* * *
10958734 GAGAGACAAAGGCTTGATATCCAACTC
66 GAGGGACGAAGGCTTGATATCCAGCTC
10958761 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
10958826 GAGGGACGAAGGCTTGATATCCAGCTC
66 GAGGGACGAAGGCTTGATATCCAGCTC
10958853 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
*
10958918 GAGGGACGAAGGCTTGATATCCAGCTT
66 GAGGGACGAAGGCTTGATATCCAGCTC
10958945 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* *
10959010 GAGGGACGAAGGCTTGTTATCCAGCTT
66 GAGGGACGAAGGCTTGATATCCAGCTC
* * *
10959037 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTC
1 TACTTCAATTTCAAGAGGATAGGAAAATGATG-TTGGTGCTTCATCTTGCTCTTACTTCAATTTC
* ** *
10959102 AGAGAGATAAAGACTTGATATCCAGCTC
65 AGAGGGACGAAGGCTTGATATCCAGCTC
10959130 TACTTCAATTTCAAGAGGATAGGA
1 TACTTCAATTTCAAGAGGATAGGA
10959154 TAGGAAAATG
Statistics
Matches: 547, Mismatches: 25, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
90 12 0.02
91 93 0.17
92 367 0.67
93 75 0.14
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (92 bp):
TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
GAGGGACGAAGGCTTGATATCCAGCTC
Found at i:10959006 original size:52 final size:50
Alignment explanation
Indices: 10958935--10959200 Score: 162
Period size: 40 Copynumber: 5.5 Consensus size: 50
10958925 GAAGGCTTGA
*
10958935 TATCCAGCT-TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCT
1 TATCTAGCTCTTACTTCAATTTCAAGAGGATAGGAAAATGATGTT-GTGCT
* * * *
10958985 TCATCTTGCTCTTACTTCAATTTC-AGAGG-GACG--AA-G--GCT-TG-T
1 T-ATCTAGCTCTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGTGCT
*
10959027 TATCCAGCT-TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTT
1 TATCTAGCTCTTACTTCAATTTCAAGAGGATAGGAAAATGATG-TTG-TGC-T
* *
10959079 TATCTAGCTCTTACTTCAATTTC-AGA-G--A-GATAAA-GA--CT-TG-A
1 TATCTAGCTCTTACTTCAATTTCAAGAGGATAGGA-AAATGATGTTGTGCT
*
10959120 TATCCAGCTC-TACTTCAATTTCAAGAGGATAGGATAGGAAAATGATGTTTGATGCCT
1 TATCTAGCTCTTACTTCAATTTC-A-A-G--AGGATAGGAAAATGATG-TTG-TG-CT
*
10959177 TATCTAGCTCTTACTTCAACTTCA
1 TATCTAGCTCTTACTTCAATTTCA
10959201 GTGAGATAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 63
0.67 0.07 0.26
Matches are distributed among these distances:
40 25 0.15
41 20 0.12
42 4 0.02
43 5 0.03
44 3 0.02
45 4 0.02
46 1 0.01
47 3 0.02
48 7 0.04
49 8 0.05
50 9 0.06
51 12 0.07
52 25 0.15
53 14 0.09
55 2 0.01
57 10 0.06
58 11 0.07
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (50 bp):
TATCTAGCTCTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGTGCT
Found at i:10959238 original size:40 final size:40
Alignment explanation
Indices: 10959194--10959436 Score: 141
Period size: 40 Copynumber: 5.4 Consensus size: 40
10959184 CTCTTACTTC
*
10959194 AACTTCAGTGAGATAAAGATTCATTATCCAACTTTACTAT
1 AACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTAT
* **
10959234 AACTTCA-AGAGGATAAAAATCTGACATTTGAAGCTTTATCTTACTCTTACTAT
1 AACTTCAGAGA-GAT--AAA---G--A-TT----CATTATCCAACT-TTACTAT
10959287 AACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTAT
1 AACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTAT
* **
10959327 AACTTCA-AGATGATAAAAATCTGACATTTGAAGCTTTATCTTACTCTTACTAT
1 AACTTCAGAGA-GAT--AAA---G--A-TT----CATTATCCAACT-TTACTAT
10959380 AACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTAT
1 AACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTAT
10959420 AACTTCA-AGAGGATAAA
1 AACTTCAGAGA-GATAAA
10959437 AATTGACATT
Statistics
Matches: 159, Mismatches: 13, Indels: 62
0.68 0.06 0.26
Matches are distributed among these distances:
39 8 0.05
40 47 0.30
41 18 0.11
42 6 0.04
45 6 0.04
46 2 0.01
47 2 0.01
48 6 0.04
51 6 0.04
52 18 0.11
53 34 0.21
54 6 0.04
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (40 bp):
AACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTAT
Found at i:10959294 original size:93 final size:93
Alignment explanation
Indices: 10959167--10959486 Score: 538
Period size: 93 Copynumber: 3.5 Consensus size: 93
10959157 GAAAATGATG
* * *
10959167 TTTGATGCCTTATC-TAGCTCTTACT-TCAACTTCAGTGAGATAAAGATTCATTATCCAACTTTA
1 TTTGAAGCTTTATCTTA-CTCTTACTAT-AACTTCAGAGAGATAAAGATTCATTATCCAACTTTA
10959230 CTATAACTTCAAGAGGATAAAAATCTGACA
64 CTATAACTTCAAGAGGATAAAAATCTGACA
10959260 TTTGAAGCTTTATCTTACTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACT
1 TTTGAAGCTTTATCTTACTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACT
*
10959325 ATAACTTCAAGATGATAAAAATCTGACA
66 ATAACTTCAAGAGGATAAAAATCTGACA
10959353 TTTGAAGCTTTATCTTACTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACT
1 TTTGAAGCTTTATCTTACTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACT
10959418 ATAACTTCAAGAGGATAAAAAT-TGACA
66 ATAACTTCAAGAGGATAAAAATCTGACA
* * *
10959445 TTTAAAGATTTATCTTGCTCTTACTATAACTTCAGAGAGATA
1 TTTGAAGCTTTATCTTACTCTTACTATAACTTCAGAGAGATA
10959487 CACGGTCTGC
Statistics
Matches: 217, Mismatches: 8, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
92 44 0.20
93 170 0.78
94 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (93 bp):
TTTGAAGCTTTATCTTACTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACT
ATAACTTCAAGAGGATAAAAATCTGACA
Found at i:10959302 original size:53 final size:53
Alignment explanation
Indices: 10959227--10959396 Score: 163
Period size: 53 Copynumber: 3.5 Consensus size: 53
10959217 TTATCCAACT
10959227 TTACTATAACTTCAAGAGGATAAAAATCTGACATTTGAAGCTTTATCTTACTC
1 TTACTATAACTTCAAGAGGATAAAAATCTGACATTTGAAGCTTTATCTTACTC
* ** *
10959280 TTACTATAACTTC-AGAGAGAT--AAA---G--A-TT----CATTATCCAACTT
1 TTACTATAACTTCAAGAG-GATAAAAATCTGACATTTGAAGCTTTATCTTACTC
* *
10959321 TA-CTATAACTTCAAGATGATAAAAATCTGACATTTGAAGCTTTATCTTACTC
1 TTACTATAACTTCAAGAGGATAAAAATCTGACATTTGAAGCTTTATCTTACTC
10959373 TTACTATAACTTC-AGAGAGATAAA
1 TTACTATAACTTCAAGAG-GATAAA
10959397 GATTCATTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 32
0.67 0.09 0.24
Matches are distributed among these distances:
40 13 0.15
41 13 0.15
42 3 0.03
45 3 0.03
46 1 0.01
47 1 0.01
48 3 0.03
51 3 0.03
52 17 0.19
53 32 0.36
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (53 bp):
TTACTATAACTTCAAGAGGATAAAAATCTGACATTTGAAGCTTTATCTTACTC
Found at i:10960819 original size:22 final size:23
Alignment explanation
Indices: 10960794--10960850 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
10960784 TCTCCTTTTC
* *
10960794 TTTTTCTTTTTCT-CTTTTTTGTT
1 TTTTTTTTTTTCTCCTTTTTT-AT
10960817 TTTTGTTTTTTTCTCCTTTTTTAT
1 TTTT-TTTTTTTCTCCTTTTTTAT
*
10960841 TTGTTTTTTT
1 TTTTTTTTTT
10960851 CTTCATTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.34
24 12 0.41
25 7 0.24
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.82
Consensus pattern (23 bp):
TTTTTTTTTTTCTCCTTTTTTAT
Found at i:10960851 original size:22 final size:21
Alignment explanation
Indices: 10960784--10960852 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
10960774 CACCTCGACC
* *
10960784 TCTCCTTTTCTTTTTCTTTTTC
1 TCTCCTTTT-TTTTTGTTTTTT
**
10960806 TCTTTTTTGTTTTTTGTTTTTT
1 TCTCCTTT-TTTTTTGTTTTTT
10960828 TCTCCTTTTTTATTTGTTTTTT
1 TCTCCTTTTTT-TTTGTTTTTT
10960850 TCT
1 TCT
10960853 TCATTGTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 3 0.08
22 35 0.90
23 1 0.03
ACGTcount: A:0.01, C:0.16, G:0.04, T:0.78
Consensus pattern (21 bp):
TCTCCTTTTTTTTTGTTTTTT
Found at i:10961711 original size:10 final size:10
Alignment explanation
Indices: 10961696--10961743 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
10961686 GACCCATCTC
10961696 TTTTTTTTGA
1 TTTTTTTTGA
10961706 TTTTTTTTGA
1 TTTTTTTTGA
10961716 CTTTTTTTT-A
1 -TTTTTTTTGA
**
10961726 TTTGATTTGA
1 TTTTTTTTGA
10961736 TTTTTTTT
1 TTTTTTTT
10961744 CACACGTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 6 0.19
10 18 0.56
11 8 0.25
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.79
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:10964957 original size:27 final size:28
Alignment explanation
Indices: 10964927--10964988 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
10964917 AAAACGGGAC
10964927 TTTTGGA-TACCGAGGGCAAAATGGTAA
1 TTTTGGACTACCGAGGGCAAAATGGTAA
** *
10964954 TTTTGGACTTTCGAGGGCAAAATTGTAA
1 TTTTGGACTACCGAGGGCAAAATGGTAA
10964982 TTTTGGA
1 TTTTGGA
10964989 GAAATCAGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (28 bp):
TTTTGGACTACCGAGGGCAAAATGGTAA
Found at i:10964998 original size:28 final size:28
Alignment explanation
Indices: 10964937--10965256 Score: 124
Period size: 29 Copynumber: 10.9 Consensus size: 28
10964927 TTTTGGATAC
* ***
10964937 CGAGGGCAAAATGGTAATTTTGGACTTT
1 CGAGGGCAAAATTGTAATTTTGGAAAAT
10964965 CGAGGGCAAAATTGTAATTTTGGAGAAAT
1 CGAGGGCAAAATTGTAATTTTGGA-AAAT
* *
10964994 C-AGGGCTAAAATTGTAACTTTGGAAAGTT
1 CGAGGGC-AAAATTGTAATTTTGGAAA-AT
* * * *
10965023 CGGGGGGTAAAATGGTAAATTTTGGCAAAAC
1 C-GAGGGCAAAATTGT-AATTTTGG-AAAAT
* * * *
10965054 CGAGGTCAAAAATGAAATTTTGGAAAGTT
1 CGAGGGCAAAATTGTAATTTTGGAAA-AT
* * **
10965083 CGGGGGTAAAACGGTAAATTTTGGTAAAAT
1 CGAGGGCAAAATTGT-AATTTTGG-AAAAT
** * **
10965113 CGAGGTTAAAAATG-AATTTTTGGAAGGTT
1 CGAGGGCAAAATTGTAA-TTTTGGAA-AAT
* *
10965142 C-AGGGGCAAAATGGTAATTTTTGGTGAAAT
1 CGA-GGGCAAAATTGTAA-TTTTGG-AAAAT
** * * **
10965172 CGAGGTTAAAAATGGAATTTTGGAAGGTT
1 CGAGGGCAAAATTGTAATTTTGGAA-AAT
* * * *
10965201 CGGGGGCAAAATGGTAATTTTTGGTGAAAC
1 CGAGGGCAAAATTGTAA-TTTTGG-AAAAT
* * *
10965231 CGAGGTCAAAAATGAAATTTTGGAAA
1 CGAGGGCAAAATTGTAATTTTGGAAA
10965257 GTTTGGGGGT
Statistics
Matches: 209, Mismatches: 64, Indels: 38
0.67 0.21 0.12
Matches are distributed among these distances:
28 41 0.20
29 76 0.36
30 72 0.34
31 17 0.08
32 3 0.01
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.28
Consensus pattern (28 bp):
CGAGGGCAAAATTGTAATTTTGGAAAAT
Found at i:10965117 original size:59 final size:59
Alignment explanation
Indices: 10965012--10965287 Score: 365
Period size: 59 Copynumber: 4.7 Consensus size: 59
10965002 AAATTGTAAC
*
10965012 TTTGGAAAGTTCGGGGGGTAAAATGGTAAATTTTGGCAAAACCGAGGTCAAAAATGAAAT
1 TTTGGAAAGTTC-GGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
* * * *
10965072 TTTGGAAAGTTCGGGGGTAAAACGGTAAATTTTGGTAAAATCGAGGTTAAAAATGAATT
1 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
* * * * * * * *
10965131 TTTGGAAGGTTCAGGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAAT
1 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
* * * *
10965190 TTTGGAAGGTTCGGGGGCAAAATGGTAATTTTTGGTGAAACCGAGGTCAAAAATGAAAT
1 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
* *
10965249 TTTGGAAAGTTTGGGGGTAAAATGGTAAATTATGG-AAAA
1 TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTAAAA
10965288 GTTTAGGGGT
Statistics
Matches: 193, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
58 3 0.02
59 178 0.92
60 12 0.06
ACGTcount: A:0.36, C:0.06, G:0.29, T:0.29
Consensus pattern (59 bp):
TTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGTAAAACCGAGGTCAAAAATGAAAT
Found at i:10965267 original size:177 final size:176
Alignment explanation
Indices: 10964968--10965287 Score: 473
Period size: 177 Copynumber: 1.8 Consensus size: 176
10964958 GGACTTTCGA
* * * *
10964968 GGGCAAAATTGTAATTTTGGAGAAATCAGGGCTAAAATTGTAACTTTGGAAAGTTCGGGGGGTAA
1 GGGCAAAATGGTAATTTTGGAGAAATCAGGGCTAAAAATGGAACTTTGGAAAGTTCGGGGGGCAA
10965033 AATGGTAAATTTTGGCAAAACCGAGGTCAAAAATGAAATTTTGGAAAGTTCGGGGGTAAAACGGT
66 AATGGTAAATTTTGGCAAAACCGAGGTCAAAAATGAAATTTTGGAAAGTTCGGGGGTAAAACGGT
*
10965098 AAATTTTGGTAAAATCGAGGTTAAAAATGAATTTTTGGAAGGTTCAG
131 AAATTATGG-AAAATCGAGGTTAAAAATGAATTTTTGGAAGGTTCAG
* * * *
10965145 GGGCAAAATGGTAATTTTTGGTGAAATC-GAGGTTAAAAATGGAATTTTGGAAGGTTC-GGGGGC
1 GGGCAAAATGGTAA-TTTTGGAGAAATCAG-GGCTAAAAATGGAACTTTGGAAAGTTCGGGGGGC
* ** * *
10965208 AAAATGGTAATTTTTGGTGAAACCGAGGTCAAAAATGAAATTTTGGAAAGTTTGGGGGTAAAATG
64 AAAATGGTAAATTTTGGCAAAACCGAGGTCAAAAATGAAATTTTGGAAAGTTCGGGGGTAAAACG
10965273 GTAAATTATGGAAAA
129 GTAAATTATGGAAAA
10965288 GTTTAGGGGT
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
176 4 0.03
177 89 0.70
178 34 0.27
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.28
Consensus pattern (176 bp):
GGGCAAAATGGTAATTTTGGAGAAATCAGGGCTAAAAATGGAACTTTGGAAAGTTCGGGGGGCAA
AATGGTAAATTTTGGCAAAACCGAGGTCAAAAATGAAATTTTGGAAAGTTCGGGGGTAAAACGGT
AAATTATGGAAAATCGAGGTTAAAAATGAATTTTTGGAAGGTTCAG
Found at i:10965317 original size:30 final size:30
Alignment explanation
Indices: 10965234--10965371 Score: 165
Period size: 30 Copynumber: 4.6 Consensus size: 30
10965224 GTGAAACCGA
* *
10965234 GGTCAAAAATGAAATTTTGG-AAAGTTTGGG
1 GGTC-AAAATGTAATTTTGGAAAAGTTTAGG
*
10965264 GGT-AAAATGGTAAATTATGGAAAAGTTTAGG
1 GGTCAAAAT-GT-AATTTTGGAAAAGTTTAGG
10965295 GGTCAAAATGTAATTTTGGAAAAGTTTTA-G
1 GGTCAAAATGTAATTTTGGAAAAG-TTTAGG
* * *
10965325 GGTCAAAGTGTAATTTTAGAAAAGTTTTGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAGG
10965355 GGTCAAAATGTAATTTT
1 GGTCAAAATGTAATTTT
10965372 TGGACTGTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.05
29 4 0.04
30 62 0.66
31 18 0.19
32 5 0.05
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTGGAAAAGTTTAGG
Found at i:10967275 original size:6 final size:6
Alignment explanation
Indices: 10967264--10967297 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
10967254 TTATGATAAT
*
10967264 TTTAAA TTTAAA TTCAAA TTTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
10967298 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:10973853 original size:54 final size:56
Alignment explanation
Indices: 10973732--10973864 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
10973722 ATCTGGATTG
* * * *
10973732 AATCGATTGTTATGATGGAATA-TAGCTTCTTTTGAATCGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
*
10973787 AATCGATTGTCATGTTGGAATACT-GCTTCTTTTGAATATATT-TTTATATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
* *
10973841 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
10973865 TTTATGTAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (56 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
Found at i:10975242 original size:34 final size:34
Alignment explanation
Indices: 10975162--10975243 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
10975152 TAAACATATA
*
10975162 AACAATCGATTCAAAAGAAGCAGTATTCCAACAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
* * * * *
10975196 GATAATCCATTCAAAAGAAGCAATATTCTAGCAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
10975230 AACAATCGATTCAA
1 AACAATCGATTCAA
10975244 TCCAAATTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (34 bp):
AACAATCGATTCAAAAGAAGCAATATTCCAACAT
Found at i:10980171 original size:54 final size:56
Alignment explanation
Indices: 10980050--10980182 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
10980040 ATCTGGATTG
* * * *
10980050 AATCGATTGTTATGATGGAATA-TAGCTTCTTTTGAATCGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
*
10980105 AATCGATTGTCATGTTGGAATACT-GCTTCTTTTGAATATATT-TTTATATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
* *
10980159 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
10980183 TTTATGTAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (56 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
Found at i:10981560 original size:34 final size:34
Alignment explanation
Indices: 10981480--10981561 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
10981470 TAAACATATA
*
10981480 AACAATCGATTCAAAAGAAGCAGTATTCCAACAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
* * * * *
10981514 GATAATCCATTCAAAAGAAGCAATATTCTAGCAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
10981548 AACAATCGATTCAA
1 AACAATCGATTCAA
10981562 TCCAAATTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (34 bp):
AACAATCGATTCAAAAGAAGCAATATTCCAACAT
Found at i:10987214 original size:54 final size:56
Alignment explanation
Indices: 10987093--10987225 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
10987083 ATCTGGATTG
* * * *
10987093 AATCGATTGTTATGATGGAATA-TAGCTTCTTTTGAATCGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
*
10987148 AATCGATTGTCATGTTGGAATACT-GCTTCTTTTGAATATATT-TTTATATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
* *
10987202 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
10987226 TTTATGTAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (56 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
Found at i:10988603 original size:34 final size:34
Alignment explanation
Indices: 10988523--10988604 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
10988513 TAAACATATA
*
10988523 AACAATCGATTCAAAAGAAGCAGTATTCCAACAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
* * * * *
10988557 GATAATCCATTCAAAAGAAGCAATATTCTAGCAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
10988591 AACAATCGATTCAA
1 AACAATCGATTCAA
10988605 TCCAAATTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (34 bp):
AACAATCGATTCAAAAGAAGCAATATTCCAACAT
Found at i:10994266 original size:54 final size:56
Alignment explanation
Indices: 10994145--10994277 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
10994135 ATCTGGATTG
* * * *
10994145 AATCGATTGTTATGATGGAATA-TAGCTTCTTTTGAATCGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
*
10994200 AATCGATTGTCATGTTGGAATACT-GCTTCTTTTGAATATATT-TTTATATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
* *
10994254 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
10994278 TTTATGTAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (56 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
Found at i:10995654 original size:34 final size:34
Alignment explanation
Indices: 10995574--10995655 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
10995564 TAAACATATA
*
10995574 AACAATCGATTCAAAAGAAGCAGTATTCCAACAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
* * * * *
10995608 GATAATCCATTCAAAAGAAGCAATATTCTAGCAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
10995642 AACAATCGATTCAA
1 AACAATCGATTCAA
10995656 TCCAAATTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (34 bp):
AACAATCGATTCAAAAGAAGCAATATTCCAACAT
Found at i:10998182 original size:30 final size:30
Alignment explanation
Indices: 10998124--10998264 Score: 155
Period size: 30 Copynumber: 4.7 Consensus size: 30
10998114 CCCAAAACAG
10998124 TCCAGAAATTACATTTTGACCC-AAAACTTT
1 TCCA-AAATTACATTTTGACCCTAAAACTTT
* *
10998154 TCTAAAATTACACTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
10998184 TCCAAAATTACATTTTGACCCCT-AAACTTT
1 TCCAAAATTACATTTTGA-CCCTAAAACTTT
* **
10998214 TCCATAATTTACCATTTT-ACCCCCAAAC-TT
1 TCCA-AAATTA-CATTTTGACCCTAAAACTTT
*
10998244 TCCAAAATTTCATTTTTGACC
1 TCCAAAATTACA-TTTTGACC
10998265 TCGGTTTCAC
Statistics
Matches: 96, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.02
29 24 0.25
30 50 0.52
31 14 0.15
32 6 0.06
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCTAAAACTTT
Found at i:10998249 original size:60 final size:57
Alignment explanation
Indices: 10998124--10998558 Score: 240
Period size: 59 Copynumber: 7.4 Consensus size: 57
10998114 CCCAAAACAG
* * * ***
10998124 TCCAGAAATTACATTTTGACCCAAAACTTTT-CTAAAATTA-CACTTTGACCCTAAAACTTT
1 TCCA-AAATTACATTTTGACCC-TAA-TTTTCCAAAAATTACCA-TTTTACCCCCGAAC-TT
* * *
10998184 TCCAAAATTACATTTTGACCCCTAAACTTTTCCATAATTTACCATTTTACCCCCAAACTT
1 TCCAAAATTACATTTTGA-CCCT-AA-TTTTCCAAAAATTACCATTTTACCCCCGAACTT
* ** * * *
10998244 TCCAAAATTTCATTTTTGA-CCTCGGTTTCACCAAAAATTACCATTTTGCCCCCGAACCT
1 TCCAAAATTACA-TTTTGACCCT-AATTT-TCCAAAAATTACCATTTTACCCCCGAACTT
* * ** * * * *
10998303 TCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTGCCCCTGAACCT
1 TCCAAAATTACA-TTTTGACCCTAATTT-TCCAAAAATTACCATTTTACCCCCGAACTT
* * * * *
10998362 TCCAAAA-TCCATTTTTAACCTCGATTTTACCAAAATTTACCATTTTACCCCCGAACTT
1 TCCAAAATTACATTTTGACCCT-AATTTT-CCAAAAATTACCATTTTACCCCCGAACTT
* ** *
10998420 TCCAAAATTTCATTTTTGA-CCTCGGTTTTGCCAAAATTTACCATTTTACCCCCCGAACTT
1 TCCAAAATTACA-TTTTGACCCT-AATTTT-CCAAAAATTACCATTTTA-CCCCCGAACTT
* * * * * * **
10998480 TCCAAAGTTACAATTTT-AGCCTCGATTTCTCC-AAAATTACAATTTTGCCCTCGAA-AG
1 TCCAAAATTAC-ATTTTGACCCT-AATTT-TCCAAAAATTACCATTTTACCCCCGAACTT
10998537 TCCAAAATTACCATTTTG-CCCT
1 TCCAAAATTA-CATTTTGACCCT
10998559 CGGGTATCCA
Statistics
Matches: 313, Mismatches: 45, Indels: 37
0.79 0.11 0.09
Matches are distributed among these distances:
57 24 0.08
58 52 0.17
59 142 0.45
60 68 0.22
61 25 0.08
62 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (57 bp):
TCCAAAATTACATTTTGACCCTAATTTTCCAAAAATTACCATTTTACCCCCGAACTT
Found at i:10998291 original size:30 final size:30
Alignment explanation
Indices: 10998257--10998354 Score: 89
Period size: 29 Copynumber: 3.3 Consensus size: 30
10998247 AAAATTTCAT
* *
10998257 TTTTGACCTCGGTTTCACCAAAAATTACCA
1 TTTTGACCCCGATTTCACCAAAAATTACCA
* *
10998287 TTTTGCCCCCGAACCTT--CC-AAAATT-CCA
1 TTTTGACCCCG-A-TTTCACCAAAAATTACCA
*
10998315 TTTTTAACCCCGATTTCACCAAAAATTACCA
1 -TTTTGACCCCGATTTCACCAAAAATTACCA
10998346 TTTTG-CCCC
1 TTTTGACCCC
10998355 TGAACCTTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 21 0.40
30 21 0.40
31 3 0.06
32 2 0.04
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (30 bp):
TTTTGACCCCGATTTCACCAAAAATTACCA
Found at i:10998306 original size:59 final size:59
Alignment explanation
Indices: 10998222--10998553 Score: 373
Period size: 59 Copynumber: 5.6 Consensus size: 59
10998212 TTTCCATAAT
* * * * *
10998222 TTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACCTCGGTTTCACCAAAAA
1 TTACCATTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
* *
10998281 TTACCATTTTGCCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
1 TTACCATTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
* * * *
10998340 TTACCATTTTGCCCCTGAACCTTCCAAAA-TCCATTTTTAACCTCGATTTTACCAAAAT
1 TTACCATTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
* * * * ** *
10998398 TTACCATTTTACCCCCGAACTTTCCAAAATTTCATTTTTGACCTCGGTTTTGCCAAAAT
1 TTACCATTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
* * * * * *
10998457 TTACCATTTTACCCCCCGAACTTTCCAAAGTTACAATTTTAGCCTCGATTTCTCC-AAAA
1 TTACCATTTT-GCCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
* * **
10998516 TTACAATTTTGCCCTCGAA-AGTCCAAAATTACCATTTT
1 TTACCATTTTGCCCCCGAACTTTCCAAAATT-CCATTTT
10998554 GCCCTCGGGT
Statistics
Matches: 234, Mismatches: 36, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
57 8 0.03
58 64 0.27
59 127 0.54
60 35 0.15
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (59 bp):
TTACCATTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
Found at i:10998367 original size:30 final size:29
Alignment explanation
Indices: 10998274--10998368 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 29
10998264 CTCGGTTTCA
10998274 CCAAAAATTACCATTTTGCCCCCGAACCTT
1 CCAAAAATTACCATTTTG-CCCCGAACCTT
* *
10998304 CC-AAAATT-CCATTTTTAACCCCG-A-TTT
1 CCAAAAATTACCA-TTTT-GCCCCGAACCTT
10998331 CACCAAAAATTACCATTTTGCCCCTGAACCTT
1 --CCAAAAATTACCATTTTGCCCC-GAACCTT
10998363 CCAAAA
1 CCAAAA
10998369 TCCATTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 21 0.40
30 19 0.37
31 4 0.08
32 2 0.04
ACGTcount: A:0.33, C:0.34, G:0.05, T:0.28
Consensus pattern (29 bp):
CCAAAAATTACCATTTTGCCCCGAACCTT
Found at i:10998395 original size:117 final size:117
Alignment explanation
Indices: 10998222--10998553 Score: 364
Period size: 117 Copynumber: 2.8 Consensus size: 117
10998212 TTTCCATAAT
* * * * *
10998222 TTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACCTCGGTTTCACCAAAAATTACCA
1 TTACCATTTTACCCCCGAACTTTCCAAAA-TACATTTTTAACCTCGATTTTACCAAAAATTACCA
*
10998287 TTTTGCCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
65 TTTTGCCCCCGAACATTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
* * * * *
10998340 TTACCATTTTGCCCCTGAACCTTCCAAAATCCATTTTTAACCTCGATTTTACCAAAATTTACCAT
1 TTACCATTTTACCCCCGAACTTTCCAAAATACATTTTTAACCTCGATTTTACCAAAAATTACCAT
* * * * * * ** *
10998405 TTTACCCCCGAACTTTCCAAAATTTCATTTTTGACCTCGGTTTTGCCAAAAT
66 TTTGCCCCCGAACATTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
* * *
10998457 TTACCATTTTACCCCCCGAACTTTCCAAAGTTACAATTTTAGCCTCGATTTCT-CC-AAAATTAC
1 TTACCATTTTA-CCCCCGAACTTTCCAAA-ATACATTTTTAACCTCGATTT-TACCAAAAATTAC
* * *
10998520 AATTTTGCCCTCGAA-AGTCCAAAATTACCATTTT
63 CATTTTGCCCCCGAACATTCCAAAATT-CCATTTT
10998554 GCCCTCGGGT
Statistics
Matches: 178, Mismatches: 32, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
117 93 0.52
118 65 0.37
119 19 0.11
120 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (117 bp):
TTACCATTTTACCCCCGAACTTTCCAAAATACATTTTTAACCTCGATTTTACCAAAAATTACCAT
TTTGCCCCCGAACATTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
Found at i:10998518 original size:176 final size:175
Alignment explanation
Indices: 10998211--10998529 Score: 487
Period size: 176 Copynumber: 1.8 Consensus size: 175
10998201 ACCCCTAAAC
*
10998211 TTTTCCATAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACCTCGGTTTCACC
1 TTTTCCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACCTCGGTTTCACC
* * *
10998276 AAAAATTACCATTTTGCCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
66 AAAAATTACCATTTTCCCCCCGAACCTTCCAAAATTACAATTTTAACCCCGATTTCACCAAAAAT
*
10998341 TACCATTTTGCCCCTGAACCTTCCAAAATCCATTTTTAACCTCGA
131 TACAATTTTGCCCCTGAACCTTCCAAAATCCATTTTTAACCTCGA
* **
10998386 TTTTACCAAAATTTACCATTTTACCCCCGAACTTTCCAAAATTTCATTTTTGACCTCGGTTTTGC
1 TTTT-CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACCTCGGTTTCAC
* * * * * *
10998451 CAAAATTTACCATTTTACCCCCCGAACTTTCCAAAGTTACAATTTTAGCCTCGATTTCTCC-AAA
65 CAAAAATTACCATTTT-CCCCCCGAACCTTCCAAAATTACAATTTTAACCCCGATTTCACCAAAA
10998515 ATTACAATTTTGCCC
129 ATTACAATTTTGCCC
10998530 TCGAAAGTCC
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
175 4 0.03
176 88 0.69
177 36 0.28
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.36
Consensus pattern (175 bp):
TTTTCCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTTGACCTCGGTTTCACC
AAAAATTACCATTTTCCCCCCGAACCTTCCAAAATTACAATTTTAACCCCGATTTCACCAAAAAT
TACAATTTTGCCCCTGAACCTTCCAAAATCCATTTTTAACCTCGA
Found at i:11002191 original size:11 final size:10
Alignment explanation
Indices: 11002157--11002202 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
11002147 TCGACGTGTG
11002157 AAAAAAATCA
1 AAAAAAATCA
**
11002167 AATCAAAT-A
1 AAAAAAATCA
11002176 AAAAAAAGTCA
1 AAAAAAA-TCA
11002187 AAAAAAATCA
1 AAAAAAATCA
11002197 AAAAAA
1 AAAAAA
11002203 GAGATGGGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 6 0.20
10 16 0.53
11 8 0.27
ACGTcount: A:0.78, C:0.09, G:0.02, T:0.11
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:11003098 original size:23 final size:22
Alignment explanation
Indices: 11003045--11003098 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
11003035 AGATACAATG
*
11003045 AAGAAAAAAACAAATAAAAAAG
1 AAGAAAAAAACAAATAAAAAAA
*
11003067 GAGAAAAAAAACAAA-AAACAAAA
1 AAG-AAAAAAACAAATAAA-AAAA
*
11003090 AAGAGAAAA
1 AAGAAAAAA
11003099 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (22 bp):
AAGAAAAAAACAAATAAAAAAA
Found at i:11003109 original size:26 final size:26
Alignment explanation
Indices: 11003045--11003109 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
11003035 AGATACAATG
*
11003045 AAGAAAAAAACAAATAAAAAAGGAGAA
1 AAGAAAAAAA-AAACAAAAAAGGAGAA
11003072 AA-AAAACAAAAAACAAAAAA-GAGAA
1 AAGAAAA-AAAAAACAAAAAAGGAGAA
*
11003097 AAGAAAAAGAAAA
1 AAGAAAAAAAAAA
11003110 GGAGAGGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 12 0.35
26 17 0.50
27 5 0.15
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.02
Consensus pattern (26 bp):
AAGAAAAAAAAAACAAAAAAGGAGAA
Found at i:11004569 original size:101 final size:100
Alignment explanation
Indices: 11004367--11004589 Score: 297
Period size: 101 Copynumber: 2.2 Consensus size: 100
11004357 TCAGCACCAC
* * *
11004367 AAAACACAACAA-GGAAAGGTCTAAGTCACAATGGCAGACCGTGTACCTCAGAAGCATGACGGGA
1 AAAACACAA-AAGGGAAAGGTCTAAGTCACAACGGCAGACCGTGTACCTCAAAAGCACGACGGGA
* * ** *
11004431 TAGATCTAAGACCGCAATGGTGGATCTAGTACCGCA
65 AAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
* *
11004467 AAAACAGAAAAGGGAAAGGTCTAAGTCGCAACGGC-GAACCGTGTACCTCAAAAGACACGACGGG
1 AAAACACAAAAGGGAAAGGTCTAAGTCACAACGGCAG-ACCGTGTACCTCAAAAG-CACGACGGG
11004531 AAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
64 AAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
* *
11004568 AAAAGACAAAAGGGAAAAGTCT
1 AAAACACAAAAGGGAAAGGTCT
11004590 TTATCTCTCT
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
99 3 0.03
100 45 0.42
101 59 0.55
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.13
Consensus pattern (100 bp):
AAAACACAAAAGGGAAAGGTCTAAGTCACAACGGCAGACCGTGTACCTCAAAAGCACGACGGGAA
AGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
Found at i:11004570 original size:51 final size:49
Alignment explanation
Indices: 11004424--11004584 Score: 137
Period size: 51 Copynumber: 3.2 Consensus size: 49
11004414 TCAGAAGCAT
* * * *
11004424 GACGGGATAGATCTAAGACCGCAATGGTGGATCTAGTACCGCAAAA-ACA
1 GACGGGAAAGATCTAAGACCGCAACGG-CGATCCAGTACCGCAAAAGACA
* * * * * *
11004473 GAAAAGGGAAAGGTCTAAG-TCGCAACGGCGAACCGTGTACCTCAAAAGACA
1 G--ACGGGAAAGATCTAAGACCGCAACGGCGATCC-AGTACCGCAAAAGACA
11004524 CGACGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAAGACA
1 -GACGGGAAAGATCTAAGACCGCAACGGC-GATCCAGTACCGC-AAAAGACA
* *
11004576 AAAGGGAAA
1 GACGGGAAA
11004585 AGTCTTTATC
Statistics
Matches: 86, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
49 4 0.05
50 31 0.36
51 38 0.44
52 13 0.15
ACGTcount: A:0.40, C:0.22, G:0.27, T:0.11
Consensus pattern (49 bp):
GACGGGAAAGATCTAAGACCGCAACGGCGATCCAGTACCGCAAAAGACA
Found at i:11004685 original size:40 final size:40
Alignment explanation
Indices: 11004641--11004889 Score: 146
Period size: 40 Copynumber: 5.6 Consensus size: 40
11004631 AATGTCAATT
11004641 TTTATC-CTCTTGAAGTTATAGTAAAGTTGGATAATGAATC
1 TTTATCTCTC-TGAAGTTATAGTAAAGTTGGATAATGAATC
** *
11004681 TTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
1 TTTATCTCTCTGAAGTTATAGTAA-AGT----T---GGAT--AATG---AATC
*
11004734 TTTATC-CTCTTGAAGTTATATTAAAGTTGGATAATGAATC
1 TTTATCTCTC-TGAAGTTATAGTAAAGTTGGATAATGAATC
** *
11004774 TTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAGATT
1 TTTATCTCTCTGAAGTTATAGTAA-AGT----T---GGAT--AATG--A-ATC
11004827 TTTATC-CTCTTGAAGTTATAGTAAAGTTGGATAATGAATC
1 TTTATCTCTC-TGAAGTTATAGTAAAGTTGGATAATGAATC
11004867 TTTATCTCTCTGAAGTTA-AGTAA
1 TTTATCTCTCTGAAGTTATAGTAA
11004890 GAGTAGATAA
Statistics
Matches: 164, Mismatches: 14, Indels: 63
0.68 0.06 0.26
Matches are distributed among these distances:
39 5 0.03
40 58 0.35
41 16 0.10
43 8 0.05
45 6 0.04
48 6 0.04
50 8 0.05
52 13 0.08
53 44 0.27
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (40 bp):
TTTATCTCTCTGAAGTTATAGTAAAGTTGGATAATGAATC
Found at i:11004748 original size:53 final size:53
Alignment explanation
Indices: 11004681--11004850 Score: 172
Period size: 53 Copynumber: 3.5 Consensus size: 53
11004671 ATAATGAATC
11004681 TTTAT-CTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
1 TTTATCCTCT-TGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
* ** *
11004734 TTTATCCTCTTGAAGTTATATTAA-AGT----T---GGAT--AATG---AATC
1 TTTATCCTCTTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
*
11004774 TTTATCTCTC-TGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAGATT
1 TTTATC-CTCTTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
11004827 TTTATCCTCTTGAAGTTATAGTAA
1 TTTATCCTCTTGAAGTTATAGTAA
11004851 AGTTGGATAA
Statistics
Matches: 92, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
40 22 0.24
41 6 0.07
43 4 0.04
45 3 0.03
48 3 0.03
50 4 0.04
52 6 0.07
53 40 0.43
54 4 0.04
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (53 bp):
TTTATCCTCTTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
Found at i:11004780 original size:93 final size:93
Alignment explanation
Indices: 11004587--11005135 Score: 641
Period size: 93 Copynumber: 5.9 Consensus size: 93
11004577 AAGGGAAAAG
* *
11004587 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTTAAATGTC-AATTTTTATCCTCT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
11004651 TGAAGTTATAGTAAAGTTGGATAATGAA
66 TGAAGTTATAGTAAAGTTGGATAATGAA
11004679 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
*
11004744 TGAAGTTATATTAAAGTTGGATAATGAA
66 TGAAGTTATAGTAAAGTTGGATAATGAA
*
11004772 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAGATTTTTATCCTCT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
11004837 TGAAGTTATAGTAAAGTTGGATAATGAA
66 TGAAGTTATAGTAAAGTTGGATAATGAA
**
11004865 TCTTTATCTCTCTGAAGTTA-AGTAAGAGT-AGAT-AAGC-TCAAATGTCATTTTTATTATCCTC
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTT-TTATCCTC
11004926 TTGAAG-T-TAGTAAAGTTGGAT-ATGAA
65 TTGAAGTTATAGTAAAGTTGGATAATGAA
* * ** *
11004952 TCTTATATCTCACTGAAGTTGA-AGTAAGAGCT-AGAT-AAGCATCAAACATC-ATTTTCCTCCT
1 TCTT-TATCTCTCTGAAGTT-ATAGTAAGAG-TAAGATAAAGCTTCAAATGTCAAATTT--T--T
* * * *
11005013 ATCCTCTTGAAATTGA-AGTAGAGCTGGAT-ATCAA
59 ATCCTCTTGAAGTT-ATAGTAAAGTTGGATAATGAA
* * **
11005047 GTCTTTATCTCTCTGAAATTGA-AGTAAGAGCT-AGATAAAGCATCAAACATC--ATTTTCCTAT
1 -TCTTTATCTCTCTGAAGTT-ATAGTAAGAG-TAAGATAAAGCTTCAAATGTCAAATTTT--TAT
* *
11005108 CCTCTTGAAATTGA-AGTAAAGCTGGATA
61 CCTCTTGAAGTT-ATAGTAAAGTTGGATA
11005136 TCAAGCCTTC
Statistics
Matches: 422, Mismatches: 20, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
87 9 0.02
88 28 0.07
89 23 0.05
90 31 0.07
91 12 0.03
92 57 0.14
93 196 0.46
94 1 0.00
95 47 0.11
96 18 0.04
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (93 bp):
TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
TGAAGTTATAGTAAAGTTGGATAATGAA
Found at i:11005138 original size:93 final size:93
Alignment explanation
Indices: 11004584--11005583 Score: 900
Period size: 92 Copynumber: 10.9 Consensus size: 93
11004574 CAAAAGGGAA
* * * * **
11004584 AAGTCTTTATCTCTCTGAAGTT-ATAGTAAGAGCAAGATAAAGCTTTAAATGTCAATTTT--TAT
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCTAGATAAAGCATCAAACATC-ATTTTCCTAT
* * *
11004646 CCTCTTGAAGTT-ATAGTAAAGTTGGATAATG
64 CCTCTTGAAATTGA-AGTAAAGCTGGAT-ATC
* * **
11004677 AA-TCTTTATCTCTCTGAAGTT-ATAGTAAGAG-TAAGATAAAGCTTCAAATGTCAAATTTT--T
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCT-AGATAAAGCATCAAACATC--ATTTTCCT
* * * *
11004737 ATCCTCTTGAAGTT-ATATTAAAGTTGGATAATG
62 ATCCTCTTGAAATTGA-AGTAAAGCTGGAT-ATC
* * **
11004770 AA-TCTTTATCTCTCTGAAGTT-ATAGTAAGAG-TAAGATAAAGCTTCAAATGTCAGATTTT--T
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCT-AGATAAAGCATCAAACATC--ATTTTCCT
* * *
11004830 ATCCTCTTGAAGTT-ATAGTAAAGTTGGATAATG
62 ATCCTCTTGAAATTGA-AGTAAAGCTGGAT-ATC
* ** **
11004863 AA-TCTTTATCTCTCTGAAGTT-AAGTAAGAG-TAGAT-AAGC-TCAAATGTCATTTTTATTATC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCA-TTTTCCTATC
* * *
11004923 CTCTTGAAGTT--AGTAAAGTTGGATATG
65 CTCTTGAAATTGAAGTAAAGCTGGATATC
* *
11004950 AA-TCTTATATCTCACTGAAGTTGAAGTAAGAGCTAGAT-AAGCATCAAACATCATTTTCCTCCT
1 AAGTCTT-TATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCA-TTT--TCCT
*
11005013 ATCCTCTTGAAATTGAAGTAGAGCTGGATATC
62 ATCCTCTTGAAATTGAAGTAAAGCTGGATATC
11005045 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCC
11005110 TCTTGAAATTGAAGTAAAGCTGGATATC
66 TCTTGAAATTGAAGTAAAGCTGGATATC
* ** * * * *
11005138 AAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCAACATCATTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCC
*
11005202 TCTTGAAATTGAAGTAGAGCTGGATATC
66 TCTTGAAATTGAAGTAAAGCTGGATATC
* ** * * * *
11005230 AAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCAACATCATTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCC
* *
11005294 TCTTGAAATTGAAGTAGAGTTGGATATC
66 TCTTGAAATTGAAGTAAAGCTGGATATC
* * *
11005322 AAGCCTTTGTCTCTCTGAAATTGAAGTAAGAG-TAAGATGAAA-CA-CCAACATCATTTTCCTAT
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCT-AGAT-AAAGCATCAAACATCATTTTCCTAT
*
11005384 CCTCTTGAAATTGAAGTAGAGCTGGATATC
64 CCTCTTGAAATTGAAGTAAAGCTGGATATC
* * * * **
11005414 AAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCGACATC-TTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCC
*
11005477 TCTTGAAATTGAAGTAGAGCTGGATATC
66 TCTTGAAATTGAAGTAAAGCTGGATATC
* ** * * * * * *
11005505 AAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCAACATCATTTTCGT-CCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCC
11005568 TC-TGAAATTGAAGTAA
66 TCTTGAAATTGAAGTAA
11005584 GAGTAAGATG
Statistics
Matches: 847, Mismatches: 40, Indels: 43
0.91 0.04 0.05
Matches are distributed among these distances:
87 10 0.01
88 31 0.04
89 18 0.02
90 41 0.05
91 110 0.13
92 327 0.39
93 244 0.29
95 47 0.06
96 19 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (93 bp):
AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCC
TCTTGAAATTGAAGTAAAGCTGGATATC
Found at i:11005158 original size:40 final size:41
Alignment explanation
Indices: 11005108--11005533 Score: 126
Period size: 40 Copynumber: 9.5 Consensus size: 41
11005098 ATTTTCCTAT
11005108 CCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTC
1 CCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTC
** * * * *
11005149 CCTC-TGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTAT
1 CCTCTTGAAATTGAAGTAA-AGCTGGAT--ATCA--AGC--C---TTCGT-C
*
11005200 CCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTC
1 CCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTC
** * * * *
11005241 CCTC-TGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTAT
1 CCTCTTGAAATTGAAGTAA-AGCTGGAT--ATCA--AGC--C---TTCGT-C
* * *
11005292 CCTCTTGAAATTGAAGTAGAGTTGGATATCAAGCCTTTGTC
1 CCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTC
* * * * * *
11005333 TCTC-TGAAATTGAAGTAAGAG-TAAGATGAAACACCAACATCATTTTCCTAT
1 CCTCTTGAAATTGAAGTAA-AGCT-GGAT--ATCA--AGC--C---TTCGT-C
* *
11005384 CCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTC
1 CCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTC
* ** * * * *
11005425 TCTC-TGAAATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTAT
1 CCTCTTGAAATTGAAGTAA-AGCTGGAT--ATCA-AG-C--C--TTCGT-C
*
11005475 CCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTC
1 CCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTC
11005516 CCTC-TGAAATTGAAGTAA
1 CCTCTTGAAATTGAAGTAA
11005534 GAGCAAGATG
Statistics
Matches: 273, Mismatches: 63, Indels: 99
0.63 0.14 0.23
Matches are distributed among these distances:
40 67 0.25
41 41 0.15
42 14 0.05
43 12 0.04
44 2 0.01
45 10 0.04
46 1 0.00
47 11 0.04
48 3 0.01
49 12 0.04
50 20 0.07
51 40 0.15
52 40 0.15
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (41 bp):
CCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTC
Found at i:11005224 original size:92 final size:92
Alignment explanation
Indices: 11004964--11005582 Score: 976
Period size: 92 Copynumber: 6.7 Consensus size: 92
11004954 TTATATCTCA
* * *
11004964 CTGAAGTTGAAGTAAGAGCTAGAT-AAGCATCAAACATCATTTTCCTCCTATCCTCTTGAAATTG
1 CTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCAACATCA-TTT--TCCTATCCTCTTGAAATTG
* ** *
11005028 AAGTAGAGCTGGATATCAAGTCTTTATCTCT
62 AAGTAGAGCTGGATATCAAGCCTTCGTCCCT
* * *
11005059 CTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCCTCTTGAAATTGAAG
1 CTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCAACATCATTTTCCTATCCTCTTGAAATTGAAG
*
11005124 TAAAGCTGGATATCAAGCCTTCGTCCCT
65 TAGAGCTGGATATCAAGCCTTCGTCCCT
11005152 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
1 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
11005217 AGAGCTGGATATCAAGCCTTCGTCCCT
66 AGAGCTGGATATCAAGCCTTCGTCCCT
11005244 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
1 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
* * *
11005309 AGAGTTGGATATCAAGCCTTTGTCTCT
66 AGAGCTGGATATCAAGCCTTCGTCCCT
* *
11005336 CTGAAATTGAAGTAAGAGTAAGATGAAACACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
1 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
* *
11005401 AGAGCTGGATATCAAGCCTTTGTCTCT
66 AGAGCTGGATATCAAGCCTTCGTCCCT
*
11005428 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCGACATC-TTTTCCTATCCTCTTGAAATTGAAGT
1 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
11005492 AGAGCTGGATATCAAGCCTTCGTCCCT
66 AGAGCTGGATATCAAGCCTTCGTCCCT
* *
11005519 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCGT-CCCTC-TGAAATTGAAGT
1 CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
11005582 A
66 A
11005583 AGAGTAAGAT
Statistics
Matches: 498, Mismatches: 24, Indels: 9
0.94 0.05 0.02
Matches are distributed among these distances:
90 13 0.03
91 92 0.18
92 279 0.56
93 73 0.15
95 26 0.05
96 15 0.03
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (92 bp):
CTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGT
AGAGCTGGATATCAAGCCTTCGTCCCT
Found at i:11005569 original size:50 final size:49
Alignment explanation
Indices: 11005510--11005641 Score: 212
Period size: 50 Copynumber: 2.7 Consensus size: 49
11005500 ATATCAAGCC
11005510 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATT
1 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATC-TT
*
11005560 TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCTT
1 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTT
* *
11005609 TTCCTATCCTCTGAAATTGAA-TAAGAGCAAGAT
1 TTCGT-CCCTCTGAAATTGAAGTAAGAGCAAGAT
11005642 AAAACCTCGA
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
49 17 0.22
50 60 0.78
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (49 bp):
TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTT
Found at i:11005946 original size:11 final size:11
Alignment explanation
Indices: 11005932--11005965 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11005922 ATTTATTTTA
11005932 ATTTTAAATTT
1 ATTTTAAATTT
**
11005943 ATTTTAAATCA
1 ATTTTAAATTT
11005954 ATTTTAAATTT
1 ATTTTAAATTT
11005965 A
1 A
11005966 AATTTGAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:11008860 original size:30 final size:30
Alignment explanation
Indices: 11008826--11008931 Score: 133
Period size: 30 Copynumber: 3.5 Consensus size: 30
11008816 AAACAGTCCA
*
11008826 AAAATTACATTTTAACCCCAAAACTTTTCT
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
11008856 AAAATTACACTTTAACCCTAAAACTTTTCCC
1 AAAATTACATTTTAACCCCAAAACTTTT-CC
* *
11008887 AAAA-TACATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
11008916 AAAATTTACCATTTTA
1 AAAA-TTA-CATTTTA
11008932 CCCTCGAACT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.09
30 45 0.70
31 7 0.11
32 6 0.09
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCAAAACTTTTCC
Found at i:11008988 original size:59 final size:55
Alignment explanation
Indices: 11008922--11009052 Score: 147
Period size: 59 Copynumber: 2.3 Consensus size: 55
11008912 TTCCAAAATT
* * * *
11008922 TACCATTTTACCCTCGAACTTTCTAAAATTTCATTTTTGACCTCGATTTCACCAAAAAA
1 TACCATTTTGCCCTCGAACCTTC-AAAA-TTCAATTTTAACC-CGA-TTCACCAAAAAA
* * *
11008981 TACCATTTTGCCCCCGAACCTTCCAAATTCAATTTTAACCCGATTCACCAAAAAC
1 TACCATTTTGCCCTCGAACCTTCAAAATTCAATTTTAACCCGATTCACCAAAAAA
*
11009036 T-GCATTTTGCCCTCGAA
1 TACCATTTTGCCCTCGAA
11009053 AGTCCAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
54 14 0.22
55 12 0.19
56 3 0.05
57 11 0.17
58 3 0.05
59 20 0.32
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (55 bp):
TACCATTTTGCCCTCGAACCTTCAAAATTCAATTTTAACCCGATTCACCAAAAAA
Found at i:11013274 original size:16 final size:15
Alignment explanation
Indices: 11013238--11013276 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
11013228 ATGATAACTT
*
11013238 TTTAAATGATATTTG
1 TTTAAATGATATTTA
11013253 TGTTAAATGATATTTAA
1 T-TTAAATGATATTT-A
11013270 TTTAAAT
1 TTTAAAT
11013277 AATAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (15 bp):
TTTAAATGATATTTA
Found at i:11014169 original size:54 final size:56
Alignment explanation
Indices: 11014048--11014180 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
11014038 ATCTGGATTG
* * * *
11014048 AATCGATTGTTATGATGGAATA-TAGCTTCTTTTGAATCGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
*
11014103 AATCGATTGTCATGTTGGAATACT-GCTTCTTTTGAATATATT-TTTATATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
* *
11014157 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
11014181 TTTATGTAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (56 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
Found at i:11015559 original size:34 final size:34
Alignment explanation
Indices: 11015479--11015560 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
11015469 TAAACATATA
*
11015479 AACAATCGATTCAAAAGAAGCAGTATTCCAACAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
* * * * *
11015513 GATAATCCATTCAAAAGAAGCAATATTCTAGCAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
11015547 AACAATCGATTCAA
1 AACAATCGATTCAA
11015561 TCCAAATTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (34 bp):
AACAATCGATTCAAAAGAAGCAATATTCCAACAT
Found at i:11021202 original size:54 final size:56
Alignment explanation
Indices: 11021081--11021213 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 56
11021071 ATCTGGATTG
* * * *
11021081 AATCGATTGTTATGATGGAATA-TAGCTTCTTTTGAATCGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
*
11021136 AATCGATTGTCATGTTGGAATACT-GCTTCTTTTGAATATATT-TTTATATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
* *
11021190 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
11021214 TTTATGTAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.47
55 36 0.51
56 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (56 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
Found at i:11022591 original size:34 final size:34
Alignment explanation
Indices: 11022511--11022592 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
11022501 TAAACATATA
*
11022511 AACAATCGATTCAAAAGAAGCAGTATTCCAACAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
* * * * *
11022545 GATAATCCATTCAAAAGAAGCAATATTCTAGCAT
1 AACAATCGATTCAAAAGAAGCAATATTCCAACAT
11022579 AACAATCGATTCAA
1 AACAATCGATTCAA
11022593 TCCAAATTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (34 bp):
AACAATCGATTCAAAAGAAGCAATATTCCAACAT
Found at i:11027089 original size:54 final size:56
Alignment explanation
Indices: 11026967--11027099 Score: 191
Period size: 55 Copynumber: 2.4 Consensus size: 56
11026957 ATCTGGATTG
* * *
11026967 AATCGATTGTTATGATGGAATA-TAGCTTCTTTTGAATAGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
*
11027022 AATCGATTGTCATGTTGGAATACT-GCTTCTTTTGAATATATT-TTTATATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
* *
11027076 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
11027100 TTATGTAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
54 33 0.46
55 37 0.52
56 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.47
Consensus pattern (56 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTGTTTATATATTTA
Found at i:11030179 original size:55 final size:55
Alignment explanation
Indices: 11030094--11030226 Score: 171
Period size: 55 Copynumber: 2.4 Consensus size: 55
11030084 ATCTGGATTG
* * * * *
11030094 AATCGATTGTTATGATGGATTA-TAGCTTCTTTTGAATCGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATT-TTTATATATTTA
*
11030149 AATCGATTGTCATGTTGGAATACT-GCTTCTTTTGAATATATTTTTATATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTTTTATATATTTA
* *
11030203 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
11030227 TTTATGTAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
54 33 0.48
55 35 0.51
56 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (55 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATAGATTTTTATATATTTA
Found at i:11030213 original size:54 final size:55
Alignment explanation
Indices: 11030118--11030226 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 55
11030108 ATGGATTATA
* * * *
11030118 GCTTCTTTTGAATCGATTGTTTTTATATTTAAATCGATTGTCATGTTGGAATACT
1 GCTTCTTTTGAATAGATTGTTTATATATTTAAATCAATTGTCATGTTGAAATACT
*
11030173 GCTTCTTTTGAATATATT-TTTATATATTTAAATCAATTGTCATGTTGAAATACT
1 GCTTCTTTTGAATAGATTGTTTATATATTTAAATCAATTGTCATGTTGAAATACT
11030227 TTTATGTAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 33 0.67
55 16 0.33
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.50
Consensus pattern (55 bp):
GCTTCTTTTGAATAGATTGTTTATATATTTAAATCAATTGTCATGTTGAAATACT
Found at i:11031599 original size:34 final size:34
Alignment explanation
Indices: 11031519--11031600 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
11031509 TAAACATATA
* *
11031519 AACAATCGATTCAAAAGAAGCAGTATTCCAACAT
1 AACAATCGATTCAAAAGAAACAATATTCCAACAT
* * * * * * *
11031553 GATAACCCATTCAAAAGAAATAATATTCTAGCAT
1 AACAATCGATTCAAAAGAAACAATATTCCAACAT
11031587 AACAATCGATTCAA
1 AACAATCGATTCAA
11031601 TCCAAATTGA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.23
Consensus pattern (34 bp):
AACAATCGATTCAAAAGAAACAATATTCCAACAT
Found at i:11036383 original size:52 final size:55
Alignment explanation
Indices: 11036264--11036394 Score: 173
Period size: 52 Copynumber: 2.4 Consensus size: 55
11036254 ATCTGGATTG
* *
11036264 AATCGATTGTTATGATGGAATA-TAGCTTCTTTTGAATCGATTGTTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATC-ATTGTTTTTATATTTA
11036319 AATCGATTGTCATGTTGGAATACT-GCTTC-TTTGAAT-ATAT-TTTTTATATTTA
1 AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATCAT-TGTTTTTATATTTA
* *
11036371 AATCAATTGTCATGTTGAAATACT
1 AATCGATTGTCATGTTGGAATACT
11036395 TTTATGTAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
52 36 0.51
53 1 0.01
54 7 0.10
55 25 0.36
56 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (55 bp):
AATCGATTGTCATGTTGGAATACTAGCTTCTTTTGAATCATTGTTTTTATATTTA
Found at i:11039475 original size:12 final size:11
Alignment explanation
Indices: 11039439--11039486 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
11039429 TCGACGTGTG
11039439 AAAAAAAATC-
1 AAAAAAAATCA
**
11039449 AAATCAAAT-A
1 AAAAAAAATCA
*
11039459 AAAAAAAGTCA
1 AAAAAAAATCA
11039470 AAAAAAAATCA
1 AAAAAAAATCA
11039481 AAAAAA
1 AAAAAA
11039487 GAGATGGGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
10 13 0.43
11 17 0.57
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:11040358 original size:22 final size:21
Alignment explanation
Indices: 11040330--11040399 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
11040320 GATACAATGA
11040330 AGAAAAAAACAAATAAAAAAGG
1 AGAAAAAAACAAA-AAAAAAGG
**
11040352 AGAAAAAAAACAAAAAACAAAAA
1 AG-AAAAAAACAAAAAA-AAAGG
* *
11040375 AGAGAAAAAGAAAAAGAAAAGG
1 AGAAAAAAACAAAAA-AAAAGG
11040397 AGA
1 AGA
11040400 GGTCGAGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 22 0.56
23 17 0.44
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.01
Consensus pattern (21 bp):
AGAAAAAAACAAAAAAAAAGG
Found at i:11040362 original size:23 final size:25
Alignment explanation
Indices: 11040332--11040383 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
11040322 TACAATGAAG
* *
11040332 AAAAAAAC-AAATA-AAAAAGGAGA
1 AAAAAAACAAAAAACAAAAAAGAGA
11040355 AAAAAAACAAAAAACAAAAAAGAGA
1 AAAAAAACAAAAAACAAAAAAGAGA
11040380 AAAA
1 AAAA
11040384 GAAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.32
24 4 0.16
25 13 0.52
ACGTcount: A:0.83, C:0.06, G:0.10, T:0.02
Consensus pattern (25 bp):
AAAAAAACAAAAAACAAAAAAGAGA
Found at i:11040389 original size:23 final size:25
Alignment explanation
Indices: 11040332--11040394 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 25
11040322 TACAATGAAG
* *
11040332 AAAAAAACAAATAAAAAAGGAGAAA
1 AAAAAAAAAAACAAAAAAGGAGAAA
11040357 AAAAACAAAAAACAAAAAA-GAGAAA
1 AAAAA-AAAAAACAAAAAAGGAGAAA
11040382 AAGAAAAAGAAAA
1 AA-AAAAA-AAAA
11040395 GGAGAGGTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 15 0.45
26 18 0.55
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAACAAAAAAGGAGAAA
Found at i:11041856 original size:101 final size:100
Alignment explanation
Indices: 11041654--11041876 Score: 297
Period size: 101 Copynumber: 2.2 Consensus size: 100
11041644 TCAGCACCAC
* * *
11041654 AAAACACAACAA-GGAAAGGTCTAAGTCACAATGGCAGACCGTGTACCTCAGAAGCATGACGGGA
1 AAAACACAA-AAGGGAAAGGTCTAAGTCACAACGGCAGACCGTGTACCTCAAAAGCACGACGGGA
* * ** *
11041718 TAGATCTAAGACCGCAATGGTGGATCTAGTACCGCA
65 AAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
* *
11041754 AAAACAGAAAAGGGAAAGGTCTAAGTCGCAACGGC-GAACCGTGTACCTCAAAAGACACGACGGG
1 AAAACACAAAAGGGAAAGGTCTAAGTCACAACGGCAG-ACCGTGTACCTCAAAAG-CACGACGGG
11041818 AAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
64 AAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
* *
11041855 AAAAGACAAAAGGGAAAAGTCT
1 AAAACACAAAAGGGAAAGGTCT
11041877 TTATCTCTCT
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
99 3 0.03
100 45 0.42
101 59 0.55
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.13
Consensus pattern (100 bp):
AAAACACAAAAGGGAAAGGTCTAAGTCACAACGGCAGACCGTGTACCTCAAAAGCACGACGGGAA
AGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
Found at i:11041857 original size:51 final size:49
Alignment explanation
Indices: 11041711--11041871 Score: 137
Period size: 51 Copynumber: 3.2 Consensus size: 49
11041701 TCAGAAGCAT
* * * *
11041711 GACGGGATAGATCTAAGACCGCAATGGTGGATCTAGTACCGCAAAA-ACA
1 GACGGGAAAGATCTAAGACCGCAACGG-CGATCCAGTACCGCAAAAGACA
* * * * * *
11041760 GAAAAGGGAAAGGTCTAAG-TCGCAACGGCGAACCGTGTACCTCAAAAGACA
1 G--ACGGGAAAGATCTAAGACCGCAACGGCGATCC-AGTACCGCAAAAGACA
11041811 CGACGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAAGACA
1 -GACGGGAAAGATCTAAGACCGCAACGGC-GATCCAGTACCGC-AAAAGACA
* *
11041863 AAAGGGAAA
1 GACGGGAAA
11041872 AGTCTTTATC
Statistics
Matches: 86, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
49 4 0.05
50 31 0.36
51 38 0.44
52 13 0.15
ACGTcount: A:0.40, C:0.22, G:0.27, T:0.11
Consensus pattern (49 bp):
GACGGGAAAGATCTAAGACCGCAACGGCGATCCAGTACCGCAAAAGACA
Found at i:11041972 original size:40 final size:40
Alignment explanation
Indices: 11041928--11042159 Score: 135
Period size: 40 Copynumber: 5.2 Consensus size: 40
11041918 AATGTCAATT
11041928 TTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAATC
1 TTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAATC
** *
11041968 TTTAT-CTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
1 TTTATCCTCT-TGAAGTTATAGTAA-AGT----T---GGAT--AATG---AATC
*
11042021 TTTATCCTCTTGAAGTTATATTAAAGTTGGATAATGAATC
1 TTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAATC
** *
11042061 TTTAT-CTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAGATT
1 TTTATCCTCT-TGAAGTTATAGTAA-AGT----T---GGAT--AATG--A-ATC
11042114 TTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAATC
1 TTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAATC
11042154 TTTATC
1 TTTATC
11042160 TCACTGAAGT
Statistics
Matches: 148, Mismatches: 14, Indels: 60
0.67 0.06 0.27
Matches are distributed among these distances:
39 8 0.05
40 48 0.32
41 7 0.05
43 8 0.05
45 6 0.04
48 6 0.04
50 8 0.05
52 7 0.05
53 42 0.28
54 8 0.05
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (40 bp):
TTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAATC
Found at i:11042035 original size:53 final size:53
Alignment explanation
Indices: 11041968--11042137 Score: 172
Period size: 53 Copynumber: 3.5 Consensus size: 53
11041958 ATAATGAATC
11041968 TTTAT-CTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
1 TTTATCCTCT-TGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
* ** *
11042021 TTTATCCTCTTGAAGTTATATTAA-AGT----T---GGAT--AATG---AATC
1 TTTATCCTCTTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
*
11042061 TTTATCTCTC-TGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAGATT
1 TTTATC-CTCTTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
11042114 TTTATCCTCTTGAAGTTATAGTAA
1 TTTATCCTCTTGAAGTTATAGTAA
11042138 AGTTGGATAA
Statistics
Matches: 92, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
40 22 0.24
41 6 0.07
43 4 0.04
45 3 0.03
48 3 0.03
50 4 0.04
52 6 0.07
53 40 0.43
54 4 0.04
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (53 bp):
TTTATCCTCTTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATT
Found at i:11042067 original size:93 final size:93
Alignment explanation
Indices: 11041874--11042197 Score: 546
Period size: 93 Copynumber: 3.5 Consensus size: 93
11041864 AAGGGAAAAG
* *
11041874 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTTAAATGTC-AATTTTTATCCTCT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
11041938 TGAAGTTATAGTAAAGTTGGATAATGAA
66 TGAAGTTATAGTAAAGTTGGATAATGAA
11041966 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
*
11042031 TGAAGTTATATTAAAGTTGGATAATGAA
66 TGAAGTTATAGTAAAGTTGGATAATGAA
*
11042059 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAGATTTTTATCCTCT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
11042124 TGAAGTTATAGTAAAGTTGGATAATGAA
66 TGAAGTTATAGTAAAGTTGGATAATGAA
* * *
11042152 TCTTTATCTCACTGAAGTTGA-AGTAAGAGCT-AGATAAGGCATCAAA
1 TCTTTATCTCTCTGAAGTT-ATAGTAAGAG-TAAGATAAAGCTTCAAA
11042198 CATCATTTTC
Statistics
Matches: 221, Mismatches: 8, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
92 48 0.22
93 171 0.77
94 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (93 bp):
TCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCT
TGAAGTTATAGTAAAGTTGGATAATGAA
Found at i:11042213 original size:93 final size:92
Alignment explanation
Indices: 11041871--11042785 Score: 802
Period size: 92 Copynumber: 9.9 Consensus size: 92
11041861 CAAAAGGGAA
* * * * **
11041871 AAGTCTTTATCTCTCTGAAGTT-ATAGTAAGAGCAAGATAAAGCTTTAAATGTCAATTTT--TAT
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCTAGAT-AAGCATCAAACATC-ATTTTCCTAT
* * *
11041933 CCTCTTGAAGTT-ATAGTAAAGTTGGATAATG
63 CCTCTTGAAATTGA-AGTAAAGCTGGAT-ATC
* * **
11041964 AA-TCTTTATCTCTCTGAAGTT-ATAGTAAGAG-TAAGATAAAGCTTCAAATGTCAAATTTT--T
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCT-AGAT-AAGCATCAAACATC--ATTTTCCT
* * * *
11042024 ATCCTCTTGAAGTT-ATATTAAAGTTGGATAATG
61 ATCCTCTTGAAATTGA-AGTAAAGCTGGAT-ATC
* * **
11042057 AA-TCTTTATCTCTCTGAAGTT-ATAGTAAGAG-TAAGATAAAGCTTCAAATGTCAGATTTT--T
1 AAGTCTTTATCTCTCTGAAATTGA-AGTAAGAGCT-AGAT-AAGCATCAAACATC--ATTTTCCT
* * *
11042117 ATCCTCTTGAAGTT-ATAGTAAAGTTGGATAATG
61 ATCCTCTTGAAATTGA-AGTAAAGCTGGAT-ATC
* *
11042150 AA-TCTTTATCTCACTGAAGTTGAAGTAAGAGCTAGATAAGGCATCAAACATCATTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAA-GCATCAAACATCA--TT--T-TCC
*
11042214 TATCCTCTTGAAATTGAAGTAGAGCTGGATATC
60 TATCCTCTTGAAATTGAAGTAAAGCTGGATATC
11042247 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGAT-AAGCATCAAACATCATTTTCCTATCC
*
11042312 TCTTGAAATTGAAGTAAAGCTGGATAAC
65 TCTTGAAATTGAAGTAAAGCTGGATATC
* ** * * *
11042340 AAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCAACATCATTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGAT-AAGCATCAAACATCATTTTCCTATCC
*
11042404 TCTTGAAATTGAAGTAGAGCTGGATATC
65 TCTTGAAATTGAAGTAAAGCTGGATATC
* * * * * *
11042432 AAGCCTTTGTCCCTCTGAAATTCAAGTAAGAGCAAGATGAAGCA-CCAACATCATTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGAT-AAGCATCAAACATCATTTTCCTATCC
* *
11042496 TCTTGAAATTGAAGTAGAGTTGGATATC
65 TCTTGAAATTGAAGTAAAGCTGGATATC
* * * *
11042524 AAGCCTTTGTCTCTCTGAAATTGAAGTAAGAG-TAAGATGAAACA-CCAACATCATTTTCCTATC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCT-AGAT-AAGCATCAAACATCATTTTCCTATC
*
11042587 CTCTTGAAATTGAAGTAGAGCTGGATATC
64 CTCTTGAAATTGAAGTAAAGCTGGATATC
* * * **
11042616 AAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CTGACATC-TTTTCCTATCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGAT-AAGCATCAAACATCATTTTCCTATCC
*
11042679 TCTTGAAATTGAAGTAGAGCTGGATATC
65 TCTTGAAATTGAAGTAAAGCTGGATATC
* ** * * * * *
11042707 AAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCAACATCATTTTCGT-CCC
1 AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGAT-AAGCATCAAACATCATTTTCCTATCC
11042770 TC-TGAAATTGAAGTAA
65 TCTTGAAATTGAAGTAA
11042786 GAGTAAGATG
Statistics
Matches: 759, Mismatches: 45, Indels: 39
0.90 0.05 0.05
Matches are distributed among these distances:
90 13 0.02
91 92 0.12
92 322 0.42
93 247 0.33
94 3 0.00
95 1 0.00
96 3 0.00
97 4 0.01
98 71 0.09
99 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (92 bp):
AAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAGCATCAAACATCATTTTCCTATCCT
CTTGAAATTGAAGTAAAGCTGGATATC
Found at i:11042265 original size:98 final size:92
Alignment explanation
Indices: 11042153--11042784 Score: 939
Period size: 92 Copynumber: 6.8 Consensus size: 92
11042143 GATAATGAAT
* * * * *
11042153 CTTTATCTCACTGAAGTTGAAGTAAGAGCTAGAT-AAGGCATCAAACATCATTTTCCTATCCTAT
1 CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAA-GCA-CCAACATCA--TT--T-TCCTAT
*
11042217 CCTCTTGAAATTGAAGTAGAGCTGGATATCAAGT
59 CCTCTTGAAATTGAAGTAGAGCTGGATATCAAGC
* * * *
11042251 CTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCATTTTCCTATCCTCTT
1 CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCAACATCATTTTCCTATCCTCTT
* *
11042316 GAAATTGAAGTAAAGCTGGATAACAAGC
65 GAAATTGAAGTAGAGCTGGATATCAAGC
* *
11042344 CTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTG
1 CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTG
11042409 AAATTGAAGTAGAGCTGGATATCAAGC
66 AAATTGAAGTAGAGCTGGATATCAAGC
* *
11042436 CTTTGTCCCTCTGAAATTCAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTG
1 CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTG
*
11042501 AAATTGAAGTAGAGTTGGATATCAAGC
66 AAATTGAAGTAGAGCTGGATATCAAGC
* *
11042528 CTTTGTCTCTCTGAAATTGAAGTAAGAGTAAGATGAAACACCAACATCATTTTCCTATCCTCTTG
1 CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTG
11042593 AAATTGAAGTAGAGCTGGATATCAAGC
66 AAATTGAAGTAGAGCTGGATATCAAGC
**
11042620 CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACTGACATC-TTTTCCTATCCTCTTG
1 CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTG
11042684 AAATTGAAGTAGAGCTGGATATCAAGC
66 AAATTGAAGTAGAGCTGGATATCAAGC
* * * *
11042711 CTTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCGT-CCCTC-TG
1 CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTG
11042774 AAATTGAAGTA
66 AAATTGAAGTA
11042785 AGAGTAAGAT
Statistics
Matches: 501, Mismatches: 31, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
90 13 0.03
91 91 0.18
92 275 0.55
93 72 0.14
94 1 0.00
96 2 0.00
98 45 0.09
99 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (92 bp):
CTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCCTCTTG
AAATTGAAGTAGAGCTGGATATCAAGC
Found at i:11042771 original size:50 final size:49
Alignment explanation
Indices: 11042712--11042842 Score: 210
Period size: 50 Copynumber: 2.7 Consensus size: 49
11042702 ATATCAAGCC
11042712 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATT
1 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATC-TT
*
11042762 TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCTT
1 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTT
* *
11042811 TTCCTATCCTCTGAAATTGAA-TAAGAGCAAGA
1 TTCGT-CCCTCTGAAATTGAAGTAAGAGCAAGA
11042843 GAAAACCTCG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
49 16 0.21
50 60 0.79
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (49 bp):
TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTT
Found at i:11043156 original size:12 final size:11
Alignment explanation
Indices: 11043127--11043162 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
11043117 TAAAATTATT
11043127 TTAATTTTAAA
1 TTAATTTTAAA
*
11043138 TTTATTTTAAA
1 TTAATTTTAAA
11043149 TTCAATTTTAAA
1 TT-AATTTTAAA
11043161 TT
1 TT
11043163 TAAATTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTAATTTTAAA
Found at i:11044585 original size:30 final size:28
Alignment explanation
Indices: 11044549--11044604 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
11044539 TTGGCCGGCC
11044549 AAGGAGAAGAAAAAAAGGGAAGAAGAGAGT
1 AAGGAG-AGAAAAAAAGGG-AGAAGAGAGT
* *
11044579 AAGGAGAGAAAGAAAGGGGGAAGAGA
1 AAGGAGAGAAAAAAAGGGAGAAGAGA
11044605 AAGTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 11 0.46
30 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (28 bp):
AAGGAGAGAAAAAAAGGGAGAAGAGAGT
Found at i:11045118 original size:30 final size:30
Alignment explanation
Indices: 11045082--11045218 Score: 152
Period size: 30 Copynumber: 4.5 Consensus size: 30
11045072 AATAGTCTAG
*
11045082 AAATTACATTTTGACCCTAAAACTTTTCTA
1 AAATTACATTTTGACCCTAAAACTTTTCCA
* *
11045112 AAATTACACTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCTAAAACTTTTCCA
* *
11045142 AAATTACATTTTAACCCTTAAACTTTTCCA
1 AAATTACATTTTGACCCTAAAACTTTTCCA
***
11045172 AAATTTACCATTTT-ACCCCCGAAC-TTTCCA
1 AAA-TTA-CATTTTGACCCTAAAACTTTTCCA
*
11045202 AAATTTCATTCTTGACC
1 AAATTACATT-TTGACC
11045219 TCGATTTCAC
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.04
29 4 0.04
30 68 0.74
31 10 0.11
32 6 0.07
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATTACATTTTGACCCTAAAACTTTTCCA
Found at i:11045153 original size:60 final size:60
Alignment explanation
Indices: 11045082--11045390 Score: 194
Period size: 59 Copynumber: 5.2 Consensus size: 60
11045072 AATAGTCTAG
*
11045082 AAATTACATTTTGACCCTAAAACTTTTCTAAAA-TTA-CACTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCTAAAACTTTTCCAAAATTTACCA-TTTGACCCCAAAAC-TTTCCA
* * * **
11045142 AAATTACATTTTAACCCTTAAACTTTTCCAAAATTTACCATTTTACCCCCGAACTTTCCA
1 AAATTACATTTTGACCCTAAAACTTTTCCAAAATTTACCATTTGACCCCAAAACTTTCCA
* ** * * ** *
11045202 AAATTTCATTCTTGA-CCT-CGA-TTTCACCAAAAATTACCATTTTG-CCCCTGAACCTTCCA
1 AAATTACATT-TTGACCCTAAAACTTT-TCCAAAATTTACCA-TTTGACCCCAAAACTTTCCA
* * ** * *
11045261 AAATTCCATTTTAACCC--CGA-TTTAACCAAAATTTACCATTTTACCCTC-AAACTTTCCA
1 AAATTACATTTTGACCCTAAAACTTT-TCCAAAATTTACCATTTGACCC-CAAAACTTTCCA
** ** * *
11045319 AAATTTTATTTTTGA-CCT-CGA-TTTTACCAAAATTTACCATTTTACCCCCAAACTTTCCA
1 AAATTACA-TTTTGACCCTAAAACTTTT-CCAAAATTTACCATTTGACCCCAAAACTTTCCA
*
11045378 AAGTTACAATTTT
1 AAATTAC-ATTTT
11045391 AGCCCCGATT
Statistics
Matches: 207, Mismatches: 29, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
57 3 0.01
58 45 0.22
59 88 0.43
60 52 0.25
61 17 0.08
62 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (60 bp):
AAATTACATTTTGACCCTAAAACTTTTCCAAAATTTACCATTTGACCCCAAAACTTTCCA
Found at i:11045260 original size:59 final size:58
Alignment explanation
Indices: 11045169--11045428 Score: 299
Period size: 59 Copynumber: 4.4 Consensus size: 58
11045159 TTAAACTTTT
* *
11045169 CCAAAATTTACCATTTTACCCCCGAACTTTCCAAAATTTCATTCTTGACCTCGATTTCA
1 CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATT-TTGACCCCGATTTCA
* * ** * * * *
11045228 CCAAAAATTACCATTTTGCCCCTGAACCTTCCAAAATTCCATTTTAACCCCGATTTAA
1 CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTGACCCCGATTTCA
* * * *
11045286 CCAAAATTTACCATTTTACCCTCAAACTTTCCAAAATTTTATTTTTGACCTCGATTTTA
1 CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCA-TTTTGACCCCGATTTCA
* * *
11045345 CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAGTTACAATTTT-AGCCCCGATTTCT
1 CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTC-ATTTTGA-CCCCGATTTCA
* *
11045404 CCAAAA-TTACAATTTTGCCCCCAAA
1 CCAAAATTTACCATTTTACCCCCAAA
11045429 AGTCTAAAAT
Statistics
Matches: 170, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
58 63 0.37
59 106 0.62
60 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.35
Consensus pattern (58 bp):
CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTTTGACCCCGATTTCA
Found at i:11045306 original size:117 final size:118
Alignment explanation
Indices: 11045169--11045428 Score: 353
Period size: 117 Copynumber: 2.2 Consensus size: 118
11045159 TTAAACTTTT
*
11045169 CCAAAATTTACCATTTTACCCCCGAACTTTCCAAAATTTCATTCTTGACCTCGATTTCACCAAAA
1 CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTCTTGACCTCGATTTCACCAAAA
* ** *
11045234 ATTACCATTTTGCCCCTGAACCTTCCAAAATT-CCATTTTAACCCCGATTTAA
66 ATTACCATTTTACCCCCAAACCTTCCAAAATTACAATTTTAACCCCGATTTAA
* * * *
11045286 CCAAAATTTACCATTTTACCCTCAAACTTTCCAAAATTTTATTTTTGACCTCGATTTTACCAAAA
1 CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTCTTGACCTCGATTTCACCAAAA
* * * * **
11045351 TTTACCATTTTACCCCCAAACTTTCCAAAGTTACAATTTTAGCCCCGATTTCT
66 ATTACCATTTTACCCCCAAACCTTCCAAAATTACAATTTTAACCCCGATTTAA
* *
11045404 CCAAAA-TTACAATTTTGCCCCCAAA
1 CCAAAATTTACCATTTTACCCCCAAA
11045429 AGTCTAAAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
117 102 0.82
118 22 0.18
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.35
Consensus pattern (118 bp):
CCAAAATTTACCATTTTACCCCCAAACTTTCCAAAATTTCATTCTTGACCTCGATTTCACCAAAA
ATTACCATTTTACCCCCAAACCTTCCAAAATTACAATTTTAACCCCGATTTAA
Found at i:11045389 original size:29 final size:30
Alignment explanation
Indices: 11045345--11045481 Score: 99
Period size: 28 Copynumber: 4.7 Consensus size: 30
11045335 CTCGATTTTA
*
11045345 CCAAAATTTACCATTTTACCCCCAAACTT-T
1 CCAAAA-TTACAATTTTACCCCCAAACTTCT
* * * *
11045375 CCAAAGTTACAATTTTAGCCCC-GATTTCT
1 CCAAAATTACAATTTTACCCCCAAACTTCT
* **
11045404 CCAAAATTACAATTTTGCCCCCAAAAGTCT
1 CCAAAATTACAATTTTACCCCCAAACTTCT
* * *
11045434 --AAAATTACCATTTTGCCCCCTAAA---GT
1 CCAAAATTACAATTTTACCCCC-AAACTTCT
*
11045460 CCAAAATTACCATTTTACCCCC
1 CCAAAATTACAATTTTACCCCC
11045482 GGGTATCCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.01
28 41 0.47
29 37 0.42
30 9 0.10
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (30 bp):
CCAAAATTACAATTTTACCCCCAAACTTCT
Found at i:11045437 original size:28 final size:28
Alignment explanation
Indices: 11045403--11045481 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
11045393 CCCCGATTTC
*
11045403 TCCAAAATTACAATTTTGCCCCCAAAAG
1 TCCAAAATTACCATTTTGCCCCCAAAAG
* *
11045431 TCTAAAATTACCATTTTGCCCCCTAAAG
1 TCCAAAATTACCATTTTGCCCCCAAAAG
*
11045459 TCCAAAATTACCATTTTACCCCC
1 TCCAAAATTACCATTTTGCCCCC
11045482 GGGTATCCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (28 bp):
TCCAAAATTACCATTTTGCCCCCAAAAG
Done.