Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 189 of 335
Found at i:56890685 original size:14 final size:14
Alignment explanation
Indices: 56890666--56890695 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
56890656 AAAGTTTCAG
56890666 ATACAGAACTAGCT
1 ATACAGAACTAGCT
56890680 ATACAGAACTAGCT
1 ATACAGAACTAGCT
56890694 AT
1 AT
56890696 GTATGAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
ATACAGAACTAGCT
Found at i:56892944 original size:29 final size:29
Alignment explanation
Indices: 56892880--56892945 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
56892870 CATCAAACAA
*
56892880 ATACAAATTAGGGCCTAAGCCCATTACAG
1 ATACAGATTAGGGCCTAAGCCCATTACAG
* * *
56892909 ATGCAGATTTGGGCCTAAGCCCATCT-CAT
1 ATACAGATTAGGGCCTAAGCCCAT-TACAG
56892938 ATACAGAT
1 ATACAGAT
56892946 ATACATGTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (29 bp):
ATACAGATTAGGGCCTAAGCCCATTACAG
Found at i:56893443 original size:13 final size:13
Alignment explanation
Indices: 56893421--56893454 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56893411 CCCACACACT
*
56893421 CGTGTAGGTTGCC
1 CGTGTGGGTTGCC
*
56893434 TGTGTGGGTTGCC
1 CGTGTGGGTTGCC
56893447 CGTGTGGG
1 CGTGTGGG
56893455 CCCACACGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.18, G:0.47, T:0.32
Consensus pattern (13 bp):
CGTGTGGGTTGCC
Found at i:56895392 original size:15 final size:16
Alignment explanation
Indices: 56895367--56895396 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
56895357 TTATATTTGT
56895367 TTTTATTTAAAAATAA
1 TTTTATTTAAAAATAA
56895383 TTTT-TTTAAAAATA
1 TTTTATTTAAAAATA
56895397 CACTAAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTATTTAAAAATAA
Found at i:56895608 original size:14 final size:14
Alignment explanation
Indices: 56895589--56895617 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56895579 GTTGGGTAAG
56895589 TTTTTTTTAAGTTT
1 TTTTTTTTAAGTTT
56895603 TTTTTTTTAAGTTT
1 TTTTTTTTAAGTTT
56895617 T
1 T
56895618 GGTAATGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTTTTTAAGTTT
Found at i:56914550 original size:46 final size:46
Alignment explanation
Indices: 56914497--56914704 Score: 251
Period size: 46 Copynumber: 4.5 Consensus size: 46
56914487 CGAACTTATG
* * * *
56914497 GAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCAAACTCTTT
1 GAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCGTT
* * * *
56914543 GAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAGCTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCGAGCTCGTT
* * *
56914590 GAGTTGGGTCTGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCGTT
*
56914636 GAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCGTT
56914682 GAGTTGAGTCCGAGTTCACTTAT
1 GAGTTGAGTCCGAGTTCACTTAT
56914705 AGGCGGGTTA
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
43 6 0.04
45 3 0.02
46 94 0.69
47 25 0.18
48 3 0.02
50 5 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCGTT
Found at i:56917690 original size:40 final size:39
Alignment explanation
Indices: 56917646--56917769 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 39
56917636 GACTCAACCT
*
56917646 GGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGTCC
1 GGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGTCC
* * * *
56917686 GGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGTCC
1 GGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGTCC
*
56917726 GGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGCCC
1 GGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGTCC
56917766 GGAT
1 GGAT
56917770 ATCATTCGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 62 0.89
41 8 0.11
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (39 bp):
GGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGTCC
Found at i:56917730 original size:80 final size:80
Alignment explanation
Indices: 56917583--56917769 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
56917573 GCTACACATT
* * *
56917583 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCTG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCTG
*
56917647 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * *
56917663 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCA-ACC
56917726 -GGATTTAGTCACTTAGCA
62 TGGATTTAGTCACTTAGCA
56917744 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
56917770 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
79 6 0.07
80 70 0.78
81 14 0.16
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCTGGA
TTTAGTCACTTAGCA
Found at i:56924294 original size:28 final size:28
Alignment explanation
Indices: 56924225--56924325 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56924215 GACAAGATTG
* * * *
56924225 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56924255 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56924283 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56924312 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56924326 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56924319 original size:29 final size:28
Alignment explanation
Indices: 56924254--56924325 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
56924244 AAAATTGTAC
*
56924254 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
56924282 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
56924311 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56924326 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:56957258 original size:78 final size:80
Alignment explanation
Indices: 56957166--56957312 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 80
56957156 ATAGCGACTT
* * *
56957166 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
56957228 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
* ** *
56957244 GCACGAATGTCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
56957309 CGGA
66 CGGA
56957313 CATCATTCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 3 0.05
78 29 0.49
79 17 0.29
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:56957312 original size:40 final size:39
Alignment explanation
Indices: 56957129--56957312 Score: 149
Period size: 40 Copynumber: 4.6 Consensus size: 39
56957119 ACGACTCGCT
* * **
56957129 CAAATGCCTTCGGGA-TGAAGCCCGGTTATAGCGACTTGCA
1 CAAA-GCCTTCGGGACT-TAGCCCGGATATAGTAACTTGCA
* * * *
56957169 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
56957209 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * * *
56957247 CGAATGTCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
56957288 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
56957313 CATCATTCGA
Statistics
Matches: 113, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
38 24 0.21
39 19 0.17
40 60 0.53
41 10 0.09
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:56965240 original size:40 final size:39
Alignment explanation
Indices: 56965196--56965324 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
56965186 GACTCGCTCA
*
56965196 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
56965235 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
56965275 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
56965313 GAATGCCTTCGG
1 -AATGCCTTCGG
56965325 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:56965324 original size:78 final size:80
Alignment explanation
Indices: 56965231--56965377 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
56965221 ATAGCGACTT
* * *
56965231 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
56965293 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
56965309 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
56965374 CGGA
66 CGGA
56965378 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:56965361 original size:40 final size:37
Alignment explanation
Indices: 56965212--56965377 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
56965202 TTCGGGACGA
* ** *
56965212 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
56965252 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
56965290 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
56965330 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
56965370 AGCCCGGA
1 AGCCCGGA
56965378 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:56971161 original size:27 final size:27
Alignment explanation
Indices: 56971121--56971232 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
56971111 AGGAAGCGTC
*
56971121 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
56971148 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
56971175 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
56971203 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
56971229 CTGG
1 CTGG
56971233 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:56971227 original size:54 final size:54
Alignment explanation
Indices: 56971121--56971232 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
56971111 AGGAAGCGTC
* *
56971121 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
56971175 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
56971229 CTGG
1 CTGG
56971233 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:56980901 original size:17 final size:19
Alignment explanation
Indices: 56980859--56980902 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56980849 ATGAAATTTT
*
56980859 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
56980878 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
56980896 AA-TATTA
1 AATTATTA
56980903 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:56983977 original size:27 final size:28
Alignment explanation
Indices: 56983897--56983965 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56983887 GCGTAGATCA
*
56983897 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
56983925 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
56983953 CGAAA-TACCCCTA
1 CGAAATTACCCCTA
56983966 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:56986397 original size:17 final size:19
Alignment explanation
Indices: 56986355--56986398 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56986345 ATGAAATTTT
*
56986355 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
56986374 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
56986392 AA-TATTA
1 AATTATTA
56986399 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:56989476 original size:27 final size:28
Alignment explanation
Indices: 56989396--56989464 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56989386 GCGTAGATCA
*
56989396 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
56989424 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
56989452 CGAAA-TACCCCTA
1 CGAAATTACCCCTA
56989465 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:56997192 original size:47 final size:47
Alignment explanation
Indices: 56997138--56997233 Score: 167
Period size: 47 Copynumber: 2.0 Consensus size: 47
56997128 GTTGAATTTA
*
56997138 AAGCTTGTTAAATTTGCTCTTAATATTT-TCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCT-GGATAAGTTACTTAGTT
56997185 AAGCTTGTTAAATTTGCCCTTAATATTTCTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCTGGATAAGTTACTTAGTT
56997232 AA
1 AA
56997234 AGAAAATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 46 0.98
48 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCTGGATAAGTTACTTAGTT
Found at i:56997489 original size:2 final size:2
Alignment explanation
Indices: 56997477--56997509 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
56997467 TTTGATGAGC
*
56997477 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56997510 TCGGCTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:56998124 original size:45 final size:45
Alignment explanation
Indices: 56998058--56998233 Score: 207
Period size: 45 Copynumber: 4.0 Consensus size: 45
56998048 TATCGTACAG
* *
56998058 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
* *
56998103 TTCTATTCAGGCCTTCGAGCCTAGCAGGCTATAATACC-GATGAGA
1 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAG-TGAGA
* * * * * *
56998148 TACTATTCGGGCCTTTGAGCCTAACAGGCTATAATGACGGTGAAA
1 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
*
56998193 TGA-TA-TCA-GCCTTCGAGCCTAGTAGGCTATAATGCCAGTGA
1 T-ACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
56998234 ATGAATTCAG
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
43 28 0.25
44 3 0.03
45 78 0.70
46 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (45 bp):
TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:57003191 original size:2 final size:2
Alignment explanation
Indices: 57003184--57003208 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57003174 TCGATCGGAG
57003184 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
57003209 GAGTACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57003333 original size:29 final size:29
Alignment explanation
Indices: 57003301--57003373 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
57003291 CTTCGAGCTC
*
57003301 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
57003330 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
57003359 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
57003374 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:57011160 original size:2 final size:2
Alignment explanation
Indices: 57011153--57011177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57011143 TCGATCGGAG
57011153 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
57011178 GAGTACGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57011302 original size:29 final size:29
Alignment explanation
Indices: 57011270--57011342 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
57011260 CTTCGAGCTC
*
57011270 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
57011299 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
57011328 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
57011343 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:57015960 original size:47 final size:47
Alignment explanation
Indices: 57015906--57016048 Score: 252
Period size: 47 Copynumber: 3.0 Consensus size: 47
57015896 GTTGAATTTA
57015906 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
57015953 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
* *
57016000 AAGCTTGTTAAATTTGCCCTTAATA-TTTCTGGATAAGGTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTC-GGATAAGTTACTTAGTT
57016047 AA
1 AA
57016049 AGAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
46 4 0.04
47 89 0.96
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
Found at i:57016930 original size:45 final size:45
Alignment explanation
Indices: 57016850--57017028 Score: 241
Period size: 45 Copynumber: 4.0 Consensus size: 45
57016840 TATCGTATAG
* * *
57016850 TACTATTCGAGCCTTTTAAGCCTAGTAGGCTATAATGCCGGGGTGA
1 TACTATTCGAGCC-TTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
57016896 TACTATTCGAGCCTTTGAGCCTAACAGGCTATAATGCCGGTGAGA
1 TACTATTCGAGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
57016941 TACTATTTGGGCCTTCAAGCCTAGCAGGCTATAATGCCTGTGAGA
1 TACTATTCGAGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
57016986 TACTATCCAAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 TACTATTCGAGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGA
57017029 AATGATATCG
Statistics
Matches: 115, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 102 0.89
46 13 0.11
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (45 bp):
TACTATTCGAGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:57016974 original size:90 final size:88
Alignment explanation
Indices: 57016867--57017065 Score: 258
Period size: 90 Copynumber: 2.2 Consensus size: 88
57016857 CGAGCCTTTT
* * * *
57016867 AAGCCTAGTAGGCTATAATGCCGGGGTGATACTATTCGAGCCTTTGAGCCTAACAGGCTATAATG
1 AAGCCTAGCAGGCTATAATGCCGGGGAGATACTATCCAAGCCTTTGAGCCTAACAGGCTATAATG
* *
57016932 CCGGTGAGAT-ACTATTTGGGCCTTC
66 CCGGTGAAATGA-TA-TCGGG-CTTC
* * *
57016957 AAGCCTAGCAGGCTATAATGCCTGTGAGATACTATCCAAGCCTTTGAGCCTAGCAGGCTATAATG
1 AAGCCTAGCAGGCTATAATGCCGGGGAGATACTATCCAAGCCTTTGAGCCTAACAGGCTATAATG
57017022 CCGGTGAAATGATATCGGGCTTC
66 CCGGTGAAATGATATCGGGCTTC
* *
57017045 GAGCCTAGCAGGCGA-AATGCC
1 AAGCCTAGCAGGCTATAATGCC
57017066 AGTGAATGAA
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
87 6 0.06
88 17 0.18
89 4 0.04
90 69 0.71
91 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (88 bp):
AAGCCTAGCAGGCTATAATGCCGGGGAGATACTATCCAAGCCTTTGAGCCTAACAGGCTATAATG
CCGGTGAAATGATATCGGGCTTC
Found at i:57017630 original size:16 final size:18
Alignment explanation
Indices: 57017599--57017631 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
57017589 AACTCGTCAC
57017599 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
57017617 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
57017632 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:57024493 original size:79 final size:81
Alignment explanation
Indices: 57024324--57024569 Score: 308
Period size: 79 Copynumber: 3.1 Consensus size: 81
57024314 AGCATGATAC
* * *
57024324 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATTATATCCGGGCTAAGACCCGAAGGCATTC
*
57024388 GTGCTAGTTGTTATAT
66 GTGCGAGTTGTTATAT
* *
57024404 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGGGCTAAGA-CCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATTATATCCGGGCTAAGACCCGAAGGCATTC
57024467 GTGCGAGTTGTTATAT
66 GTGCGAGTTGTTATAT
* ** * *
57024483 CCGGGCTAAGATCCGAAGGCATTTGTGCAAGTT-ACCAAAT-CGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATTATATCCGGGCTAAGACCCGAAGGC-ATT
** *
57024546 -GTGCTTGTGGTTATAT
65 CGTGCGAGTTGTTATAT
57024562 CC-GGCTAA
1 CCGGGCTAA
57024570 ATTCCGAAGA
Statistics
Matches: 147, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
78 15 0.10
79 83 0.56
80 47 0.32
81 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATTATATCCGGGCTAAGACCCGAAGGCATTC
GTGCGAGTTGTTATAT
Found at i:57024578 original size:39 final size:40
Alignment explanation
Indices: 57024324--57024569 Score: 304
Period size: 40 Copynumber: 6.2 Consensus size: 40
57024314 AGCATGATAC
* **
57024324 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTG-TTATAT
57024364 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
*
57024404 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
*
57024444 CCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * * *** *
57024483 CCGGGCTAAGATCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * *
57024523 -CGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGTTGTTATAT
57024562 CC-GGCTAA
1 CCGGGCTAA
57024570 ATTCCGAAGA
Statistics
Matches: 182, Mismatches: 20, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
39 70 0.38
40 110 0.60
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
Found at i:57032676 original size:33 final size:37
Alignment explanation
Indices: 57032569--57032742 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 37
57032559 TGAATGATAC
* *
57032569 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCA-TTCTG--AGTTG-TTATAT
57032609 CCGGGCTAAGA-CCGAAGGCATTCGTGCAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTC-TG-AGTTGTTATAT
57032647 CCGGGCTAAGA-CC-AAGGCA-T-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCTGAGTTGTTATAT
57032680 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTC-T--GAGTTGTTATAT
57032720 CCGGGCTAAGACCCGAAGGCATT
1 CCGGGCTAAGACCCGAAGGCATT
57032743 TGTGCAAGTT
Statistics
Matches: 122, Mismatches: 3, Indels: 18
0.85 0.02 0.13
Matches are distributed among these distances:
33 22 0.18
34 4 0.03
35 6 0.05
36 2 0.02
37 6 0.05
38 24 0.20
39 13 0.11
40 45 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (37 bp):
CCGGGCTAAGACCCGAAGGCATTCTGAGTTGTTATAT
Found at i:57032723 original size:40 final size:40
Alignment explanation
Indices: 57032668--57032779 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
57032658 CCAAGGCATT
57032668 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
*
57032708 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
* *** * *
57032748 AAGTTACCAAATCCGGGTTAAGA-CCGAAGGCA
1 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
57032780 ATTGTGCTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 9 0.14
40 56 0.86
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (40 bp):
GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
Found at i:57032727 original size:73 final size:73
Alignment explanation
Indices: 57032569--57032742 Score: 253
Period size: 73 Copynumber: 2.3 Consensus size: 73
57032559 TGAATGATAC
* *
57032569 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCGAAGGCATTCGT
1 CCGGGCTAAGACCCGAAGGCATTGA-G-T--TG-TTATATCCGGGCTAAGACCGAAGGCATTCGT
57032634 GCAGTTGTTATAT
61 GCAGTTGTTATAT
57032647 CCGGGCTAAGA-CC-AAGGCATTGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA
1 CCGGGCTAAGACCCGAAGGCATTGAGTTGTTATATCCGGGCTAAGA-CCGAAGGCATTCGTGC-A
57032710 GTTGTTATAT
64 GTTGTTATAT
57032720 CCGGGCTAAGACCCGAAGGCATT
1 CCGGGCTAAGACCCGAAGGCATT
57032743 TGTGCAAGTT
Statistics
Matches: 90, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
71 17 0.19
72 18 0.20
73 22 0.24
74 3 0.03
75 9 0.10
76 9 0.10
77 2 0.02
78 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (73 bp):
CCGGGCTAAGACCCGAAGGCATTGAGTTGTTATATCCGGGCTAAGACCGAAGGCATTCGTGCAGT
TGTTATAT
Found at i:57040378 original size:40 final size:40
Alignment explanation
Indices: 57040329--57040496 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
57040319 TCTTCGGAAT
* *
57040329 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
57040368 TTAACCCGGAT-TTGGTAGCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * *
57040408 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
57040448 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
57040488 TTAGCCCGG
1 TTAGCCCGG
57040497 TATCATTCAA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 5 0.05
40 98 0.93
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:57040456 original size:80 final size:80
Alignment explanation
Indices: 57040320--57040496 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
57040310 AACCGAGCTT
* * * * **
57040320 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
*
57040384 -AGCTTGCACAAATGC
66 CA-CTAGCACAAATGC
* ** *
57040399 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
*
57040463 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
57040479 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
57040497 TATCATTCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 10 0.12
80 69 0.84
81 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
CACTAGCACAAATGC
Found at i:57048405 original size:40 final size:40
Alignment explanation
Indices: 57048357--57048524 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
57048347 TTCTTCGAAT
* *
57048357 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
57048396 TTAACCCGGAT-TTGGTAGCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * *
57048436 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
57048476 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
57048516 TTAGCCCGG
1 TTAGCCCGG
57048525 GTATCATTCA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 5 0.05
40 98 0.93
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:57048505 original size:80 final size:80
Alignment explanation
Indices: 57048357--57048524 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
57048347 TTCTTCGAAT
* * ** *
57048357 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAGCTTGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAGCTAGCAC
*
57048421 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGAC
** *
57048436 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCA-CTAGC
1 TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAAT-AGCTAGC
*
57048499 ATAAATGCCTTCGGGAC
64 ACAAATGCCTTCGGGAC
57048516 TTAGCCCGG
1 TTAGCCCGG
57048525 GTATCATTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 4 0.05
80 69 0.91
81 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAGCTAGCAC
AAATGCCTTCGGGAC
Found at i:57055663 original size:27 final size:27
Alignment explanation
Indices: 57055633--57055690 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
57055623 AGCATGGCTG
*
57055633 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
57055660 CCAGAACAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57055687 CCAG
1 CCAG
57055691 GACGCTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:57056970 original size:23 final size:25
Alignment explanation
Indices: 57056930--57056975 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
57056920 GCAAAGAAGA
* *
57056930 AGAAAAGAGAATAGGAGATGAGAGG
1 AGAAAAGAGAATAAGAGAAGAGAGG
57056955 AGAAAAGA-AA-AAGAGAAGAGA
1 AGAAAAGAGAATAAGAGAAGAGA
57056976 ATGGTCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 2 0.11
25 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (25 bp):
AGAAAAGAGAATAAGAGAAGAGAGG
Found at i:57058351 original size:48 final size:48
Alignment explanation
Indices: 57058280--57058379 Score: 164
Period size: 48 Copynumber: 2.1 Consensus size: 48
57058270 CATAACAGAG
* * *
57058280 ATAATATATTTCTCGCATGTATAAAACAAAACCATAACTAGTAGAAAC
1 ATAATATACTTCCCGCATGTATAAAACAAAACCATAACCAGTAGAAAC
*
57058328 ATAATATACTTCCCGCATGTATAAAACAAAACCATAACCAGTAGGAAC
1 ATAATATACTTCCCGCATGTATAAAACAAAACCATAACCAGTAGAAAC
57058376 ATAA
1 ATAA
57058380 GAATAGTCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.19, G:0.09, T:0.24
Consensus pattern (48 bp):
ATAATATACTTCCCGCATGTATAAAACAAAACCATAACCAGTAGAAAC
Found at i:57060897 original size:47 final size:47
Alignment explanation
Indices: 57060764--57060903 Score: 174
Period size: 47 Copynumber: 3.0 Consensus size: 47
57060754 TTACACGAAT
* * **
57060764 CACATATCATACTGATGCCATATCCCAGATATGGTCTTGCACA-GAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATA-AGGAAG
* *
57060811 CACATATCACACCGACGCCATATCCCGGATATGGTCTTATAAGGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAAGGAAG
* * * *
57060858 CTCATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAAGGAA
57060904 ATTACATATC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 1 0.01
47 79 0.99
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAAGGAAG
Found at i:57072417 original size:40 final size:40
Alignment explanation
Indices: 57072358--57072440 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
57072348 CGGAATACAA
*
57072358 CCGGATATAACCACATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
* * *
57072398 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
57072438 CCG
1 CCG
57072441 AATGTAGTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.20
Consensus pattern (40 bp):
CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
Found at i:57075267 original size:30 final size:32
Alignment explanation
Indices: 57075233--57075293 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
57075223 CCCAATACAT
*
57075233 TTTCTCCCTC-CCCTCTCC-TCTCAATCTTCG
1 TTTCTCCCTCTCCCTCACCATCTCAATCTTCG
*
57075263 TTTCTCCCTCTCCCTCACCATCTCCATCTTC
1 TTTCTCCCTCTCCCTCACCATCTCAATCTTC
57075294 CACAAAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 10 0.37
31 7 0.26
32 10 0.37
ACGTcount: A:0.08, C:0.51, G:0.02, T:0.39
Consensus pattern (32 bp):
TTTCTCCCTCTCCCTCACCATCTCAATCTTCG
Found at i:57077653 original size:47 final size:47
Alignment explanation
Indices: 57077462--57077668 Score: 144
Period size: 46 Copynumber: 4.4 Consensus size: 47
57077452 AAGTCAATGC
* * * **
57077462 CATGTCTCAGACATGGTCTTACACTAACAATCATCT-TGTAGCT-GATG
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAATA-CTCGATG
* * * * * * **
57077509 TATGTCCCAGAGATGTCTTATACTGGC-TTACGTCTCAAGGC-CGATG
1 CATGTCCCAGACATGTCTTACACTAGCACT-CATCTCAATACTCGATG
57077555 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATACT-GATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATACTCGATG
**
57077601 TCATGTCCCAGACATGGTCTTACACT-G-ACTC-TCAT-AATGTGGTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCATC-TCAA--TACTCGATG
57077649 CATGTCCCAGACATGTCTTA
1 CATGTCCCAGACATGTCTTA
57077669 TTTTGGCCCA
Statistics
Matches: 127, Mismatches: 22, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
45 5 0.04
46 65 0.51
47 43 0.34
48 14 0.11
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATACTCGATG
Found at i:57088494 original size:47 final size:46
Alignment explanation
Indices: 57088340--57088509 Score: 127
Period size: 47 Copynumber: 3.7 Consensus size: 46
57088330 CATGGGTAAG
* ** *
57088340 GTGCCGATGCCATGT-CCAGACATGGTCTTACACTAACAATCAT-CT
1 GTGCTGATGCCATGTCCCAGACAT-GTCTTACACTAACTCTCATAAT
* * * * *
57088385 CGTAGTTGAT-ACATGTCCCAGACATATCTTACACTAGCACTCGCTTCAAT
1 -GT-GCTGATGCCATGTCCCAGACATGTCTTACACTA--ACTCTCAT-AAT
* *
57088435 AT-C-GATGCCATGTCCTAGACATGGTCTTACACTAACTCTCATAAT
1 GTGCTGATGCCATGTCCCAGACAT-GTCTTACACTAACTCTCATAAT
57088480 GTGGCTGATG-CATGTCCCAGACATGTCTTA
1 GT-GCTGATGCCATGTCCCAGACATGTCTTA
57088510 TTCTGGCCCA
Statistics
Matches: 95, Mismatches: 18, Indels: 22
0.70 0.13 0.16
Matches are distributed among these distances:
45 4 0.04
46 32 0.34
47 39 0.41
48 18 0.19
49 1 0.01
50 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (46 bp):
GTGCTGATGCCATGTCCCAGACATGTCTTACACTAACTCTCATAAT
Found at i:57090211 original size:20 final size:21
Alignment explanation
Indices: 57090188--57090227 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57090178 TTTAAATTTT
*
57090188 TAGA-TTAGGGTTCGATATTC
1 TAGATTTAGGGTTCAATATTC
57090208 TAGATTTAGGGTTCAATATT
1 TAGATTTAGGGTTCAATATT
57090228 TGAAGTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (21 bp):
TAGATTTAGGGTTCAATATTC
Found at i:57093637 original size:27 final size:27
Alignment explanation
Indices: 57093054--57093636 Score: 699
Period size: 27 Copynumber: 21.6 Consensus size: 27
57093044 AAAGTACTCC
57093054 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
57093081 -TAGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
57093108 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57093135 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
57093162 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57093189 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
57093216 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57093243 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
***
57093270 C-AGTTTACAGAATTATTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
57093297 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57093324 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
57093351 CGATTTGTAAAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57093378 CGATTTACAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
57093405 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
57093432 CGATTTATTGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
57093458 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
57093486 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57093513 CGATTTACAGAATTACCGTCTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57093540 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57093567 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57093594 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57093621 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
57093637 TAAAATACCC
Statistics
Matches: 481, Mismatches: 65, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 471 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:57094974 original size:9 final size:9
Alignment explanation
Indices: 57094962--57095018 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
57094952 TTTGATAAAC
57094962 ATGATATGT
1 ATGATATGT
*
57094971 ATGATATGCAC
1 ATGATATG--T
*
57094982 ATGACATGT
1 ATGATATGT
*
57094991 ATGATATGCAC
1 ATGATATG--T
57095002 ATGATATGT
1 ATGATATGT
57095011 ATGATATG
1 ATGATATG
57095019 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:57094985 original size:20 final size:20
Alignment explanation
Indices: 57094960--57095030 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
57094950 ATTTTGATAA
57094960 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57094980 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
57095000 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57095020 ACATGAGATGT
1 ACATGATATGT
57095031 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:57095007 original size:11 final size:11
Alignment explanation
Indices: 57094971--57095025 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
57094961 CATGATATGT
57094971 ATGATATGCAC
1 ATGATATGCAC
* *
57094982 ATGACATG--T
1 ATGATATGCAC
57094991 ATGATATGCAC
1 ATGATATGCAC
*
57095002 ATGATATG--T
1 ATGATATGCAC
57095011 ATGATATGCAC
1 ATGATATGCAC
57095022 ATGA
1 ATGA
57095026 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:57095102 original size:24 final size:24
Alignment explanation
Indices: 57095075--57095241 Score: 259
Period size: 24 Copynumber: 7.0 Consensus size: 24
57095065 GGAAGAAGTG
57095075 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
57095099 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
57095122 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
57095146 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
57095170 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
57095193 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
57095217 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
57095242 ATGATAAAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 45 0.34
24 78 0.58
25 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:57095145 original size:47 final size:46
Alignment explanation
Indices: 57095075--57095241 Score: 237
Period size: 47 Copynumber: 3.5 Consensus size: 46
57095065 GGAAGAAGTG
57095075 TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA
1 TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA
*
57095121 TCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA
1 T-AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTA
* *
57095169 TTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTA
1 TAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA
*
57095216 TTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -TAAAAG-GGCTTATGCC-CCAGTTAT
57095242 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
46 1 0.01
47 65 0.60
48 32 0.29
49 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA
Found at i:57095192 original size:71 final size:71
Alignment explanation
Indices: 57095076--57095241 Score: 271
Period size: 71 Copynumber: 2.3 Consensus size: 71
57095066 GAAGAAGTGT
57095076 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
57095141 GTTATC
66 GTTATC
* *
57095147 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
57095212 GTTATT
66 GTTATC
*
57095218 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57095242 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 78 0.88
72 11 0.12
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:57097838 original size:93 final size:93
Alignment explanation
Indices: 57097732--57097904 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
57097722 CGGCCATAAG
**
57097732 CGAACTCGAACTCAACTCAAAGAGCTCGGGCGTTCGCAGCCATAAGTGAACT-ACGACTCAACTC
1 CGAACTCGAACTCAACTCAAAGAGCTCGAACGTTCGCAGCCATAAGTGAACTCA-GACTCAACTC
57097796 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
* * *
57097825 CGAACTCGAACTCAACTCAACGAGTTCGAACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGAACTCAACTCAAAGAGCTCGAACGTTCGCAGCCATAAGTGAACTCAGACTCAACTCA
*
57097890 ATGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
57097905 CAAATATCCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAAAGAGCTCGAACGTTCGCAGCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:57100618 original size:18 final size:17
Alignment explanation
Indices: 57100597--57100651 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
57100587 ACAATTCTTT
57100597 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTT-TCC
*
57100615 TCTCTTCATCTATTTT-C
1 TCTCTTCTTCT-TTTTCC
*
57100632 TCTTCTTC-TGTTTTTCC
1 TC-TCTTCTTCTTTTTCC
57100649 TCT
1 TCT
57100652 ATAGCTAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.16
17 8 0.25
18 16 0.50
19 3 0.09
ACGTcount: A:0.04, C:0.33, G:0.02, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTTCC
Found at i:57100645 original size:15 final size:15
Alignment explanation
Indices: 57100594--57100645 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
57100584 CTAACAATTC
*
57100594 TTTTCTCTTCTTCTT
1 TTTTCTCTTCTTCTA
*
57100609 TTCTCCTCTCTTCATCTA
1 TT-T--TCTCTTCTTCTA
*
57100627 TTTTCTCTTCTTCTG
1 TTTTCTCTTCTTCTA
57100642 TTTT
1 TTTT
57100646 TCCTCTATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 16 0.53
16 1 0.03
17 1 0.03
18 12 0.40
ACGTcount: A:0.04, C:0.29, G:0.02, T:0.65
Consensus pattern (15 bp):
TTTTCTCTTCTTCTA
Found at i:57105033 original size:18 final size:17
Alignment explanation
Indices: 57105012--57105066 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
57105002 ACAATTCTTT
57105012 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
57105030 TCTCTTCATCTATTT-TC
1 TCTCTTCTTCT-TTTCTC
57105047 TCTTCTTCTTCTTTTC-C
1 TC-TCTTCTTCTTTTCTC
57105064 TCT
1 TCT
57105067 ATAGCCGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 19 0.59
19 3 0.09
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:57106309 original size:28 final size:28
Alignment explanation
Indices: 57106269--57106408 Score: 235
Period size: 28 Copynumber: 5.0 Consensus size: 28
57106259 GGAGGAAGCG
*
57106269 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTACCACAAATATCTGT
* *
57106297 TTCTAGTGGCTCTACCACAAATATCTAT
1 TTCTGGTGGCTCTACCACAAATATCTGT
57106325 TTCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTACCACAAATATCTGT
57106353 TTCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTACCACAAATATCTGT
* *
57106381 TTCTGGTGGCCCTACCACAATTATCTGT
1 TTCTGGTGGCTCTACCACAAATATCTGT
57106409 ATCAATATAT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 105 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTACCACAAATATCTGT
Found at i:57108704 original size:254 final size:245
Alignment explanation
Indices: 57108249--57108746 Score: 712
Period size: 254 Copynumber: 2.0 Consensus size: 245
57108239 AAATAAAAGT
* * ** *
57108249 AAAACTTTAGGGGTAATTTTGTAAAAATATCAAAAATGGCCAAATTACGTGAAGTACATTGTTTT
1 AAAAATTTAGGGGCAATTTTGTAAAAATATCAAAAATAACCAAATTACATGAAGTACATTGTTTT
* * * *
57108314 AATGTCTAAATTGATAAAATTGAATGAAATTATTAATTTAGATCAAGACCGGGTGGAAAATCGAT
66 AATGTCTAAATTGATAAAACTGAATGAAATTATTAATTTAGATCAAGACCAGGTGGAAAATCCAG
* * * *
57108379 GAAATTAAAAAATTACCAAAATACCCCTGAACTTCGATATTTTTGCAATTTAGCCATGTAATTTC
131 GAAAATAAAAAATTACCAAAATACCCCTAAACTTCGATATTTTTGCAATTTAGCCAAGTAAGTTC
57108444 GTATGAACTGTATATTGTATAATTTTGATTAAATTGAATGTTAATATGTGATTATATTGA
196 GTATGAAC-------TG--T-ATTTTGATTAAATTGAATGTTAATATGTGATTATATTGA
* *
57108504 AAAAATTTAGGGGCAATTTTGTAAAAATGTCAAAAATAACCAAATTGCATGAAGTACATTGTTTT
1 AAAAATTTAGGGGCAATTTTGTAAAAATATCAAAAATAACCAAATTACATGAAGTACATTGTTTT
*
57108569 ACTGTCTAAATTGAT-AAACTGAATGAAATTATTAATTTAGATCAAGACCAGGTGGAAAATCCAG
66 AATGTCTAAATTGATAAAACTGAATGAAATTATTAATTTAGATCAAGACCAGGTGGAAAATCCAG
* * *
57108633 GAAAATAGAAAATTACCAAAATACCCCTAAACTTTGGTATTTCTT-CAATTTAGCCAAGTAAGTT
131 GAAAATAAAAAATTACCAAAATACCCCTAAACTTCGATATTT-TTGCAATTTAGCCAAGTAAGTT
57108697 CGTATGAACTGTATTTTGATTAAATTGAATGTTAATATGTGATTATATTG
195 CGTATGAACTGTATTTTGATTAAATTGAATGTTAATATGTGATTATATTG
57108747 CAGGAGTTAT
Statistics
Matches: 223, Mismatches: 19, Indels: 13
0.87 0.07 0.05
Matches are distributed among these distances:
244 38 0.17
245 1 0.00
247 2 0.01
254 108 0.48
255 74 0.33
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (245 bp):
AAAAATTTAGGGGCAATTTTGTAAAAATATCAAAAATAACCAAATTACATGAAGTACATTGTTTT
AATGTCTAAATTGATAAAACTGAATGAAATTATTAATTTAGATCAAGACCAGGTGGAAAATCCAG
GAAAATAAAAAATTACCAAAATACCCCTAAACTTCGATATTTTTGCAATTTAGCCAAGTAAGTTC
GTATGAACTGTATTTTGATTAAATTGAATGTTAATATGTGATTATATTGA
Found at i:57110543 original size:16 final size:16
Alignment explanation
Indices: 57110531--57110570 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
57110521 GAAATAAATT
57110531 ATAA-AATAAATAAAA
1 ATAAGAATAAATAAAA
57110546 ATAAGAATAAATAATAA
1 ATAAGAATAAATAA-AA
57110563 ATAA-AATA
1 ATAAGAATA
57110571 TGAAGTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.17
16 13 0.57
17 6 0.26
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAAGAATAAATAAAA
Found at i:57110836 original size:20 final size:20
Alignment explanation
Indices: 57110799--57110836 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57110789 ATACAAAAGA
*
57110799 ATATAAATGAATTACAATCT
1 ATATAAATGAAATACAATCT
57110819 ATATAATATGAAAT-CAAT
1 ATATAA-ATGAAATACAAT
57110837 GATCATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
ATATAAATGAAATACAATCT
Found at i:57112999 original size:44 final size:45
Alignment explanation
Indices: 57112893--57113001 Score: 114
Period size: 44 Copynumber: 2.4 Consensus size: 45
57112883 TCTGCTCCAC
* * * *
57112893 TGTTATCTCAAGGAGATAAGATTGACAATCTTCAATCTGCTTCCT
1 TGTTACCTCAGGGAGATAAGACTGACAATCTTCAACCTGCTTCCT
* ** * *
57112938 TGCTACCAAAGGAAGATAAGACT-ACAATCTTCAGCCTGC-TCTCT
1 TGTTACCTCAGGGAGATAAGACTGACAATCTTCAACCTGCTTC-CT
57112982 TGTTACCTCAGGGAGATAAG
1 TGTTACCTCAGGGAGATAAG
57113002 GCTAGTGGCT
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
43 2 0.04
44 32 0.64
45 16 0.32
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (45 bp):
TGTTACCTCAGGGAGATAAGACTGACAATCTTCAACCTGCTTCCT
Found at i:57113148 original size:44 final size:44
Alignment explanation
Indices: 57112906--57113709 Score: 206
Period size: 44 Copynumber: 18.1 Consensus size: 44
57112896 TATCTCAAGG
* * **
57112906 AGATAAGATTGACAATCTTCAATCTGCTTCCTTGCTACCAAAGGA
1 AGATAAGACT-ACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* * *
57112951 AGATAAGACTACAATCTTCAGCCTGC-TCTCTTGTTACCTCAGGG
1 AGATAAGACTACAATCTTCAGTCTGCTTC-CTTGCTACCTCAGGA
* **** ** * * * *
57112995 AGATAAGGCTAGTGGCTAAAATTTGCTCCCCTGCTACCTC-GAGA
1 AGATAAGACTACAATCTTCAGTCTGCTTCCTTGCTACCTCAG-GA
* ** * * * * * * *
57113039 AGATAAGATTCACCGTTTTCAATCTACTCCACTAT--TATCTTAGGG
1 AGATAAGACT-ACAATCTTCAGTCTGCTTC-CT-TGCTACCTCAGGA
* * *
57113084 AGATAAAAACTACAATCTTCAGTCTGCTTCCTTACTACCACAGGA
1 AGAT-AAGACTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* *
57113129 AGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCA-GA
1 AGATAAGACTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* **** ** * * *
57113172 GAGATAAGGCTAGTGGCTAAAATCTGC-TCCCTGCTACCTCGGGA
1 -AGATAAGACTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* * * ** * * *
57113216 AGATAAAATTTGCCCTCTTC-GATCTGCTCCACTAT--TATCTCAGGG
1 AGATAAGA-CTACAATCTTCAG-TCTGCTTC-CT-TGCTACCTCAGGA
* * * * *
57113261 AGATAAAATCTACAATCTTCAATCTTCTTCCTTGCTTCCACAGGA
1 AGATAAGA-CTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* * * *
57113306 AGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTTAGGG
1 AGATAAGACTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* **** ** * * *
57113350 AGATAAGGCTAGTGGCTAAAATCTAC-TCCTTTGTTACCTC-GAGA
1 AGATAAGACTACAATCTTCAGTCTGCTTCC-TTGCTACCTCAG-GA
* * ** * * * * *
57113394 AGATAAGATTTGCTGTCTT-TGATCTAC-TCCACTGTTATCTCAAGG-
1 AGATAAGA-CTACAATCTTCAG-TCTGCTTCC-TTGCTACCTC-AGGA
* **
57113439 AGATAATATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAACA
1 AGATAAGA-CTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* * * * *
57113484 AGGTAAGACT-CAATCTTTAGCCTGC-TCCTTTGCTACCTTAGGG
1 AGATAAGACTACAATCTTCAGTCTGCTTCC-TTGCTACCTCAGGA
* **** ** * * * * * *
57113527 AGATAAGGCTAGTGGCTAAAATCTTCTCCCCTGTTACCTCGGGA
1 AGATAAGACTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* * * * * *
57113571 AGATAAGATTCACCATCTTC-GATCTAC-TCCACTGCTATCTCAGGG
1 AGATAAGACT-ACAATCTTCAG-TCTGCTTCC-TTGCTACCTCAGGA
* * * *
57113616 AGATTAGATCTACAATCTTCAATGTGCTTCCTTGCTACCTCGGGA
1 AGATAAGA-CTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* * * * * *
57113661 AGATAAGA-TTCAATCTTCAGCCTTCTCCCTTGCTATCTCAGGG
1 AGATAAGACTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
57113704 AGATAA
1 AGATAA
57113710 AGCTAGTGGC
Statistics
Matches: 524, Mismatches: 197, Indels: 78
0.66 0.25 0.10
Matches are distributed among these distances:
42 3 0.01
43 90 0.17
44 210 0.40
45 202 0.39
46 16 0.03
47 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (44 bp):
AGATAAGACTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
Found at i:57113304 original size:177 final size:178
Alignment explanation
Indices: 57112848--57113806 Score: 1269
Period size: 177 Copynumber: 5.4 Consensus size: 178
57112838 CCTATTCAAT
* * ** * * *
57112848 TGCTACCTCGGGAAGATAAGATTTGTTGTCTTTGATCTGCTCCACTGTTATCTCAAGGAGATAAG
1 TGCTACCTCGAGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTGTTATCTCAAGGAGATAAA
*
57112913 AT-TGACAATCTTCAATCTGCTTCCTTGCTACCAAAGGAAGATAAGACTACAATCTTCAGCCTGC
66 ATCT-ACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGC
* * *
57112977 TCTCTTGTTACCTCAGGGAGATAAGGCTAGTGGCTAAAATTTGCTCCCC
130 TCCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCC
* * * * * *
57113026 TGCTACCTCGAGAAGATAAGATTCACCGTTTTCAATCTACTCCACTATTATCTTAGGGAGATAAA
1 TGCTACCTCGAGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTGTTATCTCAAGGAGATAAA
* * *
57113091 AACTACAATCTTCAGTCTGCTTCCTTACTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
66 ATCTACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
*
57113156 CCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCT-CCC
131 CCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCC
* * * * * * *
57113203 TGCTACCTCGGGAAGATAAAATTTGCCCTCTTCGATCTGCTCCACTATTATCTCAGGGAGATAAA
1 TGCTACCTCGAGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTGTTATCTCAAGGAGATAAA
* *
57113268 ATCTACAATCTTCAATCTTCTTCCTTGCTTCCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
66 ATCTACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
* * **
57113333 CCCTTGCTACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTACTCCTT
131 CCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCC
* * * * *
57113381 TGTTACCTCGAGAAGATAAGATTTGCTGTCTTTGATCTACTCCACTGTTATCTCAAGGAGATAAT
1 TGCTACCTCGAGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTGTTATCTCAAGGAGATAAA
* * ** * *
57113446 ATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAACAAGGTAAGACT-CAATCTTTAGCCTGCT
66 ATCTACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
* * *
57113510 CCTTTGCTACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTTCTCCCC
131 CCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCC
* * * * * * * *
57113558 TGTTACCTCGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTGCTATCTCAGGGAGATTAG
1 TGCTACCTCGAGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTGTTATCTCAAGGAGATAAA
* * * * *
57113623 ATCTACAATCTTCAATGTGCTTCCTTGCTACCTCGGGAAGATAAGA-TTCAATCTTCAGCCTTCT
66 ATCTACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
* *
57113687 CCCTTGCTATCTCAGGGAGATAAAGCTAGTGGCTAAAATCTGCTCCCC
131 CCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCC
** * * *
57113735 TGCTACCTCGAGAAGATAAGATTCGCTATCTTCGATCTACTCCACTGCTATTTCAAGGAGACAAA
1 TGCTACCTCGAGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTGTTATCTCAAGGAGATAAA
57113800 ATCTACA
66 ATCTACA
57113807 CTCACCGATG
Statistics
Matches: 684, Mismatches: 94, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
176 1 0.00
177 434 0.63
178 248 0.36
179 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (178 bp):
TGCTACCTCGAGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTGTTATCTCAAGGAGATAAA
ATCTACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
CCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCC
Found at i:57113567 original size:355 final size:355
Alignment explanation
Indices: 57112848--57113806 Score: 1350
Period size: 355 Copynumber: 2.7 Consensus size: 355
57112838 CCTATTCAAT
*** * *
57112848 TGCTACCTCGGGAAGATAAGATTTGTTGTCTTTGATCTGCTCCACTGTTATCTCAAGGAGATAAG
1 TGCTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTGTTATCTCAGGGAGATAAG
*
57112913 AT-TGACAATCTTCAATCTGCTTCCTTGCTACCAAAGGAAGATAAGACTACAATCTTCAGCCTGC
66 ATCT-ACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGC
* * *
57112977 TCTCTTGTTACCTCAGGGAGATAAGGCTAGTGGCTAAAATTTGCTCCCCTGCTACCTCGAGAAGA
130 TCCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGA
* * * * * * *
57113042 TAAGATTCACCGT-TTTCAATCTACTCCACTATTATCTTAGGGAGATAAAAACTACAATCTTCAG
195 TAAGATTCGCTGTCTTT-GATCTACTCCACTGTTATCTCAAGGAGATAAAATCTACAATCTTCAG
**
57113106 TCTGCTTCCTTACTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAG
259 TCTGCTTCCTTACTACCACAACAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAG
57113171 AGAGATAAGGCTAGTGGCTAAAATCTGCTCCC
324 AGAGATAAGGCTAGTGGCTAAAATCTGCTCCC
* * * *
57113203 TGCTACCTCGGGAAGATAAAATTTGCCCTCTTCGATCTGCTCCACTATTATCTCAGGGAGATAAA
1 TGCTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTGTTATCTCAGGGAGATAAG
* *
57113268 ATCTACAATCTTCAATCTTCTTCCTTGCTTCCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
66 ATCTACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
* * ** *
57113333 CCCTTGCTACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTACTCCTTTGTTACCTCGAGAAGAT
131 CCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGAT
* *
57113398 AAGATTTGCTGTCTTTGATCTACTCCACTGTTATCTCAAGGAGATAATATCTACAATCTTCAGTC
196 AAGATTCGCTGTCTTTGATCTACTCCACTGTTATCTCAAGGAGATAAAATCTACAATCTTCAGTC
* * * * * * *
57113463 TGCTTCCTTGCTACCTCAACAAGGTAAGACT-CAATCTTTAGCCTGCTCCTTTGCTACCTTAGGG
261 TGCTTCCTTACTACCACAACAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGAG
*
57113527 AGATAAGGCTAGTGGCTAAAATCTTCTCCCC
326 AGATAAGGCTAGTGGCTAAAATCTGCT-CCC
* ** * * *
57113558 TGTTACCTCGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTGCTATCTCAGGGAGATTAG
1 TGCTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTGTTATCTCAGGGAGATAAG
* * * * *
57113623 ATCTACAATCTTCAATGTGCTTCCTTGCTACCTCGGGAAGATAAGA-TTCAATCTTCAGCCTTCT
66 ATCTACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
* *
57113687 CCCTTGCTATCTCAGGGAGATAAAGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGAT
131 CCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGAT
* * * * *
57113752 AAGATTCGCTATCTTCGATCTACTCCACTGCTATTTCAAGGAGACAAAATCTACA
196 AAGATTCGCTGTCTTTGATCTACTCCACTGTTATCTCAAGGAGATAAAATCTACA
57113807 CTCACCGATG
Statistics
Matches: 532, Mismatches: 69, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
354 177 0.33
355 351 0.66
356 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (355 bp):
TGCTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTGTTATCTCAGGGAGATAAG
ATCTACAATCTTCAATCTGCTTCCTTGCTACCACAGGAAGATAAGACTACAATCTTCAGCCTGCT
CCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGAT
AAGATTCGCTGTCTTTGATCTACTCCACTGTTATCTCAAGGAGATAAAATCTACAATCTTCAGTC
TGCTTCCTTACTACCACAACAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGAG
AGATAAGGCTAGTGGCTAAAATCTGCTCCC
Found at i:57121612 original size:12 final size:12
Alignment explanation
Indices: 57121591--57121637 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
57121581 CTTAACTAGT
57121591 TGCTCTTGCATC
1 TGCTCTTGCATC
*
57121603 TG-TGCTTGCATT
1 TGCT-CTTGCATC
57121615 TGCTCTTGCATC
1 TGCTCTTGCATC
* *
57121627 TCCTTTTGCAT
1 TGCTCTTGCAT
57121638 TTGTTCCAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 1 0.03
12 27 0.93
13 1 0.03
ACGTcount: A:0.09, C:0.28, G:0.17, T:0.47
Consensus pattern (12 bp):
TGCTCTTGCATC
Found at i:57126809 original size:39 final size:39
Alignment explanation
Indices: 57126725--57126877 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
57126715 TATGGTAACC
** * *
57126725 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
57126765 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57126804 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57126843 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
57126878 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:57126843 original size:78 final size:79
Alignment explanation
Indices: 57126695--57126876 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
57126685 TCGTTCAAAC
* **
57126695 GCCTTCGGGACATAGCCCGG-TATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
57126759 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
57126774 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
57126838 CAATTTGCACAATT
66 CAATTTGCACAATT
57126852 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
57126877 CTCGAACATT
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
78 63 0.66
79 32 0.34
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:57134836 original size:39 final size:39
Alignment explanation
Indices: 57134752--57134904 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
57134742 TATGGTAACC
** * *
57134752 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
57134792 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57134831 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57134870 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
57134905 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:57134877 original size:78 final size:79
Alignment explanation
Indices: 57134721--57134903 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
57134711 TCGTTCAAAC
* * **
57134721 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
57134786 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
57134801 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
57134865 CAATTTGCACAATT
66 CAATTTGCACAATT
57134879 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
57134904 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:57136906 original size:16 final size:15
Alignment explanation
Indices: 57136867--57136906 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
57136857 GAAATAAATT
57136867 ATAAAATAAATAAAA
1 ATAAAATAAATAAAA
*
57136882 ATAAGAATAAATAATAC
1 ATAA-AATAAATAA-AA
57136899 ATAAAATA
1 ATAAAATA
57136907 TGAAGTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (15 bp):
ATAAAATAAATAAAA
Found at i:57139250 original size:15 final size:16
Alignment explanation
Indices: 57139230--57139259 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57139220 TGGTGCCTTG
57139230 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
57139245 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
57139260 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:57144486 original size:40 final size:39
Alignment explanation
Indices: 57144355--57144497 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 39
57144345 TACTCGAATG
*
57144355 ATATCCGGGCTAAGTCCGAAGGCTTTTGTGCTAAGAGACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCT-AGAGACT
* * *
57144395 ACATCCGGACTAAGATCCGAAGGCATTTGTG-TAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGAGACT
* * *
57144434 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGAGACT
*
57144474 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
57144498 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.36
40 41 0.46
41 15 0.17
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGAGACT
Found at i:57144520 original size:79 final size:80
Alignment explanation
Indices: 57144355--57144503 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 80
57144345 TACTCGAATG
* * * *
57144355 ATATCCGGGCTAAGT-CCGAAGGCTTTTGTGCTAAGAGACTACATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGAGACCACATCCGGACTAAGACCCGAAGGC
* *
57144419 ATTTGTGTAGCGACT
66 ACTTGTGGAGCGACT
* * *
57144434 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACCATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGAGACCACATCCGGACTAAGACCCGAAGGC
57144498 -CTTGTG
66 ACTTGTG
57144504 CGAGTGGTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 5 0.08
79 41 0.67
80 15 0.25
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGAGACCACATCCGGACTAAGACCCGAAGGC
ACTTGTGGAGCGACT
Found at i:57152478 original size:40 final size:40
Alignment explanation
Indices: 57152384--57152528 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
57152374 TACTCGAATG
*
57152384 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57152425 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57152465 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
57152505 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57152529 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57157881 original size:43 final size:42
Alignment explanation
Indices: 57157768--57157882 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 42
57157758 TATGTGCTTT
* * *
57157768 CATGTAAGACTACGTCTGGGACGTTGGCATCGTATTTGATTT
1 CATGTAAGACCACGTCTGAGACGTTGGCATCGTATTTGATTA
* *
57157810 CGTGTAAGACC-CTGTCT-AGGATAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGA-GA-CGTTGGCATCG-TATTTGATTA
57157853 CATGTAAGACCACGTCTGAGACGTTGGCAT
1 CATGTAAGACCACGTCTGAGACGTTGGCAT
57157883 TGTACGAACT
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 32 0.54
44 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGAGACGTTGGCATCGTATTTGATTA
Found at i:57163641 original size:17 final size:18
Alignment explanation
Indices: 57163619--57163653 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
57163609 AACTTTTGTA
57163619 CTTTTTAC-AATTTAGTC
1 CTTTTTACAAATTTAGTC
57163636 CTTTTTACTAAATTTAGT
1 CTTTTTAC-AAATTTAGT
57163654 GCCCAAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTTTTACAAATTTAGTC
Found at i:57165110 original size:27 final size:27
Alignment explanation
Indices: 57165080--57165174 Score: 138
Period size: 27 Copynumber: 3.6 Consensus size: 27
57165070 GTAAGCTAGT
57165080 ATTACTGAAATACCCCTATAGGATAGA
1 ATTACTGAAATACCCCTATAGGATAGA
*
57165107 ATTACTGAAATGCCCCTATAGGATAGA
1 ATTACTGAAATACCCCTATAGGATAGA
* * *
57165134 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTATAGGATAGA
*
57165161 ATTACT-TAATACCC
1 ATTACTGAAATACCC
57165175 TTGGTTTCGA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
26 6 0.10
27 57 0.90
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (27 bp):
ATTACTGAAATACCCCTATAGGATAGA
Found at i:57165346 original size:81 final size:80
Alignment explanation
Indices: 57165261--57165472 Score: 210
Period size: 81 Copynumber: 2.6 Consensus size: 80
57165251 TACCCCTGGT
* * * * *
57165261 TTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATCGAAATATCCTTAACCTGTAAAATTA
1 TTGTAAAATTA-CAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAACCTGTAAAATTA
* *
57165326 TCGAAATACCCTCAAC
65 CCGAAATACCATCAAC
* * **
57165342 TTGTAAAATTATCGAAATA-CCCTCAATTTTTAAAATTACCAAAATACCCCTAATTTGTAAAATT
1 TTGTAAAATTA-CAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAACCTGTAAAATT
** *
57165406 ACCGAAATACCATTGAT
64 ACCGAAATACCATCAAC
* * * *
57165423 TTGAAAAATTACAGAAATACCCCTGATTTTATAAAATTACAAAAATACCC
1 TTGTAAAATTACA-AAATACCCCT-AATTTGTAAAATTACCAAAATACCC
57165473 TTGACTTTTA
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
80 5 0.05
81 76 0.71
82 26 0.24
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (80 bp):
TTGTAAAATTACAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAACCTGTAAAATTAC
CGAAATACCATCAAC
Found at i:57165513 original size:28 final size:28
Alignment explanation
Indices: 57165168--57165537 Score: 174
Period size: 27 Copynumber: 13.6 Consensus size: 28
57165158 AGAATTACTT
*
57165168 AATACCCTTGGTTTCG--AAAATTACTA-A
1 AATACCCTTGATTT-GTAAAAATTAC-AGA
* * *
57165195 AATACCCTCGATTAG-CAAAATTACCA-A
1 AATACCCTTGATTTGTAAAAATTA-CAGA
* * *
57165222 AATACCCATGGTTTGT-AATATTATCA-A
1 AATACCCTTGATTTGTAAAAATTA-CAGA
* *
57165249 AATACCCCTGGTTTGT-AAAATTACCA-A
1 AATACCCTTGATTTGTAAAAATTA-CAGA
* * *
57165276 AATACCCCTAATTTGT-GAAATTATC-GA
1 AATACCCTTGATTTGTAAAAATTA-CAGA
* * **
57165303 AATATCCTTAACCTGT-AAAATTATC-GA
1 AATACCCTTGATTTGTAAAAATTA-CAGA
** *
57165330 AATACCCTCAACTTGT-AAAATTATC-GA
1 AATACCCTTGATTTGTAAAAATTA-CAGA
** *
57165357 AATACCCTCAATTT-TTAAAATTACCA-A
1 AATACCCTTGATTTGTAAAAATTA-CAGA
* * *
57165384 AATACCCCTAATTTGT-AAAATTACCGA
1 AATACCCTTGATTTGTAAAAATTACAGA
*
57165411 AATACCATTGATTTG-AAAAATTACAGA
1 AATACCCTTGATTTGTAAAAATTACAGA
* *
57165438 AATACCCCTGATTT-TATAAAATTACAAA
1 AATACCCTTGATTTGTA-AAAATTACAGA
*
57165466 AATACCCTTGACTTT-TAAAAATTATAGA
1 AATACCCTTGA-TTTGTAAAAATTACAGA
* * *
57165494 AATACCATTGGTTTG-CAAAATTATC-GA
1 AATACCCTTGATTTGTAAAAATTA-CAGA
*
57165521 AATACCCTTGGTTTGTA
1 AATACCCTTGATTTGTA
57165538 GATTTACCAA
Statistics
Matches: 283, Mismatches: 45, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.01
27 235 0.83
28 40 0.14
29 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (28 bp):
AATACCCTTGATTTGTAAAAATTACAGA
Found at i:57165514 original size:55 final size:54
Alignment explanation
Indices: 57165184--57165535 Score: 193
Period size: 54 Copynumber: 6.5 Consensus size: 54
57165174 CTTGGTTTCG
* * * *
57165184 AAAATTACTAAAATACCCTCGATTAGCAAAATTACCA-AAATACC-CATG-GTTTGT
1 AAAATTAC-GAAATACCCTTGATTTGAAAAATTA-CAGAAATACCAC-TGAGTTTGT
* * * * * * *
57165238 AATATTATCAAAATACCCCTGGTTTGTAAAATTACCA-AAATACCCCT-AATTTGT
1 AAAATTA-CGAAATACCCTTGATTTGAAAAATTA-CAGAAATACCACTGAGTTTGT
* * * ** * * **
57165292 GAAATTATCGAAATATCCTTAACCTGTAAAATTATC-GAAATACC-CTCAACTTGT
1 AAAATTA-CGAAATACCCTTGATTTGAAAAATTA-CAGAAATACCACTGAGTTTGT
** ** * *
57165346 AAAATTATCGAAATACCCTCAATTTTTAAAATTACCA-AAATACCCCT-AATTTGT
1 AAAATTA-CGAAATACCCTTGATTTGAAAAATTA-CAGAAATACCACTGAGTTTGT
* * * *
57165400 AAAATTACCGAAATACCATTGATTTGAAAAATTACAGAAATACCCCTGATTTTAT
1 AAAATTA-CGAAATACCCTTGATTTGAAAAATTACAGAAATACCACTGAGTTTGT
* * * * *
57165455 AAAATTACAAAAATACCCTTGACTTTTAAAAATTATAGAAATACCATTG-GTTTGC
1 AAAATTAC-GAAATACCCTTGA-TTTGAAAAATTACAGAAATACCACTGAGTTTGT
*
57165510 AAAATTATCGAAATACCCTTGGTTTG
1 AAAATTA-CGAAATACCCTTGATTTG
57165536 TAGATTTACC
Statistics
Matches: 240, Mismatches: 46, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
53 4 0.02
54 165 0.69
55 48 0.20
56 23 0.10
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
AAAATTACGAAATACCCTTGATTTGAAAAATTACAGAAATACCACTGAGTTTGT
Found at i:57165840 original size:41 final size:41
Alignment explanation
Indices: 57165795--57165915 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
57165785 GGATGAAGAA
* * *
57165795 ATTGAGGATTGCATGGTTGCTTGATAACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTACTTGATGACCGTGGATCCACCG
* * *
57165836 ATTGAGGATCGCATGCTTACTTGATGACTGTGGATCCATCG
1 ATTGAGGATCGCATGGTTACTTGATGACCGTGGATCCACCG
* *
57165877 ATTAAGGATCCCATGGTTACTTGATGACCGTGGATCCAC
1 ATTGAGGATCGCATGGTTACTTGATGACCGTGGATCCAC
57165916 TGGTGGCTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTACTTGATGACCGTGGATCCACCG
Found at i:57166092 original size:22 final size:22
Alignment explanation
Indices: 57166062--57166123 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
57166052 AATTATTCTT
* *
57166062 ATTATGGCTTTGCGCCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
*
57166084 CA-TATGGCTCTGTACCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
57166106 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
57166124 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:57166344 original size:22 final size:22
Alignment explanation
Indices: 57166319--57166368 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
57166309 TGGCAGTGTC
*
57166319 GCTATGATATTTACGGCTATCT
1 GCTATCATATTTACGGCTATCT
* *
57166341 GCTATCCTGTTTACGGCTATCT
1 GCTATCATATTTACGGCTATCT
57166363 GCTATC
1 GCTATC
57166369 CTGTTTATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (22 bp):
GCTATCATATTTACGGCTATCT
Found at i:57166369 original size:22 final size:22
Alignment explanation
Indices: 57166328--57166380 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
57166318 CGCTATGATA
57166328 TTTACGGCTATCTGCTATCCTG
1 TTTACGGCTATCTGCTATCCTG
57166350 TTTACGGCTATCTGCTATCCTG
1 TTTACGGCTATCTGCTATCCTG
*
57166372 TTTATGGCT
1 TTTACGGCT
57166381 TTGAGCTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.43
Consensus pattern (22 bp):
TTTACGGCTATCTGCTATCCTG
Found at i:57168183 original size:26 final size:26
Alignment explanation
Indices: 57168136--57168354 Score: 165
Period size: 27 Copynumber: 8.2 Consensus size: 26
57168126 CTCAGTTGTA
* *
57168136 AAATACCCCTAAGTTGTGAAATTATCG
1 AAATACCCC-AATTTGTAAAATTATCG
* * * *
57168163 AATTACCCCGACTTGTAAAATTACCG
1 AAATACCCCAATTTGTAAAATTATCG
* *
57168189 AAATACCTCCAGTTTGTAAAAATTATTG
1 AAATACC-CCAATTTGT-AAAATTATCG
* *
57168217 AAATACCCTAATTTGTAAAATTATCA
1 AAATACCCCAATTTGTAAAATTATCG
57168243 AAATACCCTCAATTTGTAAAATTA-CTG
1 AAATACCC-CAATTTGTAAAATTATC-G
* *
57168270 AAATATCCCCGA-TTGTAAAATTATTG
1 AAATA-CCCCAATTTGTAAAATTATCG
** *
57168296 AAATACCCTTGATTTGTGAAATTA-CTG
1 AAATACCC-CAATTTGTAAAATTATC-G
* * * *
57168323 AAATACCCTTAATTTGTGAAACTACCG
1 AAATACCC-CAATTTGTAAAATTATCG
57168350 AAATA
1 AAATA
57168355 ACCCTGTGGG
Statistics
Matches: 158, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.02
26 55 0.35
27 81 0.51
28 19 0.12
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (26 bp):
AAATACCCCAATTTGTAAAATTATCG
Found at i:57168224 original size:54 final size:52
Alignment explanation
Indices: 57168136--57168330 Score: 187
Period size: 53 Copynumber: 3.7 Consensus size: 52
57168126 CTCAGTTGTA
* * * * *
57168136 AAATACCC-CTAAGTTGTGAAATTATCGAATTACCCCGACTTGTAAAATTACCG
1 AAATACCCTC-AATTTGTAAAATTATTGAAATACCCCGA-TTGTAAAATTATCG
* ** *
57168189 AAATA-CCTCCAGTTTGTAAAAATTATTGAAATACCCTAATTTGTAAAATTATCA
1 AAATACCCT-CAATTTGT-AAAATTATTGAAATACCCCGA-TTGTAAAATTATCG
* *
57168243 AAATACCCTCAATTTGTAAAATTACTGAAATATCCCCGATTGTAAAATTATTG
1 AAATACCCTCAATTTGTAAAATTATTGAAATA-CCCCGATTGTAAAATTATCG
** * *
57168296 AAATACCCTTGATTTGTGAAATTACTGAAATACCC
1 AAATACCCTCAATTTGTAAAATTATTGAAATACCC
57168331 TTAATTTGTG
Statistics
Matches: 118, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 5 0.04
53 65 0.55
54 45 0.38
55 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (52 bp):
AAATACCCTCAATTTGTAAAATTATTGAAATACCCCGATTGTAAAATTATCG
Found at i:57168231 original size:27 final size:26
Alignment explanation
Indices: 57168175--57168359 Score: 167
Period size: 27 Copynumber: 6.9 Consensus size: 26
57168165 TTACCCCGAC
* * *
57168175 TTGTAAAATTACCGAAATACCTCCAGT
1 TTGTAAAATTACTGAAATACC-CTAAT
*
57168202 TTGTAAAAATTATTGAAATACCCTAAT
1 TTGT-AAAATTACTGAAATACCCTAAT
*
57168229 TTGTAAAATTA-TCAAAATACCCTCAAT
1 TTGTAAAATTACT-GAAATACCCT-AAT
**
57168256 TTGTAAAATTACTGAAATATCCCCGA-
1 TTGTAAAATTACTGAAATA-CCCTAAT
* *
57168282 TTGTAAAATTATTGAAATACCCTTGAT
1 TTGTAAAATTACTGAAATACCC-TAAT
*
57168309 TTGTGAAATTACTGAAATACCCTTAAT
1 TTGTAAAATTACTGAAATACCC-TAAT
* * *
57168336 TTGTGAAACTACCGAAATAACCCT
1 TTGTAAAATTACTGAAAT-ACCCT
57168360 GTGGGGTAGG
Statistics
Matches: 135, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
25 4 0.03
26 36 0.27
27 72 0.53
28 23 0.17
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (26 bp):
TTGTAAAATTACTGAAATACCCTAAT
Found at i:57168288 original size:80 final size:80
Alignment explanation
Indices: 57168136--57168354 Score: 257
Period size: 80 Copynumber: 2.7 Consensus size: 80
57168126 CTCAGTTGTA
* * * *
57168136 AAATACCCCTAAGTTGTGAAATTATCGAATTACCC-CGACTTGTAAAATTACCGAAATACCTCCA
1 AAATA-CCCTAATTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCTCCA
*
57168200 GTTTGTAAAAATTATTG
65 GATTGT-AAAATTATTG
* * *
57168217 AAATACCCTAATTTGTAAAATTATCAAAATACCCTCAATTTGTAAAATTACTGAAATATCC-CC-
1 AAATACCCTAATTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATA-CCTCCA
57168280 GATTGTAAAATTATTG
65 GATTGTAAAATTATTG
* * * *
57168296 AAATACCCTTGATTTGTGAAATTA-CTGAAATACCCTTAATTTGTGAAACTACCGAAATA
1 AAATACCC-TAATTTGTGAAATTATC-GAAATACCCTCAATTTGTAAAATTACCGAAATA
57168355 ACCCTGTGGG
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
79 19 0.16
80 71 0.60
81 27 0.23
82 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (80 bp):
AAATACCCTAATTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCTCCAG
ATTGTAAAATTATTG
Found at i:57168443 original size:27 final size:27
Alignment explanation
Indices: 57168348--57168437 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
57168338 GTGAAACTAC
* **
57168348 CGAAATAACCCTGTGGGGTAGGATTAT
1 CGAAATACCCCTGTAAGGTAGGATTAT
*
57168375 CGAAATACCCCTGTAAGATAGGATTAT
1 CGAAATACCCCTGTAAGGTAGGATTAT
* *
57168402 CAAAATACCCCTGTAAGGTAGGATTAC
1 CGAAATACCCCTGTAAGGTAGGATTAT
57168429 CGAAATACC
1 CGAAATACC
57168438 TTTGTAGGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAAGGTAGGATTAT
Found at i:57168466 original size:27 final size:26
Alignment explanation
Indices: 57168442--57168508 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
57168432 AATACCTTTG
57168442 TAGGGTAAAATGACTGTTTTGCCTTA
1 TAGGGTAAAATGACTGTTTTGCCTTA
* * **
57168468 AAGAGTAAAATGACCATTTTGCCCTTA
1 TAGGGTAAAATGACTGTTTTG-CCTTA
57168495 T-GGGT-AAATGACTG
1 TAGGGTAAAATGACTG
57168509 ACTTGGGCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
25 7 0.22
26 20 0.62
27 5 0.16
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (26 bp):
TAGGGTAAAATGACTGTTTTGCCTTA
Found at i:57177983 original size:40 final size:39
Alignment explanation
Indices: 57177938--57178145 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
57177928 CGGATTACAA
*
57177938 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
57177978 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
57178018 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
57178058 CCGGATGTAGTCACTAGCACAATTGCCTTCAGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
57178098 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
57178138 CCGGATAT
1 CCGGATAT
57178146 CATTCAATTG
Statistics
Matches: 143, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 142 0.99
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:57178078 original size:80 final size:80
Alignment explanation
Indices: 57177938--57178145 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
57177928 CGGATTACAA
* * *
57177938 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
* *
57178003 CCTTCGGGTATTAGC
66 CCTTCAGGTATTAAC
* * * *
57178018 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
57178082 GCCTTCAGGTCTTAAC
65 GCCTTCAGGTATTAAC
** * * * *
57178098 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
57178146 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCAGGTATTAAC
Found at i:57183317 original size:68 final size:70
Alignment explanation
Indices: 57183245--57183442 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
57183235 ACACCCTGTA
* * * *
57183245 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
57183307 ATAAAT
65 ATAAAT
*
57183313 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
57183378 ATAAAT
65 ATAAAT
*
57183384 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
57183443 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:57183356 original size:41 final size:41
Alignment explanation
Indices: 57183311--57183428 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
57183301 TGAAAGATAA
57183311 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
57183352 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57183382 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57183423 ATGTAG
1 ATGTAG
57183429 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:57183368 original size:71 final size:71
Alignment explanation
Indices: 57183279--57183442 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57183269 GAGATGTATC
57183279 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57183344 AGGACA
66 AGGACA
57183350 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57183415 AGGACA
66 AGGACA
57183421 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57183443 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:57190886 original size:68 final size:70
Alignment explanation
Indices: 57190814--57191011 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
57190804 ACACCCTGTA
* * * *
57190814 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
57190876 ATAAAT
65 ATAAAT
*
57190882 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
57190947 ATAAAT
65 ATAAAT
*
57190953 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
57191012 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:57190925 original size:41 final size:41
Alignment explanation
Indices: 57190880--57190997 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
57190870 TGAAAGATAA
57190880 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
57190921 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57190951 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57190992 ATGTAG
1 ATGTAG
57190998 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:57190937 original size:71 final size:71
Alignment explanation
Indices: 57190848--57191011 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57190838 GAGATGTATC
57190848 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57190913 AGGACA
66 AGGACA
57190919 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57190984 AGGACA
66 AGGACA
57190990 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57191012 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:57192835 original size:40 final size:41
Alignment explanation
Indices: 57192741--57192885 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 41
57192731 TACTCGAATG
* *
57192741 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTTAGCGACT
* *
57192782 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTTA-CGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTTAGCGACT
* * *
57192822 ATATCCGGGCTAAGTCCCGAAGGCATTTATGC-TAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTTAGCGACT
*
57192862 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57192886 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 29 0.32
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTTAGCGACT
Found at i:57200855 original size:40 final size:40
Alignment explanation
Indices: 57200761--57200905 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57200751 TACTCGAATG
*
57200761 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGAGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGAGACT
* * *
57200802 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGAGACT
* * *
57200842 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGACT
*
57200882 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57200906 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGACT
Found at i:57203834 original size:45 final size:45
Alignment explanation
Indices: 57203770--57203945 Score: 257
Period size: 45 Copynumber: 3.9 Consensus size: 45
57203760 ATCATACGAA
*
57203770 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAC
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
*
57203815 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* * * *
57203860 ACTATTCGGGCCTTTGAGCCTAGCA-GCTACAATTCCAGTAAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
57203904 ACTATTTGGG-CTTTCGAGCCTAGCAGGCTATAATGCCTGTGA
1 ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
57203946 AAGGATATCG
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 4 0.03
44 34 0.29
45 80 0.68
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (45 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:57207033 original size:42 final size:41
Alignment explanation
Indices: 57206925--57207083 Score: 115
Period size: 43 Copynumber: 3.8 Consensus size: 41
57206915 AACAAGTACA
* * * * *
57206925 ATGCCGACGTCCCGGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACG-AAATCAATA-CG
** *
57206968 ATGCCTCTGTCCCA-AGCAGGGTCTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGA-CATGGTCTTACACGAAATCA-ATACG
* *
57207010 ATGCCGATGTCCCAGACATGGTCTTATACATAAATCTCAAT-CG
1 ATGCCGATGTCCCAGACATGGTCTTACAC-GAAA--TCAATACG
* * * *
57207053 AGGACTATGTCCCAGACACGGTCTTACACGA
1 ATGCCGATGTCCCAGACATGGTCTTACACGA
57207084 TGTCTTAGAC
Statistics
Matches: 91, Mismatches: 19, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 32 0.35
43 54 0.59
44 2 0.02
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (41 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAATACG
Found at i:57213942 original size:16 final size:16
Alignment explanation
Indices: 57213921--57213955 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
57213911 TTCAAGATAA
57213921 TTAATTTTAATAAATT
1 TTAATTTTAATAAATT
57213937 TTAATTTTAATAAATT
1 TTAATTTTAATAAATT
57213953 TTA
1 TTA
57213956 CTCTTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAATTTTAATAAATT
Found at i:57218675 original size:45 final size:45
Alignment explanation
Indices: 57218607--57218692 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
57218597 ATGTAATCTG
*
57218607 AACTCATTGAGTTGTGGTCTGAGTTCATGATATTTGTGACATCCA
1 AACTCATTGAGTTGTGGTCTGAGTTCATGAAATTTGTGACATCCA
* *
57218652 AACTCATTGAGTTGTGGTTTGAGTTCGTGAAATTTGTGACA
1 AACTCATTGAGTTGTGGTCTGAGTTCATGAAATTTGTGACA
57218693 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (45 bp):
AACTCATTGAGTTGTGGTCTGAGTTCATGAAATTTGTGACATCCA
Found at i:57220667 original size:28 final size:28
Alignment explanation
Indices: 57220635--57220699 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
57220625 ATATTTTGCG
57220635 CACTAAGTGTCATTCTCAATATCTCGCA
1 CACTAAGTGTCATTCTCAATATCTCGCA
*
57220663 CACTAAGTGTCATTCTCAATATTTCGCA
1 CACTAAGTGTCATTCTCAATATCTCGCA
57220691 CACTAAGTG
1 CACTAAGTG
57220700 CCATATTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTCATTCTCAATATCTCGCA
Found at i:57221997 original size:24 final size:24
Alignment explanation
Indices: 57221969--57222019 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
57221959 TTACCCAAGT
57221969 ATGAATTTTGGGTCATTTTGAGTA
1 ATGAATTTTGGGTCATTTTGAGTA
*
57221993 ATGAATTTTGGGTCGTTTTGAGTA
1 ATGAATTTTGGGTCATTTTGAGTA
57222017 ATG
1 ATG
57222020 CATGTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.27, T:0.45
Consensus pattern (24 bp):
ATGAATTTTGGGTCATTTTGAGTA
Found at i:57223495 original size:37 final size:37
Alignment explanation
Indices: 57223439--57223581 Score: 250
Period size: 37 Copynumber: 3.9 Consensus size: 37
57223429 TCAGACGAAG
* *
57223439 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
57223476 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
57223513 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
57223550 TCTCCACACGTAGTAATCGGGTCTTACCCGGA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
57223582 ATATATTTCC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
Found at i:57223852 original size:48 final size:48
Alignment explanation
Indices: 57223731--57224057 Score: 504
Period size: 48 Copynumber: 6.9 Consensus size: 48
57223721 ATCGCCTACA
* *
57223731 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATT
* * * *
57223781 TCACATT-GACCATTCAGCTTTACCACATATGCATATCTCATACACATC
1 TCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATT
57223829 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
*
57223877 TCACATTAGCCATTCGGCTTTACCACATATACATACCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
57223925 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* *
57223973 T--C---AGCCATTCGGATTTACCACATATACATATCTCCTACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
57224016 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
57224058 TTCACCACAT
Statistics
Matches: 254, Mismatches: 16, Indels: 16
0.89 0.06 0.06
Matches are distributed among these distances:
43 40 0.16
45 1 0.00
46 1 0.00
48 176 0.69
49 2 0.01
50 34 0.13
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
Found at i:57224021 original size:139 final size:141
Alignment explanation
Indices: 57223731--57224057 Score: 498
Period size: 139 Copynumber: 2.3 Consensus size: 141
57223721 ATCGCCTACA
* *
57223731 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTC
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTGACCATTC
* * *
57223796 AGCTTTACCACATATGCATATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATAC
64 AGCTTTACCACATATACATATCTCATACACATCT---ATCAGCCATTCGGATTTACCACATATAC
57223861 ATATCTCATACATATT
126 ATATCTCATACATATT
* *
57223877 TCACATTAGCCATTCGGCTTTACCACATATACATACCTCATACATATTTCACATT-AGCCATTCG
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTGA-CCATTCA
*
57223941 GCTTTACCACATATACATATCTCATACATAT-T-TCAGCCATTCGGATTTACCACATATACATAT
65 GCTTTACCACATATACATATCTCATACACATCTATCAGCCATTCGGATTTACCACATATACATAT
*
57224004 CTCCTACATATT
130 CTCATACATATT
57224016 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
57224058 TTCACCACAT
Statistics
Matches: 170, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
139 81 0.48
143 2 0.01
144 50 0.29
146 37 0.22
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (141 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTGACCATTCAG
CTTTACCACATATACATATCTCATACACATCTATCAGCCATTCGGATTTACCACATATACATATC
TCATACATATT
Found at i:57224114 original size:47 final size:47
Alignment explanation
Indices: 57224016--57224255 Score: 340
Period size: 47 Copynumber: 5.1 Consensus size: 47
57224006 CCTACATATT
* * * * *
57224016 TCACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TCACATTCA
* * *
57224062 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
57224109 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
57224156 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
57224203 TCACATTGGCCATTCAGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
57224250 TCACAT
1 TCACAT
57224256 AAAATCCTAA
Statistics
Matches: 176, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
46 26 0.15
47 147 0.84
48 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:57224135 original size:22 final size:22
Alignment explanation
Indices: 57224108--57224183 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
57224098 GCTCACATTC
57224108 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
57224130 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
57224154 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57224177 ATCACAT
1 ATCACAT
57224184 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.41
23 7 0.17
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57224256 original size:25 final size:25
Alignment explanation
Indices: 57224130--57224256 Score: 81
Period size: 25 Copynumber: 5.3 Consensus size: 25
57224120 ATTCGGCCTT
**
57224130 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
57224155 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
**
57224177 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
57224202 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATGCACATTCA-CATTC
* *
57224224 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
57224249 ATCACATA
1 ATCACATA
57224257 AAATCCTAAA
Statistics
Matches: 73, Mismatches: 19, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
22 20 0.27
23 12 0.16
24 11 0.15
25 30 0.41
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:57227268 original size:40 final size:40
Alignment explanation
Indices: 57227236--57227454 Score: 366
Period size: 40 Copynumber: 5.5 Consensus size: 40
57227226 CCAGCATGAT
* * * *
57227236 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
57227276 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
57227316 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
57227356 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
57227396 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
57227436 TGCTCTTCAGGACTTAGCC
1 TGCTCTTCGGGACTTAGCC
57227455 TGTAACACCC
Statistics
Matches: 169, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:57228883 original size:29 final size:29
Alignment explanation
Indices: 57228851--57229009 Score: 198
Period size: 29 Copynumber: 5.5 Consensus size: 29
57228841 ATAATGAATC
57228851 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
57228880 CGCACACTTAGTGCTATATAATTTGCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
57228910 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * *
57228939 CGCACACTTAGTGCTGTATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * *
57228967 CGCACACTTAGTGCTGTACAATTTTAAAC-
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
57228996 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57229010 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.18
29 62 0.53
30 31 0.26
31 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:57228977 original size:57 final size:58
Alignment explanation
Indices: 57228851--57229009 Score: 216
Period size: 59 Copynumber: 2.7 Consensus size: 58
57228841 ATAATGAATC
*
57228851 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTGCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTGCAACT
*
57228910 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAA-T-CAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTGC-AACT
* * * *
57228967 CGCACACTTAGTGCTGTACAATTTTAAAC-CGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
57229010 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
56 1 0.01
57 35 0.38
58 7 0.08
59 49 0.53
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (58 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTGCAACT
Done.