Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 204 of 770
Found at i:61002037 original size:29 final size:29
Alignment explanation
Indices: 61002004--61002068 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
61001994 GTGACGAGAT
61002004 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
61002033 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
61002062 CGGCACT
1 TGGCACT
61002069 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:61005578 original size:40 final size:40
Alignment explanation
Indices: 61005514--61005704 Score: 181
Period size: 39 Copynumber: 4.8 Consensus size: 40
61005504 GCTACTCGTT
* * * * ***
61005514 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTTGGGACTTAGCCCGGATATCACAACCCGCA
* *
61005554 CAAATGCCTTTGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTTGGGACTTAGCCCGGATATCACAACCCGCA
* * * **
61005594 CAATTGCCTTTGGG-CTTAGCCCGGATATCATAGCTTGCA
1 CAAATGCCTTTGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
61005633 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTTGGGACTTAGCCCGGATATCACAACCCGCA
* *
61005672 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTTGGGACTTAGCCCGGATATCACAA
61005705 TTCGCACATT
Statistics
Matches: 131, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 87 0.66
40 44 0.34
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTTGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:61005639 original size:39 final size:39
Alignment explanation
Indices: 61005550--61005712 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
61005540 TATGGTAACC
* * *
61005550 CGCACAAATGCCTTTGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
61005590 CGCACAATTGCCTTTGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
61005629 TGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61005668 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
61005707 CGCACA
1 CGCACA
61005713 TTCATACACA
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 94 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:61015640 original size:2 final size:2
Alignment explanation
Indices: 61015633--61015662 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
61015623 ATATCGCCTC
61015633 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61015663 CTTTTTACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61018148 original size:20 final size:20
Alignment explanation
Indices: 61018123--61018160 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61018113 GTTTATTCGC
*
61018123 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
61018143 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
61018161 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:61019820 original size:28 final size:28
Alignment explanation
Indices: 61019788--61019856 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
61019778 GCGTAGATCA
61019788 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
61019816 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
61019844 CGATA-TACCCCTA
1 CGAAATTACCCCTA
61019857 GGGTTTTAAG
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:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:61040981 original size:27 final size:28
Alignment explanation
Indices: 61040966--61041054 Score: 128
Period size: 27 Copynumber: 3.2 Consensus size: 28
61040956 GTGACAGAAT
61040966 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
* * *
61040993 CACCAGAAATAGACATTTGTGGCAGAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
61041021 CACCAGAT-CAGATATTTGTGGCAGAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
*
61041048 CGCCAGA
1 CACCAGA
61041055 ACGCTTCCTC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 35 0.65
28 19 0.35
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.18
Consensus pattern (28 bp):
CACCAGATACAGATATTTGTGGCAGAGC
Found at i:61041724 original size:16 final size:16
Alignment explanation
Indices: 61041703--61041734 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61041693 TAGAGACTAG
61041703 ATCTAGAACTAGTCGT
1 ATCTAGAACTAGTCGT
*
61041719 ATCTAGATCTAGTCGT
1 ATCTAGAACTAGTCGT
61041735 TCCACTTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (16 bp):
ATCTAGAACTAGTCGT
Found at i:61057331 original size:29 final size:29
Alignment explanation
Indices: 61057288--61057495 Score: 249
Period size: 29 Copynumber: 7.2 Consensus size: 29
61057278 ATATCGATGC
61057288 CCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
61057317 CCATCGAATACGAAATGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
61057346 CCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* ** **
61057375 CCATTGAATATGAAAAGGGACAGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* * ** *
61057404 CCATTGAATATG-AAAGGAATGGTGACAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* * *
61057432 CCGTCGAATATGAAAAGGGATAGTGAT-GA
1 CCATCGAATATGAAAAGGGATGGT-TTCGA
*
61057461 CCATCAAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
61057490 CCATCG
1 CCATCG
61057496 TTAGTACACT
Statistics
Matches: 151, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
28 23 0.15
29 128 0.85
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:61057463 original size:86 final size:87
Alignment explanation
Indices: 61057283--61057480 Score: 229
Period size: 86 Copynumber: 2.3 Consensus size: 87
61057273 ACAACATATC
* ** ** * ** *
61057283 GATGCCCATCGAATATGAAAAGGGATGGTTTCGACCATCGAATACGAAATGGGATGGTTTCGACC
1 GATGACCATCGAATATGAAAAGGGACAGTGACGACCATCGAATACGAAATGGAATGGTGACAACC
*
61057348 ATCGAATATGAAAAGGGATGGT
66 ATCGAATATGAAAAGGGATAGT
* * * *
61057370 -TTCGACCATTGAATATGAAAAGGGACAGTGACGACCATTGAATATGAAA-GGAATGGTGACAAC
1 GAT-GACCATCGAATATGAAAAGGGACAGTGACGACCATCGAATACGAAATGGAATGGTGACAAC
*
61057433 CGTCGAATATGAAAAGGGATAGT
65 CATCGAATATGAAAAGGGATAGT
*
61057456 GATGACCATCAAATATGAAAAGGGA
1 GATGACCATCGAATATGAAAAGGGA
61057481 TGGTTTCGAC
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
86 52 0.57
87 39 0.43
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (87 bp):
GATGACCATCGAATATGAAAAGGGACAGTGACGACCATCGAATACGAAATGGAATGGTGACAACC
ATCGAATATGAAAAGGGATAGT
Found at i:61064351 original size:15 final size:15
Alignment explanation
Indices: 61064328--61064358 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61064318 TCCAGATACG
*
61064328 CCCTGTTCATGGGCC
1 CCCTATTCATGGGCC
61064343 CCCTATTCATGGGCC
1 CCCTATTCATGGGCC
61064358 C
1 C
61064359 GACATTAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.42, G:0.23, T:0.26
Consensus pattern (15 bp):
CCCTATTCATGGGCC
Found at i:61064786 original size:22 final size:22
Alignment explanation
Indices: 61064758--61064803 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
61064748 TTATCTATAG
61064758 TACTATATCTAAGGCTCAGTAC
1 TACTATATCTAAGGCTCAGTAC
61064780 TACTATATCTAAGGCTCAGTAC
1 TACTATATCTAAGGCTCAGTAC
61064802 TA
1 TA
61064804 TCTACAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (22 bp):
TACTATATCTAAGGCTCAGTAC
Found at i:61067282 original size:8 final size:8
Alignment explanation
Indices: 61067269--61067323 Score: 76
Period size: 8 Copynumber: 6.9 Consensus size: 8
61067259 TTAGTACTTA
61067269 TTTTTTTC
1 TTTTTTTC
61067277 TTTTTTTCC
1 TTTTTTT-C
61067286 TTTTTTTC
1 TTTTTTTC
61067294 TTTTTTTC
1 TTTTTTTC
* *
61067302 -TTCTCTC
1 TTTTTTTC
61067309 TTTTTTTC
1 TTTTTTTC
61067317 TTTTTTT
1 TTTTTTT
61067324 AAAATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
7 5 0.12
8 28 0.68
9 8 0.20
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:61067603 original size:118 final size:118
Alignment explanation
Indices: 61067466--61067678 Score: 399
Period size: 118 Copynumber: 1.8 Consensus size: 118
61067456 TTTTACCCAA
61067466 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
* *
61067531 TCAGTCACGATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
66 TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
61067584 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
*
61067649 TCAGTCACGATCTAAGCTATACTCATAACC
66 TCAGTCACGATCTAAGCCATACTCATAACC
61067679 ATGGAAAACA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 92 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (118 bp):
CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
Found at i:61068649 original size:11 final size:11
Alignment explanation
Indices: 61068633--61068696 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
61068623 ATATTTAACT
*
61068633 AAAATAACATA
1 AAAATAAAATA
61068644 AAAATAAAATA
1 AAAATAAAATA
*
61068655 AAAATAATA-A
1 AAAATAAAATA
*
61068665 AAAATAAAAAA
1 AAAATAAAATA
*
61068676 ATAAAGGAAAATA
1 A-AAA-TAAAATA
61068689 AAAA-AAAA
1 AAAATAAAA
61068697 AAGATTGGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 13 0.29
11 20 0.44
12 6 0.13
13 6 0.13
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:61068653 original size:16 final size:14
Alignment explanation
Indices: 61068632--61068680 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
61068622 AATATTTAAC
61068632 TAAAATAACATAAAAA
1 TAAAATAA-A-AAAAA
*
61068648 TAAAATAAAAATAA
1 TAAAATAAAAAAAA
*
61068662 TAAAAAATAAAAAAA
1 TAAAATA-AAAAAAA
61068677 TAAA
1 TAAA
61068681 GGAAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 10 0.34
15 11 0.38
16 8 0.28
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAAAAA
Found at i:61068674 original size:22 final size:22
Alignment explanation
Indices: 61068633--61068673 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
61068623 ATATTTAACT
61068633 AAAATAACATAAAAATAAAATA
1 AAAATAACATAAAAATAAAATA
*
61068655 AAAATAATA-AAAAATAAAA
1 AAAATAACATAAAAATAAAA
61068674 AAATAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAATAACATAAAAATAAAATA
Found at i:61068677 original size:18 final size:18
Alignment explanation
Indices: 61068654--61068700 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
61068644 AAAATAAAAT
61068654 AAAAATAATA-AAAAATAA
1 AAAAATAA-AGAAAAATAA
*
61068672 AAAAATAAAGGAAAATAA
1 AAAAATAAAGAAAAATAA
*
61068690 AAAAAAAAAGA
1 AAAAATAAAGA
61068701 TTGGGTTGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAATAAAGAAAAATAA
Found at i:61068686 original size:10 final size:8
Alignment explanation
Indices: 61068649--61068698 Score: 59
Period size: 8 Copynumber: 6.1 Consensus size: 8
61068639 ACATAAAAAT
61068649 AAAATAAA
1 AAAATAAA
61068657 AATAAT-AA
1 AA-AATAAA
61068665 AAAATAAA
1 AAAATAAA
61068673 AAAATAAA
1 AAAATAAA
61068681 GGAAAATAAA
1 --AAAATAAA
61068691 AAAA-AAA
1 AAAATAAA
61068698 A
1 A
61068699 GATTGGGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.18
8 20 0.53
9 3 0.08
10 8 0.21
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:61073077 original size:1 final size:1
Alignment explanation
Indices: 61073066--61073113 Score: 60
Period size: 1 Copynumber: 48.0 Consensus size: 1
61073056 TTAGTACTTA
* * * *
61073066 TTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
61073114 AAAATTTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:61073097 original size:19 final size:18
Alignment explanation
Indices: 61073066--61073113 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
61073056 TTAGTACTTA
*
61073066 TTTTTTCTTTTTTTCTTT
1 TTTTTTTTTTTTTTCTTT
61073084 TTTTCTTTTTTTTTTCTTT
1 TTTT-TTTTTTTTTTCTTT
61073103 TTTTTTTTTTT
1 TTTTTTTTTTT
61073114 AAAATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (18 bp):
TTTTTTTTTTTTTTCTTT
Found at i:61073113 original size:8 final size:8
Alignment explanation
Indices: 61073066--61073110 Score: 67
Period size: 8 Copynumber: 5.8 Consensus size: 8
61073056 TTAGTACTTA
61073066 TTTTTTCT
1 TTTTTTCT
61073074 TTTTTTCT
1 TTTTTTCT
61073082 TTTTTTCT
1 TTTTTTCT
61073090 TTTTTT-T
1 TTTTTTCT
61073097 TTCTTTT-T
1 TT-TTTTCT
61073105 TTTTTT
1 TTTTTT
61073111 TTTAAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.19
8 29 0.81
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTCT
Found at i:61073389 original size:118 final size:118
Alignment explanation
Indices: 61073237--61073467 Score: 399
Period size: 118 Copynumber: 2.0 Consensus size: 118
61073227 TTATTTCAGT
61073237 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
61073302 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
61073355 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
*
61073420 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTATACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
61073468 ATGGAAAACA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 106 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:61074427 original size:10 final size:10
Alignment explanation
Indices: 61074414--61074474 Score: 58
Period size: 9 Copynumber: 6.4 Consensus size: 10
61074404 ATATTTAACT
61074414 AAAATAAATA
1 AAAATAAATA
61074424 AAAATAAAATA
1 AAAAT-AAATA
61074435 AAAAT-AATA
1 AAAATAAATA
*
61074444 AAAA-ATA-A
1 AAAATAAATA
**
61074452 AAAATAAAGG
1 AAAATAAATA
61074462 AAAATAAA-A
1 AAAATAAATA
61074471 AAAA
1 AAAA
61074475 AAAGATTGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 5 0.12
9 15 0.35
10 13 0.30
11 10 0.23
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAATAAATA
Found at i:61074438 original size:21 final size:21
Alignment explanation
Indices: 61074414--61074453 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
61074404 ATATTTAACT
61074414 AAAATAA-ATAAAAATAAAATA
1 AAAATAATA-AAAAATAAAATA
61074435 AAAATAATAAAAAATAAAA
1 AAAATAATAAAAAATAAAA
61074454 AATAAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATAATAAAAAATAAAATA
Found at i:61074439 original size:17 final size:15
Alignment explanation
Indices: 61074414--61074477 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 15
61074404 ATATTTAACT
* *
61074414 AAAATAAATAAAAAT
1 AAAATAAAAAAAAAA
*
61074429 AAAATAAAAATAATAA
1 AAAATAAAAA-AAAAA
*
61074445 AAAATAAAAAATAAAGG
1 AAAATAAAAAA-AAA-A
61074462 AAAATAAAAAAAAAA
1 AAAATAAAAAAAAAA
61074477 A
1 A
61074478 GATTGGGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
15 11 0.28
16 18 0.45
17 11 0.28
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAATAAAAAAAAAA
Found at i:61074475 original size:10 final size:10
Alignment explanation
Indices: 61074414--61074475 Score: 58
Period size: 10 Copynumber: 6.4 Consensus size: 10
61074404 ATATTTAACT
*
61074414 AAAATAAATA
1 AAAATAAAAA
61074424 AAAATAAAATA
1 AAAATAAAA-A
*
61074435 AAAATAATAA
1 AAAATAAAAA
61074445 AAAAT---AA
1 AAAATAAAAA
**
61074452 AAAATAAAGG
1 AAAATAAAAA
61074462 AAAATAAAAA
1 AAAATAAAAA
61074472 AAAA
1 AAAA
61074476 AAGATTGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 7 0.17
10 26 0.62
11 9 0.21
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:61083571 original size:24 final size:25
Alignment explanation
Indices: 61083544--61083595 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
61083534 GCCTAGCCTC
61083544 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
** *
61083568 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
61083593 TTT
1 TTT
61083596 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:61083670 original size:21 final size:22
Alignment explanation
Indices: 61083646--61083703 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
61083636 AATGAGTATA
61083646 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
61083667 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
61083689 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
61083704 ATAACAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:61090892 original size:13 final size:13
Alignment explanation
Indices: 61090874--61090898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61090864 ACAAACGATT
61090874 AAATTTTCATACG
1 AAATTTTCATACG
61090887 AAATTTTCATAC
1 AAATTTTCATAC
61090899 ATATTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTTTCATACG
Found at i:61095519 original size:40 final size:40
Alignment explanation
Indices: 61095463--61095639 Score: 259
Period size: 40 Copynumber: 4.5 Consensus size: 40
61095453 CGGATGATAA
61095463 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
61095503 CCGGGCTAAGATCCGAAGGCATTTGTACGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
61095543 CCGGGCTAAGACCCGAAGGCATCTATGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
61095583 CCGGGCTAGGACCTGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
61095623 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
61095640 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 1 0.01
39 11 0.09
40 109 0.90
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:61119981 original size:24 final size:24
Alignment explanation
Indices: 61119941--61120002 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
61119931 GATTATGTAG
61119941 AAAGAATAAAGAAATGA-AAAAAAA
1 AAAGAA-AAAGAAATGACAAAAAAA
* * *
61119965 AAAGAAAGAGAATATGACGAAAAAC
1 AAAGAAAAAGAA-ATGACAAAAAAA
*
61119990 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
61120003 AAAAAAGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 5 0.16
24 11 0.35
25 15 0.48
ACGTcount: A:0.73, C:0.03, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGACAAAAAAA
Found at i:61121201 original size:29 final size:29
Alignment explanation
Indices: 61121168--61121232 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
61121158 GTGACGAGAT
*
61121168 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
61121197 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
61121226 CGGCACT
1 TGGCACT
61121233 GGGTGTACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:61123987 original size:25 final size:24
Alignment explanation
Indices: 61123946--61124008 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
61123936 GATTATATAG
61123946 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
61123971 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
61123996 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
61124009 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:61125209 original size:29 final size:29
Alignment explanation
Indices: 61125176--61125240 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
61125166 GTGACGAGAT
*
61125176 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
61125205 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
61125234 CGGCACT
1 TGGCACT
61125241 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:61128565 original size:17 final size:19
Alignment explanation
Indices: 61128523--61128566 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
61128513 ATGAAATTTT
*
61128523 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
61128542 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
61128560 AA-TATTA
1 AATTATTA
61128567 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:61129480 original size:5 final size:5
Alignment explanation
Indices: 61129465--61129553 Score: 60
Period size: 5 Copynumber: 17.6 Consensus size: 5
61129455 TTTTTTCTTC
* * *
61129465 CTTTT -TTTT CTTTT CTTTT CTCCTTT CTTCAT CTACTT CCTTT C--TT
1 CTTTT CTTTT CTTTT CTTTT CT--TTT CTT-TT CT-TTT CTTTT CTTTT
* *
61129511 CTTCTT CTTTT CCTTT -TTTT CTTTT CTTTT CTTTT CTCTT CTT
1 CTT-TT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTT
61129554 CTTTCCTCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
3 3 0.05
4 7 0.11
5 41 0.62
6 10 0.15
7 5 0.08
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (5 bp):
CTTTT
Found at i:61129493 original size:17 final size:17
Alignment explanation
Indices: 61129471--61129558 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 17
61129461 CTTCCTTTTT
61129471 TTTCTTTTCTTTTCTCC
1 TTTCTTTTCTTTTCTCC
* **
61129488 TTTCTTCATCTACT-TCC
1 TTTCTT-TTCTTTTCTCC
*
61129505 TTTCTTCTTCTTCTTTTCC
1 TTTCTT-TTCTT-TTCTCC
61129524 TTT-TTTTCTTTTCT--
1 TTTCTTTTCTTTTCTCC
* *
61129538 TTTCTTTTCTCTTCTTC
1 TTTCTTTTCTTTTCTCC
61129555 TTTC
1 TTTC
61129559 CTCCATAGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
14 3 0.05
15 10 0.18
16 3 0.05
17 28 0.49
18 7 0.12
19 6 0.11
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTTTTCTTTTCTCC
Found at i:61130635 original size:28 final size:27
Alignment explanation
Indices: 61130604--61130666 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
61130594 AATTACTAGA
*
61130604 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGGAAAATGACCATT
* *
61130632 ATACCCCT-AGGTGTAAAATGACCATT
1 ATACCCCTAAGATGGAAAATGACCATT
*
61130658 TTACCCCTA
1 ATACCCCTA
61130667 GGGTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.67
27 2 0.07
28 8 0.27
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGGAAAATGACCATT
Found at i:61133200 original size:17 final size:19
Alignment explanation
Indices: 61133158--61133203 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
61133148 ATGAAATTTT
*
61133158 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
61133177 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
61133195 AA-TATTATT
1 AATTATTATT
61133204 GTATGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:61134724 original size:27 final size:27
Alignment explanation
Indices: 61134670--61134750 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
61134660 AGCATGGCTG
* * *
61134670 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
61134696 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
61134723 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
61134750 C
1 C
61134751 TAGGACGCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 13 0.27
27 36 0.73
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:61135309 original size:17 final size:17
Alignment explanation
Indices: 61135270--61135312 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
61135260 TCCACACACG
*
61135270 AACTACCTACATTTATAT
1 AACTACC-ACATTAATAT
* *
61135288 TACTACCACATTAATCT
1 AACTACCACATTAATAT
61135305 AACTACCA
1 AACTACCA
61135313 AAATGAACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.33
Consensus pattern (17 bp):
AACTACCACATTAATAT
Found at i:61136225 original size:24 final size:24
Alignment explanation
Indices: 61136189--61136263 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
61136179 AACACCGTTA
*
61136189 TCCCTAATTAGCTCCTAAATCCTC
1 TCCCTTATTAGCTCCTAAATCCTC
* *
61136213 TCCCTTATCAGCTCTTAAATCCTC
1 TCCCTTATTAGCTCCTAAATCCTC
*
61136237 TCCCTTATTAGCTCCTAAATCTTC
1 TCCCTTATTAGCTCCTAAATCCTC
61136261 TCC
1 TCC
61136264 TGCAGCCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.21, C:0.37, G:0.04, T:0.37
Consensus pattern (24 bp):
TCCCTTATTAGCTCCTAAATCCTC
Found at i:61141249 original size:40 final size:39
Alignment explanation
Indices: 61141153--61141332 Score: 177
Period size: 40 Copynumber: 4.5 Consensus size: 39
61141143 TCGAATGGTG
* * *
61141153 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGC-GAGTTACTAAA
* *
61141194 TCCGGG-TCAATTCCCGAAGGCATTAGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
61141234 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * *
61141274 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACTA-AA
61141315 -CCGGGC-AATGTCCCGAAG
1 TCCGGGCTAA-GTCCCGAAG
61141333 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 2 0.02
40 88 0.75
41 28 0.24
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:61141288 original size:80 final size:81
Alignment explanation
Indices: 61141154--61141332 Score: 222
Period size: 80 Copynumber: 2.2 Consensus size: 81
61141144 CGAATGGTGT
* *
61141154 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
61141218 AGTGCGAGTTACCAAAA
66 -GTGCGAGTTACCAAAA
* * *
61141235 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * * *
61141298 TGTGCGAATCACTATAA
65 TGTGCGAGTTACCAAAA
61141315 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
61141333 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
79 3 0.04
80 54 0.64
81 28 0.33
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:61141353 original size:40 final size:41
Alignment explanation
Indices: 61141154--61141358 Score: 147
Period size: 40 Copynumber: 5.1 Consensus size: 41
61141144 CGAATGGTGT
** * * *
61141154 CCGGGCTAA-GTCCCGAAGGCTTTTGTGCTAAGTGACTA-AA
1 CCGGGCTAATGTCCCGAAGGCAATCGTGC-GAGTCACTATAA
* * * * *
61141194 TCCGGG-TCAAT-TCCCGAAGGCATTAGTGCGAGTTACCAAAA
1 -CCGGGCT-AATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* * *
61141235 CCGGGTTAA-GTCCCGAAGGCATTCGTGCGAGTTACTA-AA
1 CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* *
61141274 TCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* * * *
61141315 CCGGGC-AATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
61141355 CCGG
1 CCGG
61141359 TTAAATTCTG
Statistics
Matches: 137, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
39 5 0.04
40 104 0.76
41 28 0.20
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (41 bp):
CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
Found at i:61141357 original size:80 final size:80
Alignment explanation
Indices: 61141188--61141358 Score: 195
Period size: 80 Copynumber: 2.1 Consensus size: 80
61141178 GTGCTAAGTG
* * *
61141188 ACTAAATCCGGGTCAATTCCCGAAGGCATTAGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCATTAGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAG
* * * *
61141253 GCATTCGTGCGAGTT
66 ACAATCGAGCGAGTC
* *
61141268 ACTAAATCCGGG-CTAATTCCCGAAGGCAATT-GTGCGAATCACTATAACCGGG-CAATGTCCCG
1 ACTAAATCCGGGTC-AATTCCCGAAGGC-ATTAGTGCGAATCACCAAAACCGGGTCAA-GTCCCG
61141330 AAGACAATCGAGCGAGTC
63 AAGACAATCGAGCGAGTC
* *
61141348 GCTATATCCGG
1 ACTAAATCCGG
61141359 TTAAATTCTG
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 3 0.04
80 71 0.92
81 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCATTAGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:61150381 original size:24 final size:24
Alignment explanation
Indices: 61150330--61150491 Score: 212
Period size: 24 Copynumber: 7.0 Consensus size: 24
61150320 GCTTTATCAT
* *
61150330 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
61150355 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
61150379 ATAACT--GGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
61150400 ATAACT-GGGCATAAG-CC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61150421 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61150445 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
61150469 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61150492 TAACTCTAAG
Statistics
Matches: 126, Mismatches: 5, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
20 3 0.02
21 14 0.11
22 30 0.24
23 2 0.02
24 65 0.52
25 12 0.10
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:61150583 original size:20 final size:20
Alignment explanation
Indices: 61150558--61150618 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
61150548 TATGCATTAC
61150558 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
61150578 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
61150598 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
61150618 A
1 A
61150619 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:61150702 original size:24 final size:24
Alignment explanation
Indices: 61150661--61150707 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
61150651 ATACATAAAC
* * * *
61150661 CCTAGGGGTATAATGGTCTTTTTA
1 CCTAGGGGCAAAACGGTCATTTTA
61150685 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61150708 CATGGTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:61157193 original size:47 final size:47
Alignment explanation
Indices: 61157052--61157193 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
61157042 GCTTTATCAT
* * *
61157052 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTA
*
61157101 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
61157148 ATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
61157194 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 60 0.69
48 15 0.17
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:61157194 original size:24 final size:24
Alignment explanation
Indices: 61157052--61157193 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
61157042 GCTTTATCAT
*
61157052 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
61157077 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
61157101 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
61157124 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
61157148 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
61157172 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61157194 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 39 0.35
24 59 0.54
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:61157268 original size:20 final size:20
Alignment explanation
Indices: 61157243--61157303 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
61157233 TTATGATTAC
61157243 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
61157263 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
61157283 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
61157303 A
1 A
61157304 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:61157378 original size:25 final size:25
Alignment explanation
Indices: 61157346--61157393 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61157336 ATACATAAAC
* * *
61157346 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61157371 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61157394 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61163344 original size:8 final size:9
Alignment explanation
Indices: 61163326--61163363 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
61163316 TATTAATTAT
61163326 AAAAGGTTA
1 AAAAGGTTA
61163335 AAAAGG-TA
1 AAAAGGTTA
61163343 AAATAGGTTA
1 AAA-AGGTTA
61163353 AAAAGG-TA
1 AAAAGGTTA
61163361 AAA
1 AAA
61163364 TATGAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 10 0.37
9 12 0.44
10 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (9 bp):
AAAAGGTTA
Found at i:61163352 original size:18 final size:18
Alignment explanation
Indices: 61163329--61163365 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
61163319 TAATTATAAA
61163329 AGGTTAAAAAGGTAAAAT
1 AGGTTAAAAAGGTAAAAT
61163347 AGGTTAAAAAGGTAAAAT
1 AGGTTAAAAAGGTAAAAT
61163365 A
1 A
61163366 TGAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.22
Consensus pattern (18 bp):
AGGTTAAAAAGGTAAAAT
Found at i:61166491 original size:43 final size:43
Alignment explanation
Indices: 61166399--61166510 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
61166389 TTGATGTCAT
* * *
61166399 TGTCCTAGACAAGGTCTTACACG-AGTTATAATACAATGCCAA
1 TGTCCTAGACATGGTCTTACACGTAATGATAATACAATGCCAA
* *
61166441 TGCCCTAGACTTGGTCTTACACGTAATGATAATACAATGCCAA
1 TGTCCTAGACATGGTCTTACACGTAATGATAATACAATGCCAA
*
61166484 TGTCCTAGACATGGTCTTACATGTAAT
1 TGTCCTAGACATGGTCTTACACGTAAT
61166511 CACATCTCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
42 20 0.33
43 41 0.67
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (43 bp):
TGTCCTAGACATGGTCTTACACGTAATGATAATACAATGCCAA
Found at i:61171915 original size:39 final size:39
Alignment explanation
Indices: 61171861--61172010 Score: 196
Period size: 39 Copynumber: 3.8 Consensus size: 39
61171851 ATTTGATGTG
61171861 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
61171900 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
61171939 TATCTGGACTCAGGGTCCGCAGGCT-TCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAATTA
* ** *
61171978 TATCCGG-GTTAAAGTCCCGCAGGCTTTGTGCTG
1 TATCCGGACTTAGGGT-CCGCAGGCTATGTGCTG
61172011 ATAATATAAT
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.05
39 93 0.94
40 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:61174762 original size:4 final size:4
Alignment explanation
Indices: 61174751--61174784 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
61174741 GTAAAAAAAA
*
61174751 AAAG -AAG AAAG AGAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
61174785 AATGGAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:61178289 original size:39 final size:39
Alignment explanation
Indices: 61178235--61178465 Score: 221
Period size: 39 Copynumber: 6.1 Consensus size: 39
61178225 ATTTGATGTG
*
61178235 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAATA
*
61178274 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAATA
* *
61178313 TATCTGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAATA
*
61178352 TAT-CGG-C-TA--GTCCGCAGGCTTCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAATA
* * ** *
61178386 TATCCGGGC-CAAAGTCCCGCAGGCTTCGTGCTGGAAATG
1 TATCCGGACTTAGGGT-CCGCAGGCTTCGTGCTGGAAATA
* ** *
61178425 TATCCGG-GTTAAAGTCCCGCAGGCTTTGTGCT-GATAATA
1 TATCCGGACTTAGGGT-CCGCAGGCTTCGTGCTGGA-AATA
61178464 TA
1 TA
61178466 ATTTCGGGTT
Statistics
Matches: 175, Mismatches: 9, Indels: 16
0.88 0.05 0.08
Matches are distributed among these distances:
34 28 0.16
35 3 0.02
36 4 0.02
37 1 0.01
38 7 0.04
39 132 0.75
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAATA
Found at i:61180595 original size:13 final size:13
Alignment explanation
Indices: 61180577--61180601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61180567 CGACCGTGTG
61180577 AAGGACACGGGCC
1 AAGGACACGGGCC
61180590 AAGGACACGGGC
1 AAGGACACGGGC
61180602 GTGTGATCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:61184878 original size:29 final size:29
Alignment explanation
Indices: 61184811--61184900 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
61184801 CATATACCTC
* *
61184811 TATATGGCCCACTAGGCCC-AATTACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
61184839 TATATGACCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
61184868 CT-TATGGCCCATTAGGCCCAAATCATA-T
1 -TATATGGCCCATTAGGCCCAAATCACATT
61184896 TATAT
1 TATAT
61184901 TCATGCTTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 1 0.02
28 21 0.39
29 31 0.57
30 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:61186376 original size:16 final size:16
Alignment explanation
Indices: 61186355--61186387 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
61186345 AAAAATTCAA
61186355 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
*
61186371 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
61186387 G
1 G
61186388 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:61187146 original size:16 final size:16
Alignment explanation
Indices: 61187127--61187158 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61187117 GTTGCCACCA
61187127 TAACTCTTGCATACCT
1 TAACTCTTGCATACCT
61187143 TAACTCTTGCATACCT
1 TAACTCTTGCATACCT
61187159 ACTAAGGCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
TAACTCTTGCATACCT
Found at i:61189365 original size:29 final size:29
Alignment explanation
Indices: 61189303--61189392 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 29
61189293 CACATACCTG
* *
61189303 TATATAGCCCACTAGGCCC-AATCATATT
1 TATATGGCCCACTAGGCCCAAATCACATT
*
61189331 TATATGGCCCACTAAGCCCAAATCACATT
1 TATATGGCCCACTAGGCCCAAATCACATT
* * *
61189360 CT-TATGGCCCATTAGGCTCAAATCATA-T
1 -TATATGGCCCACTAGGCCCAAATCACATT
61189388 TATAT
1 TATAT
61189393 TCATGCTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.02
28 21 0.40
29 29 0.56
30 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (29 bp):
TATATGGCCCACTAGGCCCAAATCACATT
Found at i:61192989 original size:49 final size:49
Alignment explanation
Indices: 61192929--61193120 Score: 357
Period size: 49 Copynumber: 3.9 Consensus size: 49
61192919 TTTGTATGAG
61192929 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
61192978 GTATATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
61193027 GTATATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
61193076 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
61193121 TAAGGCCTAA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 140 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (49 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:61193122 original size:31 final size:31
Alignment explanation
Indices: 61193084--61193151 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
61193074 GTGTGTATAT
61193084 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
61193115 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
61193146 ATGTGA
1 ATGTGA
61193152 AAGTGTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:61193131 original size:80 final size:80
Alignment explanation
Indices: 61193035--61193200 Score: 314
Period size: 80 Copynumber: 2.1 Consensus size: 80
61193025 GTGTATATAT
* *
61193035 ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
61193100 TGGCCGATGTGATGA
66 TGGCCGATGTGATGA
61193115 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
61193180 TGGCCGATGTGATGA
66 TGGCCGATGTGATGA
61193195 ATGTGA
1 ATGTGA
61193201 AAGTGTGTAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.30
Consensus pattern (80 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGA
Found at i:61193167 original size:129 final size:129
Alignment explanation
Indices: 61192986--61193394 Score: 545
Period size: 129 Copynumber: 3.0 Consensus size: 129
61192976 GTGTATATAT
* *
61192986 ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAATGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
61193051 TGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 TGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61193115 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
61193180 TGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 TGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** * *
61193244 ATGTGA-AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 ATGTGATAAG-G----CCTA----AT--GGCC-GAT-G-TGA--TG---AATGTGAAAGTGTATA
*
61193308 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTGTATATATGTGATAGGGCC
47 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
* *
61193371 GAATGGCCAATGTGATGA
112 TAATGGCCGATGTGATGA
61193389 ATGTGA
1 ATGTGA
61193395 AAGTGTATAA
Statistics
Matches: 252, Mismatches: 9, Indels: 22
0.89 0.03 0.08
Matches are distributed among these distances:
128 3 0.01
129 134 0.53
133 2 0.01
137 2 0.01
139 4 0.02
140 2 0.01
141 1 0.00
142 2 0.01
144 2 0.01
145 42 0.17
146 3 0.01
147 55 0.22
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (129 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:61193168 original size:49 final size:49
Alignment explanation
Indices: 61193115--61193414 Score: 527
Period size: 49 Copynumber: 6.2 Consensus size: 49
61193105 GATGTGATGA
61193115 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
61193164 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
61193213 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
61193262 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
61193311 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
61193358 ATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA-A-
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
61193405 ATGTGATAAG
1 ATGTGATAAG
61193415 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
47 49 0.20
48 7 0.03
49 185 0.77
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:61193236 original size:178 final size:178
Alignment explanation
Indices: 61192937--61193414 Score: 694
Period size: 178 Copynumber: 2.6 Consensus size: 178
61192927 AGGTATATAT
*
61192937 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAATGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
61193002 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAATGCCTAATGGCCGATGTGATGAA
66 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
61193067 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61193115 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
61193180 TGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
61193245 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
131 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC--------G-ATGTG--A-TG-----A
* * *
61193310 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTGTATATATGTGATAGGGCCGA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
*
61193373 ATGGCCAATGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAG
65 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
61193415 TCCCGAAGGG
Statistics
Matches: 273, Mismatches: 9, Indels: 22
0.90 0.03 0.07
Matches are distributed among these distances:
178 164 0.60
186 1 0.00
187 5 0.02
189 1 0.00
190 2 0.01
192 10 0.04
193 1 0.00
194 49 0.18
195 4 0.01
196 36 0.13
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (178 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:61193324 original size:227 final size:227
Alignment explanation
Indices: 61192929--61193347 Score: 802
Period size: 227 Copynumber: 1.8 Consensus size: 227
61192919 TTTGTATGAG
61192929 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
* *
61192994 ATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAATGCCTAATGGCCGAT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
*
61193059 GTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAA
131 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAA
61193124 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
196 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
61193156 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
61193221 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
61193286 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
131 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
61193348 AGGTGTATAT
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
227 188 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (227 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:61197820 original size:68 final size:68
Alignment explanation
Indices: 61197671--61197828 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
61197661 CTAGCCGATT
* * * *
61197671 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
61197736 TTTA
65 TATA
* * *
61197740 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
61197802 CTATATA
63 C-ATATA
61197809 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
61197829 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:61201603 original size:17 final size:18
Alignment explanation
Indices: 61201561--61201609 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
61201551 AGTTGAAAAG
61201561 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
61201580 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
61201597 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
61201610 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:61202498 original size:40 final size:40
Alignment explanation
Indices: 61202432--61202598 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
61202422 AAATTGAATG
* * *
61202432 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
61202471 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
61202511 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
61202551 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
61202591 ATATCCGG
1 ATATCCGG
61202599 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:61208440 original size:71 final size:68
Alignment explanation
Indices: 61208321--61208541 Score: 260
Period size: 67 Copynumber: 3.3 Consensus size: 68
61208311 CACTTAGTAC
* *
61208321 CACTCATGCGACCTAGC--CGATTTA--TCT--CGTAGCTCTCTTGTCTACATGGTG-TTCTTCA
1 CACTCATGCGACCTAGCTAC-ATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-
*
61208379 CTTGGAAT
63 C--CGAAT
61208387 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
1 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
*
61208452 TAT
66 AAT
* *
61208455 CACACATGTGACCTAGCTACA-TTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
1 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
*
61208519 TAT
66 AAT
* *
61208522 CACACATGTGACCTAGCTAC
1 CACTCATGCGACCTAGCTAC
61208542 TATATAGTAT
Statistics
Matches: 142, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
66 17 0.12
67 71 0.50
68 23 0.16
69 3 0.02
70 2 0.01
71 26 0.18
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (68 bp):
CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
AAT
Found at i:61208497 original size:67 final size:68
Alignment explanation
Indices: 61208385--61208541 Score: 289
Period size: 67 Copynumber: 2.3 Consensus size: 68
61208375 TTCACTTGGA
* *
61208385 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
61208450 CGT
66 CGT
61208453 ATCACACATGTGACCTAGCTACA-TTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
61208517 CGT
66 CGT
61208520 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
61208542 TATATAGTAT
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
67 66 0.76
68 21 0.24
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:61210439 original size:16 final size:16
Alignment explanation
Indices: 61210418--61210449 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61210408 AGTGTAACGC
61210418 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
61210434 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
61210450 TCTCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:61211706 original size:16 final size:15
Alignment explanation
Indices: 61211682--61211723 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
61211672 TAGATCGGCA
61211682 AAAGCCGAAATGCCAG
1 AAAGCCGAAATGCC-G
*
61211698 AAAGTCGAAATGCCG
1 AAAGCCGAAATGCCG
61211713 AAAAGCCGAAA
1 -AAAGCCGAAA
61211724 GTTTAGCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.48, C:0.21, G:0.24, T:0.07
Consensus pattern (15 bp):
AAAGCCGAAATGCCG
Found at i:61211985 original size:28 final size:28
Alignment explanation
Indices: 61211937--61212019 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 28
61211927 AGCATGAATG
61211937 TAAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGA-TTGGGCCTAATGGGCCACA
*
61211966 TAAATGTGATTGGGCCTAATGGGCCATA
1 TAAATGTGATTGGGCCTAATGGGCCACA
* *
61211994 TGAAA-GAGATTGGGCCTAGTGGGCCA
1 T-AAATGTGATTGGGCCTAATGGGCCA
61212020 TATATAAAGG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 38 0.76
29 12 0.24
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATGGGCCACA
Found at i:61216409 original size:28 final size:29
Alignment explanation
Indices: 61216338--61216454 Score: 134
Period size: 28 Copynumber: 4.1 Consensus size: 29
61216328 CGAGCATGAC
* *
61216338 TATAAATGTGATTTGGGCCTAGT-GACCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
* *
61216366 TATGAATATGATTTGGGCCTAATGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
*
61216395 CATAAATGTGA-TTGGGCCTAATGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
* *
61216423 TATGAAA-GAGA-TTGGGCCTAGTGGGCCA
1 TAT-AAATGTGATTTGGGCCTAATGGGCCA
61216451 TATA
1 TATA
61216455 TACAGGTATG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.01
28 61 0.79
29 15 0.19
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCCTAATGGGCCA
Found at i:61216441 original size:56 final size:57
Alignment explanation
Indices: 61216339--61216450 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 57
61216329 GAGCATGACT
* *
61216339 ATAAATGTGATTTGGGCCTAGTGACCATATGAATATGATTTGGGCCTAATGGGCCAC
1 ATAAATGTGATTTGGGCCTAATGACCATATGAATATGAATTGGGCCTAATGGGCCAC
* *
61216396 ATAAATGTGA-TTGGGCCTAATGGGCCATATGAA-A-GAGATTGGGCCTAGTGGGCCA
1 ATAAATGTGATTTGGGCCTAAT-GACCATATGAATATGA-ATTGGGCCTAATGGGCCA
61216451 TATATACAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
55 2 0.04
56 27 0.55
57 20 0.41
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (57 bp):
ATAAATGTGATTTGGGCCTAATGACCATATGAATATGAATTGGGCCTAATGGGCCAC
Found at i:61219471 original size:24 final size:24
Alignment explanation
Indices: 61219439--61219525 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
61219429 AATCTCAAAT
61219439 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
61219463 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
61219487 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
61219511 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
61219526 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:61219491 original size:48 final size:48
Alignment explanation
Indices: 61219439--61219547 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
61219429 AATCTCAAAT
** *
61219439 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
61219487 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
61219535 GCACTATGTGTGC
1 GCACTATGTGTGC
61219548 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:61219538 original size:24 final size:24
Alignment explanation
Indices: 61219439--61219547 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
61219429 AATCTCAAAT
*
61219439 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
61219463 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
61219487 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
61219511 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
61219535 GCACTATGTGTGC
1 GCACTATGTGTGC
61219548 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:61223606 original size:24 final size:24
Alignment explanation
Indices: 61223574--61223660 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
61223564 AATCTCAAAT
61223574 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
61223598 GCACTATGTGTGCTATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
61223622 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
61223646 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
61223661 ACATAATAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:61223673 original size:48 final size:48
Alignment explanation
Indices: 61223574--61223682 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
61223564 AATCTCAAAT
* ** *
61223574 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCTATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCAACATAATATA
61223622 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGC-AACATAATATA
*
61223670 GCACTATGCGTGC
1 GCACTATGTGTGC
61223683 AACGTTTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 50 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCAACATAATATA
Found at i:61231323 original size:24 final size:24
Alignment explanation
Indices: 61231291--61231377 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
61231281 AATCTCAAAT
61231291 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
61231315 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
61231339 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
61231363 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
61231378 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:61231343 original size:48 final size:48
Alignment explanation
Indices: 61231291--61231399 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
61231281 AATCTCAAAT
** *
61231291 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
61231339 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
61231387 GCACTATGTGTGC
1 GCACTATGTGTGC
61231400 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:61231390 original size:24 final size:24
Alignment explanation
Indices: 61231291--61231399 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
61231281 AATCTCAAAT
*
61231291 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
61231315 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
61231339 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
61231363 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
61231387 GCACTATGTGTGC
1 GCACTATGTGTGC
61231400 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:61236743 original size:29 final size:28
Alignment explanation
Indices: 61236667--61236750 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 28
61236657 CCGTCTCATG
*
61236667 CATATGGCCCATCAGGCCCAATTCACAT
1 CATATGGCCTATCAGGCCCAATTCACAT
* *
61236695 CAATATGG-CTCATCAAGCCCAATTCATATT
1 C-ATATGGCCT-ATCAGGCCCAATTCACA-T
* *
61236725 CATATGGCCTATTAGGCCCAAATCAC
1 CATATGGCCTATCAGGCCCAATTCAC
61236751 CTTTATATGG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.04
29 39 0.87
30 4 0.09
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (28 bp):
CATATGGCCTATCAGGCCCAATTCACAT
Found at i:61236758 original size:29 final size:28
Alignment explanation
Indices: 61236726--61236786 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
61236716 ATTCATATTC
*
61236726 ATAT-GGCCTATTAGGCCCAAATCACCTTT
1 ATATGGGCC-ATTAGGCCCAAACCA-CTTT
*
61236755 ATATGGGCCGTTAGGCCCAAACCACTTT
1 ATATGGGCCATTAGGCCCAAACCACTTT
61236783 ATAT
1 ATAT
61236787 TCATGCTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 17 0.59
30 4 0.14
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (28 bp):
ATATGGGCCATTAGGCCCAAACCACTTT
Found at i:61237029 original size:16 final size:16
Alignment explanation
Indices: 61237004--61237044 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
61236994 AAACTTTTGG
*
61237004 CTTTTTAGCATTTCAA
1 CTTTTCAGCATTTCAA
*
61237020 CTTTTCAGCATTTCGA
1 CTTTTCAGCATTTCAA
61237036 CTTTTCAGC
1 CTTTTCAGC
61237045 TTTTATCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (16 bp):
CTTTTCAGCATTTCAA
Found at i:61240343 original size:74 final size:74
Alignment explanation
Indices: 61240128--61240343 Score: 231
Period size: 74 Copynumber: 2.9 Consensus size: 74
61240118 GCAATTTTTA
* * * * ** *
61240128 TTGGTAAATCCAACTAGAGTTGGGCTCACTATTTATTCGTC-AGTTTA-ACTGACTAGAACTGGG
1 TTGGTATATCCAACTAGAGCTGGGCTCACTATTTATTCATCGA-TTTATTC-GACTAGTGCTAGG
* *
61240191 TGTAAATACCG
64 CGCAAATACCG
** * * * *
61240202 TTGGTATATCCAACTAGAGCTGGGCTCACTATTTATTTTTTGGTTTATTGGACTAGTG-TTGGAC
1 TTGGTATATCCAACTAGAGCTGGGCTCACTATTTATTCATCGATTTATTCGACTAGTGCTAGG-C
61240266 GCAAATACCG
65 GCAAATACCG
* *
61240276 TTGGTATATCCAACTAGAGCTAGGCTCACTAATTATTCATCGATTTATTCGACTAGTGCTAGGCG
1 TTGGTATATCCAACTAGAGCTGGGCTCACTATTTATTCATCGATTTATTCGACTAGTGCTAGGCG
61240341 CAA
66 CAA
61240344 CTGTCGTCAG
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
73 3 0.03
74 111 0.95
75 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (74 bp):
TTGGTATATCCAACTAGAGCTGGGCTCACTATTTATTCATCGATTTATTCGACTAGTGCTAGGCG
CAAATACCG
Found at i:61241678 original size:34 final size:34
Alignment explanation
Indices: 61241635--61241704 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
61241625 AAAAACCGTC
61241635 CAAATTGAAGACCAAGTCAACCCAAATTCGACTA
1 CAAATTGAAGACCAAGTCAACCCAAATTCGACTA
61241669 CAAATTGAAGACCAAGTCAACCCAAATTCGACTA
1 CAAATTGAAGACCAAGTCAACCCAAATTCGACTA
61241703 CA
1 CA
61241705 GATTTGCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.17
Consensus pattern (34 bp):
CAAATTGAAGACCAAGTCAACCCAAATTCGACTA
Found at i:61244703 original size:40 final size:40
Alignment explanation
Indices: 61244607--61244790 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
61244597 TATTCGGATG
61244607 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
61244650 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
61244690 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * *
61244730 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
61244770 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
61244791 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 15 0.12
40 79 0.62
41 2 0.02
43 31 0.24
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:61248075 original size:29 final size:27
Alignment explanation
Indices: 61247981--61248087 Score: 81
Period size: 29 Copynumber: 3.8 Consensus size: 27
61247971 TACATACGTG
* * *
61247981 CATATAGCCCACCAGGCCCAATCTTATT
1 CATATGGCCCACTAGGCCCAAT-TAATT
*
61248009 CAAATGGCCCATCT-GGCCCAATTAATATT
1 CATATGGCCCA-CTAGGCCCAATT-A-ATT
* * *
61248038 CTTACGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCACTAGGCCCAATT-A-ATT
*
61248067 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
61248088 ATCATATTAT
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
27 1 0.02
28 19 0.31
29 42 0.68
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (27 bp):
CATATGGCCCACTAGGCCCAATTAATT
Found at i:61248336 original size:16 final size:16
Alignment explanation
Indices: 61248324--61248400 Score: 75
Period size: 16 Copynumber: 4.8 Consensus size: 16
61248314 AGTTTTTTGG
*
61248324 CATTTCGGCTTTTTGA
1 CATTTCGGCTTTTCGA
* * *
61248340 CTTTTTGACTTTTCGA
1 CATTTCGGCTTTTCGA
*
61248356 CATTTCGACTTTTCGA
1 CATTTCGGCTTTTCGA
* *
61248372 CATTTTGGCTTTTCGG
1 CATTTCGGCTTTTCGA
61248388 CA-TTCTGGCTTTT
1 CATTTC-GGCTTTT
61248401 ACCGATTCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
15 2 0.04
16 48 0.96
ACGTcount: A:0.12, C:0.21, G:0.17, T:0.51
Consensus pattern (16 bp):
CATTTCGGCTTTTCGA
Found at i:61248345 original size:8 final size:8
Alignment explanation
Indices: 61248326--61248386 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 8
61248316 TTTTTTGGCA
*
61248326 TTTCGGCT
1 TTTCGACT
*
61248334 TTTTGACT
1 TTTCGACT
*
61248342 TTTTGACT
1 TTTCGACT
*
61248350 TTTCGACA
1 TTTCGACT
61248358 TTTCGACT
1 TTTCGACT
61248366 TTTCGACAT
1 TTTCGAC-T
*
61248375 TTT-GGCT
1 TTTCGACT
61248382 TTTCG
1 TTTCG
61248387 GCATTCTGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
7 4 0.09
8 37 0.82
9 4 0.09
ACGTcount: A:0.11, C:0.20, G:0.16, T:0.52
Consensus pattern (8 bp):
TTTCGACT
Found at i:61248360 original size:32 final size:32
Alignment explanation
Indices: 61248324--61248400 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
61248314 AGTTTTTTGG
* *
61248324 CATTTCGGCTTTTTGACTTTTTGACTTTTCGA
1 CATTTCGGCTTTTCGACATTTTGACTTTTCGA
* * *
61248356 CATTTCGACTTTTCGACATTTTGGCTTTTCGG
1 CATTTCGGCTTTTCGACATTTTGACTTTTCGA
61248388 CA-TTCTGGCTTTT
1 CATTTC-GGCTTTT
61248401 ACCGATTCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 3 0.08
32 35 0.92
ACGTcount: A:0.12, C:0.21, G:0.17, T:0.51
Consensus pattern (32 bp):
CATTTCGGCTTTTCGACATTTTGACTTTTCGA
Found at i:61255434 original size:93 final size:93
Alignment explanation
Indices: 61255275--61255446 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
61255265 CGCCCATAAG
* * *
61255275 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATGAGTGAACTAGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
61255340 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
61255368 CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCA-GACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACT-AGGACTCAACTC
61255432 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
61255447 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:61255443 original size:46 final size:46
Alignment explanation
Indices: 61255268--61255443 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
61255258 TGTAACCCGC
* * * *
61255268 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
61255314 CCATGAGTGAACT-AGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCA-GACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
61255364 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
*
61255407 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
61255444 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:61255915 original size:30 final size:30
Alignment explanation
Indices: 61255870--61255929 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61255860 ATTTAATATG
*
61255870 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
61255900 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
61255930 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:61257865 original size:15 final size:15
Alignment explanation
Indices: 61257845--61257885 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
61257835 CAAGAAAACT
61257845 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
61257860 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
61257875 GGATAAAGAAA
1 GAATAAAGAAA
61257886 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:61257894 original size:15 final size:15
Alignment explanation
Indices: 61257847--61257894 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
61257837 AGAAAACTGA
61257847 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
61257861 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61257877 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61257892 ATA
1 ATA
61257895 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61260402 original size:46 final size:46
Alignment explanation
Indices: 61260244--61260408 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 46
61260234 GCCCATAGGC
* * *
61260244 GAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGA-CATTTGCATCCATAAGT
* * * * * *
61260290 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCATAAGT
61260337 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGT
61260383 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
61260409 GGATGCTCAA
Statistics
Matches: 97, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 50 0.52
47 25 0.26
48 2 0.02
49 2 0.02
50 6 0.06
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGT
Found at i:61260407 original size:93 final size:93
Alignment explanation
Indices: 61260243--61260414 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
61260233 CGCCCATAGG
*
61260243 CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
61260308 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
61260336 CGAACTCGGACTCAACTCAACGAGTTC-AGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
61260400 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
61260415 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:61260883 original size:30 final size:30
Alignment explanation
Indices: 61260838--61260897 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61260828 ATTTAATATG
*
61260838 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
61260868 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
61260898 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:61269704 original size:14 final size:14
Alignment explanation
Indices: 61269685--61269714 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61269675 GTTTTAGCTC
61269685 ATAAATATGTGTTA
1 ATAAATATGTGTTA
*
61269699 ATAAATATGTTTTA
1 ATAAATATGTGTTA
61269713 AT
1 AT
61269715 CTGATTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATAAATATGTGTTA
Found at i:61274522 original size:42 final size:42
Alignment explanation
Indices: 61274412--61274572 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
61274402 AAGCTAGTAA
* * * * *
61274412 AATGCCAATGTCCCAAACGTGGTCTTACATGTAATCAAATAT
1 AATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAC
61274454 AGATGCCACA-GTCCCAGACA-GAGTCTTACACGAAATCAAATAC
1 A-ATGCCA-ATGTCCCAGACATG-GTCTTACACGAAATCAAATAC
*
61274497 AATGCCAATGTCCCAGGCATGGTCTTACACGTAAATCATAAGT-C
1 AATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AA-TAC
* * * * *
61274541 GATGCCAACGTCCTAGACGTGGTCATACACGA
1 AATGCCAATGTCCCAGACATGGTCTTACACGA
61274573 GAACACATAT
Statistics
Matches: 99, Mismatches: 12, Indels: 15
0.79 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 41 0.41
44 29 0.29
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (42 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAC
Found at i:61277094 original size:28 final size:28
Alignment explanation
Indices: 61277054--61277132 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
61277044 GCAATCAAAT
* * *
61277054 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
61277082 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
61277110 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
61277133 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:61279165 original size:29 final size:29
Alignment explanation
Indices: 61279127--61279228 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
61279117 TCGTAACTGA
* *
61279127 GCACTGTGTGTACGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
* ****
61279156 GCACTGTGTGTGCGAGTTCTA-TCACCGA-
1 GCACTGTGTGTGCGAGATC-AGTTGTTGAG
*
61279184 GCACTGTGTGTGCGAGATTAGTTGTTGAG
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
61279213 GCACTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
61279229 TTCCGTAACC
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
27 1 0.02
28 20 0.35
29 36 0.63
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.30
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCAGTTGTTGAG
Found at i:61279186 original size:57 final size:56
Alignment explanation
Indices: 61279097--61279274 Score: 216
Period size: 57 Copynumber: 3.1 Consensus size: 56
61279087 AAGTGAACAT
* * *
61279097 AGGCACTGTGTGTGTGAGTTTCGTA-ACTGAGCACTGTGTGTACGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAG-TTC-TATACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
**
61279154 AGGCACTGTGTGTGCGAGTTCTATCACCGAGCACTGTGTGTGCGAGATTAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCTAT-ACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
61279211 AGGCACTGTGTGTGCGAGTTCCGTA-ACCAAGCACTATGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTT-C-TATACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
61279268 GGGCACT
1 AGGCACT
61279275 AAGTGTATGA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
55 2 0.02
56 3 0.03
57 98 0.92
58 1 0.01
59 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (56 bp):
AGGCACTGTGTGTGCGAGTTCTATACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:61284259 original size:28 final size:28
Alignment explanation
Indices: 61284227--61284296 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
61284217 TATGGTACTC
*
61284227 AGTGTACGAAATATTGAGAATAACACTT
1 AGTGTGCGAAATATTGAGAATAACACTT
* *
61284255 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATAACACTT
*
61284283 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
61284297 CGAATGATCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATAACACTT
Found at i:61292684 original size:29 final size:29
Alignment explanation
Indices: 61292650--61292752 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
61292640 TAATCAGCCG
** *
61292650 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
61292679 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
61292708 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
61292737 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
61292753 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:61300760 original size:29 final size:29
Alignment explanation
Indices: 61300726--61300828 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
61300716 TAATCAGCCG
** *
61300726 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
61300755 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
61300784 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
61300813 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
61300829 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:61305030 original size:47 final size:46
Alignment explanation
Indices: 61304963--61305092 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 46
61304953 TCATCTCGTA
* *
61304963 GCCGATGCATGTCCCAGACATGTCTTACTCTAGCTCTCGT-CTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACTCTAGCTCTCATAAT--ATG
* * *
61305009 GCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACTCTAGCTCTCATAATATG
* *
61305057 GCCAATGCATGTCCCAGACATGTCTTATTCTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACTCTAGCTC
61305093 ACAATAACCC
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
46 19 0.27
47 28 0.40
48 22 0.31
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACTCTAGCTCTCATAATATG
Found at i:61305079 original size:94 final size:91
Alignment explanation
Indices: 61304916--61305092 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 91
61304906 ATAAGGTAAG
* * * ** *
61304916 ATGCTGATGCCATGTCCGGACATGGTCTTATACTAGCTCATCTCGTAGCCGATGCATGTCCCAGA
1 ATGCCGATGCCATGTCCAGACATGGTCTTACACTAGCTCATCTAATAGCCAATGCATGTCCCAGA
61304981 CATGTCTTACTCTAGCTCTCGTCTCA
66 CATGTCTTACTCTAGCTCTCGTCTCA
*
61305007 ATGCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTC-TCATAATATGGCCAATGCATGTCC
1 ATGCCGATGCCATGTC-CAGACATGGTCTTACACTAGCTCATC-TAATA--GCCAATGCATGTCC
*
61305071 CAGACATGTCTTATTCTAGCTC
62 CAGACATGTCTTACTCTAGCTC
61305093 ACAATAACCC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 17 0.23
92 23 0.31
94 34 0.46
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (91 bp):
ATGCCGATGCCATGTCCAGACATGGTCTTACACTAGCTCATCTAATAGCCAATGCATGTCCCAGA
CATGTCTTACTCTAGCTCTCGTCTCA
Found at i:61305459 original size:30 final size:30
Alignment explanation
Indices: 61305421--61305504 Score: 150
Period size: 30 Copynumber: 2.8 Consensus size: 30
61305411 CTATATTTGG
61305421 GCAAAATGACCATTTTGCCCCTAGACTTTT
1 GCAAAATGACCATTTTGCCCCTAGACTTTT
*
61305451 GTAAAATGACCATTTTGCCCCTAGACTTTT
1 GCAAAATGACCATTTTGCCCCTAGACTTTT
*
61305481 GCAAAATGACCATTTTACCCCTAG
1 GCAAAATGACCATTTTGCCCCTAG
61305505 GTTCGAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (30 bp):
GCAAAATGACCATTTTGCCCCTAGACTTTT
Found at i:61307419 original size:14 final size:14
Alignment explanation
Indices: 61307400--61307429 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61307390 ACCCCTTCAT
*
61307400 TCCCTCATTCATCA
1 TCCCTCATCCATCA
61307414 TCCCTCATCCATCA
1 TCCCTCATCCATCA
61307428 TC
1 TC
61307430 ATTCTATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Done.