Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 191 of 410
Found at i:58280244 original size:28 final size:28
Alignment explanation
Indices: 58280211--58280313 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
58280201 ATTGCATGAC
*
58280211 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
58280239 TATGAAAT-TGATTGGGCCTGATGGGCCA
1 TATG-AATGTGATTGGGCCTGATGGGCCA
* *
58280267 TATGAATGTGATTGGGCCCGATAGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
58280295 CATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
58280314 AAAGAGGCCA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 3 0.04
28 61 0.91
29 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:58285252 original size:39 final size:39
Alignment explanation
Indices: 58285197--58285333 Score: 148
Period size: 39 Copynumber: 3.5 Consensus size: 39
58285187 AATATGTTTT
** *
58285197 TGAGTATTATGATATATGCTTGAATGTTACGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
* * * *
58285236 TGAGTATTGCGTTATATGCTTGAACGCTATGTAATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
* * *
58285275 TGAGTATTGTGATATATGCTTAAATGTTTTGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
* * **
58285314 TGTGTAATATGATATATGCT
1 TGAGTATTGCGATATATGCT
58285334 AAAAAGAGAA
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
Found at i:58288495 original size:28 final size:29
Alignment explanation
Indices: 58288428--58288499 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
58288418 ATAGTGAATC
*
58288428 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
58288457 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
58288485 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58288500 GTACAATTTT
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:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:58288521 original size:30 final size:28
Alignment explanation
Indices: 58288427--58288528 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
58288417 TATAGTGAAT
* *
58288427 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
58288456 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
58288484 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
58288514 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
58288529 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:58290667 original size:27 final size:27
Alignment explanation
Indices: 58290637--58290776 Score: 124
Period size: 27 Copynumber: 5.2 Consensus size: 27
58290627 ATTACCGTTT
* * *
58290637 TACCCTCAATTTACAGAATTACCAAAA
1 TACCCTCAGTTTATAAAATTACCAAAA
** *
58290664 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAGTTTATAAAATTACCAAAA
* *
58290691 TACCC-CTAGTTTGTAAAATTACTAAAA
1 TACCCTC-AGTTTATAAAATTACCAAAA
**
58290718 TACCCTTTGTTTATAAAATTACCAAAA
1 TACCCTCAGTTTATAAAATTACCAAAA
* *
58290745 TACCCAT-GGTTTGA-AAAATTACTAAAA
1 TACCC-TCAGTTT-ATAAAATTACCAAAA
58290772 TACCC
1 TACCC
58290777 CTGTAGGGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
27 90 0.98
28 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
TACCCTCAGTTTATAAAATTACCAAAA
Found at i:58290695 original size:54 final size:54
Alignment explanation
Indices: 58290639--58290776 Score: 152
Period size: 54 Copynumber: 2.5 Consensus size: 54
58290629 TACCGTTTTA
*
58290639 CCCTCAATTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
1 CCCT-AATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
* ** * * *
58290694 CCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATAC
1 CCCTAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
* ** *
58290748 CCATGGTTTGA-AAAATTACTAAAATACCC
1 CCCTAATTT-ACAAAATTACCAAAATACCC
58290777 CTGTAGGGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
54 68 0.94
55 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (54 bp):
CCCTAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
Found at i:58290789 original size:27 final size:27
Alignment explanation
Indices: 58290759--58290820 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
58290749 CATGGTTTGA
58290759 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* *
58290786 AAAATTACTAAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
58290813 AAAATTAC
1 AAAATTAC
58290821 CATTTTGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:58290789 original size:54 final size:54
Alignment explanation
Indices: 58290653--58290803 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
58290643 CAATTTACAG
* ** * * *
58290653 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATAGTTTGAAA
* ** *
58290707 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATAGTTTGAAA
* *
58290761 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTAAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
58290804 TTGTGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATAGTTTGAAA
Found at i:58290805 original size:81 final size:81
Alignment explanation
Indices: 58290653--58290805 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
58290643 CAATTTACAG
* **
58290653 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAA
58290718 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* *
58290734 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTAA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTAGT-GGGTAAAATTACTAA
58290797 AATACCCTT
64 AATACCCTT
58290806 GTGGGGTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 2 0.03
81 62 0.95
82 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:58291472 original size:28 final size:28
Alignment explanation
Indices: 58291440--58291536 Score: 178
Period size: 28 Copynumber: 3.5 Consensus size: 28
58291430 GCGTAGATCA
58291440 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
58291468 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
58291496 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
58291524 CGATA-TACCCCTA
1 CGAAATTACCCCTA
58291537 GGGTTTTAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 8 0.12
28 60 0.88
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:58294644 original size:47 final size:48
Alignment explanation
Indices: 58294536--58294645 Score: 116
Period size: 47 Copynumber: 2.3 Consensus size: 48
58294526 CATTAATTTG
* * * * * * *
58294536 AACATTTTTAATGTGTCTTGAGTTTATTAATTGTGTTTTATTTAGTAC
1 AACAATTTTAATGTGTCTTAAGTCTATTAAATATGTTCTAATTAGTAC
* *
58294584 ATCAAATTT-ATGTGTCTTAAGTCTATTAAATATGTTCTAATTAGTAC
1 AACAATTTTAATGTGTCTTAAGTCTATTAAATATGTTCTAATTAGTAC
*
58294631 AAC-CTTTTAATGTGT
1 AACAATTTTAATGTGT
58294646 ACTAAATTCA
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
46 3 0.06
47 40 0.82
48 6 0.12
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (48 bp):
AACAATTTTAATGTGTCTTAAGTCTATTAAATATGTTCTAATTAGTAC
Found at i:58299363 original size:38 final size:38
Alignment explanation
Indices: 58299312--58299554 Score: 202
Period size: 38 Copynumber: 5.9 Consensus size: 38
58299302 GAAAAAAAAT
*
58299312 GTGGTGCTAAGTGGATATACCACGATTATACGTGTAAC
1 GTGGTGCTAAGTGGATATACCACGATTATACATGTAAC
*
58299350 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCAT-TAAC
1 GTGGTGCTAAGTGGATATACCAC-G----AT-TA-T-A--CATGTAAC
* *
58299397 ATGGTGCTAAGTGGATATACCACGATTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGATTATACATGTAAC
* *
58299435 GTGGTGCTAAATGGATATGCCACGGTTACATTTATTGATTCAT-TAAC
1 GTGGTGCTAAGTGGATATACCAC-G----A-TTA-T-A--CATGTAAC
* *
58299482 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGATTATACATGTAAC
* *
58299520 GTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGATTATACATGT
58299555 TAATTTGAAA
Statistics
Matches: 168, Mismatches: 15, Indels: 44
0.74 0.07 0.19
Matches are distributed among these distances:
37 6 0.04
38 83 0.49
39 4 0.02
41 5 0.03
42 2 0.01
43 3 0.02
44 5 0.03
45 1 0.01
46 4 0.02
47 50 0.30
48 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGATTATACATGTAAC
Found at i:58299456 original size:85 final size:85
Alignment explanation
Indices: 58299313--58299547 Score: 407
Period size: 85 Copynumber: 2.8 Consensus size: 85
58299303 AAAAAAAATG
* * *
58299313 TGGTGCTAAGTGGATATACCACGATTATACGTGTAACGTGGTGCTAAGTGGATATGCCACAGTTA
1 TGGTGCTAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
58299378 CATATATTGATTCATTAACA
66 CATATATTGATTCATTAACA
*
58299398 TGGTGCTAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAATGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
* *
58299463 CATTTATTGATTCATTAACG
66 CATATATTGATTCATTAACA
*
58299483 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
58299548 TACATGTTAA
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 142 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (85 bp):
TGGTGCTAAGTGGATATACCACGATTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
CATATATTGATTCATTAACA
Found at i:58304198 original size:40 final size:40
Alignment explanation
Indices: 58304140--58304307 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
58304130 TCTTCGGGAT
* *
58304140 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTTGGGTC
58304179 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTTGGGTC
* * * * *
58304219 TTAGCCTGGATATAATC-ACTAGCATAAATGCCTTTGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTTGGGTC
* * * *
58304259 ATAGCCCAGATATAGCAACTCGCACGAATGCCTTTGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTTGGGTC
*
58304299 TTAGTCCGG
1 TTAGCCCGG
58304308 TTATCATCCG
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 99 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTTGGGTC
Found at i:58304279 original size:80 final size:79
Alignment explanation
Indices: 58304136--58304307 Score: 231
Period size: 80 Copynumber: 2.2 Consensus size: 79
58304126 AGTATCTTCG
* * * *
58304136 GGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
1 GGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGCAACTC
58304200 GCACAAATGCCTTT
66 GCACAAATGCCTTT
* * *
58304214 GGGTCTTAGCCTGGATATAATC-ACTAGCATAAATGCCTTTGGGACATAGCCCAGATATAGCAAC
1 GGATCTTAGCC-GGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGCAAC
*
58304278 TCGCACGAATGCCTTT
64 TCGCACAAATGCCTTT
58304294 GGATCTTAGTCCGG
1 GGATCTTAG-CCGG
58304308 TTATCATCCG
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
78 3 0.04
79 6 0.07
80 69 0.85
81 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (79 bp):
GGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGCAACTC
GCACAAATGCCTTT
Found at i:58311289 original size:40 final size:40
Alignment explanation
Indices: 58311222--58311392 Score: 231
Period size: 40 Copynumber: 4.3 Consensus size: 40
58311212 GCCCAAGTAT
*
58311222 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
58311261 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
58311301 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
58311341 CTTTGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
58311381 CTTCGGATCTTA
1 CTTCGGGTCTTA
58311393 TTCCGGTTAT
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 98 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:58315587 original size:30 final size:30
Alignment explanation
Indices: 58315551--58315638 Score: 142
Period size: 30 Copynumber: 3.0 Consensus size: 30
58315541 CAAGGTTTTT
58315551 GGACACGGGTGTGTGTTATGGCCATGTGAG
1 GGACACGGGTGTGTGTTATGGCCATGTGAG
58315581 GGACACGGGTGTGTGTTATGGCCATGTGAG
1 GGACACGGGTGTGTGTTATGGCCATGTGAG
** *
58315611 GGACACGGGCATGTGTCA-GGCCATGTGA
1 GGACACGGGTGTGTGTTATGGCCATGTGA
58315639 AAACCCCTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 10 0.18
30 45 0.82
ACGTcount: A:0.18, C:0.16, G:0.42, T:0.24
Consensus pattern (30 bp):
GGACACGGGTGTGTGTTATGGCCATGTGAG
Found at i:58320825 original size:93 final size:93
Alignment explanation
Indices: 58320608--58320837 Score: 243
Period size: 93 Copynumber: 2.5 Consensus size: 93
58320598 TATGGAAGGA
* * * * *
58320608 GGTGGCACCATTCTCTATGGCACCACCAAATAAAAGAACAATTTGAATTTTGAATTTTAAAAAAA
1 GGTGGCTCCATTCTTTATGGCACAACCAAATAAAATAACATTTTGAATTTTGAA-TTTAAAAAAA
* * * *
58320673 CTTTTAAAAAAAGGGTTGCATATTACACT
65 ATGTTAAAAAAAGGGTGGCAAATTACACT
* * * *
58320702 GGTGGAGT-TATTCTTTATAG-ATCAACCAAATAAAATAATATTTTGAATTTTGAA-TTAAAACA
1 GGTGG-CTCCATTCTTTATGGCA-CAACCAAATAAAATAACATTTTGAATTTTGAATTTAAAA-A
*
58320764 AAATAGTT-GAAAAAGGGTGGCAAATTACACT
63 AAAT-GTTAAAAAAAGGGTGGCAAATTACACT
* *
58320795 GGTGGCTCCATTTTTTATGGCACAATCAAATAAAATAACATTT
1 GGTGGCTCCATTCTTTATGGCACAACCAAATAAAATAACATTT
58320838 AAAAAAAGGT
Statistics
Matches: 110, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
92 7 0.06
93 58 0.53
94 45 0.41
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (93 bp):
GGTGGCTCCATTCTTTATGGCACAACCAAATAAAATAACATTTTGAATTTTGAATTTAAAAAAAA
TGTTAAAAAAAGGGTGGCAAATTACACT
Found at i:58320850 original size:66 final size:66
Alignment explanation
Indices: 58320773--58320903 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
58320763 AAAATAGTTG
* * * *
58320773 AAAAAGGGTGGCAAATTACACT-GGTGGCTCCATTTTTTATGGCACAATCAAATAAAATAACATT
1 AAAAAAGGTGGCAAATTACA-TGGGTGGCGCCATTCTTTATGGCACAACCAAATAAAATAACATT
58320837 TA
65 TA
* * * *
58320839 AAAAAAGGTGGCAGATTACATGGGTGGCGCCATTCTTTGTGGCACCACCAAATAAAATAATATTT
1 AAAAAAGGTGGCAAATTACATGGGTGGCGCCATTCTTTATGGCACAACCAAATAAAATAACATTT
58320904 TTAATTTACC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (66 bp):
AAAAAAGGTGGCAAATTACATGGGTGGCGCCATTCTTTATGGCACAACCAAATAAAATAACATTT
A
Found at i:58322483 original size:45 final size:45
Alignment explanation
Indices: 58322398--58322525 Score: 224
Period size: 45 Copynumber: 2.9 Consensus size: 45
58322388 CCGAATTCAT
* *
58322398 TCACCGGTATT-TCGCCTGCTAGGCTC-AAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
58322441 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
58322486 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
58322526 GTATTGTACA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
43 10 0.12
44 14 0.17
45 57 0.70
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:58336313 original size:41 final size:41
Alignment explanation
Indices: 58336268--58336385 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58336258 TGAAAGATAA
58336268 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58336309 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58336339 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58336380 ATGTAG
1 ATGTAG
58336386 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:58336324 original size:71 final size:71
Alignment explanation
Indices: 58336236--58336399 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58336226 GAGATGTATC
58336236 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58336301 AGGACA
66 AGGACA
58336307 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58336372 AGGACA
66 AGGACA
58336378 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58336400 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:58343892 original size:41 final size:41
Alignment explanation
Indices: 58343847--58343964 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58343837 TGAAAGATAA
58343847 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58343888 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58343918 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58343959 ATGTAG
1 ATGTAG
58343965 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:58343903 original size:71 final size:71
Alignment explanation
Indices: 58343815--58343978 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58343805 GAGATGTATC
58343815 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58343880 AGGACA
66 AGGACA
58343886 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58343951 AGGACA
66 AGGACA
58343957 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58343979 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:58359282 original size:29 final size:29
Alignment explanation
Indices: 58359147--58359281 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
58359137 GCTTGGAAGG
58359147 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
58359176 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
58359205 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
58359234 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
58359263 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
58359282 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:58362954 original size:40 final size:40
Alignment explanation
Indices: 58362892--58363112 Score: 218
Period size: 40 Copynumber: 5.5 Consensus size: 40
58362882 TATTCGAATG
* ** * *
58362892 ATATCCGGGCTAATTCCCGAAGGCTTTTGTGCTAGTGATT
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * *
58362932 ATATCCAGACTAAGATCAGAAGGCATATGTGCGAGTTGA-T
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
58362972 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
58363012 ATATCC-GAGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGA-CTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
58363052 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCTAG-TGACT
58363092 ATATCCGG-CTAA-ATCCCGAAG
1 ATATCCGGACTAAGA-CCCGAAG
58363113 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 129 0.86
41 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGACTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:58363095 original size:80 final size:80
Alignment explanation
Indices: 58362892--58363112 Score: 272
Period size: 80 Copynumber: 2.8 Consensus size: 80
58362882 TATTCGAATG
** * *
58362892 ATATCCGGGCTAATTCCCGAAGGCTTTTGTGCTAGTGATTATATCC-AGACTAAGAT-CAGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGAG-CTAAG-TCCCGAAGG
*
58362955 CATATGTGCGAGTTGAT
64 CATATATGCGAGTTGAT
* *
58362972 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGAGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGAGCTAAGTCCCGAAGGCA
* *
58363037 TTTATGCTAG-TGACT
66 TATATGCGAGTTGA-T
* *
58363052 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCG-GCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATCCGAGCTAAGTCCCGAAG
58363113 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 17 0.14
80 104 0.84
81 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGAGCTAAGTCCCGAAGGCA
TATATGCGAGTTGAT
Found at i:58363380 original size:22 final size:22
Alignment explanation
Indices: 58363340--58363381 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
58363330 GAATGTGCAT
*
58363340 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
58363362 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
58363382 TCAAACTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:58364668 original size:105 final size:105
Alignment explanation
Indices: 58364536--58365213 Score: 715
Period size: 105 Copynumber: 6.5 Consensus size: 105
58364526 GTTCATAAAC
* * * * * *
58364536 TTAAGATCACAACCTATCTATCTTTGAGTTAGCTGATTTAAGATTGCAACTCTTAAACAACTTGA
1 TTAAGATCGCAACCTATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTAAATAGCTCGA
* *
58364601 TGACCTACGTTCACAACTAATATTATAAAGGTTAGTTGAT
66 TGACCTACGTTCACAACTGATATTATAAAGGTTAGCTGAT
* * * * *
58364641 CTAATATCGCAACCTATCTATCTTTGAGTTAGTTGATTTAAGATCGTAGCTCCTAAATAGCTCGA
1 TTAAGATCGCAACCTATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTAAATAGCTCGA
* *
58364706 TGACCTACGTTCACAGA-TGATATTATAAAGCTTGGCTGAT
66 TGACCTACGTTCACA-ACTGATATTATAAAGGTTAGCTGAT
** * * * * *
58364746 TTAAGATCATAGCCTATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACGCCCAAACAACTCGA
1 TTAAGATCGCAACCTATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTAAATAGCTCGA
* **
58364811 TGACCTATGTTCACAGTTGATATTATAAAGGTTAGCTGAT
66 TGACCTACGTTCACAACTGATATTATAAAGGTTAGCTGAT
** * * * * * *
58364851 TTAATTTTGCAACCTATCTATCTTTGAGTTAGCTAATTTAATATCACAGCTCTTAAATAGCTCGA
1 TTAAGATCGCAACCTATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTAAATAGCTCGA
*
58364916 TGACCTACGTTCACAACTGATATTATAAAGGGTAG-TAGAT
66 TGACCTACGTTCACAACTGATATTATAAAGGTTAGCT-GAT
* * *
58364956 TTAAGATCGCAACCTATCTATCTTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCTTGC
1 TTAAGATCGCAACCTATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTAAATAGCTCGA
* * * * *
58365021 TGACCTATGTTCATAGCTGATGTTATAAAGGTTATCTGAT
66 TGACCTACGTTCACAACTGATATTATAAAGGTTAGCTGAT
** * * * * *
58365061 TTAAGATCAG-AACCTAAGTTTATTTGAGTTCA-CTGATTTAAGATCACAACTCC-CAATAGCTT
1 TTAAGATC-GCAACCTATCTATCTTTGAGTT-AGCTGATTTAAGATCGCAACTCCTAAATAGCTC
* * ** * * * *
58365123 GCTGACCTACGCTCACAGTTGATATTATTAAGGCTCGTTGAT
64 GATGACCTACGTTCACAACTGATATTATAAAGGTTAGCTGAT
*
58365165 TTAAGATCACAACGTCTAAT-TA--TTTGAGTTAGCTGATTTAAGATCGCAA
1 TTAAGATCGCAAC--CT-ATCTATCTTTGAGTTAGCTGATTTAAGATCGCAA
58365214 TTTTGAACAG
Statistics
Matches: 474, Mismatches: 88, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
103 1 0.00
104 76 0.16
105 389 0.82
106 7 0.01
107 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (105 bp):
TTAAGATCGCAACCTATCTATCTTTGAGTTAGCTGATTTAAGATCGCAACTCCTAAATAGCTCGA
TGACCTACGTTCACAACTGATATTATAAAGGTTAGCTGAT
Found at i:58365064 original size:315 final size:314
Alignment explanation
Indices: 58364545--58365155 Score: 846
Period size: 315 Copynumber: 1.9 Consensus size: 314
58364535 CTTAAGATCA
* ** *
58364545 CAACCTATCTATCTTTGAGTTAGCTGATTTAAGATTGCAACTCTTAAACAACTTGATGACCTACG
1 CAACCTATCTATCTTTGAGTTAGCTAATTTAAGATCACAACTCTTAAACAACTCGATGACCTACG
* * *
58364610 TTCACAACTAATATTATAAAGGTTAGTTGATCTAATATCGCAACCTATCTATCTTTGAGTTAGTT
66 TTCACAACTAATATTATAAAGGGTAGTAGATCTAAGATCGCAACCTATCTATCTTTGAGTTAGTT
* * *
58364675 GATTTAAGATCGTAGCTCCTAAATAGCTCGATGACCTACGTTCACAGATGATATTATAAAGCTTG
131 GATTTAAGATCGCAACTCCTAAATAGCTCGATGACCTACGTTCACAGATGATATTATAAAGCTTA
* * * * *
58364740 GCTGATTTAAGATCATAGCCTATCTATCTTTGAGTT-AGCTGATTTAAGATCGCAACGCCCAAAC
196 GCTGATTTAAGATCAGAACCTAACTATATTTGAGTTCA-CTGATTTAAGATCACAACGCCC-AAC
* *
58364804 AACTCGATGACCTATGTTCACAGTTGATATTATAAAGGTTAGCTGATTTAATTTTG
259 AACTCGATGACCTACGCTCACAGTTGATATTATAAAGGTTAGCTGATTTAATTTTG
* * * *
58364860 CAACCTATCTATCTTTGAGTTAGCTAATTTAATATCACAGCTCTTAAATAGCTCGATGACCTACG
1 CAACCTATCTATCTTTGAGTTAGCTAATTTAAGATCACAACTCTTAAACAACTCGATGACCTACG
* *
58364925 TTCACAACTGATATTATAAAGGGTAGTAGATTTAAGATCGCAACCTATCTATCTTTGAGTTAGTT
66 TTCACAACTAATATTATAAAGGGTAGTAGATCTAAGATCGCAACCTATCTATCTTTGAGTTAGTT
* * * * * * *
58364990 GATTTAAGATCGCAACTCCTAAATAGCTTGCTGACCTATGTTCATAGCTGATGTTATAAAGGTTA
131 GATTTAAGATCGCAACTCCTAAATAGCTCGATGACCTACGTTCACAGATGATATTATAAAGCTTA
* * * * * *
58365055 TCTGATTTAAGATCAGAACCTAAGTTTATTTGAGTTCACTGATTTAAGATCACAACTCCCAATAG
196 GCTGATTTAAGATCAGAACCTAACTATATTTGAGTTCACTGATTTAAGATCACAACGCCCAACAA
* * *
58365120 CTTGCTGACCTACGCTCACAGTTGATATTATTAAGG
261 CTCGATGACCTACGCTCACAGTTGATATTATAAAGG
58365156 CTCGTTGATT
Statistics
Matches: 256, Mismatches: 39, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
314 34 0.13
315 221 0.86
316 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (314 bp):
CAACCTATCTATCTTTGAGTTAGCTAATTTAAGATCACAACTCTTAAACAACTCGATGACCTACG
TTCACAACTAATATTATAAAGGGTAGTAGATCTAAGATCGCAACCTATCTATCTTTGAGTTAGTT
GATTTAAGATCGCAACTCCTAAATAGCTCGATGACCTACGTTCACAGATGATATTATAAAGCTTA
GCTGATTTAAGATCAGAACCTAACTATATTTGAGTTCACTGATTTAAGATCACAACGCCCAACAA
CTCGATGACCTACGCTCACAGTTGATATTATAAAGGTTAGCTGATTTAATTTTG
Found at i:58377861 original size:46 final size:46
Alignment explanation
Indices: 58377811--58377986 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
58377801 TGGTTGAGCA
58377811 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58377857 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58377902 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
58377950 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58377987 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58377967 original size:93 final size:93
Alignment explanation
Indices: 58377808--58377979 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
58377798 GGATGGTTGA
* *
58377808 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58377873 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
58377901 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
58377966 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
58377980 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58389445 original size:2 final size:2
Alignment explanation
Indices: 58389438--58389464 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58389428 TGTTAAAGAA
58389438 AT 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 AT A
58389465 AAGAATAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58392649 original size:19 final size:19
Alignment explanation
Indices: 58392614--58392650 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58392604 TTTGCATGAC
*
58392614 ATTTAATTTAAATTTTAGA
1 ATTTAATTTAAACTTTAGA
*
58392633 ATTTAATTTGAACTTTAG
1 ATTTAATTTAAACTTTAG
58392651 GATATTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (19 bp):
ATTTAATTTAAACTTTAGA
Found at i:58394749 original size:24 final size:24
Alignment explanation
Indices: 58394692--58394743 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
58394682 TTTCTAGAGG
* * * *
58394692 ATTTAGTATTTATTAATATAATAT
1 ATTTAGCATTTACTAACATAACAT
58394716 ATTTAGCATTTACTAACATAACAT
1 ATTTAGCATTTACTAACATAACAT
58394740 ATTT
1 ATTT
58394744 GACATTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTACTAACATAACAT
Found at i:58401834 original size:46 final size:45
Alignment explanation
Indices: 58401784--58401956 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
58401774 TGGTTGAGCA
58401784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
58401830 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
58401875 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
58401923 -CCTGAGCTCGTTGATTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58401957 GGGACGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 57 0.54
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:58401942 original size:93 final size:93
Alignment explanation
Indices: 58401781--58401951 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
58401771 GGATGGTTGA
*
58401781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
58401846 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
58401874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCTGAGCTCGTTGAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
58401938 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
58401952 ACTTAGGGAC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:58405221 original size:14 final size:15
Alignment explanation
Indices: 58405202--58405230 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58405192 TCATTAAAGT
58405202 TTCACACAT-ATAAA
1 TTCACACATAATAAA
58405216 TTCACACATAATAAA
1 TTCACACATAATAAA
58405231 CACATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:58406487 original size:27 final size:26
Alignment explanation
Indices: 58406418--58406531 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 26
58406408 AGCATGGCTG
* * *
58406418 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
58406444 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
58406471 CCAGAACAGATATTTGTGGC-GTAGCCA
1 CCAGAACAGATA-TTGTGGCAG-AGCCA
* * *
58406498 TCAGAAACAAATGTTTGTGGCA-AGCCA
1 CCAG-AACAGAT-ATTGTGGCAGAGCCA
*
58406525 CTAGAAC
1 CCAGAAC
58406532 GTTTCCTCCA
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
26 16 0.22
27 45 0.61
28 13 0.18
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:58410982 original size:39 final size:40
Alignment explanation
Indices: 58410939--58411104 Score: 142
Period size: 39 Copynumber: 4.2 Consensus size: 40
58410929 CGGAATTTAG
* *
58410939 CCGGATATAACCACAAGCACAATTGCCTTC-GGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
**** * *
58410978 CCGGAT-TTGGTATCTTGCACAAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCA-CTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
58411017 CCGGATATGACAACTCGCACGAATGCCTTCGGGTCTT-AG
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
58411056 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
58411096 CCGGATATA
1 CCGGATATA
58411105 TTCAAATGCT
Statistics
Matches: 98, Mismatches: 25, Indels: 7
0.75 0.19 0.05
Matches are distributed among these distances:
38 2 0.02
39 79 0.81
40 17 0.17
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:58419036 original size:40 final size:40
Alignment explanation
Indices: 58418987--58419158 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
58418977 TCTTCGGAAT
* *
58418987 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
58419026 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
58419066 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
58419106 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
58419146 TTAGCCCGGATAT
1 TTAGCCCGGATAT
58419159 GATTCAAATG
Statistics
Matches: 108, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 5 0.05
40 101 0.94
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:58422541 original size:46 final size:46
Alignment explanation
Indices: 58422473--58422609 Score: 177
Period size: 46 Copynumber: 3.0 Consensus size: 46
58422463 TATATATACA
* * *
58422473 CATCTCATACATATCTCACATTAGCCA-TCTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTC-GGCTTTACCACATATC
* * *
58422519 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
58422565 TATCTCATACACATTTCGCATTAGCCATTCAGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
58422610 ATACATGTTC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 76 0.97
47 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:58422640 original size:47 final size:47
Alignment explanation
Indices: 58422583--58422774 Score: 260
Period size: 47 Copynumber: 4.1 Consensus size: 47
58422573 ACACATTTCG
* * * **
58422583 CATTAGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
58422630 CATCGGCCATT-AGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCA-GCCTTATCACACATACGCATGTTCACATTCATCA
* * *
58422677 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCAAATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
58422724 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
58422771 CATT
1 CATT
58422775 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
46 1 0.01
47 128 0.99
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:58425942 original size:40 final size:40
Alignment explanation
Indices: 58425910--58426300 Score: 595
Period size: 40 Copynumber: 9.8 Consensus size: 40
58425900 CCAGCATGAT
* * * *
58425910 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* ** * *
58425950 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
58425990 TGCTCTTCGGAACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
58426030 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
58426069 TGCTCTTCGGAACTTAGCCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
58426109 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
58426149 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58426189 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58426229 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
58426269 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
58426301 CTCAATTCTC
Statistics
Matches: 318, Mismatches: 32, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.11
40 284 0.89
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:58427855 original size:46 final size:46
Alignment explanation
Indices: 58427788--58427924 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
58427778 TATATATACA
* * *
58427788 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
58427834 CATCTCATACACGTTTCACATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
58427880 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
58427925 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:58427963 original size:47 final size:47
Alignment explanation
Indices: 58427898--58428089 Score: 276
Period size: 47 Copynumber: 4.1 Consensus size: 47
58427888 ACACATTTCG
* * * * **
58427898 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
* * * *
58427945 CATCGGCCATTCGACCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
* *
58427992 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
58428039 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
58428086 CATT
1 CATT
58428090 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
Found at i:58428041 original size:23 final size:23
Alignment explanation
Indices: 58428014--58428088 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
58428004 GGCCTTATCG
58428014 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** *
58428037 CACATTGGCCA--TTCGACCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
58428059 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
58428084 CACAT
1 CACAT
58428089 TAAAATCCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 5 0.13
23 17 0.44
24 12 0.31
25 5 0.13
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:58433252 original size:40 final size:40
Alignment explanation
Indices: 58433159--58433376 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
58433149 AAGCCAAGTA
* * * *
58433159 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTTGCACAAATG
* * *
58433197 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
58433237 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
* * **
58433277 CCTTCGGGACTTAGCCCGGATGTAATAACTTGCGTAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
*
58433317 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--TGCACAAATG
58433358 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58433377 TTATCATCCA
Statistics
Matches: 158, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 102 0.65
41 24 0.15
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
Found at i:58441239 original size:40 final size:40
Alignment explanation
Indices: 58441134--58441374 Score: 362
Period size: 40 Copynumber: 6.0 Consensus size: 40
58441124 CGGATGATAA
* *
58441134 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
58441174 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58441213 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58441253 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58441293 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
58441333 CCAGGCTAAGTCTCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
58441373 CC
1 CC
58441375 AGCTAAATTC
Statistics
Matches: 186, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 37 0.20
40 149 0.80
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58441352 original size:120 final size:119
Alignment explanation
Indices: 58441130--58441357 Score: 379
Period size: 119 Copynumber: 1.9 Consensus size: 119
58441120 TATTCGGATG
*
58441130 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* *
58441195 TTGTGCGAGTTACTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCAGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
*
58441249 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
58441313 ATTTGTGCGAGTTACTATAACCAGGCTAAGT-CTCGAAGGCATTTG
64 ATTTGTGCGAGTTACTATAACCAGGCTAAGTCCT-GAAGGCATTTG
58441358 AGCAAGTAGC
Statistics
Matches: 102, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
118 2 0.02
119 51 0.50
120 49 0.48
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATAACCAGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
Found at i:58442937 original size:30 final size:30
Alignment explanation
Indices: 58442903--58442965 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
58442893 ACTTAACAAG
58442903 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
58442933 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
58442963 CAA
1 CAA
58442966 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:58448852 original size:23 final size:23
Alignment explanation
Indices: 58448826--58448869 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
58448816 AATCTCTGGC
*
58448826 ATGAACAGTGAAGATTCTTTGCG
1 ATGAACAATGAAGATTCTTTGCG
*
58448849 ATGAAGAATGAAGATTCTTTG
1 ATGAACAATGAAGATTCTTTG
58448870 AAAAAATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (23 bp):
ATGAACAATGAAGATTCTTTGCG
Found at i:58449116 original size:17 final size:17
Alignment explanation
Indices: 58449096--58449137 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
58449086 TTGTTTCTCT
* *
58449096 AAAAATTTTTAGCTTTC
1 AAAAATTTCTAGCTTTA
58449113 AAAAATTTCTAGCTTTA
1 AAAAATTTCTAGCTTTA
58449130 AAAAATTT
1 AAAAATTT
58449138 AAGTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (17 bp):
AAAAATTTCTAGCTTTA
Found at i:58449497 original size:15 final size:15
Alignment explanation
Indices: 58449477--58449510 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
58449467 AGAACCAATT
58449477 CTTCTGCAGGCTTTG
1 CTTCTGCAGGCTTTG
58449492 CTTCTGCAGGCTTTG
1 CTTCTGCAGGCTTTG
58449507 CTTC
1 CTTC
58449511 CAATCAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.29, G:0.24, T:0.41
Consensus pattern (15 bp):
CTTCTGCAGGCTTTG
Found at i:58452495 original size:2 final size:2
Alignment explanation
Indices: 58452483--58452540 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
58452473 AAAGTGAAAG
*
58452483 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58452525 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
58452541 GTCATATAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:58457353 original size:28 final size:28
Alignment explanation
Indices: 58457304--58457419 Score: 83
Period size: 28 Copynumber: 4.1 Consensus size: 28
58457294 ACACGTAAGG
* * *
58457304 GTTCGCACTTAGAGTTCTCACATA-CAAA
1 GTTCGCACCTAGGGTTCGCACA-AGCAAA
* * **
58457332 GTTCGCACCTAGGGTTTGCACAAGTAGG
1 GTTCGCACCTAGGGTTCGCACAAGCAAA
* * **
58457360 GTTCACACCTAGGGTTCGCACAAGTAGG
1 GTTCGCACCTAGGGTTCGCACAAGCAAA
*
58457388 GTTCGCACCTAGGGGTTCACACATA-CAAA
1 GTTCGCACCTA-GGGTTCGCACA-AGCAAA
58457417 GTT
1 GTT
58457420 TGCATAGATA
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
27 1 0.01
28 55 0.77
29 14 0.20
30 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (28 bp):
GTTCGCACCTAGGGTTCGCACAAGCAAA
Found at i:58457361 original size:15 final size:15
Alignment explanation
Indices: 58457341--58457395 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
58457331 AGTTCGCACC
*
58457341 TAGGGTTTGCACAAG
1 TAGGGTTCGCACAAG
**
58457356 TAGGGTT--CACACC
1 TAGGGTTCGCACAAG
58457369 TAGGGTTCGCACAAG
1 TAGGGTTCGCACAAG
58457384 TAGGGTTCGCAC
1 TAGGGTTCGCAC
58457396 CTAGGGGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.32
15 23 0.68
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (15 bp):
TAGGGTTCGCACAAG
Found at i:58464581 original size:27 final size:27
Alignment explanation
Indices: 58464550--58464651 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
58464540 CCTTATTCAT
58464550 GTAAAATGACTGTTTTGCCCTCATGA-G
1 GTAAAATGACTGTTTTGCCCTCAT-ATG
* *
58464577 GTAAAATAACTGTTTTGCCCTTATATG
1 GTAAAATGACTGTTTTGCCCTCATATG
***
58464604 GTAAAATGACTGAAATGCCC-CTATATG
1 GTAAAATGACTGTTTTGCCCTC-ATATG
*
58464631 GTAAAATGATTGTTTTGCCCT
1 GTAAAATGACTGTTTTGCCCT
58464652 ATGTGCTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAAAATGACTGTTTTGCCCTCATATG
Found at i:58465368 original size:14 final size:14
Alignment explanation
Indices: 58465346--58465383 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
58465336 AATAAGGCCT
*
58465346 CTTTAAATTTTTAA
1 CTTTTAATTTTTAA
58465360 CTTTTAATTTTTAA
1 CTTTTAATTTTTAA
58465374 CTTTTAATTT
1 CTTTTAATTT
58465384 GGGATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (14 bp):
CTTTTAATTTTTAA
Found at i:58469088 original size:12 final size:12
Alignment explanation
Indices: 58469071--58469098 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58469061 CTACACGGCC
58469071 GTGTGGTAGGCT
1 GTGTGGTAGGCT
58469083 GTGTGGTAGGCT
1 GTGTGGTAGGCT
58469095 GTGT
1 GTGT
58469099 AAGGGGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.50, T:0.36
Consensus pattern (12 bp):
GTGTGGTAGGCT
Found at i:58469299 original size:33 final size:33
Alignment explanation
Indices: 58469243--58469466 Score: 301
Period size: 33 Copynumber: 6.8 Consensus size: 33
58469233 CTGGGCTAAG
**
58469243 CCGTGTGATCCACACGGCCAAGGCCAATTTGGA
1 CCGTGTGGGCCACACGGCCAAGGCCAATTTGGA
* *
58469276 CAAG-GTGGGCCACACGGCTAAGGCCAATTTGGA
1 C-CGTGTGGGCCACACGGCCAAGGCCAATTTGGA
* *
58469309 CAAG-GTGGGCCACACAGCCAAGGCCAATTTGGA
1 C-CGTGTGGGCCACACGGCCAAGGCCAATTTGGA
58469342 CCGTGTGGGCCACACGGCCAAGGCCAATTTGGA
1 CCGTGTGGGCCACACGGCCAAGGCCAATTTGGA
*
58469375 CCGTGTGGGCCACACGGCCAAGGCCAATTTAGA
1 CCGTGTGGGCCACACGGCCAAGGCCAATTTGGA
* * *
58469408 CCGTGTAGGCCACACGACCAAGGCCAATTTAGA
1 CCGTGTGGGCCACACGGCCAAGGCCAATTTGGA
*
58469441 CCGTGTGGGTCCACACGGGC-AGGCCA
1 CCGTGTGGG-CCACACGGCCAAGGCCA
58469467 TATGGGCGTG
Statistics
Matches: 174, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
32 1 0.01
33 164 0.94
34 9 0.05
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (33 bp):
CCGTGTGGGCCACACGGCCAAGGCCAATTTGGA
Found at i:58477239 original size:80 final size:80
Alignment explanation
Indices: 58477155--58477303 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
58477145 TATGGTAACC
* * * *
58477155 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
58477219 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
58477235 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
58477300 CCGG
66 CCGG
58477304 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:58477245 original size:40 final size:38
Alignment explanation
Indices: 58477196--58477303 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
58477186 ATCACGATTT
*
58477196 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
58477236 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
58477276 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
58477304 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:58485268 original size:38 final size:37
Alignment explanation
Indices: 58485220--58485325 Score: 133
Period size: 38 Copynumber: 2.8 Consensus size: 37
58485210 TATCACGATT
58485220 TGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATG-AC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATAAA-GCAC
**
58485258 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATAAAGCAC
*
58485296 TAGCACAATTGCCTTCGGGTCTTAACCCGG
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGG
58485326 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
37 1 0.02
38 36 0.59
39 24 0.39
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (37 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATAAAGCAC
Found at i:58485325 original size:39 final size:37
Alignment explanation
Indices: 58485220--58485367 Score: 136
Period size: 39 Copynumber: 3.8 Consensus size: 37
58485210 TATCACGATT
58485220 TGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATGAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATAAATGAC
**
58485258 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-GCAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATAAATG-AC
* * **
58485296 TAGCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTC
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGGATA-AATGAC
* * * *
58485336 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 TGCACAA-TGCCTTCGGGTCTTAGCCCGGATA
58485368 TCATTCAATT
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.01
38 36 0.40
39 51 0.57
40 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (37 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATAAATGAC
Found at i:58488067 original size:29 final size:29
Alignment explanation
Indices: 58487975--58488056 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
58487965 TGACGAGATC
58487975 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
58488004 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
58488033 GGCACTAAGTGTGCAAGCTGGAAA
1 GGCACTAAGTGTGCGTGCTGGAAA
58488057 AATACGACAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:58492731 original size:11 final size:11
Alignment explanation
Indices: 58492715--58492740 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58492705 ATTTTGGGAA
58492715 AAAATAAAAAT
1 AAAATAAAAAT
58492726 AAAATAAAAAT
1 AAAATAAAAAT
58492737 AAAA
1 AAAA
58492741 AAATAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:58492787 original size:8 final size:8
Alignment explanation
Indices: 58492774--58492798 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58492764 TACATTTTCT
58492774 CCCACTAA
1 CCCACTAA
58492782 CCCACTAA
1 CCCACTAA
58492790 CCCACTAA
1 CCCACTAA
58492798 C
1 C
58492799 TCATAACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (8 bp):
CCCACTAA
Found at i:58493503 original size:35 final size:35
Alignment explanation
Indices: 58493452--58493659 Score: 308
Period size: 35 Copynumber: 5.9 Consensus size: 35
58493442 TTTTTATATT
* *
58493452 CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
1 CTTTAAATGTTCATGTAAGTTATGATTATCATTAA
*
58493487 CTTTAAATGCTCATGTAAGTTATGATTATCATTAA
1 CTTTAAATGTTCATGTAAGTTATGATTATCATTAA
58493522 CTTTAAATGTTCATGTAAGTTATGATTATCATTAA
1 CTTTAAATGTTCATGTAAGTTATGATTATCATTAA
58493557 CTTTAAATGTTCATGTAAGTTATGATTATCATTAA
1 CTTTAAATGTTCATGTAAGTTATGATTATCATTAA
* * * * * *
58493592 CCTTAAATGTTTATCTGAGTTATGCTAATCATTAA
1 CTTTAAATGTTCATGTAAGTTATGATTATCATTAA
* * *
58493627 CTTCAAATGTTTATTTAAGTTATGATTATCATT
1 CTTTAAATGTTCATGTAAGTTATGATTATCATT
58493660 TTTTATCACC
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 157 1.00
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTCATGTAAGTTATGATTATCATTAA
Found at i:58493903 original size:59 final size:59
Alignment explanation
Indices: 58493784--58494055 Score: 372
Period size: 59 Copynumber: 4.7 Consensus size: 59
58493774 TAAATGAATG
*
58493784 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATGTGATTATTTA--T-
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * *
58493840 -TTAATCAAAAAGTAATTAATTATTCATAATATTATTATGAAATATGGTTATTTATTAA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* **
58493898 ATTAATCAAAAATTAATTAATTATTCATAGAATTATTATGAAATATGATTAGATATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
58493957 ATTAATCGAAAATTAATTAATTATTCATAAAATTAATATGAAATATGAATATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* ** * *
58494016 ATTAATCAAGAATTCTTTAATTATTCAAAAAAATATTATG
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATG
58494056 GATACGTTAT
Statistics
Matches: 187, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
55 50 0.27
59 137 0.73
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (59 bp):
ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
Found at i:58493978 original size:19 final size:20
Alignment explanation
Indices: 58493954--58493993 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
58493944 GATTAGATAT
58493954 TTAATTAATC-GAAAATTAA
1 TTAATTAATCAGAAAATTAA
* *
58493973 TTAATTATTCATAAAATTAA
1 TTAATTAATCAGAAAATTAA
58493993 T
1 T
58493994 ATGAAATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TTAATTAATCAGAAAATTAA
Found at i:58496143 original size:40 final size:40
Alignment explanation
Indices: 58496097--58496281 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
58496087 CTTGCACAAG
* *
58496097 GCCTTCGGGTCTTAGCCCGGATACAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
58496137 GCCTTCGGGACTCAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
58496177 GCCTTCGGGTTTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
58496217 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
58496258 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58496282 CATTCGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 90 0.75
41 29 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58498878 original size:25 final size:25
Alignment explanation
Indices: 58498823--58498893 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
58498813 ACTATCGACA
* *
58498823 ACGATGCAGCAAAGGACTATCAACG
1 ACGATGCAGCAGAGGACTGTCAACG
*
58498848 ATGATGCAGCAGAGGACTGTCAACG
1 ACGATGCAGCAGAGGACTGTCAACG
* * *
58498873 GCGATGCGGCAGAGGATTGTC
1 ACGATGCAGCAGAGGACTGTC
58498894 GGCAGCAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.32, T:0.15
Consensus pattern (25 bp):
ACGATGCAGCAGAGGACTGTCAACG
Found at i:58498878 original size:28 final size:25
Alignment explanation
Indices: 58498799--58498872 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
58498789 ACTTACACGG
* * * *
58498799 TGATGCAGAAAAAGACTATCGACAA
1 TGATGCAGCAAAGGACTATCAACGA
*
58498824 CGATGCAGCAAAGGACTATCAACGA
1 TGATGCAGCAAAGGACTATCAACGA
* *
58498849 TGATGCAGCAGAGGACTGTCAACG
1 TGATGCAGCAAAGGACTATCAACG
58498873 GCGATGCGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (25 bp):
TGATGCAGCAAAGGACTATCAACGA
Found at i:58499135 original size:19 final size:20
Alignment explanation
Indices: 58499092--58499137 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
58499082 CGAAAGCTTT
58499092 AGAAAACC-TTCTATTTTAG
1 AGAAAACCATTCTATTTTAG
*
58499111 -GAAAACCATT-TGTTTTAG
1 AGAAAACCATTCTATTTTAG
58499129 AGAAAACCA
1 AGAAAACCA
58499138 AATCTTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (20 bp):
AGAAAACCATTCTATTTTAG
Found at i:58508028 original size:27 final size:26
Alignment explanation
Indices: 58507985--58508061 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 26
58507975 CATAATCGTC
*
58507985 ATTTTACCTACAGGGGTATTACGGTT
1 ATTTTACCTACAGGGGTATTACGGTA
58508011 ATTTTACCTTACAGGGGTATTACGGTA
1 ATTTTACC-TACAGGGGTATTACGGTA
* *
58508038 ATTTTACCCTATAGGGGCATTACG
1 ATTTTA-CCTACAGGGGTATTACG
58508062 ATCAGATAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.17
27 36 0.78
28 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (26 bp):
ATTTTACCTACAGGGGTATTACGGTA
Found at i:58511454 original size:40 final size:38
Alignment explanation
Indices: 58511380--58511454 Score: 96
Period size: 40 Copynumber: 1.9 Consensus size: 38
58511370 CATTTGGGGA
* *
58511380 ATTAATTTGGGGAAAAAATAAGGGATTTGGGGAAAATG
1 ATTAATTTGGGAAAAAAATAAGGGATTTGAGGAAAATG
* *
58511418 ATTAATTTAGGGAAAAAAACTAGGGGATTTTAGGAAA
1 ATTAATTT-GGGAAAAAAA-TAAGGGATTTGAGGAAA
58511455 CTGGGGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 8 0.26
39 9 0.29
40 14 0.45
ACGTcount: A:0.44, C:0.01, G:0.28, T:0.27
Consensus pattern (38 bp):
ATTAATTTGGGAAAAAAATAAGGGATTTGAGGAAAATG
Found at i:58511582 original size:40 final size:40
Alignment explanation
Indices: 58511515--58511639 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 40
58511505 AGGATATTCA
*
58511515 CGGTGTTTATGGGAAAAATGCTTCTATTGCTTTA-CTTTTAG
1 CGGTGTTTAT-GAAAAAATGCTTCTATTGCTTTACCTTTT-G
58511556 CGGTGTTTATGAAAAAATG-TTGCTATTGCTTTACCTTTTG
1 CGGTGTTTATGAAAAAATGCTT-CTATTGCTTTACCTTTTG
** * * ** * *
58511596 CAATGTTTATGCAAAAACGCCACTACTGCTTTACCTTTTA
1 CGGTGTTTATGAAAAAATGCTTCTATTGCTTTACCTTTTG
58511636 CGGT
1 CGGT
58511640 ATTTTTCTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.03
40 53 0.76
41 15 0.21
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (40 bp):
CGGTGTTTATGAAAAAATGCTTCTATTGCTTTACCTTTTG
Found at i:58513041 original size:32 final size:32
Alignment explanation
Indices: 58513000--58513066 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
58512990 ACTTATCACA
58513000 ATTGAGTAGAAAAGATAAATGAATCGAATGAT
1 ATTGAGTAGAAAAGATAAATGAATCGAATGAT
58513032 ATTGAGTAGAAAAGATAAATGAATCGAATGAT
1 ATTGAGTAGAAAAGATAAATGAATCGAATGAT
58513064 ATT
1 ATT
58513067 TTGAGAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.21, T:0.27
Consensus pattern (32 bp):
ATTGAGTAGAAAAGATAAATGAATCGAATGAT
Found at i:58513064 original size:16 final size:16
Alignment explanation
Indices: 58513013--58513064 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
58513003 GAGTAGAAAA
58513013 GATAAATGAATCGAAT
1 GATAAATGAATCGAAT
* * * *
58513029 GAT-ATTGAGTAGAAAA
1 GATAAATGAATCG-AAT
58513045 GATAAATGAATCGAAT
1 GATAAATGAATCGAAT
58513061 GATA
1 GATA
58513065 TTTTGAGAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 6 0.23
16 14 0.54
17 6 0.23
ACGTcount: A:0.50, C:0.04, G:0.21, T:0.25
Consensus pattern (16 bp):
GATAAATGAATCGAAT
Found at i:58516989 original size:16 final size:16
Alignment explanation
Indices: 58516968--58516998 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
58516958 ACAAATAGTC
58516968 CAATTTACTTCCTCAA
1 CAATTTACTTCCTCAA
58516984 CAATTTACTTCCTCA
1 CAATTTACTTCCTCA
58516999 GCAAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (16 bp):
CAATTTACTTCCTCAA
Found at i:58520254 original size:27 final size:26
Alignment explanation
Indices: 58520212--58520317 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
58520202 CTCTAATTGA
* *
58520212 TAAAATGACTATTTTGTCTTTATGTGG
1 TAAAATGACTA-TTTGCCCTTATGTGG
*
58520239 TAAAATGACTGATTTGCCCTTATTTGG
1 TAAAATGACT-ATTTGCCCTTATGTGG
* *
58520266 TAAAATGACTATTTTGCCCCTATATGG
1 TAAAATGACTA-TTTGCCCTTATGTGG
* * *
58520293 TAAGATAACTGTTTTG-CCTTATGTG
1 TAAAATGACT-ATTTGCCCTTATGTG
58520318 ATGTATATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.12
27 57 0.86
28 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (26 bp):
TAAAATGACTATTTGCCCTTATGTGG
Found at i:58520294 original size:54 final size:53
Alignment explanation
Indices: 58520212--58520314 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 53
58520202 CTCTAATTGA
* ** * *
58520212 TAAAATGACTATTTTGTCTTTATGTGGTAAAATGACTGATTTGCCCTTATTTGG
1 TAAAATGACTATTTTGCCCCTATATGGTAAAATAACTGATTTG-CCTTATTTGG
* *
58520266 TAAAATGACTATTTTGCCCCTATATGGTAAGATAACTGTTTTGCCTTAT
1 TAAAATGACTATTTTGCCCCTATATGGTAAAATAACTGATTTGCCTTAT
58520315 GTGATGTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 6 0.14
54 36 0.86
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.43
Consensus pattern (53 bp):
TAAAATGACTATTTTGCCCCTATATGGTAAAATAACTGATTTGCCTTATTTGG
Found at i:58523959 original size:27 final size:27
Alignment explanation
Indices: 58523929--58524035 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
58523919 ACCCTAATTA
*
58523929 GTAAAATGACTGTTTTGCCCTTATGTG
1 GTAAAATGACTATTTTGCCCTTATGTG
* *
58523956 GTAAAATGATTGTTTTGCCCTTATGTG
1 GTAAAATGACTATTTTGCCCTTATGTG
* *
58523983 GTAAAATGACTATTTTGCCCCTATATG
1 GTAAAATGACTATTTTGCCCTTATGTG
* *
58524010 GTAAGATGACTATTCTGCCC-TATGTG
1 GTAAAATGACTATTTTGCCCTTATGTG
58524036 ATGTATATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 5 0.07
27 67 0.93
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (27 bp):
GTAAAATGACTATTTTGCCCTTATGTG
Found at i:58525702 original size:20 final size:19
Alignment explanation
Indices: 58525670--58525723 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
58525660 GAGGAATGTG
58525670 TAAAAA-AATATAAATAGACA
1 TAAAAATAA-ATAAATAGA-A
* *
58525690 TGAAAATAAATAAAATGGAA
1 TAAAAATAAAT-AAATAGAA
58525710 TAAAAATAAATAAA
1 TAAAAATAAATAAA
58525724 AATTATACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.10
20 18 0.62
21 8 0.28
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (19 bp):
TAAAAATAAATAAATAGAA
Found at i:58525938 original size:17 final size:17
Alignment explanation
Indices: 58525907--58525939 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58525897 TTTAATTTTT
58525907 AAATTTTAAATTAAATC
1 AAATTTTAAATTAAATC
58525924 AAATATTTAAA-TAAAT
1 AAAT-TTTAAATTAAAT
58525940 AAAAGGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTTAAATTAAATC
Found at i:58526255 original size:20 final size:18
Alignment explanation
Indices: 58526228--58526287 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 18
58526218 GGCCGAATTT
58526228 TTTTTTTACAAAATCAAAA
1 TTTTTTTA-AAAATCAAAA
58526247 TTTTATTTAGAAAAAATCAATAA
1 TTTT-TTT---AAAAATCAA-AA
*
58526270 TTTTCTTAAAAATCAAAA
1 TTTTTTTAAAAATCAAAA
58526288 CCTTATTTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
18 2 0.06
19 13 0.37
20 3 0.09
22 10 0.29
23 7 0.20
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTTTTTAAAAATCAAAA
Found at i:58526412 original size:151 final size:149
Alignment explanation
Indices: 58526252--58526728 Score: 559
Period size: 152 Copynumber: 3.2 Consensus size: 149
58526242 CAAAATTTTA
* * * * * * *
58526252 TTTAGAAAAAATCAATAATTTTCTTAAAAATCAAAAC-CTTATTTCGAAATAGTTAAAAAAATCA
1 TTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAACTTTTATTT-GAAATAGTTAAAAAAATCA
* *
58526316 AAACTTTATTTTAAAAATTTAAACTTTCCTTTAAAATGACATAAAAAAAACATATATTTATTTTT
65 AAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAAC-TAAAAAAAACATATATTTATTTTT
58526381 CAAAATCTAAACTTTCTCCTT
129 CAAAATCTAAACTTTCTCCTT
* *
58526402 TTTAAAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAGTAGTTAAAAAAAA
1 TTT--AAAAAAAAACACTATTTTTCTTAAAGATTAAAACTTTTA-TTTGAAATAGTT---AAAAA
* *
58526467 AATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTGAAATAACT-AAAAAAACATATTTTTAT
60 AATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAACATATATTTAT
* * * *
58526531 TTTTTAAAATTTAAAGTTTTTCC-T
125 TTTTCAAAATCTAAACTTTCTCCTT
* * *
58526555 TTTAAAAAAACACACTATTTTTCTTAGAGATTAAAACTTTTACTTTGGAATAGTTAAAAAAATCA
1 TTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAACTTTTA-TTTGAAATAGTTAAAAAAATCA
* * * * ** * *
58526620 AAATTTTGTTTCAAAAATTTAAACTTTCTTTTAAAATAACTAAAAACTAGATTTTTATTTTTTTT
65 AAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAA--AAACATATA-TTTATTT
58526685 TTCAAAATCTAAACTTTCTCC-T
127 TTCAAAATCTAAACTTTCTCCTT
58526707 TTTAAAAAAAAA-ACTATTTTTC
1 TTTAAAAAAAAACACTATTTTTC
58526729 CCAATATCAA
Statistics
Matches: 278, Mismatches: 38, Indels: 21
0.82 0.11 0.06
Matches are distributed among these distances:
148 47 0.17
149 4 0.01
150 3 0.01
151 60 0.22
152 62 0.22
153 15 0.05
154 39 0.14
155 1 0.00
156 47 0.17
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (149 bp):
TTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAACTTTTATTTGAAATAGTTAAAAAAATCAA
AACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAACATATATTTATTTTTCA
AAATCTAAACTTTCTCCTT
Found at i:58526762 original size:148 final size:146
Alignment explanation
Indices: 58526306--58526764 Score: 426
Period size: 148 Copynumber: 3.0 Consensus size: 146
58526296 CGAAATAGTT
* * **
58526306 AAAAAAATCAAAACTTTATTTTAAAAATTTAAACTTTCCTTTAAAATGACATAAAAAAAA-CATA
1 AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAAC-TAAAAAAAATTTTA
*
58526370 TATTTATTTTTCAAAATCTAAACTTTCTCCTTTTTAAAAAAAAAAACACTATTTTTCTTAAAGAT
65 T-TTTTTTTTTCAAAATCTAAACTTTCTCC-TTTT--AAAAAAAAA-ACTATTTTTC-TAAAGAT
* * *
58526435 TAAAGCTTTTATTTTGAAGTAGTTAAA
124 TAAAG-TTTTCTTTT--ATTA-TTTAA
* *
58526462 AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTGAAATAACTAAAAAAACATATT-
1 AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAA-ATTTTA
* * * * * *
58526526 TTTATTTTTT-AAAATTTAAAGTTTTTCCTTTTAAAAAAACACACTATTTTTCTTAGAGATTAAA
65 TTTTTTTTTTCAAAATCTAAACTTTCTCCTTTTAAAAAAA-AAACTATTTTTC-TAAAGATT-AA
* * * *
58526590 ACTTTTACTTTGGAATAGTT--
127 AGTTTT-CTTT-TATTATTTAA
* * * *
58526610 AAAAAAATCAAAATTTTGTTTCAAAAATTTAAACTTTCTTTTAAAATAACTAAAAACTAGATTTT
1 AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAA--A-AATTT
** * *
58526675 TATTTTTTTTTTCAAAATCTAAACTTTCTCCTTTTAAAAAAAAAACTATTTTTCCCAATA-TCAA
63 TATTTTTTTTTTCAAAATCTAAACTTTCTCCTTTTAAAAAAAAAACTATTTTTCTAAAGATTAAA
* *
58526739 GTTTTCTTTTTTTTTTTAA
128 GTTTTCTTTTATTATTTAA
58526758 AAAAAAA
1 AAAAAAA
58526765 AAAACCTTTA
Statistics
Matches: 250, Mismatches: 40, Indels: 34
0.77 0.12 0.10
Matches are distributed among these distances:
146 3 0.01
147 4 0.02
148 65 0.26
149 1 0.00
150 7 0.03
151 53 0.21
152 33 0.13
153 4 0.02
154 15 0.06
155 15 0.06
156 49 0.20
157 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (146 bp):
AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAATTTTAT
TTTTTTTTTCAAAATCTAAACTTTCTCCTTTTAAAAAAAAAACTATTTTTCTAAAGATTAAAGTT
TTCTTTTATTATTTAA
Found at i:58526972 original size:11 final size:11
Alignment explanation
Indices: 58526956--58526981 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58526946 TTGTTGTGTT
58526956 TTTTTTTTACC
1 TTTTTTTTACC
58526967 TTTTTTTTACC
1 TTTTTTTTACC
58526978 TTTT
1 TTTT
58526982 ACATGCAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTTACC
Found at i:58527797 original size:27 final size:27
Alignment explanation
Indices: 58527759--58527816 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
58527749 TTCTTACCCC
58527759 GATCAAGACCCGAATCACGCTTCTCTT
1 GATCAAGACCCGAATCACGCTTCTCTT
58527786 GATCAAGACCCGAATCACGCTTCTCTT
1 GATCAAGACCCGAATCACGCTTCTCTT
58527813 GATC
1 GATC
58527817 TATATTAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (27 bp):
GATCAAGACCCGAATCACGCTTCTCTT
Found at i:58530123 original size:40 final size:40
Alignment explanation
Indices: 58530078--58530272 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 40
58530068 CGGAATTTAG
* * *
58530078 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* ** * * *
58530118 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
58530158 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
58530198 CCGGATATAATCACTAGCATAAATGCCTTC-GGACTT-AG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
58530236 CCGGATAT-ATCACTAGCATAAATGCCTTCGGGACTTA
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTA
58530273 GCCGGGTATT
Statistics
Matches: 130, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
37 21 0.16
38 14 0.11
39 5 0.04
40 89 0.68
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:58530201 original size:80 final size:76
Alignment explanation
Indices: 58530065--58530275 Score: 224
Period size: 80 Copynumber: 2.7 Consensus size: 76
58530055 AACCGAGCTT
* * * * **
58530065 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTA
1 CTTCGG-ACTTAGCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAATA
*
58530130 ACTTGCACAAATGC
63 ACTAGCACAAATGC
* *
58530144 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTC-GGACTTAG-CCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAAT
* *
58530209 CACTAGCATAAATGC
62 AACTAGCACAAATGC
* * *
58530224 CTTCGGACTTAGCCGGATATATCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CTTCGGACTTAGCCGGATATAACACTAGCA-CAATGCCTTCGGGTCTTAGCC
58530276 GGGTATTATT
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
77 25 0.23
78 10 0.09
79 16 0.14
80 58 0.52
81 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (76 bp):
CTTCGGACTTAGCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
AGCACAAATGC
Found at i:58538298 original size:39 final size:40
Alignment explanation
Indices: 58538150--58538355 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
58538140 TCTTCGGAAT
* * *
58538150 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
58538189 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
58538229 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
58538269 TTAGCCC-GATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
58538308 TTAGCCCGGATAT-ATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
58538347 TTAGCCCGG
1 TTAGCCCGG
58538356 GTATTATTCA
Statistics
Matches: 143, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
39 71 0.50
40 72 0.50
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:58538319 original size:79 final size:77
Alignment explanation
Indices: 58538141--58538354 Score: 232
Period size: 79 Copynumber: 2.7 Consensus size: 77
58538131 AACCGAGCTT
* * * * * **
58538141 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCC-GATATAAT
*
58538205 AACTTGCACAAATGC
63 AACTAGCACAAATGC
* * *
58538220 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGATATAATC
1 CTTCGGGACTTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGATATAATA
*
58538285 ACTAGCATAAATGC
64 ACTAGCACAAATGC
* * *
58538299 CTTCGGGACTTAGCCCGGATATATCACTAGCATAAATGCCTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCGGATATAACACTAGCA-CAATGCCTTCGGGTCTTAGCCCG
58538355 GGTATTATTC
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
78 27 0.24
79 51 0.45
80 34 0.30
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CTTCGGGACTTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGATATAATAAC
TAGCACAAATGC
Found at i:58541400 original size:23 final size:24
Alignment explanation
Indices: 58541374--58541470 Score: 94
Period size: 23 Copynumber: 4.2 Consensus size: 24
58541364 AATAGTAAAA
*
58541374 ATTCTCTTAC-ATGAACAGTGGAG
1 ATTCTCTTACAATGAACAGTGAAG
* *
58541397 ATTCT-TTGCGATGAACAGTGAAG
1 ATTCTCTTACAATGAACAGTGAAG
* *
58541420 ATTCTC-TACAATAAACAATGAAG
1 ATTCTCTTACAATGAACAGTGAAG
* * *
58541443 ATTCTC-TGCGATAAACAGTGAAG
1 ATTCTCTTACAATGAACAGTGAAG
58541466 ATTCT
1 ATTCT
58541471 TTGAAAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.05
23 60 0.95
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (24 bp):
ATTCTCTTACAATGAACAGTGAAG
Found at i:58541424 original size:46 final size:46
Alignment explanation
Indices: 58541360--58541470 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
58541350 AGATTTGCTA
* * * * * * *
58541360 GATGAATAGTAAAAATTCTCTTAC-ATGAACAGTGGAGATTCTTTGC
1 GATGAACAGTGAAGATTCTC-TACAATAAACAATGAAGATTCTCTGC
58541406 GATGAACAGTGAAGATTCTCTACAATAAACAATGAAGATTCTCTGC
1 GATGAACAGTGAAGATTCTCTACAATAAACAATGAAGATTCTCTGC
*
58541452 GATAAACAGTGAAGATTCT
1 GATGAACAGTGAAGATTCT
58541471 TTGAAAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 3 0.05
46 53 0.95
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGAACAGTGAAGATTCTCTACAATAAACAATGAAGATTCTCTGC
Found at i:58541738 original size:15 final size:16
Alignment explanation
Indices: 58541720--58541757 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
58541710 ATTTTTTAGC
58541720 TTTT-AAAAATTTAAT
1 TTTTCAAAAATTTAAT
*
58541735 TTTTCAAAATTTTAA-
1 TTTTCAAAAATTTAAT
58541750 TTTTCAAA
1 TTTTCAAA
58541758 TTATTATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCAAAAATTTAAT
Found at i:58543868 original size:46 final size:47
Alignment explanation
Indices: 58543815--58543987 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 47
58543805 CTATTGTGAA
58543815 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-TATGAGAG
* * * * *
58543861 CTAGTGTAAGA-CATGTCTGGGACAT-ACATTGGCTAC-GA-GATGTG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGA-GAG
* * * *
58543905 TTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAAATATGCTAAAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATATG--AGAG
*
58543955 CTTGTGTAAGACCATGTCTGGGACATGGCATCG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCG
58543988 ATACCTTACC
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
43 2 0.02
44 13 0.13
45 13 0.13
46 39 0.38
47 1 0.01
48 1 0.01
49 1 0.01
50 31 0.30
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGAGAG
Found at i:58547015 original size:24 final size:23
Alignment explanation
Indices: 58546940--58547029 Score: 96
Period size: 23 Copynumber: 3.9 Consensus size: 23
58546930 GTTGAAGGAT
*
58546940 AGTAAGCTC-TATTGAGCTGAAAC
1 AGTAAGCTCATA-CGAGCTGAAAC
*
58546963 GGTAAGCTC-TGACGAGCTGAAAC
1 AGTAAGCTCAT-ACGAGCTGAAAC
*
58546986 AGTAAGCTCATACGAGCTAGGAAC
1 AGTAAGCTCATACGAGCT-GAAAC
58547010 AGTAAGCT-ATTACGAGCTGA
1 AGTAAGCTCA-TACGAGCTGA
58547030 TATATCAGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
23 36 0.62
24 22 0.38
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (23 bp):
AGTAAGCTCATACGAGCTGAAAC
Found at i:58548404 original size:19 final size:20
Alignment explanation
Indices: 58548366--58548406 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
58548356 TATTTTTGCA
*
58548366 TAGCTTCCTCAGGTTCCCATG
1 TAGCTTCCTCA-GATCCCATG
58548387 TAGCTTCCTCA-ATCCCATG
1 TAGCTTCCTCAGATCCCATG
58548406 T
1 T
58548407 TTATGCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.17, C:0.34, G:0.15, T:0.34
Consensus pattern (20 bp):
TAGCTTCCTCAGATCCCATG
Found at i:58555777 original size:28 final size:29
Alignment explanation
Indices: 58555710--58555810 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
58555700 ATAGTGAATC
*
58555710 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
58555739 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
58555767 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
58555797 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58555811 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:58564082 original size:28 final size:29
Alignment explanation
Indices: 58564015--58564115 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
58564005 ATAGTGAATC
*
58564015 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
58564044 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
58564072 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
58564102 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58564116 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:58572377 original size:28 final size:28
Alignment explanation
Indices: 58572312--58572410 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
58572302 ATAGTGAATC
* *
58572312 CGCACACTTAGTGCTATACATTC-AGCT
1 CGCACACTTAGTGCTATACAATCAAACT
*
58572339 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
58572367 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAA--TCAAACT
58572397 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58572411 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
30 19 0.31
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:58580181 original size:28 final size:29
Alignment explanation
Indices: 58580114--58580214 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
58580104 ATAGTGAATC
*
58580114 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
58580143 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
58580171 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
58580201 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58580215 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:58590159 original size:23 final size:23
Alignment explanation
Indices: 58590133--58590205 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
58590123 AATCTATATT
*
58590133 GAGCTGAAAGGGTAAGCTC-TGAC
1 GAGCTGAAAGAGTAAGCTCAT-AC
*
58590156 GAGCTGAAATAGTAAGCTCATAC
1 GAGCTGAAAGAGTAAGCTCATAC
* * *
58590179 GAGCTAAGAACAGTAAGCTCTTAC
1 GAGCTGA-AAGAGTAAGCTCATAC
58590203 GAG
1 GAG
58590206 TTGATATATC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 25 0.58
24 18 0.42
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (23 bp):
GAGCTGAAAGAGTAAGCTCATAC
Found at i:58590197 original size:24 final size:22
Alignment explanation
Indices: 58590144--58590205 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 22
58590134 AGCTGAAAGG
* *
58590144 GTAAGCTCTGACGAGCTGAAATA
1 GTAAGCTCT-ACGAGCTAAAACA
58590167 GTAAGCTCATACGAGCTAAGAACA
1 GTAAGCTC-TACGAGCTAA-AACA
58590191 GTAAGCTCTTACGAG
1 GTAAGCTC-TACGAG
58590206 TTGATATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (22 bp):
GTAAGCTCTACGAGCTAAAACA
Found at i:58597638 original size:47 final size:47
Alignment explanation
Indices: 58597584--58597676 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
58597574 TTAGGATTTT
** *
58597584 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
58597631 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
58597677 TATGCATGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:58597701 original size:73 final size:73
Alignment explanation
Indices: 58597609--58597753 Score: 290
Period size: 73 Copynumber: 2.0 Consensus size: 73
58597599 ATGTGTATAT
58597609 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
58597674 GCCTATGC
66 GCCTATGC
58597682 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
58597747 GCCTATG
66 GCCTATG
58597754 TGATGAATGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (73 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
GCCTATGC
Found at i:58597735 original size:47 final size:47
Alignment explanation
Indices: 58597682--58597889 Score: 344
Period size: 47 Copynumber: 4.4 Consensus size: 47
58597672 TGGCCTATGC
58597682 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
*
58597729 ATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
* *
58597776 ATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAGCATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
* * *
58597823 GTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
* *
58597870 ATGTGGTAAAGCCGAATGGC
1 ATGTGATAAGGCCGAATGGC
58597890 TAGTGTGAAA
Statistics
Matches: 149, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 149 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (47 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
Found at i:58597853 original size:25 final size:25
Alignment explanation
Indices: 58597778--58597853 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
58597768 ATGCATATAT
58597778 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
58597803 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
58597825 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
58597850 GTGA
1 GTGA
58597854 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:58598234 original size:37 final size:37
Alignment explanation
Indices: 58598052--58598233 Score: 292
Period size: 37 Copynumber: 4.9 Consensus size: 37
58598042 GGAAATATAT
*
58598052 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
58598089 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58598126 TCCGGGTAAGACCCGATGACTACATGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58598163 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58598200 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
58598234 TCGTCTGAGC
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 133 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:58601748 original size:20 final size:19
Alignment explanation
Indices: 58601723--58601769 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
58601713 ATCCATTTGC
58601723 AAACAGTAGCTCATCCATAT
1 AAACAGTA-CTCATCCATAT
* * *
58601743 AAACAGTATTTATCGATAT
1 AAACAGTACTCATCCATAT
58601762 AAACAGTA
1 AAACAGTA
58601770 TTTATGCCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (19 bp):
AAACAGTACTCATCCATAT
Found at i:58601960 original size:23 final size:23
Alignment explanation
Indices: 58601924--58601984 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
58601914 AGATCTATTA
** *
58601924 AGCTGAAATGGTAAACTC-TGATG
1 AGCTGAAACAGTAAACTCAT-ACG
*
58601947 AGCTGAAACAGTAAGCTCATACG
1 AGCTGAAACAGTAAACTCATACG
58601970 AGCTGAGAACAGTAA
1 AGCTGA-AACAGTAA
58601985 GCTCCAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 23 0.72
24 9 0.28
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (23 bp):
AGCTGAAACAGTAAACTCATACG
Found at i:58601983 original size:24 final size:23
Alignment explanation
Indices: 58601946--58602023 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 23
58601936 AAACTCTGAT
58601946 GAGCTGAAACAGTAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCATAC
58601969 GAGCTGAGAACAGTAAGCTCCA-AC
1 GAGCTGA-AACAGTAAGCT-CATAC
* * * *
58601993 AAGCTAAAAACAGTAAGCTCTTAT
1 GAGCT-GAAACAGTAAGCTCATAC
58602017 GAGCTGA
1 GAGCTGA
58602024 TATATTAGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 9 0.20
24 33 0.73
25 3 0.07
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.18
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCATAC
Found at i:58602752 original size:15 final size:15
Alignment explanation
Indices: 58602732--58602764 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
58602722 GTTAAATATT
58602732 TAATAGTTCCAAATC
1 TAATAGTTCCAAATC
*
58602747 TAATAGTTTCAAATC
1 TAATAGTTCCAAATC
58602762 TAA
1 TAA
58602765 GGTACGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (15 bp):
TAATAGTTCCAAATC
Found at i:58605342 original size:57 final size:57
Alignment explanation
Indices: 58605249--58605368 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 57
58605239 TTTATTTTTA
* *
58605249 TTTTGTTTCCCTCCATCCTTTTTCATTTTAAAATTTTGTTATATCTAAGATTGAAAG
1 TTTTCTTTCCCTCCATCCTTTTTCATTTTAAAATTTTGTTATACCTAAGATTGAAAG
*
58605306 TTTTCTTTCCCTCCATCTTTTTTCATTTTAAAATTTTGTTATACCTAAGATTGAAAG
1 TTTTCTTTCCCTCCATCCTTTTTCATTTTAAAATTTTGTTATACCTAAGATTGAAAG
58605363 TTTTCT
1 TTTTCT
58605369 CTAAAAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.53
Consensus pattern (57 bp):
TTTTCTTTCCCTCCATCCTTTTTCATTTTAAAATTTTGTTATACCTAAGATTGAAAG
Found at i:58608053 original size:18 final size:18
Alignment explanation
Indices: 58608030--58608077 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
58608020 AAAATATGGT
58608030 CCCACATGCCCATGCGAG
1 CCCACATGCCCATGCGAG
* *
58608048 CCCACATGCCCGTGTGAG
1 CCCACATGCCCATGCGAG
*
58608066 TCCACATGCCCA
1 CCCACATGCCCA
58608078 AATTGGCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.15
Consensus pattern (18 bp):
CCCACATGCCCATGCGAG
Found at i:58617552 original size:15 final size:16
Alignment explanation
Indices: 58617532--58617565 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
58617522 TCGCATCAAC
58617532 AAAATAAAAATT-TTA
1 AAAATAAAAATTATTA
*
58617547 AAAATAAAATTTATTA
1 AAAATAAAAATTATTA
58617563 AAA
1 AAA
58617566 TTTTGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATAAAAATTATTA
Found at i:58619821 original size:10 final size:10
Alignment explanation
Indices: 58619803--58619832 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58619793 GCTACAAAAG
*
58619803 CTTAGTTAAA
1 CTTATTTAAA
58619813 CTTATTTAAA
1 CTTATTTAAA
58619823 CTTATTTAAA
1 CTTATTTAAA
58619833 AGTCTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (10 bp):
CTTATTTAAA
Done.