Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 272 of 333
Found at i:89798577 original size:41 final size:41
Alignment explanation
Indices: 89798532--89798641 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 41
89798522 TGTCAAGTCT
*
89798532 TGAGCCTAGCAGGCTTCATGCCAGTGCATTAAATCAGGCCA
1 TGAGCCTAGCAGGCTTCATGCCAGTGAATTAAATCAGGCCA
* * * * * *
89798573 TGAGCTTAGCAAGCTTCGA-GCCGGTGAATTGAATCAGGTCT
1 TGAGCCTAGCAGGCTTC-ATGCCAGTGAATTAAATCAGGCCA
* *
89798614 TGAGCCTAGAAGGCTTCATGCCGGTGAA
1 TGAGCCTAGCAGGCTTCATGCCAGTGAA
89798642 CTATATCAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.02
41 55 0.96
42 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TGAGCCTAGCAGGCTTCATGCCAGTGAATTAAATCAGGCCA
Found at i:89810020 original size:15 final size:16
Alignment explanation
Indices: 89809994--89810024 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
89809984 CCCCTAGACT
89809994 TTTCCACTTTTCAAGC
1 TTTCCACTTTTCAAGC
89810010 TTTCC-CTTTTCAAGC
1 TTTCCACTTTTCAAGC
89810025 ACTAAGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.16, C:0.32, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTCCACTTTTCAAGC
Found at i:89815391 original size:48 final size:48
Alignment explanation
Indices: 89815320--89815412 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
89815310 AAGACATTTG
89815320 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
1 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
*
89815368 GTTGATATGTGTGCTAGTGTAAGACTATGTTTGGGACATGGCATC
1 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATC
89815413 GGCCATATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (48 bp):
GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
Found at i:89822758 original size:36 final size:36
Alignment explanation
Indices: 89822713--89822783 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
89822703 AAATTTCTAA
*
89822713 TTTTCAGCATTTACATCCATGACCCATTTTTCATAT
1 TTTTCAGCATATACATCCATGACCCATTTTTCATAT
89822749 TTTTCAGCATATACATCCATGACCCATTTTTCATA
1 TTTTCAGCATATACATCCATGACCCATTTTTCATA
89822784 CTTTGACAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (36 bp):
TTTTCAGCATATACATCCATGACCCATTTTTCATAT
Found at i:89829088 original size:23 final size:24
Alignment explanation
Indices: 89829037--89829140 Score: 95
Period size: 24 Copynumber: 4.2 Consensus size: 24
89829027 TTTCTGATAT
*
89829037 TTTGTTTCTCCTACTTTTCGATTCC
1 TTTGTTTCT-TTACTTTTCGATTCC
*
89829062 TTTGTTTCTTTACTTTTC-CTTCC
1 TTTGTTTCTTTACTTTTCGATTCC
* * * *
89829085 TTTGTTCTCCCCTCATCCTTTC-CTTCC
1 TTTGTT-T--CTTTA-CTTTTCGATTCC
89829112 TTTGTTTCTTTACTTTTCGATTCC
1 TTTGTTTCTTTACTTTTCGATTCC
89829136 TTTGT
1 TTTGT
89829141 GCATTGTGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
23 15 0.23
24 21 0.32
25 9 0.14
26 4 0.06
27 16 0.25
ACGTcount: A:0.06, C:0.29, G:0.07, T:0.59
Consensus pattern (24 bp):
TTTGTTTCTTTACTTTTCGATTCC
Found at i:89836735 original size:30 final size:30
Alignment explanation
Indices: 89836687--89836746 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
89836677 ATTCCTGACC
89836687 TAGGGGAAAAAGTATAATTATGCAAAAGTT
1 TAGGGGAAAAAGTATAATTATGCAAAAGTT
* * *
89836717 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTATAATTATGCAAAAGTT
89836747 CATATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTATAATTATGCAAAAGTT
Found at i:89840782 original size:21 final size:22
Alignment explanation
Indices: 89840730--89840782 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
89840720 AAATAAAGTC
*
89840730 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
89840751 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
89840773 CATGTATCAT
1 CATGTATCAT
89840783 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:89844820 original size:42 final size:41
Alignment explanation
Indices: 89844773--89844858 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 41
89844763 TGCTAAACAA
* *
89844773 AAACCCATAAGGGTTGAACGGAAGCACATAAA-AGCTGAATAG
1 AAACCCATAAGGGTTAAACAGAAGCACA-AAAGAGCTGAAT-G
* *
89844815 AAACCCATCAGGGTTAAACAGAAGCTCAAAAGAGCTGAATG
1 AAACCCATAAGGGTTAAACAGAAGCACAAAAGAGCTGAATG
89844856 AAA
1 AAA
89844859 ACTCATGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 7 0.18
42 32 0.82
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAACAGAAGCACAAAAGAGCTGAATG
Found at i:89845509 original size:34 final size:34
Alignment explanation
Indices: 89845428--89845523 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 34
89845418 TTTCAGTTAG
* * *
89845428 GGGCCTTAGCCCCTCTTTCAGTAGCAGTAACAGTTT
1 GGGCCTTAGCCCAT-TTT-AGTATCAGTAACAGTCT
* * **
89845464 GGGTCTGAGCCCATTTTAGTATCAGTGGCAGTCT
1 GGGCCTTAGCCCATTTTAGTATCAGTAACAGTCT
*
89845498 GGGCCTTAGCCCATTTCAGTAT-AGTA
1 GGGCCTTAGCCCATTTTAGTATCAGTA
89845524 TGCAAACACA
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
33 3 0.06
34 32 0.65
35 3 0.06
36 11 0.22
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (34 bp):
GGGCCTTAGCCCATTTTAGTATCAGTAACAGTCT
Found at i:89847883 original size:61 final size:61
Alignment explanation
Indices: 89847818--89847961 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 61
89847808 ATCAGTGTTA
* * * *
89847818 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGTCATAGCCC-CTTACAATATC-AGAGTAT
1 ACTGGGCCTTAGCCCATATCAACATCAATCTGGGCCATAGCCCTATTACAA-ATCGAGA-TAT
* * *
89847879 ACTGGGCC-TAGCCCATATCAGCATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATAT
1 ACTGGGCCTTAGCCCATATCAACATCAATCTGGGCCATAGCCCTATTACAAATCGAGATAT
*
89847939 ACTGGGCCTT-GCCCATATTAACA
1 ACTGGGCCTTAGCCCATATCAACA
89847962 CAGTTGGGCC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
60 53 0.75
61 18 0.25
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (61 bp):
ACTGGGCCTTAGCCCATATCAACATCAATCTGGGCCATAGCCCTATTACAAATCGAGATAT
Found at i:89847974 original size:20 final size:20
Alignment explanation
Indices: 89847949--89847994 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
89847939 ACTGGGCCTT
89847949 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
89847969 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
89847988 GCCCATA
1 GCCCATA
89847995 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:89849418 original size:14 final size:14
Alignment explanation
Indices: 89849393--89849435 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
89849383 GCTATAGAGG
*
89849393 AGAA-AAGAAAAACA
1 AGAAGAAGAAAAA-T
89849407 AGAAGAAGAAAAAT
1 AGAAGAAGAAAAAT
89849421 AGAAGAAGAGAAAAT
1 AGAAGAAGA-AAAAT
89849436 GAAAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (14 bp):
AGAAGAAGAAAAAT
Found at i:89849433 original size:31 final size:31
Alignment explanation
Indices: 89849393--89849452 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
89849383 GCTATAGAGG
* *
89849393 AGAAAAGAAAAACAAGAAGAAGAAAAATAGA
1 AGAAAAGAAAAACAAAAAAAAGAAAAATAGA
* **
89849424 AGAAGAGAAAATGAAAAAAAAGAAAAATA
1 AGAAAAGAAAAACAAAAAAAAGAAAAATA
89849453 TAAATTTGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (31 bp):
AGAAAAGAAAAACAAAAAAAAGAAAAATAGA
Found at i:89852386 original size:56 final size:56
Alignment explanation
Indices: 89852281--89852484 Score: 249
Period size: 56 Copynumber: 3.7 Consensus size: 56
89852271 ATGTATATGA
* * * *
89852281 GGCATTGATATGT-ATTCCGCTATATGTGTGC--G--AGACCACGTTTTATATGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACAACGTTTTATATGTT
* * *
89852332 GGAATCGATATGTGACTCCGATATATGTGTGCAAGTAAGATC-ATGTTTTATATGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGA-CAACGTTTTATATGTT
* * *
89852388 GGCATTGATATGTGACTCTGATATATGTGTGCGAGTAAGACAACGTTTTATACGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACAACGTTTTATATGTT
**
89852444 GGCATCGATACATGACTCCGATATATGTGTGCGAGTAAGAC
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGAC
89852485 CCTGTCTGGG
Statistics
Matches: 131, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
51 11 0.08
52 16 0.12
54 1 0.01
55 1 0.01
56 101 0.77
57 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (56 bp):
GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACAACGTTTTATATGTT
Found at i:89852445 original size:112 final size:107
Alignment explanation
Indices: 89852281--89852483 Score: 280
Period size: 112 Copynumber: 1.9 Consensus size: 107
89852271 ATGTATATGA
* * * * **
89852281 GGCATTGATATGTATTCCGCTATATGTGTGCGAGACCACGTTTTATATGTTGGAATCGATATGTG
1 GGCATTGATATGTACTCCGATATATGTGTGCGAGACAACGTTTTATACGTTGGAATCGATACATG
89852346 ACTCCGATATATGTGTGCAAGTAAGATCATGTTTTATATGTT
66 ACTCCGATATATGTGTGCAAGTAAGATCATGTTTTATATGTT
* *
89852388 GGCATTGATATGTGACTCTGATATATGTGTGCGAGTAAGACAACGTTTTATACGTTGGCATCGAT
1 GGCATTGATATGT-ACTCCGATATATGTGTGC--G--AGACAACGTTTTATACGTTGGAATCGAT
*
89852453 ACATGACTCCGATATATGTGTGCGAGTAAGA
61 ACATGACTCCGATATATGTGTGCAAGTAAGA
89852484 CCCTGTCTGG
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
107 13 0.16
108 15 0.18
110 1 0.01
112 53 0.65
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.35
Consensus pattern (107 bp):
GGCATTGATATGTACTCCGATATATGTGTGCGAGACAACGTTTTATACGTTGGAATCGATACATG
ACTCCGATATATGTGTGCAAGTAAGATCATGTTTTATATGTT
Found at i:89866935 original size:25 final size:25
Alignment explanation
Indices: 89866857--89866937 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
89866847 AAGCTCTTCC
* * *
89866857 GAGCTGAATAACGCTAAGCTCATACA
1 GAGCTGAGTATCGATAAGCTCATA-A
* *
89866883 -AGCTAAGTATCGATAAGCTCATAC
1 GAGCTGAGTATCGATAAGCTCATAA
*
89866907 GAGCTGAGTATCGGTAAGCTCATAA
1 GAGCTGAGTATCGATAAGCTCATAA
89866932 GAGCTG
1 GAGCTG
89866938 GAGTCGGTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
GAGCTGAGTATCGATAAGCTCATAA
Found at i:89869107 original size:42 final size:42
Alignment explanation
Indices: 89869022--89869107 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
89869012 TATATAGTCA
* * *
89869022 AAGCTATCTCGATCTCGCACACTAAGTGCAAATATATATCCG
1 AAGCTATCTCGATCTCACACACTAAGTGCAAATAAATAGCCG
* * **
89869064 AAGCTATCTCGATTTCACACACTGAGTGCCCATAAATAGCCG
1 AAGCTATCTCGATCTCACACACTAAGTGCAAATAAATAGCCG
89869106 AA
1 AA
89869108 TTGTTGTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
AAGCTATCTCGATCTCACACACTAAGTGCAAATAAATAGCCG
Found at i:89872061 original size:19 final size:18
Alignment explanation
Indices: 89872027--89872063 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
89872017 TGAGGAGGAG
89872027 AAAGAAAAAAAGAAAAGA
1 AAAGAAAAAAAGAAAAGA
*
89872045 AAAGAAAACAGAGAAAAGA
1 AAAGAAAA-AAAGAAAAGA
89872064 GATGGAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAGAAAAGA
Found at i:89873989 original size:13 final size:13
Alignment explanation
Indices: 89873971--89873999 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
89873961 AGAATCTAAC
89873971 TTAATAACAAGTG
1 TTAATAACAAGTG
89873984 TTAATAACAAGTG
1 TTAATAACAAGTG
89873997 TTA
1 TTA
89874000 GATGCATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (13 bp):
TTAATAACAAGTG
Found at i:89877771 original size:18 final size:18
Alignment explanation
Indices: 89877731--89877776 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
89877721 TGGGGTTAGA
* * *
89877731 ATTTGATTTTAGTATTTT
1 ATTTTATTTTAGGATTTG
89877749 ATTTTATTTTAGGATTTG
1 ATTTTATTTTAGGATTTG
89877767 ATTTT-TTTTA
1 ATTTTATTTTA
89877777 AAGTCAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (18 bp):
ATTTTATTTTAGGATTTG
Found at i:89881959 original size:36 final size:36
Alignment explanation
Indices: 89881912--89881983 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
89881902 AATTCAGTTA
89881912 GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
1 GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
89881948 GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
1 GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
89881984 TTTTGAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (36 bp):
GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
Found at i:89886677 original size:45 final size:45
Alignment explanation
Indices: 89886624--89886749 Score: 182
Period size: 45 Copynumber: 2.8 Consensus size: 45
89886614 ATCATTTCAT
*
89886624 CGGCATTATAGCCTGCTAGACTCGAAA-GCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCAC
* *
89886669 CGGCATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
* * *
89886714 CAGTATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
89886750 TAATACCAGC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 3 0.04
45 70 0.96
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:89886790 original size:38 final size:38
Alignment explanation
Indices: 89886742--89886912 Score: 225
Period size: 38 Copynumber: 4.5 Consensus size: 38
89886732 GGCTCAAAGG
* * *
89886742 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
89886780 CCCGGATATAATACCAGCACGAAGACTGTGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * * *
89886818 CCCTGATATATTACCAGCATGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
89886856 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
89886894 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
89886913 TATAGCATGC
Statistics
Matches: 114, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 114 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:89886931 original size:76 final size:76
Alignment explanation
Indices: 89886772--89886939 Score: 207
Period size: 76 Copynumber: 2.2 Consensus size: 76
89886762 TAGGCCTGCG
* * *
89886772 GGATTTAACCCGGATATAATACCAGCACGAAGACTGTGGGAATTAACCCTGATATATTACCAGCA
1 GGATTTAACCCGGATATAATACCAGCACGAAGACTGCGAGAATTAACCCGGATATATTACCAGCA
*
89886837 TGAAGCCTGCA
66 TGAAGCATGCA
* * *
89886848 GGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAATT-CCAGC
1 GGATTTAACCCGGATATAATACCAGCACGAAGACTGCGAGAATTAACCCGGATAT-ATTACCAGC
89886912 AT-ATAGCATGC-
65 ATGA-AGCATGCA
* *
89886923 GGTCTTTAAGCCGGATA
1 GG-ATTTAACCCGGATA
89886940 CAAATATCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
75 3 0.04
76 74 0.93
77 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (76 bp):
GGATTTAACCCGGATATAATACCAGCACGAAGACTGCGAGAATTAACCCGGATATATTACCAGCA
TGAAGCATGCA
Found at i:89887275 original size:45 final size:43
Alignment explanation
Indices: 89887209--89887326 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 43
89887199 ACATAACATT
89887209 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCAAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GC-CAAAT-A
* * * * **
89887255 T-ATTTCACCGACATCATAGCCTACTAAGCTCAAAGCCCGATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCAAATA
89887297 TCATTTCACCGGCATTATAGCCTGCTAGGC
1 TCATTTCACCGGCATTATAGCCTGCTAGGC
89887327 CCGAAGCCCG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.03
43 27 0.44
44 2 0.03
45 29 0.48
46 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (43 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCAAATA
Found at i:89887317 original size:43 final size:43
Alignment explanation
Indices: 89887209--89887343 Score: 155
Period size: 43 Copynumber: 3.1 Consensus size: 43
89887199 ACATAACATT
**
89887209 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCAAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GC-CCGAT-A
* * * *
89887255 T-ATTTCACCGACATCATAGCCTACTAAGCTCAAAGCCCGATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGATA
* *
89887297 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCG-ATA
89887341 TCA
1 TCA
89887344 CATTTCGATA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.47
44 8 0.11
45 29 0.39
46 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (43 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGATA
Found at i:89888608 original size:39 final size:39
Alignment explanation
Indices: 89888554--89888632 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
89888544 TAAACACTTA
*
89888554 AGAACTTACCTTGAACGTTGCCAAATGATTACAACAGCT
1 AGAACTTACCTTGAACGTTGCCAAACGATTACAACAGCT
* * *
89888593 AGAACTTACCTTGAACGTTGGCGAACGATTACAACGGCT
1 AGAACTTACCTTGAACGTTGCCAAACGATTACAACAGCT
89888632 A
1 A
89888633 TTCAATTACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (39 bp):
AGAACTTACCTTGAACGTTGCCAAACGATTACAACAGCT
Found at i:89895503 original size:46 final size:47
Alignment explanation
Indices: 89895397--89895512 Score: 144
Period size: 50 Copynumber: 2.4 Consensus size: 47
89895387 TGTCTTCGAC
** * *
89895397 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
89895447 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
89895493 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
89895513 TTTGTCCTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 29 0.49
50 30 0.51
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:89901548 original size:273 final size:275
Alignment explanation
Indices: 89901061--89901624 Score: 1087
Period size: 273 Copynumber: 2.1 Consensus size: 275
89901051 ACTAACTTGC
*
89901061 TAACTTGCTTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
1 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
89901126 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
66 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
89901191 CTACTTGCTAGGTTTTCTCTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
131 CTACTTGCTAGGTTTTCTCTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
89901256 GTCGGAGCATCATCACACTATCCACCAGCTCG-TTTGGTAT-AATAGTAAACTTATTTTGGTATA
196 GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
89901319 ATGGCATGTATAGAT
261 ATGGCATGTATAGAT
*
89901334 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCTAATTTGTTAGGAAGCATGTTATTGA
1 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
89901399 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
66 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
*
89901464 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
131 CTACTTGCTAGGTTTTCTCTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
89901529 GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
196 GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
89901594 ATGGCATGTATAGAT
261 ATGGCATGTATAGAT
89901609 TAACTTGCCTAATTGA
1 TAACTTGCCTAATTGA
89901625 TGACTTGTAA
Statistics
Matches: 286, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
273 224 0.78
274 8 0.03
275 54 0.19
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (275 bp):
TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
CTACTTGCTAGGTTTTCTCTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
ATGGCATGTATAGAT
Found at i:89906950 original size:48 final size:50
Alignment explanation
Indices: 89906735--89907100 Score: 212
Period size: 48 Copynumber: 7.7 Consensus size: 50
89906725 TAGGGTATAA
* * *
89906735 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATC-CATCA-A-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCACAT-ATACG
* * * *
89906784 T--CGATGCTATGTCCCAAACATGGTCTTACACTGACTA-TCA-AAATTGAGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACTCACATA-T-ACG
* * *
89906833 TTGAC-A--CCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCACATATACG
* *
89906881 TGCCGATGCCATATCCCAGACATGGTCTTACACTGACAC-CTC-TATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCACATATACG
** *
89906929 TGCCGATGCCATGTCTTAGACATGGTCTTACACTG--A--CACATCT-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCACATATACG
* * * * *
89906974 TAGCTGATG-CATGTCCCAGACAT-GTCTTACACT-A-GCTCTCAT-TTCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCACATATAC-G
* * * * * *
89907021 TACTGATGCCATATCCCAGACATGGTCTTACACTG--GCTCTCATA-ATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCACATATACG
89907068 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
89907101 AGCACACAAA
Statistics
Matches: 253, Mismatches: 36, Indels: 59
0.73 0.10 0.17
Matches are distributed among these distances:
44 10 0.04
45 19 0.08
46 33 0.13
47 61 0.24
48 64 0.25
49 33 0.13
50 30 0.12
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCACATATACG
Found at i:89907108 original size:140 final size:142
Alignment explanation
Indices: 89906840--89907100 Score: 363
Period size: 140 Copynumber: 1.9 Consensus size: 142
89906830 AGGTTGACAC
** *
89906840 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATATCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATCAATACCGATGCCATATCCCAGACATG
**
89906905 GTCTTACACTGACACCTCTATACGTGCCGATGCCATGTCTTAGACATGGTCTTACACTGACACAT
65 GTCTTACACTGACACCTCTATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT
89906970 CTCGTAGCTGATG
130 CTCGTAGCTGATG
* *
89906983 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CATTTCAATACTGATGCCATATCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATACCGATGCCATATCCCAGACATGG
* * *
89907046 TCTTACACTGGC-TCTC-ATAATGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
66 TCTTACACTGACACCTCTAT-ACGT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
89907101 AGCACACAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 12 0.11
139 18 0.17
140 46 0.43
142 16 0.15
143 14 0.13
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (142 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATACCGATGCCATATCCCAGACATGG
TCTTACACTGACACCTCTATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC
TCGTAGCTGATG
Found at i:89915064 original size:21 final size:21
Alignment explanation
Indices: 89915038--89915082 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
89915028 TTGTTAGCTA
*
89915038 ATATATGCTAAATT-TTGATTT
1 ATATATGC-AAATTGTTGAATT
*
89915059 ATATATTCAAATTGTTGAATT
1 ATATATGCAAATTGTTGAATT
89915080 ATA
1 ATA
89915083 ATCTTAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (21 bp):
ATATATGCAAATTGTTGAATT
Found at i:89916764 original size:65 final size:66
Alignment explanation
Indices: 89916660--89916795 Score: 229
Period size: 65 Copynumber: 2.1 Consensus size: 66
89916650 TACCTCGTAG
*
89916660 AGAATAAAATCTTATTCCAATTAATTACGCTAGAAACTTCATAACAGAATGGCATGGCAAAAAG-
1 AGAATAAAATATTATTCCAATTAATTACGCTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
89916724 A
66 A
* * *
89916725 AGAATGAAATATTATTCCAATTAATTATGCTAGAAACTTCATAACAGAATGGCATGGTAAAAAGA
1 AGAATAAAATATTATTCCAATTAATTACGCTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
89916790 A
66 A
89916791 AGAAT
1 AGAAT
89916796 CGAACTTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
65 60 0.91
66 6 0.09
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (66 bp):
AGAATAAAATATTATTCCAATTAATTACGCTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
A
Found at i:89925199 original size:16 final size:17
Alignment explanation
Indices: 89925180--89925215 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
89925170 CAGAATAGAA
89925180 ATGGGA-TAGAATTACC
1 ATGGGATTAGAATTACC
89925196 AT-GGATTAGAATTACC
1 ATGGGATTAGAATTACC
89925212 ATGG
1 ATGG
89925216 ATTTTATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.17
16 14 0.78
17 1 0.06
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (17 bp):
ATGGGATTAGAATTACC
Found at i:89925216 original size:16 final size:16
Alignment explanation
Indices: 89925186--89925218 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
89925176 AGAAATGGGA
89925186 TAGAATTACCATGGAT
1 TAGAATTACCATGGAT
89925202 TAGAATTACCATGGAT
1 TAGAATTACCATGGAT
89925218 T
1 T
89925219 TTATCTCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (16 bp):
TAGAATTACCATGGAT
Found at i:89927399 original size:21 final size:21
Alignment explanation
Indices: 89927375--89927422 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
89927365 TGCAGGGCTC
89927375 ACACGCTCGTGTAGTCTAGGG
1 ACACGCTCGTGTAGTCTAGGG
* * *
89927396 ACACGTTCTTGTGGTCTAGGG
1 ACACGCTCGTGTAGTCTAGGG
89927417 ACACGC
1 ACACGC
89927423 CCAGATCCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (21 bp):
ACACGCTCGTGTAGTCTAGGG
Found at i:89934585 original size:68 final size:64
Alignment explanation
Indices: 89934475--89934726 Score: 228
Period size: 68 Copynumber: 3.9 Consensus size: 64
89934465 ATACAGATGG
** * * *
89934475 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
89934538 ATTA
62 A-TA
* *
89934542 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
89934607 TATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
89934672 TA
63 TA
* * *
89934674 -ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACTATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
89934727 CAAAATAATG
Statistics
Matches: 155, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
61 1 0.01
62 18 0.12
63 1 0.01
64 24 0.15
65 23 0.15
66 4 0.03
67 34 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:89937476 original size:486 final size:485
Alignment explanation
Indices: 89936560--89937538 Score: 1742
Period size: 486 Copynumber: 2.0 Consensus size: 485
89936550 GTGGTCTTTC
89936560 CCTAAGAAGAGTACATGTAATCAGTGGCAACCACTGGATTTTGTGCTTTCTGAAGTTCAGACTAA
1 CCTAAGAAGAGTACATGTAATCAGTGGCAACCACTGGATTTTGTGCTTTCTGAAGTTCAGACTAA
*
89936625 GCGGTTGAAAAAGGGACGTGTGTTAGACTTGGTGGGACTAGTTTCAGTCAGAAACATATTTCAAT
66 GCGGTTGAAAAAGGGACGTGTGTTAGACTTGGTGGGACTAGTTTCAATCAGAAACATATTTCAAT
* *
89936690 AATTACGAGCTTAGCCCAAATGGATTTTGAGGGAGTGGGCCCAACATGGCATTAGATGGTCAAAG
131 AATTACGAGCTTAGCCCAAATCGATTTTGAGGGAGTGGGCCCAACATGGCATTAGATGGTCAAAA
* * * *
89936755 TTTGCTTTTTTTCCTATAAAGCTTGGTTGTGTACCTTAGATGATGATTTAACAAAAATACTACTA
196 TGTGCTTTTTTTCCTATAAAGCTTGGTCGTGTACCTCAGATGATCATTTAACAAAAATACTACTA
* *
89936820 TGGCGCAAAAGAGAGCCACGCTTCTACTTTTACCACATTTGTGGCTTCTTTCCATGAAACTAGAA
261 TGGCGCAAAAGAGAGCCACACTTCTACTTTTACCACATTTGTGGCTTCTCTCCATGAAACTAGAA
* *
89936885 TATCATTACTATTGTTGTTTCTGATTCTGCTTCTTCTTCTCATTAAGCTAACTTTCTCATTGATG
326 TATCATTACTATTGTTGTTTCTGATTCTACTTCTTCTTCTCATTAAGCTAACTTTATCATTGATG
*
89936950 GTGTATGACCTTCATCTTCTTCCAATTCTCAAGAGATAGACGTCTCATCAATCCTTAAGGAAACT
391 GTGTATGACCTTCATCTTCTTCCAATTCACAAGAGATAGACGTCTCATCAATCCTTAAGGAAACT
*
89937015 CATGGTTTAAGAAAGACTATTGCTACTCCA
456 CATGGTTCAAGAAAGACTATTGCTACTCCA
*
89937045 CCTAAGAAGAGTACATGTAATCAGTGGCAACCACTGGATTTTGTGCTTTCTGAAGTTCAGTCTAA
1 CCTAAGAAGAGTACATGTAATCAGTGGCAACCACTGGATTTTGTGCTTTCTGAAGTTCAGACTAA
* *
89937110 GTGGTTGAAAAAGGGACGTGTGTTAGACTTGGTGGTACTAGTTTCAATCAGAAACATATTTCAAT
66 GCGGTTGAAAAAGGGACGTGTGTTAGACTTGGTGGGACTAGTTTCAATCAGAAACATATTTCAAT
89937175 AATTACGAGCTTAGCCCAAATCGATTTTGAGGGAGTGGGCCCAACATGGCATTAGATGGTCAAAA
131 AATTACGAGCTTAGCCCAAATCGATTTTGAGGGAGTGGGCCCAACATGGCATTAGATGGTCAAAA
* * * *
89937240 TGTGCTTTTTTTTTCTATAAAGCTTGGTCGTTTACCTCATATGATCATTTAGCAAAAATACTACT
196 TGTGC-TTTTTTTCCTATAAAGCTTGGTCGTGTACCTCAGATGATCATTTAACAAAAATACTACT
89937305 ATGGCGCAAAAGAGAGCCACACTTCTACTTTTACCACATTTGTGGCTTCTCTCCATGAAACTAGA
260 ATGGCGCAAAAGAGAGCCACACTTCTACTTTTACCACATTTGTGGCTTCTCTCCATGAAACTAGA
89937370 ATATCATTACTATTGTTGTTTCTGATTCTACTTCTTCTTCTCATTAAGCTAACTTTATCATTGAT
325 ATATCATTACTATTGTTGTTTCTGATTCTACTTCTTCTTCTCATTAAGCTAACTTTATCATTGAT
* *
89937435 GGTGTATGACCTTCCTCTTCTTCTAATTCACAAGAGATAGACGTCTCATCAATCCTTAAGGAAAC
390 GGTGTATGACCTTCATCTTCTTCCAATTCACAAGAGATAGACGTCTCATCAATCCTTAAGGAAAC
*
89937500 TCATGGTTCAGGAAAGACTATTGCTACTCCA
455 TCATGGTTCAAGAAAGACTATTGCTACTCCA
89937531 CCTAAGAA
1 CCTAAGAA
89937539 ATTAGTAGGA
Statistics
Matches: 470, Mismatches: 23, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
485 193 0.41
486 277 0.59
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (485 bp):
CCTAAGAAGAGTACATGTAATCAGTGGCAACCACTGGATTTTGTGCTTTCTGAAGTTCAGACTAA
GCGGTTGAAAAAGGGACGTGTGTTAGACTTGGTGGGACTAGTTTCAATCAGAAACATATTTCAAT
AATTACGAGCTTAGCCCAAATCGATTTTGAGGGAGTGGGCCCAACATGGCATTAGATGGTCAAAA
TGTGCTTTTTTTCCTATAAAGCTTGGTCGTGTACCTCAGATGATCATTTAACAAAAATACTACTA
TGGCGCAAAAGAGAGCCACACTTCTACTTTTACCACATTTGTGGCTTCTCTCCATGAAACTAGAA
TATCATTACTATTGTTGTTTCTGATTCTACTTCTTCTTCTCATTAAGCTAACTTTATCATTGATG
GTGTATGACCTTCATCTTCTTCCAATTCACAAGAGATAGACGTCTCATCAATCCTTAAGGAAACT
CATGGTTCAAGAAAGACTATTGCTACTCCA
Found at i:89944455 original size:18 final size:17
Alignment explanation
Indices: 89944431--89944484 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
89944421 CTTCAAAAGT
89944431 AAATAAAA-GACAAATTAA
1 AAATAAAATGA-AAA-TAA
*
89944449 AATTAAAATGAAAATAA
1 AAATAAAATGAAAATAA
*
89944466 AAATAAAAATGATAATAA
1 AAAT-AAAATGAAAATAA
89944484 A
1 A
89944485 TAAATGGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (17 bp):
AAATAAAATGAAAATAA
Found at i:89959031 original size:14 final size:14
Alignment explanation
Indices: 89959012--89959050 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
89959002 ATATTTGACT
89959012 TGTTCTTAATTATG
1 TGTTCTTAATTATG
89959026 TGTTCTTAATTATG
1 TGTTCTTAATTATG
*
89959040 AGTTCTTAATT
1 TGTTCTTAATT
89959051 CTTGTCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.56
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:89966697 original size:13 final size:13
Alignment explanation
Indices: 89966679--89966707 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
89966669 CTATGAATTA
89966679 TGCCTTGAACTTG
1 TGCCTTGAACTTG
89966692 TGCCTTGAACTTG
1 TGCCTTGAACTTG
89966705 TGC
1 TGC
89966708 TTGTGTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCCTTGAACTTG
Found at i:89970995 original size:39 final size:39
Alignment explanation
Indices: 89970952--89971070 Score: 184
Period size: 39 Copynumber: 3.1 Consensus size: 39
89970942 GTCCAGCACG
* *
89970952 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
* **
89970991 TAGCCTGCAGACATGAAGTTTGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
*
89971030 TAGCCTGTGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
89971069 TA
1 TA
89971071 TATATTCACA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (39 bp):
TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
Found at i:89974796 original size:28 final size:28
Alignment explanation
Indices: 89974765--89974915 Score: 89
Period size: 28 Copynumber: 5.5 Consensus size: 28
89974755 CTGACTGATT
89974765 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* **
89974793 TCGCACACATAGTGCCTCAATT-ACCAA-
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* **
89974820 T--C-TATGT-GTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
89974844 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * * *
89974873 TGGCACACATAGTGCTCGGTTGAAGAGC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
89974901 TTGCACACACAGTGC
1 TCGCACACATAGTGC
89974916 CACATAATTC
Statistics
Matches: 88, Mismatches: 27, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
22 6 0.07
23 6 0.07
24 3 0.03
25 1 0.01
26 1 0.01
27 3 0.03
28 40 0.45
29 28 0.32
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:89974993 original size:40 final size:40
Alignment explanation
Indices: 89974925--89975040 Score: 166
Period size: 40 Copynumber: 3.0 Consensus size: 40
89974915 CCACATAATT
*
89974925 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCA
*
89974964 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
89975004 CTAGCACGAATGCTCTTCGGGACTTAG-CCAGATATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
89975041 AACTCTCAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
39 23 0.33
40 47 0.67
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
Found at i:89979192 original size:38 final size:39
Alignment explanation
Indices: 89979090--89979207 Score: 184
Period size: 39 Copynumber: 3.1 Consensus size: 39
89979080 GTCCAGCACG
* *
89979090 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
* **
89979129 TAGCCTGCAGACATGAAGTTTGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
89979168 TAGCCTG-GGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
89979206 TA
1 TA
89979208 TATATTCACA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 30 0.42
39 41 0.58
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (39 bp):
TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
Found at i:89979219 original size:38 final size:36
Alignment explanation
Indices: 89979105--89979207 Score: 98
Period size: 38 Copynumber: 2.7 Consensus size: 36
89979095 TGCGGACCTA
**
89979105 AAGTCCGGATATAATTCTCGCATATAGCCTGCAGACATG
1 AAGTCCGGATATAATTCTCGCATATA-ATTGC--ACATG
** * * *
89979144 AAGTTTGGATATAATTCTCGCATATAGCCTGGGACATG
1 AAGTCCGGATATAATTCTCGCATATA--ATTGCACATG
89979182 AAGTCCGGATATAATTCTCGCATATA
1 AAGTCCGGATATAATTCTCGCATATA
89979208 TATATTCACA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 29 0.53
39 24 0.44
40 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (36 bp):
AAGTCCGGATATAATTCTCGCATATAATTGCACATG
Found at i:89982934 original size:28 final size:28
Alignment explanation
Indices: 89982903--89983053 Score: 89
Period size: 28 Copynumber: 5.5 Consensus size: 28
89982893 CTGACTGATT
89982903 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* **
89982931 TCGCACACATAGTGCCTCAATT-ACCAA-
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* **
89982958 T--C-TATGT-GTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
89982982 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * * *
89983011 TGGCACACATAGTGCTCGGTTGAAGAGC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
89983039 TTGCACACACAGTGC
1 TCGCACACATAGTGC
89983054 CACATAATTC
Statistics
Matches: 88, Mismatches: 27, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
22 6 0.07
23 6 0.07
24 3 0.03
25 1 0.01
26 1 0.01
27 3 0.03
28 40 0.45
29 28 0.32
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:89983131 original size:40 final size:40
Alignment explanation
Indices: 89983063--89983179 Score: 175
Period size: 40 Copynumber: 3.0 Consensus size: 40
89983053 CCACATAATT
*
89983063 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCA
*
89983102 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
89983142 CTAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
89983180 AACTCTCAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 15 0.21
40 56 0.79
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
Found at i:89987301 original size:39 final size:39
Alignment explanation
Indices: 89987275--89987393 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
89987265 GTCCAGCACG
* *
89987275 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
**
89987314 TAGCCTGCGGACATGAAGTTTGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
*
89987353 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCCCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
89987392 TA
1 TA
89987394 TATATTCACA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (39 bp):
TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
Found at i:89991316 original size:40 final size:40
Alignment explanation
Indices: 89991272--89991366 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
89991262 CCTTCGAGGT
*
89991272 TTAGCTCGGATATATCACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
* *
89991312 TTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
*
89991352 CTAGCCCGGATATAT
1 TTAGCCCGGATATAT
89991367 AACTCTCAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
Found at i:89994392 original size:39 final size:39
Alignment explanation
Indices: 89994366--89994484 Score: 202
Period size: 39 Copynumber: 3.1 Consensus size: 39
89994356 GTCCAGCACG
* *
89994366 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
* *
89994405 TAGCCTACGGACATGAAGTCTGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
89994444 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
89994483 TA
1 TA
89994485 TATATTCACA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
Found at i:90002256 original size:43 final size:43
Alignment explanation
Indices: 90002130--90002245 Score: 155
Period size: 43 Copynumber: 2.7 Consensus size: 43
90002120 ATATCGTACA
* **
90002130 ATGCAAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* *
90002173 ATGCC-ACTATCCCAGACAG-GGTCCTACACATAATCACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACATAATCACATATCG
90002216 ATGCCAACGTCCCAGACGTGGTCTTACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACA
90002246 CACACACATA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 3 0.05
43 56 0.90
44 3 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
Found at i:90013933 original size:28 final size:28
Alignment explanation
Indices: 90013893--90014015 Score: 228
Period size: 28 Copynumber: 4.4 Consensus size: 28
90013883 CGTACGGGCT
*
90013893 AGGACACGAGCATGCCATGGCCGTGTGA
1 AGGACACGGGCATGCCATGGCCGTGTGA
90013921 AGGACACGGGCATGCCATGGCCGTGTGA
1 AGGACACGGGCATGCCATGGCCGTGTGA
*
90013949 AGGATACGGGCATGCCATGGCCGTGTGA
1 AGGACACGGGCATGCCATGGCCGTGTGA
90013977 AGGACACGGGCATGCCATGGCCGTGTGA
1 AGGACACGGGCATGCCATGGCCGTGTGA
90014005 AGGACACGGGC
1 AGGACACGGGC
90014016 TAGAGACATG
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 92 1.00
ACGTcount: A:0.23, C:0.24, G:0.39, T:0.14
Consensus pattern (28 bp):
AGGACACGGGCATGCCATGGCCGTGTGA
Found at i:90014962 original size:43 final size:43
Alignment explanation
Indices: 90014622--90014951 Score: 423
Period size: 43 Copynumber: 7.7 Consensus size: 43
90014612 ATATCGTACA
* * * *
90014622 ATGCCAATGTCTCAGACGTGGTCTTACATGTACTCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
90014665 ATGCC-ACTTCCCTAGACAG-GGTCATACACGTAATCACATATCG
1 ATGCCAACGTCCC-AGAC-GTGGTCTTACACGTAATCACATATCG
*
90014708 ATGCCAACGTCCC-GATGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
90014750 ATGCCAGCGTCCCAGACGTGGTCTTACACATAATCACTTATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * * *
90014793 ATTCCAATGTCCCAAACGCGATCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
90014836 ATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
90014879 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
90014922 ATGCCAACATCCTAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
90014952 CACACACATA
Statistics
Matches: 246, Mismatches: 36, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
41 1 0.00
42 41 0.17
43 197 0.80
44 7 0.03
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:90026489 original size:20 final size:21
Alignment explanation
Indices: 90026446--90026491 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
90026436 ACTGTTTTGT
90026446 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
90026466 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
90026485 TATGGGC
1 TATGGGC
90026492 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:90027561 original size:14 final size:14
Alignment explanation
Indices: 90027544--90027577 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
90027534 TATAAAATTA
*
90027544 TAATTAACTAATAT
1 TAATTAAATAATAT
90027558 TAATTAAATAATAT
1 TAATTAAATAATAT
*
90027572 TTATTA
1 TAATTA
90027578 CAAACATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTAAATAATAT
Found at i:90027784 original size:29 final size:28
Alignment explanation
Indices: 90027738--90027804 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
90027728 CAAACAGGTG
90027738 TTCCTTTTCAAAGATTTGCCATAAAGGCAT
1 TTCC-TTTCAAAGATTTGCCATAAAGGC-T
* *
90027768 TTCCTTTCAAAGGTTTGCCATATAGGCT
1 TTCCTTTCAAAGATTTGCCATAAAGGCT
*
90027796 TACCTTTCA
1 TTCCTTTCA
90027805 TTCATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 9 0.26
29 21 0.62
30 4 0.12
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.39
Consensus pattern (28 bp):
TTCCTTTCAAAGATTTGCCATAAAGGCT
Found at i:90028143 original size:53 final size:53
Alignment explanation
Indices: 90028063--90028171 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
90028053 TCTTTAAGAT
*
90028063 TTTCCATATGATGCCTTCATCTACCAGTTACAGTCATACAAGATATGATCTTC
1 TTTCCATATGATGCATTCATCTACCAGTTACAGTCATACAAGATATGATCTTC
* * * *
90028116 TTTCCATATGATGTCATATCA-C-ACCAGTTACTGTCTTACATGATATGGTCTTC
1 TTTCCATATGATG-CAT-TCATCTACCAGTTACAGTCATACAAGATATGATCTTC
90028169 TTT
1 TTT
90028172 AGAGCCATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 43 0.88
54 3 0.06
55 3 0.06
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (53 bp):
TTTCCATATGATGCATTCATCTACCAGTTACAGTCATACAAGATATGATCTTC
Found at i:90030164 original size:49 final size:49
Alignment explanation
Indices: 90030092--90030275 Score: 242
Period size: 49 Copynumber: 3.7 Consensus size: 49
90030082 TGAAGCTATG
* *
90030092 TGGTACACATAGTAGCCTGCACTTAGTACTGCACATGCGACCAATAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* * * * *
90030141 TGGTACACGTAGTAGCCTGCACTTAGTACTACCCACGTGATCACAATTTTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATC
* *
90030192 GGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGGCCAATTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* * *
90030241 CGGTACACGTAGTAGCTTGCACTTAGTACTACACA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA
90030276 CGTGACCTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 74 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
Found at i:90030266 original size:100 final size:100
Alignment explanation
Indices: 90030093--90030280 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
90030083 GAAGCTATGT
* *
90030093 GGTACACATAGTAGCCTGCACTTAGTACTGCACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
90030158 TGCACTTAGTACTACCCACGTGATCACAATTTTCG
66 TGCACTTAGTACTACACACGTGATCACAATTTTCG
* * *
90030193 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGGCCAATTATCCGGTACACGTAGTAGCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
90030258 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
90030281 CCTCACTATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAATTTTCG
Found at i:90031505 original size:30 final size:30
Alignment explanation
Indices: 90031469--90031535 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
90031459 ATGGGACAAG
*
90031469 CCGTGTGTCACATACAGCCAAGACACACAC
1 CCGTGTGTCACACACAGCCAAGACACACAC
* *
90031499 CCGTGTGTCACACACGGCCAAGGCACACAC
1 CCGTGTGTCACACACAGCCAAGACACACAC
*
90031529 CCATGTG
1 CCGTGTG
90031536 GACAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.37, G:0.21, T:0.13
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCCAAGACACACAC
Found at i:90031724 original size:18 final size:17
Alignment explanation
Indices: 90031688--90031726 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
90031678 ATCAAAGGAT
90031688 ATAAACTTACTATTAAC
1 ATAAACTTACTATTAAC
90031705 ATAAACTTA-TATGCTAAC
1 ATAAACTTACTAT--TAAC
90031723 ATAA
1 ATAA
90031727 TTCCAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 9 0.45
18 8 0.40
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAAACTTACTATTAAC
Found at i:90037840 original size:46 final size:46
Alignment explanation
Indices: 90037611--90037973 Score: 271
Period size: 46 Copynumber: 7.7 Consensus size: 46
90037601 GGGTATAATT
*
90037611 CCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATCCATC-AAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-C-TCGTAG
* * ** * ** *
90037658 TCGATGTCATGTCCCAAACATGGTCTTACACTAACTATCGAAATC-AAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATCTCGTA-G
* * * *
90037707 CCGATGCCATGTCCCAGAAATGGTCTTACACTGACACCTCTAT-ACGT-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TCTC-ATCTCGTAG
* *
90037755 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTAG
* *
90037801 CCGATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGTAG
* * *
90037847 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATA-
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTC-GTAG
* *
90037893 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGTAG
*
90037941 CCGAGGCATGTCCCAGACATGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC
90037974 ACACAAATAA
Statistics
Matches: 260, Mismatches: 39, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
44 12 0.05
45 19 0.07
46 72 0.28
47 60 0.23
48 58 0.22
49 35 0.13
50 4 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAG
Found at i:90051914 original size:29 final size:30
Alignment explanation
Indices: 90051882--90051939 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
90051872 TCTAGTTTAA
90051882 TGTGTAATTATATATATG-AATTTTGATTT
1 TGTGTAATTATATATATGAAATTTTGATTT
*
90051911 TGTGTAATTTTATATATGAAATTTTGATT
1 TGTGTAATTATATATATGAAATTTTGATT
90051940 GGATCTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (30 bp):
TGTGTAATTATATATATGAAATTTTGATTT
Found at i:90059800 original size:18 final size:19
Alignment explanation
Indices: 90059779--90059829 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
90059769 GAAAAGTGAA
90059779 AAAAATTATAAAAT-TATT
1 AAAAATTATAAAATATATT
* *
90059797 AAAAATTACAAAAATATTTT
1 AAAAATTA-TAAAATATATT
90059817 AAAAATATATAAA
1 AAAAAT-TATAAA
90059830 TTACAAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.30
19 5 0.19
20 12 0.44
21 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTATAAAATATATT
Found at i:90059819 original size:29 final size:28
Alignment explanation
Indices: 90059777--90059837 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
90059767 TAGAAAAGTG
*
90059777 AAAAAAATTATAAAATTATTAAAAATTAC
1 AAAAAAATTATAAAAATA-TAAAAATTAC
* * *
90059806 AAAAATATTTTAAAAATATATAAATTAC
1 AAAAAAATTATAAAAATATAAAAATTAC
90059834 AAAA
1 AAAA
90059838 GCTAAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAAAATTATAAAAATATAAAAATTAC
Found at i:90074815 original size:72 final size:72
Alignment explanation
Indices: 90074698--90074840 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
90074688 CAGTTGAAAC
* *
90074698 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTTAGTTACGGTCATACGAC
1 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACGATCATACGAC
90074763 CCTGTTT
66 CCTGTTT
* *
90074770 ACATTCATGAGCATATCGACTTAGTCTTATAAATTTCTGTTCATACTCAGTTACGATCATACGAC
1 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACGATCATACGAC
90074835 CCTGTT
66 CCTGTT
90074841 ACAATTCCAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (72 bp):
ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACGATCATACGAC
CCTGTTT
Found at i:90082138 original size:20 final size:20
Alignment explanation
Indices: 90082113--90082157 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
90082103 TGTAAGTCCA
* *
90082113 TAATATTACTTTTCATAACT
1 TAATATCACATTTCATAACT
*
90082133 TAATATCACATTTCATAATT
1 TAATATCACATTTCATAACT
90082153 TAATA
1 TAATA
90082158 ACACTTCCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATATCACATTTCATAACT
Found at i:90083263 original size:17 final size:18
Alignment explanation
Indices: 90083241--90083283 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
90083231 TATTAATTAC
*
90083241 TAATTTTATCACT-TATT
1 TAATTTTATCACTGTACT
* *
90083258 TAATTTAATCATTGTACT
1 TAATTTTATCACTGTACT
90083276 TAATTTTA
1 TAATTTTA
90083284 AACATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATTTTATCACTGTACT
Found at i:90092838 original size:18 final size:19
Alignment explanation
Indices: 90092815--90092854 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
90092805 AATTTGAAAC
90092815 AAAATA-GAAAATTTTGGA
1 AAAATATGAAAATTTTGGA
90092833 AAAATATGAAAATTTTGGA
1 AAAATATGAAAATTTTGGA
90092852 AAA
1 AAA
90092855 TAGGGGTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (19 bp):
AAAATATGAAAATTTTGGA
Found at i:90095918 original size:27 final size:27
Alignment explanation
Indices: 90095883--90095969 Score: 165
Period size: 27 Copynumber: 3.2 Consensus size: 27
90095873 ATAAATAGCC
90095883 TCATCAAACACTTCTTAAAGGACAAATT
1 TCAT-AAACACTTCTTAAAGGACAAATT
90095911 TCATAAACACTTCTTAAAGGACAAATT
1 TCATAAACACTTCTTAAAGGACAAATT
90095938 TCATAAACACTTCTTAAAGGACAAATT
1 TCATAAACACTTCTTAAAGGACAAATT
90095965 TCATA
1 TCATA
90095970 CTCTATAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 55 0.93
28 4 0.07
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
TCATAAACACTTCTTAAAGGACAAATT
Found at i:90101428 original size:9 final size:9
Alignment explanation
Indices: 90101393--90101428 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
90101383 AGAAAGTGAA
90101393 GATGAGGAAG
1 GATGAGG-AG
90101403 GA-GAGGAG
1 GATGAGGAG
90101411 GATGAGGAG
1 GATGAGGAG
90101420 GATGAGGAG
1 GATGAGGAG
90101429 ATCAACTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.16
9 19 0.76
10 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.56, T:0.08
Consensus pattern (9 bp):
GATGAGGAG
Found at i:90102787 original size:20 final size:20
Alignment explanation
Indices: 90102762--90102799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90102752 AAATCTATAT
90102762 AATAAAAAAAATTAAATAAA
1 AATAAAAAAAATTAAATAAA
* *
90102782 AATAAAATAATTTAAATA
1 AATAAAAAAAATTAAATA
90102800 CGTACAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AATAAAAAAAATTAAATAAA
Found at i:90105877 original size:17 final size:18
Alignment explanation
Indices: 90105852--90105888 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
90105842 GTTTTATTGA
*
90105852 TTTCATTGTTTGTTTATT
1 TTTCATTGTTTATTTATT
90105870 TTTC-TTGTTTATTTATT
1 TTTCATTGTTTATTTATT
90105887 TT
1 TT
90105889 CGTTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTCATTGTTTATTTATT
Found at i:90114342 original size:27 final size:27
Alignment explanation
Indices: 90114312--90114489 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
90114302 ATATTGAGCC
* *
90114312 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
90114339 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
90114366 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
90114394 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
90114421 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
90114448 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
90114475 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90114490 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:90114451 original size:82 final size:81
Alignment explanation
Indices: 90114333--90114488 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
90114323 TGCTATATAA
* * *
90114333 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
90114398 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90114415 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
90114479 CACTTAGTGC
65 CACTTAGTGC
90114489 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90120420 original size:24 final size:24
Alignment explanation
Indices: 90120393--90120461 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
90120383 TTGTCAGGAG
90120393 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
90120417 AGGATTTAGGAGTTGATAAGCGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
90120441 AGGATTTAGGAGTAGATAAGG
1 AGGATTTAGGAGTTGATAAGG
90120462 AAGGAAATCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.35, C:0.01, G:0.36, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:90123355 original size:24 final size:24
Alignment explanation
Indices: 90123323--90123391 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
90123313 CTGTCAGGAG
90123323 AGGATTTAGGAGTTAATAAGGGAT
1 AGGATTTAGGAGTTAATAAGGGAT
*
90123347 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTAATAAGGGAT
90123371 AGGATTTAGGAG-TAGATAAGG
1 AGGATTTAGGAGTTA-ATAAGG
90123392 AAGGAAATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTAATAAGGGAT
Found at i:90123405 original size:48 final size:49
Alignment explanation
Indices: 90123323--90123416 Score: 115
Period size: 48 Copynumber: 1.9 Consensus size: 49
90123313 CTGTCAGGAG
* *
90123323 AGGATTTAGGAGTTAATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGTTAATAAGGGATAGGATCTAGGAGCTGATCAAGGGAT
90123371 AGGATTTAGGAG-TAGATAA-GGA-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGTTA-ATAAGGGATAGG--ATCTAGGAGCTGATCAAGG
90123417 AACAAGAGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
46 3 0.08
47 5 0.12
48 28 0.70
49 4 0.10
ACGTcount: A:0.37, C:0.03, G:0.35, T:0.24
Consensus pattern (49 bp):
AGGATTTAGGAGTTAATAAGGGATAGGATCTAGGAGCTGATCAAGGGAT
Found at i:90124908 original size:54 final size:54
Alignment explanation
Indices: 90124804--90124908 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
90124794 AGGAAGCGTC
* *
90124804 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTATT
* * * *
90124858 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCT
90124909 GTTCCGGCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 27 0.61
55 17 0.39
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTATT
Found at i:90124910 original size:27 final size:27
Alignment explanation
Indices: 90124804--90124910 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
90124794 AGGAAGCGTC
*
90124804 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
90124831 CTGGTGGCTCTGCCACATATATCTAT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
90124858 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* **
90124886 CTGGTGACTCTATCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
90124911 TCCGGCAGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
26 2 0.03
27 51 0.75
28 15 0.22
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:90131020 original size:26 final size:26
Alignment explanation
Indices: 90130984--90131067 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
90130974 CATGAAATTC
90130984 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90131010 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90131036 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90131062 TTATCA
1 TTATCA
90131068 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90131526 original size:85 final size:85
Alignment explanation
Indices: 90131383--90131553 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
90131373 CAGGATTCCC
90131383 GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
1 GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
90131448 TGAGAAGAAAAGAAACCATT
66 TGAGAAGAAAAGAAACCATT
90131468 GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
1 GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
90131533 TGAGAAGAAAAGAAACCATT
66 TGAGAAGAAAAGAAACCATT
90131553 G
1 G
90131554 TTGAAGTTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (85 bp):
GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
TGAGAAGAAAAGAAACCATT
Found at i:90136268 original size:70 final size:70
Alignment explanation
Indices: 90136155--90136292 Score: 240
Period size: 70 Copynumber: 2.0 Consensus size: 70
90136145 TCGAATTTTA
*
90136155 CTCAAATTTAAAACTTTCAAACTTCCTATTACCGCCCCTAATATGAACCTACGACGCCCAAAAAC
1 CTCAAATTTAAAACTTTCAAACTTCCTATTACCCCCCCTAATATGAACCTACGACGCCCAAAAAC
90136220 ACATG
66 ACATG
* * *
90136225 CTCAAATTTAAAACTTTCAAACTTCCTCTTACCCCCCCTAATATGAGCCTACGATGCCCAAAAAC
1 CTCAAATTTAAAACTTTCAAACTTCCTATTACCCCCCCTAATATGAACCTACGACGCCCAAAAAC
90136290 ACA
66 ACA
90136293 CTTTGAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.36, C:0.33, G:0.07, T:0.25
Consensus pattern (70 bp):
CTCAAATTTAAAACTTTCAAACTTCCTATTACCCCCCCTAATATGAACCTACGACGCCCAAAAAC
ACATG
Found at i:90145935 original size:48 final size:47
Alignment explanation
Indices: 90145817--90146241 Score: 393
Period size: 48 Copynumber: 8.8 Consensus size: 47
90145807 TAAGATGCCA
* * * * *
90145817 ATGCCATGTCCTAGACATGATCTTACACTGGCTCTCATATATTG-GTGCCA
1 ATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATA--GAG-GCCG
* * * *
90145867 ATGCCATGTTCCAAAAATGGTCTTACACTAGCCCACATGTCGAGGCCG
1 ATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* ** * * *
90145915 ATGCCATGTCCTAGACATGGTCTTACACTAGCTGTCATGTAAATGCCG
1 ATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * *
90145963 ATACCATTTTCCAAACATGCTCTTACACTAGCTCACATATTGAGGCCG
1 ATGCCA-TGTCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * * *
90146011 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCTG
1 ATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * *
90146059 ATTCCATGTTCCTAACATGGTCTTACACTGGCTCACATATTGAGGCCG
1 ATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * * *
90146107 ATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCG
1 ATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * *
90146155 ATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGGCCA
1 ATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
*
90146203 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
1 ATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATA
90146242 ACACTAGTAT
Statistics
Matches: 300, Mismatches: 66, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
47 7 0.02
48 254 0.85
49 7 0.02
50 29 0.10
51 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
Found at i:90146008 original size:96 final size:96
Alignment explanation
Indices: 90145817--90146241 Score: 598
Period size: 96 Copynumber: 4.4 Consensus size: 96
90145807 TAAGATGCCA
* * * ** *
90145817 ATGCCATGTCCTAGACATGATCTTACACTGGCTCTCATATATTGGTGCCAATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTCCAAA
* * *
90145882 AATGGTCTTACACTAGCCCACATGTCGAGGCCG
64 CATGGTCTTACACTAGCTCACATATCGAGGCCG
* * * * *
90145915 ATGCCATGTCCTAGACATGGTCTTACACTAGCTGTCATGTAAATGCCGATACCATTTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
* *
90145980 TGCTCTTACACTAGCTCACATATTGAGGCCG
66 TGGTCTTACACTAGCTCACATATCGAGGCCG
* * *
90146011 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCTGATTCCATGTTCCTAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
* *
90146076 TGGTCTTACACTGGCTCACATATTGAGGCCG
66 TGGTCTTACACTAGCTCACATATCGAGGCCG
*
90146107 ATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
* * *
90146172 TGGTCTTACATTGGCTCACATATCGAGGCCA
66 TGGTCTTACACTAGCTCACATATCGAGGCCG
*
90146203 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
90146242 ACACTAGTAT
Statistics
Matches: 295, Mismatches: 32, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
96 258 0.87
98 37 0.13
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
TGGTCTTACACTAGCTCACATATCGAGGCCG
Found at i:90146077 original size:144 final size:143
Alignment explanation
Indices: 90145820--90146241 Score: 443
Period size: 144 Copynumber: 2.9 Consensus size: 143
90145810 GATGCCAATG
* * * * * *
90145820 CCATGTCCTAGACATGATCTTACACTGGCTCTCATATATTG-GTGCCAATGCCATGTTCCAAAAA
1 CCATGTCCCAAACATG-TCTTACACTAG--CTCACATATTGAG-GCCGATGCCATGTTCCAAACA
* *
90145884 TGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCT
62 TGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTTCCTA-ACATGGTCTTACACTAGCT
* * *
90145948 GTCATGTAAATGCCGATA
126 CTCATATAAAGGCCGATA
* * * *
90145966 CCATTTTCCAAACATGCTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAAACATG-TCTTACACTAGCTCACATATTGAGGCCGATGCCATGTTCCAAACATGG
* ** * * * * *
90146031 TCTTACACTAGCTCTCATATAAATGCTGATTCCATGTTCCTAACATGGTCTTACACTGGCTCACA
65 TCTTACACTAGCTCACATATCGAGGCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCTCA
** *
90146096 TATTGAGGCCGATG
130 TATAAAGGCCGATA
* * ** *
90146110 CCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACATGG
1 CCATGTCCCAAACAT-GTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTTCCAAACATGG
* * * * *
90146175 TCTTACATTGGCTCACATATCGAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA
65 TCTTACACTAGCTCACATATCGAGGCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCTCA
90146240 TA
130 TA
90146242 ACACTAGTAT
Statistics
Matches: 224, Mismatches: 49, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
144 195 0.87
145 7 0.03
146 22 0.10
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (143 bp):
CCATGTCCCAAACATGTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTTCCAAACATGGT
CTTACACTAGCTCACATATCGAGGCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCTCAT
ATAAAGGCCGATA
Found at i:90153093 original size:51 final size:51
Alignment explanation
Indices: 90153038--90153138 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
90153028 ACATGTAATA
** * * * *
90153038 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTTACATGTATCG
1 CATCCATAATGAACTCAAACCACTCAACGAGCTCAGATGCTACATATATCG
*
90153089 CATCCATTATGAACTCAAACCACTCAACGAGCTCAGATGCTACATATATC
1 CATCCATAATGAACTCAAACCACTCAACGAGCTCAGATGCTACATATATC
90153139 ACGAACTTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.25
Consensus pattern (51 bp):
CATCCATAATGAACTCAAACCACTCAACGAGCTCAGATGCTACATATATCG
Found at i:90153188 original size:43 final size:43
Alignment explanation
Indices: 90153107--90153211 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 43
90153097 ATGAACTCAA
* * * *
90153107 ACCACTCAACGAGCTCAGATGCT-ACATATATCACGAACTTGG
1 ACCACTCAACAAGCTCGGATGGTCACATATATCACGAACTCGG
* * *
90153149 ACTACTCAACAAGTTCGGATGGTCACATATATCATGAACTCGG
1 ACCACTCAACAAGCTCGGATGGTCACATATATCACGAACTCGG
*
90153192 ACCACTTAACAAGCTCGGAT
1 ACCACTCAACAAGCTCGGAT
90153212 TTCTTAATTC
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 18 0.35
43 34 0.65
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ACCACTCAACAAGCTCGGATGGTCACATATATCACGAACTCGG
Found at i:90176890 original size:43 final size:43
Alignment explanation
Indices: 90176824--90176996 Score: 190
Period size: 43 Copynumber: 4.0 Consensus size: 43
90176814 AGCTCGTACA
* * *
90176824 ATGCCAACGTCCCAGACTTGGTCTTACATGTAATCAAATATAG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
* * *
90176867 ATGCCACTGTCCCAGACAAGGTCTTTCATG-AAGTCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAA-TCAAATATCG
* * *
90176909 ATGCTAATGTCCCAGACATGGTCTTAAATGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGT-AATC-AAATATCG
* * *
90176953 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
90176996 A
1 A
90176997 AATCCTATGT
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 29 0.27
43 44 0.42
44 33 0.31
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
Found at i:90176968 original size:44 final size:43
Alignment explanation
Indices: 90176824--90176980 Score: 176
Period size: 42 Copynumber: 3.7 Consensus size: 43
90176814 AGCTCGTACA
* * * *
90176824 ATGCCAACGTCCCAGACTTGGTCTTACATGTAATC-AAATATAG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA-ATCG
* * * *
90176867 ATGCCACTGTCCCAGACAAGGTCTTTCATG-AA-GTCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAAAT-CG
* *
90176909 ATGCTAATGTCCCAGACATGGTCTTAAATGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGT-AATCTCAAATCG
90176953 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
90176981 CGAAATCACA
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 30 0.32
43 25 0.27
44 30 0.32
45 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAAATCG
Found at i:90181296 original size:18 final size:18
Alignment explanation
Indices: 90181275--90181309 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90181265 AATCAGTAAT
* *
90181275 CAGTAATGGTAGCAGTAG
1 CAGTAATAGTAACAGTAG
90181293 CAGTAATAGTAACAGTA
1 CAGTAATAGTAACAGTA
90181310 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (18 bp):
CAGTAATAGTAACAGTAG
Found at i:90181338 original size:39 final size:39
Alignment explanation
Indices: 90181295--90181393 Score: 99
Period size: 45 Copynumber: 2.4 Consensus size: 39
90181285 AGCAGTAGCA
* *
90181295 GTAATAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAATAGTAACAGTATTCAACACACAAAGTGTCGAATCG
* *
90181334 GTAATAGTAGCGTTAATAGTATTCGACACACAAAGTGTCGAATCG
1 GT-A-A-TA--G-TAACAGTATTCAACACACAAAGTGTCGAATCG
*
90181379 GTAACAGTAACAGTA
1 GTAATAGTAACAGTA
90181394 GTCGGCACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
39 9 0.19
40 2 0.04
41 1 0.02
42 3 0.06
43 1 0.02
44 2 0.04
45 30 0.62
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (39 bp):
GTAATAGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:90182478 original size:22 final size:20
Alignment explanation
Indices: 90182442--90182502 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
90182432 ATTCTGTTTG
*
90182442 TTTTGTTTCTATTTATTTTA
1 TTTTATTTCTATTTATTTTA
*
90182462 TGCTTTATTTCTTTTTATTTTA
1 T--TTTATTTCTATTTATTTTA
*
90182484 TTTTATTTATATTATATTT
1 TTTTATTTCTATT-TATTT
90182503 AATTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.32
21 5 0.15
22 18 0.53
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATTTCTATTTATTTTA
Found at i:90183011 original size:20 final size:19
Alignment explanation
Indices: 90182984--90183025 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
90182974 ATATAAAACC
90182984 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
90183003 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
90183023 ATA
1 ATA
90183026 TATATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:90200412 original size:32 final size:32
Alignment explanation
Indices: 90200366--90200436 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
90200356 TGAACCTTTG
90200366 ATTAATT-GTAATTTAAATTCCTAAGCCATAT
1 ATTAATTAGTAATTTAAATTCCTAAGCCATAT
90200397 ATTAATTAGTAATTTAAATTCCTAAGCCATAT
1 ATTAATTAGTAATTTAAATTCCTAAGCCATAT
90200429 ATTAATTA
1 ATTAATTA
90200437 AAAATCTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
31 7 0.18
32 32 0.82
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (32 bp):
ATTAATTAGTAATTTAAATTCCTAAGCCATAT
Found at i:90201993 original size:35 final size:35
Alignment explanation
Indices: 90201918--90202044 Score: 148
Period size: 35 Copynumber: 3.6 Consensus size: 35
90201908 GTATATCAAC
* * * *
90201918 AATCCAACCAAAACACACCAGATTCTCATAAGAGCC
1 AATCCATCCTAAACACACCA-ATGCTCATAAGAGCT
*
90201954 AATCCATCCTAAACACACGAATGCTCATAAGAGCT
1 AATCCATCCTAAACACACCAATGCTCATAAGAGCT
* *
90201989 AATCCCT-TTGAAACACACCAATGCTCATAAGAGCT
1 AATCCATCCT-AAACACACCAATGCTCATAAGAGCT
* *
90202024 AATCCAGCCGAAACACACCAA
1 AATCCATCCTAAACACACCAA
90202045 AACAGAGAGT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
34 1 0.01
35 59 0.77
36 17 0.22
ACGTcount: A:0.42, C:0.31, G:0.10, T:0.17
Consensus pattern (35 bp):
AATCCATCCTAAACACACCAATGCTCATAAGAGCT
Found at i:90203469 original size:59 final size:59
Alignment explanation
Indices: 90203377--90203495 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
90203367 ATACGTCATA
*
90203377 TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATTAGATTTGTACCG
1 TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATCAGATTTGTACCG
90203436 TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATCAGATTTGTACCG
1 TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATCAGATTTGTACCG
90203495 T
1 T
90203496 CTCAGCATTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (59 bp):
TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATCAGATTTGTACCG
Found at i:90212527 original size:35 final size:35
Alignment explanation
Indices: 90212459--90212624 Score: 224
Period size: 35 Copynumber: 4.7 Consensus size: 35
90212449 GACAATCCAA
* * * *
90212459 CCAAAAGACACCAGATGCTCATAATAGCCAATCCAT
1 CCAAAACACACCA-ATGCTCATAAGAGCTAATCCCT
* * *
90212495 CCTAAACACACCAATGCTCGTAAGGGCTAATCCCT
1 CCAAAACACACCAATGCTCATAAGAGCTAATCCCT
* *
90212530 CCGAAACACACCAATGATCATAAGAGCTAATCCCT
1 CCAAAACACACCAATGCTCATAAGAGCTAATCCCT
*
90212565 CCAAAACACACCAATGCTCATAAGAGTTAATCCCT
1 CCAAAACACACCAATGCTCATAAGAGCTAATCCCT
*
90212600 CTAAAACACACCAATGCTCATAAGA
1 CCAAAACACACCAATGCTCATAAGA
90212625 TCTAGTCCAA
Statistics
Matches: 115, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 104 0.90
36 11 0.10
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.18
Consensus pattern (35 bp):
CCAAAACACACCAATGCTCATAAGAGCTAATCCCT
Found at i:90212641 original size:105 final size:106
Alignment explanation
Indices: 90212459--90212648 Score: 249
Period size: 105 Copynumber: 1.8 Consensus size: 106
90212449 GACAATCCAA
* * * *
90212459 CCAAAAGACACCAGATGCTCATAATAGCCAATCCATCCTAAACACACCAATGCTCGTAAGGGCTA
1 CCAAAACACACCAGATGCTCATAAGAGCCAATCCATCCTAAACACACCAATGCTCATAAGAGCTA
** *
90212524 ATCCCTCCGAAACACACCAATGATCATAAGAGCTAATCCCT
66 ATCCAACAGAAACACACCAATGATCATAAGAGCTAATCCCT
** * *
90212565 CCAAAACACACCA-ATGCTCATAAGAGTTAATCCCT-CTAAAACACACCAATGCTCATAAGATCT
1 CCAAAACACACCAGATGCTCATAAGAGCCAATCCATCCT-AAACACACCAATGCTCATAAGAGCT
*
90212628 AGTCCAACAGAAACACACCAA
65 AATCCAACAGAAACACACCAA
90212649 AACAAAGAGT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
104 2 0.03
105 57 0.80
106 12 0.17
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.17
Consensus pattern (106 bp):
CCAAAACACACCAGATGCTCATAAGAGCCAATCCATCCTAAACACACCAATGCTCATAAGAGCTA
ATCCAACAGAAACACACCAATGATCATAAGAGCTAATCCCT
Found at i:90212642 original size:35 final size:34
Alignment explanation
Indices: 90212460--90212648 Score: 198
Period size: 35 Copynumber: 5.4 Consensus size: 34
90212450 ACAATCCAAC
* * * *
90212460 CAAAAGACACCAGATGCTCATAATAGCCAATCCAT
1 CAAAACACACCA-ATGCTCATAAGAGCTAATCCCT
* * *
90212495 CCTAAACACACCAATGCTCGTAAGGGCTAATCCCT
1 -CAAAACACACCAATGCTCATAAGAGCTAATCCCT
* *
90212530 CCGAAACACACCAATGATCATAAGAGCTAATCCCT
1 -CAAAACACACCAATGCTCATAAGAGCTAATCCCT
*
90212565 CCAAAACACACCAATGCTCATAAGAGTTAATCCCT
1 -CAAAACACACCAATGCTCATAAGAGCTAATCCCT
* * **
90212600 CTAAAACACACCAATGCTCATAAGATCTAGTCCAA
1 C-AAAACACACCAATGCTCATAAGAGCTAATCCCT
90212635 CAGAAACACACCAA
1 CA-AAACACACCAA
90212649 AACAAAGAGT
Statistics
Matches: 132, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
34 2 0.02
35 120 0.91
36 10 0.08
ACGTcount: A:0.41, C:0.31, G:0.11, T:0.17
Consensus pattern (34 bp):
CAAAACACACCAATGCTCATAAGAGCTAATCCCT
Found at i:90213440 original size:28 final size:30
Alignment explanation
Indices: 90213385--90213450 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
90213375 GCTACAGGGG
*
90213385 ACACACAACCGTGTCGCCTGGCCATGTGTC
1 ACACACAACCATGTCGCCTGGCCATGTGTC
* * **
90213415 ACACACAACTATGTCGCTTGGCTGTGTGTC
1 ACACACAACCATGTCGCCTGGCCATGTGTC
90213445 ACACAC
1 ACACAC
90213451 GGCTAAGACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (30 bp):
ACACACAACCATGTCGCCTGGCCATGTGTC
Found at i:90223584 original size:9 final size:9
Alignment explanation
Indices: 90223570--90223598 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
90223560 TAATTTTCGG
90223570 TCCAACTAA
1 TCCAACTAA
90223579 TCCAACTAA
1 TCCAACTAA
90223588 TCCAACTAA
1 TCCAACTAA
90223597 TC
1 TC
90223599 AATCCATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (9 bp):
TCCAACTAA
Found at i:90226971 original size:130 final size:130
Alignment explanation
Indices: 90226733--90226990 Score: 401
Period size: 130 Copynumber: 2.0 Consensus size: 130
90226723 GTCACATCCT
* *
90226733 AACATGCATGATACACCTCTGGCATAGTCCTTATGATTTAAACTGATCTGAATTTTCTTATAGTG
1 AACATGCATAATACACCTCTGGCATAGTCCTTATGATTTAAACTAATCTGAATTTTCTTATAGTG
** * *
90226798 TTGATAACAATGTTTGAAGGATCTAGAAAAGTGTCTGGTGAAGAAATTAAAAGTAATGTGCCCCC
66 TTGATAACAATGTTAAAAGGATCTAGAAAAGCGTCTGGAGAAGAAATTAAAAGTAATGTGCCCCC
* *
90226863 AACATGCATAATACGCCTCTGGTATAGTCCTTATGATTTAAACTAATCTGAATTTTCTTATAGTG
1 AACATGCATAATACACCTCTGGCATAGTCCTTATGATTTAAACTAATCTGAATTTTCTTATAGTG
* * *
90226928 TTGATAACAATGTTAAAAGGATCTAGAGAAGCGT-TCGGAGAAGAAATTGAAAGTCATGTGCCC
66 TTGATAACAATGTTAAAAGGATCTAGAAAAGCGTCT-GGAGAAGAAATTAAAAGTAATGTGCCC
90226991 AATGTCCTAG
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
129 1 0.01
130 115 0.99
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (130 bp):
AACATGCATAATACACCTCTGGCATAGTCCTTATGATTTAAACTAATCTGAATTTTCTTATAGTG
TTGATAACAATGTTAAAAGGATCTAGAAAAGCGTCTGGAGAAGAAATTAAAAGTAATGTGCCCCC
Found at i:90229633 original size:46 final size:46
Alignment explanation
Indices: 90229566--90229691 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
90229556 AACCCGCCCT
* * * *
90229566 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
* *
90229612 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
90229658 TAAGTGAACTCGGGCTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90229692 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:90229710 original size:46 final size:46
Alignment explanation
Indices: 90229568--90229710 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 46
90229558 CCCGCCCTTA
* * ** *
90229568 AGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTC-A-CATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
* * * * *
90229613 AAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT--A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCTCAACCATCCT
*
90229660 AGTGAACTCGGGCTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
90229706 AGTGA
1 AGTGA
90229711 CATGTCACTT
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 60 0.80
47 1 0.01
48 1 0.01
50 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:90245397 original size:16 final size:15
Alignment explanation
Indices: 90245376--90245405 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
90245366 AAAATGTTTT
90245376 TTAATTTATAATTTAA
1 TTAATTT-TAATTTAA
90245392 TTAATTTTAATTTA
1 TTAATTTTAATTTA
90245406 TTCCCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTTAA
Found at i:90249423 original size:32 final size:32
Alignment explanation
Indices: 90249382--90249445 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
90249372 TTTTCGGTGA
90249382 ACTGACTGACATTACACTTCTAAGATAAGTCT
1 ACTGACTGACATTACACTTCTAAGATAAGTCT
90249414 ACTGACTGACATTACACTTCTAAGATAAGTCT
1 ACTGACTGACATTACACTTCTAAGATAAGTCT
90249446 TTCTCTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (32 bp):
ACTGACTGACATTACACTTCTAAGATAAGTCT
Found at i:90254239 original size:75 final size:75
Alignment explanation
Indices: 90254110--90254249 Score: 235
Period size: 75 Copynumber: 1.9 Consensus size: 75
90254100 GAGTTACATC
90254110 CCTTATTAATAGAGAAGACAAACGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
1 CCTTATTAATAGAGAAGACAAACGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
90254175 AGGATTATTA
66 AGGATTATTA
* * * * *
90254185 CCTTTTTAATAGAGAAGACAAATGCAAAGTTAGAAAAATGAATTATATTCTTTCCAAAAGAATAT
1 CCTTATTAATAGAGAAGACAAACGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
90254250 TAATTTCTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (75 bp):
CCTTATTAATAGAGAAGACAAACGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
AGGATTATTA
Found at i:90254478 original size:138 final size:138
Alignment explanation
Indices: 90254225--90254512 Score: 404
Period size: 138 Copynumber: 2.1 Consensus size: 138
90254215 TAGAAAAATG
* *
90254225 AATTATATTCTTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTGACAAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTACATCTTTTATATGTTGACAAAAATTAATTAA
* * * *
90254290 TATAACTGTTTATATTAATAAATTTGGTAAAATTTATACAATTTATATTTTGTA-TGAATCAAAT
66 TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAACATTTTGTACT-AATCAAAT
*
90254354 TCATATGTT
130 TCATATATT
* *
90254363 AATTATATTCTTTCTAAAAGAATATTAATTT-TAACATCTTTTATATGTTGACCAAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCT-ACATCTTTTATATGTTGACAAAAATTAATTA
* * *
90254427 ATATAATTGTTTATATTTAT-AGTTTCAGTAAAATATATACAATTAACATTTTGTACTAATCAAA
65 ATATAACTGTTTATATTAATAAATTT-AGTAAAATATATACAATTAACATTTTGTACTAATCAAA
90254491 TTCATATATT
129 TTCATATATT
*
90254501 AATTTTA-TCTTT
1 AATTATATTCTTT
90254513 GTTATTTATT
Statistics
Matches: 134, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
137 10 0.07
138 123 0.92
139 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCTACATCTTTTATATGTTGACAAAAATTAATTAA
TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAACATTTTGTACTAATCAAATT
CATATATT
Found at i:90255829 original size:40 final size:39
Alignment explanation
Indices: 90255785--90255928 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 39
90255775 TGATGACAAA
* * *
90255785 TCGGTTATATAAGGCACTTAGTGTGCGATACGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGAT-TGACATAGCT
* * *
90255825 TCGGTTATATATGGCAGTTAGTGTACGATTTGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGA-TTGACATAGCT
*
90255865 TCGGCTATATATGGCACTTAGTGTGCGACTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGA-TTGACATAGCT
* *
90255905 TCGGCTATGTACGGCACTTAGTGT
1 TCGGCTATATATGGCACTTAGTGT
90255929 ACGAGATATC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 91 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (39 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTGACATAGCT
Found at i:90255881 original size:80 final size:80
Alignment explanation
Indices: 90255785--90255932 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 80
90255775 TGATGACAAA
* * * *
90255785 TCGGTTATATAAGGCACTTAGTGTGCGA-TACGACATAGCTTCGGTTATATATGGCAGTTAGTGT
1 TCGGCTATATAAGGCACTTAGTGTGCGACT-CGACATAGCTTCGGCTATATACGGCACTTAGTGT
90255849 ACGATTTGACATAGCT
65 ACGATTTGACATAGCT
* * * *
90255865 TCGGCTATATATGGCACTTAGTGTGCGACTTGAGATAGCTTCGGCTATGTACGGCACTTAGTGTA
1 TCGGCTATATAAGGCACTTAGTGTGCGACTCGACATAGCTTCGGCTATATACGGCACTTAGTGTA
90255930 CGA
66 CGA
90255933 GATATCAAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 58 0.98
81 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (80 bp):
TCGGCTATATAAGGCACTTAGTGTGCGACTCGACATAGCTTCGGCTATATACGGCACTTAGTGTA
CGATTTGACATAGCT
Found at i:90276875 original size:40 final size:40
Alignment explanation
Indices: 90276820--90277116 Score: 377
Period size: 40 Copynumber: 7.5 Consensus size: 40
90276810 CGGATGATAA
* ** * *
90276820 CCGGGCTAAGCCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
90276860 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
90276900 CCGGGCTAAGTCCCGAAGGCATTTGTTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
90276940 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
90276980 CCGGGCTAAGTTCTGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
90277020 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
90277060 CCCGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
90277099 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
90277117 TACTTGGCTT
Statistics
Matches: 227, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
38 15 0.07
39 15 0.07
40 197 0.87
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:90278594 original size:26 final size:26
Alignment explanation
Indices: 90278565--90278672 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
90278555 TGATACAAAT
90278565 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
90278591 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
90278617 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90278643 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90278669 TGAT
1 TGAT
90278673 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90288626 original size:13 final size:13
Alignment explanation
Indices: 90288603--90288637 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
90288593 GTGTTATTTG
90288603 GTATGATATTGATT
1 GTAT-ATATTGATT
90288617 GTATATATTGATT
1 GTATATATTGATT
90288630 GTATATAT
1 GTATATAT
90288638 AGCATGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (13 bp):
GTATATATTGATT
Found at i:90294266 original size:21 final size:18
Alignment explanation
Indices: 90294240--90294281 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
90294230 ACGATTCTAG
90294240 TTAAAATTCAATTTTGTCAAT
1 TTAAAATTC-ATTTT-TC-AT
90294261 TTAAAATTCATTTTTCAT
1 TTAAAATTCATTTTTCAT
90294279 TTA
1 TTA
90294282 GATTGGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 5 0.24
21 9 0.43
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (18 bp):
TTAAAATTCATTTTTCAT
Found at i:90297463 original size:42 final size:43
Alignment explanation
Indices: 90297377--90297466 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
90297367 TAGAAATCTG
* * *
90297377 AGTTCGTGATATATGTGAGAATCTGAACTTGTTGAGTGGTCCA
1 AGTTCGTGATATATGTGAGAATCTCAACTTGTTAAGAGGTCCA
* *
90297420 AGTTCGTGATCTATGTG-GCAT-TCAAGCTTGTTAAGAGGTCCA
1 AGTTCGTGATATATGTGAGAATCTCAA-CTTGTTAAGAGGTCCA
90297462 AGTTC
1 AGTTC
90297467 ATTATGGATG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.07
42 22 0.54
43 16 0.39
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
AGTTCGTGATATATGTGAGAATCTCAACTTGTTAAGAGGTCCA
Found at i:90303324 original size:6 final size:6
Alignment explanation
Indices: 90303294--90303430 Score: 93
Period size: 6 Copynumber: 22.3 Consensus size: 6
90303284 AAGAAACATT
* * * * *
90303294 ATCAGA A-CTAGA ATCAAA ATAAGA ATCAGA ATCAAA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * *
90303343 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
90303392 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
90303431 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 22
0.70 0.14 0.15
Matches are distributed among these distances:
5 5 0.05
6 84 0.84
7 8 0.08
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:90303386 original size:31 final size:31
Alignment explanation
Indices: 90303339--90303430 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
90303329 AATTCGGTGA
90303339 CAGAATCA-G-AATCAGAATCAGAATCAGAAT
1 CAGAATCAGGTAA-CAGAATCAGAATCAGAAT
* * *
90303369 CAGAATTAGGTGACAGAATTAGAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAATCAGAAT
* *
90303400 CAGTATCAGGTAACAGAATCAAAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAATCAGAAT
90303431 GTGAATGCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
30 7 0.13
31 44 0.85
32 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAGGTAACAGAATCAGAATCAGAAT
Found at i:90303396 original size:43 final size:43
Alignment explanation
Indices: 90303296--90303408 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
90303286 GAAACATTAT
* * * *
90303296 CAGAACTAGAATCAAAATAAGAATCAGAATCAAAATTCGGTGA
1 CAGAATTAGAATCAGAATCAGAATCAGAATCAAAATTAGGTGA
* *
90303339 CAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATTAGAATCAGAATCAGAATCAGAATCAAAATTAGGTGA
*
90303382 CAGAATTAGAATCAGAATCAGTATCAG
1 CAGAATTAGAATCAGAATCAGAATCAG
90303409 GTAACAGAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (43 bp):
CAGAATTAGAATCAGAATCAGAATCAGAATCAAAATTAGGTGA
Done.