Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 202 of 284
Found at i:67547240 original size:58 final size:55
Alignment explanation
Indices: 67547172--67547371 Score: 231
Period size: 55 Copynumber: 3.6 Consensus size: 55
67547162 TTCAAAAAAT
* * * *
67547172 GATTGCTTATATGTTTAAATCAATTGTTATGGTGGAATACTTCTTCTTCTTTTGAATT
1 GATTGTTTATATGTTTAAATCTATTGTTATGTTGGAATACTTC-T-TT-TTTTGAATC
* * * * *
67547230 GATTGTTTATATGTTTAAATCGACTATTATGTTGGAATGCTGCTTTTTTTGAATC
1 GATTGTTTATATGTTTAAATCTATTGTTATGTTGGAATACTTCTTTTTTTGAATC
* * *
67547285 AATTGTTTATAAGTTTAAATCTATTGTTATATTGGAATA-TTACTTTTTTTGAATC
1 GATTGTTTATATGTTTAAATCTATTGTTATGTTGGAATACTT-CTTTTTTTGAATC
* *
67547340 GATTGTTTGTATATTTAAATCTATTGTTATGT
1 GATTGTTTATATGTTTAAATCTATTGTTATGT
67547372 AGTATGTCTA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
54 1 0.01
55 80 0.67
56 2 0.02
57 1 0.01
58 36 0.30
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (55 bp):
GATTGTTTATATGTTTAAATCTATTGTTATGTTGGAATACTTCTTTTTTTGAATC
Found at i:67550293 original size:22 final size:22
Alignment explanation
Indices: 67550267--67550308 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
67550257 TAAGTTAAAC
67550267 AAAAATT-GATAAATAAAAAATA
1 AAAAATTCGAT-AATAAAAAATA
*
67550289 AAAAATTCGGTAATAAAAAA
1 AAAAATTCGATAATAAAAAA
67550309 ACTTAAGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
AAAAATTCGATAATAAAAAATA
Found at i:67554329 original size:18 final size:19
Alignment explanation
Indices: 67554306--67554355 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
67554296 TTATACTTAA
67554306 AATATTTTAATTTAATTT-
1 AATATTTTAATTTAATTTC
* *
67554324 AATATTTAAATTTAGTTTC
1 AATATTTTAATTTAATTTC
*
67554343 AATA-ATTAATTTA
1 AATATTTTAATTTA
67554356 GTATTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
AATATTTTAATTTAATTTC
Found at i:67554683 original size:58 final size:58
Alignment explanation
Indices: 67554613--67554725 Score: 199
Period size: 58 Copynumber: 1.9 Consensus size: 58
67554603 CATTATAACC
**
67554613 AAACTAAAATACTAAATAATATATTAACTCTTTACGTATAGATATTTGGTTCAAGTTA
1 AAACTAAAATACTAAATAATATATTAACTCTTTACGTATAGATATTCAGTTCAAGTTA
*
67554671 AAACTTAAATACTAAATAATATATTAACTCTTTACGTATAGATATTCAGTTCAAG
1 AAACTAAAATACTAAATAATATATTAACTCTTTACGTATAGATATTCAGTTCAAG
67554726 CTATCCTCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (58 bp):
AAACTAAAATACTAAATAATATATTAACTCTTTACGTATAGATATTCAGTTCAAGTTA
Found at i:67559867 original size:113 final size:113
Alignment explanation
Indices: 67559669--67559896 Score: 375
Period size: 113 Copynumber: 2.0 Consensus size: 113
67559659 ATAGCTTCCC
* * * *
67559669 TAACTTCATAATTGGCTCATAAGCACTAACTAATAAAATTTACAATCTCACTTATCAGATTTAGT
1 TAACTTCACAATTGGCTCATAAGCACTAAATAATAAAATTTACAAGCTCACTTATCAAATTTAGT
* *
67559734 GATCTCGAATCACTGTTTCCGACACCATTGAAAATTGGGCTGTTACAT
66 GATCTCGAATCACTGTTTCCGACACAATTGAAAATTGGGCTATTACAT
* *
67559782 TAACTTCACAATTGGCTCATAAGCACTAAATAATAAAATTTACAAGCTCATTTGTCAAATTTAGT
1 TAACTTCACAATTGGCTCATAAGCACTAAATAATAAAATTTACAAGCTCACTTATCAAATTTAGT
*
67559847 GATCTCGAATCACTGTTTCCGATACAATTGAAAATTGGGCTATTACAT
66 GATCTCGAATCACTGTTTCCGACACAATTGAAAATTGGGCTATTACAT
67559895 TA
1 TA
67559897 TATGTGTTGT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (113 bp):
TAACTTCACAATTGGCTCATAAGCACTAAATAATAAAATTTACAAGCTCACTTATCAAATTTAGT
GATCTCGAATCACTGTTTCCGACACAATTGAAAATTGGGCTATTACAT
Found at i:67564640 original size:18 final size:17
Alignment explanation
Indices: 67564614--67564647 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
67564604 AAAGTAATTA
67564614 AAATAAAAGAAATGAAAG
1 AAATAAAAGAAA-GAAAG
*
67564632 AAATGAAAGAAAGAAA
1 AAATAAAAGAAAGAAA
67564648 AAGGAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (17 bp):
AAATAAAAGAAAGAAAG
Found at i:67564643 original size:4 final size:4
Alignment explanation
Indices: 67564619--67564661 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
67564609 AATTAAAATA
*
67564619 AAAG AAATG AAAG AAATG AAAG AAAG AAA- AAGG AAAG AAAG AA
1 AAAG AAA-G AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AA
67564662 GGCCACGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 2 0.06
4 24 0.71
5 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:67565750 original size:6 final size:6
Alignment explanation
Indices: 67565739--67565771 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
67565729 TGTGTACCGC
*
67565739 TACTGT TACTGT TACTGT TATTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
67565772 CCTTACGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:67565960 original size:18 final size:18
Alignment explanation
Indices: 67565903--67565962 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
67565893 GACTGTCGAC
* *
67565903 TACTGAATAATTGACTAT
1 TACTGAATAAATGAATAT
** * *
67565921 TACAAAATAAACGATTGA-
1 TACTGAATAAATGAAT-AT
67565939 TACTGAATAAATGAATAT
1 TACTGAATAAATGAATAT
67565957 TACTGA
1 TACTGA
67565963 TTAACCGATT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.32
Consensus pattern (18 bp):
TACTGAATAAATGAATAT
Found at i:67566396 original size:23 final size:25
Alignment explanation
Indices: 67566369--67566423 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
67566359 AATATTTACG
*
67566369 AAGTTAAGTG-AGTG-ATTAATTTA
1 AAGTTAAGTGAAGTGAATTAACTTA
67566392 AAGTTTAA-TGAAGTGAATTAACTTA
1 AAG-TTAAGTGAAGTGAATTAACTTA
67566417 AA-TTAAG
1 AAGTTAAG
67566424 GATAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGTTAAGTGAAGTGAATTAACTTA
Found at i:67566692 original size:18 final size:17
Alignment explanation
Indices: 67566666--67566699 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
67566656 AAAGTAATTA
67566666 AAATAAAAGAAATGAAAG
1 AAATAAAAGAAA-GAAAG
*
67566684 AAATGAAAGAAAGAAA
1 AAATAAAAGAAAGAAA
67566700 AAGGAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (17 bp):
AAATAAAAGAAAGAAAG
Found at i:67566695 original size:4 final size:4
Alignment explanation
Indices: 67566671--67566713 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
67566661 AATTAAAATA
*
67566671 AAAG AAATG AAAG AAATG AAAG AAAG AAA- AAGG AAAG AAAG AA
1 AAAG AAA-G AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AA
67566714 GGCCACGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 2 0.06
4 24 0.71
5 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:67567802 original size:6 final size:6
Alignment explanation
Indices: 67567791--67567823 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
67567781 TGTGTACCGC
*
67567791 TACTGT TACTGT TACTGT TATTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
67567824 CCTTACGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:67568012 original size:18 final size:18
Alignment explanation
Indices: 67567955--67568014 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
67567945 GACTGTCGAC
* *
67567955 TACTGAATAATTGACTAT
1 TACTGAATAAATGAATAT
** * *
67567973 TACAAAATAAACGATTGA-
1 TACTGAATAAATGAAT-AT
67567991 TACTGAATAAATGAATAT
1 TACTGAATAAATGAATAT
67568009 TACTGA
1 TACTGA
67568015 TTAACCGATT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.32
Consensus pattern (18 bp):
TACTGAATAAATGAATAT
Found at i:67569443 original size:18 final size:18
Alignment explanation
Indices: 67569407--67569445 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67569397 GAAATATTTA
*
67569407 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
67569425 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
67569443 TTT
1 TTT
67569446 AAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:67573161 original size:21 final size:21
Alignment explanation
Indices: 67573135--67573175 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67573125 ATCTGCTCAA
* *
67573135 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
67573156 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
67573176 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:67586925 original size:91 final size:89
Alignment explanation
Indices: 67586822--67586992 Score: 222
Period size: 89 Copynumber: 1.9 Consensus size: 89
67586812 ACTTAGGCCC
* * ***
67586822 TGGACTTGGCAACTTTTCTC-ACATTTGGGCTTGAACATTTTTGTTGTCCGAA-TTAGGTCCTAA
1 TGGACTTGGCAAC-TTTCTCAACATTGGGGCCTGAAC-TTTTT-TTGTCC-AAGTTAAACCCTAA
67586885 ACTTGACAATTATTCTCACGTTAGGACT
62 ACTTGACAATTATTCTCACGTTAGGACT
67586913 TGGACTCT-GCAACTTTCTCAACATTGGGGCCTGAACTTTTTTTGTCCAAGTTAAACCCTAAACT
1 TGGACT-TGGCAACTTTCTCAACATTGGGGCCTGAACTTTTTTTGTCCAAGTTAAACCCTAAACT
*
67586977 TGACAATTGTTCTCAC
65 TGACAATTATTCTCAC
67586993 ATTCAACCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
88 2 0.03
89 32 0.45
90 11 0.15
91 25 0.35
92 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (89 bp):
TGGACTTGGCAACTTTCTCAACATTGGGGCCTGAACTTTTTTTGTCCAAGTTAAACCCTAAACTT
GACAATTATTCTCACGTTAGGACT
Found at i:67588411 original size:41 final size:41
Alignment explanation
Indices: 67588316--67588599 Score: 313
Period size: 41 Copynumber: 7.0 Consensus size: 41
67588306 TTGTAAAATG
** *
67588316 CAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGTTAAAAA-
1 CAGAGCAATAGCGGCGCTTTTA-GTAAAACGCCGCTAAAAAC
* * *
67588356 AAGAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
* ** *
67588397 TAGAGCAATAGCGGCGCTTTCGGTAAAATGCCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
* *
67588438 CAGAGTAATAGCGGCGCTTTTAGCAAAACGCCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
* **
67588479 TAGAGCAATAGCGGCGCTTTTAGTAAAACATCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
* * * * *
67588520 CAGAGCATTATCGGCG-TTTTCGATAAAACGCCACTAAAAAG
1 CAGAGCAATAGCGGCGCTTTTAG-TAAAACGCCGCTAAAAAC
* * * *
67588561 CAGAGCATTAGCGGCGCTTTCAATAAAATGCCGCTAAAA
1 CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAA
67588600 GTCATATAAC
Statistics
Matches: 207, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
40 34 0.16
41 170 0.82
42 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
Found at i:67588505 original size:123 final size:122
Alignment explanation
Indices: 67588316--67588599 Score: 354
Period size: 123 Copynumber: 2.3 Consensus size: 122
67588306 TTGTAAAATG
* * *
67588316 CAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGTTAAAAAAAGAGCAATAGCGGCGCTTTTGGT
1 CAGAGCAATAGCGGCGCTTTTAAC-AAAACGCCGCTAAAAAAAGAGCAATAGCGGCGCTTTTAGT
** * * * *
67588380 AAAATGCCGCTAAAAACTAGAGCAATAGCGGCGCTTTCGGTAAAATGCCGCTAAAAAC
65 AAAACACCGCTAAAAACCAGAGCAATAGCGGCGCTTTCGATAAAACGCCACTAAAAAC
* * *
67588438 CAGAGTAATAGCGGCGCTTTTAGCAAAACGCCGCTAAAAACTAGAGCAATAGCGGCGCTTTTAGT
1 CAGAGCAATAGCGGCGCTTTTAACAAAACGCCGCTAAAAA-AAGAGCAATAGCGGCGCTTTTAGT
* * * * *
67588503 AAAACATCGCTAAAAACCAGAGCATTATCGGCGTTTTCGATAAAACGCCACTAAAAAG
65 AAAACACCGCTAAAAACCAGAGCAATAGCGGCGCTTTCGATAAAACGCCACTAAAAAC
* * * *
67588561 CAGAGCATTAGCGGCGCTTTCAATAAAATGCCGCTAAAA
1 CAGAGCAATAGCGGCGCTTTTAACAAAACGCCGCTAAAA
67588600 GTCATATAAC
Statistics
Matches: 138, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
122 30 0.22
123 108 0.78
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (122 bp):
CAGAGCAATAGCGGCGCTTTTAACAAAACGCCGCTAAAAAAAGAGCAATAGCGGCGCTTTTAGTA
AAACACCGCTAAAAACCAGAGCAATAGCGGCGCTTTCGATAAAACGCCACTAAAAAC
Found at i:67588666 original size:16 final size:15
Alignment explanation
Indices: 67588645--67588693 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
67588635 ACTAATCTAT
67588645 AACCCTTAAAACACTA
1 AACCCTT-AAACACTA
* *
67588661 AACCCTTAGACCCTGA
1 AACCCTTAAACACT-A
67588677 AACCC-TAAACACTA
1 AACCCTTAAACACTA
67588691 AAC
1 AAC
67588694 TATAACCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.14
15 11 0.39
16 13 0.46
ACGTcount: A:0.45, C:0.35, G:0.04, T:0.16
Consensus pattern (15 bp):
AACCCTTAAACACTA
Found at i:67588841 original size:7 final size:7
Alignment explanation
Indices: 67588829--67588892 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
67588819 TTTATTTTTG
67588829 GGTTTAA
1 GGTTTAA
67588836 GGTTTAA
1 GGTTTAA
**
67588843 TATTTAA
1 GGTTTAA
67588850 GGTTTAA
1 GGTTTAA
* *
67588857 GGTCTAT
1 GGTTTAA
*
67588864 GGTTTAG
1 GGTTTAA
*
67588871 GGTTTTAT
1 GG-TTTAA
67588879 GGTTTAA
1 GGTTTAA
67588886 GGTTTAA
1 GGTTTAA
67588893 TGGCTATGGG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:67588881 original size:15 final size:15
Alignment explanation
Indices: 67588845--67588895 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
67588835 AGGTTTAATA
*
67588845 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
67588859 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
67588874 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
67588889 TTAATGG
1 TTTATGG
67588896 CTATGGGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:67589490 original size:16 final size:15
Alignment explanation
Indices: 67589471--67589527 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 15
67589461 ACATTAAATC
67589471 AAAATAAAAATAAAAA
1 AAAATAAAAAT-AAAA
*
67589487 AAAATTAAAATTTAAAA
1 AAAA-TAAAA-ATAAAA
* *
67589504 ATAA-AAAAATTAAA
1 AAAATAAAAATAAAA
67589518 AAAATAAAAA
1 AAAATAAAAA
67589528 ACTTAAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
14 7 0.21
15 9 0.27
16 4 0.12
17 12 0.36
18 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAAATAAAA
Found at i:67589496 original size:7 final size:7
Alignment explanation
Indices: 67589486--67589545 Score: 57
Period size: 7 Copynumber: 8.0 Consensus size: 7
67589476 AAAAATAAAA
67589486 AAAAATT
1 AAAAATT
*
67589493 AAAATTT
1 AAAAATT
*
67589500 AAAAATAA
1 AAAAAT-T
67589508 AAAAATT
1 AAAAATT
*
67589515 AAAAAAATA
1 --AAAAATT
67589524 AAAAACTT
1 AAAAA-TT
67589532 AAAAATT
1 AAAAATT
67589539 AAAAATT
1 AAAAATT
67589546 TAATATTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 25 0.58
8 12 0.28
9 6 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:67589496 original size:8 final size:8
Alignment explanation
Indices: 67589485--67589548 Score: 62
Period size: 8 Copynumber: 8.2 Consensus size: 8
67589475 TAAAAATAAA
67589485 AAAAAATT
1 AAAAAATT
67589493 --AAAATT
1 AAAAAATT
* *
67589499 TAAAAATA
1 AAAAAATT
67589507 AAAAAATT
1 AAAAAATT
*
67589515 AAAAAAAT
1 AAAAAATT
67589523 AAAAAACTT
1 AAAAAA-TT
67589532 -AAAAATT
1 AAAAAATT
*
67589539 AAAAATTT
1 AAAAAATT
67589547 AA
1 AA
67589549 TATTTTAGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
6 6 0.13
7 2 0.04
8 37 0.80
9 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAAATT
Found at i:67589496 original size:22 final size:23
Alignment explanation
Indices: 67589466--67589512 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
67589456 ATTACACATT
67589466 AAATCAAAA-TAAAAATAAAAAA
1 AAATCAAAATTAAAAATAAAAAA
*
67589488 AAATTAAAATTTAAAAATAAAAAA
1 AAATCAAAA-TTAAAAATAAAAAA
67589512 A
1 A
67589513 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
24 14 0.64
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (23 bp):
AAATCAAAATTAAAAATAAAAAA
Found at i:67589503 original size:15 final size:15
Alignment explanation
Indices: 67589471--67589548 Score: 66
Period size: 16 Copynumber: 5.0 Consensus size: 15
67589461 ACATTAAATC
**
67589471 AAAATAAAAATAAAAA
1 AAAATAAAAAT-TTAA
*
67589487 AAAATTAAAATTTAA
1 AAAATAAAAATTTAA
* *
67589502 AAATAAAAAAATTAAA
1 AAA-ATAAAAATTTAA
*
67589518 AAAATAAAAAACTTAA
1 AAAAT-AAAAATTTAA
*
67589534 AAATTAAAAATTTAA
1 AAAATAAAAATTTAA
67589549 TATTTTAGTC
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
15 15 0.31
16 34 0.69
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAAAAATTTAA
Found at i:67589519 original size:32 final size:33
Alignment explanation
Indices: 67589476--67589548 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 33
67589466 AAATCAAAAT
* * *
67589476 AAAAATAAAAAAAAAT-TAAAATTTAAAAATAA
1 AAAAATTAAAAAAAATAAAAAACTTAAAAATAA
*
67589508 AAAAATT-AAAAAAATAAAAAACTTAAAAATTA
1 AAAAATTAAAAAAAATAAAAAACTTAAAAATAA
*
67589540 AAAATTTAA
1 AAAAATTAA
67589549 TATTTTAGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 8 0.24
32 25 0.74
33 1 0.03
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.23
Consensus pattern (33 bp):
AAAAATTAAAAAAAATAAAAAACTTAAAAATAA
Found at i:67589520 original size:24 final size:24
Alignment explanation
Indices: 67589475--67589548 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
67589465 TAAATCAAAA
67589475 TAAAAATAAAAAAA--AATTAAAATT
1 TAAAAATAAAAAAATTAA--AAAATT
*
67589499 TAAAAATAAAAAAATTAAAAAAAT
1 TAAAAATAAAAAAATTAAAAAATT
* *
67589523 AAAAAACT-TAAAAATT-AAAAATT
1 TAAAAA-TAAAAAAATTAAAAAATT
67589546 TAA
1 TAA
67589549 TATTTTAGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
23 8 0.19
24 31 0.74
25 1 0.02
26 2 0.05
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.24
Consensus pattern (24 bp):
TAAAAATAAAAAAATTAAAAAATT
Found at i:67589522 original size:17 final size:17
Alignment explanation
Indices: 67589500--67589536 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
67589490 ATTAAAATTT
67589500 AAAAATAAAAAAATTAA
1 AAAAATAAAAAAATTAA
*
67589517 AAAAATAAAAAACTTAA
1 AAAAATAAAAAAATTAA
67589534 AAA
1 AAA
67589537 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAAAATTAA
Found at i:67589543 original size:17 final size:15
Alignment explanation
Indices: 67589471--67589548 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
67589461 ACATTAAATC
**
67589471 AAAATAAAAATAAAAA
1 AAAATAAAAA-AATTA
* *
67589487 AAAAT-TAAAATTTA
1 AAAATAAAAAAATTA
67589501 AAAATAAAAAAATTAAA
1 AAAATAAAAAAATT--A
*
67589518 AAAATAAAAAACTTA
1 AAAATAAAAAAATTA
* *
67589533 AAAATTAAAAATTTA
1 AAAATAAAAAAATTA
67589548 A
1 A
67589549 TATTTTAGTC
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
14 7 0.14
15 24 0.48
16 5 0.10
17 14 0.28
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAAAAAAATTA
Found at i:67589684 original size:28 final size:29
Alignment explanation
Indices: 67589651--67589728 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
67589641 AAATATATGT
67589651 TAAAAATGAAAAAAATTAAA-ATTAAACAA
1 TAAAAATGAAAAAAATTAAATATTAAA-AA
* *
67589680 T-AAAA-GAAAAAAAAATAAATGTTAAAAA
1 TAAAAATG-AAAAAAATTAAATATTAAAAA
*
67589708 TAAAAATAAAATAAAATTAAA
1 TAAAAATGAAA-AAAATTAAA
67589729 CAAAAAGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.03
28 18 0.45
29 13 0.32
30 8 0.20
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (29 bp):
TAAAAATGAAAAAAATTAAATATTAAAAA
Found at i:67589708 original size:51 final size:52
Alignment explanation
Indices: 67589630--67589731 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 52
67589620 AATTTGAAAG
* * *
67589630 AAAAAAATAAAAAATATATGTTAAAAATGAAAA-AAATTAAAATTAAACAAT
1 AAAAAAATAAAAAATAAATGTTAAAAATAAAAATAAAATAAAATTAAACAAT
67589681 AAAAGAAA-AAAAAATAAATGTTAAAAATAAAAATAAAATAAAATTAAACAA
1 AAAA-AAATAAAAAATAAATGTTAAAAATAAAAATAAAATAAAATTAAACAA
67589732 AAAGATTGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 27 0.59
52 19 0.41
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (52 bp):
AAAAAAATAAAAAATAAATGTTAAAAATAAAAATAAAATAAAATTAAACAAT
Found at i:67589727 original size:23 final size:23
Alignment explanation
Indices: 67589681--67589728 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
67589671 ATTAAACAAT
*
67589681 AAAAGAAAAAAAAATAAATGTTA
1 AAAAGAAAAAAAAATAAATATTA
*
67589704 AAAATAAAAATAAAATAAA-ATTA
1 AAAAGAAAAA-AAAATAAATATTA
67589727 AA
1 AA
67589729 CAAAAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAGAAAAAAAAATAAATATTA
Found at i:67590162 original size:80 final size:80
Alignment explanation
Indices: 67590028--67590188 Score: 252
Period size: 80 Copynumber: 2.0 Consensus size: 80
67590018 TCCGCCGTCG
* * *
67590028 GATCTTGAGTTTGTTTCCAATAAGGCGCGGAACTGTAACCCCACGAGATTTGGCTCAGGTCACCC
1 GATCTTGAGTTCGTTTCCAACAAGGCGCGGAACTGTAACCCCACGAGATCTGGCTCAGGTCACCC
67590093 GGAGTTCCAGTCGAT
66 GGAGTTCCAGTCGAT
* * *
67590108 GATCTTGAGTTCGTTTCCAACAAGGCGCGGAACTGT-ACTGCCACGGGATCTGGCTCGGGTCACC
1 GATCTTGAGTTCGTTTCCAACAAGGCGCGGAACTGTAAC-CCCACGAGATCTGGCTCAGGTCACC
67590172 CGGAGTTCCAGTCGAT
65 CGGAGTTCCAGTCGAT
67590188 G
1 G
67590189 TACCCGGACC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 2 0.03
80 72 0.97
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (80 bp):
GATCTTGAGTTCGTTTCCAACAAGGCGCGGAACTGTAACCCCACGAGATCTGGCTCAGGTCACCC
GGAGTTCCAGTCGAT
Found at i:67596008 original size:30 final size:30
Alignment explanation
Indices: 67595974--67596047 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
67595964 TTAAAGTTAA
67595974 AATTTTAATAGAAAATTTAATTTGATAATG
1 AATTTTAATAGAAAATTTAATTTGATAATG
67596004 AATTTTAATAGAAAATTTAATTTGATAATG
1 AATTTTAATAGAAAATTTAATTTGATAATG
67596034 AATTTTAATAGAAA
1 AATTTTAATAGAAA
67596048 TTTTTTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (30 bp):
AATTTTAATAGAAAATTTAATTTGATAATG
Found at i:67596010 original size:18 final size:18
Alignment explanation
Indices: 67595989--67596042 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
67595979 TAATAGAAAA
67595989 TTTAATTTGATAATGAAT
1 TTTAATTTGATAATGAAT
*
67596007 TTTAA--T-AGAA--AA-
1 TTTAATTTGATAATGAAT
67596019 TTTAATTTGATAATGAAT
1 TTTAATTTGATAATGAAT
67596037 TTTAAT
1 TTTAAT
67596043 AGAAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 5 0.18
13 2 0.07
14 1 0.04
15 6 0.21
16 1 0.04
17 2 0.07
18 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTAATTTGATAATGAAT
Found at i:67596188 original size:43 final size:43
Alignment explanation
Indices: 67596127--67596224 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
67596117 TTTTGAATTT
* * *
67596127 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
1 ATGACCTTTAGCGACGTTTGTGGAAAAAGCGCCGCTAAAAGCC
* *
67596170 ATGACCTTTAGCGACGTTTGTGGAAAAAGCGGCGCTAAAAGTC
1 ATGACCTTTAGCGACGTTTGTGGAAAAAGCGCCGCTAAAAGCC
67596213 ATGACCTTTAGC
1 ATGACCTTTAGC
67596225 ACCGTTTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (43 bp):
ATGACCTTTAGCGACGTTTGTGGAAAAAGCGCCGCTAAAAGCC
Found at i:67598930 original size:7 final size:7
Alignment explanation
Indices: 67598867--67598929 Score: 81
Period size: 7 Copynumber: 9.0 Consensus size: 7
67598857 TTAAAAAAGT
67598867 AATTGAG
1 AATTGAG
67598874 AATTGAG
1 AATTGAG
67598881 AATTGAG
1 AATTGAG
67598888 AATTGAG
1 AATTGAG
* *
67598895 ACTTGAA
1 AATTGAG
*
67598902 AATTGAA
1 AATTGAG
67598909 AATTGAG
1 AATTGAG
*
67598916 AAATGAG
1 AATTGAG
*
67598923 GATTGAG
1 AATTGAG
67598930 GGTCTAGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (7 bp):
AATTGAG
Found at i:67601578 original size:255 final size:256
Alignment explanation
Indices: 67601106--67601616 Score: 925
Period size: 255 Copynumber: 2.0 Consensus size: 256
67601096 GGGAAGAAGA
* *
67601106 TAGAACAACTAGAGGAAGAAAAAATACAGTTAGGACTGGATGTGGACATTCAAAGATTAGAGGCC
1 TAGAACAACTAGAGGAAGAAAAAATACAGTTAGGACTGGATATGGACATTCAAAAATTAGAGGCC
* *
67601171 GATAAATTGAGAAAAGGAAAGAACAAAGCAGAAGAAGATTTGGACAGCCTGAAGACAGATTACAA
66 AACAAATTGAGAAAAGGAAAGAACAAAGCAGAAGAAGATTTGGACAGCCTGAAGACAGATTACAA
*
67601236 GAAGTTGCGCAGGTCGGTAAGAGCTGCTGGCTTGGGTAAAACGCCAGAACAATGGCGACAAGAAA
131 GAAGTTGCGCAGGTCGGTAAGAACTGCTGGCTTGGGTAAAACGCCAGAACAATGGCGACAAGAAA
* *
67601301 TTCAGGAGGAAAAGATGAAAGCTAATCAATGGGAAAAGAAATTTCAGGATACTCGGGCTCG
196 TTCAGGAGGAAAAGACGAAAGCTAATCAATGGGAAAAGAAATTTCAGGATACTCGAGCTCG
67601362 TAGAACAACTAGAGGAA-AAAAAATACAGTTAGGACTGGATATGGACATTCAAAAATTAGAGGCC
1 TAGAACAACTAGAGGAAGAAAAAATACAGTTAGGACTGGATATGGACATTCAAAAATTAGAGGCC
* *
67601426 AACAAGTTGAGAAAAGGAAAGAACAAGGCAGAAGAAGATTTGGACAGCCTGAAGACAGATTACAA
66 AACAAATTGAGAAAAGGAAAGAACAAAGCAGAAGAAGATTTGGACAGCCTGAAGACAGATTACAA
*
67601491 GAAGTTGCGCAGGTCGGTAAGAACTGCTGGCTTGGGTAAAACGCCAGAATAATGGCGACAAGAAA
131 GAAGTTGCGCAGGTCGGTAAGAACTGCTGGCTTGGGTAAAACGCCAGAACAATGGCGACAAGAAA
67601556 TTCAGGAGGAAAAGACGAAAGCTAATCAATGGGAAAAGAAATTTCAGGATACTCGAGCTCG
196 TTCAGGAGGAAAAGACGAAAGCTAATCAATGGGAAAAGAAATTTCAGGATACTCGAGCTCG
67601617 AGGAGTCGCC
Statistics
Matches: 245, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
255 228 0.93
256 17 0.07
ACGTcount: A:0.42, C:0.14, G:0.27, T:0.17
Consensus pattern (256 bp):
TAGAACAACTAGAGGAAGAAAAAATACAGTTAGGACTGGATATGGACATTCAAAAATTAGAGGCC
AACAAATTGAGAAAAGGAAAGAACAAAGCAGAAGAAGATTTGGACAGCCTGAAGACAGATTACAA
GAAGTTGCGCAGGTCGGTAAGAACTGCTGGCTTGGGTAAAACGCCAGAACAATGGCGACAAGAAA
TTCAGGAGGAAAAGACGAAAGCTAATCAATGGGAAAAGAAATTTCAGGATACTCGAGCTCG
Found at i:67610905 original size:129 final size:129
Alignment explanation
Indices: 67610675--67611734 Score: 2003
Period size: 129 Copynumber: 8.2 Consensus size: 129
67610665 CCGAAGAATT
* * *
67610675 TCAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
* *
67610740 TTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
67610804 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
67610869 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
67610933 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
67610998 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
67611062 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
67611127 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
67611191 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
67611256 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
67611320 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
67611385 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
67611449 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
67611514 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
*
67611578 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
* * **
67611643 TTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* * *
67611707 TCAGGTCTTATTTCCCTGAGGTTACAGC
1 TCAGATCTTATCTCCCTGAGATTACAGC
67611735 GGAGTAGACC
Statistics
Matches: 918, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 918 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
TTACAGTGGAGCGGATTAAAACGAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
Found at i:67617274 original size:56 final size:56
Alignment explanation
Indices: 67617188--67617555 Score: 736
Period size: 56 Copynumber: 6.6 Consensus size: 56
67617178 TTACGCCTCG
67617188 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
67617244 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
67617300 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
67617356 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
67617412 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
67617468 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
67617524 ATTACGCGCGTATTACATTACGCCCCTAATCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCC
67617556 CCAAATTCCC
Statistics
Matches: 312, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 312 1.00
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (56 bp):
ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
Found at i:67627475 original size:78 final size:78
Alignment explanation
Indices: 67627346--67627501 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
67627336 GGGATTTGGA
67627346 TGCAGCACCTAATCTGAGCAAAAGGGCTGTATTACAAATCGGTAGTTTTCACCGATTAAATCTGT
1 TGCAGCACCTAATCTGAGCAAAAGGGCTGTATTACAAATCGGTAGTTTTCACCGATTAAATCTGT
67627411 ATTGTATTACACG
66 ATTGTATTACACG
*
67627424 TGCAGCACCTAATCTGAGCAAAAGGGCTGTATTACAAATCGGTGGTTTTCACCGATTAAATCTGT
1 TGCAGCACCTAATCTGAGCAAAAGGGCTGTATTACAAATCGGTAGTTTTCACCGATTAAATCTGT
67627489 ATTGTATTACACG
66 ATTGTATTACACG
67627502 GGTATTAGAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (78 bp):
TGCAGCACCTAATCTGAGCAAAAGGGCTGTATTACAAATCGGTAGTTTTCACCGATTAAATCTGT
ATTGTATTACACG
Found at i:67628613 original size:16 final size:19
Alignment explanation
Indices: 67628576--67628614 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
67628566 ATTGTTTGGA
67628576 TATTGTATAAAACTTATTT
1 TATTGTATAAAACTTATTT
67628595 TATTGT-TAAAA-TT-TTT
1 TATTGTATAAAACTTATTT
67628611 TATT
1 TATT
67628615 ATTTTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 5 0.25
19 6 0.30
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTGTATAAAACTTATTT
Found at i:67628764 original size:18 final size:18
Alignment explanation
Indices: 67628743--67628781 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67628733 GAAATATTTA
*
67628743 TTTGAT-GTTTTTAGTATT
1 TTTGATGGTTTATA-TATT
67628761 TTTGATGGTTTATATATT
1 TTTGATGGTTTATATATT
67628779 TTT
1 TTT
67628782 TAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (18 bp):
TTTGATGGTTTATATATT
Found at i:67628781 original size:19 final size:18
Alignment explanation
Indices: 67628736--67628782 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
67628726 TTGTTGAGAA
*
67628736 ATATTTATTTGATGTTTTT
1 ATATTT-TTTGATGTTTAT
67628755 AGTA-TTTTTGATGGTTTAT
1 A-TATTTTTTGAT-GTTTAT
67628774 ATATTTTTT
1 ATATTTTTT
67628783 AAAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
ATATTTTTTGATGTTTAT
Found at i:67628808 original size:14 final size:15
Alignment explanation
Indices: 67628789--67628817 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
67628779 TTTTAAAATT
67628789 ATATAAAAA-TAATA
1 ATATAAAAATTAATA
67628803 ATATAAAAATTAATA
1 ATATAAAAATTAATA
67628818 TAGGCAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAAAAATTAATA
Found at i:67643382 original size:17 final size:18
Alignment explanation
Indices: 67643347--67643384 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
67643337 ATAATATTTT
67643347 TAATTTTAATAAAAATAA
1 TAATTTTAATAAAAATAA
*
67643365 TAATTTTAA-AAAACTAA
1 TAATTTTAATAAAAATAA
67643382 TAA
1 TAA
67643385 ATATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATTTTAATAAAAATAA
Found at i:67648099 original size:14 final size:15
Alignment explanation
Indices: 67648080--67648108 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67648070 GATTATAGTA
67648080 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
67648094 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
67648109 TGAACTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:67656732 original size:72 final size:72
Alignment explanation
Indices: 67656615--67656798 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
67656605 NNNNNNNNNN
67656615 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
67656680 TTTTAAG
66 TTTTAAG
67656687 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
67656752 TTTTAAG
66 TTTTAAG
*
67656759 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
67656799 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:67663911 original size:21 final size:21
Alignment explanation
Indices: 67663854--67663905 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
67663844 CTCCAAAACA
67663854 AGGGAAAATGGGTTACATTTT
1 AGGGAAAATGGGTTACATTTT
67663875 AGGGAAAATGGGTTACATTTT
1 AGGGAAAATGGGTTACATTTT
67663896 AGGGAAAATG
1 AGGGAAAATG
67663906 TCTTACCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.29
Consensus pattern (21 bp):
AGGGAAAATGGGTTACATTTT
Found at i:67664347 original size:34 final size:35
Alignment explanation
Indices: 67664293--67664359 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
67664283 CAAACACCAG
*
67664293 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
67664328 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
67664360 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:67674428 original size:21 final size:21
Alignment explanation
Indices: 67674392--67674450 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
67674382 TATATTTTGA
*
67674392 TTTTTTTTTATATTTTTA-AAG
1 TTTTATTTTA-ATTTTTATAAG
67674413 TTCTTATTTTAATTTTTATAAG
1 TT-TTATTTTAATTTTTATAAG
* *
67674435 TTTTTTTTTAACTTTT
1 TTTTATTTTAATTTTT
67674451 CTTAAAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (21 bp):
TTTTATTTTAATTTTTATAAG
Found at i:67677375 original size:13 final size:13
Alignment explanation
Indices: 67677357--67677386 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
67677347 TATGATTGGG
67677357 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
*
67677370 TTTCTTTTTTTTT
1 TTTCTTTTTTCTT
67677383 TTTC
1 TTTC
67677387 CGTTTTTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTCTTTTTTCTT
Found at i:67679965 original size:18 final size:19
Alignment explanation
Indices: 67679932--67679992 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
67679922 ACACGCTCAC
*
67679932 AAAATTA-TTGAAATTAAA
1 AAAATTACTAGAAATTAAA
*
67679950 AGAAATTA-TA-AAATTATA
1 A-AAATTACTAGAAATTAAA
67679968 AAAATTACTAGAAATATAAA
1 AAAATTACTAGAAAT-TAAA
67679988 AAAAT
1 AAAAT
67679993 ACTTAAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.17
18 11 0.31
19 11 0.31
20 8 0.22
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATTACTAGAAATTAAA
Found at i:67679989 original size:27 final size:27
Alignment explanation
Indices: 67679932--67679988 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
67679922 ACACGCTCAC
**
67679932 AAAATTATTGAAATTAAAAGAAATTAT
1 AAAATTATAAAAATTAAAAGAAATTAT
**
67679959 AAAATTATAAAAATTACTAGAAA-TAT
1 AAAATTATAAAAATTAAAAGAAATTAT
67679985 AAAA
1 AAAA
67679989 AAATACTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAATTATAAAAATTAAAAGAAATTAT
Found at i:67680823 original size:20 final size:21
Alignment explanation
Indices: 67680800--67680849 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
67680790 TTTTACAATT
67680800 TTTTTTAAATTT-CTAAA-ATA
1 TTTTTTAAATTTAC-AAACATA
67680820 TTTTTTAAATTTACAAACATA
1 TTTTTTAAATTTACAAACATA
67680841 TTTCTTTAA
1 TTT-TTTAA
67680850 TTTGTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 15 0.56
21 7 0.26
22 5 0.19
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTTTAAATTTACAAACATA
Found at i:67688301 original size:12 final size:12
Alignment explanation
Indices: 67688286--67688319 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
67688276 CAACCCAGAA
67688286 ATTCGATTCCCG
1 ATTCGATTCCCG
67688298 ATTCGATTCCCG
1 ATTCGATTCCCG
* *
67688310 TTTCTATTCC
1 ATTCGATTCC
67688320 TTCCTGCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.32, G:0.12, T:0.41
Consensus pattern (12 bp):
ATTCGATTCCCG
Found at i:67688604 original size:6 final size:6
Alignment explanation
Indices: 67688593--67688624 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
67688583 ATTTTGGCTA
67688593 TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG TT
1 TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG TT
67688625 CTTATTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.31, T:0.53
Consensus pattern (6 bp):
TTGCTG
Found at i:67688752 original size:5 final size:5
Alignment explanation
Indices: 67688742--67688767 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
67688732 GGTTTTATCA
67688742 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
67688768 GTTTAGCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:67694149 original size:6 final size:6
Alignment explanation
Indices: 67694134--67694162 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
67694124 TCAGAACTGT
67694134 ATGC-C ATGCTC ATGCTC ATGCTC ATGCTC
1 ATGCTC ATGCTC ATGCTC ATGCTC ATGCTC
67694163 TCCGACCCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (6 bp):
ATGCTC
Found at i:67698229 original size:13 final size:15
Alignment explanation
Indices: 67698199--67698230 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
67698189 TAAATGTCCG
67698199 AATTTGTTAAATAAA
1 AATTTGTTAAATAAA
67698214 AATTT-TTAAA-AAA
1 AATTTGTTAAATAAA
67698227 AATT
1 AATT
67698231 CAAAGTCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 5 0.29
15 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AATTTGTTAAATAAA
Found at i:67700117 original size:20 final size:19
Alignment explanation
Indices: 67700084--67700128 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
67700074 ACATACGATT
*
67700084 TTTTGTTATTTGTTTAGAAA
1 TTTT-TTATTTGTTAAGAAA
*
67700104 TTTTTTATTGTGTTAATAAA
1 TTTTTTATT-TGTTAAGAAA
67700124 TTTTT
1 TTTTT
67700129 ATAGTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (19 bp):
TTTTTTATTTGTTAAGAAA
Found at i:67704558 original size:31 final size:31
Alignment explanation
Indices: 67704523--67704595 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
67704513 AAGTTTAATT
*
67704523 AAAATCAAAGTTTAATATATACATATT-AACC
1 AAAATCAAAGTTTAATATAT-CAAATTGAACC
* *
67704554 AAAATTC-AAGTTTAATGTATCAAATTGCACC
1 AAAA-TCAAAGTTTAATATATCAAATTGAACC
67704585 -AAATCAAAGTT
1 AAAATCAAAGTT
67704596 CATGTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
29 2 0.06
30 13 0.36
31 19 0.53
32 2 0.06
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (31 bp):
AAAATCAAAGTTTAATATATCAAATTGAACC
Found at i:67709386 original size:22 final size:21
Alignment explanation
Indices: 67709361--67709402 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
67709351 TTTTTAGTGT
67709361 ATTTTTGTT-TTTAGCATTTTTA
1 ATTTTT-TTATTTA-CATTTTTA
67709383 ATTTTTTTATTTACATTTTT
1 ATTTTTTTATTTACATTTTT
67709403 GCCCTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (21 bp):
ATTTTTTTATTTACATTTTTA
Found at i:67709387 original size:21 final size:21
Alignment explanation
Indices: 67709363--67709402 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
67709353 TTTAGTGTAT
67709363 TTTTGTT-TTTAGCATTTTTAA
1 TTTTGTTATTTA-CATTTTTAA
*
67709384 TTTTTTTATTTACATTTTT
1 TTTTGTTATTTACATTTTT
67709403 GCCCTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTGTTATTTACATTTTTAA
Found at i:67709637 original size:21 final size:25
Alignment explanation
Indices: 67709611--67709670 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
67709601 TCATTTCAAA
67709611 TTATTTTTTTTA-T-T-T-CTTATT
1 TTATTTTTTTTACTCTGTACTTATT
67709632 TTATTTTTTTTACTCGTGTACTTATT
1 TTATTTTTTTTACTC-TGTACTTATT
67709658 TTATTTTCTTTTA
1 TTATTTT-TTTTA
67709671 GTCATTACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.36
22 1 0.03
24 1 0.03
25 1 0.03
26 13 0.39
27 5 0.15
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.73
Consensus pattern (25 bp):
TTATTTTTTTTACTCTGTACTTATT
Found at i:67723993 original size:17 final size:19
Alignment explanation
Indices: 67723962--67723998 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
67723952 TCAGCCAATT
*
67723962 TAGGCCATGTTGG-CCACA
1 TAGGCCATGTGGGCCCACA
67723980 TAGG-CATGTGGGCCCACA
1 TAGGCCATGTGGGCCCACA
67723998 T
1 T
67723999 GGGTAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.22, C:0.27, G:0.30, T:0.22
Consensus pattern (19 bp):
TAGGCCATGTGGGCCCACA
Found at i:67728864 original size:30 final size:29
Alignment explanation
Indices: 67728800--67728856 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
67728790 GTACTTAATC
* *
67728800 GATATTTTAAAAAATAAAATTTCTTAATT
1 GATATTTTAAAAAATAAAATATCTTAAAT
67728829 GATATTTTAAAAAATAAAA-AT-TTAAAT
1 GATATTTTAAAAAATAAAATATCTTAAAT
67728856 G
1 G
67728857 CACATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 1 0.04
29 19 0.73
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (29 bp):
GATATTTTAAAAAATAAAATATCTTAAAT
Found at i:67732031 original size:18 final size:17
Alignment explanation
Indices: 67732002--67732043 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
67731992 TTATATATTA
*
67732002 AATTTTTATTTTTAATT
1 AATTATTATTTTTAATT
67732019 AATTATTATTTTTAA--
1 AATTATTATTTTTAATT
67732034 AATTATTATT
1 AATTATTATT
67732044 GTTCATTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
17 14 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTATTATTTTTAATT
Found at i:67736458 original size:26 final size:27
Alignment explanation
Indices: 67736429--67736492 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
67736419 TTAAAATTTT
*
67736429 AAAATAAATAATACA-AAAAATGGTTC
1 AAAATAAATAATACATAAAAATGATTC
* * *
67736455 AAAATAAACAATATATAAAAATGATTT
1 AAAATAAATAATACATAAAAATGATTC
*
67736482 AACATAAATAA
1 AAAATAAATAA
67736493 AGTATAAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.64, C:0.06, G:0.05, T:0.25
Consensus pattern (27 bp):
AAAATAAATAATACATAAAAATGATTC
Found at i:67736514 original size:26 final size:27
Alignment explanation
Indices: 67736468--67736518 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
67736458 ATAAACAATA
*
67736468 TATAAAAATGATTTAACATAAATAAAG
1 TATAAAAATGATTGAACATAAATAAAG
67736495 TATAAAACAT-ATTGAA-ATAAATAA
1 TATAAAA-ATGATTGAACATAAATAA
67736519 TTTAAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 12 0.55
28 2 0.09
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (27 bp):
TATAAAAATGATTGAACATAAATAAAG
Found at i:67736587 original size:53 final size:52
Alignment explanation
Indices: 67736456--67736789 Score: 199
Period size: 53 Copynumber: 6.4 Consensus size: 52
67736446 AAATGGTTCA
* * * * *
67736456 AAAT-AAACAATATATAAAAATGATTTAACATAAATAAA-GTATAAAACATATTG
1 AAATAAAATAATATATAAAAA-AATTTAAAATAAA-AAATATATAAAACA-ATTT
** * *
67736509 AAAT-AAATAAT-T-TAAAGCAATTTAAAATAAACAATACATAAAACAATTT
1 AAATAAAATAATATATAAAAAAATTTAAAATAAAAAATATATAAAACAATTT
** *
67736558 AAA-GGAATAATATGTGGAAAAAAATTTAAAATAAATAAAATATATAAAACAATTT
1 AAATAAAATAATATAT--AAAAAAATTTAAAAT-AA-AAAATATATAAAACAATTT
* * * *
67736613 AAAATAAAATAATATATAAAACAATTCAAAATAAATAATATATGAAACAATTT
1 -AAATAAAATAATATATAAAAAAATTTAAAATAAAAAATATATAAAACAATTT
* * ** * *
67736666 AAA-ATTAATAATAATCTAAAACGATTTAAAAT-AAATA-ATATACAACAATTT
1 AAATA-AAATAAT-ATATAAAAAAATTTAAAATAAAAAATATATAAAACAATTT
* * * **
67736717 -AATATAACTAATATAT-AAGAATTTTAAAATAAATAAA-ATATAAAACCGTTT
1 AAATA-AAATAATATATAAAAAAATTTAAAATAAA-AAATATATAAAACAATTT
* *
67736768 AAA-ATAAATAATGTATATAAAA
1 AAATA-AAATAATATATAAAAAA
67736790 GATGAATAAA
Statistics
Matches: 220, Mismatches: 44, Indels: 35
0.74 0.15 0.12
Matches are distributed among these distances:
49 24 0.11
50 27 0.12
51 49 0.22
52 18 0.08
53 56 0.25
54 4 0.02
55 30 0.14
56 3 0.01
57 9 0.04
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.29
Consensus pattern (52 bp):
AAATAAAATAATATATAAAAAAATTTAAAATAAAAAATATATAAAACAATTT
Found at i:67736606 original size:27 final size:27
Alignment explanation
Indices: 67736576--67736807 Score: 160
Period size: 27 Copynumber: 8.8 Consensus size: 27
67736566 AATATGTGGA
67736576 AAAAAATTTAAAATAAATAAAATATAT
1 AAAAAATTTAAAATAAATAAAATATAT
*
67736603 AAAACAATTTAAAATAAA-ATAATATAT
1 AAAA-AATTTAAAATAAATAAAATATAT
*
67736630 AAAACAATTCAAAATAAAT--AATATAT
1 AAAA-AATTTAAAATAAATAAAATATAT
* * *
67736656 GAAACAATTTAAAATTAATAATAATCTA-
1 -AAAAAATTTAAAATAAATAA-AATATAT
**
67736684 AAACGATTTAAAATAAAT--AATATA-
1 AAAAAATTTAAAATAAATAAAATATAT
* * * *
67736708 CAACAATTTAATATAACT--AATATAT
1 AAAAAATTTAAAATAAATAAAATATAT
* *
67736733 AAGAATTTTAAAATAAATAAAATATA-
1 AAAAAATTTAAAATAAATAAAATATAT
*** **
67736759 AAACCGTTTAAAATAAATAATGTATAT
1 AAAAAATTTAAAATAAATAAAATATAT
* **
67736786 AAAAGATGAATAAATAAATAAA
1 AAAAAATTTA-AAATAAATAAA
67736808 TAATTAAAAA
Statistics
Matches: 163, Mismatches: 31, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
24 25 0.15
25 12 0.07
26 39 0.24
27 59 0.36
28 23 0.14
29 5 0.03
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (27 bp):
AAAAAATTTAAAATAAATAAAATATAT
Found at i:67736661 original size:108 final size:103
Alignment explanation
Indices: 67736478--67736668 Score: 249
Period size: 108 Copynumber: 1.8 Consensus size: 103
67736468 TATAAAAATG
* * * * *
67736478 ATTTAACATAAATAAAGTATAAAACATATTGAAATAAATAATTTAAAGCAATTTAAAATAAACAA
1 ATTTAAAATAAATAAAATATAAAACATATTAAAATAAATAATTTAAAACAATTCAAAATAAACAA
67736543 TACATAAAACAATTTAAAGGAATAATATGTGGAAAAAA
66 TACATAAAACAATTTAAAGGAATAATATGTGGAAAAAA
67736581 ATTTAAAATAAATAAAATATATAAAACA-ATTTAAAATAAAATAATATATAAAACAATTCAAAAT
1 ATTTAAAATAAAT-AAA-ATATAAAACATA-TTAAAAT-AAATAAT-T-TAAAACAATTCAAAAT
* * *
67736645 AAATAATATATGAAACAATTTAAA
60 AAACAATACATAAAACAATTTAAA
67736669 ATTAATAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
103 12 0.16
104 4 0.05
105 15 0.20
106 7 0.09
107 1 0.01
108 35 0.47
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (103 bp):
ATTTAAAATAAATAAAATATAAAACATATTAAAATAAATAATTTAAAACAATTCAAAATAAACAA
TACATAAAACAATTTAAAGGAATAATATGTGGAAAAAA
Found at i:67736784 original size:26 final size:26
Alignment explanation
Indices: 67736426--67736789 Score: 296
Period size: 26 Copynumber: 13.9 Consensus size: 26
67736416 TAATTAAAAT
* * ***
67736426 TTTAAAATAAATAATACAAAAAATGG
1 TTTAAAATAAATAATATATAAAACAA
* *
67736452 TTCAAAATAAACAATATATAAAA-ATGA
1 TTTAAAATAAATAATATATAAAACA--A
*
67736479 TTTAACATAAATAA-AGTATAAAAC-A
1 TTTAAAATAAATAATA-TATAAAACAA
* *
67736504 TATTGAAATAAATAAT-T-TAAAGCAA
1 T-TTAAAATAAATAATATATAAAACAA
* *
67736529 TTTAAAATAAACAATACATAAAACAA
1 TTTAAAATAAATAATATATAAAACAA
** * *
67736555 TTT-AAAGGAATAATATGTGGAAAAAAA
1 TTTAAAATAAATAATATAT--AAAACAA
67736582 TTTAAAATAAATAAAATATATAAAACAA
1 TTTAAAATAAAT--AATATATAAAACAA
67736610 TTTAAAATAAAATAATATATAAAACAA
1 TTTAAAAT-AAATAATATATAAAACAA
* *
67736637 TTCAAAATAAATAATATATGAAACAA
1 TTTAAAATAAATAATATATAAAACAA
* * *
67736663 TTTAAAATTAATAATAATCTAAAACGA
1 TTTAAAATAAATAAT-ATATAAAACAA
*
67736690 TTTAAAATAAAT-A-ATATACAACAA
1 TTTAAAATAAATAATATATAAAACAA
* * * *
67736714 TTTAATATAACTAATATATAAGA-AT
1 TTTAAAATAAATAATATATAAAACAA
* **
67736739 TTTAAAATAAATAAAATATAAAACCG
1 TTTAAAATAAATAATATATAAAACAA
67736765 TTTAAAATAAATAATGTATATAAAA
1 TTTAAAATAAATAA--TATATAAAA
67736790 GATGAATAAA
Statistics
Matches: 268, Mismatches: 49, Indels: 40
0.75 0.14 0.11
Matches are distributed among these distances:
24 35 0.13
25 36 0.13
26 92 0.34
27 67 0.25
28 28 0.10
29 4 0.01
30 6 0.02
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.29
Consensus pattern (26 bp):
TTTAAAATAAATAATATATAAAACAA
Found at i:67738187 original size:24 final size:23
Alignment explanation
Indices: 67738159--67738222 Score: 60
Period size: 26 Copynumber: 2.7 Consensus size: 23
67738149 TATTTGTTTT
67738159 AATATTTTTTTTAATGTTTTTAA
1 AATATTTTTTTTAATGTTTTTAA
*
67738182 ATATATTTGATTTATT-ATATTTTTAA
1 A-ATATTT--TTT-TTAATGTTTTTAA
*
67738208 AAT-TTTTATTTAATG
1 AATATTTTTTTTAATG
67738223 AAATAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
21 2 0.06
22 4 0.12
23 1 0.03
24 9 0.27
25 2 0.06
26 13 0.39
27 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (23 bp):
AATATTTTTTTTAATGTTTTTAA
Found at i:67739939 original size:3 final size:3
Alignment explanation
Indices: 67739931--67739958 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
67739921 CCACATGGTC
67739931 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
67739959 TTAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:67746585 original size:18 final size:17
Alignment explanation
Indices: 67746558--67746591 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
67746548 TCCCCTTTAA
67746558 CCTTTCCCTTCCCCTTC
1 CCTTTCCCTTCCCCTTC
67746575 CCTTCTCCCTTCCCCTT
1 CCTT-TCCCTTCCCCTT
67746592 GTGTTGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (17 bp):
CCTTTCCCTTCCCCTTC
Found at i:67746679 original size:25 final size:25
Alignment explanation
Indices: 67746651--67746700 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
67746641 CAGGTAAGGC
67746651 TCCTTCTGCTTCTTCCATTCTTCAT
1 TCCTTCTGCTTCTTCCATTCTTCAT
* * **
67746676 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTGCTTCTTCCATTCTTCAT
67746701 CTTCTCTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.06, C:0.32, G:0.04, T:0.58
Consensus pattern (25 bp):
TCCTTCTGCTTCTTCCATTCTTCAT
Found at i:67749557 original size:34 final size:35
Alignment explanation
Indices: 67749503--67749569 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
67749493 CAAACACCAG
*
67749503 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
67749538 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
67749570 CATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:67750796 original size:22 final size:22
Alignment explanation
Indices: 67750768--67750809 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
67750758 ACCATGAGAT
*
67750768 CATTTATTGATTGAATGTAATA
1 CATTTATTAATTGAATGTAATA
67750790 CATTTATTAATTGAATGTAA
1 CATTTATTAATTGAATGTAA
67750810 AAGAGCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (22 bp):
CATTTATTAATTGAATGTAATA
Found at i:67751569 original size:13 final size:13
Alignment explanation
Indices: 67751551--67751577 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67751541 ATGAGTTCAG
67751551 GAGTTTGAGAAAA
1 GAGTTTGAGAAAA
67751564 GAGTTTGAGAAAA
1 GAGTTTGAGAAAA
67751577 G
1 G
67751578 GGTATGAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (13 bp):
GAGTTTGAGAAAA
Found at i:67755826 original size:44 final size:46
Alignment explanation
Indices: 67755736--67755845 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 46
67755726 ACAGAATAGA
* *
67755736 AATGAGCCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTACAAATATGACATTGGAGACAGG
* * *
67755782 ATTGAGCCATGTAAGTCCATA-T-CATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTACAAATATGACATTGGAGACAGG
* **
67755826 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
67755846 GTCAAAGACA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.62
45 1 0.02
46 20 0.36
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AATGAGCCATGTAAGTCCATATTACAAATATGACATTGGAGACAGG
Found at i:67760293 original size:41 final size:41
Alignment explanation
Indices: 67760234--67760311 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
67760224 GCCGTCTTCG
*
67760234 ATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGTTTTA
* * *
67760275 ATCTGCTCTACTGGAACTTCAGAGAGATAAGATCTGT
1 ATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGT
67760312 AATTTAGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
ATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGTTTTA
Found at i:67760386 original size:45 final size:45
Alignment explanation
Indices: 67760229--67760615 Score: 265
Period size: 44 Copynumber: 8.6 Consensus size: 45
67760219 GGTTCGCCGT
* * *
67760229 CTTCGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCT-G-T--
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT-TGGATAG
* * * * * *
67760271 -TTTAATCTGCTCTACTGGAACTTCAGAGAGATAAGATCTGTAATTTAG
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT-TG-GA--TAG
* * *
67760319 CTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTGGATAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGATAG
* *
67760364 CTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTGAT--
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTG-GATAG
* * * * * *
67760409 -TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT-AATGG
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGATAG
* * * * * *
67760452 CTTCGACCTGCTCCACTTCAACCTCAGGGAGATAAGATCTGTAATTCAG
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT-TG-GA-T-AG
* ** * *
67760501 CTCCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGGATAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGATAG
* * *
67760546 CTTCAGTTTAATCCACTGCAACTTCAGGGAGATAAGACTT-G-TAG
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTGGATAG
* *
67760590 CTTCAATCAACTCCACTGAAACTTCA
1 CTTCAATCTACTCCACTGCAACTTCA
67760616 ATGAGATCTG
Statistics
Matches: 272, Mismatches: 54, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
41 35 0.13
43 2 0.01
44 85 0.31
45 69 0.25
46 7 0.03
47 7 0.03
48 5 0.02
49 62 0.23
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGGATAG
Found at i:67762395 original size:11 final size:11
Alignment explanation
Indices: 67762381--67762415 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
67762371 CTCTCCCTCC
67762381 TCTCTCTTTTT
1 TCTCTCTTTTT
67762392 TCTCTCCTTTTT
1 TCTCT-CTTTTT
*
67762404 TCTTTCTTTTT
1 TCTCTCTTTTT
67762415 T
1 T
67762416 TCTTCTTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTCTCTTTTT
Found at i:67762403 original size:12 final size:12
Alignment explanation
Indices: 67762380--67762418 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
67762370 CCTCTCCCTC
67762380 CTCTCTCTTTTTT
1 CTCTC-CTTTTTT
67762393 CTCTCCTTTTTT
1 CTCTCCTTTTTT
* *
67762405 CTTTCTTTTTTT
1 CTCTCCTTTTTT
67762417 CT
1 CT
67762419 TCTTCCCCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTCTCCTTTTTT
Found at i:67762887 original size:16 final size:17
Alignment explanation
Indices: 67762862--67762899 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
67762852 TTTCATATCA
67762862 TTTT-TATTATT-TTAT
1 TTTTATATTATTATTAT
*
67762877 TTTTATATTATTATTGT
1 TTTTATATTATTATTAT
67762894 TTTTAT
1 TTTTAT
67762900 TATTCCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATATTATTATTAT
Found at i:67763041 original size:16 final size:17
Alignment explanation
Indices: 67763017--67763054 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
67763007 TATGCAATAT
*
67763017 TATTTATAA-TTTTTTA
1 TATTAATAATTTTTTTA
67763033 TATTAATAATTTTTTTA
1 TATTAATAATTTTTTTA
67763050 TATTA
1 TATTA
67763055 GGTATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTAATAATTTTTTTA
Found at i:67763177 original size:22 final size:25
Alignment explanation
Indices: 67763144--67763195 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
67763134 CATACTTTTG
67763144 TTGTTATGTAT-ATA-TTT-TAATA
1 TTGTTATGTATAATATTTTATAATA
67763166 TTGTTAAT-TATAAATATTTTATAATA
1 TTGTT-ATGTAT-AATATTTTATAATA
67763192 TTGT
1 TTGT
67763196 ATGCATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 8 0.32
23 2 0.08
24 3 0.12
25 3 0.12
26 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (25 bp):
TTGTTATGTATAATATTTTATAATA
Found at i:67763444 original size:17 final size:17
Alignment explanation
Indices: 67763422--67763463 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
67763412 ATTAATCTTA
67763422 GTATATGT-TTTATGTAT
1 GTATATGTCTTTA-GTAT
*
67763439 GTATATATCTTTAGTAT
1 GTATATGTCTTTAGTAT
*
67763456 ATATATGT
1 GTATATGT
67763464 AGGTATATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (17 bp):
GTATATGTCTTTAGTAT
Found at i:67763484 original size:27 final size:27
Alignment explanation
Indices: 67763432--67763484 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
67763422 GTATATGTTT
* *
67763432 TATGTATGTATATATCTTTAGTATATA
1 TATGTAGGTATATATCTATAGTATATA
*
67763459 TATGTAGGTATATCTCTAT-GTA-ATA
1 TATGTAGGTATATATCTATAGTATATA
67763484 T
1 T
67763485 TAGTATTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 3 0.13
27 16 0.70
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (27 bp):
TATGTAGGTATATATCTATAGTATATA
Found at i:67767199 original size:18 final size:18
Alignment explanation
Indices: 67767176--67767211 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
67767166 ACAAAGAAGA
67767176 AGAAAAGGCTGCCCGGGC
1 AGAAAAGGCTGCCCGGGC
67767194 AGAAAAGGCTGCCCGGGC
1 AGAAAAGGCTGCCCGGGC
67767212 TATGATGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.39, T:0.06
Consensus pattern (18 bp):
AGAAAAGGCTGCCCGGGC
Found at i:67776168 original size:73 final size:73
Alignment explanation
Indices: 67776084--67776226 Score: 225
Period size: 73 Copynumber: 2.0 Consensus size: 73
67776074 TGTTTTATTT
* * * *
67776084 TCAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGG-TATTTTAAAT
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGAAATTTT-AAT
67776148 TTCTGTTTG
65 TTCTGTTTG
*
67776157 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAAATTTTAATT
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGAAATTTTAATT
67776222 TCTGT
66 TCTGT
67776227 CTTTAATTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 59 0.92
74 5 0.08
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (73 bp):
TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGAAATTTTAATT
TCTGTTTG
Found at i:67776318 original size:14 final size:14
Alignment explanation
Indices: 67776299--67776332 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
67776289 GCTGAGGCAA
* *
67776299 TTTCAATTTTTGTT
1 TTTCAATTTCTGTC
67776313 TTTCAATTTCTGTC
1 TTTCAATTTCTGTC
67776327 TTTCAA
1 TTTCAA
67776333 AAAAAAATCA
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:0.18, C:0.15, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTCAATTTCTGTC
Found at i:67776369 original size:91 final size:88
Alignment explanation
Indices: 67776159--67776677 Score: 579
Period size: 91 Copynumber: 5.9 Consensus size: 88
67776149 TCTGTTTGTC
*
67776159 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-TATTTTCAATTT
* *
67776223 CTGTCTTT-AATTGCTA-CTTTTC-
65 CTGTTTTTCAATTTCTATC-TTTCA
* * * * * *
67776245 -CAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGACATGCTGAGGCAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
67776309 TGTTTTTCAATTTCTGTCTTTCAAAA
66 TGTTTTTCAATTTCTATCTTTC---A
*
67776335 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACAC-CTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
* * *
67776399 TCCGTTTTTCAA-GT-TATGCTTTTA
64 TCTGTTTTTCAATTTCTAT-CTTTCA
* * *
67776423 AAAGATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * *
67776488 TTTTTTTTTTCAATTTATATTTTTCA
66 ---TGTTTTTCAATTTCTATCTTTCA
* * *
67776514 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
67776579 TGTTAATTTCAATTTCTATGTTTC-
66 TGTT--TTTCAATTTCTATCTTTCA
* * * * * *
67776603 AAAAATCAACTCATATTGCGATAGGTGAGTTGGGCCTCGGGGCACACTGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
67776668 TATTTTTCAA
66 TGTTTTTCAA
67776678 AAATCAATTC
Statistics
Matches: 370, Mismatches: 44, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
84 4 0.01
85 59 0.16
86 13 0.04
87 26 0.07
88 42 0.11
89 61 0.16
90 26 0.07
91 108 0.29
92 28 0.08
93 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTCTATCTTTCA
Found at i:67776474 original size:179 final size:173
Alignment explanation
Indices: 67776159--67776677 Score: 589
Period size: 179 Copynumber: 2.9 Consensus size: 173
67776149 TCTGTTTGTC
*
67776159 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGAAATTTT-AATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACAC-CTGAGG-TATTTTCAATT
* * * ** * *
67776222 TCTGTCTTT-AATTGCTACTTTTCCAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGA
64 TCTGTTTTTCAATT-ATGCTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
* * * * * *
67776286 CATGCTGAGGCAATTTCAATTTTTGTTTTTCAATTTCTGTCTTTCAAAA
128 CACGCTGAGGTATTTTCAATTTTTATTTTTCAATTTATATCTTTC---A
*
67776335 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACCTGAGGTATTTTCAATTT
* *
67776400 CCGTTTTTCAAGTTATGCTTTTAAAAGATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGG
65 CTGTTTTTCAA-TTATGCTTTTAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
* *
67776465 CACGCTGAGGTATTTTCAATTTCTTTTTTTTTTCAATTTATATTTTTCA
128 CACGCTGAGGTATTTTCAA--T-TTTTATTTTTCAATTTATATCTTTCA
* *
67776514 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCC-GAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGCACACCTGAGGTATTTTCAATTT
* * * *
67776578 CTGTTAATTTCAATTTCTATG-TTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGGGCCTCG
65 CTGTT--TTTCAA--T-TATGCTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * *
67776642 GGGCACACTGAGGTATTTTCAAATTCTATTTTTCAA
125 GGGCACGCTGAGGTATTTTCAATTTTTATTTTTCAA
67776678 AAATCAATTC
Statistics
Matches: 297, Mismatches: 32, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
176 45 0.15
177 28 0.09
178 34 0.11
179 96 0.32
180 60 0.20
181 9 0.03
182 25 0.08
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (173 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACCTGAGGTATTTTCAATTTC
TGTTTTTCAATTATGCTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
GCTGAGGTATTTTCAATTTTTATTTTTCAATTTATATCTTTCA
Found at i:67776510 original size:17 final size:17
Alignment explanation
Indices: 67776477--67776511 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
67776467 CGCTGAGGTA
* *
67776477 TTTTCAATTTCTTTTTT
1 TTTTCAATTTATATTTT
67776494 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
67776511 T
1 T
67776512 CAAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:67778953 original size:16 final size:17
Alignment explanation
Indices: 67778928--67778965 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
67778918 TTTCATATCA
67778928 TTTT-TATTATT-TTAT
1 TTTTATATTATTATTAT
*
67778943 TTTTATATTATTATTGT
1 TTTTATATTATTATTAT
67778960 TTTTAT
1 TTTTAT
67778966 TATTCCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATATTATTATTAT
Found at i:67779106 original size:17 final size:17
Alignment explanation
Indices: 67779081--67779119 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
67779071 TATGCAATAT
*
67779081 TATTTATAAGTTTTTTA
1 TATTAATAAGTTTTTTA
*
67779098 TATTAATAATTTTTTTA
1 TATTAATAAGTTTTTTA
67779115 TATTA
1 TATTA
67779120 GGTATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTAATAAGTTTTTTA
Found at i:67779243 original size:22 final size:25
Alignment explanation
Indices: 67779210--67779261 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
67779200 CATACTTTTG
67779210 TTGTTATGTAT-ATA-TTT-TAATA
1 TTGTTATGTATAATATTTTATAATA
67779232 TTGTTAAT-TATAAATATTTTATAATA
1 TTGTT-ATGTAT-AATATTTTATAATA
67779258 TTGT
1 TTGT
67779262 ATGCATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 8 0.32
23 2 0.08
24 3 0.12
25 3 0.12
26 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (25 bp):
TTGTTATGTATAATATTTTATAATA
Found at i:67779511 original size:17 final size:17
Alignment explanation
Indices: 67779489--67779530 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
67779479 ATTAATCTTA
67779489 GTATATGT-TTTATGTAT
1 GTATATGTCTTTA-GTAT
*
67779506 GTATATATCTTTAGTAT
1 GTATATGTCTTTAGTAT
*
67779523 ATATATGT
1 GTATATGT
67779531 AGGTATATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (17 bp):
GTATATGTCTTTAGTAT
Found at i:67779551 original size:27 final size:27
Alignment explanation
Indices: 67779499--67779551 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
67779489 GTATATGTTT
* *
67779499 TATGTATGTATATATCTTTAGTATATA
1 TATGTAGGTATATATCTATAGTATATA
*
67779526 TATGTAGGTATATCTCTAT-GTA-ATA
1 TATGTAGGTATATATCTATAGTATATA
67779551 T
1 T
67779552 TAGTATTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 3 0.13
27 16 0.70
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (27 bp):
TATGTAGGTATATATCTATAGTATATA
Found at i:67794832 original size:39 final size:35
Alignment explanation
Indices: 67794744--67794861 Score: 96
Period size: 38 Copynumber: 3.1 Consensus size: 35
67794734 AAAGGTGATG
*
67794744 ATATACA-GACAATAATAAAAAAAATAACATAAACA
1 ATATACATGACAA-AATAAAAAAAATAAAATAAACA
* *
67794779 ATATATAATGA-AAATATAATAAAAATAAAGAATAAACA
1 ATATA-CATGACAAA-ATAAAAAAAAT-AA-AATAAACA
*
67794817 ATATACATGACAAAATAACAAATCAATATAGAATATAACA
1 ATATACATGACAAAATAA-AAA--AA-ATAAAATA-AACA
67794857 ATATA
1 ATATA
67794862 TACATGAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
35 6 0.09
36 13 0.20
37 12 0.18
38 17 0.26
39 4 0.06
40 12 0.18
41 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.22
Consensus pattern (35 bp):
ATATACATGACAAAATAAAAAAAATAAAATAAACA
Found at i:67799992 original size:20 final size:22
Alignment explanation
Indices: 67799967--67800008 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
67799957 TAAAATGTAT
*
67799967 TGAT-AAAAT-TTTAATTATAA
1 TGATAAAAATATTTAATAATAA
67799987 TGATAAAAATATTTAATAATAA
1 TGATAAAAATATTTAATAATAA
67800009 ATTTAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TGATAAAAATATTTAATAATAA
Found at i:67801501 original size:23 final size:23
Alignment explanation
Indices: 67801475--67801519 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
67801465 ACAACATTCA
*
67801475 TAATAAAT-TTGAAAAATCTAATC
1 TAATAAATAATGAAAAAT-TAATC
*
67801498 TAATAGATAATGAAAAATTAAT
1 TAATAAATAATGAAAAATTAAT
67801520 TATAGATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
TAATAAATAATGAAAAATTAATC
Found at i:67801526 original size:21 final size:24
Alignment explanation
Indices: 67801484--67801527 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
67801474 ATAATAAATT
67801484 TGAAAAATCTAATCTAATAGATAA
1 TGAAAAATCTAATCTAATAGATAA
67801508 TGAAAAAT-TAAT-T-ATAGATA
1 TGAAAAATCTAATCTAATAGATA
67801528 TGGCATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 1 0.05
23 4 0.20
24 8 0.40
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.32
Consensus pattern (24 bp):
TGAAAAATCTAATCTAATAGATAA
Found at i:67801945 original size:78 final size:78
Alignment explanation
Indices: 67801859--67802014 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
67801849 AATTATGCTT
67801859 AAATCAAATTTTAAAATAGATAATAGGCTAAAAGGTCTTAAAAGCCAATAAACTTTCCCAAAAAA
1 AAATCAAATTTTAAAATAGATAATAGGCTAAAAGGTCTTAAAAGCCAATAAACTTTCCCAAAAAA
67801924 AATTATTGATTAA
66 AATTATTGATTAA
67801937 AAATCAAATTTTAAAATAGATAATAGGCTAAAAGGTCTTAAAAGCCAATAAACTTTCCCAAAAAA
1 AAATCAAATTTTAAAATAGATAATAGGCTAAAAGGTCTTAAAAGCCAATAAACTTTCCCAAAAAA
*
67802002 AATTTTTGATTAA
66 AATTATTGATTAA
67802015 GCCCTTATAC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.29
Consensus pattern (78 bp):
AAATCAAATTTTAAAATAGATAATAGGCTAAAAGGTCTTAAAAGCCAATAAACTTTCCCAAAAAA
AATTATTGATTAA
Found at i:67802383 original size:20 final size:20
Alignment explanation
Indices: 67802316--67802384 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
67802306 AAAATCATGA
*
67802316 AAAATGTATATAAAA-TATAG
1 AAAAT-TATAAAAAAGTATAG
* *
67802336 AAAATTGTTAAAAAGT-TATG
1 AAAATTATAAAAAAGTATA-G
*
67802356 AAAA-TATAAAAAAGTATAC
1 AAAATTATAAAAAAGTATAG
67802375 AAAATTATAA
1 AAAATTATAA
67802385 GTATTCCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 21 0.54
20 18 0.46
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (20 bp):
AAAATTATAAAAAAGTATAG
Found at i:67806337 original size:21 final size:21
Alignment explanation
Indices: 67806276--67806349 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
67806266 GAGTGCGTTA
* *
67806276 TATCGATAGAAGTCCAAGTTG
1 TATCGGTAGAACTCCAAGTTG
*
67806297 TATTGGTAGAAC-CCAAAGTTG
1 TATCGGTAGAACTCC-AAGTTG
* *
67806318 TATCGGTAGAACTCCTAGTTT
1 TATCGGTAGAACTCCAAGTTG
*
67806339 TATCAGTAGAA
1 TATCGGTAGAA
67806350 TTCTGTAGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.05
21 40 0.91
22 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (21 bp):
TATCGGTAGAACTCCAAGTTG
Found at i:67809851 original size:29 final size:29
Alignment explanation
Indices: 67809817--67809874 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
67809807 TACCATATGT
67809817 GTTTGAATTATTATCAAATCGATATAGCA
1 GTTTGAATTATTATCAAATCGATATAGCA
67809846 GTTTGAATTATTATCAAATCGATATAGCA
1 GTTTGAATTATTATCAAATCGATATAGCA
67809875 TAAATTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (29 bp):
GTTTGAATTATTATCAAATCGATATAGCA
Found at i:67809880 original size:26 final size:27
Alignment explanation
Indices: 67809822--67809880 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
67809812 TATGTGTTTG
*
67809822 AATTATTATCAAATCGATATAGCAGTTTG
1 AATTATTATCAAATCGATATAGCA--TTA
67809851 AATTATTATCAAATCGATATAGCA-TA
1 AATTATTATCAAATCGATATAGCATTA
67809877 AATT
1 AATT
67809881 GCTTGATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 5 0.17
29 24 0.83
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (27 bp):
AATTATTATCAAATCGATATAGCATTA
Found at i:67810064 original size:47 final size:46
Alignment explanation
Indices: 67809991--67810163 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
67809981 TCACTTGCGT
*
67809991 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGA-
1 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCC-CATTAAGAC
* *
67810037 GAGCTAGTATAAGATCATGTTTGGGACATGGCAACGG--CATTAAGAC
1 GAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCCATTAAGAC
** **
67810083 GAGTGCTAGTGTAAGACATGTTAAGGACATGCATCGG-CC-TCGAGAC
1 GA--GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCCATTAAGAC
* *
67810129 GTAAGCTAGGGTAAGACATGTCTGGGACATGCATC
1 G--AGCTAGTGTAAGACATGTTTGGGACATGCATC
67810164 AGCTACGAGA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
45 7 0.07
46 54 0.51
47 27 0.25
48 18 0.17
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCCATTAAGAC
Found at i:67810173 original size:46 final size:44
Alignment explanation
Indices: 67810085--67810204 Score: 136
Period size: 46 Copynumber: 2.7 Consensus size: 44
67810075 ATTAAGACGA
*
67810085 GTGCTAGTGTAAGACATGT-TAAGGACATGCATCGGCCTCGAGAC
1 GTGCTAGTGTAAGACATGTCT-AGGACATGCATCAGCCTCGAGAC
* * *
67810129 GTAAGCTAGGGTAAGACATGTCTGGGACATGCATCAG-CTACGAGAT
1 GT--GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCT-CGAGAC
*
67810175 GTGTTAGTGTAAGACCATGTCTAGGACATG
1 GTGCTAGTGTAAGA-CATGTCTAGGACATG
67810205 GCGTCGACAC
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
44 12 0.19
45 16 0.25
46 35 0.55
47 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (44 bp):
GTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGAC
Found at i:67812524 original size:31 final size:31
Alignment explanation
Indices: 67812486--67812634 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
67812476 ACAAATGACA
*
67812486 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
*
67812517 AGTGAAAAGTGGTAGCTTCTGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
*
67812548 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
* * *
67812579 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
*
67812610 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
67812635 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
Found at i:67812770 original size:46 final size:47
Alignment explanation
Indices: 67812653--67812775 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 47
67812643 AGTGATTTCC
* * *
67812653 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
** * *
67812700 GTATAAGACCATATCTAAGATATGGCATCAGTGAGATATGTGATTC-
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* * *
67812746 GTGTAAGACCATAGCTGGGCTATGGCATCA
1 GTATAAGACCATATCTGGGATATGGCATCA
67812776 TTATGTGAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
46 25 0.39
47 39 0.61
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
Found at i:67815596 original size:39 final size:39
Alignment explanation
Indices: 67815545--67815674 Score: 208
Period size: 39 Copynumber: 3.3 Consensus size: 39
67815535 AATTATATTA
*
67815545 CCAGCACAAAGCCTGCGGGACTTTAGCTCC-GATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGC-CCGGATACATTT
* *
67815584 CTAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
67815623 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67815662 CCAGCACGAAGCC
1 CCAGCACGAAGCC
67815675 ATAATGCCTC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 2 0.02
39 82 0.98
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:67817025 original size:39 final size:39
Alignment explanation
Indices: 67816971--67817868 Score: 1760
Period size: 39 Copynumber: 23.0 Consensus size: 39
67816961 NNNNNNNNNN
67816971 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817010 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817049 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817088 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817127 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817166 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817205 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817244 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817283 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817322 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817361 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817400 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817439 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817478 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817517 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817556 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817595 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817634 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817673 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817712 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
67817751 CCAGCACGAAGCTTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
67817790 CCAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTC
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817829 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
67817868 C
1 C
67817869 TAGTGTCTTG
Statistics
Matches: 851, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 851 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:67823126 original size:11 final size:11
Alignment explanation
Indices: 67823112--67823156 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
67823102 AGATAAATAT
67823112 TATTTTATTAA
1 TATTTTATTAA
*
67823123 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
67823136 TATTTTATTAT
1 TATTTTATTAA
67823147 TATTTTATTA
1 TATTTTATTA
67823157 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Done.