Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 44 of 106
Found at i:7643470 original size:84 final size:86
Alignment explanation
Indices: 7643322--7643484 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 86
7643312 AATGCTCCCT
* * *
7643322 TACAACTGAAGCTTTGAAACTTTTAAAAAATAAAATGCTCCCCCACAACTAAGACTTTGGAACTT
1 TACAACTGAAGCTTTGAAACTTTTAAAAAAGAAAATCCTCCCCCACAACTAAGACTTTGAAACTT
7643387 TT-GAAAATAAAATACTCTCC
66 TTGGAAAATAAAATACTCTCC
* * * *
7643407 TACAACT-AAGGCTTTGGAACTTTT-AAAAAGAAAATCCTCCCCTACAACTGAGGCTTTGAAACT
1 TACAACTGAA-GCTTTGAAACTTTTAAAAAAGAAAATCCTCCCCCACAACTAAGACTTTGAAACT
7643470 TTTGGAAAATAAAAT
65 TTTGGAAAATAAAAT
7643485 GAGATCATAC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 38 0.55
85 31 0.45
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (86 bp):
TACAACTGAAGCTTTGAAACTTTTAAAAAAGAAAATCCTCCCCCACAACTAAGACTTTGAAACTT
TTGGAAAATAAAATACTCTCC
Found at i:7645319 original size:16 final size:16
Alignment explanation
Indices: 7645300--7645330 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7645290 TCTTCATCAA
7645300 TTCTCTTCTTTTCTTT
1 TTCTCTTCTTTTCTTT
*
7645316 TTCTTTTCTTTTCTT
1 TTCTCTTCTTTTCTT
7645331 CATATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTCTTCTTTTCTTT
Found at i:7652390 original size:19 final size:19
Alignment explanation
Indices: 7652366--7652404 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7652356 ATTTTTAACG
7652366 ATCGAAGAATCACTCTCTA
1 ATCGAAGAATCACTCTCTA
7652385 ATCGAAGAATCACTCTCTA
1 ATCGAAGAATCACTCTCTA
7652404 A
1 A
7652405 CTTCTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (19 bp):
ATCGAAGAATCACTCTCTA
Found at i:7652655 original size:2 final size:2
Alignment explanation
Indices: 7652648--7652683 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7652638 AATGATCTCT
7652648 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7652684 GAGAGAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7652688 original size:2 final size:2
Alignment explanation
Indices: 7652683--7652715 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7652673 ATATATATAT
*
7652683 AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7652716 CTTTATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7657367 original size:18 final size:18
Alignment explanation
Indices: 7657344--7657380 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7657334 ATAATATATA
7657344 TATATGAACTTACAAATT
1 TATATGAACTTACAAATT
*
7657362 TATATGAACTTATAAATT
1 TATATGAACTTACAAATT
7657380 T
1 T
7657381 TGGTTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (18 bp):
TATATGAACTTACAAATT
Found at i:7659448 original size:14 final size:14
Alignment explanation
Indices: 7659429--7659477 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
7659419 TGAAATTTAT
7659429 AAAATATTTAATTA
1 AAAATATTTAATTA
7659443 AAAATAATTTAA-TA
1 AAAAT-ATTTAATTA
*
7659457 AAAA-CTTT-ATTA
1 AAAATATTTAATTA
*
7659469 AAAAAATTT
1 AAAATATTT
7659478 TAAATCGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 1 0.03
12 9 0.30
13 3 0.10
14 11 0.37
15 6 0.20
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATATTTAATTA
Found at i:7659468 original size:26 final size:25
Alignment explanation
Indices: 7659421--7659481 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 25
7659411 TTTTTGGGTG
7659421 AAATTTATAAAATATTTAATTAAAA
1 AAATTTATAAAATATTTAATTAAAA
7659446 ATAATTTAATAAAA-ACTTT-ATTAAAA
1 A-AATTT-ATAAAATA-TTTAATTAAAA
7659472 AAATTT-TAAA
1 AAATTTATAAA
7659482 TCGATAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 4 0.12
25 6 0.18
26 14 0.42
27 9 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
AAATTTATAAAATATTTAATTAAAA
Found at i:7660421 original size:42 final size:42
Alignment explanation
Indices: 7660342--7660422 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 42
7660332 TTTTATTAAA
* *
7660342 CTATTTACCAATCTTTAGTGGCGTTTACGTACTAAAACGGCG
1 CTATTTACCAATCTTTAGTGGCGTTTACGAACGAAAACGGCG
7660384 CTATTTACCAAGT-TTTAGTGGCGTTTA-GAACAGAAAACG
1 CTATTTACCAA-TCTTTAGTGGCGTTTACGAAC-GAAAACG
7660423 CCACTAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 3 0.09
42 31 0.89
43 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (42 bp):
CTATTTACCAATCTTTAGTGGCGTTTACGAACGAAAACGGCG
Found at i:7660582 original size:32 final size:32
Alignment explanation
Indices: 7660546--7660622 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
7660536 TTGCTGTTCA
* *
7660546 GTTTCCTTCTCCAGTGGTGGCTGTTCGGTTGG
1 GTTTCCTTCTCCAGCGGTGGCTCTTCGGTTGG
* *
7660578 GTTTCCTTCTCCGGCGGTGGCTCTTGGGTTGG
1 GTTTCCTTCTCCAGCGGTGGCTCTTCGGTTGG
*
7660610 GTTTCCATCTCCA
1 GTTTCCTTCTCCA
7660623 CTGGGTTTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.04, C:0.26, G:0.31, T:0.39
Consensus pattern (32 bp):
GTTTCCTTCTCCAGCGGTGGCTCTTCGGTTGG
Found at i:7663629 original size:9 final size:8
Alignment explanation
Indices: 7663601--7663632 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
7663591 ACAAATTATG
7663601 TATTTAAA
1 TATTTAAA
7663609 TATTTAAA
1 TATTTAAA
7663617 TATTTATAA
1 TATTTA-AA
7663626 TATTTAA
1 TATTTAA
7663633 TTTATGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTTAAA
Found at i:7663629 original size:17 final size:16
Alignment explanation
Indices: 7663601--7663632 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7663591 ACAAATTATG
7663601 TATTTAAATATTTAAA
1 TATTTAAATATTTAAA
7663617 TATTTATAATATTTAA
1 TATTTA-AATATTTAA
7663633 TTTATGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTAAATATTTAAA
Found at i:7664779 original size:18 final size:17
Alignment explanation
Indices: 7664747--7664782 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7664737 TTTGAATTAA
*
7664747 ATTAAAAATATTATTTT
1 ATTAAAAAAATTATTTT
7664764 ATTAATAAAAATTATTTT
1 ATTAA-AAAAATTATTTT
7664782 A
1 A
7664783 ATATATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAAAAAATTATTTT
Found at i:7677075 original size:13 final size:13
Alignment explanation
Indices: 7677059--7677122 Score: 65
Period size: 13 Copynumber: 4.5 Consensus size: 13
7677049 ATTAAAGGAA
7677059 TTTATTAATTATT
1 TTTATTAATTATT
7677072 TTTATTATGATTATT
1 TTTATTA--ATTATT
* *
7677087 TTAAAATTTATTATT
1 TT--TATTAATTATT
7677102 ATTTATTAATTATT
1 -TTTATTAATTATT
7677116 TTTATTA
1 TTTATTA
7677123 TAAAATTTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 14 0.33
14 9 0.21
15 14 0.33
16 2 0.05
17 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
TTTATTAATTATT
Found at i:7677102 original size:18 final size:18
Alignment explanation
Indices: 7677076--7677131 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
7677066 ATTATTTTTA
*
7677076 TTATGATTATTTTAAAAT
1 TTATTATTATTTTAAAAT
*
7677094 TTATTATTA-TTTATTAA-
1 TTATTATTATTTTA-AAAT
* *
7677111 TTATTTTTATTATAAAAT
1 TTATTATTATTTTAAAAT
7677129 TTA
1 TTA
7677132 GATTATCCCG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTATTATTATTTTAAAAT
Found at i:7677121 original size:35 final size:34
Alignment explanation
Indices: 7677057--7677131 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 34
7677047 TAATTAAAGG
*
7677057 AATTTATTAATTATTTTTATTATGATTATTTTAA
1 AATTTATTAATTATTTTTATTATGATTATTATAA
**
7677091 AATTTATT-ATTATTTATTAATTATTTTTATTATAA
1 AATTTATTAATTATTT-TT-ATTATGATTATTATAA
7677126 AATTTA
1 AATTTA
7677132 GATTATCCCG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 7 0.19
34 10 0.28
35 19 0.53
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
AATTTATTAATTATTTTTATTATGATTATTATAA
Found at i:7677710 original size:15 final size:15
Alignment explanation
Indices: 7677681--7677716 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7677671 TATTACTAGT
7677681 AATAAT-ATAAAAAC
1 AATAATAATAAAAAC
*
7677695 AATAATAATAACAAC
1 AATAATAATAAAAAC
7677710 AATAATA
1 AATAATA
7677717 TTATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (15 bp):
AATAATAATAAAAAC
Found at i:7679216 original size:54 final size:54
Alignment explanation
Indices: 7679157--7679259 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
7679147 ATTAATCTCC
* * * *
7679157 TTACAAATTATTATAATGTCTTTTTAATTACTTGACAATTCATTTACATACCCA
1 TTACAAATGATCATAATGTCTATTTAATTACTTGACAATTCAATTACATACCCA
* * *
7679211 TTACAAATGATCATGATGTCTATTTAATTACTTGATAATTGAATTACAT
1 TTACAAATGATCATAATGTCTATTTAATTACTTGACAATTCAATTACAT
7679260 GCATCCAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.44
Consensus pattern (54 bp):
TTACAAATGATCATAATGTCTATTTAATTACTTGACAATTCAATTACATACCCA
Found at i:7679486 original size:84 final size:84
Alignment explanation
Indices: 7679344--7679501 Score: 187
Period size: 84 Copynumber: 1.9 Consensus size: 84
7679334 AGCCAAAGTT
* * ** *
7679344 ATTATAATGCTCATATAACCATAATTACGAAAATGTCCTCCCATTATAATTAGCAAAATACCTTC
1 ATTATAATACTCATATAACCATAATTACGAAAATGCCCTCCCACCATAATTAGCAAAATA--TCC
7679409 ATATTATAATTTGTCAAAATC
64 ATATTATAATTTGTCAAAATC
* * **
7679430 ATTATAATACTC-TCTAACCATAGTTAC-AAAATGCCCTCTTACCATAATTA-CGAAAATATCCA
1 ATTATAATACTCATATAACCATAATTACGAAAATGCCCTCCCACCATAATTAGC-AAAATATCCA
7679492 TATTATAATT
65 TATTATAATT
7679502 AGCTTAAGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
82 13 0.21
83 1 0.02
84 24 0.39
85 13 0.21
86 11 0.18
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.35
Consensus pattern (84 bp):
ATTATAATACTCATATAACCATAATTACGAAAATGCCCTCCCACCATAATTAGCAAAATATCCAT
ATTATAATTTGTCAAAATC
Found at i:7685340 original size:18 final size:17
Alignment explanation
Indices: 7685317--7685352 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7685307 ACAAATATAT
*
7685317 TAAAATAATTTTTATTAA
1 TAAAATAATATTT-TTAA
7685335 TAAAATAATATTTTTAA
1 TAAAATAATATTTTTAA
7685352 T
1 T
7685353 TTAATTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAATAATATTTTTAA
Found at i:7685439 original size:16 final size:17
Alignment explanation
Indices: 7685408--7685440 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7685398 AGTTAGACTT
7685408 TTTGATTGGATAAATAA
1 TTTGATTGGATAAATAA
*
7685425 TTTGATTTG-TAAATAA
1 TTTGATTGGATAAATAA
7685441 GTTTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
TTTGATTGGATAAATAA
Found at i:7686462 original size:14 final size:14
Alignment explanation
Indices: 7686445--7686478 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
7686435 ATAAATTAAA
7686445 ATAAATTAAA-ATT
1 ATAAATTAAATATT
7686458 CATAAATTAAATATT
1 -ATAAATTAAATATT
7686473 ATAAAT
1 ATAAAT
7686479 ATTTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAATTAAATATT
Found at i:7686486 original size:17 final size:16
Alignment explanation
Indices: 7686464--7686495 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7686454 AATTCATAAA
7686464 TTAAATATTATAAATAT
1 TTAAATATT-TAAATAT
7686481 TTAAATATTTAAATA
1 TTAAATATTTAAATA
7686496 CATAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAATATTTAAATAT
Found at i:7686487 original size:8 final size:8
Alignment explanation
Indices: 7686464--7686495 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
7686454 AATTCATAAA
7686464 TTAAATAT
1 TTAAATAT
7686472 TATAAATAT
1 T-TAAATAT
7686481 TTAAATAT
1 TTAAATAT
7686489 TTAAATA
1 TTAAATA
7686496 CATAATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTAAATAT
Found at i:7687863 original size:15 final size:14
Alignment explanation
Indices: 7687843--7687879 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7687833 TAAACACCAT
7687843 TTTTTTTTATTTTAA
1 TTTTTTTTA-TTTAA
7687858 TTTTTTTTATTTAA
1 TTTTTTTTATTTAA
7687872 TTTTTTTT
1 TTTTTTTT
7687880 CTTCCCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTTATTTAA
Found at i:7688065 original size:22 final size:23
Alignment explanation
Indices: 7688040--7688084 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7688030 TTTTTCAGTT
*
7688040 GAAAA-ATGGGATTCGAATCCCA
1 GAAAATATGAGATTCGAATCCCA
*
7688062 GAAAATATGAGATTTGAATCCCA
1 GAAAATATGAGATTCGAATCCCA
7688085 ACAAGCTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (23 bp):
GAAAATATGAGATTCGAATCCCA
Found at i:7688966 original size:13 final size:13
Alignment explanation
Indices: 7688948--7688974 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7688938 AAAAAATATT
7688948 TTTTATTTATTTA
1 TTTTATTTATTTA
7688961 TTTTATTTATTTA
1 TTTTATTTATTTA
7688974 T
1 T
7688975 ATATTATTTT
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:7688981 original size:20 final size:20
Alignment explanation
Indices: 7688944--7688987 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7688934 AGTAAAAAAA
*
7688944 TATTTTTTATTTATTTATTT
1 TATTTTTTATATATTTATTT
7688964 TATTTATTTATATA-TTATTT
1 TATTT-TTTATATATTTATTT
7688984 TATT
1 TATT
7688988 AATATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTTTTATATATTTATTT
Found at i:7689331 original size:18 final size:18
Alignment explanation
Indices: 7689288--7689334 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
7689278 ATTTTCTTTT
7689288 TTAA-TAATAAATAAAAA
1 TTAAGTAATAAATAAAAA
* *
7689305 TTGATTAATAAATTAAAAA
1 TTAAGTAATAAA-TAAAAA
7689324 -TAAGTAATAAA
1 TTAAGTAATAAA
7689335 AATAGGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
TTAAGTAATAAATAAAAA
Found at i:7689922 original size:193 final size:193
Alignment explanation
Indices: 7689593--7689959 Score: 628
Period size: 193 Copynumber: 1.9 Consensus size: 193
7689583 CATGATATAA
* *
7689593 TTTCTTACGAAAAGTAAATTTAGACCTCCAAAGATGAGATTCTAAAAGTATTCTGAGTAGAGATG
1 TTTCTTACGAAAAATAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCTGAGTAGAGATG
*
7689658 CTTTAAGAAATCTTTAGGTGAGAAAAAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
66 CTTTAAGAAATCTCTAGGTGAGAAAAAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
*
7689723 AATTATTTCAATAAAAAAGTTTTAATTTATTTTTCTCGAGAATATTTTTTTTTAACATGACAT
131 AATTATTTCAATAAAAAAGTTATAATTTATTTTTCTCGAGAATATTTTTTTTTAACATGACAT
* *
7689786 TTTCTTACGAAAAATAAATTCGAG-CCTTCAAAGATGAGATTCTAAAATTATTCTGAGTAGAGAT
1 TTTCTTACGAAAAATAAATT-GAGACCTCCAAAGATGAGATTCTAAAAGTATTCTGAGTAGAGAT
* *
7689850 GCTTTAAGAAATCTCTAGGTGAGAAAGAGTTTTTTTAATGTTACCAACGTACTGGAACATTTTAA
65 GCTTTAAGAAATCTCTAGGTGAGAAAAAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAA
* *
7689915 GAATTATTTCAATAAAAAGGTTATAATTTATTTTTCTCGATAATA
130 GAATTATTTCAATAAAAAAGTTATAATTTATTTTTCTCGAGAATA
7689960 CATTTTTTAA
Statistics
Matches: 163, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
193 161 0.99
194 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (193 bp):
TTTCTTACGAAAAATAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCTGAGTAGAGATG
CTTTAAGAAATCTCTAGGTGAGAAAAAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
AATTATTTCAATAAAAAAGTTATAATTTATTTTTCTCGAGAATATTTTTTTTTAACATGACAT
Found at i:7690456 original size:20 final size:19
Alignment explanation
Indices: 7690433--7690492 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
7690423 AAAAAAAGTC
7690433 AAAAACAAAAGAAAAACAAA
1 AAAAACAAAA-AAAAACAAA
* * *
7690453 AAAAGCAAAACAAATCAAA
1 AAAAACAAAAAAAAACAAA
7690472 AATAAA-AAAAACAAAA-AAA
1 AA-AAACAAAAA-AAAACAAA
7690491 AA
1 AA
7690493 CTTACACACA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.83, C:0.10, G:0.03, T:0.03
Consensus pattern (19 bp):
AAAAACAAAAAAAAACAAA
Found at i:7690462 original size:25 final size:25
Alignment explanation
Indices: 7690423--7690493 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
7690413 ACTTTTAGTA
*
7690423 AAAAAAAGTCAAAAACAAAAGAAAAAC
1 AAAAAAAG-C-AAAACAAAACAAAAAC
* *
7690450 AAAAAAAGCAAAACAAATCAAAAAT
1 AAAAAAAGCAAAACAAAACAAAAAC
* *
7690475 AAAAAAAACAAAAAAAAAC
1 AAAAAAAGCAAAACAAAAC
7690494 TTACACACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 29 0.76
26 1 0.03
27 8 0.21
ACGTcount: A:0.80, C:0.11, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAAAAGCAAAACAAAACAAAAAC
Found at i:7697770 original size:14 final size:14
Alignment explanation
Indices: 7697751--7697785 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
7697741 TTTATTTTTC
7697751 TTCTTTCCCTTCTT
1 TTCTTTCCCTTCTT
*
7697765 TTCTTTCTCTTCTT
1 TTCTTTCCCTTCTT
7697779 TCTCTTT
1 T-TCTTT
7697786 GTTTTTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTTCCCTTCTT
Found at i:7699804 original size:12 final size:12
Alignment explanation
Indices: 7699789--7699823 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7699779 GATCTCGATC
7699789 TCGAGCTCGAGT
1 TCGAGCTCGAGT
*
7699801 TCGAGTTCGAGT
1 TCGAGCTCGAGT
*
7699813 TTGAGCTCGAG
1 TCGAGCTCGAG
7699824 CACAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (12 bp):
TCGAGCTCGAGT
Found at i:7704654 original size:24 final size:24
Alignment explanation
Indices: 7704627--7704679 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7704617 ACCTTTGCTT
*
7704627 GCTTCATCCC-TTTCTCTTTTGGCA
1 GCTTCATCCCTTTTC-CTTTTAGCA
*
7704651 GCTTTATCCCTTTTCCTTTTAGCA
1 GCTTCATCCCTTTTCCTTTTAGCA
7704675 GCTTC
1 GCTTC
7704680 CCTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.09, C:0.32, G:0.11, T:0.47
Consensus pattern (24 bp):
GCTTCATCCCTTTTCCTTTTAGCA
Found at i:7706142 original size:37 final size:37
Alignment explanation
Indices: 7706095--7706222 Score: 134
Period size: 37 Copynumber: 3.5 Consensus size: 37
7706085 CCTAAATAGA
*
7706095 GCTTTGAAACTTTGAAAAAGGCTTCTCTCAAATAGAG
1 GCTTTGAAACTTTGAAAAAGGCTTCTCTCAAACAGAG
* * * *
7706132 GCTTTAAAACTTTTAAAATA-GCTTCCCTCAAGCCA-AG
1 GCTTTGAAACTTTGAAAA-AGGCTTCTCTCAA-ACAGAG
* * * * *
7706169 GCTTTGAAACTTTTAAAATGGCTCCTCCCAAACAAAG
1 GCTTTGAAACTTTGAAAAAGGCTTCTCTCAAACAGAG
7706206 GCTTTGAAACTTTGAAA
1 GCTTTGAAACTTTGAAA
7706223 TTTTAAAATG
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
36 2 0.03
37 71 0.95
38 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (37 bp):
GCTTTGAAACTTTGAAAAAGGCTTCTCTCAAACAGAG
Found at i:7706790 original size:11 final size:11
Alignment explanation
Indices: 7706747--7706789 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
7706737 ATCAATCTTT
7706747 TTTTTATTTTTG
1 TTTTTA-TTTTG
*
7706759 TTTTTGTTTTG
1 TTTTTATTTTG
7706770 TTTTTATTTT-
1 TTTTTATTTTG
*
7706780 ATTTTATTTT
1 TTTTTATTTT
7706790 TTAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 14 0.50
12 5 0.18
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (11 bp):
TTTTTATTTTG
Found at i:7720267 original size:98 final size:98
Alignment explanation
Indices: 7720114--7720313 Score: 312
Period size: 98 Copynumber: 2.0 Consensus size: 98
7720104 TCTGGCTTTG
* * *
7720114 TTGCACTGAATCTGGTAGGTTCAGCGACTCAAAGCATACTTAAAAGGAAAAGCTCGCA-AGGCCT
1 TTGCACTGAATCTGGTAGGTTCAGCAAATCAAAGCACACTTAAAAGGAAAAGCTCGCAGA-GCCT
*
7720178 CTACCAGATCGGAATGCATCATGCAATACAGGCT
65 CTACCAGATCGCAATGCATCATGCAATACAGGCT
** *
7720212 TTGCACTGAATCTGGTAGGTTCAGCAAATCAAAGCACGTTTATAAGGAAAAGCTCGCAGAGCCTC
1 TTGCACTGAATCTGGTAGGTTCAGCAAATCAAAGCACACTTAAAAGGAAAAGCTCGCAGAGCCTC
*
7720277 TCCCAGATCGCAATGCATCATGCAATACAGGCT
66 TACCAGATCGCAATGCATCATGCAATACAGGCT
7720310 TTGC
1 TTGC
7720314 TGCACTGGAT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 92 0.99
99 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (98 bp):
TTGCACTGAATCTGGTAGGTTCAGCAAATCAAAGCACACTTAAAAGGAAAAGCTCGCAGAGCCTC
TACCAGATCGCAATGCATCATGCAATACAGGCT
Found at i:7721999 original size:20 final size:20
Alignment explanation
Indices: 7721984--7722021 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7721974 TCCTTTTTTC
7721984 TTTTACTTTTATCTTTTTAT
1 TTTTACTTTTATCTTTTTAT
*
7722004 TTTTATTTTTAT-TTTTTA
1 TTTTACTTTTATCTTTTTA
7722022 ATATAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTACTTTTATCTTTTTAT
Found at i:7722663 original size:13 final size:13
Alignment explanation
Indices: 7722635--7722672 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
7722625 TTTTTATTAA
7722635 TAAAATTATT-ATT
1 TAAAA-TATTAATT
*
7722648 TAATATATTAATT
1 TAAAATATTAATT
7722661 TAAAATATTAAT
1 TAAAATATTAAT
7722673 ATTTTAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAAATATTAATT
Found at i:7725163 original size:17 final size:17
Alignment explanation
Indices: 7725125--7725159 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7725115 AATATTTTTA
*
7725125 TATAATAAAAATTTATG
1 TATAATAAAAATTTATC
7725142 TATAATAAAAATTT-TC
1 TATAATAAAAATTTATC
7725158 TA
1 TA
7725160 ATAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (17 bp):
TATAATAAAAATTTATC
Found at i:7726821 original size:11 final size:11
Alignment explanation
Indices: 7726785--7726830 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
7726775 GATAACTTAG
*
7726785 TAATAAATAAA
1 TAATAAATTAA
*
7726796 TAATAATTTAA
1 TAATAAATTAA
*
7726807 TAATAAATTAC
1 TAATAAATTAA
*
7726818 TAATAATTTAA
1 TAATAAATTAA
7726829 TA
1 TA
7726831 GTGAATTAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:7726838 original size:22 final size:22
Alignment explanation
Indices: 7726776--7726830 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
7726766 TTAATTATTG
* * * *
7726776 ATAACTTAGTAATAAATAAATA
1 ATAATTTAATAATAAATTACTA
7726798 ATAATTTAATAATAAATTACTA
1 ATAATTTAATAATAAATTACTA
7726820 ATAATTTAATA
1 ATAATTTAATA
7726831 GTGAATTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
ATAATTTAATAATAAATTACTA
Found at i:7726915 original size:22 final size:22
Alignment explanation
Indices: 7726890--7727157 Score: 99
Period size: 22 Copynumber: 12.4 Consensus size: 22
7726880 AATTACTTAG
7726890 TAGTAAATCAATGATAAATTAA
1 TAGTAAATCAATGATAAATTAA
* *
7726912 TAGTAAAT-AATTGATAATTTAG
1 TAGTAAATCAA-TGATAAATTAA
* ** * * *
7726934 TAGTTAAT-TGTTAAAAACTCAA
1 TAGTAAATCAATGATAAA-TTAA
* * * *
7726956 AAGTAAATCAAT-ATCACTTAG
1 TAGTAAATCAATGATAAATTAA
* *
7726977 TAGTAAATCATTTAT-AATATAA
1 TAGTAAATCAATGATAAAT-TAA
*
7726999 T-GT-AATCAATGATAACTTAA
1 TAGTAAATCAATGATAAATTAA
*
7727019 TAGTAAATC-ATGTATAATTTAA
1 TAGTAAATCAATG-ATAAATTAA
* * * *
7727041 TA-TAAAACAATAATAACTTGA
1 TAGTAAATCAATGATAAATTAA
* * * * * *
7727062 TCGTGAAT-TATAAATAATTTAG
1 TAGTAAATCAAT-GATAAATTAA
* * *
7727084 CAGTAAATCAATGATAATTTTA
1 TAGTAAATCAATGATAAATTAA
* * *
7727106 TGGTAAAT-AATAAAAAATTAAA
1 TAGTAAATCAATGATAAATT-AA
*
7727128 TAGTAAATCAATGAT-AATATAG
1 TAGTAAATCAATGATAAAT-TAA
7727150 TAGTAAAT
1 TAGTAAAT
7727158 ATATATTGTC
Statistics
Matches: 175, Mismatches: 55, Indels: 32
0.67 0.21 0.12
Matches are distributed among these distances:
20 12 0.07
21 52 0.30
22 103 0.59
23 8 0.05
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (22 bp):
TAGTAAATCAATGATAAATTAA
Found at i:7727023 original size:42 final size:42
Alignment explanation
Indices: 7726959--7727059 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
7726949 AACTCAAAAG
* * * *
7726959 TAAATCAATATCACTTAGTAGTAAATCATTTATAATATAATG
1 TAAATCAATATAACTTAATAGTAAATCATGTATAATATAATA
*
7727001 T-AATCAATGATAACTTAATAGTAAATCATGTATAATTTAATA
1 TAAATCAAT-ATAACTTAATAGTAAATCATGTATAATATAATA
*
7727043 TAAAACAATAATAACTT
1 TAAATCAAT-ATAACTT
7727060 GATCGTGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 7 0.14
42 30 0.60
43 13 0.26
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (42 bp):
TAAATCAATATAACTTAATAGTAAATCATGTATAATATAATA
Found at i:7727803 original size:19 final size:20
Alignment explanation
Indices: 7727779--7727825 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7727769 GCAAATGATA
*
7727779 CAATAATATAA-ATATCCTG
1 CAATAATATAACATATCATG
*
7727798 CAATAATATAACATATTATG
1 CAATAATATAACATATCATG
7727818 CAATAATA
1 CAATAATA
7727826 ATATAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (20 bp):
CAATAATATAACATATCATG
Found at i:7727861 original size:12 final size:13
Alignment explanation
Indices: 7727844--7727917 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 13
7727834 ATGTAAATAC
7727844 TAATAAAT-ATAT
1 TAATAAATCATAT
7727856 TAAT-AATCATGCACT
1 TAATAAATCAT--A-T
*
7727871 TAATAAATCACAT
1 TAATAAATCATAT
*
7727884 AAATAAAT-ATAT
1 TAATAAATCATAT
7727896 TAAT-AATCATAT
1 TAATAAATCATAT
*
7727908 AAAT-AATCAT
1 TAATAAATCAT
7727918 GCAATTAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
11 6 0.12
12 25 0.49
13 8 0.16
14 2 0.04
15 5 0.10
16 5 0.10
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.35
Consensus pattern (13 bp):
TAATAAATCATAT
Found at i:7729564 original size:17 final size:18
Alignment explanation
Indices: 7729534--7729567 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7729524 ACCTTTTGAA
7729534 AAAAAGTAACATTAAATC
1 AAAAAGTAACATTAAATC
*
7729552 AAAAATTAA-ATTAAAT
1 AAAAAGTAACATTAAAT
7729568 TAAATCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAAGTAACATTAAATC
Found at i:7731739 original size:21 final size:21
Alignment explanation
Indices: 7731715--7731754 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7731705 AACTCTCATA
*
7731715 AAATCATAGTAAAATAACATG
1 AAATCAAAGTAAAATAACATG
* *
7731736 AAATTAAATTAAAATAACA
1 AAATCAAAGTAAAATAACA
7731755 AGTAAATAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (21 bp):
AAATCAAAGTAAAATAACATG
Found at i:7733618 original size:36 final size:37
Alignment explanation
Indices: 7733578--7733667 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 37
7733568 AAATAGGCGC
** * *
7733578 TTTGAAACTTTGGAAATGGCTCCC-CTAATCAGAAGT
1 TTTGAAACTTTAAAAATGGCTCCCTATAAACAGAAGT
*
7733614 TTTGAAACTTTAAAAATGGCTCCCTATAAACAGAGGT
1 TTTGAAACTTTAAAAATGGCTCCCTATAAACAGAAGT
*
7733651 TTTGAAATTTTAAAAAT
1 TTTGAAACTTTAAAAAT
7733668 TTAAAAGGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 22 0.47
37 25 0.53
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (37 bp):
TTTGAAACTTTAAAAATGGCTCCCTATAAACAGAAGT
Found at i:7733976 original size:22 final size:22
Alignment explanation
Indices: 7733911--7733976 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
7733901 CTTTTGCCCA
* *
7733911 AAGGTCTTGGAAATTATGCTCG
1 AAGGTCTTAGAAATTATGCTTG
7733933 AAGGTCTTAGAAATTATGCTTG
1 AAGGTCTTAGAAATTATGCTTG
*
7733955 AAGGTCTTA-AAGATTATCCTTG
1 AAGGTCTTAGAA-ATTATGCTTG
7733977 GGGGTTTTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 2 0.05
22 38 0.95
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (22 bp):
AAGGTCTTAGAAATTATGCTTG
Found at i:7734628 original size:12 final size:11
Alignment explanation
Indices: 7734611--7734649 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
7734601 CAAATCTTCA
7734611 TTTTTTGTATTT
1 TTTTTTGT-TTT
7734623 TTTTTTG-TTT
1 TTTTTTGTTTT
*
7734633 TTTTTGGTTTT
1 TTTTTTGTTTT
7734644 TTTTTT
1 TTTTTT
7734650 TACTTTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.38
11 8 0.33
12 7 0.29
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:7739835 original size:143 final size:143
Alignment explanation
Indices: 7739435--7739837 Score: 415
Period size: 143 Copynumber: 2.8 Consensus size: 143
7739425 TTGTACTAGG
* * * * * *
7739435 AAAAATGTGAAATTACCAAAATATC-CCAATATGGGTATTTTTGTAATTTGGTTTTCTGAGCTTG
1 AAAAATGTAAAATTATCAAAATA-CATCTATATGGGTATTTTTGTAATTTGATCTTCTGAGCTTG
* *
7739499 AATTTTCATGAAA-TTTTTATATCTTAATTTAAAAATATTTCATGATTTTTGGTGCATTTGAAAT
65 AATTTTCATGAAACTTTTTAAATCTTAATTTTAAAATATTTCATGATTTTTGGTGCATTTGAAAT
* **
7739563 CACAACTATACCTTG
130 CACAAC-AAACCTCA
* * * * * *
7739578 AAAAGTGTAAAATTATCAAAATACATCTATAAGAGTATTTTTATAATTT-ATCTTTTTCGAGCTC
1 AAAAATGTAAAATTATCAAAATACATCTATATGGGTATTTTTGTAATTTGATC-TTCT-GAGCTT
* * * **
7739642 GAATTTTCATGAAACTGTTCACATCTTAATTTTGTAATATTTCATGATTTTTGGTGCATTTGAAA
64 GAATTTTCATGAAACTTTTTAAATCTTAATTTTAAAATATTTCATGATTTTTGGTGCATTTGAAA
*
7739707 TCATAGA-AAACCTCA
129 TCACA-ACAAACCTCA
* * * * *
7739722 AAAAATGTAAAATTATTAAAATACCAT-TATGTGGGTATTTTCGTAATTTGACCTTCATGAGGTT
1 AAAAATGTAAAATTATCAAAATA-CATCTATATGGGTATTTTTGTAATTTGATCTTC-TGAGCTT
* *
7739786 G-ATTTTCATGAAACTTTTTAAAT-TTAAATTTTACAATATTTCATCATTTTTG
64 GAATTTTCATGAAACTTTTTAAATCTT-AATTTTAAAATATTTCATGATTTTTG
7739838 TGTTTTAAAA
Statistics
Matches: 212, Mismatches: 39, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
142 4 0.02
143 84 0.40
144 69 0.33
145 54 0.25
146 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (143 bp):
AAAAATGTAAAATTATCAAAATACATCTATATGGGTATTTTTGTAATTTGATCTTCTGAGCTTGA
ATTTTCATGAAACTTTTTAAATCTTAATTTTAAAATATTTCATGATTTTTGGTGCATTTGAAATC
ACAACAAACCTCA
Found at i:7754011 original size:18 final size:18
Alignment explanation
Indices: 7753988--7754030 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
7753978 AACAAAGTAT
* *
7753988 AAAAAAAACAAACAAACAA
1 AAAAAAAATAAA-ACACAA
7754007 AAAAAAAATAAAACACAA
1 AAAAAAAATAAAACACAA
7754025 AAAAAA
1 AAAAAA
7754031 GGGAAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (18 bp):
AAAAAAAATAAAACACAA
Found at i:7754020 original size:16 final size:16
Alignment explanation
Indices: 7753988--7754030 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
7753978 AACAAAGTAT
7753988 AAAAAAAACAAACAAAC
1 AAAAAAAA-AAACAAAC
7754005 AAAAAAAAAATA-AAAC
1 AAAAAAAAAA-ACAAAC
7754021 ACAAAAAAAA
1 A-AAAAAAAA
7754031 GGGAAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAACAAAC
Found at i:7754206 original size:11 final size:11
Alignment explanation
Indices: 7754184--7754232 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
7754174 ATGGTTATTT
7754184 AAAAAAAT-AA
1 AAAAAAATAAA
*
7754194 AATAAAATAAA
1 AAAAAAATAAA
* *
7754205 AACAAAACAAA
1 AAAAAAATAAA
7754216 AACAAAAATAAA
1 AA-AAAAATAAA
7754228 AAAAA
1 AAAAA
7754233 GAAATGATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 7 0.22
11 16 0.50
12 9 0.28
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:7754796 original size:37 final size:36
Alignment explanation
Indices: 7754746--7754933 Score: 132
Period size: 37 Copynumber: 5.1 Consensus size: 36
7754736 TTAAAATTTC
7754746 AAAGTTTCAAAGCCTTTGTATGGGAGGAGCCATTTTA
1 AAAGTTTCAAAGCCTTTGTATGGG-GGAGCCATTTTA
* * *
7754783 AAAGTTTCAAAGCCTTGGCT-TGAGGGAAGCTATTTTA
1 AAAGTTTCAAAGCCTTTG-TATG-GGGGAGCCATTTTA
** * * * * * * *
7754820 AAAGTTTTGAAGCCTCTATTTGAGAGAAGCCTTTTTC
1 AAAGTTTCAAAGCCTTTGTATG-GGGGAGCCATTTTA
*
7754857 AAAGTTTCAAAGCTCTATT-TA-GGGGGAGCTATTTTCA
1 AAAGTTTCAAAGC-CT-TTGTATGGGGGAGCCATTTT-A
* *
7754894 AAA-TTTCAAAGCCTCTGTTTGGGGGGAGCCATTTTGA
1 AAAGTTTCAAAGCCTTTGTAT-GGGGGAGCCATTTT-A
7754931 AAA
1 AAA
7754934 CAAAAAAAAA
Statistics
Matches: 117, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
34 1 0.01
35 3 0.03
36 19 0.16
37 87 0.74
38 6 0.05
39 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (36 bp):
AAAGTTTCAAAGCCTTTGTATGGGGGAGCCATTTTA
Found at i:7755398 original size:17 final size:16
Alignment explanation
Indices: 7755376--7755419 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
7755366 TATAAAGGTA
7755376 TTTTGATAATTTGATTT
1 TTTTGA-AATTTGATTT
* *
7755393 TTTTGAACTTGGATTT
1 TTTTGAAATTTGATTT
*
7755409 TTATGAAATTT
1 TTTTGAAATTT
7755420 TTTAGATCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (16 bp):
TTTTGAAATTTGATTT
Found at i:7755623 original size:139 final size:143
Alignment explanation
Indices: 7755405--7755738 Score: 365
Period size: 139 Copynumber: 2.3 Consensus size: 143
7755395 TTGAACTTGG
* * * * * *
7755405 ATTTTTATGAAATTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTTGTGTATTTGAAATC
1 ATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATAATTTTTAGTGCATTTGAAATC
* * * *
7755470 ACAACCGTAGCTTAAAAAATGTAAAATTA-TCAAA-ATACC-TAG-G-TATTTTTATAATTT-AT
66 ACAACAGTACCTTAAAAAATATAAAATTACTCAAACA-ACCTTAGTGATATTTTCATAATTTGA-
*
7755529 CCTTCTAGAGCTCAA
129 CCTTCTAGAGCACAA
7755544 ATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATAATTTTTAGTGCATTTGAAATC
1 ATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATAATTTTTAGTGCATTTGAAATC
* ** * * * *
7755609 ATAGTAGTACCTTAAGAAATATGAAATTACTCAAACACCCTTGTAGTGATATTTTCGTAATTTGA
66 ACAACAGTACCTTAAAAAATATAAAATTACTCAAACAACC-T-TAGTGATATTTTCATAATTTGA
* * *
7755674 CCTTTTCGAGCACAG
129 CCTTCTAGAGCACAA
* * * *
7755689 ATTTTCTTGAAACTTTTCAGATTTTAATTTTATAATATTTCATTATTTTT
1 ATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATAATTTTT
7755739 GGTATTTTAA
Statistics
Matches: 162, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
139 80 0.49
140 7 0.04
141 1 0.01
143 3 0.02
144 1 0.01
145 69 0.43
146 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (143 bp):
ATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATAATTTTTAGTGCATTTGAAATC
ACAACAGTACCTTAAAAAATATAAAATTACTCAAACAACCTTAGTGATATTTTCATAATTTGACC
TTCTAGAGCACAA
Found at i:7756319 original size:24 final size:25
Alignment explanation
Indices: 7756292--7756342 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
7756282 AAAGGAAAAT
*
7756292 GGATAAAGCTACCAAAAG-AGAAAG
1 GGATAAAGCAACCAAAAGTAGAAAG
* * *
7756316 GGATGAAGCAAGCAAAGGTAGAAAG
1 GGATAAAGCAACCAAAAGTAGAAAG
7756341 GG
1 GG
7756343 TTTCAAGCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.49, C:0.10, G:0.33, T:0.08
Consensus pattern (25 bp):
GGATAAAGCAACCAAAAGTAGAAAG
Found at i:7758934 original size:9 final size:9
Alignment explanation
Indices: 7758920--7758945 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7758910 TAATAAATTC
7758920 AAAAGAGCT
1 AAAAGAGCT
7758929 AAAAGAGCT
1 AAAAGAGCT
7758938 AAAAGAGC
1 AAAAGAGC
7758946 ACTCCAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.23, T:0.08
Consensus pattern (9 bp):
AAAAGAGCT
Found at i:7761242 original size:3 final size:3
Alignment explanation
Indices: 7761228--7761288 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
7761218 TATTTTCAAG
* * * * * * * *
7761228 ATA ATA ACA ATA ATA ATA GTA ACA ACA ACA ATA ACA ACA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7761276 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
7761289 CTTACACAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.11, G:0.02, T:0.21
Consensus pattern (3 bp):
ATA
Found at i:7763201 original size:20 final size:21
Alignment explanation
Indices: 7763176--7763227 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
7763166 TTGGTGATAT
7763176 GAGAAAAACAAAG-A-GAAAGA
1 GAGAAAAA-AAAGAAGGAAAGA
*
7763196 GAGAAAGAAAAGAAGGAAAGA
1 GAGAAAAAAAAGAAGGAAAGA
7763217 -AGAAAATAAAA
1 GAGAAAA-AAAA
7763228 TTTTAAGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 4 0.15
20 13 0.48
21 10 0.37
ACGTcount: A:0.71, C:0.02, G:0.25, T:0.02
Consensus pattern (21 bp):
GAGAAAAAAAAGAAGGAAAGA
Found at i:7767230 original size:12 final size:12
Alignment explanation
Indices: 7767198--7767236 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
7767188 TAATTTAGCA
*
7767198 ACAACTTTTCAC
1 ACAAATTTTCAC
7767210 TAGCAAATTTTCAC
1 -A-CAAATTTTCAC
7767224 ACAAATTTTCAC
1 ACAAATTTTCAC
7767236 A
1 A
7767237 ATACACAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 12 0.50
13 2 0.08
14 10 0.42
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (12 bp):
ACAAATTTTCAC
Found at i:7767583 original size:18 final size:18
Alignment explanation
Indices: 7767560--7767594 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7767550 AATAAATTGT
* *
7767560 CTTAAAGAAAATTAAAAA
1 CTTAAAAAAAAATAAAAA
7767578 CTTAAAAAAAAATAAAA
1 CTTAAAAAAAAATAAAA
7767595 GAAAGACATG
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:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (18 bp):
CTTAAAAAAAAATAAAAA
Found at i:7767901 original size:12 final size:12
Alignment explanation
Indices: 7767880--7767920 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
7767870 AGAATGACCT
*
7767880 TCTTGAGGAATA
1 TCTTGTGGAATA
7767892 TCTTGTGGAACT-
1 TCTTGTGGAA-TA
7767904 TCTTGTGGAATA
1 TCTTGTGGAATA
7767916 TCTTG
1 TCTTG
7767921 AATCTCATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (12 bp):
TCTTGTGGAATA
Found at i:7776160 original size:35 final size:36
Alignment explanation
Indices: 7776085--7776164 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 36
7776075 TAGAAATATC
* *
7776085 TTTTAATATGTTAGTAAGATTTTTTGTCAAAAATTATT
1 TTTTAATATGTTAGTAAGAGTTTATG--AAAAATTATT
*
7776123 TTTTAATATGTTAGTAGGAGTTTATG-AAAATTATT
1 TTTTAATATGTTAGTAAGAGTTTATGAAAAATTATT
7776158 TTTTAAT
1 TTTTAAT
7776165 TTTTAAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 16 0.41
38 23 0.59
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (36 bp):
TTTTAATATGTTAGTAAGAGTTTATGAAAAATTATT
Found at i:7776226 original size:12 final size:13
Alignment explanation
Indices: 7776197--7776221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7776187 AAAATAAACT
7776197 AAAATTATCATGA
1 AAAATTATCATGA
7776210 AAAATTATCATG
1 AAAATTATCATG
7776222 CAAATGATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
AAAATTATCATGA
Found at i:7776252 original size:19 final size:19
Alignment explanation
Indices: 7776228--7776366 Score: 69
Period size: 19 Copynumber: 7.3 Consensus size: 19
7776218 CATGCAAATG
7776228 ATGCAATAATATAAATATC
1 ATGCAATAATATAAATATC
*
7776247 ATGCAATAATA-ATATAATC
1 ATGCAATAATATAAAT-ATC
*
7776266 ATGCAAATACTAATAAATAT-
1 ATGC-AATAAT-ATAAATATC
* *
7776286 AT-TAATAATCATGCAATGATC
1 ATGCAATAAT-AT-AAAT-ATC
*
7776307 AT--AATCATAT-AATAT-
1 ATGCAATAATATAAATATC
* *
7776322 AT-CATATAATAAAAAAATC
1 ATGCA-ATAATATAAATATC
**
7776341 ATATAATAATATAAAATATC
1 ATGCAATAATAT-AAATATC
7776361 ATGCAA
1 ATGCAA
7776367 AAAAGTTTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 8 0.09
18 14 0.15
19 31 0.34
20 25 0.27
21 5 0.05
22 3 0.03
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (19 bp):
ATGCAATAATATAAATATC
Found at i:7776444 original size:17 final size:17
Alignment explanation
Indices: 7776416--7776458 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7776406 TTAATCACAC
7776416 AATAATAAAATAATA-AAA
1 AATAA-AAAATAA-AGAAA
*
7776434 AATAAAAAATAAAGGAA
1 AATAAAAAATAAAGAAA
7776451 AATAAAAA
1 AATAAAAA
7776459 TAGAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 17 0.74
18 5 0.22
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AATAAAAAATAAAGAAA
Found at i:7776444 original size:22 final size:22
Alignment explanation
Indices: 7776419--7776478 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
7776409 ATCACACAAT
7776419 AATAAAATAATAAAAAATAAAA
1 AATAAAATAATAAAAAATAAAA
* *
7776441 AATAAAGGAAAAT-AAAAATAGAA
1 AATAAA--ATAATAAAAAATAAAA
*
7776464 AACAAAATAAATAAA
1 AATAAAAT-AATAAA
7776479 GATCAAACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 1 0.03
22 9 0.30
23 16 0.53
24 4 0.13
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (22 bp):
AATAAAATAATAAAAAATAAAA
Found at i:7777999 original size:18 final size:18
Alignment explanation
Indices: 7777976--7778019 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
7777966 GTTTTGATTC
7777976 TAATAAATC-ATAATTTAA
1 TAATAAATCAAT-ATTTAA
* *
7777994 TAATAAATTAATATTTAG
1 TAATAAATCAATATTTAA
7778012 TAATAAAT
1 TAATAAAT
7778020 TACTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TAATAAATCAATATTTAA
Found at i:7778042 original size:22 final size:22
Alignment explanation
Indices: 7778015--7778083 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
7778005 TATTTAGTAA
*
7778015 TAAATTACTAAAAATATAATAG
1 TAAATTAATAAAAATATAATAG
* *
7778037 TAAATTATTAATAATATAATCA-
1 TAAATTAATAAAAATATAAT-AG
* * *
7778059 TAAATCAATAAGAATTTAATAG
1 TAAATTAATAAAAATATAATAG
7778081 TAA
1 TAA
7778084 TTTAGCTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 37 0.95
23 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
TAAATTAATAAAAATATAATAG
Found at i:7778127 original size:11 final size:11
Alignment explanation
Indices: 7778095--7778172 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
7778085 TTAGCTATCC
*
7778095 ATTAATAATTT
1 ATTAATAAATT
* *
7778106 TTTAGTAAATT
1 ATTAATAAATT
7778117 ATTAATAAATT
1 ATTAATAAATT
* *
7778128 AGTAGT-AATT
1 ATTAATAAATT
7778138 CAGTTAA-AAATT
1 -A-TTAATAAATT
7778150 -TATAATAAATT
1 AT-TAATAAATT
*
7778161 TTTAATAAATT
1 ATTAATAAATT
7778172 A
1 A
7778173 ATGGTAATCA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 1 0.02
10 7 0.14
11 36 0.71
12 7 0.14
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (11 bp):
ATTAATAAATT
Found at i:7778526 original size:9 final size:9
Alignment explanation
Indices: 7778514--7778574 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
7778504 GAGAAATCTA
7778514 AAAAATTTT
1 AAAAATTTT
7778523 AAAAAATATTT
1 -AAAAAT-TTT
*
7778534 AAAAAATTT
1 AAAAATTTT
* *
7778543 AAGAATTAT
1 AAAAATTTT
7778552 AAAAATGTTT
1 AAAAAT-TTT
*
7778562 -TAAATTTT
1 AAAAATTTT
7778570 AAAAA
1 AAAAA
7778575 AATCTTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
8 3 0.08
9 21 0.52
10 13 0.32
11 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:7778534 original size:11 final size:10
Alignment explanation
Indices: 7778512--7778542 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
7778502 ATGAGAAATC
7778512 TAAAAAATTT
1 TAAAAAATTT
7778522 TAAAAAATATT
1 TAAAAAAT-TT
7778533 TAAAAAATTT
1 TAAAAAATTT
7778543 AAGAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAAAAATTT
Found at i:7778759 original size:28 final size:27
Alignment explanation
Indices: 7778693--7778760 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
7778683 CAAATTTTTA
7778693 AAAAATT-TAAAAAAAAAAAAGAACTT
1 AAAAATTATAAAAAAAAAAAAGAACTT
* *
7778719 AAAAATTACAAAAAAAAAAAAGATCTT
1 AAAAATTATAAAAAAAAAAAAGAACTT
*
7778746 AAAAGTTTATAAAAA
1 AAAA-ATTATAAAAA
7778761 TATGGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 7 0.19
27 21 0.58
28 8 0.22
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAAATTATAAAAAAAAAAAAGAACTT
Found at i:7778866 original size:21 final size:21
Alignment explanation
Indices: 7778821--7778869 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7778811 TAATAAAAAT
7778821 AAAATTT-TCATAAAATTCAA
1 AAAATTTATCATAAAATTCAA
7778841 AAAATTTATCA-AAAACTTCAA
1 AAAATTTATCATAAAA-TTCAA
*
7778862 CAAATTTA
1 AAAATTTA
7778870 AAATATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTTATCATAAAATTCAA
Found at i:7779136 original size:18 final size:18
Alignment explanation
Indices: 7779101--7779145 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
7779091 AATTTGAAAT
*
7779101 TATTTAATATTGTAAAAA
1 TATTTAAAATTGTAAAAA
* *
7779119 TATTTAAAATTTTCAAAA
1 TATTTAAAATTGTAAAAA
*
7779137 TTTTTAAAA
1 TATTTAAAA
7779146 AATATTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TATTTAAAATTGTAAAAA
Found at i:7779386 original size:11 final size:11
Alignment explanation
Indices: 7779362--7779432 Score: 51
Period size: 10 Copynumber: 6.6 Consensus size: 11
7779352 CTCTTTAGAA
*
7779362 TTTTTGAAAA-
1 TTTTTAAAAAT
*
7779372 TTTTTAAAACT
1 TTTTTAAAAAT
7779383 TTTTTAAAAA-
1 TTTTTAAAAAT
*
7779393 TTTTCAAAAA-
1 TTTTTAAAAAT
*
7779403 -TTTTAAATAT
1 TTTTTAAAAAT
*
7779413 ATTTTTAAAATT
1 -TTTTTAAAAAT
7779425 GTTTTTAA
1 -TTTTTAA
7779433 GTTTTTTAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 7 0.15
10 17 0.35
11 9 0.19
12 15 0.31
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (11 bp):
TTTTTAAAAAT
Found at i:7779582 original size:17 final size:18
Alignment explanation
Indices: 7779539--7779582 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
7779529 TTTTAAATTT
*
7779539 TTTAAAGTTTAAAAAAAA
1 TTTAAAATTTAAAAAAAA
*
7779557 TTT-AGATTT-AAAAAAA
1 TTTAAAATTTAAAAAAAA
7779573 TTTAAAATTT
1 TTTAAAATTT
7779583 GTTTAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 10 0.45
17 9 0.41
18 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTAAAATTTAAAAAAAA
Found at i:7779613 original size:21 final size:20
Alignment explanation
Indices: 7779584--7779636 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
7779574 TTAAAATTTG
*
7779584 TTTAGATTTTTTTTAGAATCT
1 TTTAAATTTTTTTTAGAAT-T
* *
7779605 TTTGAATTTTTTTTTGAATT
1 TTTAAATTTTTTTTAGAATT
7779625 TTTAAATATTTT
1 TTTAAAT-TTTT
7779637 AGAAAGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (20 bp):
TTTAAATTTTTTTTAGAATT
Found at i:7779646 original size:29 final size:28
Alignment explanation
Indices: 7779614--7779691 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
7779604 TTTTGAATTT
*
7779614 TTTTTTGAATTTTTAAATATTTTAGAAA
1 TTTTTTGAATTTTTAAAAATTTTAGAAA
** * *
7779642 GTTTTAAGAATTTTTAAAAATTTTGGGAA
1 -TTTTTTGAATTTTTAAAAATTTTAGAAA
7779671 TTTTTTAGAACTTTTTAAAAA
1 TTTTTT-GAA-TTTTTAAAAA
7779692 AAGTGTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 4 0.10
29 26 0.65
30 10 0.25
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.51
Consensus pattern (28 bp):
TTTTTTGAATTTTTAAAAATTTTAGAAA
Found at i:7779744 original size:20 final size:20
Alignment explanation
Indices: 7779720--7779777 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
7779710 AAGTTTTAAG
*
7779720 ATTTTT-TAATTTTTTAAAA
1 ATTTTTATAATTTTTGAAAA
7779739 ATTTTTATAATTTTTGAAAA
1 ATTTTTATAATTTTTGAAAA
* *
7779759 ATTTTAAAAAATTTTTGAA
1 ATTTT-TATAATTTTTGAA
7779778 TTTATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 6 0.18
20 17 0.50
21 11 0.32
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTTTTATAATTTTTGAAAA
Found at i:7779763 original size:10 final size:10
Alignment explanation
Indices: 7779621--7779774 Score: 63
Period size: 10 Copynumber: 15.7 Consensus size: 10
7779611 TTTTTTTTTG
7779621 AATTTTTAAA
1 AATTTTTAAA
* *
7779631 TA-TTTTAGA
1 AATTTTTAAA
* *
7779640 AAGTTTTAAG
1 AATTTTTAAA
7779650 AATTTTTAAA
1 AATTTTTAAA
***
7779660 AATTTTGGGA
1 AATTTTTAAA
* *
7779670 ATTTTTTAGA
1 AATTTTTAAA
*
7779680 ACTTTTTAAAAA
1 AATTTTT--AAA
7779692 AAGTGTTTT---
1 AA-T-TTTTAAA
7779701 AA-TTTTAAA
1 AATTTTTAAA
*
7779710 AAGTTTT-AA
1 AATTTTTAAA
* *
7779719 GATTTTT-TA
1 AATTTTTAAA
*
7779728 ATTTTTTAAA
1 AATTTTTAAA
*
7779738 AATTTTT-AT
1 AATTTTTAAA
7779747 AATTTTTGAAA
1 AATTTTT-AAA
*
7779758 AATTTTAAAA
1 AATTTTTAAA
7779768 AATTTTT
1 AATTTTT
7779775 GAATTTATTT
Statistics
Matches: 105, Mismatches: 27, Indels: 24
0.67 0.17 0.15
Matches are distributed among these distances:
6 4 0.04
9 32 0.30
10 54 0.51
11 7 0.07
12 3 0.03
13 1 0.01
14 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:7780378 original size:22 final size:22
Alignment explanation
Indices: 7780298--7780666 Score: 105
Period size: 22 Copynumber: 16.7 Consensus size: 22
7780288 AGCATATTTG
*
7780298 TAAATCAATGATAAGTTAATAAA
1 TAAATCAATGATAATTTAAT-AA
* * **
7780321 AAAAT-AAGGGATAATTTAATGG
1 TAAATCAA-TGATAATTTAATAA
* * * * *
7780343 TTAATTATTAATAATTTAATAC
1 TAAATCAATGATAATTTAATAA
7780365 TAAATCAATGATAATTTAATAA
1 TAAATCAATGATAATTTAATAA
* * *
7780387 TAAATTAGTGATAAATTAATAA
1 TAAATCAATGATAATTTAATAA
* *
7780409 TAAATCAGT-TTAAATTTAATAA
1 TAAATCAATGAT-AATTTAATAA
* * *
7780431 T-AATTAATTGATAAATTTCATAG
1 TAAATCAA-TGAT-AATTTAATAA
* * * *
7780454 TAAAT-TATAAATAATTT-GTAG
1 TAAATCAAT-GATAATTTAATAA
* *
7780475 TAAATCAATGAGAATTTAATAG
1 TAAATCAATGATAATTTAATAA
* * *
7780497 TTAATCATTCGA-AACTTAA-AA
1 TAAATCAAT-GATAATTTAATAA
* * * * *
7780518 GCAAGTTAAT-ATAACTGAGTAGTAA
1 -TAAATCAATGATAA-T--TTAATAA
* *
7780543 TAAA-CTATCGATAACTTAATAA
1 TAAATCAAT-GATAATTTAATAA
* ** * *
7780565 TTAATCGGTAATAACTTAATAA
1 TAAATCAATGATAATTTAATAA
7780587 TAAATC-ATGGATAATTTAAT-A
1 TAAATCAAT-GATAATTTAATAA
* * * *
7780608 TAAATTAGTGATAACTTGATAA
1 TAAATCAATGATAATTTAATAA
* *
7780630 TAAATC-ATAGTTAATTTAGTAA
1 TAAATCAAT-GATAATTTAATAA
**
7780652 TAAATCTGTGATAAT
1 TAAATCAATGATAAT
7780667 GTTGTAGTAA
Statistics
Matches: 248, Mismatches: 74, Indels: 49
0.67 0.20 0.13
Matches are distributed among these distances:
20 1 0.00
21 39 0.16
22 159 0.64
23 36 0.15
24 7 0.03
25 6 0.02
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (22 bp):
TAAATCAATGATAATTTAATAA
Found at i:7780411 original size:11 final size:11
Alignment explanation
Indices: 7780345--7780413 Score: 66
Period size: 11 Copynumber: 6.3 Consensus size: 11
7780335 TTTAATGGTT
*
7780345 AATTATTAATA
1 AATTAATAATA
* *
7780356 ATTTAATACTA
1 AATTAATAATA
* *
7780367 AATCAATGATA
1 AATTAATAATA
*
7780378 ATTTAATAATA
1 AATTAATAATA
* *
7780389 AATTAGTGATA
1 AATTAATAATA
7780400 AATTAATAATA
1 AATTAATAATA
7780411 AAT
1 AAT
7780414 CAGTTTAAAT
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 43 1.00
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (11 bp):
AATTAATAATA
Found at i:7780634 original size:43 final size:44
Alignment explanation
Indices: 7780552--7780665 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 44
7780542 ATAAACTATC
* * * * *
7780552 GATAACTTAATAATTAATCGGTAATAACTTAATAATAAATCATG
1 GATAATTTAATAATAAATCTGTGATAACTTAATAATAAATCATA
*
7780596 GATAATTTAAT-ATAAAT-TAGTGATAACTTGATAATAAATCATA
1 GATAATTTAATAATAAATCT-GTGATAACTTAATAATAAATCATA
* *
7780639 GTTAATTTAGTAATAAATCTGTGATAA
1 GATAATTTAATAATAAATCTGTGATAA
7780666 TGTTGTAGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 35 0.59
44 23 0.39
45 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (44 bp):
GATAATTTAATAATAAATCTGTGATAACTTAATAATAAATCATA
Found at i:7780730 original size:22 final size:22
Alignment explanation
Indices: 7780705--7780752 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7780695 TAAATTAATG
*
7780705 ATAACATAATAGTAAATACA-TA
1 ATAACATAATAGCAAAT-CATTA
*
7780727 ATAACTTAATAGCAAATCATTA
1 ATAACATAATAGCAAATCATTA
7780749 ATAA
1 ATAA
7780753 TTTAGATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAACATAATAGCAAATCATTA
Found at i:7780904 original size:22 final size:21
Alignment explanation
Indices: 7780879--7780928 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
7780869 AACTTTGTAG
7780879 TAAATTATTGATAAATTAATAA
1 TAAATTATTG-TAAATTAATAA
* * *
7780901 TAAATAAATTGTAACTTTATAA
1 TAAAT-TATTGTAAATTAATAA
7780923 TAAATT
1 TAAATT
7780929 GTCATGATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAATTATTGTAAATTAATAA
Found at i:7781503 original size:114 final size:113
Alignment explanation
Indices: 7781361--7781579 Score: 285
Period size: 114 Copynumber: 1.9 Consensus size: 113
7781351 CACTTCAAAA
* * *
7781361 TTTTGAAATTATTTTCGTTTTAAGAAAAAATGGATATTTTATCTTTTTCCTCAAAATTTTAAAAT
1 TTTTGAAATTATTTTCATTTTAAGAAAAAATGGATATTTTAACTTTTTCCTCAAAA-CTTAAAAT
** *
7781426 TATTTTTGTTTAAGAAAAAATTGATTTTTCAACTTTCTCCTTCAAACTT
65 TATTTTTACTTAAGAAAAAATTGATATTTCAACTTTCTCCTTCAAACTT
* * * * * *
7781475 TTTTGAATTTATTTTTATTTTATGAAAAAATTGATATTTTAACTTTTTTCTCAAAACTTGAAATT
1 TTTTGAAATTATTTTCATTTTAAGAAAAAATGGATATTTTAACTTTTTCCTCAAAACTTAAAATT
* ** *
7781540 GTTTTTACTTAAGAAAATTTTGATATTTCAACTTTTTCCT
66 ATTTTTACTTAAGAAAAAATTGATATTTCAACTTTCTCCT
7781580 AAGATTTTTG
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
113 40 0.45
114 49 0.55
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (113 bp):
TTTTGAAATTATTTTCATTTTAAGAAAAAATGGATATTTTAACTTTTTCCTCAAAACTTAAAATT
ATTTTTACTTAAGAAAAAATTGATATTTCAACTTTCTCCTTCAAACTT
Found at i:7781532 original size:59 final size:58
Alignment explanation
Indices: 7781361--7781600 Score: 207
Period size: 55 Copynumber: 4.3 Consensus size: 58
7781351 CACTTCAAAA
* * *
7781361 TTTTGAAATTATTTTCGTTTTAAGAAAAAATGGATATTTTATCTTTTTCCTCAAAA---
1 TTTTGAAATTATTTT-TTTTTAAGAAAAAATTGATATTTTAACTTTTTCCTCAAAACTT
* * *
7781417 TTTTAAAATTATTTTTGTTTAAGAAAAAATTGAT-TTTTCAACTTTCTCCTTC-AAACTT
1 TTTTGAAATTATTTTTTTTTAAGAAAAAATTGATATTTT-AACTTTTTCC-TCAAAACTT
* * *
7781475 TTTTGAATTTATTTTTATTTTATGAAAAAATTGATATTTTAACTTTTTTCTCAAAAC--
1 TTTTGAAATTATTTTT-TTTTAAGAAAAAATTGATATTTTAACTTTTTCCTCAAAACTT
* ** ** * *
7781532 --TTGAAATTGTTTTTACTTAAGAAAATTTTGATATTTCAACTTTTTCCT-AAGA--T
1 TTTTGAAATTATTTTTTTTTAAGAAAAAATTGATATTTTAACTTTTTCCTCAAAACTT
*
7781585 TTTTGAAATTCTTTTT
1 TTTTGAAATTATTTTT
7781601 ATTGTATTTT
Statistics
Matches: 150, Mismatches: 23, Indels: 23
0.77 0.12 0.12
Matches are distributed among these distances:
53 3 0.02
54 31 0.21
55 52 0.35
56 16 0.11
58 16 0.11
59 28 0.19
60 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (58 bp):
TTTTGAAATTATTTTTTTTTAAGAAAAAATTGATATTTTAACTTTTTCCTCAAAACTT
Found at i:7783551 original size:18 final size:17
Alignment explanation
Indices: 7783503--7783551 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
7783493 GAAGATTCGT
*
7783503 AAGATTTTAAAATTCAC
1 AAGATTTTAAATTTCAC
* *
7783520 AAGAATTGAAATTTCAC
1 AAGATTTTAAATTTCAC
7783537 AAGATTTTCAAATTT
1 AAGATTTT-AAATTT
7783552 GAAGGAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (17 bp):
AAGATTTTAAATTTCAC
Found at i:7783685 original size:18 final size:17
Alignment explanation
Indices: 7783652--7783697 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
7783642 AAGAATTTTT
* *
7783652 AAGATTTGTAACAATTCA
1 AAGATTTGCAAAAATT-A
7783670 AAGATTTGCAAAAATTA
1 AAGATTTGCAAAAATTA
*
7783687 TAGATTTGCAA
1 AAGATTTGCAA
7783698 GGTTATTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (17 bp):
AAGATTTGCAAAAATTA
Found at i:7783707 original size:88 final size:88
Alignment explanation
Indices: 7783538--7783710 Score: 222
Period size: 88 Copynumber: 2.0 Consensus size: 88
7783528 AAATTTCACA
* * * * *
7783538 AGATTTTCAAATTTGAAGGAATTTTTAAGTTTTGTAAGAATTCAAAAATTCACAAGAATTTTATA
1 AGATTTTCAAATTTGAAGGAATTTTTAAGATTTGTAACAATTCAAAAATTCACAAAAATTATAGA
*
7783603 TTCCCAAAGTTTTTAGATTCGTT
66 TTCCCAAAGTTATTAGATTCGTT
* **
7783626 AGATTTTCAAATTTGCAA-GAATTTTTAAGATTTGTAACAATTCAAAGATTTGCAAAAATTATAG
1 AGATTTTCAAATTTG-AAGGAATTTTTAAGATTTGTAACAATTCAAAAATTCACAAAAATTATAG
** *
7783690 ATTTGCAAGGTTATTAGATTC
65 ATTCCCAAAGTTATTAGATTC
7783711 ATAAGAATTG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 70 0.97
89 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (88 bp):
AGATTTTCAAATTTGAAGGAATTTTTAAGATTTGTAACAATTCAAAAATTCACAAAAATTATAGA
TTCCCAAAGTTATTAGATTCGTT
Found at i:7783757 original size:18 final size:18
Alignment explanation
Indices: 7783705--7783758 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
7783695 CAAGGTTATT
* *
7783705 AGATTCATAAGAATTGAA
1 AGATTCACAAGAATTCAA
* *
7783723 AGATTTACAAAAATTCAA
1 AGATTCACAAGAATTCAA
*
7783741 AGATTCACAAGATTTCAA
1 AGATTCACAAGAATTCAA
7783759 GTTTAAAAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (18 bp):
AGATTCACAAGAATTCAA
Found at i:7783972 original size:24 final size:24
Alignment explanation
Indices: 7783931--7784065 Score: 116
Period size: 24 Copynumber: 5.7 Consensus size: 24
7783921 TTCATATTAA
* *
7783931 AAAATATCTTAAATATTTACATTTG
1 AAAAT-TCTTAAAGATTCACATTTG
**
7783956 AAAAATT-TTAAAGATTTTCATTTG
1 -AAAATTCTTAAAGATTCACATTTG
* *
7783980 AAAATTCTCAAAGATTCAAATTTG
1 AAAATTCTTAAAGATTCACATTTG
* **
7784004 AAAATTCTTAAAAATTCACA-TCC
1 AAAATTCTTAAAGATTCACATTTG
**
7784027 AAAATTC--AAAGATTCACATTCA
1 AAAATTCTTAAAGATTCACATTTG
*
7784049 AAAATTCTTAGAGATTC
1 AAAATTCTTAAAGATTC
7784066 TCAACAAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
21 10 0.11
22 9 0.10
23 14 0.15
24 52 0.57
25 1 0.01
26 5 0.05
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (24 bp):
AAAATTCTTAAAGATTCACATTTG
Found at i:7784053 original size:45 final size:46
Alignment explanation
Indices: 7783987--7784092 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 46
7783977 TTGAAAATTC
* ** * *
7783987 TCAAAGATTCAAATTTGAAAATTCTTAAAAATTCACATC-CAAAAT
1 TCAAAGATTCACATTCAAAAATTCTTAAAAATTCACAACAAAAAAT
* * *
7784032 TCAAAGATTCACATTCAAAAATTCTTAGAGATTCTCAACAAAAAAT
1 TCAAAGATTCACATTCAAAAATTCTTAAAAATTCACAACAAAAAAT
*
7784078 TCAAAAATTCACATT
1 TCAAAGATTCACATT
7784093 TGAAGATTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
45 32 0.63
46 19 0.37
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.30
Consensus pattern (46 bp):
TCAAAGATTCACATTCAAAAATTCTTAAAAATTCACAACAAAAAAT
Found at i:7785081 original size:103 final size:103
Alignment explanation
Indices: 7784959--7785153 Score: 266
Period size: 103 Copynumber: 1.9 Consensus size: 103
7784949 TAGAAAAACT
* * ** * * **
7784959 TTTATTTATGAAAATAATTTATTCTCATAAATATCTTTCAATTTGTTGATAAGATTTTTTGTCAA
1 TTTATTTATGAAAACAATTTATTCTCAAAAATAAATTCCAATATGTTGATAAGATTTTTCATCAA
**
7785024 -AGATTATTCTTTAATATGTTGGTAAGATTGACAATTTA
66 GA-ATTATTCTCCAATATGTTGGTAAGATTGACAATTTA
* *
7785062 TTTATTTATGAAAACAATTTATTTTCAAAAATAAATTCCAATATGTTGGTAAGATTTTTCATCAA
1 TTTATTTATGAAAACAATTTATTCTCAAAAATAAATTCCAATATGTTGATAAGATTTTTCATCAA
7785127 GAATTATTCTCCAATATGTTGGTAAGA
66 GAATTATTCTCCAATATGTTGGTAAGA
7785154 CTTTAAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
103 78 0.99
104 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (103 bp):
TTTATTTATGAAAACAATTTATTCTCAAAAATAAATTCCAATATGTTGATAAGATTTTTCATCAA
GAATTATTCTCCAATATGTTGGTAAGATTGACAATTTA
Found at i:7785336 original size:19 final size:19
Alignment explanation
Indices: 7785312--7785370 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
7785302 AAAAAATCAT
7785312 CATGCAATAATATAATATA
1 CATGCAATAATATAATATA
*
7785331 CATGCAGTAATA-ACATA-A
1 CATGCAATAATATA-ATATA
*
7785349 TCATGCAATAATATAATTTA
1 -CATGCAATAATATAATATA
7785369 CA
1 CA
7785371 AATTATCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 2 0.06
19 29 0.88
20 2 0.06
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (19 bp):
CATGCAATAATATAATATA
Found at i:7786574 original size:23 final size:21
Alignment explanation
Indices: 7786527--7786582 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
7786517 CTTTCTTTTC
7786527 TTTTTAC-CTTTTTTTTTCTA
1 TTTTTACACTTTTTTTTTCTA
* *
7786547 CTTTTGACACTTTTTTTTTACTGT
1 -TTTTTACACTTTTTTTTT-CT-A
7786571 TTTTTACA-TTTT
1 TTTTTACACTTTT
7786583 CTCTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.21
22 14 0.48
23 9 0.31
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTACACTTTTTTTTTCTA
Found at i:7786582 original size:22 final size:21
Alignment explanation
Indices: 7786526--7786598 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 21
7786516 GCTTTCTTTT
*
7786526 CTTTTTACCTTTTTTTTTCTA
1 CTTTTTACATTTTTTTTTCTA
* *
7786547 CTTTTGACACTTTTTTTTTACTG
1 CTTTTTACA-TTTTTTTTT-CTA
* *
7786570 TTTTTTACATTTTCTCTTTTTTA
1 CTTTTTACATTTT-T-TTTTCTA
7786593 CTTTTT
1 CTTTTT
7786599 TTTACCAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
21 7 0.17
22 13 0.32
23 16 0.40
24 4 0.10
ACGTcount: A:0.11, C:0.16, G:0.03, T:0.70
Consensus pattern (21 bp):
CTTTTTACATTTTTTTTTCTA
Found at i:7787771 original size:42 final size:45
Alignment explanation
Indices: 7787701--7787814 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 45
7787691 AAATTCAAGG
** * * * *
7787701 ATTCTCATTTGAAAATTTTAAAGATTCACA-CCCAAAGTT-AAAG
1 ATTCTCATTAAAAAAATTTAAGGATTCACATCCAAAAGTTCAAAA
* *
7787744 ATTTTCATT-AAAAAATTTAAGGATTCACATCCAAAATTTCAAAA
1 ATTCTCATTAAAAAAATTTAAGGATTCACATCCAAAAGTTCAAAA
*
7787788 ATTCTCATTCAAAAAAATTTCAGGATT
1 ATTCTCATT-AAAAAAATTTAAGGATT
7787815 TTACATATAG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 17 0.29
43 15 0.26
44 11 0.19
46 15 0.26
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (45 bp):
ATTCTCATTAAAAAAATTTAAGGATTCACATCCAAAAGTTCAAAA
Found at i:7791159 original size:43 final size:43
Alignment explanation
Indices: 7791111--7791198 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
7791101 ATTTTAACCA
7791111 TAACTTTATTCAATATTTGGATGTGTCTTTGTGCGTCAAAAAG
1 TAACTTTATTCAATATTTGGATGTGTCTTTGTGCGTCAAAAAG
7791154 TAACTTTATTCAATATTTGGATGTGTCTTTGTGCGTCAAAAAG
1 TAACTTTATTCAATATTTGGATGTGTCTTTGTGCGTCAAAAAG
7791197 TA
1 TA
7791199 CCTCATCCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.42
Consensus pattern (43 bp):
TAACTTTATTCAATATTTGGATGTGTCTTTGTGCGTCAAAAAG
Found at i:7792772 original size:103 final size:102
Alignment explanation
Indices: 7792565--7792760 Score: 245
Period size: 102 Copynumber: 1.9 Consensus size: 102
7792555 TAGAAAAACT
* * *
7792565 TTTATTTATGAAAACAAGTTATTCTTAGAAATATCCTTCAATCTGTTGGTAGATTTTCTGTCAAA
1 TTTATTTATGAAAACAAGTTATTCTTAAAAATATCATTCAATATGTTGGTAGATTTTCTGTCAAA
*
7792630 GATTATCCTCCAATATGTTCATAAGATTGAAAATTTA
66 GATTATCCTCCAATATGTTCATAAGATTGAAAATATA
* * *
7792667 TTTATTTGTGAAAACAATTTATT-TTCAAAAATAT-ATTCCAATATGTTGGTAAGATTTTTTGTC
1 TTTATTTATGAAAACAAGTTATTCTT-AAAAATATCATT-CAATATGTTGGT-AGATTTTCTGTC
* * *
7792730 -AAGAATTATCCTTCAATATGTTGATAGGATT
63 AAAG-ATTATCCTCCAATATGTTCATAAGATT
7792761 TTAAAAATAT
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
101 4 0.05
102 42 0.52
103 35 0.43
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (102 bp):
TTTATTTATGAAAACAAGTTATTCTTAAAAATATCATTCAATATGTTGGTAGATTTTCTGTCAAA
GATTATCCTCCAATATGTTCATAAGATTGAAAATATA
Found at i:7792999 original size:17 final size:19
Alignment explanation
Indices: 7792963--7793021 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 19
7792953 TTTATAAATT
*
7792963 ATCATGCAATTACTTAATA
1 ATCATGCAATTACATAATA
7792982 ATCATGCAA-TA-ATAATA
1 ATCATGCAATTACATAATA
*
7792999 ATCAT--AATTAAATAAATA
1 ATCATGCAATTACAT-AATA
7793017 ATCAT
1 ATCAT
7793022 AAATAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 12 0.33
18 11 0.31
19 9 0.25
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (19 bp):
ATCATGCAATTACATAATA
Found at i:7793075 original size:3 final size:3
Alignment explanation
Indices: 7793067--7793131 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
7793057 TTTAATTAAC
*
7793067 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7793115 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
7793132 AACACCTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7794267 original size:20 final size:21
Alignment explanation
Indices: 7794239--7794277 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7794229 CTTTCTCTTT
*
7794239 TTTTTACCTTT-TTTTTTTAC
1 TTTTGACCTTTCTTTTTTTAC
7794259 TTTTGACCTTTCTTTTTTT
1 TTTTGACCTTTCTTTTTTT
7794278 TAACTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.74
Consensus pattern (21 bp):
TTTTGACCTTTCTTTTTTTAC
Found at i:7794273 original size:35 final size:35
Alignment explanation
Indices: 7794225--7794296 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 35
7794215 TTTTGGTTGC
* * *
7794225 TTGACTTTCTCTTTTTTTTACCTTTTTTTTTTACTT
1 TTGACCTTCTCTTTTTTTTAAC-TATTTTTTTACTT
7794261 TTGACCTT-TCTTTTTTTTAACTATTTTTTTACTT
1 TTGACCTTCTCTTTTTTTTAACTATTTTTTTACTT
7794295 TT
1 TT
7794297 TTACTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 14 0.42
35 12 0.36
36 7 0.21
ACGTcount: A:0.11, C:0.15, G:0.03, T:0.71
Consensus pattern (35 bp):
TTGACCTTCTCTTTTTTTTAACTATTTTTTTACTT
Found at i:7794367 original size:26 final size:25
Alignment explanation
Indices: 7794324--7794372 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
7794314 AAATAAATGA
7794324 CAAAATCAAAACTAAATTTAAAAAAT
1 CAAAATCAAAACTAAA-TTAAAAAAT
*
7794350 CAAAATC-AAATTACAATTAAAAA
1 CAAAATCAAAACTA-AATTAAAAA
7794373 TTTTGGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.22
Consensus pattern (25 bp):
CAAAATCAAAACTAAATTAAAAAAT
Found at i:7795313 original size:15 final size:15
Alignment explanation
Indices: 7795293--7795323 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7795283 TGAGTTTTAC
7795293 TTTTTTCTCCTTTTT
1 TTTTTTCTCCTTTTT
*
7795308 TTTTTTTTCCTTTTT
1 TTTTTTCTCCTTTTT
7795323 T
1 T
7795324 CACATCTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTCCTTTTT
Found at i:7800136 original size:25 final size:27
Alignment explanation
Indices: 7800094--7800151 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
7800084 TGATGAGAAA
** * *
7800094 TTTTTTTTTGTATTCTGA-CCCTTTTT
1 TTTTTTTTTGTAAACTGAGCCCCTATT
7800120 TTTTTTTTTG-AAACTGAGCCCCTATT
1 TTTTTTTTTGTAAACTGAGCCCCTATT
7800146 TTTTTT
1 TTTTTT
7800152 CTTGCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.12, C:0.16, G:0.09, T:0.64
Consensus pattern (27 bp):
TTTTTTTTTGTAAACTGAGCCCCTATT
Found at i:7800583 original size:9 final size:10
Alignment explanation
Indices: 7800571--7800611 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
7800561 GAGAGAAAAA
7800571 AAATAA-AAT
1 AAATAATAAT
7800580 AAATAATAAT
1 AAATAATAAT
7800590 -AATAATAAT
1 AAATAATAAT
*
7800599 AAA-AATAAA
1 AAATAATAAT
7800608 AAAT
1 AAAT
7800612 GGTGTTTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATAATAAT
Found at i:7800994 original size:49 final size:48
Alignment explanation
Indices: 7800827--7801259 Score: 318
Period size: 49 Copynumber: 8.6 Consensus size: 48
7800817 TAAAAGGTTA
* * * **
7800827 CTCTTAGCAGAGGCTCAATAACTTTAAAAATCTCATATCTTGAAAAGGGCTC
1 CTCTCAGCAAAGGCTCAACAACTTT-AAAAT-TTTTATCTTGAAAA--GCTC
* * * *
7800879 CTCTCAGTAGAGGCTTAACAACTTTAAAA--TTT-TCTTAAAAAAGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTTTTATCTT-GAAAAGCTC
* * *
7800925 TTCTCAACAAAGGCTCAACAATTTTAAAATTTTTATCTTGGAAAAGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTTTTATCTT-GAAAAGCTC
* * * * **
7800974 CTTTCAGTAAAGGCTTAACAACTTCAAAAATCTCATATCTTGAAAAGGGCTC
1 CTCTCAGCAAAGGCTCAACAACTT-TAAAAT-TTTTATCTTGAAAA--GCTC
* * * *
7801026 CTCTTAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGGAAAGGGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTTTTATCTT-GAAA-AGCTC
* * *
7801076 CTCTCAGCAAAGGCTTAACAACTTTAAAA-TCTCATCTTGAAAAGGGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTTTTATCTTGAAAA--GCTC
* * * *
7801125 ATCTCAACAAAAGCTCAACAACTTTAAAATTCTCT-TCTTGAAAAAGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATT-TTTATCTTG-AAAAGCTC
* *
7801174 CTCTCAGCAGAGGCTCAACAACTTTAAAATCTTTAAAATTTTATCTTGAAAAAGCTT
1 CTCTCAGCAAAGGCTCAACAACTTTAAAA----T----TTTTATCTTG-AAAAGCTC
*
7801231 CTCTCAGCAGAGGCTCAACAACTTTAAAA
1 CTCTCAGCAAAGGCTCAACAACTTTAAAA
7801260 ATCTCATCTA
Statistics
Matches: 307, Mismatches: 50, Indels: 43
0.77 0.12 0.11
Matches are distributed among these distances:
46 27 0.09
47 4 0.01
48 12 0.04
49 96 0.31
50 54 0.18
51 24 0.08
52 44 0.14
53 1 0.00
56 2 0.01
57 43 0.14
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (48 bp):
CTCTCAGCAAAGGCTCAACAACTTTAAAATTTTTATCTTGAAAAGCTC
Found at i:7801078 original size:50 final size:50
Alignment explanation
Indices: 7800827--7801203 Score: 385
Period size: 49 Copynumber: 7.6 Consensus size: 50
7800817 TAAAAGGTTA
* * * *
7800827 CTCTTAGCAGAGGCTCAATAACTTTAAAAATCTCATATCTTGAAAAGGGCTC
1 CTCTCAGCAAAGGCTCAACAACTTT-AAAAT-TCTTATCTTGAAAAGGGCTC
* * * **
7800879 CTCTCAGTAGAGGCTTAACAACTTTAAAA-T-TT-TCTT-AAAAAAGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAGGGCTC
* * * *
7800925 TTCTCAACAAAGGCTCAACAATTTTAAAATTTTTATCTTGGAAAA--GCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTCTTATCTT-GAAAAGGGCTC
* * * * *
7800974 CTTTCAGTAAAGGCTTAACAACTTCAAAAATCTCATATCTTGAAAAGGGCTC
1 CTCTCAGCAAAGGCTCAACAACTT-TAAAAT-TCTTATCTTGAAAAGGGCTC
* * *
7801026 CTCTTAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGGAAAGGGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAGGGCTC
* *
7801076 CTCTCAGCAAAGGCTTAACAACTTTAAAA-TCTCATCTTGAAAAGGGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAGGGCTC
* * * *
7801125 ATCTCAACAAAAGCTCAACAACTTTAAAATTCTCT-TCTTGAAAA-AGCTC
1 CTCTCAGCAAAGGCTCAACAACTTTAAAATTCT-TATCTTGAAAAGGGCTC
*
7801174 CTCTCAGCAGAGGCTCAACAACTTTAAAAT
1 CTCTCAGCAAAGGCTCAACAACTTTAAAAT
7801204 CTTTAAAATT
Statistics
Matches: 269, Mismatches: 45, Indels: 25
0.79 0.13 0.07
Matches are distributed among these distances:
46 31 0.12
47 5 0.02
48 3 0.01
49 100 0.37
50 66 0.25
51 20 0.07
52 44 0.16
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (50 bp):
CTCTCAGCAAAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAGGGCTC
Found at i:7801196 original size:200 final size:198
Alignment explanation
Indices: 7800827--7801268 Score: 532
Period size: 200 Copynumber: 2.2 Consensus size: 198
7800817 TAAAAGGTTA
* * * *
7800827 CTCTTAGCAGAGGCTCAATAACTTTAAAAATCTCATATCTTGAAAAGGGCTCCTCTCAGTAGAGG
1 CTCTTAGCAGAGGCTCAACAACTTT-AAAAT-TCTTATCTTGAAAAGGGCTCCTCTCAGCAAAGG
* * * *
7800892 CTTAACAACTTTAAAATTTTCTTAAAAAAGCTCTTCTCAACAAAGGCTCAACAATTTTAAAATTT
64 CTTAACAACTTTAAAATTATCTTAAAAAAGCTCATCTCAACAAAAGCTCAACAACTTTAAAATTT
* * * * * *
7800957 TTATCTTGGAAAAGCTCCTTTCAGTAAAGGCTTAACAACTTCAAAAATC-T-CA-TATCTTGAAA
129 CTATCTTGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTT-AAAAATCTTAAATTATCTTGAAA
*
7801019 AGGGCTC
193 A-AGCTC
*
7801026 CTCTTAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGGAAAGGGCTCCTCTCAGCAAAGGCT
1 CTCTTAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAGGGCTCCTCTCAGCAAAGGCT
**
7801091 TAACAACTTTAAAATCTCATCTTGAAAAGGGCTCATCTCAACAAAAGCTCAACAACTTTAAAATT
66 TAACAACTTTAAAAT-T-ATCTT-AAAAAAGCTCATCTCAACAAAAGCTCAACAACTTTAAAATT
* *
7801156 CTCT-TCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTTTAAAATTTTATCT
128 -TCTATCTTGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTAAAAATC-TT-AAA--TTATCT
*
7801220 TGAAAAAGCTT
188 TGAAAAAGCTC
* * *
7801231 CTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
1 CTCTTAGCAGAGGCTCAACAACTTTAAAATTCTTATCT
7801269 AGTTTTAAAT
Statistics
Matches: 208, Mismatches: 24, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
197 46 0.22
198 6 0.03
199 34 0.16
200 69 0.33
201 3 0.01
203 1 0.00
205 38 0.18
206 11 0.05
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (198 bp):
CTCTTAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAGGGCTCCTCTCAGCAAAGGCT
TAACAACTTTAAAATTATCTTAAAAAAGCTCATCTCAACAAAAGCTCAACAACTTTAAAATTTCT
ATCTTGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTAAAAATCTTAAATTATCTTGAAAAAG
CTC
Found at i:7801226 original size:57 final size:58
Alignment explanation
Indices: 7801146--7801259 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 58
7801136 AGCTCAACAA
7801146 CTTTAAAATTCTCTTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
1 CTTTAAAATTCTCTTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
*
7801204 CTTTAAAATT-T-TATCTTGAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAA
1 CTTTAAAATTCTCT-TCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
7801260 ATCTCATCTA
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
56 1 0.02
57 43 0.80
58 10 0.19
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (58 bp):
CTTTAAAATTCTCTTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
Found at i:7813673 original size:24 final size:23
Alignment explanation
Indices: 7813636--7813697 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
7813626 GAAATGAGGA
7813636 AAGAAAAAAGAAAAAAAAAGAAG
1 AAGAAAAAAGAAAAAAAAAGAAG
* * *
7813659 AAGAAAAACGTAAAAAACAG--G
1 AAGAAAAAAGAAAAAAAAAGAAG
*
7813680 AAGAAATAGAGAAAAAAA
1 AAGAAA-AAAGAAAAAAA
7813698 TTAAATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 7 0.22
22 8 0.25
23 17 0.53
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (23 bp):
AAGAAAAAAGAAAAAAAAAGAAG
Found at i:7813715 original size:3 final size:3
Alignment explanation
Indices: 7813709--7813743 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7813699 TAAATAAATA
7813709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7813744 ATAAAATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7817215 original size:58 final size:56
Alignment explanation
Indices: 7817153--7817435 Score: 227
Period size: 58 Copynumber: 5.0 Consensus size: 56
7817143 AAAATGATTA
* *
7817153 ATTTTAAGGAAAAATTAATATTTTAATTTTTTTTTTCAAATCTTTGAAATTACTTTTC
1 ATTTTAAGGAAAAATTAATATTTT-ATCTTTTTCTTCAAATCTTTGAAATTA-TTTTC
* ** **
7817211 ATTTTAAGAAAAAAATGGATATTTTATCTTTTTCTTCAAAAATTTGAAATTATTTTC
1 ATTTTAAG-GAAAAATTAATATTTTATCTTTTTCTTCAAATCTTTGAAATTATTTTC
* * * * * *
7817268 A-TTTAAGGAAAAATTGATATTTCAACTTTTTTCTCCAAACTTTTTTGAAATTATTTTT
1 ATTTTAAGGAAAAATTAATATTTTATC-TTTTTCTTCAAA--TCTTTGAAATTATTTTC
* * **
7817326 ATTTTAAAGAAAAATTAATATTCTATCTTTTTCTTCATTTC-TTGAAATTATCTTT-
1 ATTTTAAGGAAAAATTAATATTTTATCTTTTTCTTCAAATCTTTGAAATTAT-TTTC
* * * * * *
7817381 -TTGTATAA-GAAAATTTGATATTTCAACATTTTCTT-AATATTTTTGAAATTATTTT
1 ATT-T-TAAGGAAAAATTAATATTTTATCTTTTTCTTCAA-ATCTTTGAAATTATTTT
7817436 TATTATATTT
Statistics
Matches: 182, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
54 3 0.02
55 51 0.28
56 34 0.19
57 6 0.03
58 55 0.30
59 33 0.18
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (56 bp):
ATTTTAAGGAAAAATTAATATTTTATCTTTTTCTTCAAATCTTTGAAATTATTTTC
Done.