Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 34 of 79
Found at i:11634155 original size:2 final size:2
Alignment explanation
Indices: 11634148--11634177 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11634138 TATAAATGGG
11634148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11634178 TAGTGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11637466 original size:16 final size:16
Alignment explanation
Indices: 11637445--11637478 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
11637435 GAAAGAAAAG
11637445 TTAAATCATATTGAGT
1 TTAAATCATATTGAGT
11637461 TTAAATCATATTGAGT
1 TTAAATCATATTGAGT
11637477 TT
1 TT
11637479 GGGTTTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
TTAAATCATATTGAGT
Found at i:11638426 original size:8 final size:8
Alignment explanation
Indices: 11638423--11638453 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
11638413 CAAAAAATAC
11638423 AAAAAAAT
1 AAAAAAAT
11638431 AAAAAAAAT
1 -AAAAAAAT
11638440 AAAAAAAT
1 AAAAAAAT
11638448 AAAAAA
1 AAAAAA
11638454 TATTTTGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:11638427 original size:10 final size:9
Alignment explanation
Indices: 11638414--11638453 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
11638404 GAAAAAGTAC
11638414 AAAAAATACA
1 AAAAAATA-A
11638424 AAAAAATAA
1 AAAAAATAA
11638433 AAAAAAT-A
1 AAAAAATAA
11638441 AAAAAATAA
1 AAAAAATAA
11638450 AAAA
1 AAAA
11638454 TATTTTGTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
10 8 0.28
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:11638434 original size:17 final size:17
Alignment explanation
Indices: 11638414--11638455 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
11638404 GAAAAAGTAC
11638414 AAAAAATACAAAAAAAT
1 AAAAAATACAAAAAAAT
* *
11638431 AAAAAAAATAAAAAAAT
1 AAAAAATACAAAAAAAT
11638448 AAAAAATA
1 AAAAAATA
11638456 TTTTGTGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATACAAAAAAAT
Found at i:11642272 original size:18 final size:18
Alignment explanation
Indices: 11642226--11642272 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
11642216 ATTATTCTAA
*
11642226 TATTTGATTTA-TTATTT
1 TATTTTATTTATTTATTT
*
11642243 TATTTTAGTTATTTATTT
1 TATTTTATTTATTTATTT
11642261 TAATTTT-TTTAT
1 T-ATTTTATTTAT
11642273 CTGACTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTATTTATTTATTT
Found at i:11643550 original size:20 final size:20
Alignment explanation
Indices: 11643519--11643564 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11643509 ATTTAATAAA
* *
11643519 TAAAAATAAAAATCCCAAAAC
1 TAAAACTAAAAGT-CCAAAAC
*
11643540 TAAAACTAAAAGTCTAAAAC
1 TAAAACTAAAAGTCCAAAAC
11643560 TAAAA
1 TAAAA
11643565 ATCACGACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.65, C:0.15, G:0.02, T:0.17
Consensus pattern (20 bp):
TAAAACTAAAAGTCCAAAAC
Found at i:11644147 original size:17 final size:17
Alignment explanation
Indices: 11644125--11644158 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11644115 CAATAAAAAG
11644125 ATTTGCTTTACATAGGC
1 ATTTGCTTTACATAGGC
11644142 ATTTGCTTTACATAGGC
1 ATTTGCTTTACATAGGC
11644159 TTTTTGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (17 bp):
ATTTGCTTTACATAGGC
Found at i:11651387 original size:24 final size:24
Alignment explanation
Indices: 11651338--11651389 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11651328 AATCAAAGTC
* * *
11651338 AAATATATTATGCTAATATATGCT
1 AAATATATTATACTAATAAATACT
*
11651362 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
11651386 AAAT
1 AAAT
11651390 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11655764 original size:24 final size:24
Alignment explanation
Indices: 11655749--11655800 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
11655739 AATTAAAGTC
11655749 AAATATATTATGCTAATAAATACT
1 AAATATATTATGCTAATAAATACT
* *
11655773 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATACT
11655797 AAAT
1 AAAT
11655801 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATACT
Found at i:11658584 original size:27 final size:27
Alignment explanation
Indices: 11658528--11658584 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
11658518 TTCAATTATT
*
11658528 AAAAAATCTAGAAAAAATAAAAAGACA
1 AAAAAATCTAGAAAAAATAAAAAGAAA
* * *
11658555 AAAAAATTTTGAAGAAAAT-AAATGAAA
1 AAAAAATCTAGAA-AAAATAAAAAGAAA
11658582 AAA
1 AAA
11658585 GTGAAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.16
Consensus pattern (27 bp):
AAAAAATCTAGAAAAAATAAAAAGAAA
Found at i:11663585 original size:27 final size:27
Alignment explanation
Indices: 11663549--11664023 Score: 472
Period size: 27 Copynumber: 17.6 Consensus size: 27
11663539 CCCTAAAATA
* *
11663549 GGTATAATGATCGTAATACCCGC-ATAG
1 GGTAAAATGACCGTAATACCC-CTATAG
* *
11663576 GATAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTATAG
* * *
11663603 TGTAAAATAACCATAATA-CCCTCATAG
1 GGTAAAATGACCGTAATACCCCT-ATAG
**
11663630 GGTAAAATGATTGTAATACCCCTATAG
1 GGTAAAATGACCGTAATACCCCTATAG
* *
11663657 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTATAG
* *
11663684 GGT-AAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTATAG
* * * *
11663710 GGTAAAATAACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTATAG
* *
11663737 GGTAAAATGACCGTAATGCCCATATAG
1 GGTAAAATGACCGTAATACCCCTATAG
* * *
11663764 GGTAAAATGACCGTAATACCCTTGTAA
1 GGTAAAATGACCGTAATACCCCTATAG
* * **
11663791 GGTAAATTGACCGTAATGCCCCTGCAG
1 GGTAAAATGACCGTAATACCCCTATAG
* * * * *
11663818 GGTAAACTGACTGTAATAGCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTATAG
* * * *
11663845 GGTAAAATAATCGTAATACCTCTGTAG
1 GGTAAAATGACCGTAATACCCCTATAG
* * * *
11663872 GGTAAAATGACCATAATGCCCTTATAA
1 GGTAAAATGACCGTAATACCCCTATAG
* *
11663899 GGTAAAAT-ACCCGTAATACCCCTGTAA
1 GGTAAAATGA-CCGTAATACCCCTATAG
* *
11663926 GGTAAAATGACTGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTATAG
*
11663953 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTATAG
* *
11663980 GGTAAAATGACCATAATACCCCTATAA
1 GGTAAAATGACCGTAATACCCCTATAG
*
11664007 GGTAAAATGACTGTAAT
1 GGTAAAATGACCGTAAT
11664024 GCCTTTGAAG
Statistics
Matches: 373, Mismatches: 69, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 30 0.08
27 338 0.91
28 5 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTATAG
Found at i:11664120 original size:24 final size:24
Alignment explanation
Indices: 11664064--11664146 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
11664054 CTCGAGGTTA
* * * *
11664064 AATGATTGATTTGTTTGTG-GTTA
1 AATGACTGATTTGTCTGTGATTTG
11664087 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
*
11664111 TATGACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
11664135 AATGACTGATTT
1 AATGACTGATTT
11664147 TGAGCATGGC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 19 0.37
24 30 0.58
25 3 0.06
ACGTcount: A:0.20, C:0.06, G:0.25, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:11664360 original size:32 final size:32
Alignment explanation
Indices: 11664317--11664455 Score: 165
Period size: 32 Copynumber: 4.4 Consensus size: 32
11664307 GCTGCGATGC
*
11664317 TACTGATGGCTTTGTGTCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
11664349 TGCTGATGGCTTTGTGCCGGTCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
11664381 TACTGATGG-TTGTGTGCCGATCACATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATTACTGT
* *
11664413 TACTAATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
11664444 TACTTATGGCTT
1 TACTGATGGCTT
11664456 GTAGCCATTC
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
31 13 0.14
32 75 0.83
33 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:11664472 original size:22 final size:21
Alignment explanation
Indices: 11664447--11664508 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
11664437 ATTACTGTAC
*
11664447 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTAT
* * *
11664469 TTATAGCTTATAGCTATCCTAT
1 TTATGGCTT-TAGCCATTCTAT
*
11664491 TTACGGCTCTTAGCCATT
1 TTATGGCT-TTAGCCATT
11664509 TTGACTACTG
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTAT
Found at i:11669247 original size:11 final size:11
Alignment explanation
Indices: 11669231--11669257 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11669221 ATGAAATTCC
11669231 CTTAAAACTCT
1 CTTAAAACTCT
11669242 CTTAAAACTCT
1 CTTAAAACTCT
11669253 CTTAA
1 CTTAA
11669258 TCTTCTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (11 bp):
CTTAAAACTCT
Found at i:11669811 original size:13 final size:13
Alignment explanation
Indices: 11669778--11669827 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
11669768 AAGGTTTAAG
11669778 ATTAAAAAT--AA
1 ATTAAAAATAAAA
11669789 ATTGATAAAATAAAA
1 ATT-A-AAAATAAAA
11669804 ATTAAAAATAAAA
1 ATTAAAAATAAAA
11669817 AGTTAAGAAAT
1 A-TTAA-AAAT
11669828 CAATATAACG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.09
12 1 0.03
13 15 0.45
14 5 0.15
15 9 0.27
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (13 bp):
ATTAAAAATAAAA
Found at i:11673412 original size:17 final size:17
Alignment explanation
Indices: 11673390--11673425 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11673380 AGCTTGGGAC
*
11673390 ACGATGGACTTGCGGCA
1 ACGATGGACTTGCAGCA
11673407 ACGATGGACTTGCAGCA
1 ACGATGGACTTGCAGCA
11673424 AC
1 AC
11673426 AATAAGGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.25, G:0.31, T:0.17
Consensus pattern (17 bp):
ACGATGGACTTGCAGCA
Found at i:11683137 original size:16 final size:15
Alignment explanation
Indices: 11683100--11683134 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11683090 ATTGCAAAAG
* *
11683100 AAAAATCGAATATTA
1 AAAAATTGAACATTA
11683115 AAAAATTGAACATTA
1 AAAAATTGAACATTA
11683130 AAAAA
1 AAAAA
11683135 ATTAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAATTGAACATTA
Found at i:11686309 original size:18 final size:19
Alignment explanation
Indices: 11686277--11686322 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
11686267 TGTCGTTCGT
11686277 TTTC-AAAATATTATTC-A
1 TTTCAAAAATATTATTCAA
11686294 TTT-AAAAATCATTATTCAA
1 TTTCAAAAAT-ATTATTCAA
11686313 TTTCAAAAAT
1 TTTCAAAAAT
11686323 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 4 0.16
20 6 0.24
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCAAAAATATTATTCAA
Found at i:11686329 original size:20 final size:18
Alignment explanation
Indices: 11686281--11686322 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
11686271 GTTCGTTTTC
11686281 AAAAT-ATTATTCATTTA
1 AAAATCATTATTCATTTA
11686298 AAAATCATTATTCAATTTCA
1 AAAATCATTATTC-ATTT-A
11686318 AAAAT
1 AAAAT
11686323 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
19 4 0.18
20 6 0.27
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATCATTATTCATTTA
Found at i:11703102 original size:50 final size:50
Alignment explanation
Indices: 11703048--11703164 Score: 155
Period size: 50 Copynumber: 2.3 Consensus size: 50
11703038 AGGTCCCATA
* * * *
11703048 TAAGACCATGTCTGGGACATTG-CGTTGGCACCGAGATGAGATCTCCCCCG
1 TAAGACCATGTCTGGGACA-TGACATGGGCACCGAGATGAGAACTCCCACG
* *
11703098 TAAGACCATGTCTGGGACATGACATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAACTCCCACG
*
11703148 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
11703165 TATGGCATTG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 2 0.03
50 57 0.97
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.21
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAACTCCCACG
Found at i:11707143 original size:30 final size:30
Alignment explanation
Indices: 11707108--11707168 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11707098 AGCACACTCC
11707108 TAACTTCCTGCAGCACTCGTCCGGGTGGCA
1 TAACTTCCTGCAGCACTCGTCCGGGTGGCA
11707138 TAACTTCCTGCAGCACTCGTCCGGGTGGCA
1 TAACTTCCTGCAGCACTCGTCCGGGTGGCA
11707168 T
1 T
11707169 TTCCCACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.33, G:0.26, T:0.25
Consensus pattern (30 bp):
TAACTTCCTGCAGCACTCGTCCGGGTGGCA
Found at i:11721091 original size:10 final size:10
Alignment explanation
Indices: 11721078--11721103 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11721068 GGAAAAAGAA
11721078 AGAAAAGGGG
1 AGAAAAGGGG
11721088 AGAAAAGGGG
1 AGAAAAGGGG
11721098 AGAAAA
1 AGAAAA
11721104 ACAAAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (10 bp):
AGAAAAGGGG
Found at i:11723965 original size:26 final size:26
Alignment explanation
Indices: 11723936--11723988 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
11723926 TTTTGGACAT
*
11723936 ATTCATAACCAAATATTTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
*
11723962 ATTCATAACCATATATGTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
11723988 A
1 A
11723989 CAACCCTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (26 bp):
ATTCATAACCAAATATGTGATTTTGG
Found at i:11724601 original size:29 final size:30
Alignment explanation
Indices: 11724555--11724613 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
11724545 GAGTTATACC
*
11724555 AAATTAAAATTTGATGTATAAAATTGCACA
1 AAATTAAAATTTGATGTATAAAATTACACA
* * *
11724585 AAATTAAAGTTT-TTGTATATAATTACACA
1 AAATTAAAATTTGATGTATAAAATTACACA
11724614 CTAAACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.37
Consensus pattern (30 bp):
AAATTAAAATTTGATGTATAAAATTACACA
Found at i:11729283 original size:25 final size:25
Alignment explanation
Indices: 11729255--11729302 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11729245 TGTCTTTGAT
* *
11729255 AGTATATCCTGAAACTGCTATAGGC
1 AGTATATACTGAAACTACTATAGGC
*
11729280 AGTATATACTGAGACTACTATAG
1 AGTATATACTGAAACTACTATAG
11729303 ATAGACTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (25 bp):
AGTATATACTGAAACTACTATAGGC
Found at i:11735603 original size:18 final size:17
Alignment explanation
Indices: 11735577--11735645 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
11735567 ACAATAAGAA
*
11735577 AACGTTTTGAAATTGAAT
1 AACGATTTGAAA-TGAAT
11735595 AACGATTTGTAAATGAAT
1 AACGATTTG-AAATGAAT
* * *
11735613 AATGTTTTGGAAACGAAT
1 AACGATTT-GAAATGAAT
11735631 GACACGATTTGAAAT
1 -A-ACGATTTGAAAT
11735646 TAACATAAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 26 0.65
19 9 0.22
20 5 0.12
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (17 bp):
AACGATTTGAAATGAAT
Found at i:11736964 original size:26 final size:26
Alignment explanation
Indices: 11736913--11737278 Score: 175
Period size: 26 Copynumber: 14.2 Consensus size: 26
11736903 TGTTATTCAT
* *
11736913 TTATTTATTTTAAACCTTTTTCTTATGTA
1 TTATTTATTTTAAA--TTGTT-TTATATA
11736942 TTATTTATTTTAAATTGTTTTAT-TA
1 TTATTTATTTTAAATTGTTTTATATA
* * ** *
11736967 TTATTTATTTCAAGTT-TTCCACATA
1 TTATTTATTTTAAATTGTTTTATATA
* * * * * *
11736992 TAATGTATTTTAAACTATTTCAAACTA
1 TTATTTATTTTAAATTGTTTTATA-TA
** *
11737019 TTATCCA-TTT---TT-TTATATATA
1 TTATTTATTTTAAATTGTTTTATATA
* * **
11737040 TTATTTTATTTTTAACTGTCATATATA
1 TTA-TTTATTTTAAATTGTTTTATATA
*
11737067 TTATTTATTTTGAATTGTTTTTATACATA
1 TTATTTATTTTAAATTG-TTTTAT--ATA
* * *
11737096 TCATTTTTTTTAAACTGTTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
* * *
11737122 TTATTTATTTGAAACTTCTTTTTACATA
1 TTATTTATTTTAAA-TT-GTTTTATATA
* *
11737150 TTATTTGTTTTAAA--CTTTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
11737173 -TA-TTATTTTAAATTGTCTTATATG
1 TTATTTATTTTAAATTGTTTTATATA
* * **
11737197 TTATTTATTTTAAGTTGCTTGGTATA
1 TTATTTATTTTAAATTGTTTTATATA
*
11737223 TTATGTATTTTAAATTG-TTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
* ** * *
11737247 CTATTTACCTCAAATTGTTCTATATA
1 TTATTTATTTTAAATTGTTTTATATA
11737273 TTATTT
1 TTATTT
11737279 TGTTTCGTTT
Statistics
Matches: 254, Mismatches: 62, Indels: 45
0.70 0.17 0.12
Matches are distributed among these distances:
21 14 0.06
22 8 0.03
23 10 0.04
24 26 0.10
25 35 0.14
26 79 0.31
27 26 0.10
28 26 0.10
29 30 0.12
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTTTATATA
Found at i:11736968 original size:25 final size:28
Alignment explanation
Indices: 11736913--11736976 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 28
11736903 TGTTATTCAT
*
11736913 TTATTTATTTTAAACCTTTTTCTTATGTA
1 TTATTTATTTTAAA-CTTGTTCTTATGTA
11736942 TTATTTATTTTAAA-TTGTT-TTAT-TA
1 TTATTTATTTTAAACTTGTTCTTATGTA
11736967 TTATTTATTT
1 TTATTTATTT
11736977 CAAGTTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.35
26 4 0.12
27 4 0.12
29 14 0.41
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (28 bp):
TTATTTATTTTAAACTTGTTCTTATGTA
Found at i:11737101 original size:29 final size:30
Alignment explanation
Indices: 11737064--11737174 Score: 87
Period size: 29 Copynumber: 4.0 Consensus size: 30
11737054 ACTGTCATAT
* * *
11737064 ATATTATTTATTTTGAATTGTTTT-TATAC
1 ATATCATTTATTTTAAACTGTTTTATATAC
*
11737093 ATATCATTTTTTTTAAACTGTTTTATAT--
1 ATATCATTTATTTTAAACTGTTTTATATAC
*
11737121 AT-T-ATTTATTTGAAACT-TCTTT-T-TAC
1 ATATCATTTATTTTAAACTGT-TTTATATAC
* *
11737147 ATATTATTTGTTTTAAACT-TTTTATATA
1 ATATCATTTATTTTAAACTGTTTTATATA
11737175 TTATTTTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
24 1 0.02
25 2 0.03
26 17 0.26
27 5 0.08
28 16 0.24
29 22 0.33
30 3 0.05
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (30 bp):
ATATCATTTATTTTAAACTGTTTTATATAC
Found at i:11737122 original size:55 final size:55
Alignment explanation
Indices: 11737026--11737180 Score: 192
Period size: 55 Copynumber: 2.8 Consensus size: 55
11737016 CTATTATCCA
* * **
11737026 TTTTTTTATATATATTATTTTATTTTTAACTGTCATATATATTATTTATTTTG-AA-
1 TTTTTTTATACATATTATTTT-TTTTAAACTGTTTTATATATTATTTA-TTTGAAAC
*
11737081 TTGTTTTTATACATATCATTTTTTTTAAACTGTTTTATATATTATTTATTTGAAAC
1 TT-TTTTTATACATATTATTTTTTTTAAACTGTTTTATATATTATTTATTTGAAAC
* *
11737137 TTCTTTT-TACATATTATTTGTTTTAAACT-TTTTATATATTATTT
1 TTTTTTTATACATATTATTTTTTTTAAACTGTTTTATATATTATTT
11737181 TAAATTGTCT
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
53 15 0.17
54 24 0.27
55 31 0.35
56 19 0.21
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (55 bp):
TTTTTTTATACATATTATTTTTTTTAAACTGTTTTATATATTATTTATTTGAAAC
Found at i:11739156 original size:97 final size:98
Alignment explanation
Indices: 11738978--11739159 Score: 233
Period size: 98 Copynumber: 1.9 Consensus size: 98
11738968 TAATAATTTT
* * * *
11738978 TATTTGAATCCTATAAATTAAATAAACTATAAGATTGATATTCGCAAAACACGTGTGATATTAAG
1 TATTTGAATCCTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACACATGTAATATTAAG
*
11739043 AACTGCAGAAGAATAAATGAAGATGATGGTTTG
66 AACTACAGAAGAATAAATGAAGATGATGGTTTG
* * * * *
11739076 TATTTGAA-CTCTAAAAATTAAATCAATTATACGATTGATCTTCAC-AAACACATGTAATATTTA
1 TATTTGAATC-CTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACACATGTAATATTAA
* *
11739139 GAACTACATATGAATAAATGA
65 GAACTACAGAAGAATAAATGA
11739160 CGACAATAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
97 34 0.48
98 37 0.52
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (98 bp):
TATTTGAATCCTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACACATGTAATATTAAG
AACTACAGAAGAATAAATGAAGATGATGGTTTG
Found at i:11739177 original size:97 final size:98
Alignment explanation
Indices: 11738969--11739180 Score: 230
Period size: 97 Copynumber: 2.2 Consensus size: 98
11738959 TCATGATGTT
* * * *
11738969 AATAATTTTTATTTGAATCCTATAAATTAAATAAACTATAAGATTGATATTCGCAAAACACGTGT
1 AATAATTTATATTTGAATCCTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACACATGT
* * *
11739034 GATATTAAGAACTGCAGAAGAATAAATGAAGAT
66 AATATTAAGAACTACAGAAGAATAAATGAAGAC
* ** * * * * *
11739067 GATGGTTTGTATTTGAA-CTCTAAAAATTAAATCAATTATACGATTGATCTTCAC-AAACACATG
1 AATAATTTATATTTGAATC-CTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACACATG
* * * *
11739130 TAATATTTAGAACTACATATGAATAAATGACGAC
65 TAATATTAAGAACTACAGAAGAATAAATGAAGAC
11739164 AATAATTTATATTTGAA
1 AATAATTTATATTTGAA
11739181 ATATGTAGAT
Statistics
Matches: 91, Mismatches: 22, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
97 49 0.54
98 42 0.46
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (98 bp):
AATAATTTATATTTGAATCCTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACACATGT
AATATTAAGAACTACAGAAGAATAAATGAAGAC
Found at i:11741118 original size:27 final size:27
Alignment explanation
Indices: 11741087--11741622 Score: 464
Period size: 27 Copynumber: 20.1 Consensus size: 27
11741077 AAATCGAGGT
11741087 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* *
11741114 ATTTTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * *
11741141 ATTCTATCTTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
** *
11741168 ATTTTACTATAT-GGGGTATTTTCGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
*
11741194 ATTTTACCCTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * *
11741221 ATTTTACCTTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* *
11741248 ATTCTACCTTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * * *
11741274 ATTATACCTTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* *
11741301 ATTTTACGCTATGGGGGTATTTTCGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * *
11741328 ATTCTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * ** *
11741355 ATTCTACCCTAT-GGGGTCTTTCAGTT
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * **
11741381 ATTCTACCCTAT-GGGGTCTTTCAGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* ***
11741407 ATTCTACCCTAT-GGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * * *
11741433 AATTTACCCTATAGGGGTATGTCT-ATC
1 ATTTTACCCTATGGGGGTAT-TTTGGTC
* *
11741460 ATTTTACCTTA-CGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
** *
11741486 ATTTTACCCT-TCGAAGGTATTTCAGG-C
1 ATTTTACCCTAT-GGGGGTATTT-TGGTC
* *
11741513 ATTTTATCCTATGGGGGTATTTTGGTG
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * * * *
11741540 ATTTTACTCTA--CGAGTATCTCGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
*
11741565 ATTTTACCCTATGGGGGTATTTTGATC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * *
11741592 ATTTTACTCTATGGGGGTATTTCGGCC
1 ATTTTACCCTATGGGGGTATTTTGGTC
11741619 ATTT
1 ATTT
11741623 ATTGACCTCT
Statistics
Matches: 418, Mismatches: 79, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
25 21 0.05
26 135 0.32
27 258 0.62
28 4 0.01
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTTGGTC
Found at i:11741211 original size:53 final size:53
Alignment explanation
Indices: 11741087--11741622 Score: 507
Period size: 53 Copynumber: 10.1 Consensus size: 53
11741077 AAATCGAGGT
*
11741087 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTATG-GGGTATTTCGGTC
* * * *
11741141 ATTCTATCTTATGGGGGTATTTTGGTCATTTTACTATATGGGGTATTTTC-GTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTATGGGGTA-TTTCGGTC
*
11741194 ATTTTACCCTATAGGGGTATTTTGGTCATTTTAC-CTTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTC-TATG-GGGTATTTCGGTC
* * * *
11741248 ATTCTACCTTAT-GGGGTATTTTGGTCATTATAC-CTTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTC-TAT-GGGGTATTTCGGTC
* * * *
11741301 ATTTTACGCTATGGGGGTATTTTCGTCATTCTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTATG-GGGTATTTCGGTC
* * ** * * * * *
11741355 ATTCTACCCTAT-GGGGTCTTTCAGTTATTCTACCCTATGGGGTCTTTCAGTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTATGGGGTATTTCGGTC
* *** * * * **
11741407 ATTCTACCCTAT-GGGGTATTTCAATCAATTTACCCTATAGGGGTATGTCTATC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTAT-GGGGTATTTCGGTC
* * * *
11741460 ATTTTACCTTA-CGGGGTATTTTGGTCATTTTACCCT-TCGAAGGTATTTCAGG-C
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTAT-G-GGGTATTTC-GGTC
* * * * *
11741513 ATTTTATCCTATGGGGGTATTTTGGTGATTTTACTCTA-CGAGTATCTCGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTATGGGGTATTTCGGTC
* *
11741565 ATTTTACCCTATGGGGGTATTTTGATCATTTTACTCTATGGGGGTATTTCGGCC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTAT-GGGGTATTTCGGTC
11741619 ATTT
1 ATTT
11741623 ATTGACCTCT
Statistics
Matches: 401, Mismatches: 64, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
51 2 0.00
52 88 0.22
53 172 0.43
54 138 0.34
55 1 0.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTATGGGGGTATTTTGGTCATTTTACTCTATGGGGTATTTCGGTC
Found at i:11741221 original size:80 final size:80
Alignment explanation
Indices: 11741091--11741622 Score: 469
Period size: 80 Copynumber: 6.7 Consensus size: 80
11741081 CGAGGTATTT
* * * *
11741091 TACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTATCTTATGGG
1 TACCCTAT-GGGGTATTTTCGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGGG
* *
11741156 GGTATTTTGGTCATTT
65 GGTATTTCGGTCATTC
** * * *
11741172 TACTATATGGGGTATTTTCGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCTTATGAGG
1 TACCCTATGGGGTATTTTCGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGGGG
11741237 GTATTTCGGTCATTC
66 GTATTTCGGTCATTC
* * * * *
11741252 TACCTTATGGGGTATTTTGGTCATTATACCTTATGGGGGTATTTCGATCATTTTACGC-TATGGG
1 TACCCTATGGGGTATTTTCGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTAC-CTTATGGG
11741316 GGTATTTTC-GTCATTC
65 GGTA-TTTCGGTCATTC
* * * * * *
11741332 TACCCTATGAGGGTA-TTTCGGTCATTCTACCCTAT-GGGGTCTTTCAGTTATTCTACCCTAT-G
1 TACCCTATG-GGGTATTTTC-GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGG
* *
11741394 GGGTCTTTCAGTCATTC
64 GGGTATTTCGGTCATTC
* * * * ** *
11741411 TACCCTATGGGGTA-TTTCAATCAATTTACCCTATAGGGGTATGTCTATCATTTTACCTTA-CGG
1 TACCCTATGGGGTATTTTC-GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGGG
* *
11741474 GGTATTTTGGTCATTT
65 GGTATTTCGGTCATTC
* * * * *
11741490 TACCCT-TCGAAGGTA-TTTCAGGCATTTTATCCTATGGGGGTATTTTGGTGATTTTA-CTCTA-
1 TACCCTAT-G-GGGTATTTTC-GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCT-TAT
* * * *
11741551 -CGAGTATCTCGGTCATTT
62 GGGGGTATTTCGGTCATTC
* *
11741569 TACCCTATGGGGGTATTTT-GATCATTTTACTCTATGGGGGTATTTCGGCCATTT
1 TACCCTAT-GGGGTATTTTCG-TCATTTTACCCTATGGGGGTATTTCGGTCATTT
11741623 ATTGACCTCT
Statistics
Matches: 369, Mismatches: 68, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
78 27 0.07
79 114 0.31
80 199 0.54
81 29 0.08
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (80 bp):
TACCCTATGGGGTATTTTCGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGGGG
GTATTTCGGTCATTC
Found at i:11744583 original size:34 final size:34
Alignment explanation
Indices: 11744512--11744585 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
11744502 AATACCAGTA
* ** * *
11744512 ATCAGTAGGGCCTTTGCCCAATTTCAGTAATAGT
1 ATCAGTAGGGCCTTGGCCCAATAACAGTAAAAAT
11744546 ATCAGTAGGGCCTTGGCCC-ATAACAGTAACAAAT
1 ATCAGTAGGGCCTTGGCCCAATAACAGTAA-AAAT
11744580 ATCAGT
1 ATCAGT
11744586 CATGCAGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (34 bp):
ATCAGTAGGGCCTTGGCCCAATAACAGTAAAAAT
Found at i:11745066 original size:27 final size:26
Alignment explanation
Indices: 11745047--11745626 Score: 412
Period size: 27 Copynumber: 21.3 Consensus size: 26
11745037 GGGTATAACA
11745047 GTCATTTTACCCTATGGGGGTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
* *
11745073 GATCATTTTACCCTATGAGGGTATTAC
1 G-TCATTTTACCCTATGGGGGTATTTC
* * * *
11745100 GGTCATTCTATCATATTGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* *
11745127 GATCATTCTACCTTATGGGGGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
* *
11745154 GGTCATTCTACCTTAT-GGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
** *
11745180 GGTCATTCAACCCTATGGTGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* * ***
11745207 AGTTATTCTACCCTACAAGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* *
11745234 GGTCAGTTTACCCTATTGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
*
11745261 GATCATTTTACCCTACGGGGGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
* *
11745288 GATCATTTTACCCTATGAGTGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
* *
11745315 GGTTATTTTATCCTAT-GGGG-ATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* *
11745340 GATCATTTTACCCTATGAGTGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
* *
11745367 GGTTATTTCGGTCATTCTACCT-TATGGGGGTATTTC
1 -GTCATTT---T-A--C--CCTAT-GGGGG-TATTTC
*
11745403 GGTCATTCTACCCTATGGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
** *
11745430 GGTCATTCAACCCTATGGTGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* * ***
11745457 AGTTATTCTACCCTACAAGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* *
11745484 GGTCAATTTACCCTATTGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
**
11745511 GATCATTTTACCCTACAGGGGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
* *
11745538 GATCATTTTACCCTATGAGTGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
* *
11745565 GGTTATTTTATCCTATGGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* **
11745592 AGTCATTTTACCCAATCAGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
11745619 GGTCATTT
1 -GTCATTT
11745627 ACTGACCTCT
Statistics
Matches: 447, Mismatches: 83, Indels: 47
0.77 0.14 0.08
Matches are distributed among these distances:
24 1 0.00
25 17 0.04
26 32 0.07
27 360 0.81
28 12 0.03
29 1 0.00
30 2 0.00
31 1 0.00
32 1 0.00
33 2 0.00
34 1 0.00
35 5 0.01
36 12 0.03
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGGTATTTC
Found at i:11745095 original size:54 final size:54
Alignment explanation
Indices: 11745047--11745626 Score: 517
Period size: 54 Copynumber: 10.6 Consensus size: 54
11745037 GGGTATAACA
*
11745047 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTACG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* * * * * * *
11745101 GTCATTCTATCATATTGGGGTATTTCGATCATTCTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* * * ** *
11745155 GTCATTCTACCTTAT-GGGGTATTTCGGTCATTCAACCCTATG-GTGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAG-GGTATTTCG
* * *** * *
11745208 GTTATTCTACCCTACAAGGGTATTTCGGTCAGTTTACCCTATTG-GGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA-TGAGGGTATTTCG
* * *
11745262 ATCATTTTACCCTACGGGGGTATTTCGATCATTTTACCCTATGAGTGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* *
11745316 GTTATTTTATCCTAT-GGGG-ATTTCGATCATTTTACCCTATGAGTGTATTTCGGTTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGA--G------GG-TATTTCG
* * * * *
11745377 GTCATTCTACCTTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
** * * * **
11745431 GTCATTCAACCCTATGGTGGTATTTC-AGTTATTCTACCCTACAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGAGGGTATTTCG
* * *
11745485 GTCAATTTACCCTATTGGGGTATTTCGATCATTTTACCCTA-CAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGA-GGGTATTTCG
* * * * * * * *
11745539 ATCATTTTACCCTATGAGTGTATTTCGGTTATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* ** *
11745593 GTCATTTTACCCAATCAGGGTATTTCGGTCATTT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTT
11745627 ACTGACCTCT
Statistics
Matches: 433, Mismatches: 74, Indels: 38
0.79 0.14 0.07
Matches are distributed among these distances:
52 24 0.06
53 51 0.12
54 308 0.71
55 6 0.01
60 1 0.00
61 19 0.04
62 4 0.01
63 20 0.05
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
Found at i:11745160 original size:81 final size:79
Alignment explanation
Indices: 11745048--11745625 Score: 523
Period size: 81 Copynumber: 7.1 Consensus size: 79
11745038 GGTATAACAG
* * * * * *
11745048 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTACGGTCATTCTATCA
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATG-GGGTATTTCGGTCATTCTACCC
11745113 TATTGGGGTATTTCGA
65 TA-TGGGGTATTTCGA
* * * * *
11745129 TCATTCTACCTTATGGGGGTATTTCGGTCATTCTACCTTATGGGGTATTTCGGTCATTCAACCCT
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTCTACCCT
11745194 ATGGTGGTATTTC-A
66 ATGG-GGTATTTCGA
* ** * * *
11745208 GTTATTCTACCCTACAAGGGTATTTCGGTCAGTTTACCCTATTGGGGTATTTCGATCATTTTACC
1 -TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTA-TGGGGTATTTCGGTCATTCTACC
*
11745273 CTACGGGGGTATTTCGA
64 CTA-TGGGGTATTTCGA
* * * * * *
11745290 TCATTTTACCCTATGAGTGTATTTCGGTTATTTTATCCTATGGGG-ATTTCGATCATTTTACCCT
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTCTACCCT
*
11745354 ATGAGTGTATTTCGGTTATTTCGG
66 AT--G-G------GG-TATTTCGA
* * * *
11745378 TCATTCTACCTTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGGTCATTCAACCC
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTCATTCTACCC
11745443 TATGGTGGTATTTC-A
65 TATGG-GGTATTTCGA
* ** * * *
11745458 GTTATTCTACCCTACAAGGGTATTTCGGTCAATTTACCCTATTGGGGTATTTCGATCATTTTACC
1 -TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTA-TGGGGTATTTCGGTCATTCTACC
*
11745523 CTACAGGGGTATTTCGA
64 CTA-TGGGGTATTTCGA
* * * * * *
11745540 TCATTTTACCCTATGAGTGTATTTCGGTTATTTTATCCTATGGGGGTATTTCAGTCATTTTACCC
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTCATTCTACCC
* * *
11745605 AATCAGGGTATTTCGG
65 TAT-GGGGTATTTCGA
11745621 TCATT
1 TCATT
11745626 TACTGACCTC
Statistics
Matches: 406, Mismatches: 68, Indels: 46
0.78 0.13 0.09
Matches are distributed among these distances:
79 24 0.06
80 67 0.17
81 239 0.59
82 9 0.02
87 3 0.01
88 42 0.10
89 4 0.01
90 18 0.04
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (79 bp):
TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTCTACCCT
ATGGGGTATTTCGA
Found at i:11745382 original size:36 final size:36
Alignment explanation
Indices: 11745335--11745405 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
11745325 TCCTATGGGG
* *
11745335 ATTTCGATCATTTTACCCTATGAGTGTATTTCGGTT
1 ATTTCGATCATTCTACCCTATGAGGGTATTTCGGTT
* * *
11745371 ATTTCGGTCATTCTACCTTATGGGGGTATTTCGGT
1 ATTTCGATCATTCTACCCTATGAGGGTATTTCGGT
11745406 CATTCTACCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (36 bp):
ATTTCGATCATTCTACCCTATGAGGGTATTTCGGTT
Found at i:11745402 original size:142 final size:143
Alignment explanation
Indices: 11745228--11745499 Score: 361
Period size: 142 Copynumber: 1.9 Consensus size: 143
11745218 CCTACAAGGG
* *
11745228 TATTTCGGTCAGTTTACCCTATTGGGGTATTTCGATCATTTTACCCTACGGGGGTATTTCGATCA
1 TATTTCGGTCAGTTTACCCTATGGGGGTATTTCGATCATTCTACCCTACGGGGGTATTTCGATCA
** * * * * *
11745293 TTTTACCCTATGAGT-GTATTTCGGTTATTTTATCCT-ATGGGGATTTCGATCATTTTACCCTAT
66 TTCAACCCTATG-GTGGTATTTCAGTTATTCTACCCTAAAGGGGATTTCGATCAATTTACCCTAT
11745356 GAGTGTATTTCGGT
130 GAGTGTATTTCGGT
* * * *
11745370 TATTTCGGTCA-TTCTACCTTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGGTC
1 TATTTCGGTCAGTT-TACCCTATGGGGGTATTTCGATCATTCTACCCTACGGGGGTATTTCGATC
* *
11745434 ATTCAACCCTATGGTGGTATTTCAGTTATTCTACCCTACAAGGGTATTTCGGTCAATTTACCCTA
65 ATTCAACCCTATGGTGGTATTTCAGTTATTCTACCCTA-AAGGGGATTTCGATCAATTTACCCTA
11745499 T
129 T
11745500 TGGGGTATTT
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
141 4 0.04
142 84 0.76
144 23 0.21
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (143 bp):
TATTTCGGTCAGTTTACCCTATGGGGGTATTTCGATCATTCTACCCTACGGGGGTATTTCGATCA
TTCAACCCTATGGTGGTATTTCAGTTATTCTACCCTAAAGGGGATTTCGATCAATTTACCCTATG
AGTGTATTTCGGT
Found at i:11745415 original size:63 final size:61
Alignment explanation
Indices: 11745309--11745432 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 61
11745299 CCTATGAGTG
* * * *
11745309 TATTTCGGTTATTTTATCCTATGGGGATTTCGATCATTTTACCCTATGAGTGTATTTCGGT
1 TATTTCGGTCATTCTATCCTATGGGGATTTCGATCATTCTACCCTATGAGGGTATTTCGGT
* *
11745370 TATTTCGGTCATTCTA-CCTTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGGT
1 TATTTCGGTCATTCTATCC-TAT-GGGG-ATTTCGATCATTCTACCCTATGAGGGTATTTCGGT
11745433 CATTCAACCC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
60 2 0.04
61 17 0.31
62 4 0.07
63 31 0.57
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.44
Consensus pattern (61 bp):
TATTTCGGTCATTCTATCCTATGGGGATTTCGATCATTCTACCCTATGAGGGTATTTCGGT
Found at i:11749890 original size:18 final size:18
Alignment explanation
Indices: 11749867--11749901 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11749857 GATGCTAACT
*
11749867 TTTTAGTGTTGATTTGAA
1 TTTTAGGGTTGATTTGAA
11749885 TTTTAGGGTTGATTTGA
1 TTTTAGGGTTGATTTGA
11749902 TGAAAGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (18 bp):
TTTTAGGGTTGATTTGAA
Found at i:11751575 original size:24 final size:25
Alignment explanation
Indices: 11751531--11751578 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
11751521 TTTTGGACAT
11751531 ATTCATAACCATATATGTGATTTTAG
1 ATTCATAACCA-ATATGTGATTTTAG
11751557 ATTCATAACC-ATATGTGATTTT
1 ATTCATAACCAATATGTGATTTT
11751579 GGACAACGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 12 0.55
26 10 0.45
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (25 bp):
ATTCATAACCAATATGTGATTTTAG
Found at i:11752422 original size:26 final size:26
Alignment explanation
Indices: 11752393--11752442 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
11752383 TTTTGGACAT
*
11752393 ATTCATAACCAAATATTTGATTTTGG
1 ATTCATAACCAAATATATGATTTTGG
*
11752419 ATTCATAACCATATATATGATTTT
1 ATTCATAACCAAATATATGATTTT
11752443 TGACAACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (26 bp):
ATTCATAACCAAATATATGATTTTGG
Found at i:11753726 original size:97 final size:96
Alignment explanation
Indices: 11753439--11753758 Score: 256
Period size: 98 Copynumber: 3.3 Consensus size: 96
11753429 TGTTTGCATG
* * * * *
11753439 AACACGTGTAAT-TTAAAGAACTACGTATGAATGAATGACAACAATAATTTCTATTTGAATC-CT
1 AACACGTGTAATATT-GAGAACTACATATGAAT-AATGACGATAATAATTTATATTTGAATCTCT
* * * *
11753502 ATAAATTAAATAAACTA-CATGATTGATATTGACAA
64 ATAAATTAAATAAATTATAAT-ATT-ATCTTCAC-A
* * * ** *
11753537 AACACGTGTAATATTGAGAACTGCATAAT-AATAAATGAAGATGATGGTTTGTATTTGAA-CTCT
1 AACACGTGTAATATTGAGAACTACAT-ATGAAT-AATGACGATAATAATTTATATTTGAATCTCT
* * * ** *
11753600 AAAAATCAAATCAATTATACGATGGATCTTCACA
64 ATAAATTAAATAAATTATAATAT-TATCTTCACA
* **
11753634 AACACGAGTAATATTGCTAACTACATATGAATACATGACGATAATAATTTATATTTGAATCTC-A
1 AACACGTGTAATATTGAGAACTACATATGAATA-ATGACGATAATAATTTATATTTGAATCTCTA
*
11753698 TAAATTAAATAAATTATAATATCTATCTTCGCA
65 TAAATTAAATAAATTATAATAT-TATCTTCACA
* *
11753731 ATACACGTGTAATATTAAGAACTGCATA
1 A-ACACGTGTAATATTGAGAACTACATA
11753759 AAAATAAATA
Statistics
Matches: 170, Mismatches: 43, Indels: 18
0.74 0.19 0.08
Matches are distributed among these distances:
96 3 0.02
97 74 0.44
98 89 0.52
99 4 0.02
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (96 bp):
AACACGTGTAATATTGAGAACTACATATGAATAATGACGATAATAATTTATATTTGAATCTCTAT
AAATTAAATAAATTATAATATTATCTTCACA
Found at i:11753860 original size:195 final size:194
Alignment explanation
Indices: 11753452--11753916 Score: 496
Period size: 195 Copynumber: 2.4 Consensus size: 194
11753442 ACGTGTAATT
* * *
11753452 TAAAGAACTACGTATGAATGAATGACAACAATAATTTCTATTTGAATCCTATAAATTAAATAAAC
1 TAAAAAACTACGTATGAATGAATGAC-ACAATAATTTATATTTGAATCC-ATAAATTAAATAAAT
* * * *
11753517 TA-CATGATTGATATTGACAAAACACGTGTAATATTGAGAACTGCATAATAATAAATGAAGATGA
64 TATAATGATTGATATTGACAAAACACGTGTAATATTAAGAACTGCATAAAAATAAATAAAGATGA
* * ** *
11753581 TGGTTTGTATTTGAACTCTAAAAATCAAATCAATTATACGATGGATCTTCACAAACACGAGTAAT
129 TGGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACACGAGTAAC
11753646 A
194 A
**** * *
11753647 TTGCTAACTACATATGAAT-ACATGACGATAATAATTTATATTTGAATCTCATAAATTAAATAAA
1 TAAAAAACTACGTATGAATGA-ATGAC-ACAATAATTTATATTTGAATC-CATAAATTAAATAAA
* *
11753711 TTATAAT-ATCT-ATCTTCG-CAATACACGTGTAATATTAAGAACTGCATAAAAATAAATAAAGC
63 TTATAATGAT-TGATATT-GACAAAACACGTGTAATATTAAGAACTGCATAAAAATAAATAAAG-
* * ** * *
11753773 CT-ATGGTTTGTATTTTAACACTAAAAATCAAATCAATTAT-CTAATCAATCTTCACAAGTATGT
125 ATGATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATAC-AATCAATCTTCACAAACACGA
*
11753836 GTAACG
189 GTAACA
* ** *
11753842 TAAAAAATTGTGTATGAATGAATGAACACAATAATTTAAATTTGAATCCCATAAATTAAATAAAT
1 TAAAAAACTACGTATGAATGAATG-ACACAATAATTTATATTTGAAT-CCATAAATTAAATAAAT
11753907 TATAA-GATTG
64 TATAATGATTG
11753917 TTCTTTTTAA
Statistics
Matches: 221, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
194 3 0.01
195 208 0.94
196 10 0.05
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (194 bp):
TAAAAAACTACGTATGAATGAATGACACAATAATTTATATTTGAATCCATAAATTAAATAAATTA
TAATGATTGATATTGACAAAACACGTGTAATATTAAGAACTGCATAAAAATAAATAAAGATGATG
GTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACACGAGTAACA
Found at i:11757281 original size:98 final size:97
Alignment explanation
Indices: 11757147--11757469 Score: 251
Period size: 98 Copynumber: 3.3 Consensus size: 97
11757137 CGGTCTTCAC
* * * * * *
11757147 AAACACCTATAATATTAAGAACAACATATGATTAAATGACGGCAATAATTTATATTTGAATCCCA
1 AAACACATGTAATATTAAGAACTACATAAGAATAAATGA-GGCAATAATTTATATTTGAATCCAA
11757212 TAAATTAAATAAATTATAATATCAATATTTACA
65 TAAATTAAATAAATTATAATATCAATATTTACA
** * * * * *
11757245 AAACACATGTAATATTAAGAGTTGCATAAGAATAAATGAAG-AATATGGTTTGTATTT-AAACCG
1 AAACACATGTAATATTAAGAACTACATAAGAATAAATGAGGCAATA--ATTTATATTTGAATCC-
* * ** * *
11757308 TAGAAATTAAACCAATTAT-ATAATCGATTTTTAC-
63 AATAAATTAAATAAATTATAAT-ATCAATATTTACA
* * * * * * *
11757342 AAATACGTGTAACATTAAAGAACTATATACGAATTAATGAAGACAATAATTTATATTTGAATCCA
1 AAACACATGTAATATT-AAGAACTACATAAGAATAAATG-AGGCAATAATTTATATTTGAATCCA
* * *
11757407 ATAAATTAAATAAATTATAAGAT-AGATCTTTTCA
64 ATAAATTAAATAAATTATAATATCA-ATATTTACA
* * *
11757441 AAGCACATGCAATATTAAGAACAACATAA
1 AAACACATGTAATATTAAGAACTACATAA
11757470 AATTTAATGA
Statistics
Matches: 166, Mismatches: 48, Indels: 22
0.70 0.20 0.09
Matches are distributed among these distances:
96 4 0.02
97 20 0.12
98 121 0.73
99 17 0.10
100 4 0.02
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (97 bp):
AAACACATGTAATATTAAGAACTACATAAGAATAAATGAGGCAATAATTTATATTTGAATCCAAT
AAATTAAATAAATTATAATATCAATATTTACA
Found at i:11757285 original size:195 final size:196
Alignment explanation
Indices: 11756982--11757462 Score: 519
Period size: 195 Copynumber: 2.5 Consensus size: 196
11756972 TACTATGTAT
* * * * * *
11756982 GAATGAATGACCGCAACAATTTTTATTTGAATCCCATAAAATAAATAAACTATAATATTC-ATA-
1 GAATTAATGACGGCAATAATTTATATTTGAATCCCATAAATTAAATAAATTATAATA-TCAATAT
* *
11757045 -TCCTAAAACACATGTAATATTAAGAACTGCATAAGAATAAATGAAG-ATGATGGCTTGCGTTTA
65 TTAC-AAAACACATGTAATATTAAGAACTGCATAAGAATAAATGAAGAAT-ATGGCTTGCATTTA
** ** * *
11757108 AACTC-TAAAAATCAAGTCAATTATACGGTCGGTCTTCACAAACACCTATAATATT-AAGAACAA
128 AAC-CGTAAAAATCAAACCAATTATACAATCGATCTTCACAAACACCTATAACATTAAAGAACAA
*
11757171 CATAT
192 CATAC
11757176 G-ATTAAATGACGGCAATAATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCAATAT
1 GAATT-AATGACGGCAATAATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCAATAT
** * *
11757240 TTACAAAACACATGTAATATTAAGAGTTGCATAAGAATAAATGAAGAATATGGTTTGTATTTAAA
65 TTACAAAACACATGTAATATTAAGAACTGCATAAGAATAAATGAAGAATATGGCTTGCATTTAAA
* * * * * * * * * *
11757305 CCGTAGAAATTAAACCAATTATATAATCGATTTTTACAAATACGTGTAACATTAAAGAACTATAT
130 CCGTAAAAATCAAACCAATTATACAATCGATCTTCACAAACACCTATAACATTAAAGAACAACAT
11757370 AC
195 AC
* * * * *
11757372 GAATTAATGAAGACAATAATTTATATTTGAATCCAATAAATTAAATAAATTATAAGAT-AGATCT
1 GAATTAATGACGGCAATAATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCA-ATAT
* * *
11757436 TTTCAAAGCACATGCAATATTAAGAAC
65 TTACAAAACACATGTAATATTAAGAAC
11757463 AACATAAAAT
Statistics
Matches: 239, Mismatches: 39, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
193 4 0.02
194 52 0.22
195 91 0.38
196 89 0.37
197 3 0.01
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (196 bp):
GAATTAATGACGGCAATAATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCAATATT
TACAAAACACATGTAATATTAAGAACTGCATAAGAATAAATGAAGAATATGGCTTGCATTTAAAC
CGTAAAAATCAAACCAATTATACAATCGATCTTCACAAACACCTATAACATTAAAGAACAACATA
C
Found at i:11759187 original size:2 final size:2
Alignment explanation
Indices: 11759180--11759206 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11759170 TATGAGACTA
11759180 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11759207 GGTGATATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11759681 original size:242 final size:243
Alignment explanation
Indices: 11759245--11759729 Score: 963
Period size: 242 Copynumber: 2.0 Consensus size: 243
11759235 TAACTATTGA
11759245 TAGTGGAAAAGTATGAGTTTCATCATTTATAAGATGATAGCTTTATTATAATAATTATTTTCTTA
1 TAGTGGAAAAGTATGAGTTTCATCATTTATAAGATGATAGCTTTATTATAATAATTATTTTCTTA
11759310 GTAAAACATGTGAAAATAAAAGAAAAAGAAAAAGAATAGAAAACAAAAGAGTAGAGAAAAACCAC
66 GTAAAACATGTGAAAATAAAAGAAAAAGAAAAAGAATAGAAAACAAAAGAGTAGAGAAAAACCAC
11759375 TATCATCTTCTTCTTTCTTTGGTTTTCACGAAAAGTAAGAAGAAAAAGAAAATAAATTTCAGCTT
131 TATCATCTTCTTCTTTCTTTGGTTTTCACGAAAAGTAAGAAGAAAAAGAAAATAAATTTCAGCTT
11759440 TGGGAGTTCATCATTTTGAAGGGTTAAAAGGTTGCATGTAAAGGAAAT
196 TGGGAGTTCATCATTTTGAAGGGTTAAAAGGTTGCATGTAAAGGAAAT
11759488 TAGTGGAAAA-TATGAGTTTCATCATTTATAAGATGATAGCTTTATTATAATAATTATTTTCTTA
1 TAGTGGAAAAGTATGAGTTTCATCATTTATAAGATGATAGCTTTATTATAATAATTATTTTCTTA
11759552 GTAAAACATGTGAAAATAAAAGAAAAAGAAAAAGAATAGAAAACAAAAGAGTAGAGAAAAACCAC
66 GTAAAACATGTGAAAATAAAAGAAAAAGAAAAAGAATAGAAAACAAAAGAGTAGAGAAAAACCAC
11759617 TATCATCTTCTTCTTTCTTTGGTTTTCACGAAAAGTAAGAAGAAAAAGAAAATAAATTTCAGCTT
131 TATCATCTTCTTCTTTCTTTGGTTTTCACGAAAAGTAAGAAGAAAAAGAAAATAAATTTCAGCTT
11759682 TGGGAGTTCATCATTTTGAAGGGTTAAAAGGTTGCATGTAAAGGAAAT
196 TGGGAGTTCATCATTTTGAAGGGTTAAAAGGTTGCATGTAAAGGAAAT
11759730 CAACCAACAT
Statistics
Matches: 242, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
242 232 0.96
243 10 0.04
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.31
Consensus pattern (243 bp):
TAGTGGAAAAGTATGAGTTTCATCATTTATAAGATGATAGCTTTATTATAATAATTATTTTCTTA
GTAAAACATGTGAAAATAAAAGAAAAAGAAAAAGAATAGAAAACAAAAGAGTAGAGAAAAACCAC
TATCATCTTCTTCTTTCTTTGGTTTTCACGAAAAGTAAGAAGAAAAAGAAAATAAATTTCAGCTT
TGGGAGTTCATCATTTTGAAGGGTTAAAAGGTTGCATGTAAAGGAAAT
Found at i:11762364 original size:30 final size:28
Alignment explanation
Indices: 11762330--11762385 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
11762320 GTGATTAAAT
11762330 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
11762360 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
11762386 TAAGTCCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:11763988 original size:20 final size:23
Alignment explanation
Indices: 11763963--11764013 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
11763953 TATTGTGCAT
11763963 TATTATT-CTAAAA-TTAT-TAG
1 TATTATTACTAAAAGTTATGTAG
*
11763983 TATTATTACCTAAAAGTTATGTTG
1 TATTATTA-CTAAAAGTTATGTAG
11764007 TATTATT
1 TATTATT
11764014 TTTTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
22 6 0.23
23 4 0.15
24 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (23 bp):
TATTATTACTAAAAGTTATGTAG
Found at i:11763990 original size:23 final size:24
Alignment explanation
Indices: 11763961--11764013 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
11763951 GTTATTGTGC
*
11763961 ATTATTATTCTAAAA-TTAT-TAGT
1 ATTATTA-CCTAAAAGTTATGTAGT
*
11763984 ATTATTACCTAAAAGTTATGTTGT
1 ATTATTACCTAAAAGTTATGTAGT
11764008 ATTATT
1 ATTATT
11764014 TTTTTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 6 0.23
23 11 0.42
24 9 0.35
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.51
Consensus pattern (24 bp):
ATTATTACCTAAAAGTTATGTAGT
Found at i:11765340 original size:116 final size:116
Alignment explanation
Indices: 11765136--11765368 Score: 466
Period size: 116 Copynumber: 2.0 Consensus size: 116
11765126 GGGACGGGAA
11765136 TATTTCTCGTTTGGTCCCCCTGTTATTCGTGTATCTCGTTGCAGCCCCTGCATTTTGGTTTATTT
1 TATTTCTCGTTTGGTCCCCCTGTTATTCGTGTATCTCGTTGCAGCCCCTGCATTTTGGTTTATTT
11765201 CCATTTGTTACCTTTAATTCTACTTTGAGTTAAAATTCGACCCTTATTAAG
66 CCATTTGTTACCTTTAATTCTACTTTGAGTTAAAATTCGACCCTTATTAAG
11765252 TATTTCTCGTTTGGTCCCCCTGTTATTCGTGTATCTCGTTGCAGCCCCTGCATTTTGGTTTATTT
1 TATTTCTCGTTTGGTCCCCCTGTTATTCGTGTATCTCGTTGCAGCCCCTGCATTTTGGTTTATTT
11765317 CCATTTGTTACCTTTAATTCTACTTTGAGTTAAAATTCGACCCTTATTAAG
66 CCATTTGTTACCTTTAATTCTACTTTGAGTTAAAATTCGACCCTTATTAAG
11765368 T
1 T
11765369 TGTCTTATAT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (116 bp):
TATTTCTCGTTTGGTCCCCCTGTTATTCGTGTATCTCGTTGCAGCCCCTGCATTTTGGTTTATTT
CCATTTGTTACCTTTAATTCTACTTTGAGTTAAAATTCGACCCTTATTAAG
Found at i:11767247 original size:27 final size:27
Alignment explanation
Indices: 11767216--11767292 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
11767206 CAGTATAACA
*
11767216 GTCATTTTACCCTATGGGGGTAATTTG
1 GTCATTTTACCCTATGGGGGTAATTCG
* *
11767243 TTCATTTTATCCTATGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* *
11767270 GTCATTTTACCTTGTGGGGGTAA
1 GTCATTTTACCCTATGGGGGTAA
11767293 ATCGATCAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTAATTCG
Found at i:11769966 original size:3 final size:3
Alignment explanation
Indices: 11769958--11769998 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
11769948 TTCAAATTGA
* * *
11769958 AAT AAT AAT AAT AAT AAT AAT AAC AAC AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11769999 AGATTTTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:11771772 original size:27 final size:26
Alignment explanation
Indices: 11771690--11771783 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
11771680 GAATACTTTG
11771690 GTTTATAAAATTACTGAAATACCCTCGA
1 GTTTA-AAAATTACTGAAATACCCTC-A
* * *
11771718 CTTGT-AAAATTACTGAAGTACCCCCA
1 GTT-TAAAAATTACTGAAATACCCTCA
11771744 GTTTACAAAATTACTGAAATACCCTCA
1 GTTTA-AAAATTACTGAAATACCCTCA
11771771 GTTTGAAAAATTA
1 GTTT-AAAAATTA
11771784 TCGAAATCTC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.02
26 3 0.05
27 48 0.86
28 3 0.05
29 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (26 bp):
GTTTAAAAATTACTGAAATACCCTCA
Found at i:11781580 original size:31 final size:28
Alignment explanation
Indices: 11781513--11781583 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 28
11781503 AAACCTTATT
* *
11781513 GTTGCGAAAACTTAATTTAAACAAATGA
1 GTTGCGAAAACTGAATTTAAAAAAATGA
* *
11781541 TTTACGAAAACGTGATATTTAAAAAAAATGA
1 GTTGCGAAAAC-TGA-ATTT-AAAAAAATGA
11781572 GTTGCGAAAACT
1 GTTGCGAAAACT
11781584 TAGCGTTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 9 0.26
29 2 0.06
30 5 0.15
31 18 0.53
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (28 bp):
GTTGCGAAAACTGAATTTAAAAAAATGA
Found at i:11782519 original size:27 final size:27
Alignment explanation
Indices: 11782484--11782669 Score: 160
Period size: 27 Copynumber: 6.9 Consensus size: 27
11782474 AAGGGTATAA
*
11782484 CGGTCATTTTACCCTTCGGGGGTATTT
1 CGGTAATTTTACCCTTCGGGGGTATTT
* * *
11782511 CAGTAATTTTTACCCTTTGAGGGTATTT
1 CGGTAA-TTTTACCCTTCGGGGGTATTT
* * *
11782539 CGGAAATTTTACCCTT-TGGGATATTT
1 CGGTAATTTTACCCTTCGGGGGTATTT
* * * *
11782565 TGGTAATTTTATCCTTCGAGAGTATTT
1 CGGTAATTTTACCCTTCGGGGGTATTT
*
11782592 CGGTAATTTTATCCTTCGGGGGTATTT
1 CGGTAATTTTACCCTTCGGGGGTATTT
* * * * *
11782619 TGATAATTTTACCTTTCAGAGGTATATT
1 CGGTAATTTTACCCTTCGGGGGTAT-TT
** *
11782647 -AATAACTTTACCCTTCGGGGGTA
1 CGGTAATTTTACCCTTCGGGGGTA
11782670 ATCGATCATT
Statistics
Matches: 126, Mismatches: 30, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
26 20 0.16
27 81 0.64
28 25 0.20
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
CGGTAATTTTACCCTTCGGGGGTATTT
Found at i:11782593 original size:53 final size:53
Alignment explanation
Indices: 11782489--11782633 Score: 175
Period size: 53 Copynumber: 2.7 Consensus size: 53
11782479 TATAACGGTC
** * *
11782489 ATTTTACCCTTCGGGGGTATTTCAGTAATTTTTACCCTTTGAGGGTATTTCGGAA
1 ATTTTACCCTTCGGGGGTATTTTGGTAA-TTTTA-CCTTCGAGAGTATTTCGGAA
* * *
11782544 ATTTTACCCTT-TGGGATATTTTGGTAATTTTATCCTTCGAGAGTATTTCGGTA
1 ATTTTACCCTTCGGGGGTATTTTGGTAATTTTA-CCTTCGAGAGTATTTCGGAA
* *
11782597 ATTTTATCCTTCGGGGGTATTTTGATAATTTTACCTT
1 ATTTTACCCTTCGGGGGTATTTTGGTAATTTTACCTT
11782634 TCAGAGGTAT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 36 0.47
54 30 0.39
55 11 0.14
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.46
Consensus pattern (53 bp):
ATTTTACCCTTCGGGGGTATTTTGGTAATTTTACCTTCGAGAGTATTTCGGAA
Found at i:11783051 original size:8 final size:8
Alignment explanation
Indices: 11783024--11783066 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
11783014 GTAGCTGTAC
*
11783024 TTTCGGCT
1 TTTCGGCA
* *
11783032 TTTCAGCT
1 TTTCGGCA
11783040 TTTCGGCA
1 TTTCGGCA
*
11783048 TTTCGGGA
1 TTTCGGCA
11783056 TTTCGGCA
1 TTTCGGCA
11783064 TTT
1 TTT
11783067 GCCGATCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (8 bp):
TTTCGGCA
Found at i:11784156 original size:25 final size:25
Alignment explanation
Indices: 11784106--11784159 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
11784096 TGAACCTCTG
*
11784106 ACCTCCTTACCACACCTGTGATGCC
1 ACCTCCTTACCACACCTATGATGCC
* *
11784131 ACCTCTTTGCCACACCTATG-TCGCC
1 ACCTCCTTACCACACCTATGAT-GCC
11784156 ACCT
1 ACCT
11784160 TGCCACTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.19, C:0.44, G:0.11, T:0.26
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGATGCC
Found at i:11791143 original size:6 final size:6
Alignment explanation
Indices: 11791132--11791228 Score: 167
Period size: 6 Copynumber: 15.8 Consensus size: 6
11791122 ATTTTTCTTA
11791132 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTCTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTT-TT
*
11791182 AATTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
11791229 GGCTCATTCT
Statistics
Matches: 87, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
6 79 0.91
7 5 0.06
8 3 0.03
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:11792640 original size:85 final size:87
Alignment explanation
Indices: 11792456--11792642 Score: 243
Period size: 85 Copynumber: 2.2 Consensus size: 87
11792446 ATTCTCATCA
* * ** * *
11792456 GATCTGACAGTTTAACTGTAACTTATCAGTACAGTGGTTTACCGTACTATACCACTTGTACATCA
1 GATCTGGCAGTTTAACTGCAACTTATCAGTACAGCAGTTTACCGCACTATACCACATGTACATCA
*
11792521 GCTTTGCTGCGTACTATTATCT
66 GCTTTGCTACGTACTATTATCT
* * * *
11792543 GATCTGGTAGTTTAACTGCAACTTATCAGTACAGCAGTTTATCGCACT-T-TCACATGTACGTCA
1 GATCTGGCAGTTTAACTGCAACTTATCAGTACAGCAGTTTACCGCACTATACCACATGTACATCA
* *
11792606 GCTTTGCTATGTACTATTATTT
66 GCTTTGCTACGTACTATTATCT
11792628 GATCTGGCAGTTTAA
1 GATCTGGCAGTTTAA
11792643 ACTATAACAT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 44 0.51
86 1 0.01
87 41 0.48
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (87 bp):
GATCTGGCAGTTTAACTGCAACTTATCAGTACAGCAGTTTACCGCACTATACCACATGTACATCA
GCTTTGCTACGTACTATTATCT
Found at i:11800122 original size:66 final size:67
Alignment explanation
Indices: 11800016--11800167 Score: 207
Period size: 66 Copynumber: 2.3 Consensus size: 67
11800006 GTGTATTGTG
* * * *
11800016 ATATATGTGTAATGTGATGAATGTCTAAATGAGTATGTGGTTGCTATGCAAATTATCTTAAA-AT
1 ATATATGTGTAATGTGATGAATGCCCAAATAAGTATGTGGTTGCTATGCAAATTATCCTAAATAT
*
11800080 GT
66 GA
* *
11800082 ATATATGTGTAATGTGATGTATGCCCAAATAAGTATGTGGTTGTTATGCAAATTATCCTAAATTA
1 ATATATGTGTAATGTGATGAATGCCCAAATAAGTATGTGGTTGCTATGCAAATTATCCTAAA-TA
11800147 TGA
65 TGA
* *
11800150 ACATATGTGTATTGTGAT
1 ATATATGTGTAATGTGAT
11800168 ATGTGTTTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
66 56 0.75
68 19 0.25
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.39
Consensus pattern (67 bp):
ATATATGTGTAATGTGATGAATGCCCAAATAAGTATGTGGTTGCTATGCAAATTATCCTAAATAT
GA
Found at i:11803882 original size:39 final size:40
Alignment explanation
Indices: 11803808--11803883 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
11803798 CACACAGTCA
* * *
11803808 TGTGACTGTCGAATGTGAGACCGTGTGTGAGACACGACTG
1 TGTGACTGTCAAAGGTGAGACCGTGTGAGAGACACGACTG
*
11803848 TGTGAC-GTCAAAGGTGTGACCGTGTGAGCA-ACACGA
1 TGTGACTGTCAAAGGTGAGACCGTGTGAG-AGACACGA
11803884 GCTAGGCCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 24 0.77
40 7 0.23
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.22
Consensus pattern (40 bp):
TGTGACTGTCAAAGGTGAGACCGTGTGAGAGACACGACTG
Found at i:11803978 original size:17 final size:17
Alignment explanation
Indices: 11803952--11803995 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
11803942 TGGGCCAGGC
* *
11803952 CGTGTAGGCCAAATGGG
1 CGTGTGGGCCAAACGGG
*
11803969 CGTGTGGGCCACACGGG
1 CGTGTGGGCCAAACGGG
11803986 CGTGTGGGCC
1 CGTGTGGGCC
11803996 CACATAGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.25, G:0.45, T:0.16
Consensus pattern (17 bp):
CGTGTGGGCCAAACGGG
Found at i:11829157 original size:44 final size:46
Alignment explanation
Indices: 11829069--11829158 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 46
11829059 ACTGTAATAT
11829069 AATAGAACTGTAATCAGTAATTCAATTGTTAGGTTGAATGGAATGA
1 AATAGAACTGTAATCAGTAATTCAATTGTTAGGTTGAATGGAATGA
* * *
11829115 AATAGAACTGTAAT-A-TTATTC-TTGTGTTTGGTTGAATGGAATGA
1 AATAGAACTGTAATCAGTAATTCAAT-TGTTAGGTTGAATGGAATGA
11829159 TGTTGTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.03
44 24 0.60
45 1 0.03
46 14 0.35
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.37
Consensus pattern (46 bp):
AATAGAACTGTAATCAGTAATTCAATTGTTAGGTTGAATGGAATGA
Found at i:11829347 original size:18 final size:17
Alignment explanation
Indices: 11829326--11829360 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11829316 TTATTATTAA
*
11829326 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11829344 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11829361 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11832889 original size:23 final size:23
Alignment explanation
Indices: 11832831--11833157 Score: 240
Period size: 23 Copynumber: 14.3 Consensus size: 23
11832821 TTTGCAGCAC
*
11832831 TTAAACACTTCAATTTACATCAT
1 TTAAACACTTCAATTTACAACAT
* * * * * *
11832854 TTGAGCACATCAATTTATAGCAA
1 TTAAACACTTCAATTTACAACAT
11832877 TTAAACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
* *
11832900 TTAAACACCTCAACTTACAACACT
1 TTAAACACTTCAATTTACAACA-T
* * *
11832924 TT-AACA-TCCCAATTAAGAACAT
1 TTAAACACT-TCAATTTACAACAT
* * *
11832946 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAAC-AT
* *
11832968 -TAAACA-TCTCAATTT-CTAGCAA
1 TTAAACACT-TCAATTTAC-AACAT
* * * * *
11832990 CTAAACAATTCAATTTGCAATAC
1 TTAAACACTTCAATTTACAACAT
11833013 TTAAACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
*
11833036 TTAAACACTTCAATTTGCAACACT
1 TTAAACACTTCAATTTACAACA-T
**
11833060 TT-AACACTTCAATACACAACAT
1 TTAAACACTTCAATTTACAACAT
* **
11833082 TTAAATACTTCAATTTGTAACACT
1 TTAAACACTTCAATTTACAACA-T
*
11833106 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
* *
11833128 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAACAT
*
11833151 TTTAACA
1 TTAAACA
11833158 TCTCTATTAA
Statistics
Matches: 238, Mismatches: 50, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
21 11 0.05
22 18 0.08
23 198 0.83
24 11 0.05
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAACAT
Found at i:11832937 original size:46 final size:46
Alignment explanation
Indices: 11832820--11833157 Score: 283
Period size: 46 Copynumber: 7.4 Consensus size: 46
11832810 ATTATATATT
* * * * * *
11832820 ATTTGCAGCACTTAAACACTTCAATTTACATCATTTGAGCACATCA
1 ATTTGCAACACTTTAACACTTCAATTTACAACATTTAAACACTTCA
** * * * *
11832866 ATTTATAGCAATTAAACACTTCAATTTACAACATTTAAACACCTCA
1 ATTTGCAACACTTTAACACTTCAATTTACAACATTTAAACACTTCA
* * * * * * *
11832912 ACTTACAACACTTTAACA-TCCCAATTAAGAACATTTATACACCTCA
1 ATTTGCAACACTTTAACACT-TCAATTTACAACATTTAAACACTTCA
* * * * ** *
11832958 A-TTACAGCGA--TAAACA-TCTCAATTT-CTAGCAACTAAACAATTCA
1 ATTTGCAAC-ACTTTAACACT-TCAATTTAC-AACATTTAAACACTTCA
* *
11833002 ATTTGCAATACTTAAACACTTCAATTTACAACATTTAAACACTTCA
1 ATTTGCAACACTTTAACACTTCAATTTACAACATTTAAACACTTCA
** *
11833048 ATTTGCAACACTTTAACACTTCAATACACAACATTTAAATACTTCA
1 ATTTGCAACACTTTAACACTTCAATTTACAACATTTAAACACTTCA
* *
11833094 ATTTGTAACACTTTAACACTTCAATTTACAGCATTTAAACACTTCA
1 ATTTGCAACACTTTAACACTTCAATTTACAACATTTAAACACTTCA
* *
11833140 ATTTGCAGCATTTTAACA
1 ATTTGCAACACTTTAACA
11833158 TCTCTATTAA
Statistics
Matches: 237, Mismatches: 47, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
44 25 0.11
45 11 0.05
46 199 0.84
47 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (46 bp):
ATTTGCAACACTTTAACACTTCAATTTACAACATTTAAACACTTCA
Found at i:11833072 original size:113 final size:113
Alignment explanation
Indices: 11832863--11833246 Score: 287
Period size: 113 Copynumber: 3.4 Consensus size: 113
11832853 TTTGAGCACA
* * *
11832863 TCAATTTATAGCAATTAAACACTTCAATTTACAACATTTAAACACCTCAACTTACAACACTTTAA
1 TCAATTTATAGCAACTAAACAATTCAATTTACAACACTTAAACACCTCAACTTACAACACTTTAA
11832928 CATCCCAATTAAGAACATTTATACACCTCAATTACAGCGATAAACATC
66 CATCCCAATTAAGAACATTTATACACCTCAATTACAGCGATAAACATC
* * * * *
11832976 TCAATTTCTAGCAACTAAACAATTCAATTTGCAATACTTAAACACTTCAATTTACAACA-TTTAA
1 TCAATTTATAGCAACTAAACAATTCAATTTACAACACTTAAACACCTCAACTTACAACACTTT-A
* * * * * *
11833040 ACA-CTTCAATT-TGCAACACTTTA-ACACTTCAATACACAAC-ATTTAA-ATAC
65 ACATC-CCAATTAAG-AACA-TTTATACACCTCAAT-TACAGCGA-TAAACAT-C
* * * * * * * * * * *
11833090 TTCAATTTGTAAC-ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTTT
1 -TCAATTTATAGCAAC-TAAACAATTCAATTTACAACACTTAAACACCTCAACTTACAACACTTT
* * * * * *
11833154 AACATCTCTATTAATAATATTTATACACCTCAATTACAGCAATAAAATATC
64 AACATCCCAATTAAGAACATTTATACACCTCAATTACAGCGAT-AAACATC
** * * * **
11833205 TCAATTTCCAACAACTAAACACTTCAAATTACAGTACTTAAA
1 TCAATTTATAGCAACTAAACAATTCAATTTACAACACTTAAA
11833247 TAAGGCTTTA
Statistics
Matches: 216, Mismatches: 38, Indels: 33
0.75 0.13 0.11
Matches are distributed among these distances:
112 5 0.02
113 76 0.35
114 56 0.26
115 73 0.34
116 6 0.03
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (113 bp):
TCAATTTATAGCAACTAAACAATTCAATTTACAACACTTAAACACCTCAACTTACAACACTTTAA
CATCCCAATTAAGAACATTTATACACCTCAATTACAGCGATAAACATC
Found at i:11833176 original size:46 final size:45
Alignment explanation
Indices: 11832991--11833188 Score: 191
Period size: 46 Copynumber: 4.3 Consensus size: 45
11832981 TTCTAGCAAC
* * * * *
11832991 TAAACAATTCAATTTGCAATACTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAACACTTTAACAC-TCTATTAACAACATT
*
11833037 TAAACACTTCAATTTGCAACACTTTAACACT-TCAATACACAACATT
1 TAAACACTTCAATTTGCAACACTTTAACACTCT-ATTA-ACAACATT
* * * * *
11833083 TAAATACTTCAATTTGTAACACTTTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAACACTTTAACAC-TCTATTAACAACATT
* * * *
11833129 TAAACACTTCAATTTGCAGCATTTTAACATCTCTATTAATAATATT
1 TAAACACTTCAATTTGCAACACTTTAACA-CTCTATTAACAACATT
* *
11833175 TATACACCTCAATT
1 TAAACACTTCAATT
11833189 ACAGCAATAA
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
45 3 0.02
46 117 0.94
47 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.36
Consensus pattern (45 bp):
TAAACACTTCAATTTGCAACACTTTAACACTCTATTAACAACATT
Found at i:11834482 original size:28 final size:28
Alignment explanation
Indices: 11834450--11834505 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
11834440 AGTACAGACA
* *
11834450 AAGAAAGATATATTATAGAAGAAAACAT
1 AAGAAAAATATATTATAAAAGAAAACAT
11834478 AAGAAAAATATATTATAAAAGAAAACAT
1 AAGAAAAATATATTATAAAAGAAAACAT
11834506 GAAGTTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.21
Consensus pattern (28 bp):
AAGAAAAATATATTATAAAAGAAAACAT
Found at i:11834890 original size:17 final size:17
Alignment explanation
Indices: 11834864--11834899 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
11834854 CACCACAAAA
11834864 TAAAAAATAT-ATTTTT
1 TAAAAAATATAATTTTT
11834880 TAAAAATATATAATTTTT
1 TAAAAA-ATATAATTTTT
11834898 TA
1 TA
11834900 TAATTATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAAAATATAATTTTT
Found at i:11841929 original size:3 final size:3
Alignment explanation
Indices: 11841900--11841946 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
11841890 ACATCTCAAT
*
11841900 TTC TT- TTC TTC TTT TTC TTTC TCTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC -TTC T-TC TTC TTC TTC TTC TTC TTC TTC
11841946 T
1 T
11841947 ACTGCCTAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:11842185 original size:3 final size:3
Alignment explanation
Indices: 11842177--11842204 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11842167 TACTTTACCC
11842177 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11842205 ATATACTTAC
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):
TTA
Found at i:11842594 original size:30 final size:30
Alignment explanation
Indices: 11842558--11842615 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
11842548 CTGGGCATTT
11842558 CCACACGGGCTGGACACACGCCC-ATGTGAG
1 CCACACGGGCTGGACACAC-CCCTATGTGAG
*
11842588 CCACACGGGTTGGACACACCCCTATGTG
1 CCACACGGGCTGGACACACCCCTATGTG
11842616 CCAGCCCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGACACACCCCTATGTGAG
Found at i:11844184 original size:16 final size:17
Alignment explanation
Indices: 11844153--11844185 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11844143 TTCTACTTTC
*
11844153 ATTTTCGTATTTATTTA
1 ATTTTCGTATTAATTTA
11844170 ATTTTC-TATTAATTTA
1 ATTTTCGTATTAATTTA
11844186 TTTATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTTTCGTATTAATTTA
Found at i:11844803 original size:15 final size:15
Alignment explanation
Indices: 11844785--11844827 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
11844775 TTAAATGTAA
**
11844785 AAAAGAATTATATTTA
1 AAAA-AATTATATTGC
11844801 AAAAAATTAATATTGC
1 AAAAAATT-ATATTGC
11844817 AAAAAATTATA
1 AAAAAATTATA
11844828 AATTAACTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
AAAAAATTATATTGC
Found at i:11849448 original size:19 final size:19
Alignment explanation
Indices: 11849426--11849476 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
11849416 AAAAGGAGAG
*
11849426 AAATACA-AAAATATGTCAA
1 AAATACATAAAA-ATCTCAA
*
11849445 AAATTCATAAAAATCTCAA
1 AAATACATAAAAATCTCAA
11849464 AAA-A-ATAAAAATC
1 AAATACATAAAAATC
11849477 AGAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 9 0.32
19 15 0.54
20 4 0.14
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.22
Consensus pattern (19 bp):
AAATACATAAAAATCTCAA
Found at i:11849585 original size:23 final size:24
Alignment explanation
Indices: 11849562--11849611 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
11849552 ACAAAGAAAG
*
11849562 AGAAAATATGAAAAAAAT-GTAAGA
1 AGAAAATA-AAAAAAAATAGTAAGA
*
11849586 AGAAATTAAAAAAAAATAGTAA-A
1 AGAAAATAAAAAAAAATAGTAAGA
11849609 AGA
1 AGA
11849612 GAGTTAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (24 bp):
AGAAAATAAAAAAAAATAGTAAGA
Found at i:11849778 original size:10 final size:9
Alignment explanation
Indices: 11849761--11849818 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
11849751 TTTTTCCTGA
11849761 TTTTTAT-T
1 TTTTTATAT
*
11849769 TTTTAATAT
1 TTTTTATAT
11849778 TTTTCTGAT-T
1 TTTT-T-ATAT
*
11849788 TTTTGATAT
1 TTTTTATAT
*
11849797 TTTTTGTAT
1 TTTTTATAT
11849806 TTTTT-TAT
1 TTTTTATAT
11849814 TTTTT
1 TTTTT
11849819 TAACTTTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 16 0.39
9 18 0.44
10 5 0.12
11 2 0.05
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (9 bp):
TTTTTATAT
Found at i:11849790 original size:19 final size:19
Alignment explanation
Indices: 11849761--11849818 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
11849751 TTTTTCCTGA
11849761 TTTT-TATTTTTTAATATT
1 TTTTGTATTTTTTAATATT
*
11849779 TTTCTG-ATTTTTTGATATT
1 TTT-TGTATTTTTTAATATT
11849798 TTTTGTATTTTTT--TATT
1 TTTTGTATTTTTTAATATT
11849815 TTTT
1 TTTT
11849819 TAACTTTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 8 0.22
18 5 0.14
19 23 0.64
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTGTATTTTTTAATATT
Found at i:11849818 original size:8 final size:8
Alignment explanation
Indices: 11849761--11849820 Score: 57
Period size: 8 Copynumber: 6.8 Consensus size: 8
11849751 TTTTTCCTGA
11849761 TTTTTATT
1 TTTTTATT
11849769 TTTTAATATT
1 TTTT--TATT
*
11849779 TTTCTGATT
1 TTT-TTATT
11849788 TTTTGATATT
1 TTTT--TATT
11849798 TTTTGTATT
1 TTTT-TATT
11849807 TTTTTATT
1 TTTTTATT
11849815 TTTTTA
1 TTTTTA
11849821 ACTTTATGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 15 0.34
9 14 0.32
10 14 0.32
11 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.77
Consensus pattern (8 bp):
TTTTTATT
Found at i:11850073 original size:11 final size:11
Alignment explanation
Indices: 11850059--11850084 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11850049 AAATTTTAAA
11850059 TTTAAATTTAT
1 TTTAAATTTAT
11850070 TTTAAATTTAT
1 TTTAAATTTAT
11850081 TTTA
1 TTTA
11850085 GGAAAGTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:11859133 original size:19 final size:18
Alignment explanation
Indices: 11859086--11859134 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
11859076 AAACGGTGGC
* *
11859086 AATTTTTATTTATTTATA
1 AATTTTAATTTATATATA
*
11859104 AATATTAAATTTATATATCA
1 AAT-TTTAATTTATATAT-A
11859124 AATTTTAATTT
1 AATTTTAATTT
11859135 TGATTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 18 0.72
20 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTAATTTATATATA
Found at i:11859957 original size:28 final size:28
Alignment explanation
Indices: 11859915--11859968 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
11859905 TTTTTCAAAA
11859915 TTTTAGAATTAAGTCCCTGTACTTTTAT
1 TTTTAGAATTAAGTCCCTGTACTTTTAT
* * * *
11859943 TTTTAGGATTTAGTCTCTTTACTTTT
1 TTTTAGAATTAAGTCCCTGTACTTTT
11859969 TAAAATTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.56
Consensus pattern (28 bp):
TTTTAGAATTAAGTCCCTGTACTTTTAT
Found at i:11862129 original size:33 final size:33
Alignment explanation
Indices: 11862087--11862239 Score: 120
Period size: 33 Copynumber: 4.5 Consensus size: 33
11862077 AATATAAAGG
11862087 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
11862120 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
* *
11862162 GGTTGCTAAGGGCTGATTCCCC---T-A-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
11862189 GGTTGCTAAGTGCTGATTCCCCAATTCATCGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
11862222 GGGTGCTAAGTGCTGATT
1 GGTTGCTAAGTGCTGATT
11862240 TCGGGAGGAA
Statistics
Matches: 98, Mismatches: 7, Indels: 30
0.73 0.05 0.22
Matches are distributed among these distances:
27 21 0.21
28 2 0.02
30 1 0.01
31 1 0.01
32 2 0.02
33 38 0.39
34 3 0.03
35 2 0.02
37 2 0.02
38 2 0.02
39 1 0.01
41 2 0.02
42 21 0.21
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:11868286 original size:11 final size:13
Alignment explanation
Indices: 11868270--11868303 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
11868260 AATTTTACGG
11868270 AAAAATTTCG-T-
1 AAAAATTTCGTTC
11868281 AAAAATTTCGTTC
1 AAAAATTTCGTTC
11868294 AAAAATTTCG
1 AAAAATTTCG
11868304 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:11882802 original size:54 final size:54
Alignment explanation
Indices: 11882716--11882825 Score: 177
Period size: 54 Copynumber: 2.0 Consensus size: 54
11882706 ACACAACTAA
* *
11882716 CTCAACCACAAGCAAGTGATTAACCAAGCAAATCCAAGCTTTAATTTTGATTAC
1 CTCAACCACAAGCAAGTGATTAACCAAACAAATCCAAGCTTTAATTTCGATTAC
*
11882770 CTCAACCACAA-CTAAGTGATTAACCAAACAAATCCAAGCTTTAATTTCGGTTAC
1 CTCAACCACAAGC-AAGTGATTAACCAAACAAATCCAAGCTTTAATTTCGATTAC
11882824 CT
1 CT
11882826 TGATCCTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 1 0.02
54 51 0.98
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.26
Consensus pattern (54 bp):
CTCAACCACAAGCAAGTGATTAACCAAACAAATCCAAGCTTTAATTTCGATTAC
Found at i:11885102 original size:14 final size:14
Alignment explanation
Indices: 11885083--11885115 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
11885073 AATCTATCCA
11885083 CAATCACCTAGATC
1 CAATCACCTAGATC
11885097 CAATCACCTAGATC
1 CAATCACCTAGATC
*
11885111 GAATC
1 CAATC
11885116 CTTATGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.33, G:0.09, T:0.21
Consensus pattern (14 bp):
CAATCACCTAGATC
Found at i:11888896 original size:24 final size:24
Alignment explanation
Indices: 11888851--11888897 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11888841 ATTTTTTATT
* *
11888851 ATACTATTATTTTTTTGAATTACC
1 ATACTATGATTTTTATGAATTACC
11888875 ATACTATGATTTTTGATG-ATTAC
1 ATACTATGATTTTT-ATGAATTAC
11888898 TATTTAGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (24 bp):
ATACTATGATTTTTATGAATTACC
Found at i:11895037 original size:17 final size:18
Alignment explanation
Indices: 11895001--11895042 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
11894991 AATAATTACT
11895001 TTGAAATGACAAATGATA
1 TTGAAATGACAAATGATA
* *
11895019 TTGAAATG-GAAATGCTA
1 TTGAAATGACAAATGATA
11895036 TTGAAAT
1 TTGAAAT
11895043 AGCAAATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (18 bp):
TTGAAATGACAAATGATA
Found at i:11904125 original size:23 final size:23
Alignment explanation
Indices: 11904099--11904146 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
11904089 GACGAATCCT
* *
11904099 GTGATGCCTATGTGGCATATTTG
1 GTGATGCCTATGTGGAAGATTTG
* *
11904122 GTGATGTCTGTGTGGAAGATTTG
1 GTGATGCCTATGTGGAAGATTTG
11904145 GT
1 GT
11904147 TATCCACCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.08, G:0.35, T:0.40
Consensus pattern (23 bp):
GTGATGCCTATGTGGAAGATTTG
Found at i:11917585 original size:19 final size:19
Alignment explanation
Indices: 11917561--11917653 Score: 86
Period size: 19 Copynumber: 5.1 Consensus size: 19
11917551 AATAAATTAC
*
11917561 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
11917580 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * * *
11917599 TGC-T-GAAATAAATT-ACT
1 T-CATCTTAGTTAATTAAGT
11917616 T-ATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
11917634 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
11917653 T
1 T
11917654 GCTTAAATCA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.02
17 9 0.16
18 9 0.16
19 37 0.65
20 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:11917609 original size:54 final size:54
Alignment explanation
Indices: 11917542--11917661 Score: 195
Period size: 54 Copynumber: 2.2 Consensus size: 54
11917532 TTAAGTATTT
* *
11917542 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGAAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
* *
11917596 AGTTGCTGAAATAAATTACTTATCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGAAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
11917650 AGTTGCTTAAAT
1 AGTTGCTGAAAT
11917662 CATTAGTTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (54 bp):
AGTTGCTGAAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:11919794 original size:27 final size:26
Alignment explanation
Indices: 11919763--11919818 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
11919753 AAATGAAACG
*
11919763 AGAAA-AAGAAATTGAGAGAAGAAAAAA
1 AGAAACAA-AAATTGA-AAAAGAAAAAA
*
11919790 AGAAACAAAAATTGAAAAAGAGAAAA
1 AGAAACAAAAATTGAAAAAGAAAAAA
11919816 AGA
1 AGA
11919819 TTGAAGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 12 0.46
27 12 0.46
28 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (26 bp):
AGAAACAAAAATTGAAAAAGAAAAAA
Found at i:11919809 original size:18 final size:17
Alignment explanation
Indices: 11919786--11919830 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
11919776 GAGAGAAGAA
11919786 AAAAAGAAACAAAAATTG
1 AAAAAGAAA-AAAAATTG
*
11919804 AAAAAGAGAAAAAGATTG
1 AAAAAGA-AAAAAAATTG
11919822 AAGAAAGAA
1 AA-AAAGAA
11919831 CAGAAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (17 bp):
AAAAAGAAAAAAAATTG
Found at i:11922035 original size:28 final size:28
Alignment explanation
Indices: 11921995--11922054 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
11921985 TCACAGAGAT
* * *
11921995 AGTCTATCGGGATAGTAAACACCAGTTA
1 AGTCTATCAGGATAGTAAACACAAGGTA
*
11922023 AGTCTGTCAGGATAGTAAACACAAGGTA
1 AGTCTATCAGGATAGTAAACACAAGGTA
11922051 AGTC
1 AGTC
11922055 CAATAAGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (28 bp):
AGTCTATCAGGATAGTAAACACAAGGTA
Found at i:11933339 original size:14 final size:14
Alignment explanation
Indices: 11933320--11933347 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11933310 AAAGTCTGTC
11933320 GAAGTCATTTTCAA
1 GAAGTCATTTTCAA
11933334 GAAGTCATTTTCAA
1 GAAGTCATTTTCAA
11933348 AATTCCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GAAGTCATTTTCAA
Found at i:11941993 original size:30 final size:30
Alignment explanation
Indices: 11941957--11942016 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
11941947 TGGATGAAAG
11941957 CTATTTTTCATGAGGGAAATCGACAAGGGA
1 CTATTTTTCATGAGGGAAATCGACAAGGGA
11941987 CTATTTTTCATGAGGGAAATCGACAAGGGA
1 CTATTTTTCATGAGGGAAATCGACAAGGGA
11942017 ATGAACAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (30 bp):
CTATTTTTCATGAGGGAAATCGACAAGGGA
Found at i:11944010 original size:27 final size:27
Alignment explanation
Indices: 11943992--11944320 Score: 399
Period size: 27 Copynumber: 12.2 Consensus size: 27
11943982 GGTATAACAA
11943992 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * **
11944019 TCATTTTACCTTATGAGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
11944046 TCATTCTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
11944073 TCATTTTACCCTATTGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
11944100 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
11944127 TCATTCTACCCTATGGAGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* ** * *
11944154 TCATTCTACCCTATATGAGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
11944181 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
11944208 TCATTCTACCCTATGGGAGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
11944235 TCATTCTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
11944262 TCATTTTACTCTAT-AGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
11944288 TTATTTTACCCTATGGGGGAATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
11944315 TCATTT
1 TCATTT
11944321 ATGGACCTCT
Statistics
Matches: 260, Mismatches: 41, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 21 0.08
27 239 0.92
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:11953034 original size:25 final size:25
Alignment explanation
Indices: 11952991--11953052 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
11952981 TTTGACTATT
*
11952991 AATTTAATTTTTTAAATTT-AAATA
1 AATTTAAATTTTTAAATTTAAAATA
*
11953015 AATTTGAAATTTTTATATTTAAAATA
1 AATTT-AAATTTTTAAATTTAAAATA
11953041 AA-TTAAATTTTT
1 AATTTAAATTTTT
11953053 TTGAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 13 0.38
25 14 0.41
26 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
AATTTAAATTTTTAAATTTAAAATA
Found at i:11956477 original size:21 final size:21
Alignment explanation
Indices: 11956448--11956503 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
11956438 TTTATATTCA
*
11956448 AACACACATAAAATCATACAT
1 AACAAACATAAAATCATACAT
11956469 AACAAACATAAAATCATACAT
1 AACAAACATAAAATCATACAT
11956490 AACAAACATAAAAT
1 AACAAACATAAAAT
11956504 AGTAAGTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.62, C:0.20, G:0.00, T:0.18
Consensus pattern (21 bp):
AACAAACATAAAATCATACAT
Found at i:11960824 original size:23 final size:23
Alignment explanation
Indices: 11960784--11960829 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11960774 AAAGTTGACA
*
11960784 GTAATAGTGCAAACTATGATGAT
1 GTAATAATGCAAACTATGATGAT
* *
11960807 GTAATAATGTAAATTATGATGAT
1 GTAATAATGCAAACTATGATGAT
11960830 AGTGATAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (23 bp):
GTAATAATGCAAACTATGATGAT
Found at i:11964401 original size:27 final size:27
Alignment explanation
Indices: 11964360--11964627 Score: 509
Period size: 27 Copynumber: 9.9 Consensus size: 27
11964350 TAGTATTGAC
* *
11964360 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
*
11964387 GCCTACTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11964414 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11964441 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11964468 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11964495 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11964522 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11964549 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11964576 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11964603 GCCTATTTGGGAGGCGCCAATGGTG
1 GCCTATTTGGGAGGCGCCAATGGTG
11964628 NNNNNNNNNN
Statistics
Matches: 237, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 237 1.00
ACGTcount: A:0.15, C:0.19, G:0.40, T:0.25
Consensus pattern (27 bp):
GCCTATTTGGGAGGCGCCAATGGTGGT
Found at i:11971875 original size:19 final size:17
Alignment explanation
Indices: 11971838--11971876 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11971828 TTATATTTTA
*
11971838 AAAAAATTATTTACTAT
1 AAAAAATTATTTACAAT
11971855 AAAAAATTATTTGTACAAT
1 AAAAAATTA-TT-TACAAT
11971874 AAA
1 AAA
11971877 TAATATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAAAATTATTTACAAT
Found at i:11973023 original size:99 final size:99
Alignment explanation
Indices: 11972852--11973049 Score: 360
Period size: 99 Copynumber: 2.0 Consensus size: 99
11972842 GGGGTGCTCC
* *
11972852 AATAACACCTAATTTAGTGGGACTCTTAATTACAGTGGTTACCCAAACATGGCATTACTGTGTAA
1 AATAACACCTAATTCAGTGGGACTCTTAATTACAGTGGTTACCCAAACATGGCATCACTGTGTAA
11972917 TTACACACAATTACACTAAATCCAATTACTAGAT
66 TTACACACAATTACACTAAATCCAATTACTAGAT
*
11972951 AATAACACCTAATTCAGTGGGACTCTTAATTACAGTGGTTATCCAAACATGGCATCACTGTGTAA
1 AATAACACCTAATTCAGTGGGACTCTTAATTACAGTGGTTACCCAAACATGGCATCACTGTGTAA
*
11973016 TTACACACAATTACACTAAATCCATTTACTAGAT
66 TTACACACAATTACACTAAATCCAATTACTAGAT
11973050 GGTTCTCCAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (99 bp):
AATAACACCTAATTCAGTGGGACTCTTAATTACAGTGGTTACCCAAACATGGCATCACTGTGTAA
TTACACACAATTACACTAAATCCAATTACTAGAT
Found at i:11975438 original size:32 final size:31
Alignment explanation
Indices: 11975372--11975447 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
11975362 CTGAAAAAGT
* * *
11975372 CCTTGGTGTGAACATCAGGACTTCGACAGTC
1 CCTTGGTGTGAACATCAAGACTTAGACAGAC
*
11975403 CCTTGGATGTGAACATCAAGAGTTAGAC-GAAC
1 CCTTGG-TGTGAACATCAAGACTTAGACAG-AC
11975435 CCTTAGGTGTGAA
1 CCTT-GGTGTGAA
11975448 TAAAGCAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
31 7 0.18
32 29 0.76
33 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (31 bp):
CCTTGGTGTGAACATCAAGACTTAGACAGAC
Found at i:11983895 original size:51 final size:51
Alignment explanation
Indices: 11983793--11984014 Score: 349
Period size: 51 Copynumber: 4.4 Consensus size: 51
11983783 TGAGTACTTC
*
11983793 TGATCAGTGACAAGTGATAAGTGGTAG-TTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* *
11983843 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGATGCACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* * * *
11983894 TGATAAGTGACAAGTTATAACTGGTAGC-TTAGCTACACTTATTTGATCGG
1 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
*
11983944 TGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
*
11983995 TGACAAGTGACAAGTGATAA
1 TGATAAGTGACAAGTGATAA
11984015 ATATCATCCG
Statistics
Matches: 156, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
50 69 0.44
51 87 0.56
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (51 bp):
TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
Found at i:11983959 original size:101 final size:101
Alignment explanation
Indices: 11983793--11984014 Score: 354
Period size: 101 Copynumber: 2.2 Consensus size: 101
11983783 TGAGTACTTC
* * * *
11983793 TGATCAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGT
1 TGATAAGTGACAAGTGATAACTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
*
11983858 GATAAGTGGTAGCTTTAGATGCACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGATACACTTATCTGATCAG
* * *
11983894 TGATAAGTGACAAGTTATAACTGGTAGCTTAGCTACACTTATTTGATCGGTGACAAGTGACAAGT
1 TGATAAGTGACAAGTGATAACTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
*
11983959 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGATACACTTATCTGATCAG
*
11983995 TGACAAGTGACAAGTGATAA
1 TGATAAGTGACAAGTGATAA
11984015 ATATCATCCG
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 110 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (101 bp):
TGATAAGTGACAAGTGATAACTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
GATAAGTGGTAGCTTTAGATACACTTATCTGATCAG
Found at i:11985314 original size:32 final size:32
Alignment explanation
Indices: 11985251--11985328 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 32
11985241 TCTGAAAAGT
* *
11985251 CCTTGG-TGTGAACATTAGGACTTAGACGGTC
1 CCTTGGATGTGAACATCAAGACTTAGACGGTC
* * *
11985282 CCTTGGATGTGAACATCAAGAGTTGGATGGTC
1 CCTTGGATGTGAACATCAAGACTTAGACGGTC
*
11985314 CATT-GAGTGTGAACA
1 CCTTGGA-TGTGAACA
11985329 AAGCAGCTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
31 8 0.21
32 31 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (32 bp):
CCTTGGATGTGAACATCAAGACTTAGACGGTC
Found at i:11990059 original size:12 final size:12
Alignment explanation
Indices: 11990042--11990066 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11990032 TGATATCTCA
11990042 TATCAACTTATT
1 TATCAACTTATT
11990054 TATCAACTTATT
1 TATCAACTTATT
11990066 T
1 T
11990067 GAGCATGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TATCAACTTATT
Found at i:12007121 original size:24 final size:23
Alignment explanation
Indices: 12007094--12007143 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
12007084 CTGCAAATAT
*
12007094 TGGTGGCTTCGTTCACAACCTACA
1 TGGTGG-TTCGTCCACAACCTACA
*
12007118 TGGTGGTTTGTCCACAACCTACA
1 TGGTGGTTCGTCCACAACCTACA
12007141 TGG
1 TGG
12007144 CAGCTTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (23 bp):
TGGTGGTTCGTCCACAACCTACA
Found at i:12007151 original size:23 final size:23
Alignment explanation
Indices: 12007107--12007152 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12007097 TGGCTTCGTT
** *
12007107 CACAACCTACATGGTGGTTTGTC
1 CACAACCTACATGGCAGCTTGTC
12007130 CACAACCTACATGGCAGCTTGTC
1 CACAACCTACATGGCAGCTTGTC
12007153 TACGAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (23 bp):
CACAACCTACATGGCAGCTTGTC
Found at i:12012009 original size:37 final size:39
Alignment explanation
Indices: 12011960--12012039 Score: 112
Period size: 37 Copynumber: 2.1 Consensus size: 39
12011950 TTCAAAGTAA
* *
12011960 TAAATTGACACCCAGTGTCTCATTGACT-AAA-TCGAAG
1 TAAATTGACACCCAGTGCCTCATCGACTCAAAGTCGAAG
*
12011997 TAAATTGGCACCCAGTGCCTCATCGACTCAAAGTCGAAG
1 TAAATTGACACCCAGTGCCTCATCGACTCAAAGTCGAAG
12012036 -AAAT
1 TAAAT
12012040 CCATGAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 25 0.66
38 7 0.18
39 6 0.16
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (39 bp):
TAAATTGACACCCAGTGCCTCATCGACTCAAAGTCGAAG
Done.