Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 140 of 141
Found at i:45639961 original size:6 final size:6
Alignment explanation
Indices: 45639952--45639992 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
45639942 GCCTGGCCCG
45639952 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATT
45639993 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:45640217 original size:20 final size:20
Alignment explanation
Indices: 45640192--45640330 Score: 65
Period size: 20 Copynumber: 7.2 Consensus size: 20
45640182 CCAGTGTTTC
45640192 AAAAATTTTCGTGTTTTTAA
1 AAAAATTTTCGTGTTTTTAA
** *
45640212 AAAAATCTCCCGTG-TTTT-C
1 AAAAAT-TTTCGTGTTTTTAA
** * * *
45640231 AAAAATTCCCAT-ATTTT-G
1 AAAAATTTTCGTGTTTTTAA
* *
45640249 AA-AATTTTCTTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
*
45640268 AAAAATTTTCGTGTTTTAAA
1 AAAAATTTTCGTGTTTTTAA
** * *
45640288 AAAAAAGTTC-TCGTATTTCA
1 AAAAATTTTCGT-GTTTTTAA
* *
45640308 AAAAATTGTCGTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
45640328 AAA
1 AAA
45640331 TTGACCGTGT
Statistics
Matches: 88, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
17 6 0.07
18 14 0.16
19 9 0.10
20 53 0.60
21 6 0.07
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (20 bp):
AAAAATTTTCGTGTTTTTAA
Found at i:45640253 original size:56 final size:54
Alignment explanation
Indices: 45640167--45640330 Score: 152
Period size: 56 Copynumber: 2.9 Consensus size: 54
45640157 CAGAAATCTT
* *
45640167 CGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATCTCC
1 CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAAT-TCC
** * **
45640222 CGTGTTTTCAAAAATTCCCA-TATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTT
1 CGTGTTTT-AAAAATT-CCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTCC
*
45640277 CGTGTTTTAAAAAAAAAGTTCTC-GTATTTCAAAAAATTGTCGTGTTTTCAAAAA
1 CGTGTTTT----AAAAA-TTC-CAGTATTTC-AAAAATTTTCGTGTTTTCAAAAA
45640331 TTGACCGTGT
Statistics
Matches: 88, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
55 17 0.19
56 34 0.39
57 3 0.03
58 6 0.07
59 8 0.09
60 20 0.23
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (54 bp):
CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTCC
Found at i:45640292 original size:21 final size:21
Alignment explanation
Indices: 45640249--45640312 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
45640239 CCATATTTTG
* *
45640249 AAAATTTTCTTGTTTT-CAAA
1 AAAATTTTCGTGTTTTAAAAA
45640269 AAAATTTTCGTGTTTTAAAAA
1 AAAATTTTCGTGTTTTAAAAA
* * *
45640290 AAAAGTTCTCGTATTTCAAAAA
1 AAAA-TTTTCGTGTTTTAAAAA
45640312 A
1 A
45640313 TTGTCGTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 15 0.41
21 7 0.19
22 15 0.41
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (21 bp):
AAAATTTTCGTGTTTTAAAAA
Found at i:45640301 original size:22 final size:21
Alignment explanation
Indices: 45640266--45640312 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
45640256 TCTTGTTTTC
* * *
45640266 AAAAAAATTTTCGTGTTTTAA
1 AAAAAAATTCTCGTATTTCAA
45640287 AAAAAAAGTTCTCGTATTTCAA
1 AAAAAAA-TTCTCGTATTTCAA
45640309 AAAA
1 AAAA
45640313 TTGTCGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAAAATTCTCGTATTTCAA
Found at i:45640467 original size:18 final size:17
Alignment explanation
Indices: 45640099--45640471 Score: 225
Period size: 17 Copynumber: 21.1 Consensus size: 17
45640089 NNNNAAAAAA
*
45640099 TCGTGTTTC-AAAATTG
1 TCGTGTTTCAAAAATTT
*
45640115 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
45640132 TCGCGTTTCTAAAATTT
1 TCGTGTTTCAAAAATTT
* * *
45640149 TCCTGTTTCAGAAATCT
1 TCGTGTTTCAAAAATTT
*
45640166 TCGTGTTTTAAAAA-TT
1 TCGTGTTTCAAAAATTT
*
45640182 CCAGTGTTTCAAAAATTT
1 TC-GTGTTTCAAAAATTT
* *
45640200 TCGTGTTTTTAAAAAAATCTC
1 TCGTG--TTT-CAAAAAT-TT
* *
45640221 CCGTGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTT
* * * **
45640239 CCATATTTTGAAAATTT
1 TCGTGTTTCAAAAATTT
*
45640256 TCTTGTTTTCAAAAAAATTT
1 TCGTG-TTTC--AAAAATTT
* *
45640276 TCGTGTTTTAAAAAAAAAGTTC
1 TCGTG-TTT---CAAAAA-TTT
* *
45640298 TCGTATTTCAAAAAATTG
1 TCGTGTTTC-AAAAATTT
*
45640316 TCGTGTTTTCAAAAATTGA
1 TCGTG-TTTCAAAAATT-T
* *
45640335 CCGTGTTTC-AAAATTG
1 TCGTGTTTCAAAAATTT
*
45640351 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
*
45640368 TCGTGTTTCTAAAATTT
1 TCGTGTTTCAAAAATTT
*
45640385 TCGTATTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
45640402 TCATGTTTTC-AAAATTT
1 TCGTG-TTTCAAAAATTT
* *
45640419 TGCGTGTTCCAAAAATCT
1 T-CGTGTTTCAAAAATTT
* *
45640437 TCGTGTTTTAAAAAATTC
1 TCGTG-TTTCAAAAATTT
45640455 TCGTGTTTC-AAAATTT
1 TCGTGTTTCAAAAATTT
45640471 T
1 T
45640472 TTTTTTTGGT
Statistics
Matches: 276, Mismatches: 59, Indels: 44
0.73 0.16 0.12
Matches are distributed among these distances:
16 24 0.09
17 131 0.47
18 55 0.20
19 22 0.08
20 25 0.09
21 13 0.05
22 6 0.02
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:45646387 original size:12 final size:11
Alignment explanation
Indices: 45646370--45646468 Score: 66
Period size: 11 Copynumber: 8.9 Consensus size: 11
45646360 TATGCCTAAA
45646370 AAAAAAAGAGAC
1 AAAAAAAGA-AC
45646382 -AAAAAA-AAC
1 AAAAAAAGAAC
*
45646391 AAAAAAAACAAC
1 -AAAAAAAGAAC
*
45646403 AAAAAAGGAAC
1 AAAAAAAGAAC
45646414 AAAACAAA-AAC
1 AAAA-AAAGAAC
*
45646425 AAAACAAA-AAA
1 AAAA-AAAGAAC
45646436 AGAAAAAAGAA-
1 A-AAAAAAGAAC
45646447 AAAACAAAGAA-
1 AAAA-AAAGAAC
45646458 AAGAAAAAGAA
1 AA-AAAAAGAA
45646469 AAATCAAGAT
Statistics
Matches: 75, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
9 2 0.03
10 4 0.05
11 57 0.76
12 12 0.16
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAC
Found at i:45646397 original size:11 final size:11
Alignment explanation
Indices: 45646367--45646471 Score: 70
Period size: 12 Copynumber: 8.9 Consensus size: 11
45646357 TATTATGCCT
*
45646367 AAAAAAAAAAG
1 AAAAAAAAAAC
45646378 AGACAAAAAAAAC
1 A-A-AAAAAAAAC
45646391 AAAAAAAACAAC
1 AAAAAAAA-AAC
**
45646403 AAAAAAGGAAC
1 AAAAAAAAAAC
*
45646414 AAAACAAAAAC
1 AAAAAAAAAAC
45646425 AAAACAAAAAA-
1 AAAA-AAAAAAC
45646436 AGAAAAAAGAAA-
1 A-AAAAAA-AAAC
*
45646448 AAACAAAGAAAAG
1 AAA-AAA-AAAAC
45646461 AAAAAGAAAAA
1 AAAAA-AAAAA
45646472 TCAAGATGAA
Statistics
Matches: 77, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
11 28 0.36
12 35 0.45
13 14 0.18
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:45646417 original size:19 final size:17
Alignment explanation
Indices: 45646369--45646462 Score: 74
Period size: 16 Copynumber: 5.6 Consensus size: 17
45646359 TTATGCCTAA
45646369 AAAAAAAAGAGACAAAA-
1 AAAAAAAAGA-ACAAAAC
45646386 AAAACAAAA-AA-AACAAC
1 AAAA-AAAAGAACAA-AAC
*
45646403 -AAAAAAGGAACAAAAC
1 AAAAAAAAGAACAAAAC
* *
45646419 AAAAACAA-AACAAAAA
1 AAAAAAAAGAACAAAAC
45646435 AAGAAAAAAGAA-AAAAC
1 AA-AAAAAAGAACAAAAC
*
45646452 AAAGAAAAGAA
1 AAAAAAAAGAA
45646463 AAAGAAAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
15 5 0.08
16 28 0.45
17 23 0.37
18 6 0.10
ACGTcount: A:0.82, C:0.10, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAACAAAAC
Found at i:45646422 original size:27 final size:25
Alignment explanation
Indices: 45646384--45646465 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
45646374 AAAGAGACAA
*
45646384 AAAAAACAAAAAAAACAACAAAAAAGG
1 AAAAAAC-AAAAAAA-AACAAAAAAAG
45646411 AACAAAACAAAAACAAAACAAAAAAAG
1 AA-AAAACAAAAA-AAAACAAAAAAAG
*
45646438 --AAAA-AAGAAAAAACAAAGAAAAG
1 AAAAAACAAAAAAAAACAAA-AAAAG
45646461 AAAAA
1 AAAAA
45646466 GAAAAATCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
22 8 0.17
23 9 0.19
24 4 0.08
25 3 0.06
27 17 0.35
28 7 0.15
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (25 bp):
AAAAAACAAAAAAAAACAAAAAAAG
Found at i:45646423 original size:34 final size:33
Alignment explanation
Indices: 45646367--45646454 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
45646357 TATTATGCCT
*
45646367 AAAA-AAAAAAGAGACAAA-AAAAACAAAA-AAA
1 AAAACAAAAAAGA-AAAAACAAAAACAAAACAAA
*
45646398 ACAACAAAAAAGGAACAAAACAAAAACAAAACAAA
1 AAAACAAAAAA-GAA-AAAACAAAAACAAAACAAA
*
45646433 AAAAGAAAAAAGAAAAAACAAA
1 AAAACAAAAAAGAAAAAACAAA
45646455 GAAAAGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
31 3 0.06
32 7 0.15
33 13 0.27
34 13 0.27
35 12 0.25
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (33 bp):
AAAACAAAAAAGAAAAAACAAAAACAAAACAAA
Found at i:45646453 original size:22 final size:22
Alignment explanation
Indices: 45646425--45646471 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
45646415 AAACAAAAAC
45646425 AAAACAAA-AAAAGAAAAAAGAA
1 AAAACAAAGAAAAG-AAAAAGAA
45646447 AAAACAAAGAAAAGAAAAAGAA
1 AAAACAAAGAAAAGAAAAAGAA
45646469 AAA
1 AAA
45646472 TCAAGATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (22 bp):
AAAACAAAGAAAAGAAAAAGAA
Found at i:45647511 original size:74 final size:74
Alignment explanation
Indices: 45647340--45648820 Score: 2094
Period size: 74 Copynumber: 19.9 Consensus size: 74
45647330 TTTCAAGAAA
* * * *
45647340 TATTTTTCAATCTTTGGTTTTTTCAAAAATCAACTCATAATAC-A-AAGGTGAGTTGAGCC-TCG
1 TATTTTTCAAT-TTTCG-TTTTTCAAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTTGG
*
45647402 GTCATGCC-GAGG
63 GCCAT-CCTGAGG
* * **
45647414 TATTTCTTTTAAATTTCCATTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGG
1 TA-TT-TTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGG
*
45647479 TCATCCTGAGG
64 CCATCCTGAGG
45647490 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45647555 ATCCTGAGG
66 ATCCTGAGG
45647564 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45647629 ATCCTGAGG
66 ATCCTGAGG
45647638 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45647703 ATCCTGAGG
66 ATCCTGAGG
45647712 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45647777 ATCCTGAGG
66 ATCCTGAGG
45647786 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45647851 ATCCTGAGG
66 ATCCTGAGG
45647860 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45647925 ATCCTGAGG
66 ATCCTGAGG
45647934 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45647999 ATCCTGAGG
66 ATCCTGAGG
45648008 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45648073 ATCCTGAGG
66 ATCCTGAGG
45648082 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45648147 ATCCTGAGG
66 ATCCTGAGG
45648156 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45648221 ATCCTGAGG
66 ATCCTGAGG
*
45648230 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGTC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45648295 ATCCTGAGG
66 ATCCTGAGG
* * * * * *
45648304 TATTTTTAAATTTTCGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
45648368 ATGCC-GAGG
66 AT-CCTGAGG
* * * * * * *
45648377 TATTTCTTTTAAAATTTCGTGTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
1 TA--T-TTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG
*
45648441 GTCATGCC-GAGG
63 GCCAT-CCTGAGG
* * * * * * *
45648453 TATTTCTTTTAAACTTCCGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
1 TA--T-TTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG
*
45648517 GTCATGCC-GAGG
63 GCCAT-CCTGAGG
* * * * * * *
45648529 TATTTCTTTTAAACTTCCGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
1 TA--T-TTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG
*
45648593 GTCATGCC-GAGG
63 GCCAT-CCTGAGG
* * * * * *
45648605 TATTTCTTTTAAACTTTCGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
1 TA--T-TTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG
*
45648669 GTCATGCC-GAGG
63 GCCAT-CCTGAGG
* * **
45648681 TATTTCTTTTAAATTTCCATTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGG
1 TA-TT-TTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGG
*
45648746 TCATCCTGAGG
64 CCATCCTGAGG
* * *
45648757 TATTTTT-AATTTAT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGCTGAGCCTTGG
1 TATTTTTCAATTT-TCGTTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG
45648820 G
63 G
45648821 TCGCNNNNNN
Statistics
Matches: 1352, Mismatches: 39, Indels: 31
0.95 0.03 0.02
Matches are distributed among these distances:
73 38 0.03
74 873 0.65
75 98 0.07
76 343 0.25
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (74 bp):
TATTTTTCAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCC
ATCCTGAGG
Found at i:45650368 original size:5 final size:5
Alignment explanation
Indices: 45650358--45650382 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45650348 GCTTCTTCTT
45650358 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
45650383 AATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:45650705 original size:17 final size:17
Alignment explanation
Indices: 45650674--45651755 Score: 527
Period size: 17 Copynumber: 60.1 Consensus size: 17
45650664 TTTAAAAAAA
* *
45650674 TCGTG-TTTCAAAATTG
1 TCGTGTTTTAAAAATTT
45650690 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
*
45650707 TCGCGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTT
* * * *
45650724 TCCTGTTTCAGAAATCT
1 TCGTGTTTTAAAAATTT
45650741 TCGTGTTTTAAAAA-TT
1 TCGTGTTTTAAAAATTT
* *
45650757 CCAGTGTTTCAAAAATTT
1 TC-GTGTTTTAAAAATTT
45650775 TCGTGTTTTTAAAAAAATTT
1 TCGTG-TTTT--AAAAATTT
* *
45650795 CCCGTGTTTTCAAAAATTC
1 -TCGTGTTTT-AAAAATTT
* * *
45650814 TCATATTTTGAAAATTT
1 TCGTGTTTTAAAAATTT
*
45650831 TCTTGTTTTCAAAAAAATTT
1 TCGTGTTTT---AAAAATTT
*
45650851 TCGTGTTTTAAAAAAAAAGTTC
1 TCGTGTTTT----AAAAA-TTT
* * *
45650873 TCGTATTTCAAAAAATTG
1 TCGTGTTT-TAAAAATTT
*
45650891 TCGTGTTTTCAAAAATTGA
1 TCGTGTTTT-AAAAATT-T
* * *
45650910 CCGTG-TTTCAAAATTG
1 TCGTGTTTTAAAAATTT
45650926 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
*
45650943 TCGCGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTT
* * * *
45650960 TCCTGTTTCAGAAATCT
1 TCGTGTTTTAAAAATTT
45650977 TCGTGTTTTAAAAA-TT
1 TCGTGTTTTAAAAATTT
* *
45650993 CCAGTGTTTCAAAAATTT
1 TC-GTGTTTTAAAAATTT
45651011 TCGTGTTTTTAAAAAAATTT
1 TCGTG-TTTT--AAAAATTT
* *
45651031 CCCGTGTTTTCAAAAATTC
1 -TCGTGTTTT-AAAAATTT
* * *
45651050 TCATATTTTGAAAATTT
1 TCGTGTTTTAAAAATTT
*
45651067 TCTTGTTTTCAAAAAAATTT
1 TCGTGTTTT---AAAAATTT
*
45651087 TCGTGTTTTAAAAAAAAAGTTC
1 TCGTGTTTT----AAAAA-TTT
* * *
45651109 TCGTATTTCAAAAAATTG
1 TCGTGTTT-TAAAAATTT
*
45651127 TCGTGTTTTCAAAAATTGA
1 TCGTGTTTT-AAAAATT-T
* * *
45651146 CCGTG-TTTCAAAATTG
1 TCGTGTTTTAAAAATTT
45651162 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
*
45651179 TCGCGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTT
* * * *
45651196 TCCTGTTTCAGAAATCT
1 TCGTGTTTTAAAAATTT
45651213 TCGTGTTTTAAAAA-TT
1 TCGTGTTTTAAAAATTT
* *
45651229 CCAGTGTTTCAAAAATTT
1 TC-GTGTTTTAAAAATTT
45651247 TCGTGTTTTTAAAAAAATTT
1 TCGTG-TTTT--AAAAATTT
* *
45651267 CCCGTGTTTTCAAAAATTC
1 -TCGTGTTTT-AAAAATTT
* * *
45651286 TCATATTTTGAAAATTT
1 TCGTGTTTTAAAAATTT
*
45651303 TCTTGTTTTCAAAAAAATTT
1 TCGTGTTTT---AAAAATTT
*
45651323 TCGTGTTTTAAAAAAAAAGTTC
1 TCGTGTTTT----AAAAA-TTT
* * *
45651345 TCGTATTTCAAAAAATTG
1 TCGTGTTT-TAAAAATTT
*
45651363 TCGTGTTTTCAAAAATTGA
1 TCGTGTTTT-AAAAATT-T
* * *
45651382 CCGTG-TTTCAAAATTG
1 TCGTGTTTTAAAAATTT
45651398 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
*
45651415 TCGCGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTT
* * * *
45651432 TCCTGTTTCAGAAATCT
1 TCGTGTTTTAAAAATTT
45651449 TCGTGTTTTAAAAA-TT
1 TCGTGTTTTAAAAATTT
* *
45651465 CCAGTGTTTCAAAAATTT
1 TC-GTGTTTTAAAAATTT
45651483 TCGTGTTTTTAAAAAAATTT
1 TCGTG-TTTT--AAAAATTT
* *
45651503 CCCGTGTTTTCAAAAATTC
1 -TCGTGTTTT-AAAAATTT
* * *
45651522 TCATATTTTGAAAATTT
1 TCGTGTTTTAAAAATTT
*
45651539 TCTTGTTTTCAAAAAAATTT
1 TCGTGTTTT---AAAAATTT
*
45651559 TCGTGTTTTAAAAAAAAAGTTC
1 TCGTGTTTT----AAAAA-TTT
* * *
45651581 TCGTATTTCAAAAAATTG
1 TCGTGTTT-TAAAAATTT
*
45651599 TCGTGTTTTCAAAAATTGA
1 TCGTGTTTT-AAAAATT-T
* * *
45651618 CCGTG-TTTCAAAATTG
1 TCGTGTTTTAAAAATTT
45651634 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
45651651 TCGTGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTT
* * *
45651668 CCGTATTTCAAAAATTT
1 TCGTGTTTTAAAAATTT
* *
45651685 TCATGTTTTCAAAATTT
1 TCGTGTTTTAAAAATTT
** *
45651702 TGCGTGTTCCAAAAATCT
1 T-CGTGTTTTAAAAATTT
*
45651720 TCGTGTTTTAAAAAATTC
1 TCGTGTTTT-AAAAATTT
*
45651738 TCGTGTTTCAAAAATTT
1 TCGTGTTTTAAAAATTT
45651755 T
1 T
45651756 TTTTTTGGTG
Statistics
Matches: 812, Mismatches: 181, Indels: 145
0.71 0.16 0.13
Matches are distributed among these distances:
16 29 0.04
17 376 0.46
18 155 0.19
19 64 0.08
20 108 0.13
21 44 0.05
22 36 0.04
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (17 bp):
TCGTGTTTTAAAAATTT
Found at i:45650792 original size:20 final size:20
Alignment explanation
Indices: 45650767--45650905 Score: 83
Period size: 20 Copynumber: 7.2 Consensus size: 20
45650757 CCAGTGTTTC
45650767 AAAAATTTTCGTGTTTTTAA
1 AAAAATTTTCGTGTTTTTAA
* *
45650787 AAAAATTTCCCGTG-TTTT-C
1 AAAAATTT-TCGTGTTTTTAA
* * *
45650806 AAAAATTCTCAT-ATTTT--
1 AAAAATTTTCGTGTTTTTAA
* * *
45650823 GAAAATTTTCTTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
*
45650843 AAAAATTTTCGTGTTTTAAA
1 AAAAATTTTCGTGTTTTTAA
** * *
45650863 AAAAAAGTTC-TCGTATTTCA
1 AAAAATTTTCGT-GTTTTTAA
* *
45650883 AAAAATTGTCGTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
45650903 AAA
1 AAA
45650906 TTGACCGTGT
Statistics
Matches: 88, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
17 9 0.10
18 9 0.10
19 8 0.09
20 57 0.65
21 5 0.06
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (20 bp):
AAAAATTTTCGTGTTTTTAA
Found at i:45650828 original size:56 final size:54
Alignment explanation
Indices: 45650742--45650905 Score: 161
Period size: 56 Copynumber: 2.9 Consensus size: 54
45650732 CAGAAATCTT
* *
45650742 CGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCC
1 CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTT-C
** * *
45650797 CGTGTTTTCAAAAATTCTCA-TATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTT
1 CGTGTTTT-AAAAATTC-CAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC
*
45650852 CGTGTTTTAAAAAAAAAGTTCTC-GTATTTCAAAAAATTGTCGTGTTTTCAAAAA
1 CGTGTTTT----AAAAA-TTC-CAGTATTTC-AAAAATTTTCGTGTTTTCAAAAA
45650906 TTGACCGTGT
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
55 16 0.18
56 37 0.41
57 2 0.02
58 5 0.06
59 10 0.11
60 20 0.22
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (54 bp):
CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC
Found at i:45650876 original size:22 final size:21
Alignment explanation
Indices: 45650841--45650887 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
45650831 TCTTGTTTTC
* * *
45650841 AAAAAAATTTTCGTGTTTTAA
1 AAAAAAATTCTCGTATTTCAA
45650862 AAAAAAAGTTCTCGTATTTCAA
1 AAAAAAA-TTCTCGTATTTCAA
45650884 AAAA
1 AAAA
45650888 TTGTCGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAAAATTCTCGTATTTCAA
Found at i:45651028 original size:20 final size:20
Alignment explanation
Indices: 45651003--45651141 Score: 83
Period size: 20 Copynumber: 7.2 Consensus size: 20
45650993 CCAGTGTTTC
45651003 AAAAATTTTCGTGTTTTTAA
1 AAAAATTTTCGTGTTTTTAA
* *
45651023 AAAAATTTCCCGTG-TTTT-C
1 AAAAATTT-TCGTGTTTTTAA
* * *
45651042 AAAAATTCTCAT-ATTTT--
1 AAAAATTTTCGTGTTTTTAA
* * *
45651059 GAAAATTTTCTTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
*
45651079 AAAAATTTTCGTGTTTTAAA
1 AAAAATTTTCGTGTTTTTAA
** * *
45651099 AAAAAAGTTC-TCGTATTTCA
1 AAAAATTTTCGT-GTTTTTAA
* *
45651119 AAAAATTGTCGTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
45651139 AAA
1 AAA
45651142 TTGACCGTGT
Statistics
Matches: 88, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
17 9 0.10
18 9 0.10
19 8 0.09
20 57 0.65
21 5 0.06
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (20 bp):
AAAAATTTTCGTGTTTTTAA
Found at i:45651064 original size:56 final size:54
Alignment explanation
Indices: 45650978--45651141 Score: 161
Period size: 56 Copynumber: 2.9 Consensus size: 54
45650968 CAGAAATCTT
* *
45650978 CGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCC
1 CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTT-C
** * *
45651033 CGTGTTTTCAAAAATTCTCA-TATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTT
1 CGTGTTTT-AAAAATTC-CAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC
*
45651088 CGTGTTTTAAAAAAAAAGTTCTC-GTATTTCAAAAAATTGTCGTGTTTTCAAAAA
1 CGTGTTTT----AAAAA-TTC-CAGTATTTC-AAAAATTTTCGTGTTTTCAAAAA
45651142 TTGACCGTGT
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
55 16 0.18
56 37 0.41
57 2 0.02
58 5 0.06
59 10 0.11
60 20 0.22
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (54 bp):
CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC
Found at i:45651088 original size:236 final size:236
Alignment explanation
Indices: 45650675--45651753 Score: 1999
Period size: 236 Copynumber: 4.6 Consensus size: 236
45650665 TTAAAAAAAT
45650675 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
1 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
45650740 TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
66 TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
45650805 CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
131 CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
45650870 TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
196 TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
45650911 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
1 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
45650976 TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
66 TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
45651041 CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
131 CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
45651106 TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
196 TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
45651147 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
1 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
45651212 TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
66 TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
45651277 CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
131 CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
45651342 TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
196 TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
45651383 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
1 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
45651448 TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
66 TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
45651513 CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
131 CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
45651578 TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
196 TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
* * *
45651619 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAA-TTTCCGTATTTCAAAAAT
1 CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCC-TGTTTCAGAAAT
* * * * * * *
45651683 TTTCATGTTTTCAAAATTTTGC-GTGTTCCAAAAATCTTCGTG-TTTT-AAAAAA-TTCTCGTG-
65 CTTCGTGTTTT-AAAA-ATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGT
45651743 TTTCAAAAATT
128 TTTCAAAAATT
45651754 TTTTTTTTGG
Statistics
Matches: 830, Mismatches: 10, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
233 11 0.01
234 7 0.01
235 11 0.01
236 776 0.93
237 22 0.03
238 3 0.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (236 bp):
CGTGTTTCAAAATTGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTTCCTGTTTCAGAAATC
TTCGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCCCGTGTTTT
CAAAAATTCTCATATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTTCGTGTTTTAAAAAAAAAG
TTCTCGTATTTCAAAAAATTGTCGTGTTTTCAAAAATTGAC
Found at i:45651112 original size:22 final size:21
Alignment explanation
Indices: 45651077--45651123 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
45651067 TCTTGTTTTC
* * *
45651077 AAAAAAATTTTCGTGTTTTAA
1 AAAAAAATTCTCGTATTTCAA
45651098 AAAAAAAGTTCTCGTATTTCAA
1 AAAAAAA-TTCTCGTATTTCAA
45651120 AAAA
1 AAAA
45651124 TTGTCGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAAAATTCTCGTATTTCAA
Found at i:45651264 original size:20 final size:20
Alignment explanation
Indices: 45651239--45651377 Score: 83
Period size: 20 Copynumber: 7.2 Consensus size: 20
45651229 CCAGTGTTTC
45651239 AAAAATTTTCGTGTTTTTAA
1 AAAAATTTTCGTGTTTTTAA
* *
45651259 AAAAATTTCCCGTG-TTTT-C
1 AAAAATTT-TCGTGTTTTTAA
* * *
45651278 AAAAATTCTCAT-ATTTT--
1 AAAAATTTTCGTGTTTTTAA
* * *
45651295 GAAAATTTTCTTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
*
45651315 AAAAATTTTCGTGTTTTAAA
1 AAAAATTTTCGTGTTTTTAA
** * *
45651335 AAAAAAGTTC-TCGTATTTCA
1 AAAAATTTTCGT-GTTTTTAA
* *
45651355 AAAAATTGTCGTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
45651375 AAA
1 AAA
45651378 TTGACCGTGT
Statistics
Matches: 88, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
17 9 0.10
18 9 0.10
19 8 0.09
20 57 0.65
21 5 0.06
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (20 bp):
AAAAATTTTCGTGTTTTTAA
Found at i:45651300 original size:56 final size:54
Alignment explanation
Indices: 45651214--45651377 Score: 161
Period size: 56 Copynumber: 2.9 Consensus size: 54
45651204 CAGAAATCTT
* *
45651214 CGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTTAAAAAAATTTCC
1 CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTT-C
** * *
45651269 CGTGTTTTCAAAAATTCTCA-TATTTTGAAAATTTTCTTGTTTTCAAAAAAATTTT
1 CGTGTTTT-AAAAATTC-CAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC
*
45651324 CGTGTTTTAAAAAAAAAGTTCTC-GTATTTCAAAAAATTGTCGTGTTTTCAAAAA
1 CGTGTTTT----AAAAA-TTC-CAGTATTTC-AAAAATTTTCGTGTTTTCAAAAA
45651378 TTGACCGTGT
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
55 16 0.18
56 37 0.41
57 2 0.02
58 5 0.06
59 10 0.11
60 20 0.22
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (54 bp):
CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC
Found at i:45651348 original size:22 final size:21
Alignment explanation
Indices: 45651313--45651359 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
45651303 TCTTGTTTTC
* * *
45651313 AAAAAAATTTTCGTGTTTTAA
1 AAAAAAATTCTCGTATTTCAA
45651334 AAAAAAAGTTCTCGTATTTCAA
1 AAAAAAA-TTCTCGTATTTCAA
45651356 AAAA
1 AAAA
45651360 TTGTCGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAAAATTCTCGTATTTCAA
Found at i:45651500 original size:20 final size:20
Alignment explanation
Indices: 45651475--45651613 Score: 83
Period size: 20 Copynumber: 7.2 Consensus size: 20
45651465 CCAGTGTTTC
45651475 AAAAATTTTCGTGTTTTTAA
1 AAAAATTTTCGTGTTTTTAA
* *
45651495 AAAAATTTCCCGTG-TTTT-C
1 AAAAATTT-TCGTGTTTTTAA
* * *
45651514 AAAAATTCTCAT-ATTTT--
1 AAAAATTTTCGTGTTTTTAA
* * *
45651531 GAAAATTTTCTTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
*
45651551 AAAAATTTTCGTGTTTTAAA
1 AAAAATTTTCGTGTTTTTAA
** * *
45651571 AAAAAAGTTC-TCGTATTTCA
1 AAAAATTTTCGT-GTTTTTAA
* *
45651591 AAAAATTGTCGTGTTTTCAA
1 AAAAATTTTCGTGTTTTTAA
45651611 AAA
1 AAA
45651614 TTGACCGTGT
Statistics
Matches: 88, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
17 9 0.10
18 9 0.10
19 8 0.09
20 57 0.65
21 5 0.06
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (20 bp):
AAAAATTTTCGTGTTTTTAA
Found at i:45651584 original size:22 final size:21
Alignment explanation
Indices: 45651549--45651595 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
45651539 TCTTGTTTTC
* * *
45651549 AAAAAAATTTTCGTGTTTTAA
1 AAAAAAATTCTCGTATTTCAA
45651570 AAAAAAAGTTCTCGTATTTCAA
1 AAAAAAA-TTCTCGTATTTCAA
45651592 AAAA
1 AAAA
45651596 TTGTCGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAAAATTCTCGTATTTCAA
Found at i:45652711 original size:21 final size:21
Alignment explanation
Indices: 45652685--45652730 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
45652675 TCTTGGATGT
45652685 GGGAAA-TTAGGGATTTTAGGG
1 GGGAAAGTTAGGGA-TTTAGGG
*
45652706 GGGAAAGTTGGGGATTTAGGG
1 GGGAAAGTTAGGGATTTAGGG
45652727 GGGA
1 GGGA
45652731 GGGGGGAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.26, C:0.00, G:0.50, T:0.24
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTAGGG
Found at i:45653860 original size:15 final size:16
Alignment explanation
Indices: 45653840--45653869 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45653830 CACGTTTGTA
45653840 CTTATTGTTC-AATTT
1 CTTATTGTTCTAATTT
45653855 CTTATTGTTCTAATT
1 CTTATTGTTCTAATT
45653870 GTTCTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (16 bp):
CTTATTGTTCTAATTT
Found at i:45653884 original size:14 final size:14
Alignment explanation
Indices: 45653865--45653903 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
45653855 CTTATTGTTC
45653865 TAATTGTTCTAATT
1 TAATTGTTCTAATT
45653879 TAATTGTTCTAATT
1 TAATTGTTCTAATT
45653893 TAATTGTTCTA
1 TAATTGTTCTA
45653904 GTTTTAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (14 bp):
TAATTGTTCTAATT
Found at i:45656728 original size:61 final size:62
Alignment explanation
Indices: 45656617--45656734 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 62
45656607 CCACTAATCC
* *
45656617 TAATAACTAACACAATAATAATATTAATAATTTTATATACAAAATAATACTAACTAAAATTAT
1 TAATAACTAACACAAAAATAATACTAAT-ATTTTATATACAAAATAATACTAACTAAAATTAT
*
45656680 TAATAACTAACTACAAAAATAATACTAAT-TTTT-TACTA-ACAATAATACTAACTAA
1 TAATAACTAAC-ACAAAAATAATACTAATATTTTATA-TACAAAATAATACTAACTAA
45656735 CATCTTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
61 18 0.36
62 6 0.12
63 11 0.22
64 15 0.30
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (62 bp):
TAATAACTAACACAAAAATAATACTAATATTTTATATACAAAATAATACTAACTAAAATTAT
Found at i:45656748 original size:3 final size:3
Alignment explanation
Indices: 45656740--45656765 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45656730 ACTAACATCT
45656740 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
45656766 CTATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:45657157 original size:27 final size:27
Alignment explanation
Indices: 45657078--45657158 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
45657068 TGGTTGGCAG
*
45657078 GACTGGTGCCGCCAACCTGGTTCCCTC
1 GACTGGTGCCGCCAACCTGCTTCCCTC
*
45657105 GACTGGTGCCGCCAACCTGCTTCCCTT
1 GACTGGTGCCGCCAACCTGCTTCCCTC
**
45657132 GTTTGGTGCCGCCAACCTGCTTCCCTC
1 GACTGGTGCCGCCAACCTGCTTCCCTC
45657159 CACCCAGGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.10, C:0.41, G:0.23, T:0.26
Consensus pattern (27 bp):
GACTGGTGCCGCCAACCTGCTTCCCTC
Found at i:45657254 original size:27 final size:29
Alignment explanation
Indices: 45657224--45657293 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
45657214 TTAGTTTTTT
45657224 TATATATTTTGGTAAAT-AAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
*
45657251 TATATTTTTTGGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
*
45657280 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
45657294 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.42
28 17 0.45
29 5 0.13
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.41
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAGTTA
Found at i:45659184 original size:2 final size:2
Alignment explanation
Indices: 45659177--45659202 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45659167 NNNNNNNNNN
45659177 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
45659203 TACATACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45680084 original size:26 final size:26
Alignment explanation
Indices: 45680055--45680134 Score: 124
Period size: 26 Copynumber: 3.1 Consensus size: 26
45680045 TTATAAGTTT
45680055 ATAACTACTAAGTAATCCTATTGCTC
1 ATAACTACTAAGTAATCCTATTGCTC
* *
45680081 ATAACTACCAAATAATCCTATTGCTC
1 ATAACTACTAAGTAATCCTATTGCTC
* *
45680107 ATAACAACTAAGTAATCCTATTACTC
1 ATAACTACTAAGTAATCCTATTGCTC
45680133 AT
1 AT
45680135 CAAGCTAAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
ATAACTACTAAGTAATCCTATTGCTC
Found at i:45683353 original size:24 final size:24
Alignment explanation
Indices: 45683326--45683371 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
45683316 TATGAAGAAC
45683326 CTTAAATTTAAAAATGATTATAGG
1 CTTAAATTTAAAAATGATTATAGG
45683350 CTTAAATTTAAAAATGATTATA
1 CTTAAATTTAAAAATGATTATA
45683372 AGTGGACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (24 bp):
CTTAAATTTAAAAATGATTATAGG
Found at i:45684073 original size:96 final size:96
Alignment explanation
Indices: 45683961--45684177 Score: 256
Period size: 96 Copynumber: 2.2 Consensus size: 96
45683951 TGTTTATTAT
* * * *
45683961 TTTTTAACAAAAAATCAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAATAGT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATT-AAAAATAGT
*
45684026 TA-AAAATCAGATAATGGTTTAGAGTTAAGGG
65 TATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* * * * * **
45684057 TTTTTAAGGAAAAATCAAATAAATTGGGGTTCAGGGTTACTTGAGTAAATTAATTATATATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATAGTT
* * * *
45684122 ATAAAATTAGATTAGGGTTTAGTGTTTAGGG
66 ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
*
45684153 TTTTTAAGTAAAAACTCAAATAAAT
1 TTTTTAAG-AAAAAATCAAATAAAT
45684178 AAGGATTTGG
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
95 7 0.07
96 80 0.79
97 14 0.14
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.38
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATAGTT
ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
Found at i:45688096 original size:18 final size:18
Alignment explanation
Indices: 45688070--45688112 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
45688060 GACTAGAAAA
* * *
45688070 AGGAAACATATAAGAGTT
1 AGGATACATAAAAGAGCT
*
45688088 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGAGCT
45688106 AGGATAC
1 AGGATAC
45688113 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGAGCT
Found at i:45689961 original size:12 final size:12
Alignment explanation
Indices: 45689944--45690000 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
45689934 CTTTTAAATA
*
45689944 GAAATTTGAGTG
1 GAAATTTGAGAG
45689956 GAAA-TTGAGAG
1 GAAATTTGAGAG
45689967 GAAATTTGAGA-
1 GAAATTTGAGAG
*
45689978 GAATATTAGAGA-
1 GAA-ATTTGAGAG
45689990 GAAA-TTGAGAG
1 GAAATTTGAGAG
45690001 AAAGGATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 5 0.13
11 14 0.36
12 20 0.51
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
GAAATTTGAGAG
Found at i:45689969 original size:11 final size:11
Alignment explanation
Indices: 45689944--45690000 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
45689934 CTTTTAAATA
*
45689944 GAAATTTGAGTG
1 GAAA-TTGAGAG
45689956 GAAATTGAGAG
1 GAAATTGAGAG
45689967 GAAATTTGAGA-
1 GAAA-TTGAGAG
45689978 GAATATT-AGAG
1 GAA-ATTGAGAG
45689989 AGAAATTGAGAG
1 -GAAATTGAGAG
45690001 AAAGGATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
10 3 0.08
11 18 0.46
12 18 0.46
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.25
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:45689993 original size:23 final size:21
Alignment explanation
Indices: 45689943--45690003 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
45689933 TCTTTTAAAT
*
45689943 AGAAATTTGAGTGGAAATTGAG
1 AGAAATTTGAG-AGAAATTGAG
45689965 AGGAAATTTGAGAGAATATTAGAG
1 A-GAAATTTGAGAGAA-ATT-GAG
45689989 AGAAA-TTGAGAGAAA
1 AGAAATTTGAGAGAAA
45690004 GGATTTAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 1 0.03
22 13 0.37
23 17 0.49
24 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
AGAAATTTGAGAGAAATTGAG
Found at i:45689999 original size:10 final size:10
Alignment explanation
Indices: 45689956--45690003 Score: 60
Period size: 12 Copynumber: 4.4 Consensus size: 10
45689946 AATTTGAGTG
45689956 GAAATTGAGA
1 GAAATTGAGA
45689966 GGAAATTTGAGA
1 -GAAA-TTGAGA
45689978 GAATATTAGAGA
1 GAA-ATT-GAGA
45689990 GAAATTGAGA
1 GAAATTGAGA
45690000 GAAA
1 GAAA
45690004 GGATTTAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.24
11 12 0.35
12 14 0.41
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (10 bp):
GAAATTGAGA
Found at i:45690899 original size:22 final size:21
Alignment explanation
Indices: 45690874--45690928 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 21
45690864 AATAAGAATA
45690874 ATAAAAACATATTTAAAAATT-T
1 ATAAAAACATA-TT-AAAATTCT
45690896 ATAAAAACATATTAAAATTCT
1 ATAAAAACATATTAAAATTCT
45690917 ATAAAAATCATA
1 ATAAAAA-CATA
45690929 AAAAGTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.19
21 10 0.32
22 15 0.48
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAACATATTAAAATTCT
Found at i:45691425 original size:20 final size:18
Alignment explanation
Indices: 45691402--45691521 Score: 67
Period size: 20 Copynumber: 6.6 Consensus size: 18
45691392 ATTTTTTAGT
45691402 ATTTTTATAAGTTTATATCA
1 ATTTTTATAA-TTTATAT-A
* *
45691422 ATTTTAAT-ATTTTTA-A
1 ATTTTTATAATTTATATA
45691438 TATTTTTATAATATT-TATA
1 -ATTTTTATAAT-TTATATA
45691457 AGTTTTTATATTATTT-TATA
1 A-TTTTTATA--ATTTATATA
*
45691477 ATTTTAATAAGTTTATATTA
1 ATTTTTATAA-TTTATA-TA
*
45691497 ATTTTAAT-ATTT-T-T-
1 ATTTTTATAATTTATATA
45691511 ATTTTTATAAT
1 ATTTTTATAAT
45691522 ATTTTTTTGA
Statistics
Matches: 84, Mismatches: 5, Indels: 27
0.72 0.04 0.23
Matches are distributed among these distances:
14 7 0.08
15 3 0.04
16 1 0.01
17 9 0.11
18 16 0.19
19 22 0.26
20 24 0.29
21 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTTTATAATTTATATA
Found at i:45691437 original size:9 final size:9
Alignment explanation
Indices: 45691423--45691527 Score: 65
Period size: 9 Copynumber: 11.4 Consensus size: 9
45691413 TTTATATCAA
45691423 TTTTAATAT
1 TTTTAATAT
45691432 TTTTAATATT
1 TTTTAATA-T
45691442 TTTATAATAT
1 TTT-TAATAT
* *
45691452 TTATAA-GT
1 TTTTAATAT
45691460 TTTT-ATAT
1 TTTTAATAT
* *
45691468 TATTTTATAA
1 T-TTTAATAT
45691478 TTTTAATAAGT
1 TTTTAAT-A-T
* * *
45691489 TTATATTAA
1 TTTTAATAT
45691498 TTTTAATAT
1 TTTTAATAT
45691507 TTTT-AT-T
1 TTTTAATAT
45691514 TTTATAATAT
1 TTT-TAATAT
45691524 TTTT
1 TTTT
45691528 TTGAATTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
7 5 0.07
8 9 0.12
9 32 0.44
10 17 0.23
11 10 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:45691463 original size:29 final size:29
Alignment explanation
Indices: 45691403--45691526 Score: 83
Period size: 29 Copynumber: 4.5 Consensus size: 29
45691393 TTTTTTAGTA
*
45691403 TTTTTATAAGT-TTATATCAATTTTAAT-A-
1 TTTTTATAA-TATTTTAT-AATTTTAATAAG
45691431 -TTTT-TAATATTTTTATAATATTT-ATAAG
1 TTTTTATAATA-TTTTATAAT-TTTAATAAG
*
45691459 TTTTTATATTATTTTATAATTTTAATAAG
1 TTTTTATAATATTTTATAATTTTAATAAG
* *
45691488 TTTATATTA-ATTTTA-ATATTTT--T-A-
1 TTTTTATAATATTTTATA-ATTTTAATAAG
45691512 TTTTTATAATATTTT
1 TTTTTATAATATTTT
45691527 TTTGAATTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
24 7 0.09
25 7 0.09
26 9 0.11
27 14 0.18
28 14 0.18
29 24 0.30
30 4 0.05
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTTATAATATTTTATAATTTTAATAAG
Found at i:45691492 original size:46 final size:46
Alignment explanation
Indices: 45691405--45691493 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
45691395 TTTTAGTATT
* **
45691405 TTTATAAGTTTATATCAATTTTAATATTTTTAATATTTTTATAATA
1 TTTATAAGTTTATATCAATTTTAATAATTTTAATAAGTTTATAATA
*
45691451 TTTATAAGTTTTTATAT-TATTTT-ATAATTTTAATAAGTTTATA
1 TTTATAAG--TTTATATCAATTTTAATAATTTTAATAAGTTTATA
45691494 TTAATTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 25 0.68
47 5 0.14
48 7 0.19
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (46 bp):
TTTATAAGTTTATATCAATTTTAATAATTTTAATAAGTTTATAATA
Found at i:45691504 original size:75 final size:72
Alignment explanation
Indices: 45691381--45691525 Score: 213
Period size: 75 Copynumber: 2.0 Consensus size: 72
45691371 AATCCAGTTC
*
45691381 AAGTTTTTATGATTTTTTAGTATTTTTATAAGTTTATATCAATTTTAATATTTTTAATATTTTTA
1 AAGTTTTTATGATTTTTTAGTATTTTAATAAGTTTATATCAATTTTAATA-TTTT--TATTTTTA
45691446 TAATATTTAT
63 TAATATTTAT
*
45691456 AAGTTTTTAT-ATTATTTTA-TAATTTTAATAAGTTTATATTAATTTTAATATTTTTATTTTTAT
1 AAGTTTTTATGATT-TTTTAGT-ATTTTAATAAGTTTATATCAATTTTAATATTTTTATTTTTAT
45691519 AATATTT
64 AATATTT
45691526 TTTTGAATTT
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
72 16 0.24
74 8 0.12
75 42 0.64
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (72 bp):
AAGTTTTTATGATTTTTTAGTATTTTAATAAGTTTATATCAATTTTAATATTTTTATTTTTATAA
TATTTAT
Found at i:45691540 original size:19 final size:17
Alignment explanation
Indices: 45691423--45691549 Score: 60
Period size: 20 Copynumber: 6.9 Consensus size: 17
45691413 TTTATATCAA
45691423 TTTTAATATTTTTAATATT
1 TTTTAATATTTTT-AT-TT
* **
45691442 TTTATAATATTTATAAGT
1 TTT-TAATATTTTTATTT
**
45691460 TTTT-ATATTATTTTATAA
1 TTTTAATA-T-TTTTATTT
* *
45691478 TTTTAATAAGTTTATATTAA
1 TTTTAAT-A-TTTTTATT-T
45691498 TTTTAATATTTTTATTT
1 TTTTAATATTTTTATTT
*
45691515 TTATAATATTTTT-TTGAAT
1 TTTTAATATTTTTATT---T
45691534 TTTTAATCATTTTTAT
1 TTTTAAT-ATTTTTAT
45691550 GTGAAAAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.06
17 14 0.17
18 19 0.23
19 19 0.23
20 25 0.30
21 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTAATATTTTTATTT
Found at i:45691818 original size:26 final size:26
Alignment explanation
Indices: 45691789--45691850 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
45691779 CTTTCCACAA
*
45691789 TTAAAATAAATAATATTAGTTATCAT
1 TTAAAATAAATAATATTAGTCATCAT
45691815 TTAAAATAAATAATATTAGTCATCAT
1 TTAAAATAAATAATATTAGTCATCAT
45691841 TCTAATAATA
1 T-TAA-AATA
45691851 TTAGTTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 26 0.79
27 3 0.09
28 4 0.12
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.40
Consensus pattern (26 bp):
TTAAAATAAATAATATTAGTCATCAT
Found at i:45695003 original size:13 final size:14
Alignment explanation
Indices: 45694979--45695011 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
45694969 GACACCGGAT
45694979 TATTTTTAAATAAG
1 TATTTTTAAATAAG
45694993 TATTTTT-AATAAG
1 TATTTTTAAATAAG
45695006 T-TTTTT
1 TATTTTT
45695012 TTATTGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 7 0.37
14 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TATTTTTAAATAAG
Found at i:45700066 original size:16 final size:17
Alignment explanation
Indices: 45700023--45700067 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
45700013 TAATAAATCT
**
45700023 TTAAAAAATCCATAAAA
1 TTAAAAAATTAATAAAA
*
45700040 TTAATAAATTAATAAAA
1 TTAAAAAATTAATAAAA
45700057 -TAAAAAATTAA
1 TTAAAAAATTAA
45700068 ATTGAAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAATTAATAAAA
Found at i:45703990 original size:26 final size:27
Alignment explanation
Indices: 45703937--45703993 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
45703927 TATGGTGGAC
45703937 AAAAAAAAATCAAATACCAAGTTAGGG
1 AAAAAAAAATCAAATACCAAGTTAGGG
*
45703964 AAAAAAAACAT-AAGTACCAAGTT-GGG
1 AAAAAAAA-ATCAAATACCAAGTTAGGG
45703990 AAAA
1 AAAA
45703994 TGTGTCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 7 0.25
27 19 0.68
28 2 0.07
ACGTcount: A:0.60, C:0.11, G:0.16, T:0.14
Consensus pattern (27 bp):
AAAAAAAAATCAAATACCAAGTTAGGG
Found at i:45704494 original size:29 final size:30
Alignment explanation
Indices: 45704461--45704523 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
45704451 ACTACCCAAA
* *
45704461 AAACAACTTTAACCCAAATCC-ACTATCCT
1 AAACAACTTTAACCCAAACCCAACTAGCCT
*
45704490 AAACAGCTTTAACCCAAACCCAACTAGCCT
1 AAACAACTTTAACCCAAACCCAACTAGCCT
45704520 AAAC
1 AAAC
45704524 CCAAAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.43, C:0.35, G:0.03, T:0.19
Consensus pattern (30 bp):
AAACAACTTTAACCCAAACCCAACTAGCCT
Found at i:45716268 original size:44 final size:44
Alignment explanation
Indices: 45716202--45716301 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 44
45716192 CCTGCGTCAA
* *
45716202 CAGT-GAAGTAGATTGAAGATTACAAGTCCTATGTCCCTGACCAG
1 CAGTGGAA-TAGATTGAAGATTACAAGTCCTATCTCCCTAACCAG
* * *
45716246 CAGTGGAATAGATTGGAA-ATTACGAGTCTTATCTCCCTAAGCAG
1 CAGTGGAATAGATT-GAAGATTACAAGTCCTATCTCCCTAACCAG
* *
45716290 TAGTGGAGTAGA
1 CAGTGGAATAGA
45716302 CAGAAGAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 41 0.87
45 6 0.13
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (44 bp):
CAGTGGAATAGATTGAAGATTACAAGTCCTATCTCCCTAACCAG
Found at i:45716430 original size:44 final size:44
Alignment explanation
Indices: 45716313--45716435 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
45716303 AGAAGAAATC
* * * *
45716313 AATCCTATCTCTCTGAGGTCACAGTGGGGCAGACTGAAGTTAGA
1 AATCCTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGTTAGA
* * * *
45716357 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTT-GT
1 AATCCTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG-TTAGA
* *
45716401 AATCCTATCTCCCTGAGGTTATAGTGGAGCGGATT
1 AATCCTATCTCCCTGAGGTTACAGTGGAGCAGATT
45716436 AAAACAAAGG
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 63 0.97
45 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (44 bp):
AATCCTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGTTAGA
Found at i:45716706 original size:44 final size:44
Alignment explanation
Indices: 45716633--45716809 Score: 124
Period size: 44 Copynumber: 3.8 Consensus size: 44
45716623 NNNNNNNAGA
* *
45716633 AATCTTATCTCCCTTGAGATTACA-CGGAGCAGATTGAAGCTAGT
1 AATCCTATCTCCC-TGAGATTACAGTGGAGCAGATTGAAGCTAGT
* * * *
45716677 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACAAAT
1 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT
* * *
45716721 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGT
1 AATCCTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGT
* * *
45716775 AATCCTATCTCCTTGAGATTATAGTGGAGCGGATT
1 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATT
45716810 AAAATAAAGG
Statistics
Matches: 101, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
43 11 0.11
44 52 0.51
47 2 0.02
49 4 0.04
51 2 0.02
54 29 0.29
55 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT
Found at i:45716836 original size:98 final size:98
Alignment explanation
Indices: 45716662--45716870 Score: 355
Period size: 98 Copynumber: 2.1 Consensus size: 98
45716652 TTACACGGAG
*
45716662 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACAAATGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACAAAGGATCTT
*
45716727 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 ATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
* * * *
45716760 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACAAAGGATCTT
*
45716825 ATCTCTTTGAAGTTACAGCAGAGTAGATCGCAT
66 ATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
45716858 CAGATTGAAGCTA
1 CAGATTGAAGCTA
45716871 CAACAACAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 104 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (98 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACAAAGGATCTT
ATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
Found at i:45717272 original size:30 final size:29
Alignment explanation
Indices: 45717236--45717297 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
45717226 CTAACGACCT
45717236 AAATCCACTACCCAAAAACAACTTTAACCC
1 AAATCCACTACCC-AAAACAACTTTAACCC
* * *
45717266 AAATCCACTATCCTAAACAGCTTTAACCC
1 AAATCCACTACCCAAAACAACTTTAACCC
45717295 AAA
1 AAA
45717298 CCCAACTAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (29 bp):
AAATCCACTACCCAAAACAACTTTAACCC
Found at i:45717290 original size:29 final size:29
Alignment explanation
Indices: 45717236--45717313 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
45717226 CTAACGACCT
*
45717236 AAATCCACTACCCAAAAACAACTTTAACCC
1 AAATCCACTACCC-TAAACAACTTTAACCC
* *
45717266 AAATCCACTATCCTAAACAGCTTTAACCC
1 AAATCCACTACCCTAAACAACTTTAACCC
* *
45717295 AAACCCAACTAGCCTAAAC
1 AAATCC-ACTACCCTAAAC
45717314 CCAAAACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.18
Consensus pattern (29 bp):
AAATCCACTACCCTAAACAACTTTAACCC
Found at i:45717313 original size:30 final size:29
Alignment explanation
Indices: 45717251--45717313 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
45717241 CACTACCCAA
* *
45717251 AAACAACTTTAACCCAAATCCACTATCCT
1 AAACAACTTTAACCCAAACCCACTAGCCT
*
45717280 AAACAGCTTTAACCCAAACCCAACTAGCCT
1 AAACAACTTTAACCCAAACCC-ACTAGCCT
45717310 AAAC
1 AAAC
45717314 CCAAAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.43, C:0.35, G:0.03, T:0.19
Consensus pattern (29 bp):
AAACAACTTTAACCCAAACCCACTAGCCT
Found at i:45720462 original size:7 final size:7
Alignment explanation
Indices: 45720450--45720475 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45720440 TTAAATTAAA
45720450 TTAAAAT
1 TTAAAAT
45720457 TTAAAAT
1 TTAAAAT
45720464 TTAAAAT
1 TTAAAAT
45720471 TTAAA
1 TTAAA
45720476 CTCTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAAAT
Found at i:45720482 original size:14 final size:14
Alignment explanation
Indices: 45720447--45720484 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
45720437 AAATTAAATT
45720447 AAAT-TAAAATTTA
1 AAATCTAAAATTTA
*
45720460 AAATTTAAAATTTA
1 AAATCTAAAATTTA
*
45720474 AACTCTAAAAT
1 AAATCTAAAAT
45720485 AAACTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATCTAAAATTTA
Found at i:45731246 original size:51 final size:51
Alignment explanation
Indices: 45731170--45731282 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
45731160 CTAATCAGTA
* *
45731170 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGATAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
* *
45731221 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACGAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
45731272 ACAAGTGATAA
1 ACAAGTGATAA
45731283 ATGTGATCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTG
Found at i:45731405 original size:47 final size:48
Alignment explanation
Indices: 45731293--45731431 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
45731283 ATGTGATCCA
*
45731293 TGTAAGACCATATCTGGGATATGGCATCGATGTGATATGTGATTTCCG
1 TGTAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATTTCCG
*
45731341 GGTAAGACCATATCTGGGATATGGCATCGGTGTGATATGTG-TTTCCG
1 TGTAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATTTCCG
* * * *
45731388 TGTAAGATCATAGCTGGGCTATGGCTTCGGTGTGTGATATGTGA
1 TGTAAGACCATATCTGGGATATGGCATC-G-GTGTGATATGTGA
45731432 CGATGTGCAG
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
47 29 0.36
48 40 0.49
49 12 0.15
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGATTTCCG
Found at i:45737279 original size:68 final size:68
Alignment explanation
Indices: 45737165--45737300 Score: 218
Period size: 68 Copynumber: 2.0 Consensus size: 68
45737155 ATAAAACTTT
* * * *
45737165 CCCTTGTAAGCTTAGTAGTAAATCCAAGTAGCTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
1 CCCTCGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
45737230 TAG
66 TAG
* *
45737233 CCCTCGTAAGCTTAGCCGTAAAACCAAGTAACTTGTTTGAGTTTTACTTAAAAATGTACTCTAAA
1 CCCTCGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
45737298 TAG
66 TAG
45737301 GCTAAGAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (68 bp):
CCCTCGTAAGCTTAGCAGTAAAACCAAGTAACTTATTTGAGTTTTACTTAAAAATGTACTCTAAA
TAG
Found at i:45745566 original size:43 final size:44
Alignment explanation
Indices: 45745513--45745597 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 44
45745503 TTCGGATTCA
* * *
45745513 TTTATATATAT-AGTTGAATCAATTTTAATATATGTTTAATATCC
1 TTTATATATATAAG-TGAATCAAATATAATATAGGTTTAATATCC
45745557 TTTAT-TATATAAGTGAATCAAATATAATATAGGTTTAATAT
1 TTTATATATATAAGTGAATCAAATATAATATAGGTTTAATAT
45745598 AAGAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 30 0.81
44 7 0.19
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (44 bp):
TTTATATATATAAGTGAATCAAATATAATATAGGTTTAATATCC
Found at i:45752545 original size:2 final size:2
Alignment explanation
Indices: 45752538--45752566 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45752528 TGAATTAGTC
45752538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45752567 TAAAATGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45755346 original size:19 final size:22
Alignment explanation
Indices: 45755307--45755349 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
45755297 ATTATTAATA
45755307 TTATTAAAAAATGTAATTTTAT
1 TTATTAAAAAATGTAATTTTAT
45755329 TTATT-AAAAAT-T-ATTTTAT
1 TTATTAAAAAATGTAATTTTAT
45755348 TT
1 TT
45755350 TCATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 1 0.05
21 6 0.29
22 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTAAAAAATGTAATTTTAT
Found at i:45765519 original size:12 final size:12
Alignment explanation
Indices: 45765502--45765526 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45765492 CTGTGAACTA
45765502 TCAAAATCTCAT
1 TCAAAATCTCAT
45765514 TCAAAATCTCAT
1 TCAAAATCTCAT
45765526 T
1 T
45765527 GTTCATACTA
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:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TCAAAATCTCAT
Found at i:45776337 original size:6 final size:6
Alignment explanation
Indices: 45776326--45776350 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
45776316 ATTATTGAAT
45776326 TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA T
45776351 GATTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:45781100 original size:30 final size:30
Alignment explanation
Indices: 45781066--45781127 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
45781056 AATAAATGTG
45781066 TTTGTTTTGCATATGATTTTAATTTGAACT
1 TTTGTTTTGCATATGATTTTAATTTGAACT
45781096 TTTGTTTTGCATATGATTTTAATTTGAACT
1 TTTGTTTTGCATATGATTTTAATTTGAACT
45781126 TT
1 TT
45781128 GATGAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (30 bp):
TTTGTTTTGCATATGATTTTAATTTGAACT
Found at i:45787093 original size:20 final size:21
Alignment explanation
Indices: 45787046--45787093 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
45787036 AATATTAGTT
*
45787046 TTAAT-TAAAATAATATATTT
1 TTAATATAAAATAATATATTA
*
45787066 TTTA-ATAAAATAATA-ATTA
1 TTAATATAAAATAATATATTA
45787085 TTAATATAA
1 TTAATATAA
45787094 TGACATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATATAAAATAATATATTA
Found at i:45790183 original size:17 final size:17
Alignment explanation
Indices: 45790152--45790206 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
45790142 AACAAATATT
45790152 AAATTTAAATGAAATAA
1 AAATTTAAATGAAATAA
45790169 AAATATTAAAT-AAATAGA
1 AAAT-TTAAATGAAATA-A
*
45790187 TAAATTAAAAATG-AATAA
1 -AAATT-TAAATGAAATAA
45790205 AA
1 AA
45790207 TTGGTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
17 11 0.34
18 9 0.28
19 12 0.38
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (17 bp):
AAATTTAAATGAAATAA
Found at i:45790418 original size:16 final size:18
Alignment explanation
Indices: 45790379--45790420 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
45790369 TAAGTTTATA
45790379 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
45790396 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
45790413 A-ATTTATA
1 ATATTTATA
45790421 ACACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:45792541 original size:146 final size:147
Alignment explanation
Indices: 45792270--45792564 Score: 583
Period size: 146 Copynumber: 2.0 Consensus size: 147
45792260 TTAATATATT
45792270 TATATATTTTTTCATTGTTTTACAATATAAAATTAATTTTATTAAAATCAAATAACATTTAAATA
1 TATATATTTTTTCATTGTTTTACAATATAAAATTAATTTTATTAAAATCAAATAACATTTAAATA
45792335 AAATTATTCTAAAATTTCAAATTTTAAACCTAATTCAAACACTTGAAAAAAATGATTTTTCAACC
66 AAATTATTCTAAAATTTCAAATTTTAAACCTAATTCAAACACTTGAAAAAAATGATTTTTCAACC
45792400 ACAAAAAATCCAAATTG
131 ACAAAAAATCCAAATTG
45792417 TATATATTTTTT-ATTGTTTTACAATATAAAATTAATTTTATTAAAATCAAATAACATTTAAATA
1 TATATATTTTTTCATTGTTTTACAATATAAAATTAATTTTATTAAAATCAAATAACATTTAAATA
45792481 AAATTATTCTAAAATTTCAAATTTTAAACCTAATTCAAACACTTGAAAAAAATGATTTTTCAACC
66 AAATTATTCTAAAATTTCAAATTTTAAACCTAATTCAAACACTTGAAAAAAATGATTTTTCAACC
45792546 ACAAAAAATCCAAATTG
131 ACAAAAAATCCAAATTG
45792563 TA
1 TA
45792565 GGAACATTAG
Statistics
Matches: 148, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
146 136 0.92
147 12 0.08
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (147 bp):
TATATATTTTTTCATTGTTTTACAATATAAAATTAATTTTATTAAAATCAAATAACATTTAAATA
AAATTATTCTAAAATTTCAAATTTTAAACCTAATTCAAACACTTGAAAAAAATGATTTTTCAACC
ACAAAAAATCCAAATTG
Found at i:45793055 original size:10 final size:10
Alignment explanation
Indices: 45793040--45793070 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
45793030 GGATGAATTC
45793040 ATAAAATTTT
1 ATAAAATTTT
45793050 ATAAAATTTT
1 ATAAAATTTT
45793060 ATAAAATTTT
1 ATAAAATTTT
45793070 A
1 A
45793071 ATTCAGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:45793346 original size:28 final size:28
Alignment explanation
Indices: 45793297--45793366 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
45793287 AAATAAAAAA
*
45793297 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
*
45793325 TTACCAAAATATATATTA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
45793352 TTACCAAAATATATA
1 TTACCAAAATATATA
45793367 AAAAAAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 24 0.62
28 11 0.28
29 4 0.10
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.50
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:45793540 original size:8 final size:8
Alignment explanation
Indices: 45793524--45793615 Score: 58
Period size: 8 Copynumber: 10.6 Consensus size: 8
45793514 GAAGGAGAGG
*
45793524 GAAAGAAA
1 GAAAAAAA
45793532 GAAAAAAA
1 GAAAAAAA
*
45793540 GAAAGAAA
1 GAAAAAAA
45793548 GAAAAAGAA
1 GAAAAA-AA
45793557 GGAAAGAAAA
1 -GAAA-AAAA
* **
45793567 GGAAAGGA
1 GAAAAAAA
*
45793575 GAAGAGAAGA
1 GAA-A-AAAA
45793585 GAAAAAAA
1 GAAAAAAA
*
45793593 GAAAGAAA
1 GAAAAAAA
45793601 GAAAGAAGAA
1 GAAA-AA-AA
45793611 GAAAA
1 GAAAA
45793616 GGAAAGGAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
8 37 0.56
9 9 0.14
10 18 0.27
11 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:45793609 original size:3 final size:3
Alignment explanation
Indices: 45793574--45793715 Score: 54
Period size: 3 Copynumber: 49.0 Consensus size: 3
45793564 AAAGGAAAGG
* *
45793574 AGA AG- AGA AG- AGA A-A AAA AGAA AGAA AGAA AGA AGA AGA A-A AGG
1 AGA AGA AGA AGA AGA AGA AGA AG-A AG-A AG-A AGA AGA AGA AGA AGA
* * * *
45793618 A-A AGG AGA AGAA AGA AGA GGAA AGG AGA AGA A-A A-A AGAA AGA AAA
1 AGA AGA AGA AG-A AGA AGA AG-A AGA AGA AGA AGA AGA AG-A AGA AGA
* * * * *
45793663 AGA AGG A-A AGA A-A AGG AG- AGG AGA AGA A-A AAA AAA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
45793707 AGA AGA AGA
1 AGA AGA AGA
45793716 GGGAAGGAAG
Statistics
Matches: 109, Mismatches: 16, Indels: 28
0.71 0.10 0.18
Matches are distributed among these distances:
2 20 0.18
3 70 0.64
4 19 0.17
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:45793652 original size:61 final size:56
Alignment explanation
Indices: 45793533--45793691 Score: 175
Period size: 61 Copynumber: 2.8 Consensus size: 56
45793523 GGAAAGAAAG
* * *
45793533 AAAAAAAGAAAGAAAGAAA-AAGAAGGAAAGAAAAGGA-AAG-GAGAAGAGAAGAG-
1 AAAAAAAGAAAGAAA-AAAGAAGAAGAAAAGGAAAGGAGAAGAAAGAAGAGAAGAGA
45793586 AAAAAAAGAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAAAGAAGAGGAAAGGAGA
1 AAAAAAAGAAAGAAA-AAAGAAGAAGAAAAGGAAAGGAGAAGAAAGAAGA-G-AA-GAGA
*
45793646 AGAAAAAAGAAAG-AAAAAGAAGGAAAGAAAAGGAGAGGAGAAGAAA
1 A-AAAAAAGAAAGAAAAAAGAA-G-AAGAAAAGGAAAGGAGAAGAAA
45793692 AAAAAAAGAA
Statistics
Matches: 92, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
53 19 0.21
54 16 0.17
55 3 0.03
56 6 0.07
57 1 0.01
58 2 0.02
59 9 0.10
60 4 0.04
61 32 0.35
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (56 bp):
AAAAAAAGAAAGAAAAAAGAAGAAGAAAAGGAAAGGAGAAGAAAGAAGAGAAGAGA
Found at i:45793678 original size:10 final size:10
Alignment explanation
Indices: 45793523--45793679 Score: 65
Period size: 10 Copynumber: 16.3 Consensus size: 10
45793513 AGAAGGAGAG
45793523 GGAAAG-AAA
1 GGAAAGAAAA
45793532 -GAAA-AAAA
1 GGAAAGAAAA
45793540 -GAAAG-AAA
1 GGAAAGAAAA
45793548 -GAAA-AAGAA
1 GGAAAGAA-AA
45793557 GGAAAGAAAA
1 GGAAAGAAAA
*
45793567 GGAAAGGAGAA
1 GGAAA-GAAAA
45793578 GAGAAGAGAAAA
1 G-GAA-AGAAAA
45793590 --AAAG-AAA
1 GGAAAGAAAA
45793597 -GAAAG-AAA
1 GGAAAGAAAA
*
45793605 GAAGAAGAAAA
1 GGA-AAGAAAA
*
45793616 GGAAAGGAGAA
1 GGAAA-GAAAA
*
45793627 -GAAAGAAGA
1 GGAAAGAAAA
*
45793636 GGAAAGGAGAA
1 GGAAA-GAAAA
*
45793647 -GAAAAAAGAA
1 GGAAAGAA-AA
*
45793657 AGAAA-AAGAA
1 GGAAAGAA-AA
45793667 GGAAAGAAAA
1 GGAAAGAAAA
45793677 GGA
1 GGA
45793680 GAGGAGAAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 37
0.70 0.07 0.22
Matches are distributed among these distances:
7 3 0.03
8 28 0.24
9 9 0.08
10 44 0.38
11 25 0.21
12 7 0.06
13 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GGAAAGAAAA
Found at i:45793708 original size:61 final size:60
Alignment explanation
Indices: 45793525--45793710 Score: 168
Period size: 61 Copynumber: 3.0 Consensus size: 60
45793515 AAGGAGAGGG
*
45793525 AAAGAAAGAAAAAAAGAAAGAAAGAAAAAGAAGGA-AAGAAAAGGAAAGGAGAAG-AGAAG-AGA
1 AAAGAAAG-AAAAAAG-AAGAAAGAAAAGGAAGGAGAAGAAAA--AAA--A-AAGAAGAAGAAG-
45793587 AAA
58 AAA
* * * *
45793590 AAAGAAAGAAAGAAAGAAG-AAGAAAAGGAAAGGAGAAG-AAAGAAGAGGAAAGGAGAAGAAA
1 AAAGAAAGAAA-AAAGAAGAAAGAAAAGG-AAGGAGAAGAAAAAAAAAAG-AAGAAGAAGAAA
45793651 AAAGAAAG-AAAAAGAAGGAAAGAAAAGGAGAGGAGAAGAAAAAAAAAAGAAGAAGAAGAA
1 AAAGAAAGAAAAAAGAA-GAAAGAAAAGGA-AGGAGAAGAAAAAAAAAAGAAGAAGAAGAA
45793711 GAAGAGGGAA
Statistics
Matches: 102, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
59 8 0.08
60 4 0.04
61 42 0.41
62 11 0.11
63 8 0.08
64 14 0.14
65 15 0.15
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (60 bp):
AAAGAAAGAAAAAAGAAGAAAGAAAAGGAAGGAGAAGAAAAAAAAAAGAAGAAGAAGAAA
Found at i:45793711 original size:44 final size:40
Alignment explanation
Indices: 45793529--45793745 Score: 136
Period size: 41 Copynumber: 5.2 Consensus size: 40
45793519 AGAGGGAAAG
* **
45793529 AAAGAAAAAAAGAAAGAAAGAAAAAGAAGGA-AAGAAAAGGA
1 AAAG-AAAAAAG-AAGAAAGAAAAGGAAGGAGAAGAAAAAAA
* * * * * * *
45793570 AAGGAGAAGAGAAGAGAAAAAAAGAAAGAAAGAAAGAAGAAGAA
1 AAAGAAAAAAGAAGA-AAGAAAAGGAAG-GAG-AAGAA-AAAAA
* ** * *
45793614 AAGGAAAGGAGAAGAAAGAAGAGGAAAGGAGAAGAAAAAAG
1 AAAGAAAAAAGAAGAAAGAAAAGG-AAGGAGAAGAAAAAAA
45793655 AAAG-AAAAAGAAGGAAAGAAAAGGAGAGGAGAAGAAAAAAA
1 AAAGAAAAAAGAA-GAAAGAAAAGGA-AGGAGAAGAAAAAAA
**
45793696 AAAGAAGAAGAAGAAGAAGAGGGAAGGAAGGA-AA-AAAAAAGA
1 AAAGAA-AA-AAGAAGAA-AGAAAAGGAAGGAGAAGAAAAAA-A
45793738 AAAGAAAA
1 AAAGAAAA
45793746 GGTATTTTTT
Statistics
Matches: 140, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
39 4 0.03
40 21 0.15
41 46 0.33
42 15 0.11
43 22 0.16
44 32 0.23
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (40 bp):
AAAGAAAAAAGAAGAAAGAAAAGGAAGGAGAAGAAAAAAA
Found at i:45793743 original size:110 final size:110
Alignment explanation
Indices: 45793541--45793739 Score: 273
Period size: 110 Copynumber: 1.8 Consensus size: 110
45793531 AGAAAAAAAG
*
45793541 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAGAAAAAAAGAAAGAAAGAAAG
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAAAAAAAAGAAAGAAAGAAAG
** *
45793606 AAGAAGAAAAGGAAAGGAGAAGAAAGAAGAGGAAAGGAGAAGAAA
66 AAGAAGAAAAGGAAAAAAAAAGAAAGAAGAGGAAAGGAGAAGAAA
*
45793651 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAGAGGAGAAGA-AA-AAAAAAAGAAG-AAG-AAG-AA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAAAAAA-AAGAAAGAAAGAAA
*
45793711 GAAGAGGGAAGGAAGGAAAAAAAAAGAAA
65 GAAGA-AGAA--AAGGAAAAAAAAAGAAA
45793740 AGAAAAGGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
106 7 0.09
107 6 0.08
108 9 0.11
109 19 0.24
110 38 0.48
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (110 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAAAAAAAAGAAAGAAAGAAAG
AAGAAGAAAAGGAAAAAAAAAGAAAGAAGAGGAAAGGAGAAGAAA
Found at i:45799603 original size:39 final size:41
Alignment explanation
Indices: 45799545--45799633 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
45799535 CCACTAACCC
* *
45799545 TAATAACTAAC--ACAATAATAA-TA-GTTTTATACTCAAAA
1 TAATAACTAACTAACAATAATAATTAGGGTTT-TACTAAAAA
45799583 TAAT-ACTAACTAACAATAATAATTAGGGTTTTACTAAAAA
1 TAATAACTAACTAACAATAATAATTAGGGTTTTACTAAAAA
45799623 TAATAACTAAC
1 TAATAACTAAC
45799634 AANNNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
37 6 0.14
38 4 0.09
39 10 0.23
40 14 0.32
41 10 0.23
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.31
Consensus pattern (41 bp):
TAATAACTAACTAACAATAATAATTAGGGTTTTACTAAAAA
Found at i:45799908 original size:27 final size:27
Alignment explanation
Indices: 45799878--45799951 Score: 114
Period size: 27 Copynumber: 2.7 Consensus size: 27
45799868 AATCAATACA
*
45799878 GCACCATTGGTGCTGCCAATGG-TATTG
1 GCACCATTGGTGCCGCCAATGGCT-TTG
45799905 GCACCATTGGTGCCGCCAATGGCTTTG
1 GCACCATTGGTGCCGCCAATGGCTTTG
*
45799932 GCACCTTTGGTGCCGCCAAT
1 GCACCATTGGTGCCGCCAAT
45799952 CTCATTGGCG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.27
Consensus pattern (27 bp):
GCACCATTGGTGCCGCCAATGGCTTTG
Found at i:45799959 original size:27 final size:27
Alignment explanation
Indices: 45799878--45799960 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
45799868 AATCAATACA
*
45799878 GCACCATTGGTGCTGCCAATGGT-ATTG
1 GCACCATTGGTGCCGCCAAT-GTCATTG
* *
45799905 GCACCATTGGTGCCGCCAATGGCTTTG
1 GCACCATTGGTGCCGCCAATGTCATTG
* *
45799932 GCACCTTTGGTGCCGCCAATCTCATTG
1 GCACCATTGGTGCCGCCAATGTCATTG
45799959 GC
1 GC
45799961 GTGACCAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACCATTGGTGCCGCCAATGTCATTG
Found at i:45800056 original size:26 final size:26
Alignment explanation
Indices: 45800021--45800087 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
45800011 TATTTTTTTG
45800021 ATATATTTTGGTAAATAAAAAAAAAT
1 ATATATTTTGGTAAATAAAAAAAAAT
* *
45800047 ATATTTTTTGGTAAATAAAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAAA-AT
45800074 ATAATATTTTGGTA
1 AT-ATATTTTGGTA
45800088 TTTTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 23 0.64
27 3 0.08
28 10 0.28
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.40
Consensus pattern (26 bp):
ATATATTTTGGTAAATAAAAAAAAAT
Found at i:45800443 original size:13 final size:13
Alignment explanation
Indices: 45800425--45800450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45800415 GTCGATTAAT
45800425 TTGGTTCGAAATC
1 TTGGTTCGAAATC
45800438 TTGGTTCGAAATC
1 TTGGTTCGAAATC
45800451 GAGTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TTGGTTCGAAATC
Found at i:45801567 original size:13 final size:14
Alignment explanation
Indices: 45801534--45801572 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
45801524 ATTGATACAA
45801534 AATTTTAATATTTT
1 AATTTTAATATTTT
*
45801548 AAATTTAAT-TTTT
1 AATTTTAATATTTT
*
45801561 ATTTTTAATATT
1 AATTTTAATATT
45801573 AAAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATTTTAATATTTT
Found at i:45804493 original size:17 final size:17
Alignment explanation
Indices: 45804471--45804509 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
45804461 GTAATAAAAG
45804471 TAAAACCCTTTGACTTT
1 TAAAACCCTTTGACTTT
45804488 TAAAACCCTTTGACTTT
1 TAAAACCCTTTGACTTT
45804505 TAAAA
1 TAAAA
45804510 GGTAGCAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (17 bp):
TAAAACCCTTTGACTTT
Found at i:45804832 original size:29 final size:30
Alignment explanation
Indices: 45804776--45804841 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
45804766 ATTTATAAAA
* * *
45804776 AATTAAATTAAATAAAAAATTTACATATA-
1 AATTACATAAAATAAAAAATTGACATATAT
*
45804805 AAGTTACATAAAAT-AAAAATTGATATATAT
1 AA-TTACATAAAATAAAAAATTGACATATAT
45804835 AATTACA
1 AATTACA
45804842 AAACTCGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (30 bp):
AATTACATAAAATAAAAAATTGACATATAT
Found at i:45809732 original size:128 final size:128
Alignment explanation
Indices: 45809504--45809759 Score: 451
Period size: 128 Copynumber: 2.0 Consensus size: 128
45809494 TGAATCTCAC
45809504 ATGGGTACTAATTTTTAACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAA
1 ATGGGTACTAATTTTTAACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAA
* *
45809569 AATACAAATATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAGATAGAAT
66 AATACAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
*
45809632 ATGGGTACTAATTTTTAACTTAACTGTCTTATAAGCATGACC-AGAGTTTATTAATCATAAATGA
1 ATGGGTACTAATTTTTAACTTAACTGTCTTATAAACATGACCGA-AGTTTATTAATCATAAATGA
* *
45809696 AACTGCAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
65 AAATACAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
45809760 TTTGTTACTT
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
127 1 0.01
128 121 0.99
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (128 bp):
ATGGGTACTAATTTTTAACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAA
AATACAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
Found at i:45815372 original size:24 final size:24
Alignment explanation
Indices: 45815327--45815444 Score: 96
Period size: 24 Copynumber: 4.9 Consensus size: 24
45815317 AGCGCTCTCT
*
45815327 TGAGCCATATAATGGGAAGCTCATG
1 TGAGCCAT-TAACGGGAAGCTCATG
*
45815352 TGAGCCATTAACGGGAAGCTCATA
1 TGAGCCATTAACGGGAAGCTCATG
* *
45815376 AGAGCCA-TAATCAGGAAGCTCATG
1 TGAGCCATTAA-CGGGAAGCTCATG
* * *** * *
45815400 CGAGCCAATAGTTGGTAGCTC-CG
1 TGAGCCATTAACGGGAAGCTCATG
45815423 ATGAGCCATTAACGGGAAGCTC
1 -TGAGCCATTAACGGGAAGCTC
45815445 CGGATAGCCA
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
23 4 0.05
24 59 0.81
25 10 0.14
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.20
Consensus pattern (24 bp):
TGAGCCATTAACGGGAAGCTCATG
Found at i:45815445 original size:24 final size:24
Alignment explanation
Indices: 45815327--45815568 Score: 77
Period size: 24 Copynumber: 9.9 Consensus size: 24
45815317 AGCGCTCTCT
* *
45815327 TGAGCCATATAATGGGAAGCTCATG-
1 TGAGCCAT-TAACGGGAAGCTC-CGA
**
45815352 TGAGCCATTAACGGGAAGCTCATA
1 TGAGCCATTAACGGGAAGCTCCGA
* *
45815376 AGAGCCA-TAATCAGGAAGCT-C-A
1 TGAGCCATTAA-CGGGAAGCTCCGA
* *** *
45815398 TGCGAGCCAATAGTTGGTAGCTCCGA
1 T--GAGCCATTAACGGGAAGCTCCGA
45815424 TGAGCCATTAACGGGAAGCTCCGGA
1 TGAGCCATTAACGGGAAGCTCC-GA
* * * *
45815449 T-AGCCATATATCTGGAAG-TTCAA
1 TGAGCCAT-TAACGGGAAGCTCCGA
* *
45815472 GTGAGTCA-TATCGGGAAGCTCCGGA
1 -TGAGCCATTAACGGGAAGCTCC-GA
** *
45815497 -GAGCCATTAATTAGGAAGCTCACAA
1 TGAGCCATTAA-CGGGAAGCTC-CGA
* * *
45815522 AGATCCTTTAATCGGGAAGCTCCGA
1 TGAGCCATTAA-CGGGAAGCTCCGA
* * *
45815547 AGAGCCATATATCGGGACGCTC
1 TGAGCCAT-TAACGGGAAGCTC
45815569 ATAAGAACTG
Statistics
Matches: 161, Mismatches: 38, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
22 1 0.01
23 18 0.11
24 67 0.42
25 53 0.33
26 22 0.14
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (24 bp):
TGAGCCATTAACGGGAAGCTCCGA
Found at i:45817946 original size:2 final size:2
Alignment explanation
Indices: 45817939--45817963 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45817929 ATGAATGTAA
45817939 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 A
45817964 CAAAGTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45820665 original size:15 final size:15
Alignment explanation
Indices: 45820642--45820678 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
45820632 TTATCTCAGA
* *
45820642 TTACATTTTAGTCAT
1 TTACGTTTTAGTCAC
45820657 TTACGTTTTAGTCAC
1 TTACGTTTTAGTCAC
45820672 TTACGTT
1 TTACGTT
45820679 AATATGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (15 bp):
TTACGTTTTAGTCAC
Found at i:45821976 original size:17 final size:18
Alignment explanation
Indices: 45821946--45821980 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45821936 TTGTATACCT
*
45821946 TTTTGAAAATTTTTCAAA
1 TTTTGAAAAATTTTCAAA
45821964 TTTT-AAAAATTTTCAAA
1 TTTTGAAAAATTTTCAAA
45821981 AAAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTGAAAAATTTTCAAA
Found at i:45823685 original size:12 final size:13
Alignment explanation
Indices: 45823660--45823684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45823650 AAATAATTTA
45823660 AAAATGATTTTTT
1 AAAATGATTTTTT
45823673 AAAATGATTTTT
1 AAAATGATTTTT
45823685 ATTTTTTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AAAATGATTTTTT
Found at i:45831148 original size:13 final size:14
Alignment explanation
Indices: 45831101--45831141 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
45831091 GGTTTTAGAG
45831101 AGAAAAAG-ATGA-
1 AGAAAAAGCATGAT
*
45831113 GGAAGAAAGCATGAT
1 AGAA-AAAGCATGAT
45831128 AGAAAAAGCATGAT
1 AGAAAAAGCATGAT
45831142 TAAAAAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 3 0.12
13 4 0.17
14 14 0.58
15 3 0.12
ACGTcount: A:0.56, C:0.05, G:0.27, T:0.12
Consensus pattern (14 bp):
AGAAAAAGCATGAT
Found at i:45837297 original size:21 final size:22
Alignment explanation
Indices: 45837268--45837308 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45837258 ATGGATATGG
45837268 TTTTAAGAT-CATCTAAAAACC
1 TTTTAAGATACATCTAAAAACC
* *
45837289 TTTTTAGATACATTTAAAAA
1 TTTTAAGATACATCTAAAAA
45837309 AAAAAGGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTTAAGATACATCTAAAAACC
Found at i:45842445 original size:16 final size:15
Alignment explanation
Indices: 45842413--45842446 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45842403 TTTTTGTATA
* *
45842413 TTTAAAATTTTTATT
1 TTTAAAAATTTAATT
45842428 TTTAAAAATTTAATT
1 TTTAAAAATTTAATT
45842443 TTTA
1 TTTA
45842447 TACTTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAAAAATTTAATT
Found at i:45846702 original size:7 final size:7
Alignment explanation
Indices: 45846690--45846729 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
45846680 TTATTGTTTA
45846690 AAAATTT
1 AAAATTT
45846697 AAAATTT
1 AAAATTT
45846704 AAAATTT
1 AAAATTT
**
45846711 AAAAAAT
1 AAAATTT
*
45846718 AAAATGT
1 AAAATTT
45846725 AAAAT
1 AAAAT
45846730 ATAATTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (7 bp):
AAAATTT
Found at i:45846709 original size:14 final size:14
Alignment explanation
Indices: 45846690--45846733 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
45846680 TTATTGTTTA
*
45846690 AAAATTTAAAATTT
1 AAAATTTAAAATAT
*
45846704 AAAATTTAAAAAAT
1 AAAATTTAAAATAT
*
45846718 AAAATGTAAAATAT
1 AAAATTTAAAATAT
45846732 AA
1 AA
45846734 TTTATCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
AAAATTTAAAATAT
Found at i:45846720 original size:21 final size:22
Alignment explanation
Indices: 45846686--45846729 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
45846676 TTAGTTATTG
* *
45846686 TTTAAAAATTTAAAATTTAAAA
1 TTTAAAAATATAAAATGTAAAA
45846708 TTTAAAAA-ATAAAATGTAAAA
1 TTTAAAAATATAAAATGTAAAA
45846729 T
1 T
45846730 ATAATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTAAAAATATAAAATGTAAAA
Found at i:45855828 original size:24 final size:24
Alignment explanation
Indices: 45855774--45855828 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
45855764 CTTGTTGGTA
* * *
45855774 TTATATTCTTTGTATTGTGTTTTAG
1 TTAT-TTCTCTGTATTGTCTTGTAG
45855799 TTATTTCTCTGTATTGTCTTGT-G
1 TTATTTCTCTGTATTGTCTTGTAG
45855822 TTCATTT
1 TT-ATTT
45855829 TAAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 3 0.12
24 19 0.73
25 4 0.15
ACGTcount: A:0.13, C:0.09, G:0.15, T:0.64
Consensus pattern (24 bp):
TTATTTCTCTGTATTGTCTTGTAG
Found at i:45859586 original size:168 final size:168
Alignment explanation
Indices: 45859305--45859640 Score: 591
Period size: 168 Copynumber: 2.0 Consensus size: 168
45859295 ATTCTCATTC
45859305 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
1 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
*
45859370 ATGTCCTGGTTTCCAAAATCTCAACACTTTAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
66 ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
* **
45859435 CCTTAGTAAAAAACTTGAGATTAATTTTTTCAGTTTTT
131 CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
*
45859473 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGGAAGTCAATGACTTGC
1 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
* * *
45859538 ATGTCCTGGTTTCCAGAATCTCAACACTTCAGTTCAGCAAATTATTCTTAAAATTGTTTTTTGCC
66 ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
*
45859603 CCTTAGTAAAAAACTTAAGATTTATCGTTTCAGTTTTT
131 CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
45859641 GATTAGATAC
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 159 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (168 bp):
ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
Found at i:45860370 original size:44 final size:44
Alignment explanation
Indices: 45860320--45860408 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
45860310 AAGAAGAGAA
45860320 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
1 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
* * *
45860364 ACCTCTTTCGTATATTACTAATGAGTGAAGAATTGTACATATTT
1 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
45860408 A
1 A
45860409 TAGTCTACGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (44 bp):
ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
Found at i:45860696 original size:23 final size:23
Alignment explanation
Indices: 45860670--45860715 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45860660 TACAAGGCAA
* *
45860670 AAATCAGTGAATTAAATTCCTAT
1 AAATCAATGAATTAAATCCCTAT
45860693 AAATCAATGAATTAAATCCCTAT
1 AAATCAATGAATTAAATCCCTAT
45860716 GTTCAAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (23 bp):
AAATCAATGAATTAAATCCCTAT
Found at i:45884293 original size:2 final size:2
Alignment explanation
Indices: 45884236--45884275 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
45884226 CAAAGGTATG
45884236 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45884276 GGGGCGAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45884849 original size:41 final size:41
Alignment explanation
Indices: 45884787--45884931 Score: 209
Period size: 41 Copynumber: 3.5 Consensus size: 41
45884777 GACTTTAAGT
* *
45884787 CTAGCAGGCTAAGTGCCGGTGATTTGAACCAGGTTATAAAC
1 CTAGCAGGCTATGTGCCGGTGATCTGAACCAGGTTATAAAC
* *
45884828 CTAGTAGGCTATGTACCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTATGTGCCGGTGATCTGAACCAGGTTATAAAC
* * *
45884869 CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTATGTGCCGGTGATCTGAACCAGGTTATAAAC
* *
45884910 CTAGCAGGCTAAGTGCGGGTGA
1 CTAGCAGGCTATGTGCCGGTGA
45884932 ATACGTTAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTATGTGCCGGTGATCTGAACCAGGTTATAAAC
Found at i:45894968 original size:2 final size:2
Alignment explanation
Indices: 45894961--45894993 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45894951 TTGATGTAAT
45894961 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45894994 GAAACTTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45896269 original size:11 final size:11
Alignment explanation
Indices: 45896253--45896277 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45896243 ATTTTTTAAC
45896253 TTTAAAATACT
1 TTTAAAATACT
45896264 TTTAAAATACT
1 TTTAAAATACT
45896275 TTT
1 TTT
45896278 TTTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:45896286 original size:39 final size:39
Alignment explanation
Indices: 45896237--45896366 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 39
45896227 AATATTTTTA
45896237 TTTTTT-A-TTTTTTAACTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAA-TTTAAAATACTTTTAAAATACT
* **
45896275 TTTTTTAATTTTTTTAATTTTAAATTTTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTAAAATACTTTTAAAATACT
45896314 TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAA-TTTAAAATACTTTTAAAATACT
45896354 TTTTTTAATTTTT
1 TTTTTTAATTTTT
45896367 ATTTTAATTT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
38 6 0.07
39 37 0.45
40 40 0.48
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTAAAATACTTTTAAAATACT
Found at i:45896297 original size:40 final size:40
Alignment explanation
Indices: 45896237--45896389 Score: 213
Period size: 39 Copynumber: 3.8 Consensus size: 40
45896227 AATATTTTTA
*
45896237 TTTTTT-A-TTTTTTAACTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACT
**
45896275 TTTTTTAATTTTTTTAATTTT-AAATTTTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACT
45896314 TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACT
*
45896354 TTTTTTAATTTTTATTTTAATTTTTAAAATAATTTT
1 TTTTTTAA--TTT-TTTTAA-TTTTAAAATACTTTT
45896390 TTGGTATTTA
Statistics
Matches: 102, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
38 6 0.06
39 38 0.37
40 35 0.34
42 3 0.03
43 6 0.06
44 14 0.14
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACT
Found at i:45896300 original size:16 final size:16
Alignment explanation
Indices: 45896276--45896307 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45896266 TAAAATACTT
*
45896276 TTTTTAATTTTTTTAA
1 TTTTAAATTTTTTTAA
45896292 TTTTAAATTTTTTTAA
1 TTTTAAATTTTTTTAA
45896308 AATACTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTAAATTTTTTTAA
Found at i:45896316 original size:29 final size:28
Alignment explanation
Indices: 45896283--45896345 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 28
45896273 CTTTTTTTAA
45896283 TTTTTTTAATTTTAAATTT-TTTTAAAATAC
1 TTTTTTTAATTTT---TTTATTTTAAAATAC
45896313 TTTTTTTAATTTTTTTAATTTTAAAATAC
1 TTTTTTTAATTTTTTT-ATTTTAAAATAC
45896342 TTTT
1 TTTT
45896346 AAAATACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.10
29 15 0.48
30 13 0.42
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTTTTAATTTTTTTATTTTAAAATAC
Found at i:45896334 original size:8 final size:9
Alignment explanation
Indices: 45896274--45896334 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
45896264 TTTAAAATAC
45896274 TTTTTTTAA
1 TTTTTTTAA
45896283 TTTTTTTAA
1 TTTTTTTAA
*
45896292 --TTTTAAA
1 TTTTTTTAA
45896299 TTTTTTTAAAATA
1 TTTTTTT---A-A
45896312 CTTTTTTTAA
1 -TTTTTTTAA
45896322 TTTTTTTAA
1 TTTTTTTAA
45896331 TTTT
1 TTTT
45896335 AAAATACTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
7 6 0.14
9 26 0.60
10 1 0.02
11 1 0.02
12 1 0.02
13 1 0.02
14 7 0.16
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTTTAA
Done.