Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 327 of 356
Found at i:105534366 original size:23 final size:21
Alignment explanation
Indices: 105534339--105534401 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
105534329 AAACACGAAA
105534339 TTTTAAAACACGGAAATATTTTT
1 TTTTAAAACAC-GAAAT-TTTTT
105534362 TTTTAAAACACGAAA-TTTTT
1 TTTTAAAACACGAAATTTTTT
* *
105534382 TTTGAAAACAAGAAATTTTT
1 TTTTAAAACACGAAATTTTT
105534402 GAACACTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.49
21 4 0.11
22 4 0.11
23 11 0.30
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (21 bp):
TTTTAAAACACGAAATTTTTT
Found at i:105534382 original size:17 final size:16
Alignment explanation
Indices: 105534316--105534538 Score: 92
Period size: 17 Copynumber: 12.7 Consensus size: 16
105534306 AATTTTAAAT
105534316 ACGAGAATTTTTAAAAC
1 ACGA-AATTTTTAAAAC
105534333 ACGAAA-TTTTAAAAC
1 ACGAAATTTTTAAAAC
105534348 ACGGAAATATTTTTTTTTAAAAC
1 AC-G-AA-A----TTTTTAAAAC
105534371 ACGAAATTTTTTTTGAAAAC
1 ACGAAA---TTTTT-AAAAC
* *
105534391 AAGAAATTTTT-GAAC
1 ACGAAATTTTTAAAAC
* *
105534406 ACTAGAATTTTGAAAAC
1 ACGA-AATTTTTAAAAC
*
105534423 ACGAAGATTTTTGAAAC
1 ACGAA-ATTTTTAAAAC
* *
105534440 ATGAGAATTTTTAAAGC
1 ACGA-AATTTTTAAAAC
* * *
105534457 ACGAGGATTATTGAAAGC
1 ACGA-AATT-TTTAAAAC
* *
105534475 ACGAAGATTTATAAAAA
1 ACGAA-ATTTTTAAAAC
105534492 ACGACAATTTTTGAAATAC
1 ACGA-AATTTTT-AAA-AC
*
105534511 GA-GAAATTTTTTAAAC
1 -ACGAAATTTTTAAAAC
*
105534527 GCGAAAATTTTT
1 ACG-AAATTTTT
105534539 TTCAAACACG
Statistics
Matches: 161, Mismatches: 24, Indels: 42
0.71 0.11 0.19
Matches are distributed among these distances:
15 16 0.10
16 13 0.08
17 68 0.42
18 27 0.17
19 11 0.07
20 12 0.07
21 2 0.01
22 1 0.01
23 11 0.07
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (16 bp):
ACGAAATTTTTAAAAC
Found at i:105534422 original size:32 final size:34
Alignment explanation
Indices: 105534381--105534450 Score: 101
Period size: 32 Copynumber: 2.1 Consensus size: 34
105534371 ACGAAATTTT
105534381 TTTTGAAAACAAGAA-ATTTTTG-AACACT-AGAA
1 TTTTGAAAACAAGAAGATTTTTGAAACA-TGAGAA
*
105534413 TTTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTTGAAAACAAGAAGATTTTTGAAACATGAGAA
105534447 TTTT
1 TTTT
105534451 TAAAGCACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
32 14 0.41
33 8 0.24
34 12 0.35
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (34 bp):
TTTTGAAAACAAGAAGATTTTTGAAACATGAGAA
Found at i:105534436 original size:18 final size:18
Alignment explanation
Indices: 105534380--105534568 Score: 87
Period size: 18 Copynumber: 10.9 Consensus size: 18
105534370 CACGAAATTT
*
105534380 TTTTTGAAAACAAGAA-A
1 TTTTTGAAAACACGAAGA
*
105534397 TTTTTG--AACAC-TAGA
1 TTTTTGAAAACACGAAGA
*
105534412 ATTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAGA
*
105534430 TTTTTG-AAACATG-AGAA
1 TTTTTGAAAACACGAAG-A
* *
105534447 TTTTT-AAAGCACGAGGA
1 TTTTTGAAAACACGAAGA
* *
105534464 TTATTGAAAGCACGAAGA
1 TTTTTGAAAACACGAAGA
* *
105534482 TTTAT-AAAAAACGACA-A
1 TTTTTGAAAACACGA-AGA
105534499 TTTTTGAAATACGA-GAA-A
1 TTTTTGAAA-AC-ACGAAGA
* * *
105534517 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAAGA
** *
105534534 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAAGA
* *
105534553 CTTTTGAAAACGCGAA
1 TTTTTGAAAACACGAA
105534569 AATTCGAAAA
Statistics
Matches: 131, Mismatches: 25, Indels: 31
0.70 0.13 0.17
Matches are distributed among these distances:
14 1 0.01
15 10 0.08
16 7 0.05
17 48 0.37
18 51 0.39
19 13 0.10
20 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAGA
Found at i:105534460 original size:34 final size:34
Alignment explanation
Indices: 105534381--105534472 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
105534371 ACGAAATTTT
*
105534381 TTTTGAAAACAAGAA-ATTTTTG-AACACTAGAA
1 TTTTGAAAACACGAAGATTTTTGAAACACTAGAA
105534413 TTTTGAAAACACGAAGATTTTTGAAACA-TGAGAA
1 TTTTGAAAACACGAAGATTTTTGAAACACT-AGAA
* * * *
105534447 TTTTTAAAGCACGAGGATTATTGAAA
1 TTTTGAAAACACGAAGATTTTTGAAA
105534473 GCACGAAGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
32 14 0.27
33 8 0.15
34 30 0.58
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (34 bp):
TTTTGAAAACACGAAGATTTTTGAAACACTAGAA
Found at i:105535129 original size:15 final size:15
Alignment explanation
Indices: 105535104--105535165 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
105535094 TGAACCCCCT
105535104 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
105535120 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
105535135 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
**
105535151 TTCCTT-TTTTTTTC
1 TTTTTTCTTTTTTTC
105535165 T
1 T
105535166 GCTGGGCTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 7 0.17
15 21 0.51
16 13 0.32
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:105535153 original size:9 final size:8
Alignment explanation
Indices: 105535102--105535152 Score: 61
Period size: 7 Copynumber: 6.4 Consensus size: 8
105535092 ATTGAACCCC
105535102 CTTTTTCTT
1 CTTTTT-TT
105535111 CTTTTTTT
1 CTTTTTTT
105535119 C-TTTTTT
1 CTTTTTTT
105535126 C-TTTTTT
1 CTTTTTTT
*
105535133 CCTTTTTT
1 CTTTTTTT
105535141 CTTCTTTTT
1 CTT-TTTTT
105535150 CTT
1 CTT
105535153 CCTTTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
7 14 0.36
8 11 0.28
9 14 0.36
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
CTTTTTTT
Found at i:105535312 original size:12 final size:12
Alignment explanation
Indices: 105535295--105535319 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105535285 CTTTCCCTTC
105535295 TTTTTTTTGCTT
1 TTTTTTTTGCTT
105535307 TTTTTTTTGCTT
1 TTTTTTTTGCTT
105535319 T
1 T
105535320 GATTTTTTTT
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:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:105535325 original size:17 final size:17
Alignment explanation
Indices: 105535300--105535332 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
105535290 CCTTCTTTTT
*
105535300 TTTGCTTTTTTTTTTGC
1 TTTGATTTTTTTTTTGC
105535317 TTTGATTTTTTTTTTG
1 TTTGATTTTTTTTTTG
105535333 GGCTTGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.12, T:0.79
Consensus pattern (17 bp):
TTTGATTTTTTTTTTGC
Found at i:105535329 original size:19 final size:17
Alignment explanation
Indices: 105535305--105535352 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
105535295 TTTTTTTTGC
105535305 TTTTTTTTTTGCTTTGATT
1 TTTTTTTTTTGC-TTG-TT
**
105535324 TTTTTTTTGGGCTTGTT
1 TTTTTTTTTTGCTTGTT
105535341 TCTTTTTTTTTG
1 T-TTTTTTTTTG
105535353 TTTTTCTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.02, C:0.06, G:0.15, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTTGCTTGTT
Found at i:105535458 original size:3 final size:3
Alignment explanation
Indices: 105535452--105535497 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
105535442 TTTTCTTTCT
*
105535452 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
105535498 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:105535481 original size:10 final size:10
Alignment explanation
Indices: 105535466--105535494 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
105535456 TCTTCCTCTT
105535466 TTCTTCTTCC
1 TTCTTCTTCC
105535476 TTCTTCTTCC
1 TTCTTCTTCC
105535486 TTCTTCTTC
1 TTCTTCTTC
105535495 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:105535482 original size:13 final size:13
Alignment explanation
Indices: 105535452--105535497 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
105535442 TTTTCTTTCT
105535452 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
105535464 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
105535476 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
105535489 TTCTTCTTC
1 TTCTTCTTC
105535498 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:105535588 original size:10 final size:10
Alignment explanation
Indices: 105535553--105535602 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
105535543 ACGCCGGTAC
105535553 TCTT-TCTTT
1 TCTTCTCTTT
* *
105535562 TCTTCTCCTC
1 TCTTCTCTTT
105535572 T-TTCTCTTT
1 TCTTCTCTTT
105535581 TCTTCTCTTT
1 TCTTCTCTTT
*
105535591 TCTTCTTTTT
1 TCTTCTCTTT
105535601 TC
1 TC
105535603 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:105535600 original size:19 final size:19
Alignment explanation
Indices: 105535557--105535599 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
105535547 CGGTACTCTT
105535557 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
105535576 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
105535593 TTCTTTT
1 -TCTTTT
105535600 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:105535896 original size:30 final size:30
Alignment explanation
Indices: 105535857--105535958 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
105535847 ATTTAGGATT
*
105535857 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
105535887 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
105535917 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
105535947 AAAATGCAATTT
1 AAAATGAAATTT
105535959 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:105535980 original size:15 final size:16
Alignment explanation
Indices: 105535954--105535990 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
105535944 GTCAAAATGC
105535954 AATTTTTATTTTTTTA
1 AATTTTTATTTTTTTA
*
105535970 AATTTTT-TTTTTTTG
1 AATTTTTATTTTTTTA
105535985 AATTTT
1 AATTTT
105535991 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
AATTTTTATTTTTTTA
Found at i:105536310 original size:53 final size:53
Alignment explanation
Indices: 105536230--105536475 Score: 353
Period size: 52 Copynumber: 4.7 Consensus size: 53
105536220 CACGTGAGCC
* * *
105536230 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAACAGAATTTGCA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-AA
*
105536283 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAA
* *
105536332 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAA
105536386 AAGGCTCAACTCACCTCTCGCAATATGA-TTGA-TTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAA
*
105536438 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
105536476 TTTTTTGAAA
Statistics
Matches: 177, Mismatches: 8, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
49 39 0.22
50 7 0.04
52 47 0.27
53 45 0.25
54 39 0.22
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (53 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAA
Found at i:105536418 original size:102 final size:104
Alignment explanation
Indices: 105536230--105536475 Score: 349
Period size: 102 Copynumber: 2.4 Consensus size: 104
105536220 CACGTGAGCC
* * *
105536230 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAGAATTTGCAAAGGCTCAACTC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAAGGCTCAACTC
*
105536295 ACCTCTCGCAATATGAGTTGATTTTTG-AAAATAG-A-AA
66 ACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAATAA
* *
105536332 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACAGAAATTGAAAAGGCTCAAC
105536396 TCACCTCTCGCAATATGA-TTGATTTTGAAAAACAGAAATTAA
64 TCACCTCTCGCAATATGAGTTGATTTTGAAAAACAG-AA-TAA
*
105536438 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
105536476 TTTTTTGAAA
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
101 5 0.04
102 47 0.36
103 29 0.22
104 10 0.08
106 38 0.29
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAATAA
Found at i:105536506 original size:14 final size:14
Alignment explanation
Indices: 105536487--105536513 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105536477 TTTTTGAAAC
105536487 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
105536501 ACAGAAATTAAAA
1 ACAGAAATTAAAA
105536514 CAGAATTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:105536790 original size:72 final size:72
Alignment explanation
Indices: 105536602--105537031 Score: 726
Period size: 72 Copynumber: 6.0 Consensus size: 72
105536592 ATTAGTAAAG
* * * *
105536602 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
105536666 TTTGAAAA
65 TTTGAAAA
* *
105536674 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
105536739 TTTGAAAA
65 TTTGAAAA
105536747 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
105536812 TTGAGAAG
66 TTGA-AAA
105536820 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
105536884 TTGAAAA
66 TTGAAAA
105536891 CAG-AATTG-AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
105536954 TTGAGAA
66 TTGAAAA
105536961 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
105537025 TTGAAAA
66 TTGAAAA
105537032 AAAAAAAAAA
Statistics
Matches: 342, Mismatches: 10, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
69 2 0.01
70 66 0.19
71 17 0.05
72 176 0.51
73 79 0.23
74 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:105536978 original size:142 final size:144
Alignment explanation
Indices: 105536602--105537031 Score: 744
Period size: 142 Copynumber: 3.0 Consensus size: 144
105536592 ATTAGTAAAG
* * * *
105536602 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* *
105536666 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAGAAGCAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
105536731 AGTTGAATTTTGAAAA
129 AGTTGAATTTTGAAAA
105536747 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
105536812 TTGAGAAGCAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAGAAGCAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
105536877 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
105536891 CAG-AATTG-AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
105536954 TTGAGAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAGAAGCAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
105537018 GTTGAA-TTTGAAAA
130 GTTGAATTTTGAAAA
105537032 AAAAAAAAAA
Statistics
Matches: 277, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
141 20 0.07
142 112 0.40
143 5 0.02
144 64 0.23
145 74 0.27
146 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAGAAGCAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAA
Found at i:105536984 original size:214 final size:218
Alignment explanation
Indices: 105536599--105537026 Score: 758
Period size: 214 Copynumber: 2.0 Consensus size: 218
105536589 AGAATTAGTA
*
105536599 AAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAA
1 AAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAA
*
105536664 GTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 GTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
105536729 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
131 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
105536794 CGCAATATGAGTTGAATTTTGAG
196 CGCAATATGAGTTGAATTTTGAG
* *
105536817 AAGCAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-A
*
105536881 A-TTTTGAAAA-CAG-AATTG-AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 AGTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
105536942 ATGAGTTGAATTTTGAGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
130 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
105537007 TCGCAATATGAGTTGAATTT
195 TCGCAATATGAGTTGAATTT
105537027 GAAAAAAAAA
Statistics
Matches: 203, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
214 125 0.62
215 5 0.02
216 3 0.01
217 56 0.28
218 14 0.07
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (218 bp):
AAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAA
GTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
CGCAATATGAGTTGAATTTTGAG
Found at i:105537034 original size:1 final size:1
Alignment explanation
Indices: 105537028--105537052 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
105537018 GTTGAATTTG
105537028 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
105537053 TAAAGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:105537178 original size:72 final size:72
Alignment explanation
Indices: 105537073--105537662 Score: 959
Period size: 72 Copynumber: 8.2 Consensus size: 72
105537063 GAATTGAATG
105537073 AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
105537137 ATTTTGA
66 ATTTTGA
105537144 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
105537209 ATTTTGA
66 ATTTTGA
* *
105537216 GAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 -AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
105537281 AATTTTGA
65 AATTTTGA
105537289 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
105537354 ATTTTGA
66 ATTTTGA
105537361 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
105537426 ATTTTGA
66 ATTTTGA
* * * *
105537433 AAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTG
1 AAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
105537498 AATTTTGA
65 AATTTTGA
* *
105537506 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
105537571 TTTTTTTA
66 -ATTTTGA
* * * ** * *
105537579 ACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG
1 A-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
105537644 -ATTTTGAA
65 AATTTTG-A
*
105537652 AAACATAAATT
1 AAACAGAAATT
105537663 AAAAGGCTTA
Statistics
Matches: 493, Mismatches: 20, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
71 15 0.03
72 274 0.56
73 146 0.30
74 58 0.12
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGA
Found at i:105537348 original size:145 final size:144
Alignment explanation
Indices: 105537073--105537666 Score: 951
Period size: 145 Copynumber: 4.1 Consensus size: 144
105537063 GAATTGAATG
105537073 AAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
105537137 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
105537202 GAGTTGAATTTTGA
131 GAGTTGAATTTTGA
*
105537216 GAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 -AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
105537281 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
65 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATA
105537346 TGAGTTGAATTTTGA
130 TGAGTTGAATTTTGA
*
105537361 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
105537426 ATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATA
66 ATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATA
*
105537491 TAAGTTGAATTTTGA
130 TGAGTTGAATTTTGA
* * *
105537506 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* * * * ** *
105537571 TTTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAAT
66 -ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAAT
*
105537636 ATGAATTG-ATTTTGAA
129 ATGAGTTGAATTTTG-A
*
105537652 AAACATAAATT-AAAA
1 AAACAGAAATTGAAAA
105537667 GGCTTAACTC
Statistics
Matches: 425, Mismatches: 20, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
144 84 0.20
145 268 0.63
146 71 0.17
147 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (144 bp):
AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
GAGTTGAATTTTGA
Found at i:105537440 original size:217 final size:217
Alignment explanation
Indices: 105537073--105537666 Score: 996
Period size: 217 Copynumber: 2.7 Consensus size: 217
105537063 GAATTGAATG
105537073 AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
105537137 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* *
105537202 GAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
131 GAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCT
*
105537267 CGCAATATGAGTTGAATTTTGA
196 CGCAATATAAGTTGAATTTTGA
105537289 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
105537354 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
105537419 GAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
131 GAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCT
105537484 CGCAATATAAGTTGAATTTTGA
196 CGCAATATAAGTTGAATTTTGA
* *
105537506 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* * * * * ** *
105537571 TTTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAAT
66 -ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
* * *
105537636 ATGAATTG-ATTTTGAAAAACATAAATT-AAAA
129 ATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA
105537667 GGCTTAACTC
Statistics
Matches: 358, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
216 15 0.04
217 264 0.74
218 23 0.06
219 56 0.16
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (217 bp):
AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
GAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCT
CGCAATATAAGTTGAATTTTGA
Found at i:105545998 original size:21 final size:19
Alignment explanation
Indices: 105545960--105546006 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
105545950 GAAGCGCAGT
105545960 ATTTCTTTTTTAAAACGA-A
1 ATTT-TTTTTTAAAACGAGA
105545979 AGTTTTTTTTTAAAATACGAGA
1 A-TTTTTTTTT-AAA-ACGAGA
105546001 ATTTTT
1 ATTTTT
105546007 GAAAACACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 9 0.38
22 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (19 bp):
ATTTTTTTTTAAAACGAGA
Found at i:105546005 original size:16 final size:17
Alignment explanation
Indices: 105545985--105546393 Score: 140
Period size: 17 Copynumber: 23.3 Consensus size: 17
105545975 CGAAAGTTTT
*
105545985 TTTTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
105546002 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAGAA
*
105546020 TTTGT-AAACAC--GAA
1 TTTTTAAAACACGAGAA
*
105546034 TATTTTAGAAACACGAAAA
1 T-TTTTA-AAACACGAGAA
* * *
105546053 TTTTGGAAAAAAAC-AAAA
1 TTTT--TAAAACACGAGAA
* *
105546071 TTTTCTTAAAACACGACATTTT
1 -TTT-TTAAAACACGAGA---A
* *
105546093 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAGAA
* * *
105546110 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
* ** ***
105546127 TTTTTGAAACAAAATTT
1 TTTTTAAAACACGAGAA
105546144 TTTCTTAAAA-A--A-AA
1 TTT-TTAAAACACGAGAA
* *
105546158 ATTTT-AAATACGAGAA
1 TTTTTAAAACACGAGAA
*
105546174 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
105546191 TTTTTAAAACACGGAAATA
1 TTTTTAAAACAC-GAGA-A
105546210 TTTTTTTTAAAACACGA-AA
1 ---TTTTTAAAACACGAGAA
* *
105546229 TTTTTTTTGAAAACAAGAAAA
1 ---TTTTT-AAAACACGAGAA
* *
105546250 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
105546267 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
105546284 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
*
105546301 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAGAA
* *
105546319 TTATTGAAAGCACGA-AGA
1 TT-TTTAAAACACGAGA-A
* * *
105546337 TTTATAAAAAACGACAA
1 TTTTTAAAACACGAGAA
* *
105546354 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGAG-AA
* * *
105546372 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAGAA
105546389 TTTTT
1 TTTTT
105546394 TTTCAAACAC
Statistics
Matches: 299, Mismatches: 59, Indels: 68
0.70 0.14 0.16
Matches are distributed among these distances:
12 3 0.01
13 3 0.01
14 6 0.02
15 5 0.02
16 13 0.04
17 128 0.43
18 73 0.24
19 28 0.09
20 21 0.07
21 7 0.02
22 12 0.04
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:105546192 original size:17 final size:17
Alignment explanation
Indices: 105546154--105546428 Score: 156
Period size: 17 Copynumber: 15.4 Consensus size: 17
105546144 TTTCTTAAAA
* *
105546154 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
105546170 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
105546187 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
105546205 AAATATTTTTTTTAAAACACG
1 AAA-A---TTTTTAAAACACG
* *
105546226 AAATTTTTTTTGAAAACAAG
1 AAA--ATTTTT-AAAACACG
* *
105546246 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
105546263 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
105546280 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
105546297 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
105546315 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
105546333 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
105546350 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
105546367 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
105546385 AAAATTTTTTTTCAAACACG
1 AAAA---TTTTTAAAACACG
* *
105546405 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
105546423 AAAATT
1 AAAATT
105546429 CGAAAATTTC
Statistics
Matches: 199, Mismatches: 46, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
16 7 0.04
17 86 0.43
18 53 0.27
19 11 0.06
20 25 0.13
21 4 0.02
22 13 0.07
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:105546233 original size:20 final size:20
Alignment explanation
Indices: 105546174--105546254 Score: 87
Period size: 20 Copynumber: 4.1 Consensus size: 20
105546164 AATACGAGAA
*
105546174 TTTTTAAAACACGAAA---A
1 TTTTTAAAACACGAAATTTT
105546191 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAAT-TTT
105546213 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAATTTT
* * *
105546233 TTTTGAAAACAAGAAAATTT
1 TTTTTAAAACACGAAATTTT
105546253 TT
1 TT
105546255 GAAACACTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
17 12 0.22
18 4 0.07
20 22 0.40
21 5 0.09
22 12 0.22
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAATTTT
Found at i:105546393 original size:18 final size:18
Alignment explanation
Indices: 105546372--105546428 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
105546362 ATACGAGAAA
105546372 TTTTTTAAACGCGAAAATT
1 TTTTTTAAACGCGAAAA-T
* *
105546391 TTTTTTCAAACACGAAAAC
1 TTTTTT-AAACGCGAAAAT
**
105546410 TTTTGAAAACGCGAAAAT
1 TTTTTTAAACGCGAAAAT
105546428 T
1 T
105546429 CGAAAATTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 11 0.35
19 10 0.32
20 10 0.32
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (18 bp):
TTTTTTAAACGCGAAAAT
Found at i:105546395 original size:20 final size:21
Alignment explanation
Indices: 105546372--105546413 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
105546362 ATACGAGAAA
*
105546372 TTTTTT-AAACGCGAAAA-TT
1 TTTTTTCAAACACGAAAACTT
105546391 TTTTTTCAAACACGAAAACTT
1 TTTTTTCAAACACGAAAACTT
105546412 TT
1 TT
105546414 GAAAACGCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 10 0.50
21 4 0.20
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (21 bp):
TTTTTTCAAACACGAAAACTT
Found at i:105546472 original size:18 final size:17
Alignment explanation
Indices: 105546423--105546473 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
105546413 TGAAAACGCG
105546423 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
105546440 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
105546458 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
105546474 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:105546988 original size:7 final size:7
Alignment explanation
Indices: 105546976--105547024 Score: 80
Period size: 7 Copynumber: 6.9 Consensus size: 7
105546966 TTTTTCTTCT
105546976 TTTTTTC
1 TTTTTTC
105546983 TTTTTTC
1 TTTTTTC
*
105546990 TTTTTCC
1 TTTTTTC
105546997 TTTTTTC
1 TTTTTTC
105547004 TTTTTTC
1 TTTTTTC
105547011 TTTTTTC
1 TTTTTTC
105547018 TTCTTTT
1 TT-TTTT
105547025 TCTTCCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 35 0.90
8 4 0.10
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:105547035 original size:21 final size:19
Alignment explanation
Indices: 105546966--105547041 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 19
105546956 TTGAACCCCC
105546966 TTTTTCTTCTTTTTTTCTTT
1 TTTTTCTTCTTTTTTTC-TT
* *
105546986 TTTCTTTTTCCTTTTTTC-T
1 TTT-TTCTTCTTTTTTTCTT
*
105547005 TTTTTCTT-TTTTCTTCTT
1 TTTTTCTTCTTTTTTTCTT
105547023 TTTCTTCCTT-TTTTTTTCT
1 TTT-TT-CTTCTTTTTTTCT
105547042 GCTGGGCTGC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
19 6 0.13
20 14 0.30
21 12 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTCTTTTTTTCTT
Found at i:105547038 original size:14 final size:13
Alignment explanation
Indices: 105546966--105547041 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 13
105546956 TTGAACCCCC
105546966 TTTTTCTTCTTTTT
1 TTTTTCTTC-TTTT
*
105546980 TTCTTTTTTCTTTT
1 TT-TTTCTTCTTTT
105546994 TCCTTTT-TTCTTTT
1 T--TTTTCTTCTTTT
* *
105547008 TTCTTTTTTC-TTC
1 TT-TTTCTTCTTTT
105547021 TTTTTCTTCCTTTT
1 TTTTTCTT-CTTTT
105547035 TTTTTCT
1 TTTTTCT
105547042 GCTGGGCTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.12
13 8 0.16
14 27 0.53
15 9 0.18
16 1 0.02
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTCTTTT
Found at i:105547190 original size:13 final size:14
Alignment explanation
Indices: 105547172--105547207 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
105547162 CTTTCCCTTC
105547172 TTTTTTTTGCTTT-
1 TTTTTTTTGCTTTA
105547185 TTTTTTTTGCTTTGA
1 TTTTTTTTGCTTT-A
105547200 TTTTTTTT
1 TTTTTTTT
105547208 TTGGGCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
15 8 0.38
ACGTcount: A:0.03, C:0.06, G:0.08, T:0.83
Consensus pattern (14 bp):
TTTTTTTTGCTTTA
Found at i:105547215 original size:19 final size:18
Alignment explanation
Indices: 105547177--105547211 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105547167 CCTTCTTTTT
* *
105547177 TTTGCTTTTTTTTTTTGC
1 TTTGATTTTTTTTTTGGC
105547195 TTTGATTTTTTTTTTGG
1 TTTGATTTTTTTTTTGG
105547212 GCTTGTTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.14, T:0.77
Consensus pattern (18 bp):
TTTGATTTTTTTTTTGGC
Found at i:105547339 original size:3 final size:3
Alignment explanation
Indices: 105547331--105547376 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
105547321 TTTTCTTTCT
*
105547331 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
105547377 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:105547360 original size:10 final size:10
Alignment explanation
Indices: 105547345--105547373 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
105547335 TCTTCCTCTT
105547345 TTCTTCTTCC
1 TTCTTCTTCC
105547355 TTCTTCTTCC
1 TTCTTCTTCC
105547365 TTCTTCTTC
1 TTCTTCTTC
105547374 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:105547361 original size:13 final size:13
Alignment explanation
Indices: 105547331--105547376 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
105547321 TTTTCTTTCT
105547331 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
105547343 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
105547355 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
105547368 TTCTTCTTC
1 TTCTTCTTC
105547377 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:105547749 original size:29 final size:29
Alignment explanation
Indices: 105547716--105547832 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
105547706 TGTAATTTTT
*
105547716 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
105547745 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
105547775 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
105547804 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
105547833 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:105547771 original size:30 final size:30
Alignment explanation
Indices: 105547731--105547832 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
105547721 ATTTAGGATT
*
105547731 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
105547761 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
105547791 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
105547821 AAAATGCAATTT
1 AAAATGAAATTT
105547833 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:105548977 original size:30 final size:30
Alignment explanation
Indices: 105548941--105548998 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
105548931 AAGAATGTTA
*
105548941 ACTTTGTCAACTCCGGGGTGGTTCAGTTTT
1 ACTTTGTCAACTCCGGGGTGGTTAAGTTTT
105548971 ACTTTGTCAACTCCGGGGTGGTTAAGTT
1 ACTTTGTCAACTCCGGGGTGGTTAAGTT
105548999 AGAAATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.38
Consensus pattern (30 bp):
ACTTTGTCAACTCCGGGGTGGTTAAGTTTT
Found at i:105555014 original size:30 final size:32
Alignment explanation
Indices: 105554980--105555042 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 32
105554970 GCTCTATATC
105554980 TTTATAATTTTTAAA-AAATT-AAAT-TAATTT
1 TTTATAA-TTTTAAAGAAATTAAAATATAATTT
*
105555010 TTTATAATTTTAAAGAGATTAAAATATAATTT
1 TTTATAATTTTAAAGAAATTAAAATATAATTT
105555042 T
1 T
105555043 ACCTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 7 0.24
30 11 0.38
31 4 0.14
32 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TTTATAATTTTAAAGAAATTAAAATATAATTT
Found at i:105558229 original size:39 final size:39
Alignment explanation
Indices: 105558155--105558229 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
105558145 TCAAATACAT
*
105558155 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAATA
1 TTAAAACAAATATTAAAACAAGAAAAAAATAAAAAAATA
* * * * *
105558194 TTAAAACAATTCTTAAAACAATACAAAAATTAAAAA
1 TTAAAACAAATATTAAAACAAGAAAAAAATAAAAAA
105558230 TTATAATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.68, C:0.09, G:0.01, T:0.21
Consensus pattern (39 bp):
TTAAAACAAATATTAAAACAAGAAAAAAATAAAAAAATA
Found at i:105560733 original size:16 final size:17
Alignment explanation
Indices: 105560702--105560734 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105560692 TTCATAAGTA
105560702 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
105560719 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
105560735 GCTCTCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:105561290 original size:46 final size:46
Alignment explanation
Indices: 105561015--105561288 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
105561005 TTATCTTTGA
* * * * *
105561015 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
**
105561061 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * * ** **
105561107 CACGCTGCCATGGTATCTTTCAACCATTGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
105561153 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
105561199 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAAATTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
105561245 CATGTTGCCATGGTATCTTTTAACTATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
105561289 TTTAGAAAGC
Statistics
Matches: 204, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 200 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:105565963 original size:16 final size:17
Alignment explanation
Indices: 105565932--105565965 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
105565922 TTCATAAGTA
105565932 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
105565949 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
105565965 T
1 T
105565966 CTCCCTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:105566706 original size:46 final size:46
Alignment explanation
Indices: 105566245--105566702 Score: 603
Period size: 46 Copynumber: 10.0 Consensus size: 46
105566235 TTATCTTTAC
* * * ** * *
105566245 CATGATGCCATAGTGTCTTTCAACTGTGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** * **
105566291 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** *
105566337 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * ** ***
105566383 CACGCTGCCATGGTACCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
105566429 CATGTTGCAATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
105566475 CATGTTGTCATGGTATCTTTCAACCATAGTTTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
105566521 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
105566567 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
105566613 CATGTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** *
105566659 CATGTTGCCATGGTATCTTTCAATTATGGTCTTAAACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
105566703 TTCAGAAAGC
Statistics
Matches: 372, Mismatches: 39, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
45 4 0.01
46 368 0.99
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:105568589 original size:11 final size:11
Alignment explanation
Indices: 105568543--105568590 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
105568533 CTTTATATAC
*
105568543 TAATAAAATAA
1 TAATAAAATAT
105568554 TAATAAAATAT
1 TAATAAAATAT
*
105568565 CATATTAAAATAT
1 --TAATAAAATAT
*
105568578 TAATAAATTAT
1 TAATAAAATAT
105568589 TA
1 TA
105568591 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
13 10 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:105572354 original size:48 final size:48
Alignment explanation
Indices: 105572254--105572356 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
105572244 TATAAGCGAT
* * * * *
105572254 ATGGCATACAATAAAAGAGGGGTAAAGATGCATGGTCATACGAGGTAT
1 ATGGCATACAATAAAAGACGGGTAAAGATGCATGATCATACAAGGGAC
* *
105572302 ATGGCATGCAATAAAAGACGGGTAAAGATGCATGATCTTACAAGGGAC
1 ATGGCATACAATAAAAGACGGGTAAAGATGCATGATCATACAAGGGAC
105572350 ATGGCAT
1 ATGGCAT
105572357 TACATATCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (48 bp):
ATGGCATACAATAAAAGACGGGTAAAGATGCATGATCATACAAGGGAC
Found at i:105581675 original size:36 final size:35
Alignment explanation
Indices: 105581620--105581687 Score: 118
Period size: 36 Copynumber: 1.9 Consensus size: 35
105581610 GTGTTTAGAT
105581620 TGGTAAAGTATGTTAAATAATTTGATTTGGTATGG
1 TGGTAAAGTATGTTAAATAATTTGATTTGGTATGG
*
105581655 TGGTTAAGATATGTTAAATAATTTGATTTGGTA
1 TGGTAAAG-TATGTTAAATAATTTGATTTGGTA
105581688 ATTGGTATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (35 bp):
TGGTAAAGTATGTTAAATAATTTGATTTGGTATGG
Found at i:105585476 original size:16 final size:16
Alignment explanation
Indices: 105585452--105585503 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
105585442 TGGTTCACTG
*
105585452 TAATGGAATAGGACTA
1 TAATGGAATAGAACTA
* *
105585468 TAATTGAATAGAACTG
1 TAATGGAATAGAACTA
*
105585484 TAATGGAATAGAACTG
1 TAATGGAATAGAACTA
105585500 TAAT
1 TAAT
105585504 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAACTA
Found at i:105585578 original size:44 final size:46
Alignment explanation
Indices: 105585485--105585578 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 46
105585475 ATAGAACTGT
*
105585485 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTAAATGG
* *
105585531 AATGGAGTAGAACTGTAAT-AGT-ATTC-TTGTGTTTGGTTAAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAAT-TGTTTGGTTAAATGG
105585575 AATG
1 AATG
105585579 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 3 0.07
46 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTAAATGG
Found at i:105588159 original size:23 final size:23
Alignment explanation
Indices: 105588133--105588178 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
105588123 TCATATCTAA
*
105588133 AAGAGATGATTATCATCCAAATT
1 AAGAGATGATTAACATCCAAATT
105588156 AAGAGATGATTAACATCCAAATT
1 AAGAGATGATTAACATCCAAATT
105588179 CAACCATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (23 bp):
AAGAGATGATTAACATCCAAATT
Found at i:105591781 original size:14 final size:14
Alignment explanation
Indices: 105591764--105591803 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
105591754 AAATTTAAAA
105591764 TTTAAAATTTTATT
1 TTTAAAATTTTATT
* *
105591778 TTTATATTTTTATT
1 TTTAAAATTTTATT
*
105591792 TTTAAAAATTTA
1 TTTAAAATTTTA
105591804 ATTATTTTAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAAAATTTTATT
Found at i:105601775 original size:29 final size:27
Alignment explanation
Indices: 105601723--105601796 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 27
105601713 GACAAAAAAA
105601723 TTATAAAAAATAAAAATAGTT-AAATT
1 TTATAAAAAATAAAAATAGTTAAAATT
105601749 TTAATAAAAACATAAAAAATA-TATAAAATT
1 TT-ATAAAAA-AT-AAAAATAGT-TAAAATT
*
105601779 TTATAAAAATTATAAAAT
1 TTATAAAAAATA-AAAAT
105601797 GCATCAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
26 2 0.05
27 8 0.20
28 9 0.22
29 15 0.37
30 7 0.17
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (27 bp):
TTATAAAAAATAAAAATAGTTAAAATT
Found at i:105602055 original size:20 final size:20
Alignment explanation
Indices: 105602039--105602085 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
105602029 AATTTTTTCC
105602039 TATTTTTATTAAATTTTAAA
1 TATTTTTATTAAATTTTAAA
*
105602059 TATTTTTATTAAAATTTAAA
1 TATTTTTATTAAATTTTAAA
105602079 -ATTTTTA
1 TATTTTTA
105602086 ATCATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTATTAAATTTTAAA
Found at i:105605507 original size:20 final size:19
Alignment explanation
Indices: 105605482--105605521 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
105605472 AAGTTTTTGT
105605482 ATTTTTTTATT-TAGAATTTA
1 ATTTTTTT-TTGTA-AATTTA
105605502 ATTTTTTTTTGTAAATTTA
1 ATTTTTTTTTGTAAATTTA
105605521 A
1 A
105605522 AATTTTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
ATTTTTTTTTGTAAATTTA
Found at i:105605508 original size:19 final size:19
Alignment explanation
Indices: 105605484--105605521 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
105605474 GTTTTTGTAT
105605484 TTTTTTATT-TAGAATTTAA
1 TTTTTTATTGTA-AATTTAA
*
105605503 TTTTTTTTTGTAAATTTAA
1 TTTTTTATTGTAAATTTAA
105605522 AATTTTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTATTGTAAATTTAA
Found at i:105605527 original size:20 final size:21
Alignment explanation
Indices: 105605482--105605527 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
105605472 AAGTTTTTGT
*
105605482 ATTTTTTTATTTAGAATTT-A
1 ATTTTTTTATGTAGAATTTAA
*
105605502 ATTTTTTTTTGTA-AATTTAA
1 ATTTTTTTATGTAGAATTTAA
*
105605522 AATTTT
1 ATTTTT
105605528 GGATTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
ATTTTTTTATGTAGAATTTAA
Found at i:105610628 original size:30 final size:30
Alignment explanation
Indices: 105610589--105610835 Score: 179
Period size: 30 Copynumber: 8.0 Consensus size: 30
105610579 TGATAAATTA
* * *
105610589 CAATCAGAGCTGGCTAAATTGACATTAGAG
1 CAATTAGAGCAGGATAAATTGACATTAGAG
* *
105610619 CAATTAGAGC-GGAAGAAATTGATATTAGAG
1 CAATTAGAGCAGG-ATAAATTGACATTAGAG
105610649 CAATTAGAGCAGGATAAATTGCAATTGCAGTTAGAG
1 CAATTAGAGCAGGATAAATTG--A---CA-TTAGAG
*
105610685 AAATTAGAGCAGGATAAATTG-CAATT---G
1 CAATTAGAGCAGGATAAATTGAC-ATTAGAG
* *
105610712 CAATTAGAGCGGGATAAATTGATATTAGAG
1 CAATTAGAGCAGGATAAATTGACATTAGAG
105610742 CAATTAGAGCAGGATAAATTG-CAATT---G
1 CAATTAGAGCAGGATAAATTGAC-ATTAGAG
* *
105610769 CAATTAGAGCAGGATGAATTGCAATTGCAATTAAAG
1 CAATTAGAGCAGGATAAATTG--A---C-ATTAGAG
** *
105610805 CAATTAGAGGGGGATAAATTGATATTAGAG
1 CAATTAGAGCAGGATAAATTGACATTAGAG
105610835 C
1 C
105610836 GGGATTTATG
Statistics
Matches: 176, Mismatches: 18, Indels: 46
0.73 0.08 0.19
Matches are distributed among these distances:
27 44 0.25
29 2 0.01
30 74 0.42
31 3 0.02
32 1 0.01
33 5 0.03
34 1 0.01
35 1 0.01
36 45 0.26
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (30 bp):
CAATTAGAGCAGGATAAATTGACATTAGAG
Found at i:105610672 original size:21 final size:21
Alignment explanation
Indices: 105610648--105610710 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
105610638 TGATATTAGA
105610648 GCAATTAGAGCAGGATAAATT
1 GCAATTAGAGCAGGATAAATT
* *
105610669 GCAATT---GCA-GTTAGA--
1 GCAATTAGAGCAGGATAAATT
*
105610684 GAAATTAGAGCAGGATAAATT
1 GCAATTAGAGCAGGATAAATT
105610705 GCAATT
1 GCAATT
105610711 GCAATTAGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
15 5 0.17
17 4 0.13
18 6 0.20
19 4 0.13
21 11 0.37
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (21 bp):
GCAATTAGAGCAGGATAAATT
Found at i:105610710 original size:57 final size:58
Alignment explanation
Indices: 105610648--105610813 Score: 171
Period size: 57 Copynumber: 2.8 Consensus size: 58
105610638 TGATATTAGA
*
105610648 GCAATTAGAGCAGGATAAATTGCAATTGCAGTTAGAGAAATTAGAGCAGGATAAATTGCAATT
1 GCAATTAGAGCAGGATAAATTGCAATTGCA-TTAGAGCAATTAGAGCAGGAT-AA-T--AATT
*
105610711 GCAATTAGAGCGGGATAAATTG--A-T--ATTAGAGCAATTAGAGCAGGATAAATTGCAATT
1 GCAATTAGAGCAGGATAAATTGCAATTGCATTAGAGCAATTAGAGCAGGAT-AA-T--AATT
* *
105610768 GCAATTAGAGCAGGATGAATTGCAATTGCAATTAAAGCAATTAGAG
1 GCAATTAGAGCAGGATAAATTGCAATTGC-ATTAGAGCAATTAGAG
105610814 GGGGATAAAT
Statistics
Matches: 92, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
57 51 0.55
58 1 0.01
59 1 0.01
60 2 0.02
61 1 0.01
63 36 0.39
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (58 bp):
GCAATTAGAGCAGGATAAATTGCAATTGCATTAGAGCAATTAGAGCAGGATAATAATT
Found at i:105610719 original size:27 final size:27
Alignment explanation
Indices: 105610686--105610806 Score: 172
Period size: 27 Copynumber: 4.4 Consensus size: 27
105610676 CAGTTAGAGA
105610686 AATTAGAGCAGGATAAATTGCAATTGC
1 AATTAGAGCAGGATAAATTGCAATTGC
*
105610713 AATTAGAGCGGGATAAATTG-ATATTAGAGC
1 AATTAGAGCAGGATAAATTGCA-ATT---GC
105610743 AATTAGAGCAGGATAAATTGCAATTGC
1 AATTAGAGCAGGATAAATTGCAATTGC
*
105610770 AATTAGAGCAGGATGAATTGCAATTGC
1 AATTAGAGCAGGATAAATTGCAATTGC
*
105610797 AATTAAAGCA
1 AATTAGAGCA
105610807 ATTAGAGGGG
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
26 1 0.01
27 59 0.69
30 24 0.28
31 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AATTAGAGCAGGATAAATTGCAATTGC
Found at i:105610779 original size:36 final size:36
Alignment explanation
Indices: 105610642--105610721 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
105610632 AGAAATTGAT
105610642 ATTAGAGCAATTAGAGCAGGATAAATTGCAATTGCA
1 ATTAGAGCAATTAGAGCAGGATAAATTGCAATTGCA
* *
105610678 GTTAGAGAAATTAGAGCAGGATAAATTGCAATTGCA
1 ATTAGAGCAATTAGAGCAGGATAAATTGCAATTGCA
105610714 ATTAGAGC
1 ATTAGAGC
105610722 GGGATAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (36 bp):
ATTAGAGCAATTAGAGCAGGATAAATTGCAATTGCA
Found at i:105610808 original size:93 final size:93
Alignment explanation
Indices: 105610604--105610835 Score: 280
Period size: 93 Copynumber: 2.5 Consensus size: 93
105610594 AGAGCTGGCT
* *
105610604 AAATTG-ACATTAGAGCAATTAGAGCGGAAGAAATTGATATTAGAGCAATTAGAGCAGGATAAAT
1 AAATTGCA-ATTA-AGCAATTAGAGCGGGATAAATTGATATTAGAGCAATTAGAGCAGGATAAAT
*
105610668 TGCAATTGCAGTTAGAGAAATTAGAGCAGGA
64 TGCAATTGCAATTAGAGAAATTAGA-CAGGA
105610699 TAAATTGCAATT--GCAATTAGAGCGGGATAAATTGATATTAGAGCAATTAGAGCAGGATAAATT
1 -AAATTGCAATTAAGCAATTAGAGCGGGATAAATTGATATTAGAGCAATTAGAGCAGGATAAATT
* *
105610762 GCAATTGCAATTAGAGCAGGA-T-GA-ATTG-
65 GCAATTGCAATTAGAG-A-AATTAGACA-GGA
* *
105610790 CAATTGCAATTAAAGCAATTAGAGGGGGATAAATTGATATTAGAGC
1 AAATTGCAATT-AAGCAATTAGAGCGGGATAAATTGATATTAGAGC
105610836 GGGATTTATG
Statistics
Matches: 122, Mismatches: 7, Indels: 17
0.84 0.05 0.12
Matches are distributed among these distances:
90 10 0.08
91 1 0.01
92 1 0.01
93 97 0.80
94 2 0.02
95 1 0.01
96 9 0.07
97 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (93 bp):
AAATTGCAATTAAGCAATTAGAGCGGGATAAATTGATATTAGAGCAATTAGAGCAGGATAAATTG
CAATTGCAATTAGAGAAATTAGACAGGA
Found at i:105610893 original size:21 final size:20
Alignment explanation
Indices: 105610869--105610907 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
105610859 AATTTACGGA
*
105610869 AATTAGTGGTGGATGAAATGG
1 AATTAGAGGTGGAT-AAATGG
105610890 AATTAGAGGTGGATAAAT
1 AATTAGAGGTGGATAAAT
105610908 TCATGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.28
Consensus pattern (20 bp):
AATTAGAGGTGGATAAATGG
Found at i:105612348 original size:9 final size:9
Alignment explanation
Indices: 105612334--105612378 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
105612324 TAGTATGGTA
105612334 TTTTTATAT
1 TTTTTATAT
105612343 TTTTTATGA-
1 TTTTTAT-AT
*
105612352 ATTTTATAT
1 TTTTTATAT
105612361 ATTTTTATAT
1 -TTTTTATAT
105612371 TTTTTATA
1 TTTTTATA
105612379 ATTTCCTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 1 0.03
9 21 0.68
10 9 0.29
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTTATAT
Found at i:105614467 original size:16 final size:16
Alignment explanation
Indices: 105614446--105614476 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
105614436 TGAAGCTGGA
105614446 AAGCTAAAGCAATGGG
1 AAGCTAAAGCAATGGG
*
105614462 AAGCTAGAGCAATGG
1 AAGCTAAAGCAATGG
105614477 AGGCTTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.32, T:0.13
Consensus pattern (16 bp):
AAGCTAAAGCAATGGG
Found at i:105617912 original size:25 final size:27
Alignment explanation
Indices: 105617875--105617927 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
105617865 TCAAACATGC
105617875 ATTTAGGTCAATTTAAC-ACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
105617901 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
105617927 A
1 A
105617928 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:105619451 original size:26 final size:26
Alignment explanation
Indices: 105619415--105619498 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
105619405 CATGAAATTC
105619415 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
105619441 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
105619467 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
105619493 TTATCA
1 TTATCA
105619499 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:105625256 original size:26 final size:26
Alignment explanation
Indices: 105625218--105625275 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
105625208 CATGAAATTC
105625218 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
105625244 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
105625270 TTATCA
1 TTATCA
105625276 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:105627236 original size:23 final size:20
Alignment explanation
Indices: 105627197--105627237 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
105627187 ATATTAAGTT
105627197 AAAATATAAAAATGAAATAA
1 AAAATATAAAAATGAAATAA
105627217 AAAATTATACAAAATAGAAAT
1 AAAA-TATA-AAAAT-GAAAT
105627238 TTATTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 5 0.28
23 5 0.28
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAATATAAAAATGAAATAA
Found at i:105629489 original size:26 final size:26
Alignment explanation
Indices: 105629460--105629541 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
105629450 TGGTACAAAT
105629460 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105629486 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105629512 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105629538 TGAT
1 TGAT
105629542 GGGTATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105638723 original size:32 final size:32
Alignment explanation
Indices: 105638682--105638746 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
105638672 AATGCTTATC
105638682 ATGCCCATCATCCATTAACTATTAAAATCCTA
1 ATGCCCATCATCCATTAACTATTAAAATCCTA
* *
105638714 ATGCCCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATCCTA
105638746 A
1 A
105638747 AATGCATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATCCTA
Found at i:105639580 original size:28 final size:27
Alignment explanation
Indices: 105639534--105639606 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
105639524 TGTACATAAG
* * *
105639534 ATAA-CATAAAAAAATATATGCAACTA
1 ATAATCATAAAAATACATATACAACTA
*
105639560 ATACATCATAAAAATACATATACAATTA
1 ATA-ATCATAAAAATACATATACAACTA
*
105639588 ATAAT-ATGAGAAATACATA
1 ATAATCAT-AAAAATACATA
105639607 CATAATGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.13
27 13 0.33
28 21 0.54
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.26
Consensus pattern (27 bp):
ATAATCATAAAAATACATATACAACTA
Found at i:105640246 original size:21 final size:21
Alignment explanation
Indices: 105640222--105640275 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
105640212 GTACATATAT
105640222 ATATACAAAATAATATTAGAA
1 ATATACAAAATAATATTAGAA
* * *
105640243 ATATACCATATAGTATTAGAA
1 ATATACAAAATAATATTAGAA
*
105640264 ATATACATAATA
1 ATATACAAAATA
105640276 TATACATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (21 bp):
ATATACAAAATAATATTAGAA
Found at i:105640370 original size:3 final size:3
Alignment explanation
Indices: 105640364--105640417 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
105640354 ACAACACATG
* * *
105640364 ATA ATA ATA ATA ATA ATA ATG ATA AGA ATA ATA AGA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
105640412 TTA ATA
1 ATA ATA
105640418 TACGTAATGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:105642467 original size:56 final size:54
Alignment explanation
Indices: 105642295--105642515 Score: 352
Period size: 54 Copynumber: 4.0 Consensus size: 54
105642285 ATGTGACCCG
*
105642295 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
105642349 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
105642403 AGTCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAAA
* * *
105642459 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAGACGGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAA
105642515 A
1 A
105642516 TACCTCAGCA
Statistics
Matches: 155, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
54 82 0.53
55 18 0.12
56 55 0.35
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:105642494 original size:110 final size:110
Alignment explanation
Indices: 105642298--105642515 Score: 359
Period size: 110 Copynumber: 2.0 Consensus size: 110
105642288 TGACCCGAGG
*
105642298 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
*
105642363 TCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAAGT
66 TCTCGCAATATGAGTTAATTTTTTGAAAAACAGAAATTGAAAAGT
*
105642406 CTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCA
1 CTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCA
* *
105642471 CCTCTCGCAATATGAGTTAATTTTTTGAAAGACGGAAATTGAAAA
64 CCTCTCGCAATATGAGTTAATTTTTTGAAAAACAGAAATTGAAAA
105642516 TACCTCAGCA
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
108 27 0.27
109 1 0.01
110 52 0.51
111 17 0.17
112 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (110 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
TCTCGCAATATGAGTTAATTTTTTGAAAAACAGAAATTGAAAAGT
Found at i:105643666 original size:56 final size:54
Alignment explanation
Indices: 105643494--105643714 Score: 352
Period size: 54 Copynumber: 4.0 Consensus size: 54
105643484 ATGTGACCCG
*
105643494 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
105643548 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
105643602 AGTCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAAA
* * *
105643658 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAGACGGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAA
105643714 A
1 A
105643715 TACCTCAGCA
Statistics
Matches: 155, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
54 82 0.53
55 18 0.12
56 55 0.35
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:105643693 original size:110 final size:110
Alignment explanation
Indices: 105643497--105643714 Score: 359
Period size: 110 Copynumber: 2.0 Consensus size: 110
105643487 TGACCCGAGG
*
105643497 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
*
105643562 TCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAAGT
66 TCTCGCAATATGAGTTAATTTTTTGAAAAACAGAAATTGAAAAGT
*
105643605 CTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCA
1 CTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCA
* *
105643670 CCTCTCGCAATATGAGTTAATTTTTTGAAAGACGGAAATTGAAAA
64 CCTCTCGCAATATGAGTTAATTTTTTGAAAAACAGAAATTGAAAA
105643715 TACCTCAGCA
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
108 27 0.27
109 1 0.01
110 52 0.51
111 17 0.17
112 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (110 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
TCTCGCAATATGAGTTAATTTTTTGAAAAACAGAAATTGAAAAGT
Found at i:105643795 original size:14 final size:14
Alignment explanation
Indices: 105643772--105643801 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105643762 GATTTTTTTG
*
105643772 AAACATAAATTGAA
1 AAACAGAAATTGAA
105643786 AAACAGAAATTGAA
1 AAACAGAAATTGAA
105643800 AA
1 AA
105643802 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:105643840 original size:87 final size:87
Alignment explanation
Indices: 105643694--105644238 Score: 869
Period size: 87 Copynumber: 6.3 Consensus size: 87
105643684 AGTTAATTTT
* *
105643694 TTGAAAGACGGAAATTGAAAATACCTCAGCATGAT-CTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
105643758 AGTTGATTTTTTTGAAACATAAA
65 AGTTGATTTTTTTGAAACATAAA
* *
105643781 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
105643846 GTTGATTTTTTTGAAACATAAA
66 GTTGATTTTTTTGAAACATAAA
* *
105643868 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
105643933 GTTGA-TTTTTTGAAAGACAGAAA
66 GTTGATTTTTTTG-AA-ACATAAA
* * *
105643956 TTGAAAAACAGAAATTGAAAATACCTCAACATGACCTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
105644021 GTTCATTTTTTTTAGATAGAAA
66 GTTGATTTTTTTGAAACATAAA
*
105644043 TTGAAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
105644108 GTTGATTTTTTTGAAACATAAA
66 GTTGATTTTTTTGAAACATAAA
* *
105644130 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
105644195 GTTAATTTTTTTGAAACATAAA
66 GTTGATTTTTTTGAAACATAAA
*
105644217 TTGAAAAACGGAAATTGAAAAT
1 TTGAAAAACAGAAATTGAAAAT
105644239 GGCTCAACTC
Statistics
Matches: 426, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
86 8 0.02
87 341 0.80
88 71 0.17
89 6 0.01
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAACATAAA
Found at i:105643961 original size:14 final size:14
Alignment explanation
Indices: 105643942--105643976 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
105643932 AGTTGATTTT
*
105643942 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
105643956 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
105643970 TTGAAAA
1 TTGAAAA
105643977 TACCTCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:105644031 original size:262 final size:259
Alignment explanation
Indices: 105643694--105644359 Score: 995
Period size: 262 Copynumber: 2.6 Consensus size: 259
105643684 AGTTAATTTT
* *
105643694 TTGAAAGACGGAAATTGAAAATACCTCAGCATGATCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAAC-GAAATTGAAAATACCTCAACATGA-CTGAGGCTCAACTCACCTCTCGCAATATGA
*
105643759 GTTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGACT
64 GTTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
*
105643824 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACGGAAATTGAAAA
129 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAA
* *
105643889 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAG
194 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTAATTTTTTTG-AA-ACAG
105643953 AAA
257 AAA
*
105643956 TTGAAAAACAGAAATTGAAAATACCTCAACATGACCTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAAC-GAAATTGAAAATACCTCAACATGA-CTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * * *
105644021 GTTCATTTTTTTTAGATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCT
64 GTTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
105644086 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAA
129 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAA
*
105644151 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTAATTTTTTTGAAACATAA
194 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTAATTTTTTTGAAACAGAA
105644216 A
259 A
* *
105644217 TTGAAAAACG-----G-AAAT---TGAA-A--A-T--GGCTCAACTCACATCTCGCAATATGAGT
1 TTGAAAAACGAAATTGAAAATACCTCAACATGACTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
105644267 TGATTTTTTTGAAACATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
66 TGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
*
105644332 ACTCACCTCTCGCAATATGAGCTGATTT
131 ACTCACCTCTCGCAATATGAGTTGATTT
105644360 CTGAAAACAG
Statistics
Matches: 374, Mismatches: 29, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
244 110 0.29
246 1 0.00
248 1 0.00
250 1 0.00
251 3 0.01
254 4 0.01
255 1 0.00
260 1 0.00
261 15 0.04
262 230 0.61
263 7 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (259 bp):
TTGAAAAACGAAATTGAAAATACCTCAACATGACTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATA
CCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTAATTTTTTTGAAACAGAAA
Found at i:105644144 original size:14 final size:14
Alignment explanation
Indices: 105644121--105644150 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105644111 GATTTTTTTG
*
105644121 AAACATAAATTGAA
1 AAACAGAAATTGAA
105644135 AAACAGAAATTGAA
1 AAACAGAAATTGAA
105644149 AA
1 AA
105644151 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:105644258 original size:70 final size:70
Alignment explanation
Indices: 105644169--105644308 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
105644159 CGTGTCCTGA
*
105644169 GGCTCAACTCACCTATCGCAATATGAGTTAATTTTTTTGAAACATAAATTGAAAAACGGAAATTG
1 GGCTCAACTCACATATCGCAATATGAGTTAATTTTTTTGAAACATAAATTGAAAAACGGAAATTG
105644234 AAAAT
66 AAAAT
* *
105644239 GGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAACGGAAATTG
1 GGCTCAACTCACATATCGCAATATGAGTTAATTTTTTTGAAACATAAATTGAAAAACGGAAATTG
105644304 AAAAT
66 AAAAT
105644309 ACCTCAGCGT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (70 bp):
GGCTCAACTCACATATCGCAATATGAGTTAATTTTTTTGAAACATAAATTGAAAAACGGAAATTG
AAAAT
Found at i:105647818 original size:27 final size:27
Alignment explanation
Indices: 105647770--105647906 Score: 163
Period size: 27 Copynumber: 5.1 Consensus size: 27
105647760 GTGACGAAGT
*
105647770 CACCAGATATAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
*
105647797 CACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
105647824 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
*
105647851 CACCAGAACAGATATATGTGGCAAAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
105647878 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
105647905 CA
1 CA
105647907 TCAGGACGCT
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 85 0.88
28 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:105647845 original size:54 final size:54
Alignment explanation
Indices: 105647752--105647906 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 54
105647742 GCGAGGCTGC
* * * * * *
105647752 CAGATAT-TGTGACGAAGTCACCAGATATAGAT-ATTGTGGCAGAGCCACTAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
105647805 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
105647859 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCA
105647907 TCAGGACGCT
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 11 0.12
54 79 0.88
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:105649609 original size:26 final size:26
Alignment explanation
Indices: 105649529--105649612 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
105649519 CATGAAATTC
105649529 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
105649555 TCATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* **
105649581 TTATCATGGAACATTTACCTAACATA
1 TTATCATGAAACATTTACCTAACCCA
105649607 TTATCA
1 TTATCA
105649613 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:105656029 original size:32 final size:32
Alignment explanation
Indices: 105655988--105656051 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
105655978 ATGAAACCCG
105655988 GGGGACAAGGGCATATCCTTGAGACATCTTTA
1 GGGGACAAGGGCATATCCTTGAGACATCTTTA
* *
105656020 GGGGACAAGGGCGTATCCTTGAGACATTTTTA
1 GGGGACAAGGGCATATCCTTGAGACATCTTTA
105656052 CTTGCGTCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (32 bp):
GGGGACAAGGGCATATCCTTGAGACATCTTTA
Found at i:105663604 original size:24 final size:24
Alignment explanation
Indices: 105663576--105663625 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
105663566 AGAAATATAC
105663576 ATATGTCATGTATAAAGATATAAT
1 ATATGTCATGTATAAAGATATAAT
105663600 ATATGTCATGTATAAAGATATAAT
1 ATATGTCATGTATAAAGATATAAT
105663624 AT
1 AT
105663626 TGAAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (24 bp):
ATATGTCATGTATAAAGATATAAT
Found at i:105664992 original size:15 final size:15
Alignment explanation
Indices: 105664972--105665007 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
105664962 AAGAAATAAT
105664972 ATATATAATATAAAC
1 ATATATAATATAAAC
*
105664987 ATATATAATATATAC
1 ATATATAATATAAAC
105665002 ATATAT
1 ATATAT
105665008 TAGAGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATATAATATAAAC
Found at i:105665323 original size:3 final size:3
Alignment explanation
Indices: 105665307--105665359 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
105665297 ACTAATAAAC
* *
105665307 AAT AAT GAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
105665355 AAT AA
1 AAT AA
105665360 AATTATAACA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:105666990 original size:21 final size:21
Alignment explanation
Indices: 105666966--105667019 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
105666956 GTACATATAT
105666966 ATATACAAAATAATATTAGAA
1 ATATACAAAATAATATTAGAA
* * *
105666987 ATATACCATATAGTATTAGAA
1 ATATACAAAATAATATTAGAA
*
105667008 ATATACATAATA
1 ATATACAAAATA
105667020 TATACATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (21 bp):
ATATACAAAATAATATTAGAA
Found at i:105667117 original size:3 final size:3
Alignment explanation
Indices: 105667111--105667167 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
105667101 ACAACACATG
* * * * *
105667111 ATA ATA ATA ATA ATA ATA ATG ATA AGA ATA ATA ACA ATA TTA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
105667159 ATA TTA ATA
1 ATA ATA ATA
105667168 TACGCAATGT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:105667681 original size:26 final size:25
Alignment explanation
Indices: 105667650--105667723 Score: 130
Period size: 26 Copynumber: 2.9 Consensus size: 25
105667640 ATTGATAAGG
105667650 GGTTAGGTAAATGTTCCATGATAAT
1 GGTTAGGTAAATGTTCCATGATAAT
105667675 GGATTAGGTAAATGTTCCATGATAAT
1 GG-TTAGGTAAATGTTCCATGATAAT
105667701 GGTTCAGGTAAATGTTCCATGAT
1 GGTT-AGGTAAATGTTCCATGAT
105667724 GGGAATTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
25 4 0.09
26 43 0.91
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.35
Consensus pattern (25 bp):
GGTTAGGTAAATGTTCCATGATAAT
Found at i:105669195 original size:26 final size:26
Alignment explanation
Indices: 105669166--105669218 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105669156 TTTACAGTTT
105669166 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
105669192 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
105669218 T
1 T
105669219 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:105672001 original size:14 final size:13
Alignment explanation
Indices: 105671982--105672032 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
105671972 GTATGTCATT
105671982 AACATATAAAACC
1 AACATATAAAACC
* *
105671995 AA-ACATAAAACTTT
1 AACATATAAAAC--C
105672009 AACATATAAAACC
1 AACATATAAAACC
105672022 AA-ATATAAAAC
1 AACATATAAAAC
105672033 TTTACTCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
12 17 0.55
13 4 0.13
14 2 0.06
15 8 0.26
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.20
Consensus pattern (13 bp):
AACATATAAAACC
Found at i:105672018 original size:27 final size:27
Alignment explanation
Indices: 105671980--105672036 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
105671970 CAGTATGTCA
105671980 TTAACATATAAAACCAAACATAAAACT
1 TTAACATATAAAACCAAACATAAAACT
*
105672007 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAACATAAAACT
105672034 TTA
1 TTA
105672037 CTCCCACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (27 bp):
TTAACATATAAAACCAAACATAAAACT
Found at i:105676735 original size:3 final size:3
Alignment explanation
Indices: 105676727--105676762 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
105676717 GTAAATATTG
105676727 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
105676763 GTAAGAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:105676842 original size:19 final size:20
Alignment explanation
Indices: 105676800--105676838 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
105676790 AGGTAAATAC
*
105676800 ATAATACATACATATTAGAA
1 ATAATACATACATATTAAAA
105676820 ATAAT-CATA-ATATTAAAA
1 ATAATACATACATATTAAAA
105676838 A
1 A
105676839 ATAACTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAATACATACATATTAAAA
Found at i:105677050 original size:18 final size:18
Alignment explanation
Indices: 105677010--105677052 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
105677000 CACGTAATAT
* * *
105677010 ATAAAAAATGTATCCGTA
1 ATAAAAAATATATACATA
*
105677028 TTAAAAAATATATACATA
1 ATAAAAAATATATACATA
105677046 ATAAAAA
1 ATAAAAA
105677053 TACAATATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAAAAAATATATACATA
Found at i:105679341 original size:43 final size:43
Alignment explanation
Indices: 105679221--105679549 Score: 218
Period size: 43 Copynumber: 7.6 Consensus size: 43
105679211 TCTACAAATC
* * * **
105679221 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTCACC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGATC-TGT-AAA
** * * * *
105679265 TTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTGAA
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAA
* *
105679308 TTCAACCGGTTACCCTACTGCTTAGGGGTTTAAGGTCTGTAAA
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAA
* * ** * ** * **
105679351 TTCAGCTTACTACCCTACTGCTTAGGGGTTAAAGCCCAT-CACC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGATC-TGTAAA
** * * * *
105679394 TTTGATCTGTTTCCCTACTGCTTAGGGAG-TTAAGATTTG-CAA
1 TTCAACCTGTTACCCTACTGCTTAGGG-GTTTAAGATCTGTAAA
** * **
105679436 TTCAGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCATC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGA-TCTGT-AAA
* * * *
105679480 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAA
*
105679523 TTCAGCCTGTTACCCTACTGCTTAGGG
1 TTCAACCTGTTACCCTACTGCTTAGGG
105679550 AGATAAGGCT
Statistics
Matches: 213, Mismatches: 63, Indels: 19
0.72 0.21 0.06
Matches are distributed among these distances:
41 1 0.00
42 30 0.14
43 115 0.54
44 66 0.31
45 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAA
Found at i:105679410 original size:86 final size:84
Alignment explanation
Indices: 105679320--105679549 Score: 302
Period size: 86 Copynumber: 2.7 Consensus size: 84
105679310 CAACCGGTTA
*
105679320 CCCTACTGCTTAGGGGTTTAAGGTCTGTAAATTCAGCTTACTACCCTACTGCTTAGGGGTTAAAG
1 CCCTACTGCTTAGGGG-TTAAGATCTGTAAATTCAGCTT--TACCCTACTGCTTAGGGGTTAAAG
*
105679385 -CCCATCACCTTTGATCTGTTT
63 ACCCATCACCTTCGATCTGTTT
* * *
105679406 CCCTACTGCTTAGGGAGTTAAGATTTG-CAATTCAGTCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGG-GTTAAGATCTGTAAATTCAG-CT-TTACCCTACTGCTTAGGGGTTAAAG
* *
105679470 ACCCTTCATCTTCGATCTGTTT
63 ACCCATCACCTTCGATCTGTTT
105679492 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
1 CCCTACTGCTTA-GGGGTTAAGATCTGTAAATTCAG-CT-TTACCCTACTGCTTAGGG
105679550 AGATAAGGCT
Statistics
Matches: 128, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
85 30 0.23
86 65 0.51
87 33 0.26
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (84 bp):
CCCTACTGCTTAGGGGTTAAGATCTGTAAATTCAGCTTTACCCTACTGCTTAGGGGTTAAAGACC
CATCACCTTCGATCTGTTT
Found at i:105679426 original size:129 final size:129
Alignment explanation
Indices: 105679231--105679469 Score: 374
Period size: 129 Copynumber: 1.9 Consensus size: 129
105679221 TTCAGCCTGT
* *** *
105679231 TACCCTACTGCTTAGGGGGTTAAGGCTTGTCACCTTTGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGGTTAAAGCCCATCACCTTTGATCTGTTTCCCTACTGCTTAGGGAGTT
105679296 AAGATCTGTG-AATTCAACCGGTTACCCTACTGCTTAGGGGTTTAAGGTCTGTAAATTCAGCTTA
66 AAGAT-T-TGCAATTCAACCGGTTACCCTACTGCTTAGGGGTTTAAGGTCTGTAAATTCAGCTTA
105679360 C
129 C
105679361 TACCCTACTGCTTA-GGGGTTAAAGCCCATCACCTTTGATCTGTTTCCCTACTGCTTAGGGAGTT
1 TACCCTACTGCTTAGGGGGTTAAAGCCCATCACCTTTGATCTGTTTCCCTACTGCTTAGGGAGTT
** *
105679425 AAGATTTGCAATTCAGTCTGTTACCCTACTGCTTAGGGGTTTAAG
66 AAGATTTGCAATTCAACCGGTTACCCTACTGCTTAGGGGTTTAAG
105679470 ACCCTTCATC
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
127 2 0.02
128 34 0.34
129 50 0.50
130 14 0.14
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.35
Consensus pattern (129 bp):
TACCCTACTGCTTAGGGGGTTAAAGCCCATCACCTTTGATCTGTTTCCCTACTGCTTAGGGAGTT
AAGATTTGCAATTCAACCGGTTACCCTACTGCTTAGGGGTTTAAGGTCTGTAAATTCAGCTTAC
Found at i:105679496 original size:129 final size:129
Alignment explanation
Indices: 105679221--105679512 Score: 360
Period size: 129 Copynumber: 2.2 Consensus size: 129
105679211 TCTACAAATC
* ***
105679221 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCACCTTTGATCTGTTTCCCTACTGC
1 TTCAG-CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACCTTTGATCTGTTTCCCTACTGC
* **
105679286 TTAGGGGGTTAAGATCTGTGAATTCAACCGGTTACCCTACTGCTTAGGGGTTTAAGGTCTGTAAA
65 TTAGGGAGTTAAGATCTGTGAATTCAACCGGTTACCCTACTGCTTAGGGGTTTAAGCCCTGTAAA
105679351 TTCAGCT-TACTACCCTACTGCTTA-GGGGTTAAAGCCCATCACCTTTGATCTGTTTCCCTACTG
1 TTCAGCTGT--TACCCTACTGCTTAGGGGGTTAAAGCCCATCACCTTTGATCTGTTTCCCTACTG
** *
105679414 CTTAGGGAGTTAAGAT-T-TGCAATTCAGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T
64 CTTAGGGAGTTAAGATCTGTG-AATTCAACCGGTTACCCTACTGCTTAGGGGTTTAAG-CCCTGT
**
105679476 CATC
127 -AAA
* *
105679480 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
1 TTC-AGCTGTTACCCTACTGCTTAGGGGGTTAA
105679513 GATCTGTAAA
Statistics
Matches: 140, Mismatches: 14, Indels: 16
0.82 0.08 0.09
Matches are distributed among these distances:
127 2 0.01
128 36 0.26
129 71 0.51
130 30 0.21
131 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (129 bp):
TTCAGCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACCTTTGATCTGTTTCCCTACTGCT
TAGGGAGTTAAGATCTGTGAATTCAACCGGTTACCCTACTGCTTAGGGGTTTAAGCCCTGTAAA
Found at i:105679702 original size:51 final size:51
Alignment explanation
Indices: 105679646--105679743 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
105679636 TGCCAAATAA
* * *
105679646 TTAGGATGCTATGATTGAAATGAATCAAATGCTCTTAACTAAATGTGATGC
1 TTAGGATGCTATGATCGAAATGAATCAAATGATCCTAACTAAATGTGATGC
* *
105679697 TTAGGATGCTGTGATCGAAATGAATCAAATGATCCTAACTAGATGTG
1 TTAGGATGCTATGATCGAAATGAATCAAATGATCCTAACTAAATGTG
105679744 TTACGGATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (51 bp):
TTAGGATGCTATGATCGAAATGAATCAAATGATCCTAACTAAATGTGATGC
Found at i:105684358 original size:24 final size:24
Alignment explanation
Indices: 105684326--105684373 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
105684316 TTCGGGGTGA
105684326 ATGATTCCTCCAGACACAAAAGTC
1 ATGATTCCTCCAGACACAAAAGTC
*
105684350 ATGATTCCTCCAGACATAAAAGTC
1 ATGATTCCTCCAGACACAAAAGTC
105684374 TTTGAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (24 bp):
ATGATTCCTCCAGACACAAAAGTC
Found at i:105690117 original size:3 final size:3
Alignment explanation
Indices: 105690111--105690142 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
105690101 TTCTTCCCCA
105690111 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
105690143 ATTGATCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:105701786 original size:23 final size:23
Alignment explanation
Indices: 105701767--105701822 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
105701757 GATTTAGAGG
*
105701767 AGATGTTGTTATGGACTTAGGGA
1 AGATATTGTTATGGACTTAGGGA
*
105701790 AGATATTGTTATGGATTTAGGGA
1 AGATATTGTTATGGACTTAGGGA
105701813 AGATATTGTT
1 AGATATTGTT
105701823 GTTGAGGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.02, G:0.30, T:0.39
Consensus pattern (23 bp):
AGATATTGTTATGGACTTAGGGA
Found at i:105701824 original size:26 final size:25
Alignment explanation
Indices: 105701769--105701836 Score: 88
Period size: 23 Copynumber: 2.8 Consensus size: 25
105701759 TTTAGAGGAG
*
105701769 ATGTTGTTATGGACTTAGGGAAGAT
1 ATGTTGTTATGGATTTAGGGAAGAT
105701794 A--TTGTTATGGATTTAGGGAAGAT
1 ATGTTGTTATGGATTTAGGGAAGAT
105701817 ATTGTTGTTGA-GGATTTAGG
1 A-TGTTGTT-ATGGATTTAGG
105701837 TGGAGGGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 22 0.58
25 1 0.03
26 14 0.37
27 1 0.03
ACGTcount: A:0.26, C:0.01, G:0.32, T:0.40
Consensus pattern (25 bp):
ATGTTGTTATGGATTTAGGGAAGAT
Found at i:105708406 original size:19 final size:19
Alignment explanation
Indices: 105708369--105708405 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
105708359 TTATTATATT
105708369 CACATTTTAAGTTAAAAAA
1 CACATTTTAAGTTAAAAAA
*
105708388 CACATTTT-CGTTAAAAAA
1 CACATTTTAAGTTAAAAAA
105708406 AATAAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (19 bp):
CACATTTTAAGTTAAAAAA
Found at i:105710171 original size:43 final size:42
Alignment explanation
Indices: 105710118--105710215 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 42
105710108 TTCATATTCT
* *
105710118 AGAAATATTTTTATTTTATCTTTTAGTAGTTTACTAGAATAAG
1 AGAACTATTTTT-TTTTATCTTTGAGTAGTTTACTAGAATAAG
* *
105710161 AGAACTATTTTCTTTTTATGTTTGAGTAGTTTATTAGAATAAG
1 AGAACTATTTT-TTTTTATCTTTGAGTAGTTTACTAGAATAAG
*
105710204 GGAACTATTTTT
1 AGAACTATTTTT
105710216 CCAATTAGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.02
43 47 0.96
44 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (42 bp):
AGAACTATTTTTTTTTATCTTTGAGTAGTTTACTAGAATAAG
Found at i:105714852 original size:19 final size:19
Alignment explanation
Indices: 105714806--105714853 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
105714796 GTATATATTT
105714806 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
105714824 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
105714843 TAAGTTTTATT
1 TAAATTTTATT
105714854 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:105714915 original size:43 final size:43
Alignment explanation
Indices: 105714862--105714959 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
105714852 TTCATATTCT
*
105714862 AGAAATATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAG
1 AGAACTATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAG
* *
105714905 AGAACTATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAG
1 AGAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
*
105714948 GGAACTATTTTC
1 AGAACTATTTTC
105714960 CCAATTAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (43 bp):
AGAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
Done.