Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 14 of 125
Found at i:4492067 original size:18 final size:18
Alignment explanation
Indices: 4492046--4492084 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4492036 TCAATCATCG
*
4492046 TATTTT-TTTTGTATATTT
1 TATTTTATTTT-TATAATT
4492064 TATTTTATTTTTATAATT
1 TATTTTATTTTTATAATT
4492082 TAT
1 TAT
4492085 ATAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTTTATTTTTATAATT
Found at i:4492353 original size:12 final size:12
Alignment explanation
Indices: 4492331--4492364 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4492321 TTAAATATCG
4492331 AATTAAGATAAAA
1 AATTAA-ATAAAA
4492344 AATTAAATAAAA
1 AATTAAATAAAA
*
4492356 AAATAAATA
1 AATTAAATA
4492365 TACTTTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
AATTAAATAAAA
Found at i:4493502 original size:3 final size:3
Alignment explanation
Indices: 4493496--4493524 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4493486 TTCTTCTTCT
4493496 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
4493525 TTCTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:4500505 original size:48 final size:47
Alignment explanation
Indices: 4500435--4500565 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 47
4500425 AAGAAAACTA
4500435 GCGTGCTCTCTG-ATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCT
1 GCGTGCTCTCTGTATTAGCACTGTGTGTGCTCTCTGTTTAGCAC-TCT
** *
4500482 -CGTGCTCTCTGTTATTAGCACTGTGTGTGCTCTCTAATTAGCACTTT
1 GCGTGCTCTCTG-TATTAGCACTGTGTGTGCTCTCTGTTTAGCACTCT
* * *
4500529 GTGTGCTCTCTGT-TTAGCACTTTGTGTGTTCTCTGTT
1 GCGTGCTCTCTGTATTAGCACTGTGTGTGCTCTCTGTT
4500566 GCCCAGCACT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
46 31 0.42
47 3 0.04
48 39 0.53
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (47 bp):
GCGTGCTCTCTGTATTAGCACTGTGTGTGCTCTCTGTTTAGCACTCT
Found at i:4500564 original size:23 final size:23
Alignment explanation
Indices: 4500437--4500565 Score: 161
Period size: 23 Copynumber: 5.5 Consensus size: 23
4500427 GAAAACTAGC
*
4500437 GTGCTCTCTGATTAGCACTGTGT
1 GTGCTCTCTGTTTAGCACTGTGT
*
4500460 GTGCTCTCTGTTTAGCAC-GTCT
1 GTGCTCTCTGTTTAGCACTGTGT
4500482 CGTGCTCTCTGTTATTAGCACTGTGT
1 -GTGCTCTCTG-T-TTAGCACTGTGT
** *
4500508 GTGCTCTCTAATTAGCACTTTGT
1 GTGCTCTCTGTTTAGCACTGTGT
*
4500531 GTGCTCTCTGTTTAGCACTTTGT
1 GTGCTCTCTGTTTAGCACTGTGT
*
4500554 GTGTTCTCTGTT
1 GTGCTCTCTGTT
4500566 GCCCAGCACT
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
22 3 0.03
23 70 0.75
24 1 0.01
25 16 0.17
26 3 0.03
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (23 bp):
GTGCTCTCTGTTTAGCACTGTGT
Found at i:4500582 original size:48 final size:44
Alignment explanation
Indices: 4500437--4500593 Score: 152
Period size: 48 Copynumber: 3.3 Consensus size: 44
4500427 GAAAACTAGC
* * *
4500437 GTGCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCT
1 GTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTG-TTAGCACTTAT
* *
4500482 CGTGCTCTCTGTTATTAGCACTGTGTGTGCTCTCTAATTAGCACTTTGT
1 -GTGCTCTCTG-T-TTAGCACTGTGTGTGCTCTCT-GTTAGCAC-TTAT
* *
4500531 GTGCTCTCTGTTTAGCACTTTGTGTGTTCTCTGTTGCCCAGCACTTAT
1 GTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTT----AGCACTTAT
*
4500579 GTGCTCTTTGTTTAG
1 GTGCTCTCTGTTTAG
4500594 TACTTCAGTA
Statistics
Matches: 94, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.02
46 29 0.31
47 1 0.01
48 55 0.59
49 7 0.07
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.43
Consensus pattern (44 bp):
GTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTAGCACTTAT
Found at i:4500582 original size:71 final size:71
Alignment explanation
Indices: 4500437--4500585 Score: 185
Period size: 71 Copynumber: 2.1 Consensus size: 71
4500427 GAAAACTAGC
* **
4500437 GTGCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCA
1 GTGCTCTCTAATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTACCAGCA
*
4500502 CTGTGT
66 CTGTAT
* * * * *
4500508 GTGCTCTCTAATTAGCACTTTGTGTGCTCTCTGTTTAGCAC-TTTGTGTGTTCTCTGTTGCCCAG
1 GTGCTCTCTAATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCT-CGTGCTCTCTGTT-ACCAG
4500572 CACT-TAT
64 CACTGTAT
4500579 GTGCTCT
1 GTGCTCT
4500586 TTGTTTAGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
70 2 0.03
71 59 0.88
72 6 0.09
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.42
Consensus pattern (71 bp):
GTGCTCTCTAATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTACCAGCA
CTGTAT
Found at i:4506055 original size:23 final size:22
Alignment explanation
Indices: 4506016--4506060 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
4506006 TTAATGTCTA
4506016 ATTAAAAAAATCAGTTTTATATT
1 ATTAAAAAAATCAGTTTT-TATT
*
4506039 ATTAAACAAAAT-TGTTTTTATT
1 ATTAAA-AAAATCAGTTTTTATT
4506061 GTCTTGTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 11 0.55
24 5 0.25
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTAAAAAAATCAGTTTTTATT
Found at i:4507675 original size:6 final size:6
Alignment explanation
Indices: 4507630--4507690 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
4507620 TTCTTACCCA
* * * *
4507630 TATTTA TATTTT TA-TTT TA-TGT TATTTT AAATTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
*
4507676 TAATTAT TATTTT TA
1 T-ATTTT TATTTT TA
4507691 ACATATTAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
5 9 0.20
6 30 0.68
7 5 0.11
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (6 bp):
TATTTT
Found at i:4508506 original size:61 final size:61
Alignment explanation
Indices: 4508434--4508561 Score: 163
Period size: 61 Copynumber: 2.1 Consensus size: 61
4508424 TATTAAGTTG
* * * * * *
4508434 AAAA-TTCAATAAATTT-AGTCATCAATGTTTACAAAATTTGTC-ATTTTATTTCTAATTCTA
1 AAAATTTCAATAAATTTGACTC-TCAATATTTACAAAATTTATCAATTTAATCT-TAACTCTA
4508494 AAAATTTCAATAAATTTGACTCTCAATATTTACAAAATTTATCAATTTAATCTTAACTCTA
1 AAAATTTCAATAAATTTGACTCTCAATATTTACAAAATTTATCAATTTAATCTTAACTCTA
4508555 AAAATTT
1 AAAATTT
4508562 TTTAAAAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 4 0.07
61 45 0.76
62 10 0.17
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.43
Consensus pattern (61 bp):
AAAATTTCAATAAATTTGACTCTCAATATTTACAAAATTTATCAATTTAATCTTAACTCTA
Found at i:4508788 original size:28 final size:28
Alignment explanation
Indices: 4508735--4508790 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4508725 CTAAATTTTG
*
4508735 TTTAAAATTACATTTCAGTCACTTAACT
1 TTTAAAATTACATATCAGTCACTTAACT
4508763 TTTAAAAGTTACATAAT-AGTCA-TTAACT
1 TTTAAAA-TTACAT-ATCAGTCACTTAACT
4508791 ATTTTGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 13 0.52
29 11 0.44
30 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (28 bp):
TTTAAAATTACATATCAGTCACTTAACT
Found at i:4512494 original size:23 final size:23
Alignment explanation
Indices: 4512468--4512565 Score: 108
Period size: 23 Copynumber: 4.2 Consensus size: 23
4512458 ACACTAGCGC
*
4512468 GCTCTTTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
4512491 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
* *
4512514 GCTCTCTGTTATTAGCATTGTATGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
4512539 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
4512562 GCTC
1 GCTC
4512566 AGTACTTCGG
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
22 3 0.05
23 40 0.65
25 16 0.26
26 3 0.05
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:4513913 original size:21 final size:21
Alignment explanation
Indices: 4513889--4513933 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4513879 TTAAAACTCG
4513889 AATT-AAATTATATATGTTTTA
1 AATTAAAATTA-ATATGTTTTA
*
4513910 AATTCAAAATTAATATTTTTTA
1 AATT-AAAATTAATATGTTTTA
4513932 AA
1 AA
4513934 CAAGACTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 11 0.52
23 6 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTAAAATTAATATGTTTTA
Found at i:4530914 original size:18 final size:19
Alignment explanation
Indices: 4530891--4530937 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
4530881 CTCTGTTGTT
4530891 TTCTTTTCGATCTT-TTTG
1 TTCTTTTCGATCTTATTTG
4530909 TTCTTTTC-AT-TTATTTG
1 TTCTTTTCGATCTTATTTG
*
4530926 CT-TTTTCGATCT
1 TTCTTTTCGATCT
4530938 CGTTTTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 7 0.28
17 9 0.36
18 9 0.36
ACGTcount: A:0.09, C:0.17, G:0.09, T:0.66
Consensus pattern (19 bp):
TTCTTTTCGATCTTATTTG
Found at i:4547839 original size:26 final size:26
Alignment explanation
Indices: 4547792--4547845 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4547782 TTCATCAAAT
*
4547792 AAAGAAAGTGAGAATTATATTAAAAA
1 AAAGAAAGTGAGAATTAAATTAAAAA
*
4547818 AAAGAAAGTGAGAA-TAGAATTAACAA
1 AAAGAAAGTGAGAATTA-AATTAAAAA
4547844 AA
1 AA
4547846 TTAAAAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.63, C:0.02, G:0.17, T:0.19
Consensus pattern (26 bp):
AAAGAAAGTGAGAATTAAATTAAAAA
Found at i:4548026 original size:32 final size:32
Alignment explanation
Indices: 4547990--4548050 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
4547980 CAATCAATAT
*
4547990 GAGTTA-TCAAATTAAATTAATTAATTTATCAC
1 GAGTTACT-AAATTAAAGTAATTAATTTATCAC
* *
4548022 GAGTTACTAATTTCAAGTAATTAATTTAT
1 GAGTTACTAAATTAAAGTAATTAATTTAT
4548051 AAGTTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (32 bp):
GAGTTACTAAATTAAAGTAATTAATTTATCAC
Found at i:4548525 original size:14 final size:12
Alignment explanation
Indices: 4548491--4548535 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
4548481 TATTTTAAAA
4548491 TTGATTTTATTT
1 TTGATTTTATTT
4548503 TTGATTTTATTT
1 TTGATTTTATTT
*
4548515 TTTACTATTTATTT
1 TTGA-T-TTTATTT
*
4548529 TGGATTT
1 TTGATTT
4548536 ATTGAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 17 0.61
13 2 0.07
14 9 0.32
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (12 bp):
TTGATTTTATTT
Found at i:4548993 original size:20 final size:21
Alignment explanation
Indices: 4548954--4549001 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4548944 AAAGGTTTAG
**
4548954 AAATTATAAAAAAAATATTAA
1 AAATTATTTAAAAAATATTAA
*
4548975 TAATTATTTAAAAAA-ATTAA
1 AAATTATTTAAAAAATATTAA
4548995 AAATTAT
1 AAATTAT
4549002 AAAAATTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTATTTAAAAAATATTAA
Found at i:4549007 original size:16 final size:16
Alignment explanation
Indices: 4548986--4549022 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4548976 AATTATTTAA
4548986 AAAAATTAAAAATTAT
1 AAAAATTAAAAATTAT
* *
4549002 AAAAATTGAAAATTTT
1 AAAAATTAAAAATTAT
4549018 AAAAA
1 AAAAA
4549023 AGTTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAAATTAAAAATTAT
Found at i:4549914 original size:14 final size:13
Alignment explanation
Indices: 4549889--4549921 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4549879 TTAAATTATT
4549889 ATATTTTTTAAAA
1 ATATTTTTTAAAA
4549902 ATATTTATTTAAAA
1 ATATTT-TTTAAAA
4549916 AT-TTTT
1 ATATTTT
4549922 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 9 0.47
14 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTTTTTAAAA
Found at i:4555161 original size:10 final size:11
Alignment explanation
Indices: 4555148--4555186 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
4555138 AGAATTAAAT
4555148 ATTA-AATATA
1 ATTATAATATA
4555158 ATTATAATA-A
1 ATTATAATATA
*
4555168 AATATAATATA
1 ATTATAATATA
4555179 ATTATAAT
1 ATTATAAT
4555187 CTTAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 13 0.52
11 12 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTATAATATA
Found at i:4555172 original size:16 final size:15
Alignment explanation
Indices: 4555151--4555180 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4555141 ATTAAATATT
4555151 AAATATAATTATAATA
1 AAATATAA-TATAATA
4555167 AAATATAATATAAT
1 AAATATAATATAAT
4555181 TATAATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATAATATAATA
Found at i:4556464 original size:16 final size:16
Alignment explanation
Indices: 4556443--4556473 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4556433 GTTCGTCGTG
*
4556443 TTTTTTTTGTTTTCTA
1 TTTTTTTTCTTTTCTA
4556459 TTTTTTTTCTTTTCT
1 TTTTTTTTCTTTTCT
4556474 CTTCCTTCTT
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:0.03, C:0.10, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTTTTCTTTTCTA
Found at i:4556738 original size:381 final size:380
Alignment explanation
Indices: 4556030--4556738 Score: 1355
Period size: 381 Copynumber: 1.9 Consensus size: 380
4556020 CAAGTTAAAA
4556030 TTTTAAAAAAATATTTTTCTAGGGTTCGTCGTGTTTTTTTTGTTTTCTATTTTTTTCTTTTCTCT
1 TTTTAAAAAAATATTTTTCTAGGGTTCGTCGTGTTTTTTTTGTTTTCTATTTTTTTCTTTTCTCT
* *
4556095 TCCTTCTTCTCAATTGAACATCCTAGTCCCCATACTCAATAGCCATCAATGTTGCTATTTACAGT
66 TCCTTCTTCTCAATTGAAAATCCTAGTCACCATACTCAATAGCCATCAATGTTGCTATTTACAGT
*
4556160 AGCCTTTCGTTCCGATTTCGACACCAAATAAGAGATTTCCTCTTTTTCTTTGACTTTTAAAGTTC
131 AGCCTTTCGTTCCGATTTCGACACCAAATAAGAGATTTCCTCCTTTTCTTTGACTTTTAAAGTTC
*
4556225 AAATTTCCCCGTAGTCGGCTCCAAATCTTCTAAAACAATGACTAAAACTTCAAACTACTCTTTCT
196 AAATTTCCCCGTAGTCGACTCCAAATCTTCTAAAACAATGACTAAAACTTCAAACTACTCTTTCT
4556290 ACTATTTTTTTTAAATATCGACACCTAAAAGAATATTTTTTAAAAATTTTAACGGGTGTCATTTG
261 ACTATTTTTTTTAAATATCGACACCTAAAAGAATATTTTTTAAAAATTTTAACGGGTGTCATTTG
4556355 ATAATCCTAGTCGCCTTGTTTTTTAATGGGTGTCGTTTAAAATTTTTTTAAATAT
326 ATAATCCTAGTCGCCTTGTTTTTTAATGGGTGTCGTTTAAAATTTTTTTAAATAT
4556410 TTTTAAAAAAATATTTTTCTAGGGTTCGTCGTGTTTTTTTTGTTTTCTATTTTTTTTCTTTTCTC
1 TTTTAAAAAAATATTTTTCTAGGGTTCGTCGTGTTTTTTTTGTTTTCTA-TTTTTTTCTTTTCTC
*
4556475 TTCCTTCTTCTCAATTGAAAATCCTAGTCACCGTACTCAATAGCCATCAATGTTGCTATTTACAG
65 TTCCTTCTTCTCAATTGAAAATCCTAGTCACCATACTCAATAGCCATCAATGTTGCTATTTACAG
4556540 TAGCCTTTCGTTCCGATTTCGACACCAAATAAGAGATTTCCTCCTTTTCTTTGACTTTTAAAGTT
130 TAGCCTTTCGTTCCGATTTCGACACCAAATAAGAGATTTCCTCCTTTTCTTTGACTTTTAAAGTT
4556605 CAAATTTCCCCGTAGTCGACTCCAAATCTTCTAAAACAATGACTAAAACTTCAAACTACTCTTTC
195 CAAATTTCCCCGTAGTCGACTCCAAATCTTCTAAAACAATGACTAAAACTTCAAACTACTCTTTC
*
4556670 TACTATTTTTTTTAAATATCGACACCTAAAAGAATATTTTTTAAAAATTTTAACGGGTGTCGTTT
260 TACTATTTTTTTTAAATATCGACACCTAAAAGAATATTTTTTAAAAATTTTAACGGGTGTCATTT
4556735 GATA
325 GATA
4556739 GACCAATGAC
Statistics
Matches: 322, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
380 49 0.15
381 273 0.85
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (380 bp):
TTTTAAAAAAATATTTTTCTAGGGTTCGTCGTGTTTTTTTTGTTTTCTATTTTTTTCTTTTCTCT
TCCTTCTTCTCAATTGAAAATCCTAGTCACCATACTCAATAGCCATCAATGTTGCTATTTACAGT
AGCCTTTCGTTCCGATTTCGACACCAAATAAGAGATTTCCTCCTTTTCTTTGACTTTTAAAGTTC
AAATTTCCCCGTAGTCGACTCCAAATCTTCTAAAACAATGACTAAAACTTCAAACTACTCTTTCT
ACTATTTTTTTTAAATATCGACACCTAAAAGAATATTTTTTAAAAATTTTAACGGGTGTCATTTG
ATAATCCTAGTCGCCTTGTTTTTTAATGGGTGTCGTTTAAAATTTTTTTAAATAT
Found at i:4557003 original size:25 final size:28
Alignment explanation
Indices: 4556956--4557007 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
4556946 ATTCAGATCA
*
4556956 TTTTATTATATAATTTAACTTAAATTAT
1 TTTTATAATATAATTTAACTTAAATTAT
4556984 TTTTATAAT-TAA-TTAA-TTAAATTA
1 TTTTATAATATAATTTAACTTAAATTA
4557008 GATTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 4 0.17
27 3 0.13
28 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTATAATATAATTTAACTTAAATTAT
Found at i:4557192 original size:16 final size:16
Alignment explanation
Indices: 4557173--4557206 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4557163 TTCTTTGAAA
4557173 ATTATAAAT-ATAAATT
1 ATTA-AAATGATAAATT
4557189 ATTAAAATGATAAATT
1 ATTAAAATGATAAATT
4557205 AT
1 AT
4557207 ATTTTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTAAAATGATAAATT
Found at i:4558662 original size:30 final size:29
Alignment explanation
Indices: 4558595--4558674 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
4558585 TTTAATAGTC
* * *
4558595 TATATTTTTATAATTTTAAAAAGATTAAA
1 TATAATTTTATATTTTTAAAAAGATAAAA
* *
4558624 TCAAAATTTTATATTTTTAAAAGGACTAAAA
1 T-ATAATTTTATATTTTTAAAAAGA-TAAAA
*
4558655 TATAATTTTATCTTTATTAA
1 TATAATTTTATATTT-TTAA
4558675 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.02
30 31 0.76
31 9 0.22
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (29 bp):
TATAATTTTATATTTTTAAAAAGATAAAA
Found at i:4564857 original size:2 final size:2
Alignment explanation
Indices: 4564850--4564876 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4564840 ATCGTGTTTA
4564850 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4564877 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4564937 original size:17 final size:17
Alignment explanation
Indices: 4564915--4564972 Score: 80
Period size: 17 Copynumber: 3.3 Consensus size: 17
4564905 TATACTGAAA
4564915 ATAATATAATTTATTTT
1 ATAATATAATTTATTTT
4564932 ATAATATAATTTATTTT
1 ATAATATAATTTATTTT
* *
4564949 ATAAAATAATAATATTTT
1 ATAATATAAT-TTATTTT
4564967 AGTAAT
1 A-TAAT
4564973 TATTTATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 26 0.72
18 7 0.19
19 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATAATATAATTTATTTT
Found at i:4575241 original size:257 final size:250
Alignment explanation
Indices: 4574703--4575325 Score: 795
Period size: 257 Copynumber: 2.5 Consensus size: 250
4574693 ATTGTCAGAA
* * *** *
4574703 ATTGCTCAAGGTAATGATGATCCAAGATGAATGCCCT-TTTATTTACCAGTGCCTGCCATATAGT
1 ATTGCTCAAGGTAATGGTGATCCAATATGAATGCCCTATTGGCTT-CCATTGCCTGCCATATAGT
* *
4574767 GTTGTGTATGTATTCATAAAGTAGTTAATTGGAAAGGATAAGAAATACATGAACTTGTTTTCTTT
65 GTTGTGTATGTATTCATAAAGTAGTTAATTTGAAAGGA-AAGAAATACATAAACTTGTTTTCTTT
* *
4574832 TTTACCCTCAACAAATCTAGCACTTGCGGCTGTGTAAACTTCTTTTTCTGTAGAACCTCCTGCAA
129 TTTACCCTCAACAAATCTAGCACTTGCGGCTGTGTAAACTTCTTTTCCAGTAGAACCTCCTGCAA
* *
4574897 CGTTTAAAATGTTGGATTTTAAGCTCAAACATTATATGTTATAAACCTTGGAAAGAC
194 CGTTTAAAATGTTGGATTCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAC
* *
4574954 AGTGCTCAAAGTAATGGTGATCCAATATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTG
1 ATTGCTCAAGGTAATGGTGATCCAATATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTG
* *
4575019 TTGTGTATGTATTCATAAAATAGTTAATTTGAAAGGAAAGAAAAACATAAACTTGTTTTCTTTTT
66 TTGTGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAGAAATACATAAACTTGTTTTCTTTTT
* * ** * ** **
4575084 TACCTTCAA-ATATTCATCTCGCTGTTGCTGCTG-GCCTATGTCCTT-TTCTTCCAGTAGATTCT
131 TACCCTCAACA-A---ATCTAGCACTTGCGGCTGTG--TA--AACTTCTT-TTCCAGTAGAACCT
* * *
4575146 CCTGCAACGTTTAAAATTTTTGGATTCTAAGCTCGAACATTATATGTTATAAACCTAGGAAAGAT
187 CCTGCAACGTTTAAAA-TGTTGGATTCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAC
* * *
4575211 ATTGCTCATGGCAATGGTGATCCAATATGAATGCCCTACTGGCTTCCATTGCCTGCCATATAGTG
1 ATTGCTCAAGGTAATGGTGATCCAATATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTG
* * *
4575276 TTATGCATGTATTCATAAAGTAGTTAAATTGAAAGGAAAAGAAATACATA
66 TTGTGTATGTATTCATAAAGTAGTTAATTTGAAAGG-AAAGAAATACATA
4575326 TCTCTGCAAA
Statistics
Matches: 322, Mismatches: 38, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
249 1 0.00
250 35 0.11
251 87 0.27
252 5 0.02
253 14 0.04
254 2 0.01
255 2 0.01
256 29 0.09
257 135 0.42
258 12 0.04
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (250 bp):
ATTGCTCAAGGTAATGGTGATCCAATATGAATGCCCTATTGGCTTCCATTGCCTGCCATATAGTG
TTGTGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAGAAATACATAAACTTGTTTTCTTTTT
TACCCTCAACAAATCTAGCACTTGCGGCTGTGTAAACTTCTTTTCCAGTAGAACCTCCTGCAACG
TTTAAAATGTTGGATTCTAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAC
Found at i:4580334 original size:19 final size:19
Alignment explanation
Indices: 4580288--4580335 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
4580278 ATCCTTTAAA
*
4580288 TCTTTCAATTAAATTCTAT
1 TCTTTAAATTAAATTCTAT
4580307 T-TTTAAAATTAAATT-TAT
1 TCTTT-AAATTAAATTCTAT
4580325 TGCTTTAAATT
1 T-CTTTAAATT
4580336 GATTTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
19 15 0.60
20 3 0.12
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (19 bp):
TCTTTAAATTAAATTCTAT
Found at i:4583570 original size:6 final size:6
Alignment explanation
Indices: 4583559--4583592 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
4583549 TGGATGCATG
4583559 GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA GCAA
1 GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA GCAA
4583593 TTAATAGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.65, C:0.18, G:0.18, T:0.00
Consensus pattern (6 bp):
GCAAAA
Found at i:4589745 original size:42 final size:42
Alignment explanation
Indices: 4589698--4589779 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
4589688 TCAAGGTCAC
* **
4589698 GAGTTT-AGAATTTGGGGTTATGAGTTGTGAGTTTAGGGTTCA
1 GAGTTTAAGAATTTGGGATTATGAGTT-CAAGTTTAGGGTTCA
* *
4589740 GAGTTTAAGTATTTGGGATTATGGGTTCAAGTTTAGGGTT
1 GAGTTTAAGAATTTGGGATTATGAGTTCAAGTTTAGGGTT
4589780 TTGGATTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 17 0.50
43 17 0.50
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.41
Consensus pattern (42 bp):
GAGTTTAAGAATTTGGGATTATGAGTTCAAGTTTAGGGTTCA
Found at i:4602173 original size:24 final size:25
Alignment explanation
Indices: 4602136--4602194 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
4602126 TTATATCATT
4602136 TTTATAAA-A-ATTTAAATTTAA-AA
1 TTTATAAATATATTTAAA-TTAATAA
*
4602159 TTTA-AAATATATTTAAATTAATTA
1 TTTATAAATATATTTAAATTAATAA
4602183 TTTATAAATATA
1 TTTATAAATATA
4602195 AACCGGATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 3 0.10
23 9 0.29
24 12 0.39
25 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTATAAATATATTTAAATTAATAA
Found at i:4603278 original size:16 final size:15
Alignment explanation
Indices: 4603259--4603310 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
4603249 AATAGGGTTA
4603259 TAATGGAATAGGACTG
1 TAATGGAATA-GACTG
*
4603275 TAATAGAATAGAGCTG
1 TAATGGAATAGA-CTG
* *
4603291 TAATGAAATAAAACTG
1 TAATGGAAT-AGACTG
4603307 TAAT
1 TAAT
4603311 CAGTAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 2 0.07
16 26 0.87
17 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (15 bp):
TAATGGAATAGACTG
Found at i:4603602 original size:10 final size:10
Alignment explanation
Indices: 4603587--4603638 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
4603577 AATATAATTC
4603587 TTATATTAAA
1 TTATATTAAA
4603597 TTATATTAAA
1 TTATATTAAA
* * **
4603607 ATATTTTTATTT
1 TTA-TATTA-AA
4603619 TTATATTAAA
1 TTATATTAAA
4603629 TTATATTAAA
1 TTATATTAAA
4603639 ATATTTCAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
10 22 0.69
11 8 0.25
12 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTATATTAAA
Found at i:4603633 original size:42 final size:40
Alignment explanation
Indices: 4603587--4603665 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
4603577 AATATAATTC
*
4603587 TTATATTAAATTATATTAAAATATTTTTATTTTTATATTAAA
1 TTATATTAAAATAT-TTAAAATA-TTTTATTTTTATATTAAA
* *
4603629 TTATATTAAAATATTTCAAATATTTTGTTTTTATATT
1 TTATATTAAAATATTTAAAATATTTTATTTTTATATT
4603666 TTTTGAGTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 14 0.41
41 7 0.21
42 13 0.38
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (40 bp):
TTATATTAAAATATTTAAAATATTTTATTTTTATATTAAA
Found at i:4605682 original size:22 final size:22
Alignment explanation
Indices: 4605632--4605683 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
4605622 TCTCTAATGC
*
4605632 ATAAATAAAAATCTATCATTCATT
1 ATAAA-AAAAATCTATCA-TCAAT
4605656 A-AAAAAAAATCTATCA-CAAAT
1 ATAAAAAAAATCTATCATC-AAT
4605677 ATAAAAA
1 ATAAAAA
4605684 TGAAAAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 17 0.68
23 3 0.12
24 1 0.04
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAAAAAAAATCTATCATCAAT
Found at i:4631170 original size:26 final size:25
Alignment explanation
Indices: 4631120--4631177 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
4631110 AGATTGTCAC
* * *
4631120 CAAAAATTGTAGATTGCAATTTTCA
1 CAAAAATTGTAGACTGAAATCTTCA
4631145 CAAATAATTGTAGACTGAAATCTTCA
1 CAAA-AATTGTAGACTGAAATCTTCA
*
4631171 AAAAAAT
1 CAAAAAT
4631178 CATAGTCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (25 bp):
CAAAAATTGTAGACTGAAATCTTCA
Found at i:4632068 original size:34 final size:34
Alignment explanation
Indices: 4632001--4632071 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
4631991 ATTCAAAAGA
* * * *
4632001 AAAAGAAGCAATATTCTACCATAATAATCGATTC
1 AAAAGAAACAATATTCCAACATAACAATCGATTC
* *
4632035 AAAAGAAACAATATTCCAACATGACAATTGATTC
1 AAAAGAAACAATATTCCAACATAACAATCGATTC
4632069 AAA
1 AAA
4632072 CATAAAACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.24
Consensus pattern (34 bp):
AAAAGAAACAATATTCCAACATAACAATCGATTC
Found at i:4632090 original size:54 final size:55
Alignment explanation
Indices: 4632026--4632158 Score: 160
Period size: 54 Copynumber: 2.4 Consensus size: 55
4632016 CTACCATAAT
* *
4632026 AATCGATTCAAAAGAAACAATATTCCAACATGACAATTGATTCAAACAT-AAAAC
1 AATCGATTCAAAAGAAACAATATTCCAACAAGACAATCGATTCAAACATAAAAAC
* * * * * *
4632080 AATCGGTTCAATAGAAGCAATATTTCAACAAGACAATCGATTTAAATATAAAAAC
1 AATCGATTCAAAAGAAACAATATTCCAACAAGACAATCGATTCAAACATAAAAAC
** *
4632135 AATAAATCCAAAAGAAACAATATT
1 AATCGATTCAAAAGAAACAATATT
4632159 TTTAAGAAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
54 41 0.64
55 23 0.36
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.23
Consensus pattern (55 bp):
AATCGATTCAAAAGAAACAATATTCCAACAAGACAATCGATTCAAACATAAAAAC
Found at i:4636234 original size:23 final size:23
Alignment explanation
Indices: 4636218--4636333 Score: 124
Period size: 23 Copynumber: 5.0 Consensus size: 23
4636208 TTCATTTAAC
4636218 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* *
4636241 TTAATCGATCATGTTCACGAATA
1 TTAATCGAACATGTTCACGAACA
* *
4636264 TTAATTGAACATGTTCGCGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
4636287 ATAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
* * * *
4636310 TAAAATTGAAGACGTTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
4636334 ATGTTAATGA
Statistics
Matches: 74, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
23 58 0.78
24 16 0.22
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:4636274 original size:46 final size:46
Alignment explanation
Indices: 4636218--4636335 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
4636208 TTCATTTAAC
* * * * *
4636218 TTAATCGAACATGTTCACGAACATTAATCGATCATGTTCACGAATA
1 TTAATTGAACATGTTCACGAACAATAAACGAACATGTTCACGAACA
* *
4636264 TTAATTGAACATGTTCGCGAACAATAAACGAACATGTTCATGAACA
1 TTAATTGAACATGTTCACGAACAATAAACGAACATGTTCACGAACA
* * *
4636310 TAAAATTGAAGACGTTCACGAACAAT
1 T-TAATTGAACATGTTCACGAACAAT
4636336 GTTAATGAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
46 40 0.67
47 20 0.33
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (46 bp):
TTAATTGAACATGTTCACGAACAATAAACGAACATGTTCACGAACA
Found at i:4637749 original size:41 final size:41
Alignment explanation
Indices: 4637689--4637771 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
4637679 TCTTTAGTTG
*
4637689 ATTTTGAGTCATTGCTACTAAAATAAATTAGGGATTTTTCA
1 ATTTTGAGACATTGCTACTAAAATAAATTAGGGATTTTTCA
* *
4637730 ATTTTGAGACATTGTTACTAAAATAAATTAGGTATTTTTCA
1 ATTTTGAGACATTGCTACTAAAATAAATTAGGGATTTTTCA
4637771 A
1 A
4637772 AATTAATTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.42
Consensus pattern (41 bp):
ATTTTGAGACATTGCTACTAAAATAAATTAGGGATTTTTCA
Found at i:4643275 original size:11 final size:10
Alignment explanation
Indices: 4643212--4643292 Score: 62
Period size: 11 Copynumber: 7.9 Consensus size: 10
4643202 AAGGTTCAGA
4643212 ATAAATAATT
1 ATAAATAATT
*
4643222 ATCAAAATTATGT
1 AT--AAATAAT-T
4643235 ATAAATAA-T
1 ATAAATAATT
4643244 ATAAA-AATT
1 ATAAATAATT
4643253 ACTGAAAT-ATT
1 A-T-AAATAATT
4643264 ATTAAATAATT
1 A-TAAATAATT
*
4643275 A-AAAAAATT
1 ATAAATAATT
4643284 ATAAATAAT
1 ATAAATAAT
4643293 ATGTTGAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
8 2 0.04
9 16 0.28
10 13 0.23
11 17 0.30
12 6 0.11
13 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
ATAAATAATT
Found at i:4643910 original size:24 final size:25
Alignment explanation
Indices: 4643854--4643910 Score: 100
Period size: 24 Copynumber: 2.4 Consensus size: 25
4643844 TTATTAAACT
4643854 TAATCACTTTAATATTAAATTAATA
1 TAATCACTTTAATATTAAATTAATA
4643879 T-ATCACTTTAATATTAAATTAATA
1 TAATCACTTTAATATTAAATTAATA
4643903 TAAT-ACTT
1 TAATCACTT
4643911 ATTAAGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATCACTTTAATATTAAATTAATA
Found at i:4650223 original size:23 final size:23
Alignment explanation
Indices: 4650197--4650287 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
4650187 TTACCGTTCA
* *
4650197 GCACTGTGTGTGCTTACAGTTTC
1 GCACTGTGTGTGCCTACTGTTTC
*
4650220 GCACTTTGTGTGCCTACTGTTTC
1 GCACTGTGTGTGCCTACTGTTTC
*
4650243 GCACT-TCGTGTGCCTACTGATT-
1 GCACTGT-GTGTGCCTACTGTTTC
*
4650265 GCACTGTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCCTACTGTTTC
4650288 CCCAGCACTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.32
23 40 0.68
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (23 bp):
GCACTGTGTGTGCCTACTGTTTC
Found at i:4653604 original size:13 final size:13
Alignment explanation
Indices: 4653586--4653610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4653576 TGTCACACAA
4653586 ATGAATTTAACAT
1 ATGAATTTAACAT
4653599 ATGAATTTAACA
1 ATGAATTTAACA
4653611 GTGTAAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
ATGAATTTAACAT
Found at i:4657275 original size:22 final size:19
Alignment explanation
Indices: 4657247--4657293 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
4657237 GTTTTAATTT
*
4657247 TTTTTATGAATTTTGTTTATAA
1 TTTTTATG-ATTTT-TTAAT-A
4657269 TTTTTATGATTTTTTAATA
1 TTTTTATGATTTTTTAATA
4657288 TTTTTA
1 TTTTTA
4657294 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 5 0.21
22 8 0.33
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (19 bp):
TTTTTATGATTTTTTAATA
Found at i:4664456 original size:8 final size:8
Alignment explanation
Indices: 4664439--4664529 Score: 76
Period size: 8 Copynumber: 10.6 Consensus size: 8
4664429 CAGCATTTAA
4664439 TTAAATTT
1 TTAAATTT
*
4664447 TTAAAATT
1 TTAAATTT
*
4664455 TTAATTTTT
1 TTAA-ATTT
*
4664464 TTTAATTT
1 TTAAATTT
4664472 TTAATACTTT
1 TTAA-A-TTT
4664482 TTAAATAATT
1 TTAAAT--TT
4664492 TTAATGATTT
1 TTAA--ATTT
4664502 TT-AATTT
1 TTAAATTT
4664509 TTAAATTT
1 TTAAATTT
*
4664517 TTAAAATT
1 TTAAATTT
4664525 TTAAA
1 TTAAA
4664530 AAAATTAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
7 6 0.09
8 35 0.51
9 8 0.12
10 17 0.25
12 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (8 bp):
TTAAATTT
Found at i:4672886 original size:19 final size:20
Alignment explanation
Indices: 4672864--4672913 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
4672854 GTCATCCATT
*
4672864 GTAATCAAAATTTTTC-ATC
1 GTAATCAAAATTTGTCTATC
4672883 GTAATC-AAATTTGTCTATC
1 GTAATCAAAATTTGTCTATC
4672902 GTAATCAAAATT
1 GTAATCAAAATT
4672914 ATTATTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.29
19 15 0.54
20 5 0.18
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (20 bp):
GTAATCAAAATTTGTCTATC
Found at i:4673671 original size:29 final size:30
Alignment explanation
Indices: 4673629--4673688 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4673619 AGATGGGAGG
* *
4673629 GGAGTAAAAGTTTT-GGAGGAAAATGAAAA
1 GGAGTAAAAGTTTTGGGAGAAAAATAAAAA
*
4673658 GGAGTAAATGTTTTGGGAGAAAAATAAAAA
1 GGAGTAAAAGTTTTGGGAGAAAAATAAAAA
4673688 G
1 G
4673689 ATTTAGAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGGGAGAAAAATAAAAA
Found at i:4673824 original size:18 final size:18
Alignment explanation
Indices: 4673792--4673841 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
4673782 GAAAAATAAA
*
4673792 AATTTAAATTGACTCGAAT
1 AATTT-AATTAACTCGAAT
4673811 AATTTAATTAACTCGAAT
1 AATTTAATTAACTCGAAT
* *
4673829 AACTAAATTAACT
1 AATTTAATTAACT
4673842 TAATTCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (18 bp):
AATTTAATTAACTCGAAT
Found at i:4682016 original size:18 final size:18
Alignment explanation
Indices: 4681984--4682018 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4681974 ACAATGATGG
*
4681984 TTTTGGTGATTATGGTGA
1 TTTTGGTGATGATGGTGA
*
4682002 TTTTGGTGGTGATGGTG
1 TTTTGGTGATGATGGTG
4682019 GTTACGGTCC
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:0.11, C:0.00, G:0.40, T:0.49
Consensus pattern (18 bp):
TTTTGGTGATGATGGTGA
Found at i:4684035 original size:21 final size:22
Alignment explanation
Indices: 4684011--4684054 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4684001 TAAATGATTT
*
4684011 TAATAATTTT-TATTTTTTAAA
1 TAATAATTTTATATTTTTAAAA
*
4684032 TAATTATTTTATATTTTTAAAA
1 TAATAATTTTATATTTTTAAAA
4684054 T
1 T
4684055 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TAATAATTTTATATTTTTAAAA
Found at i:4691184 original size:16 final size:17
Alignment explanation
Indices: 4691158--4691206 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
4691148 TTAAAATAAT
4691158 AAATTTT-TAATTTA-A
1 AAATTTTATAATTTATA
*
4691173 ATATTTTATAATTTATA
1 AAATTTTATAATTTATA
*
4691190 AAATTTTA-AATTAATA
1 AAATTTTATAATTTATA
4691206 A
1 A
4691207 TAATAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 6 0.21
16 15 0.52
17 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTTTATAATTTATA
Found at i:4691255 original size:30 final size:32
Alignment explanation
Indices: 4691202--4691274 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 32
4691192 ATTTTAAATT
*
4691202 AATAATAATAAAATTACATTTTAA-ACTTTCAAA
1 AATAATAA-AAAAATACATTTTAATACTTT-AAA
*
4691235 AATAATAAAAAAATA-A-TTTAATTCTTTAAA
1 AATAATAAAAAAATACATTTTAATACTTTAAA
*
4691265 AATTATAAAA
1 AATAATAAAA
4691275 TATTAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 17 0.47
31 5 0.14
32 6 0.17
33 8 0.22
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (32 bp):
AATAATAAAAAAATACATTTTAATACTTTAAA
Found at i:4707625 original size:39 final size:40
Alignment explanation
Indices: 4707571--4707650 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
4707561 TATACACTCA
*
4707571 ATGGACAACTTTTGAAGAGTCACAATCC-TTTCATATTGG
1 ATGGACAACTTTTGAAGAGTCACAACCCTTTTCATATTGG
*
4707610 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCATATTGG
1 ATGGACAACTTTTGAAGAGTCACAACCCTTTTCATATTGG
4707650 A
1 A
4707651 CATACCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 26 0.68
40 12 0.32
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (40 bp):
ATGGACAACTTTTGAAGAGTCACAACCCTTTTCATATTGG
Found at i:4707666 original size:39 final size:36
Alignment explanation
Indices: 4707572--4707667 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 36
4707562 ATACACTCAA
*
4707572 TGGACAA-CTTTTGAAGAGTCACAATCCTTTCATAT
1 TGGACAACCTTTTGAAGAGTCACAACCCTTTCATAT
*
4707607 TGGATGGACACCTTTTGAAGAGTCACAACCCTTTTCATAT
1 TGGA--CA-ACCTTTTGAAGAGTCACAACCC-TTTCATAT
4707647 TGGACATACCTTTTGGAAGAG
1 TGGACA-ACCTTTT-GAAGAG
4707668 ACTTGTCCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
35 4 0.08
37 1 0.02
38 9 0.18
39 25 0.49
40 12 0.24
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (36 bp):
TGGACAACCTTTTGAAGAGTCACAACCCTTTCATAT
Found at i:4707736 original size:20 final size:20
Alignment explanation
Indices: 4707691--4707736 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
4707681 CCATTGGATG
*
4707691 ATAAGTCATCATTTTTCAATT
1 ATAA-TCATCACTTTTCAATT
4707712 A-AATCATCACTTTT-AATTT
1 ATAATCATCACTTTTCAA-TT
4707731 ATAATC
1 ATAATC
4707737 TATATATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 2 0.09
19 13 0.59
20 6 0.27
21 1 0.05
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (20 bp):
ATAATCATCACTTTTCAATT
Found at i:4720750 original size:16 final size:17
Alignment explanation
Indices: 4720729--4720771 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
4720719 TGCATGTGAA
4720729 AAATAATAAAATAAA-T
1 AAATAATAAAATAAATT
* *
4720745 AAATAATATATTAAATT
1 AAATAATAAAATAAATT
*
4720762 AAAAAATAAA
1 AAATAATAAA
4720772 TCTTAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATAATAAAATAAATT
Found at i:4722804 original size:28 final size:28
Alignment explanation
Indices: 4722764--4722819 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4722754 CTCTTGACCA
*
4722764 TCAGACCATCACATGGGATTTAATCATT
1 TCAGACCATCACATAGGATTTAATCATT
4722792 TCAGACCATCACATAGGATTTAATCATT
1 TCAGACCATCACATAGGATTTAATCATT
4722820 CTTAATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (28 bp):
TCAGACCATCACATAGGATTTAATCATT
Found at i:4731180 original size:9 final size:9
Alignment explanation
Indices: 4731166--4731223 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
4731156 GTTCTTTTAG
4731166 AAAATTTTT
1 AAAATTTTT
4731175 AAAA-TTTT
1 AAAATTTTT
4731183 --AATTTTT
1 AAAATTTTT
4731190 AAAATTTTTTT
1 AAAA--TTTTT
*
4731201 AGAATTTTT
1 AAAATTTTT
*
4731210 ATAATTTTTT
1 A-AAATTTTT
4731220 AAAA
1 AAAA
4731224 ATATAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
6 2 0.05
7 4 0.10
8 4 0.10
9 14 0.36
10 7 0.18
11 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
AAAATTTTT
Found at i:4731188 original size:15 final size:15
Alignment explanation
Indices: 4731168--4731197 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4731158 TCTTTTAGAA
4731168 AATTTTTAAAATTTT
1 AATTTTTAAAATTTT
4731183 AATTTTTAAAATTTT
1 AATTTTTAAAATTTT
4731198 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTTTAAAATTTT
Found at i:4732429 original size:2 final size:2
Alignment explanation
Indices: 4732422--4732452 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4732412 TGAGACCACC
4732422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4732453 AAAGAGACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4735675 original size:39 final size:38
Alignment explanation
Indices: 4735619--4735702 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
4735609 ATGTATCTTT
* *
4735619 ATAATTTTTATACTTTTTAATCATTTTT-AATTTTTAAAA
1 ATAATTTTTATAATTTTTAA-C-TTTTTAAATTTTAAAAA
*
4735658 ATAATTTTT-TGAATTTTTTACTTTTTAAAATTTTAAAAA
1 ATAATTTTTAT-AATTTTTAACTTTTT-AAATTTTAAAAA
4735697 ATAATT
1 ATAATT
4735703 AATTACATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
37 5 0.13
38 2 0.05
39 32 0.82
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (38 bp):
ATAATTTTTATAATTTTTAACTTTTTAAATTTTAAAAA
Found at i:4742577 original size:19 final size:17
Alignment explanation
Indices: 4742543--4742594 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
4742533 GAACTTATTC
*
4742543 AAAAAA-TTATACTTTT
1 AAAAAATTTATATTTTT
4742559 AAAATTAATTTATATTTTT
1 AAAA--AATTTATATTTTT
* *
4742578 TAAAAATATATATTTTT
1 AAAAAATTTATATTTTT
4742595 TAATTTATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 12 0.40
18 2 0.07
19 12 0.40
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAAAATTTATATTTTT
Found at i:4747863 original size:39 final size:40
Alignment explanation
Indices: 4747816--4747911 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 40
4747806 TTACCATCGT
* * **
4747816 CTTGTCCTCCACCATA-TTTACTGCCGCCACCACTACTTC
1 CTTGTCCTCCACCATACGTCACTGCCGCCACCACTACCGC
* *
4747855 CTTTTCCTCCACCATACCCGTCACTTCCGCCACCACTACCGC
1 CTTGTCCTCCACCATA--CGTCACTGCCGCCACCACTACCGC
4747897 CTTGTCCTCCACCAT
1 CTTGTCCTCCACCAT
4747912 GTCTGCCATT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 15 0.32
42 32 0.68
ACGTcount: A:0.17, C:0.48, G:0.07, T:0.28
Consensus pattern (40 bp):
CTTGTCCTCCACCATACGTCACTGCCGCCACCACTACCGC
Found at i:4747908 original size:21 final size:20
Alignment explanation
Indices: 4747842--4747910 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 20
4747832 TTTACTGCCG
**
4747842 CCACCACTACTTCCTTTTCCT
1 CCACCACTACCGCC-TTTCCT
*
4747863 CCACCA-TACCCGTCAC-TTCCG
1 CCACCACTA-CCG-C-CTTTCCT
4747884 CCACCACTACCGCCTTGTCCT
1 CCACCACTACCGCCTT-TCCT
4747905 CCACCA
1 CCACCA
4747911 TGTCTGCCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 29 0.76
22 3 0.08
23 1 0.03
ACGTcount: A:0.17, C:0.52, G:0.06, T:0.25
Consensus pattern (20 bp):
CCACCACTACCGCCTTTCCT
Found at i:4748011 original size:30 final size:30
Alignment explanation
Indices: 4747963--4748021 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
4747953 CCACCACCAT
* *
4747963 TACCGCCTTTTTCACCACCAT-TCCCGCCAC
1 TACCGCCTTGTCCACCACCATGT-CCGCCAC
*
4747993 TACCGCCTTGTCCTCCACCATGTCCGCCA
1 TACCGCCTTGTCCACCACCATGTCCGCCA
4748022 TTGCCACCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.15, C:0.49, G:0.10, T:0.25
Consensus pattern (30 bp):
TACCGCCTTGTCCACCACCATGTCCGCCAC
Found at i:4748030 original size:51 final size:51
Alignment explanation
Indices: 4747887--4748034 Score: 129
Period size: 51 Copynumber: 2.9 Consensus size: 51
4747877 ACTTCCGCCA
*
4747887 CCACTACCGCCTTGTCCTCCACCATGTCTGCCATTACCACCACCACAACCG
1 CCACTACCGCCTTGTCCTCCACCATGTCCGCCATTACCACCACCACAACCG
* * **** * * ** ***
4747938 CCA-TGTCCTCCGCCACCACCACCAT-TACCGCCTTTTTCACCACCATTCCCG
1 CCACT-ACCGCCTTGTCCTCCACCATGT-CCGCCATTACCACCACCACAACCG
*
4747989 CCACTACCGCCTTGTCCTCCACCATGTCCGCCATTGCCACCACCAC
1 CCACTACCGCCTTGTCCTCCACCATGTCCGCCATTACCACCACCAC
4748035 CATGTCCTCC
Statistics
Matches: 68, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
50 2 0.03
51 64 0.94
52 2 0.03
ACGTcount: A:0.19, C:0.51, G:0.09, T:0.21
Consensus pattern (51 bp):
CCACTACCGCCTTGTCCTCCACCATGTCCGCCATTACCACCACCACAACCG
Found at i:4748079 original size:21 final size:21
Alignment explanation
Indices: 4748055--4748123 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
4748045 ATTACCGTTG
*
4748055 CCACTACCTCCCTGTCCTCCA
1 CCACTACCACCCTGTCCTCCA
* *
4748076 CCACTACCACCGTGTCTTCCGCCA
1 CCACTACCACCCTG---TCCTCCA
* *
4748100 CCACTACCGCCTTGTCCTCCA
1 CCACTACCACCCTGTCCTCCA
4748121 CCA
1 CCA
4748124 TATCCGCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 21 0.54
24 18 0.46
ACGTcount: A:0.16, C:0.54, G:0.09, T:0.22
Consensus pattern (21 bp):
CCACTACCACCCTGTCCTCCA
Found at i:4748144 original size:60 final size:59
Alignment explanation
Indices: 4748073--4748190 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 59
4748063 TCCCTGTCCT
* *
4748073 CCACCACTACCACCGTGT-CTTCCGCCACCACTACCGCCTTGTCCTCCACCATATCCGCCA
1 CCACCACTACCA-CGT-TCCTACCGCCACAACTACCGCCTTGTCCTCCACCATATCCGCCA
* * * *
4748133 CCACCACTACCATGTTCGCTACCGCCACAACTGCCTCCTTGTCCTCCACCATGTCCGC
1 CCACCACTACCACGTTC-CTACCGCCACAACTACCGCCTTGTCCTCCACCATATCCGC
4748191 TGCTACCTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 1 0.02
59 2 0.04
60 47 0.94
ACGTcount: A:0.18, C:0.50, G:0.11, T:0.21
Consensus pattern (59 bp):
CCACCACTACCACGTTCCTACCGCCACAACTACCGCCTTGTCCTCCACCATATCCGCCA
Found at i:4748214 original size:30 final size:30
Alignment explanation
Indices: 4748180--4748238 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
4748170 CTTGTCCTCC
* * * *
4748180 ACCATGTCCGCTGCTACCTCCACCACTACT
1 ACCATGACCGCCGCCACCACCACCACTACT
*
4748210 ACCATGACCTCCGCCACCACCACCACTAC
1 ACCATGACCGCCGCCACCACCACCACTAC
4748239 CGCCTTTTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.51, G:0.08, T:0.17
Consensus pattern (30 bp):
ACCATGACCGCCGCCACCACCACCACTACT
Found at i:4748234 original size:21 final size:21
Alignment explanation
Indices: 4748195--4748234 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4748185 GTCCGCTGCT
* *
4748195 ACCTCCACCACTACTACCATG
1 ACCTCCACCACCACCACCATG
*
4748216 ACCTCCGCCACCACCACCA
1 ACCTCCACCACCACCACCA
4748235 CTACCGCCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.55, G:0.05, T:0.12
Consensus pattern (21 bp):
ACCTCCACCACCACCACCATG
Found at i:4748365 original size:30 final size:30
Alignment explanation
Indices: 4748292--4748406 Score: 122
Period size: 30 Copynumber: 3.7 Consensus size: 30
4748282 ACCATGGCCC
* **
4748292 CCACTGCCACCTTGTCCTCCACTATATCTGCCA
1 CCACTGCCACCATGTCCTCCAC--TA-CCACCA
* * *
4748325 CCACTACCACCATGTCCTCCGCTGCCACCA
1 CCACTGCCACCATGTCCTCCACTACCACCA
*
4748355 CCTCTGCCACCATGTCCTCCACTACCACCA
1 CCACTGCCACCATGTCCTCCACTACCACCA
* *
4748385 CCACTGCCACCTTTTCCTCCAC
1 CCACTGCCACCATGTCCTCCAC
4748407 AATGCTCGCC
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
30 49 0.71
31 1 0.01
33 19 0.28
ACGTcount: A:0.18, C:0.51, G:0.08, T:0.23
Consensus pattern (30 bp):
CCACTGCCACCATGTCCTCCACTACCACCA
Found at i:4748384 original size:18 final size:18
Alignment explanation
Indices: 4748277--4748384 Score: 63
Period size: 18 Copynumber: 6.5 Consensus size: 18
4748267 ACTGCCACTG
* *
4748277 CTACCACCATGGCCCCCA
1 CTACCACCATGTCCTCCA
* *
4748295 CTGCCACCTTGTCCTCCA
1 CTACCACCATGTCCTCCA
* * *
4748313 CTA-TATC-TG-CCACCA
1 CTACCACCATGTCCTCCA
*
4748328 CTACCACCATGTCCTCCG
1 CTACCACCATGTCCTCCA
*
4748346 CTGCCACCA---CCT---
1 CTACCACCATGTCCTCCA
*
4748358 CTGCCACCATGTCCTCCA
1 CTACCACCATGTCCTCCA
4748376 CTACCACCA
1 CTACCACCA
4748385 CCACTGCCAC
Statistics
Matches: 67, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
12 9 0.13
15 14 0.21
16 4 0.06
17 4 0.06
18 36 0.54
ACGTcount: A:0.19, C:0.51, G:0.09, T:0.20
Consensus pattern (18 bp):
CTACCACCATGTCCTCCA
Found at i:4748450 original size:30 final size:30
Alignment explanation
Indices: 4748415--4748478 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
4748405 ACAATGCTCG
* *
4748415 CCACTATCGCCACCACTACCGCCGTGTCCT
1 CCACTACCACCACCACTACCGCCGTGTCCT
*
4748445 CCACTACCACCACCACTACCGCCTTGTCCT
1 CCACTACCACCACCACTACCGCCGTGTCCT
4748475 CCAC
1 CCAC
4748479 CATGTTCGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.53, G:0.09, T:0.19
Consensus pattern (30 bp):
CCACTACCACCACCACTACCGCCGTGTCCT
Found at i:4748500 original size:72 final size:72
Alignment explanation
Indices: 4748349--4748500 Score: 196
Period size: 72 Copynumber: 2.1 Consensus size: 72
4748339 TCCTCCGCTG
* * * *
4748349 CCACCACCTCTGCCACCATGTCCTCCACTACCACCACCACTGCCACCTTTTCCTCCACAATGCTC
1 CCACCACCACTACCACCATGTCCTCCACTACCACCACCACTACCACCTTGTCCTCCACAATGCTC
4748414 GCCACTA
66 GCCACTA
* * * * * * *
4748421 TCGCCACCACTACCGCCGTGTCCTCCACTACCACCACCACTACCGCCTTGTCCTCCACCATGTTC
1 CCACCACCACTACCACCATGTCCTCCACTACCACCACCACTACCACCTTGTCCTCCACAATGCTC
*
4748486 GTCACTA
66 GCCACTA
4748493 CCACCACC
1 CCACCACC
4748501 TTGTCCTCCA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.20, C:0.51, G:0.09, T:0.20
Consensus pattern (72 bp):
CCACCACCACTACCACCATGTCCTCCACTACCACCACCACTACCACCTTGTCCTCCACAATGCTC
GCCACTA
Found at i:4748508 original size:33 final size:34
Alignment explanation
Indices: 4748451--4748554 Score: 111
Period size: 33 Copynumber: 3.0 Consensus size: 34
4748441 TCCTCCACTA
* *
4748451 CCACCACCACTACCGCCTTGTCCTCCACCATGTTCG
1 CCACCACCAC--CCACCTTGTCCTCCACCATGTCCG
* * *
4748487 TCACTACCA-CCACCTTGTCCTCCACCATATCCG
1 CCACCACCACCCACCTTGTCCTCCACCATGTCCG
*
4748520 CCACCACCACTGCCGCCTTGTCCTCCACCATGTCC
1 CCACCACCAC--CCACCTTGTCCTCCACCATGTCC
4748555 TCTGCTGCCA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
33 28 0.50
36 28 0.50
ACGTcount: A:0.17, C:0.51, G:0.10, T:0.22
Consensus pattern (34 bp):
CCACCACCACCCACCTTGTCCTCCACCATGTCCG
Found at i:4748617 original size:30 final size:30
Alignment explanation
Indices: 4748583--4748668 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 30
4748573 GCCTCTTTGT
4748583 CCTCCACCATGCTCGCCACTACCACCGTGA
1 CCTCCACCATGCTCGCCACTACCACCGTGA
* * * * ** * *
4748613 CCTCCGCCA-CCACTACCACTACTGCCTTGT
1 CCTCCACCATGCTC-GCCACTACCACCGTGA
*
4748643 CCTCCACCATGTTCGCCACTACCACC
1 CCTCCACCATGCTCGCCACTACCACC
4748669 ACCACTACCG
Statistics
Matches: 39, Mismatches: 15, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
29 2 0.05
30 36 0.92
31 1 0.03
ACGTcount: A:0.19, C:0.51, G:0.10, T:0.20
Consensus pattern (30 bp):
CCTCCACCATGCTCGCCACTACCACCGTGA
Found at i:4748689 original size:72 final size:72
Alignment explanation
Indices: 4748598--4749141 Score: 441
Period size: 72 Copynumber: 7.6 Consensus size: 72
4748588 ACCATGCTCG
* * * * * * *
4748598 CCACTACCACCGTGACCTCCGCCACCACTACCACTACTGCCTTGTCCTCCACCATGTTCGCCACT
1 CCACTACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACT
4748663 ACCACCA
66 ACCACCA
* * * * *
4748670 CCACTACCGCCATGGCCTCCGCTACCACCACCACTGCCGCCTTTTCCACCACCATGTCCACCACC
1 CCACTACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTCCTCCACCATGT---CCACC
*
4748735 ACCACCACCA
63 ACTACCACCA
** * *
4748745 CCACCATTACCACCATGTCCTCCGCTTTCGCCACCACTACCACCTTGTCCTCCACCATGTCCACC
1 CCA-C--TACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACC
*
4748810 ACTACCACCG
63 ACTACCACCA
* * * * *
4748820 CCGCTACCGCCATATCCTCCACTACCACCACCACTACCGCCCTGTCCTCCACCATGTCCACCACT
1 CCACTACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACT
* *
4748885 ACCGCCTTG
66 ACCACC--A
* * * * *
4748894 TC-CT-CCACCATGCCCGCCACTACCACCACCACTGCCGCCTT-T--T---CCA---CCACCA-T
1 CCACTACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACT
*
4748947 A--TCCA
66 ACCACCA
** * * *
4748952 CCACTACCACCATGTCCTCCGCTTTCGCCACCACTACCACCCTGTCCTCCACCATGTCCACCACT
1 CCACTACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACT
*
4749017 ACCACCG
66 ACCACCA
* * * * * *
4749024 CCGCTACCGCCATGTCCTCCACTACCACCGCCACTACCGCCCTGTTCTCCACCATGTCCACCACT
1 CCACTACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACT
* *
4749089 TCCGCCA
66 ACCACCA
** * * * * * *
4749096 CCACTACTGCCTTGTCCTTCACTATCACCACCACTACTGCCCTGTC
1 CCACTACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTC
4749142 TGCTACCTTG
Statistics
Matches: 376, Mismatches: 74, Indels: 44
0.76 0.15 0.09
Matches are distributed among these distances:
58 1 0.00
59 2 0.01
60 30 0.08
61 1 0.00
62 2 0.01
63 7 0.02
66 6 0.02
69 7 0.02
70 2 0.01
71 1 0.00
72 237 0.63
73 2 0.01
74 3 0.01
75 30 0.08
76 1 0.00
78 44 0.12
ACGTcount: A:0.19, C:0.52, G:0.09, T:0.20
Consensus pattern (72 bp):
CCACTACCACCATGTCCTCCGCTACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACT
ACCACCA
Found at i:4748842 original size:30 final size:30
Alignment explanation
Indices: 4748799--4748901 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
4748789 TTGTCCTCCA
* * *
4748799 CCATGTCCACCACTACCACCGCCGCTACCG
1 CCATGTCCTCCACTACCACCACCACTACCG
*
4748829 CCATATCCTCCACTACCACCACCACTACCG
1 CCATGTCCTCCACTACCACCACCACTACCG
* * ***
4748859 CCCTGTCCTCCACCATGTCCACCACTACCG
1 CCATGTCCTCCACTACCACCACCACTACCG
*
4748889 CCTTGTCCTCCAC
1 CCATGTCCTCCAC
4748902 CATGCCCGCC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.19, C:0.53, G:0.09, T:0.18
Consensus pattern (30 bp):
CCATGTCCTCCACTACCACCACCACTACCG
Found at i:4748884 original size:42 final size:42
Alignment explanation
Indices: 4748877--4749132 Score: 106
Period size: 42 Copynumber: 6.0 Consensus size: 42
4748867 TCCACCATGT
* * *
4748877 CCACCACTACCGCCTTGTCCTCCACCATGCCCGCCACTACCA
1 CCACCACTACCGCCCTGTCCTCCACCATGTCCACCACTACCA
* * * * *
4748919 CCACCACTGCCGCCTTTTCCACCACCATATCCACCACTACCA
1 CCACCACTACCGCCCTGTCCTCCACCATGTCCACCACTACCA
* *** * * * ***
4748961 CCATGTC-CT-CCGCTTTCGCCACCACTACCACCCTGTCCTCCACCATGT
1 CCA--CCACTACCGC---C-CTGTC-CT-CCACCATGTCCACCACTACCA
* * * *
4749009 CCACCACTACC-ACC-GCCGCTACCGCCATGTCCTCCACTACCA
1 CCACCACTACCGCCCTGTC-CT-CCACCATGTCCACCACTACCA
* * * *
4749051 CCGCCACTACCGCCCTGTTCTCCACCATGTCCACCACTTCCG
1 CCACCACTACCGCCCTGTCCTCCACCATGTCCACCACTACCA
* * * * **
4749093 CCACCACTACTGCCTTGTCCTTCACTATCACCACCACTAC
1 CCACCACTACCGCCCTGTCCTCCACCATGTCCACCACTAC
4749133 TGCCCTGTCT
Statistics
Matches: 156, Mismatches: 46, Indels: 24
0.69 0.20 0.11
Matches are distributed among these distances:
42 121 0.78
43 7 0.04
44 3 0.02
45 1 0.01
46 2 0.01
47 3 0.02
48 19 0.12
ACGTcount: A:0.19, C:0.52, G:0.09, T:0.20
Consensus pattern (42 bp):
CCACCACTACCGCCCTGTCCTCCACCATGTCCACCACTACCA
Found at i:4748887 original size:102 final size:102
Alignment explanation
Indices: 4748775--4749088 Score: 416
Period size: 102 Copynumber: 3.1 Consensus size: 102
4748765 TCCGCTTTCG
4748775 CCACCACTACCACCTTGTCCTCCACCATGTCCACCACTACCACCGCCGCTACCGCCATATCCTCC
1 CCACCACTACCACCTTGTCCTCCACCATGTCCACCACTACCACCGCCGCTACCGCCATATCCTCC
4748840 ACTACCACCACCACTACCGCCCTGTCCTCCACCATGT
66 ACTACCACCACCACTACCGCCCTGTCCTCCACCATGT
* * * * * * * * *
4748877 CCACCACTACCGCCTTGTCCTCCACCATGCCCGCCACTACCACCACCACTGCCGCCTTTTCCACC
1 CCACCACTACCACCTTGTCCTCCACCATGTCCACCACTACCACCGCCGCTACCGCCATATCCTCC
* * * * * **
4748942 ACCA-TATCCACCACTACCACCATGTCCTCCGCTTTCG-
66 ACTACCA-CCACCACTACCGCCCTGTCCTCCACCAT-GT
* *
4748979 CCACCACTACCACCCTGTCCTCCACCATGTCCACCACTACCACCGCCGCTACCGCCATGTCCTCC
1 CCACCACTACCACCTTGTCCTCCACCATGTCCACCACTACCACCGCCGCTACCGCCATATCCTCC
* *
4749044 ACTACCACCGCCACTACCGCCCTGTTCTCCACCATGT
66 ACTACCACCACCACTACCGCCCTGTCCTCCACCATGT
4749081 CCACCACT
1 CCACCACT
4749089 TCCGCCACCA
Statistics
Matches: 173, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
101 2 0.01
102 169 0.98
103 2 0.01
ACGTcount: A:0.19, C:0.53, G:0.09, T:0.19
Consensus pattern (102 bp):
CCACCACTACCACCTTGTCCTCCACCATGTCCACCACTACCACCGCCGCTACCGCCATATCCTCC
ACTACCACCACCACTACCGCCCTGTCCTCCACCATGT
Found at i:4748902 original size:30 final size:30
Alignment explanation
Indices: 4748847--4748917 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
4748837 TCCACTACCA
*
4748847 CCACCACTACCGCCCTGTCCTCCACCATGT
1 CCACCACTACCGCCCTGTCCTCCACCATGC
*
4748877 CCACCACTACCGCCTTGTCCTCCACCATGC
1 CCACCACTACCGCCCTGTCCTCCACCATGC
*
4748907 CCGCCACTACC
1 CCACCACTACC
4748918 ACCACCACTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.17, C:0.55, G:0.10, T:0.18
Consensus pattern (30 bp):
CCACCACTACCGCCCTGTCCTCCACCATGC
Found at i:4748922 original size:21 final size:20
Alignment explanation
Indices: 4748898--4748963 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
4748888 GCCTTGTCCT
4748898 CCACCATGCCCGCCACTACCA
1 CCACCATG-CCGCCACTACCA
** *
4748919 CCACCACTGCCGCCTTTTCCA
1 CCACCA-TGCCGCCACTACCA
* *
4748940 CCACCATATCCACCACTACCA
1 CCACCAT-GCCGCCACTACCA
4748961 CCA
1 CCA
4748964 TGTCCTCCGC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.03
21 32 0.91
22 2 0.06
ACGTcount: A:0.24, C:0.55, G:0.06, T:0.15
Consensus pattern (20 bp):
CCACCATGCCGCCACTACCA
Found at i:4749013 original size:30 final size:30
Alignment explanation
Indices: 4748940--4749052 Score: 106
Period size: 30 Copynumber: 3.8 Consensus size: 30
4748930 GCCTTTTCCA
* *
4748940 CCACCATATCCACCACTACCACCATGTCCT
1 CCACCATGTCCACCACTACCACCCTGTCCT
* **
4748970 CCGCTTTCG-CCACCACTACCACCCTGTCCT
1 CCACCAT-GTCCACCACTACCACCCTGTCCT
*
4749000 CCACCATGTCCACCACTACCA-CC-GCCGCT
1 CCACCATGTCCACCACTACCACCCTGTC-CT
* *
4749029 ACCGCCATGTCCTCCACTACCACC
1 -CCACCATGTCCACCACTACCACC
4749053 GCCACTACCG
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
28 2 0.03
29 5 0.07
30 59 0.88
31 1 0.01
ACGTcount: A:0.20, C:0.53, G:0.08, T:0.19
Consensus pattern (30 bp):
CCACCATGTCCACCACTACCACCCTGTCCT
Found at i:4749053 original size:30 final size:30
Alignment explanation
Indices: 4749003--4749075 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
4748993 CTGTCCTCCA
* *
4749003 CCATGTCCACCACTACCACCGCCGCTACCG
1 CCATGTCCTCCACTACCACCGCCACTACCG
4749033 CCATGTCCTCCACTACCACCGCCACTACCG
1 CCATGTCCTCCACTACCACCGCCACTACCG
* *
4749063 CCCTGTTCTCCAC
1 CCATGTCCTCCAC
4749076 CATGTCCACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.18, C:0.53, G:0.11, T:0.18
Consensus pattern (30 bp):
CCATGTCCTCCACTACCACCGCCACTACCG
Found at i:4749112 original size:30 final size:30
Alignment explanation
Indices: 4749078--4749141 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
4749068 TTCTCCACCA
* *
4749078 TGTCCACCACT-TCCGCCACCACTACTGCCT
1 TGTCCACCACTAT-CACCACCACTACTGCCC
**
4749108 TGTCCTTCACTATCACCACCACTACTGCCC
1 TGTCCACCACTATCACCACCACTACTGCCC
4749138 TGTC
1 TGTC
4749142 TGCTACCTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.17, C:0.47, G:0.09, T:0.27
Consensus pattern (30 bp):
TGTCCACCACTATCACCACCACTACTGCCC
Found at i:4757570 original size:29 final size:31
Alignment explanation
Indices: 4757522--4757580 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
4757512 CAATTATTAT
* *
4757522 TAATTTATATTATTTGTTATTAAT-ATTAAG
1 TAATTAATAATATTTGTTATTAATAATTAAG
4757552 TAATTAATAATATTT-TTATTAATAATTAA
1 TAATTAATAATATTTGTTATTAATAATTAA
4757581 TATATTTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
TAATTAATAATATTTGTTATTAATAATTAAG
Found at i:4757580 original size:22 final size:22
Alignment explanation
Indices: 4757545--4757587 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4757535 TTGTTATTAA
4757545 TATTAAGTAATTAATAATATTTT
1 TATTAAGTAATTAAT-ATATTTT
4757568 TATTAA-TAATTAATATATTT
1 TATTAAGTAATTAATATATTT
4757588 CGATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TATTAAGTAATTAATATATTTT
Found at i:4757595 original size:22 final size:23
Alignment explanation
Indices: 4757546--4757592 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
4757536 TGTTATTAAT
**
4757546 ATTAAGTAATTAATAATATTTTT
1 ATTAAGTAATTAATAATATTTCG
4757569 ATTAA-TAATTAAT-ATATTTCG
1 ATTAAGTAATTAATAATATTTCG
4757590 ATT
1 ATT
4757593 TAAAAATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 8 0.36
23 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTAAGTAATTAATAATATTTCG
Found at i:4757628 original size:12 final size:12
Alignment explanation
Indices: 4757611--4757696 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 12
4757601 TATATTTCTA
4757611 TATTATTTATTT
1 TATTATTTATTT
*
4757623 TATTATTCTA-TC
1 TATTATT-TATTT
*
4757635 TATTA-TTATATA
1 TATTATTTAT-TT
4757647 TATTA-TTATTT
1 TATTATTTATTT
*
4757658 TATTTAAATTATTT
1 TA-TT-ATTTATTT
*
4757672 T-TTATTTA-GT
1 TATTATTTATTT
4757682 TATTATTTATATT
1 TATTATTTAT-TT
4757695 TA
1 TA
4757697 GTCTATTTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
10 4 0.07
11 15 0.25
12 27 0.46
13 6 0.10
14 7 0.12
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:4757640 original size:24 final size:23
Alignment explanation
Indices: 4757611--4757705 Score: 72
Period size: 24 Copynumber: 4.0 Consensus size: 23
4757601 TATATTTCTA
4757611 TATTATTTAT-TTTATTATTCTAT
1 TATTATTTATATTTATTATT-TAT
*
4757634 CTATTA-TTATATATATTA-TTAT
1 -TATTATTTATATTTATTATTTAT
*
4757656 T-TTATTTAAATTATTTTTTATTTAGT
1 TATTATTT--A-TATTTATTATTTA-T
4757682 TATTATTTATATTTAGTCTATTTA
1 TATTATTTATATTTA-T-TATTTA
4757706 GAATTTATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
20 3 0.05
21 3 0.05
22 3 0.05
23 6 0.11
24 23 0.40
25 5 0.09
26 8 0.14
27 6 0.11
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (23 bp):
TATTATTTATATTTATTATTTAT
Found at i:4757649 original size:44 final size:43
Alignment explanation
Indices: 4757601--4757695 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 43
4757591 TTTAAAAATC
**
4757601 TATATTTCTATATTATTTATTTTATTATTCTATCTA-TTATTATA
1 TATATTT-TATATTATTTAAATTATT-TTCTATCTAGTTATTATA
* * * *
4757645 TATATTATTATTTTATTTAAATTATTTTTTATTTAGTTATTATT
1 TATATT-TTATATTATTTAAATTATTTTCTATCTAGTTATTATA
4757689 TATATTT
1 TATATTT
4757696 AGTCTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 8 0.19
44 34 0.79
45 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (43 bp):
TATATTTTATATTATTTAAATTATTTTCTATCTAGTTATTATA
Found at i:4757676 original size:16 final size:17
Alignment explanation
Indices: 4757648--4757696 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
4757638 TATTATATAT
4757648 ATTATTATTTTATTTAA
1 ATTATTATTTTATTTAA
4757665 ATTATT-TTTTATTT-A
1 ATTATTATTTTATTTAA
*
4757680 GTTATTATTTATATTTA
1 ATTATTATTT-TATTTA
4757697 GTCTATTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.21
16 11 0.39
17 11 0.39
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTATTATTTTATTTAA
Found at i:4757697 original size:17 final size:16
Alignment explanation
Indices: 4757635--4757703 Score: 70
Period size: 15 Copynumber: 4.2 Consensus size: 16
4757625 TTATTCTATC
* *
4757635 TATTATTATATATA-T
1 TATTATTTTATTTAGT
*
4757650 TATTATTTTATTTAAAT
1 TATTATTTTATTT-AGT
4757667 TATT-TTTTATTTAGT
1 TATTATTTTATTTAGT
4757682 TATTATTTATATTTAGT
1 TATTATTT-TATTTAGT
4757699 CTATT
1 -TATT
4757704 TAGAATTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
15 17 0.37
16 12 0.26
17 13 0.28
18 4 0.09
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (16 bp):
TATTATTTTATTTAGT
Found at i:4757975 original size:168 final size:168
Alignment explanation
Indices: 4757751--4758086 Score: 528
Period size: 168 Copynumber: 2.0 Consensus size: 168
4757741 AGCTCGGCAA
* * * *
4757751 ATAGGCATCCATGGGAATTAGCTTATCCTCCCCCCGAATAGTACTATAAGAATCAGTACCAAACA
1 ATAGACATCCACGGGAATTAGCTTATCCACCCCCCGAACAGTACTATAAGAATCAGTACCAAACA
*
4757816 TCCATCCTGTAATTGTACATGCACCCATAGCAATAACATATTTAGCTTCGGGCATTTGTTCATAT
66 TCCATCCTGTAATTGTACACGCACCCATAGCAATAACATATTTAGCTTCGGGCATTTGTTCATAT
*
4757881 AATTTCACTAAAGAGGGCGCCATTTTCATTGTTACTGT
131 AATCTCACTAAAGAGGGCGCCATTTTCATTGTTACTGT
* * * **
4757919 ATAGACATCCACGTGAATTAGCTTATCGACCCCTCGAACAGTACTATAAGAATCAGTACTGAACA
1 ATAGACATCCACGGGAATTAGCTTATCCACCCCCCGAACAGTACTATAAGAATCAGTACCAAACA
* * *
4757984 TCCCTCCTGTAATTGTACACGCACCCATAGCAATACCATATTTAGGTTCGGGCATTTGTTCATAT
66 TCCATCCTGTAATTGTACACGCACCCATAGCAATAACATATTTAGCTTCGGGCATTTGTTCATAT
* *
4758049 AATCTCACTAAAGAGGGTGTCATTTTCATTGTTACTGT
131 AATCTCACTAAAGAGGGCGCCATTTTCATTGTTACTGT
4758087 TCCAGCTGTT
Statistics
Matches: 152, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
168 152 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (168 bp):
ATAGACATCCACGGGAATTAGCTTATCCACCCCCCGAACAGTACTATAAGAATCAGTACCAAACA
TCCATCCTGTAATTGTACACGCACCCATAGCAATAACATATTTAGCTTCGGGCATTTGTTCATAT
AATCTCACTAAAGAGGGCGCCATTTTCATTGTTACTGT
Found at i:4758356 original size:40 final size:41
Alignment explanation
Indices: 4758228--4758367 Score: 129
Period size: 41 Copynumber: 3.4 Consensus size: 41
4758218 GCTATTACTT
* * * *
4758228 TGACCTTTAGCGGCGCTTATGGGAAAGCACCGCTAAAGGTC
1 TGACCTTTAGCGGCGCTTAGGGGAAAGCGCCGCTAATGCTC
* * * * * * * **
4758269 AGAGCATTAGCGGTGGTTAGGAGAAAGTGCCGCTAATGCAG
1 TGACCTTTAGCGGCGCTTAGGGGAAAGCGCCGCTAATGCTC
* *
4758310 TAACCTTTAGCGACGCTTAGGGGAAAG-GCCGCTAATGCTC
1 TGACCTTTAGCGGCGCTTAGGGGAAAGCGCCGCTAATGCTC
*
4758350 TGACCTTTAGTGGCGCTT
1 TGACCTTTAGCGGCGCTT
4758368 TGACATAAAT
Statistics
Matches: 73, Mismatches: 26, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
40 26 0.36
41 47 0.64
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (41 bp):
TGACCTTTAGCGGCGCTTAGGGGAAAGCGCCGCTAATGCTC
Found at i:4760219 original size:23 final size:24
Alignment explanation
Indices: 4760186--4760231 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
4760176 ACAAAAATTA
4760186 AATTTATCAATTTAATT-AATTTAG
1 AATTTATCAA-TTAATTAAATTTAG
4760210 AATTT-TCAATTAATTAAATTTA
1 AATTTATCAATTAATTAAATTTA
4760232 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 10 0.48
24 5 0.24
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTTATCAATTAATTAAATTTAG
Found at i:4763537 original size:18 final size:18
Alignment explanation
Indices: 4763514--4763551 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4763504 TTTTATTTTA
4763514 AGCTGTTGCAATGGGAGC
1 AGCTGTTGCAATGGGAGC
4763532 AGCTGTTGCAATGGGAGC
1 AGCTGTTGCAATGGGAGC
4763550 AG
1 AG
4763552 TAGCTTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.39, T:0.21
Consensus pattern (18 bp):
AGCTGTTGCAATGGGAGC
Found at i:4768129 original size:21 final size:20
Alignment explanation
Indices: 4768104--4768142 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4768094 GTATACGGTT
4768104 TTGTTCGATTCGGATTTTGTA
1 TTGTTCGATTC-GATTTTGTA
* *
4768125 TTGTTTGGTTCGATTTTG
1 TTGTTCGATTCGATTTTG
4768143 AGTTGATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.10, C:0.08, G:0.26, T:0.56
Consensus pattern (20 bp):
TTGTTCGATTCGATTTTGTA
Found at i:4768329 original size:3 final size:3
Alignment explanation
Indices: 4768321--4768354 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4768311 CTTTATTTAT
4768321 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4768355 AAACAACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4770706 original size:16 final size:16
Alignment explanation
Indices: 4770685--4770745 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
4770675 TCACTAGCAT
4770685 AAAGCCTATTAGGCAC
1 AAAGCCTATTAGGCAC
*
4770701 AAAGCCTGATAACACCGGCAC
1 AAAGCCT-AT--TA--GGCAC
*
4770722 AAAGCCTACTAGGCAC
1 AAAGCCTATTAGGCAC
4770738 AAAGCCTA
1 AAAGCCTA
4770746 AATTTGTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
16 20 0.54
17 2 0.05
18 1 0.03
19 1 0.03
20 1 0.03
21 12 0.32
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.13
Consensus pattern (16 bp):
AAAGCCTATTAGGCAC
Found at i:4771508 original size:2 final size:2
Alignment explanation
Indices: 4771501--4771543 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4771491 CGCTAACTTT
4771501 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4771543 T
1 T
4771544 TATTAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4771718 original size:19 final size:19
Alignment explanation
Indices: 4771677--4771719 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
4771667 TTATGAGTGT
* *
4771677 AATTTACTCAATAAAATTT
1 AATTTACTAAATAAAATTA
**
4771696 AATTTACTAAATGTAATTA
1 AATTTACTAAATAAAATTA
4771715 AATTT
1 AATTT
4771720 TAAAATCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (19 bp):
AATTTACTAAATAAAATTA
Found at i:4774356 original size:52 final size:52
Alignment explanation
Indices: 4774294--4774394 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
4774284 ATACCAAAAT
* *
4774294 AGAGATACAATGAACTTTTAAAATAAGCTTAGATTAGAGTTCTAATCATAAC
1 AGAGATACAATGAACTTTTAAAATAAGCTTAAAATAGAGTTCTAATCATAAC
* * *
4774346 AGAGATACAATGACCTTTTTAAATAAGCTTAAAATAGAGTTTTAATCAT
1 AGAGATACAATGAACTTTTAAAATAAGCTTAAAATAGAGTTCTAATCAT
4774395 GCTTAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (52 bp):
AGAGATACAATGAACTTTTAAAATAAGCTTAAAATAGAGTTCTAATCATAAC
Found at i:4781065 original size:16 final size:18
Alignment explanation
Indices: 4781026--4781059 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4781016 TAAGTTTATA
4781026 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
4781043 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
4781060 AATTTAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:4781211 original size:22 final size:21
Alignment explanation
Indices: 4781183--4781230 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
4781173 TATAAATTAT
4781183 TAAATATTAAAATAAAATAAAA
1 TAAATATTAAAA-AAAATAAAA
* *
4781205 TAAATATTTAAAAAATTAAAA
1 TAAATATTAAAAAAAATAAAA
*
4781226 AAAAT
1 TAAAT
4781231 TAGGCGGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAATATTAAAAAAAATAAAA
Found at i:4787435 original size:16 final size:18
Alignment explanation
Indices: 4787402--4787435 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4787392 CTCGAATCGG
4787402 TTTTAAAATAAAAGTTAT
1 TTTTAAAATAAAAGTTAT
4787420 TTTTAAAA-AAAA-TTAT
1 TTTTAAAATAAAAGTTAT
4787436 ACTGTAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTTAAAATAAAAGTTAT
Found at i:4794748 original size:6 final size:6
Alignment explanation
Indices: 4794739--4794773 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
4794729 AGGAGGAGAG
* *
4794739 GGGTTT GGGTTC TGGTTC GGGTTC GGGTTC GGGTT
1 GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGTT
4794774 TGGATTGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.11, G:0.49, T:0.40
Consensus pattern (6 bp):
GGGTTC
Found at i:4806003 original size:20 final size:20
Alignment explanation
Indices: 4805967--4806005 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4805957 AATGAAGCTC
* *
4805967 ATAAAATTGATAGTCCACAG
1 ATAAAATTGAAAATCCACAG
4805987 ATAAAATTGAAAATCCACA
1 ATAAAATTGAAAATCCACA
4806006 AATCTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (20 bp):
ATAAAATTGAAAATCCACAG
Found at i:4807690 original size:22 final size:23
Alignment explanation
Indices: 4807660--4807703 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4807650 AAAATATTCA
4807660 AATATTAATAATAAAATAATAGT
1 AATATTAATAATAAAATAATAGT
* *
4807683 AATA-TAATAATGAAATGATAG
1 AATATTAATAATAAAATAATAG
4807704 CAAAAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (23 bp):
AATATTAATAATAAAATAATAGT
Found at i:4809303 original size:30 final size:31
Alignment explanation
Indices: 4809267--4809326 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
4809257 TTTAAAAAAA
4809267 TTTAAGTACCAAATT-AA-AAAAAATATCAAG
1 TTTAAGTACCAAATTGAATAAAAAA-ATCAAG
4809297 TTTAAGTACCAAATTGAATAAAAAAATCAA
1 TTTAAGTACCAAATTGAATAAAAAAATCAA
4809327 ATTAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 15 0.54
31 7 0.25
32 6 0.21
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.27
Consensus pattern (31 bp):
TTTAAGTACCAAATTGAATAAAAAAATCAAG
Found at i:4809338 original size:17 final size:18
Alignment explanation
Indices: 4809306--4809340 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4809296 GTTTAAGTAC
*
4809306 CAAATTGAATAAAAAAAT
1 CAAATTGAAGAAAAAAAT
4809324 CAAATT-AAGAAAAAAAT
1 CAAATTGAAGAAAAAAAT
4809341 GTTAAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (18 bp):
CAAATTGAAGAAAAAAAT
Found at i:4811378 original size:177 final size:172
Alignment explanation
Indices: 4811161--4811589 Score: 470
Period size: 177 Copynumber: 2.4 Consensus size: 172
4811151 CTCACTTTGG
* * *
4811161 GTATGGAGCACAATTTTAAAACTTGTGACTAGCGTCTACCCTCTTAATGGACCTATAGATTGTGA
1 GTATGGAGCACAATTTTAAAACTTGTGGCCAGCATCTACCCTCTTAATGG-CCTATAGATTG-GA
*
4811226 AGGATTAGTTACTAGGTTAAAATATGTCGTA-AGGTTAACTACTGGAGTTAAG-TAAAATGATAA
64 A-GATTAGTTACTAGGTTAAAATATGT--TATAGGTTAACTACGGGAGTT-AGTTAAAATGATAA
* * * *
4811289 AGGTTTTTCCTATCTTAACCAGTGGTCGAGAGTTTAAT-TCTGATCTTGA
125 AGGTTTTTCCTATCTTAACCAATGGTCGAGAGTTCAATCTCT--CCTCGA
* * * *
4811338 GTATGAAGCACAGTTTTAAAACTTGTGGCCAACATCTACCCTCTTAATAGGCCTATAGAATACGG
1 GTATGGAGCACAATTTTAAAACTTGTGGCCAGCATCTACCCTCTTAAT-GGCCTATAG-AT-TGG
* * * * *
4811403 AAGATTAGTTACTGGGTTAAAATATGTTATAGGTTAACTACGGGAGTTAGTTGAAATGGTGAGGG
63 AAGATTAGTTACTAGGTTAAAATATGTTATAGGTTAACTACGGGAGTTAGTTAAAATGATAAAGG
* * * * *
4811468 TTTTTTCTATTTTAACCAATGGTTGAGGGTTCAATCTCTCCTCGG
128 TTTTTCCTATCTTAACCAATGGTCGAGAGTTCAATCTCTCCTCGA
* * * *
4811513 GCATGGAGCATAATTTTAAAACTTGTGGCCAGCATCTA-CCTTTTAATGGGCCTATAGAATGCGG
1 GTATGGAGCACAATTTTAAAACTTGTGGCCAGCATCTACCCTCTTAAT-GGCCTATAG-AT-TGG
4811577 AAGATTAGTTACT
63 AAGATTAGTTACT
4811590 GAATTCGCTC
Statistics
Matches: 216, Mismatches: 30, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
174 36 0.17
175 40 0.19
176 56 0.26
177 76 0.35
178 7 0.03
179 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (172 bp):
GTATGGAGCACAATTTTAAAACTTGTGGCCAGCATCTACCCTCTTAATGGCCTATAGATTGGAAG
ATTAGTTACTAGGTTAAAATATGTTATAGGTTAACTACGGGAGTTAGTTAAAATGATAAAGGTTT
TTCCTATCTTAACCAATGGTCGAGAGTTCAATCTCTCCTCGA
Found at i:4817339 original size:31 final size:31
Alignment explanation
Indices: 4817278--4817339 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4817268 AATTATACTC
** *
4817278 TAATGACTTAAATAAAAACTTTTGAGTAATT
1 TAATGACTTAAATAAAAACTTTCAAATAATT
*
4817309 TAATGACTTAAATAAAAAGTTTCAAATAATT
1 TAATGACTTAAATAAAAACTTTCAAATAATT
4817340 CAATAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (31 bp):
TAATGACTTAAATAAAAACTTTCAAATAATT
Found at i:4826594 original size:16 final size:16
Alignment explanation
Indices: 4826572--4826618 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
4826562 CTATGATATA
4826572 AATTTTCAAATGAATGT
1 AATTTTCAAAT-AATGT
* *
4826589 -ATTTTCAACTTATGT
1 AATTTTCAAATAATGT
4826604 AATTTTCAAATAATG
1 AATTTTCAAATAATG
4826619 CATGATGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (16 bp):
AATTTTCAAATAATGT
Found at i:4831218 original size:11 final size:11
Alignment explanation
Indices: 4831202--4831233 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
4831192 AACACGGCAG
4831202 CAAGCAAATTA
1 CAAGCAAATTA
4831213 CAAGCAAATTA
1 CAAGCAAATTA
*
4831224 CAAGCCAATT
1 CAAGCAAATT
4831234 CAGTGCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (11 bp):
CAAGCAAATTA
Done.