Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold446
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: 3567220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 22
Found at i:3044168 original size:192 final size:188
Alignment explanation
Indices: 3043583--3044140 Score: 586
Period size: 192 Copynumber: 2.9 Consensus size: 188
3043573 TGCCATTGAC
* * * * * * * *
3043583 TTGTGGACTTAAAAAAG-TGCCACGGAGTTGTGGATTTAAAATGATGCCACTGACTTGTGGGCTT
1 TTGTGGACTTTAAAAGGTTGCCAC-GAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTT
* * * * * *
3043647 TGAAATGATGCCACTGACTTGAGGACTTAAAAGGGTGCCATGGAGTTGTGGATTTAAAAGGGTGC
65 TAAAAGGATGCCAC-GAGTTGTGGACTTAAAA-GGTGCCATGGAGTTGTGGACTTAAAAGGATGC
* * *
3043712 CACAGAGTTGTGGACTTTAAAAGGGTGCCATGGAGTTGTGGACTTTAGAAAGGTGCCACGGAG
128 CACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGAC-TTAGAAAGGTGCCACGGAG
* *
3043775 TTGTGGACTTTAAAAGGGTGCCACGAAGTTGTGGACTT-AAAAGGTTGCCACAGAGTTATGGAC-
1 TTGTGGACTTTAAAAGGTTGCCACG-AGTTGTGGACTTAAAAAGG-TGCCACAGAGTTGTGGACT
* * * * * *
3043838 TTCAAAGGGTGCCACGAAGCTATGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGTTA
64 TTAAAAGGATGCCACG-AGTTGTGGACTTAAAAGG-TGCCATGGAGTTGTGGACTTAAAAGGATG
** * * *
3043903 CCACGG-GTTGTGGACTTAAAAAGGAATGCCACTAAATCGTGGACTTTGAAAGGGTGCCACGGAG
127 CCACGGAGTTGTGGACTT-AAAAGG-ATGCCACGGAGTTGTGGACTTAGAAA-GGTGCCACGGAG
* *
3043967 TTGTGGAC-TTGAAAGGTTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTT
1 TTGTGGACTTTAAAAGGTTGCCAC-GAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTT
* * * *
3044031 TAAAAGGATGCCACAGAGTTGTGGACTTCAAAAGGTGCCACGAAGCTATGGACTTAAAAGGATGC
65 TAAAAGGATGCCAC-GAGTTGTGGACTT-AAAAGGTGCCATGGAGTTGTGGACTTAAAAGGATGC
* * * *
3044096 CACGGAGTTTTAGACTTATAAGGTTGCCACGGAGTTGTGGACTTA
128 CACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTA
3044141 AAAAAGAATG
Statistics
Matches: 302, Mismatches: 50, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
190 2 0.01
191 81 0.27
192 172 0.57
193 47 0.16
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (188 bp):
TTGTGGACTTTAAAAGGTTGCCACGAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTT
AAAAGGATGCCACGAGTTGTGGACTTAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGATGCCAC
GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAGAAAGGTGCCACGGAG
Found at i:3045699 original size:27 final size:28
Alignment explanation
Indices: 3045643--3045703 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
3045633 CTTAACCTTA
* *
3045643 TTGAC-TATTGACTTTGATTATTTAATT
1 TTGACTTATTGACTTTGATTAGTTAACT
* *
3045670 TTGACTTATTGATTTTGATT-GTTGACT
1 TTGACTTATTGACTTTGATTAGTTAACT
3045697 TTGACTT
1 TTGACTT
3045704 TTTTAAGAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (28 bp):
TTGACTTATTGACTTTGATTAGTTAACT
Found at i:3048911 original size:22 final size:21
Alignment explanation
Indices: 3048860--3048913 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
3048850 TTCAATATCT
*
3048860 ATAAATGTTTTAGAGTTATGA
1 ATAAATGTTTTAGAGTTATAA
*
3048881 ATAAATGTTTTCGAGCTT-TAA
1 ATAAATGTTTTAGAG-TTATAA
3048902 ATCAAATGTTTT
1 AT-AAATGTTTT
3048914 TAAGTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (21 bp):
ATAAATGTTTTAGAGTTATAA
Found at i:3052176 original size:13 final size:13
Alignment explanation
Indices: 3052158--3052183 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3052148 AGGCCATAGG
3052158 GAATGGAACATTT
1 GAATGGAACATTT
3052171 GAATGGAACATTT
1 GAATGGAACATTT
3052184 ATGTTGTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
GAATGGAACATTT
Found at i:3054200 original size:21 final size:21
Alignment explanation
Indices: 3054167--3054207 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3054157 CTAAGTAAAA
3054167 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
3054188 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
3054208 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:3054272 original size:20 final size:19
Alignment explanation
Indices: 3054247--3054317 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
3054237 ATCCTGAAAA
3054247 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
3054267 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
3054286 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
3054307 GTATCGATACA
1 GTATCGATACA
3054318 GGTCATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:3054409 original size:10 final size:10
Alignment explanation
Indices: 3054394--3054452 Score: 93
Period size: 10 Copynumber: 6.0 Consensus size: 10
3054384 AATCTCATTT
*
3054394 TCACTATTCA
1 TCACTGTTCA
*
3054404 TCACTATTCA
1 TCACTGTTCA
3054414 TCACTGTTCA
1 TCACTGTTCA
3054424 TCACTGTTCA
1 TCACTGTTCA
3054434 TCACTGTTCA
1 TCACTGTTCA
3054444 -CACTGTTCA
1 TCACTGTTCA
3054453 CGTATCACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
9 9 0.19
10 39 0.81
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.39
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:3054531 original size:13 final size:13
Alignment explanation
Indices: 3054513--3054538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3054503 ACATATTTGT
3054513 GTGTATCGATACA
1 GTGTATCGATACA
3054526 GTGTATCGATACA
1 GTGTATCGATACA
3054539 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:3055080 original size:34 final size:35
Alignment explanation
Indices: 3055017--3055083 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3055007 CTAAGTGATT
3055017 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
3055053 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
3055084 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:3059859 original size:21 final size:21
Alignment explanation
Indices: 3059826--3059866 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3059816 CTAAGTAAAA
3059826 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
3059847 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
3059867 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:3059931 original size:20 final size:19
Alignment explanation
Indices: 3059906--3059976 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
3059896 ATCCTGAAAA
3059906 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
3059926 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
3059945 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
3059966 GTATCGATACA
1 GTATCGATACA
3059977 GGTCATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:3060068 original size:10 final size:10
Alignment explanation
Indices: 3060053--3060111 Score: 84
Period size: 10 Copynumber: 6.0 Consensus size: 10
3060043 AATCTCATTT
3060053 TCACTATTCA
1 TCACTATTCA
3060063 TCACTATTCA
1 TCACTATTCA
3060073 TCACTATTCA
1 TCACTATTCA
*
3060083 TCACTGTTCA
1 TCACTATTCA
*
3060093 TCACTGTTCA
1 TCACTATTCA
*
3060103 -CACTGTTCA
1 TCACTATTCA
3060112 CGTATCACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
9 9 0.19
10 39 0.81
ACGTcount: A:0.25, C:0.31, G:0.05, T:0.39
Consensus pattern (10 bp):
TCACTATTCA
Found at i:3060078 original size:20 final size:20
Alignment explanation
Indices: 3060053--3060111 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
3060043 AATCTCATTT
*
3060053 TCACTATTCATCACTATTCA
1 TCACTATTCATCACTGTTCA
3060073 TCACTATTCATCACTGTTCA
1 TCACTATTCATCACTGTTCA
*
3060093 TCACTGTTCA-CACTGTTCA
1 TCACTATTCATCACTGTTCA
3060112 CGTATCACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
19 9 0.24
20 28 0.76
ACGTcount: A:0.25, C:0.31, G:0.05, T:0.39
Consensus pattern (20 bp):
TCACTATTCATCACTGTTCA
Found at i:3060190 original size:13 final size:13
Alignment explanation
Indices: 3060172--3060197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3060162 ACATATTTGT
3060172 GTGTATCGATACA
1 GTGTATCGATACA
3060185 GTGTATCGATACA
1 GTGTATCGATACA
3060198 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:3060739 original size:34 final size:35
Alignment explanation
Indices: 3060676--3060742 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3060666 CTAAGTGATT
3060676 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
3060712 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
3060743 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:3062316 original size:13 final size:13
Alignment explanation
Indices: 3062298--3062335 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
3062288 AAAACTTAGA
3062298 TGTATCGATACAT
1 TGTATCGATACAT
3062311 TGTATCGAATA-A-
1 TGTATCG-ATACAT
3062323 TGTATCGATACAT
1 TGTATCGATACAT
3062336 GGGTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 3 0.14
12 8 0.36
13 8 0.36
14 3 0.14
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3067244 original size:13 final size:13
Alignment explanation
Indices: 3067226--3067252 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3067216 ACATTATGCT
3067226 TTGTATCGATACA
1 TTGTATCGATACA
3067239 TTGTATCGATACA
1 TTGTATCGATACA
3067252 T
1 T
3067253 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3067249 original size:33 final size:32
Alignment explanation
Indices: 3067207--3067271 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
3067197 CCCATCCAGA
* *
3067207 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCGATACAT
3067240 TGTATCGATACATGATCATTGTATCGATACAT
1 TGTATCGATACATGATCATTGTATCGATACAT
3067272 ACATAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACAT
Found at i:3067261 original size:19 final size:19
Alignment explanation
Indices: 3067237--3067293 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
3067227 TGTATCGATA
3067237 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
*
3067256 CATTGTATCGATACATACAT
1 CATTGTATCGATACAT-GAT
*
3067276 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
3067294 CACTACAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:3067282 original size:20 final size:19
Alignment explanation
Indices: 3067238--3067291 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
3067228 GTATCGATAC
* *
3067238 ATTGTATCGATACATGATC
1 ATTGTATCGATACATCATA
3067257 ATTGTATCGATACATACATA
1 ATTGTATCGATACAT-CATA
3067277 ATTGTATCGATACAT
1 ATTGTATCGATACAT
3067292 GACACTACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (19 bp):
ATTGTATCGATACATCATA
Found at i:3069552 original size:68 final size:67
Alignment explanation
Indices: 3069478--3069612 Score: 184
Period size: 68 Copynumber: 2.0 Consensus size: 67
3069468 TTGACATAAA
*
3069478 TGTCGCCAACT-TGTGCAGGCTTTAACTCAGACTTAGG-TGCCACCAGCTCATGTGGGCTTTGAC
1 TGTCGCCAACTATGTG-AGG-TTTAACTCAGAC-TAGGTTGCCACCAGCTCATGTAGGCTTTGAC
3069541 TCGGG
63 TCGGG
* **
3069546 TGTCGCCAACTCATGTGAGGTTTAACTTAGACTAGGTTGCCACCAGCTTGTGTAGGCTTTGACTC
1 TGTCGCCAACT-ATGTGAGGTTTAACTCAGACTAGGTTGCCACCAGCTCATGTAGGCTTTGACTC
3069611 GG
65 GG
3069613 ACTAGGTTGC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
67 4 0.07
68 49 0.82
69 3 0.05
70 4 0.07
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (67 bp):
TGTCGCCAACTATGTGAGGTTTAACTCAGACTAGGTTGCCACCAGCTCATGTAGGCTTTGACTCG
GG
Found at i:3069634 original size:37 final size:37
Alignment explanation
Indices: 3069575--3069646 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
3069565 GTTTAACTTA
*
3069575 GACTAGGTTGCCACCAGCTTGTGTAGGCTTTGACTCG
1 GACTAGGTTGCCACCAGATTGTGTAGGCTTTGACTCG
* *
3069612 GACTAGGTTGCCTCCAGATTGTGTGGGCTTTGACT
1 GACTAGGTTGCCACCAGATTGTGTAGGCTTTGACT
3069647 TAGGTGCTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.32
Consensus pattern (37 bp):
GACTAGGTTGCCACCAGATTGTGTAGGCTTTGACTCG
Found at i:3070147 original size:20 final size:20
Alignment explanation
Indices: 3070110--3070163 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
3070100 TTCTATGATT
3070110 TGTATCGATACGATAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
*
3070131 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
3070151 TGTATCGATACAT
1 TGTATCGATACAT
3070164 GTCTCAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:3073626 original size:29 final size:29
Alignment explanation
Indices: 3073580--3073682 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
3073570 GTTGCGACAA
* * *
3073580 GTGCCACTGACTTGTGGGCTGTGAAAAGG
1 GTGCCACTAACTTATGGGCTTTGAAAAGG
* * *
3073609 GTGCCATTAACTTATGGGTTTTAAAAAGG
1 GTGCCACTAACTTATGGGCTTTGAAAAGG
* *
3073638 GTGCCACTGACTTGTGGGCTTTGAAAAGG
1 GTGCCACTAACTTATGGGCTTTGAAAAGG
* *
3073667 TTGCCACCAACTTATG
1 GTGCCACTAACTTATG
3073683 TGGACTTCAA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (29 bp):
GTGCCACTAACTTATGGGCTTTGAAAAGG
Found at i:3073696 original size:31 final size:31
Alignment explanation
Indices: 3073661--3073720 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
3073651 GTGGGCTTTG
*
3073661 AAAAGGTTGCCACCAACTTATGTGGACTTCA
1 AAAAGGTTGCCACCAACTCATGTGGACTTCA
*
3073692 AAAAGGTTGTCACCAACTCATGTGGACTT
1 AAAAGGTTGCCACCAACTCATGTGGACTT
3073721 TAACTGGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAAGGTTGCCACCAACTCATGTGGACTTCA
Found at i:3073788 original size:67 final size:65
Alignment explanation
Indices: 3073712--3074347 Score: 351
Period size: 67 Copynumber: 9.8 Consensus size: 65
3073702 CACCAACTCA
* * *
3073712 TGTGGACTTTAACTGGGGTGCTACTAACTCGTGTGGA-TGTTAAAAAGGTTTGGTTGCCAACTAT
1 TGTGGACTTTAA-TGGGGTGCCACCAACTCGTGTGGACT-TTAAAAA-GTTTGGTTGCCAACTAC
3073776 TTG
63 TTG
* * * * *
3073779 TGTGGACTTTGATTGGAGTGCCACCAACTCGTATGGACTTTGAAAAAGTTTGGTTGCCATCGACT
1 TGTGGACTTT-AATGGGGTGCCACCAACTCGTGTGGACTTT-AAAAAGTTTGGTTGCCAACTACT
3073844 TG
64 TG
* * * * * * * *
3073846 TGTGGACTTTGAATAGGGTGCCACCAGCTCGTATGGACTTT---AACTATGG-TGCCACCAACTC
1 TGTGGACTTT-AATGGGGTGCCACCAACTCGTGTGGACTTTAAAAAGTTTGGTTGCCAACTACTT
3073907 G
65 G
* * * *
3073908 TGTGGACTTTGACTGGGGTGCCACCAACTCATGTAGACTTTGAAAAGGTTTGGTTGCC-ACTAAC
1 TGTGGACTTT-AATGGGGTGCCACCAACTCGTGTGGACTTT-AAAAAGTTTGGTTGCCAACT-AC
3073972 TTG
63 TTG
** * * * * * *
3073975 TGTGGACTTTGAATATGGTGCTACCAACTCGTGTGGACTTT---AACTATAG-TG-CAACAACTC
1 TGTGGACTTT-AATGGGGTGCCACCAACTCGTGTGGACTTTAAAAAGTTTGGTTGCCAACTACTT
*
3074035 A
65 G
* * **** * *
3074036 AGTGGAGTTTGACCAAGGTG-TACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCC-ACTGAC
1 TGTGGACTTT-AATGGGGTGCCACCAACTCGTGTGGACTTT-AAAAAGTTTGGTTGCCAACT-AC
3074099 TTG
63 TTG
* * * * *
3074102 TGTGGACTTTAAAT-GGGTGCTACCAACTCATGTGGACTTT---AACTATGG-TGCC-ACAAACT
1 TGTGGACTTT-AATGGGGTGCCACCAACTCGTGTGGACTTTAAAAAGTTTGGTTGCCAAC-TACT
**
3074161 CA
64 TG
* * * * *
3074163 TGTGGACTTTGACTGGGCTGCCACCAACTCATGTGGACTTTGAAAAAGTTTGG-TGGCAACCAAC
1 TGTGGACTTT-AATGGGGTGCCACCAACTCGTGTGGACTTT-AAAAAGTTTGGTTGCCAA-CTAC
*
3074227 TTA
63 TTG
* * * * * * *
3074230 TATGGACTTTGACTGAGGTGTCACCAACTCATGTGGATTTTGAAAAGGTTTGGTTGCC-ACTAAC
1 TGTGGACTTT-AATGGGGTGCCACCAACTCGTGTGGACTTT-AAAAAGTTTGGTTGCCAACT-AC
*
3074294 TCG
63 TTG
* ** * * *
3074297 AGTGGACTTTAACTATGGTGCCACCAATTTGTGTGGACTTTGAAAAGTTTG
1 TGTGGACTTTAA-TGGGGTGCCACCAACTCGTGTGGACTTTAAAAAGTTTG
3074348 ACACTAACTC
Statistics
Matches: 443, Mismatches: 97, Indels: 59
0.74 0.16 0.10
Matches are distributed among these distances:
60 20 0.05
61 40 0.09
62 78 0.18
63 10 0.02
64 4 0.01
65 8 0.02
66 57 0.13
67 215 0.49
68 11 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (65 bp):
TGTGGACTTTAATGGGGTGCCACCAACTCGTGTGGACTTTAAAAAGTTTGGTTGCCAACTACTTG
Found at i:3073899 original size:129 final size:129
Alignment explanation
Indices: 3073779--3074216 Score: 584
Period size: 129 Copynumber: 3.4 Consensus size: 129
3073769 CAACTATTTG
* * *
3073779 TGTGGACTTTGATTGGAGTGCCACCAACTCGTATGGACTTTGAAAAAGTTTGGTTGCCA-TCGAC
1 TGTGGACTTTGACTGGAGTGCCACCAACTCATGTGGACTTTGAAAAAGTTTGGTTGCCACT-GAC
* * * * *
3073843 TTGTGTGGACTTTGAATAGGGTGCCACCAGCTCGTATGGACTTTAACTATGGTGCCACCAACTCG
65 TTGTGTGGACTTTGAATAGGGTGCTACCAACTCGTGTGGACTTTAACTATGGTGCCAACAACTCA
* * * *
3073908 TGTGGACTTTGACTGGGGTGCCACCAACTCATGTAGACTTTGAAAAGGTTTGGTTGCCACTAACT
1 TGTGGACTTTGACTGGAGTGCCACCAACTCATGTGGACTTTGAAAAAGTTTGGTTGCCACTGACT
* *
3073973 TGTGTGGACTTTGAATATGGTGCTACCAACTCGTGTGGACTTTAACTATAGTG-CAACAACTCA
66 TGTGTGGACTTTGAATAGGGTGCTACCAACTCGTGTGGACTTTAACTATGGTGCCAACAACTCA
* * ** * * *
3074036 AGTGGAGTTTGAC-CAAGGTG-TACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCCACTGAC
1 TGTGGACTTTGACTGGA-GTGCCACCAACTCATGTGGACTTTGAAAAAGTTTGGTTGCCACTGAC
* *
3074099 TTGTGTGGACTTTAAAT-GGGTGCTACCAACTCATGTGGACTTTAACTATGGTGCC-ACAAACTC
65 TTGTGTGGACTTTGAATAGGGTGCTACCAACTCGTGTGGACTTTAACTATGGTGCCAAC-AACTC
3074162 A
129 A
3074163 TGTGGACTTTGACTGG-GCTGCCACCAACTCATGTGGACTTTGAAAAAGTTTGGT
1 TGTGGACTTTGACTGGAG-TGCCACCAACTCATGTGGACTTTGAAAAAGTTTGGT
3074217 GGCAACCAAC
Statistics
Matches: 268, Mismatches: 34, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
126 36 0.13
127 75 0.28
128 52 0.19
129 104 0.39
130 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (129 bp):
TGTGGACTTTGACTGGAGTGCCACCAACTCATGTGGACTTTGAAAAAGTTTGGTTGCCACTGACT
TGTGTGGACTTTGAATAGGGTGCTACCAACTCGTGTGGACTTTAACTATGGTGCCAACAACTCA
Found at i:3073947 original size:31 final size:31
Alignment explanation
Indices: 3073778--3074339 Score: 263
Period size: 31 Copynumber: 17.4 Consensus size: 31
3073768 CCAACTATTT
*
3073778 GTGTGGACTTTGA-TTGGAGTGCCACCAACTC
1 GTGTGGACTTTGACTAGG-GTGCCACCAACTC
* ** * * *
3073809 GTATGGACTTTGAAAAAGTTTGGTTGCCATCGACTT
1 GTGTGGACTTTG-ACTAG---GG-TGCCACCAACTC
* *
3073845 GTGTGGACTTTGAATAGGGTGCCACCAGCTC
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
* * *
3073876 GTATGGACTTTAACTATGGTGCCACCAACTC
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
*
3073907 GTGTGGACTTTGACTGGGGTGCCACCAACTC
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
* * ** * *
3073938 ATGTAGACTTTGAAAAGGTTTGGTTGCCACTAACTT
1 GTGTGGACTTTGACTA-G---GG-TGCCACCAACTC
* * *
3073974 GTGTGGACTTTGAATATGGTGCTACCAACTC
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
* ** *
3074005 GTGTGGACTTTAACTATAGTG-CAACAACTC
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
** * * * *
3074035 AAGTGGAGTTTGACCAAGGTG-TACCAACTC
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
** ** *
3074065 GTGTGGACTTTGAAAAGGTTTGGTTGCCACTGACTT
1 GTGTGGACTTTGACTA-G---GG-TGCCACCAACTC
* * *
3074101 GTGTGGACTTTAAAT-GGGTGCTACCAACTC
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
* * * *
3074131 ATGTGGACTTTAACTATGGTGCCACAAACTC
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
*
3074162 ATGTGGACTTTGACT-GGGCTGCCACCAACTC
1 GTGTGGACTTTGACTAGGG-TGCCACCAACTC
* ** * *
3074193 ATGTGGACTTTGAAAAAGTTTGGTGGCAACCAACTT
1 GTGTGGACTTTG-ACTAG---GGT-GCCACCAACTC
* * *
3074229 ATATGGACTTTGACT-GAGGTGTCACCAACTC
1 GTGTGGACTTTGACTAG-GGTGCCACCAACTC
* * ** *
3074260 ATGTGGATTTTGAAAAGGTTTGGTTGCCACTAACTC
1 GTGTGGACTTTGACTA-G---GG-TGCCACCAACTC
* * * * *
3074296 GAGTGGACTTTAACTATGGTGCCACCAATTT
1 GTGTGGACTTTGACTAGGGTGCCACCAACTC
3074327 GTGTGGACTTTGA
1 GTGTGGACTTTGA
3074340 AAAGTTTGAC
Statistics
Matches: 398, Mismatches: 103, Indels: 60
0.71 0.18 0.11
Matches are distributed among these distances:
30 62 0.16
31 200 0.50
32 12 0.03
33 3 0.01
34 4 0.01
35 13 0.03
36 104 0.26
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (31 bp):
GTGTGGACTTTGACTAGGGTGCCACCAACTC
Found at i:3074071 original size:30 final size:31
Alignment explanation
Indices: 3073969--3074077 Score: 100
Period size: 30 Copynumber: 3.6 Consensus size: 31
3073959 GGTTGCCACT
*
3073969 AACTTGTGTGGACTTTGA--ATATGGTGCTACC
1 AACTCGTGTGGACTTTGACCATA-GGTG-TACC
* * * *
3074000 AACTCGTGTGGACTTTAACTATA-GTGCAAC
1 AACTCGTGTGGACTTTGACCATAGGTGTACC
** *
3074030 AACTCAAGTGGAGTTTGACCA-AGGTGTACC
1 AACTCGTGTGGACTTTGACCATAGGTGTACC
3074060 AACTCGTGTGGACTTTGA
1 AACTCGTGTGGACTTTGA
3074078 AAAGGTTTGG
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
29 1 0.02
30 38 0.62
31 19 0.31
33 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (31 bp):
AACTCGTGTGGACTTTGACCATAGGTGTACC
Found at i:3074192 original size:255 final size:256
Alignment explanation
Indices: 3073801--3074266 Score: 706
Period size: 255 Copynumber: 1.8 Consensus size: 256
3073791 TTGGAGTGCC
*
3073801 ACCAACTCGTATGGACTTTGAAAAAGTTTGGTTGCCATCGACTTGTGTGGACTTTGAATAGGGTG
1 ACCAACTCGTATGGACTTTGAAAAAGTTTGGTTGCCATCGACTTGTGTGGACTTTAAATAGGGTG
* * * * *
3073866 CCACCAGCTCGTATGGACTTTAACTATGGTGCCACCAACTCGTGTGGACTTTGACTGGGGTGCCA
66 CCACCAACTCATATGGACTTTAACTATGGTGCCACAAACTCATGTGGACTTTGACTGGGCTGCCA
* * * * * *
3073931 CCAACTCATGTAGACTTTGAAAAGGTTTGGTTGCCACTAACTTGTGTGGACTTTGAAT-ATGGTG
131 CCAACTCATGTAGACTTTGAAAAAGTTTGGTGGCAACCAACTTATATGGACTTTGAATGA-GGTG
*
3073995 -CTACCAACTCGTGTGGACTTTAACTATAGTGCAACAACTCAAGTGGAGTTTGACCAAGGTGT
195 TC-ACCAACTCATGTGGACTTTAACTATAGTGCAACAACTCAAGTGGAGTTTGACCAAGGTGT
* *
3074057 ACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCCA-CTGACTTGTGTGGACTTTAAAT-GGGT
1 ACCAACTCGTATGGACTTTGAAAAAGTTTGGTTGCCATC-GACTTGTGTGGACTTTAAATAGGGT
* *
3074120 GCTACCAACTCATGTGGACTTTAACTATGGTGCCACAAACTCATGTGGACTTTGACTGGGCTGCC
65 GCCACCAACTCATATGGACTTTAACTATGGTGCCACAAACTCATGTGGACTTTGACTGGGCTGCC
* *
3074185 ACCAACTCATGTGGACTTTGAAAAAGTTTGGTGGCAACCAACTTATATGGACTTTGACTGAGGTG
130 ACCAACTCATGTAGACTTTGAAAAAGTTTGGTGGCAACCAACTTATATGGACTTTGAATGAGGTG
3074250 TCACCAACTCATGTGGA
195 TCACCAACTCATGTGGA
3074267 TTTTGAAAAG
Statistics
Matches: 188, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
255 132 0.70
256 56 0.30
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (256 bp):
ACCAACTCGTATGGACTTTGAAAAAGTTTGGTTGCCATCGACTTGTGTGGACTTTAAATAGGGTG
CCACCAACTCATATGGACTTTAACTATGGTGCCACAAACTCATGTGGACTTTGACTGGGCTGCCA
CCAACTCATGTAGACTTTGAAAAAGTTTGGTGGCAACCAACTTATATGGACTTTGAATGAGGTGT
CACCAACTCATGTGGACTTTAACTATAGTGCAACAACTCAAGTGGAGTTTGACCAAGGTGT
Found at i:3074323 original size:98 final size:98
Alignment explanation
Indices: 3074000--3074387 Score: 305
Period size: 98 Copynumber: 4.0 Consensus size: 98
3073990 TGGTGCTACC
* * * * *
3074000 AACTCGTGTGGACTTTAACTATAGTG-CAACAACTCA-AGTGGAGTTTGACCAAGGTGT-ACCAA
1 AACTCGAGTGGACTTTAACTATGGTGCCACCAACTCATA-TGGACTTTGACTAAGGTGTCACCAA
*
3074062 CTCGTGTGGACTTTGAAAAGGTTTGGTTGCCACT
65 CTCATGTGGACTTTGAAAAGGTTTGGTTGCCACT
* * * * * * * * *
3074096 GACTTGTGTGGACTTTAA--ATGGGTGCTACCAACTCATGTGGACTTTAACTATGGTGCCACAAA
1 AACTCGAGTGGACTTTAACTAT-GGTGCCACCAACTCATATGGACTTTGACTAAGGTGTCACCAA
* * * *
3074159 CTCATGTGGACTTTG---A--CTGGGCTGCCACC
65 CTCATGTGGACTTTGAAAAGGTTTGGTTGCCACT
* * * * *
3074188 AACTC-ATGTGGACTTTGAAAAAGTTTGGTGGCAACCAACTTATATGGACTTTGACTGAGGTGTC
1 AACTCGA-GTGGACTTT----AACTATGGT-GCCACCAACTCATATGGACTTTGACTAAGGTGTC
*
3074252 ACCAACTCATGTGGATTTTGAAAAGGTTTGGTTGCCACT
60 ACCAACTCATGTGGACTTTGAAAAGGTTTGGTTGCCACT
* ** * * * * *
3074291 AACTCGAGTGGACTTTAACTATGGTGCCACCAATTTGTGTGGACTTTGA-AAAGTTTGACACTAA
1 AACTCGAGTGGACTTTAACTATGGTGCCACCAACTCATATGGACTTTGACTAAG-GTGTCACCAA
*
3074355 CTCATGTGGACTTTGAAAAAGTTTGGTTGCCAC
65 CTCATGTGGACTTTGAAAAGGTTTGGTTGCCAC
3074388 CTATTTGTGT
Statistics
Matches: 226, Mismatches: 47, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
92 21 0.09
94 3 0.01
95 3 0.01
96 40 0.18
97 23 0.10
98 104 0.46
99 7 0.03
101 1 0.00
103 23 0.10
104 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (98 bp):
AACTCGAGTGGACTTTAACTATGGTGCCACCAACTCATATGGACTTTGACTAAGGTGTCACCAAC
TCATGTGGACTTTGAAAAGGTTTGGTTGCCACT
Found at i:3075051 original size:18 final size:18
Alignment explanation
Indices: 3075028--3075064 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3075018 TTGATTAACC
*
3075028 GATCTGTTTTTGGTTGCT
1 GATCTGCTTTTGGTTGCT
3075046 GATCTGCTTTTGGTTGCT
1 GATCTGCTTTTGGTTGCT
3075064 G
1 G
3075065 TTGTCGATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.14, G:0.30, T:0.51
Consensus pattern (18 bp):
GATCTGCTTTTGGTTGCT
Found at i:3075091 original size:18 final size:18
Alignment explanation
Indices: 3075070--3075106 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3075060 TGCTGTTGTC
3075070 GATCTACTTCTAGTTGCT
1 GATCTACTTCTAGTTGCT
* *
3075088 GATCTGCTTCTGGTTGCT
1 GATCTACTTCTAGTTGCT
3075106 G
1 G
3075107 TTGCTATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.24, T:0.43
Consensus pattern (18 bp):
GATCTACTTCTAGTTGCT
Found at i:3075354 original size:23 final size:23
Alignment explanation
Indices: 3075284--3075355 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
3075274 TTTTAATTAG
3075284 GTTTTAATTGGGTTTGGGTTTAA
1 GTTTTAATTGGGTTTGGGTTTAA
**** ** *
3075307 G-TTTATATAAATTTTTAG-TTCA
1 GTTTTA-ATTGGGTTTGGGTTTAA
3075329 GTTTTAATTGGGTTTGGGTTTAA
1 GTTTTAATTGGGTTTGGGTTTAA
3075352 GTTT
1 GTTT
3075356 ATATAGATTT
Statistics
Matches: 32, Mismatches: 14, Indels: 6
0.62 0.27 0.12
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.21, C:0.01, G:0.24, T:0.54
Consensus pattern (23 bp):
GTTTTAATTGGGTTTGGGTTTAA
Found at i:3075369 original size:45 final size:45
Alignment explanation
Indices: 3075271--3075371 Score: 168
Period size: 45 Copynumber: 2.2 Consensus size: 45
3075261 GAGCTTTATT
*
3075271 AATTTTTAATT-AGGTTTTAATTGGGTTTGGGTTTAAGTTTATATA
1 AATTTTTAGTTCA-GTTTTAATTGGGTTTGGGTTTAAGTTTATATA
3075316 AATTTTTAGTTCAGTTTTAATTGGGTTTGGGTTTAAGTTTATATA
1 AATTTTTAGTTCAGTTTTAATTGGGTTTGGGTTTAAGTTTATATA
*
3075361 GATTTTTAGTT
1 AATTTTTAGTT
3075372 TGTGTTAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.20, T:0.54
Consensus pattern (45 bp):
AATTTTTAGTTCAGTTTTAATTGGGTTTGGGTTTAAGTTTATATA
Found at i:3075372 original size:23 final size:23
Alignment explanation
Indices: 3075301--3075372 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
3075291 TTGGGTTTGG
*
3075301 GTTTAAGTTTATATAAATTTTTA
1 GTTTAAGTTTATATAGATTTTTA
* * ** **
3075324 G-TTCAGTTT-TAATTGGGTTTGG
1 GTTTAAGTTTAT-ATAGATTTTTA
3075346 GTTTAAGTTTATATAGATTTTTA
1 GTTTAAGTTTATATAGATTTTTA
3075369 GTTT
1 GTTT
3075373 GTGTTAAATG
Statistics
Matches: 33, Mismatches: 13, Indels: 6
0.63 0.25 0.12
Matches are distributed among these distances:
21 1 0.03
22 13 0.39
23 18 0.55
24 1 0.03
ACGTcount: A:0.25, C:0.01, G:0.18, T:0.56
Consensus pattern (23 bp):
GTTTAAGTTTATATAGATTTTTA
Found at i:3075396 original size:45 final size:45
Alignment explanation
Indices: 3075301--3075401 Score: 105
Period size: 45 Copynumber: 2.2 Consensus size: 45
3075291 TTGGGTTTGG
* * ***
3075301 GTTTAAGTTTATATAAATTTTTAGTTCAGTTTTAATTGGGTTTGG
1 GTTTAAGTTTATATAAATTTTTAGTTCAGTGTTAAATGGGTTAAC
* *
3075346 GTTTAAGTTTATATAGATTTTTAGTT-TGTGTTAAATGGGCTTAAC
1 GTTTAAGTTTATATAAATTTTTAGTTCAGTGTTAAATGGG-TTAAC
* *
3075391 TTTTAAATTTA
1 GTTTAAGTTTA
3075402 CAAATATATT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
44 10 0.22
45 36 0.78
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (45 bp):
GTTTAAGTTTATATAAATTTTTAGTTCAGTGTTAAATGGGTTAAC
Found at i:3075433 original size:9 final size:9
Alignment explanation
Indices: 3075421--3075452 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
3075411 TTTATTAAAT
3075421 ATATTTTAA
1 ATATTTTAA
3075430 ATATTTTAA
1 ATATTTTAA
3075439 ATATTTTAA
1 ATATTTTAA
3075448 ATATT
1 ATATT
3075453 AAATTTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATTTTAA
Found at i:3075701 original size:31 final size:30
Alignment explanation
Indices: 3075635--3075719 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 30
3075625 TCTCCCTTAA
* * *
3075635 TGCCACCAACTCCTGTGGACTTTAACTATGG
1 TGCCA-CAACTCGTGTGGACTTTAACAAAGG
3075666 TGCCATCAACTCGTGTGGACTTTAA-AAAGG
1 TGCCA-CAACTCGTGTGGACTTTAACAAAGG
3075696 TTGCCACTAACTCGTGTGGACTTT
1 -TGCCAC-AACTCGTGTGGACTTT
3075720 GATTGGGGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (30 bp):
TGCCACAACTCGTGTGGACTTTAACAAAGG
Found at i:3075977 original size:13 final size:13
Alignment explanation
Indices: 3075959--3075994 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3075949 TTTTGACAAA
3075959 TTTTGACAAAAGT
1 TTTTGACAAAAGT
3075972 TTTTGACAAAAGT
1 TTTTGACAAAAGT
*
3075985 TCTTGACAAA
1 TTTTGACAAA
3075995 GACTTTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (13 bp):
TTTTGACAAAAGT
Found at i:3077862 original size:15 final size:15
Alignment explanation
Indices: 3077844--3077881 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
3077834 ACTTTATGAA
3077844 CTGAAGAATTATTTC
1 CTGAAGAATTATTTC
3077859 CTGAAGAATTATTTC
1 CTGAAGAATTATTTC
*
3077874 CTAAAGAA
1 CTGAAGAA
3077882 AGTTCCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (15 bp):
CTGAAGAATTATTTC
Found at i:3088617 original size:130 final size:130
Alignment explanation
Indices: 3088384--3088706 Score: 368
Period size: 130 Copynumber: 2.5 Consensus size: 130
3088374 ACAATGGGGC
* * ** * * *
3088384 TGGAGTATCCCTGA-TGATAGAAAATCAGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCG
1 TGGAGTATCCCCGATTGTTA-AAAATTGGTGTTTTAAAAATAAAATCGGGGTTGAAGTATCCCCA
* * *
3088448 ATTGTGGAAAATCGATGCTTTAGAAGCAAAGCCGGGGTTGGAGTATCC-CTGCGAAAATAACGGG
65 ATTGTGGAAAATCAATACTTTAGAAACAAAGCCGGGGTTGGAGTATCCTCT-CGAAAATAA-GGG
3088512 G-T
128 GAT
* *
3088514 TGGAGTATCTCCGATTGTTAAAAATTGGTGTTTTAAAAATAAAATTGGGGTTGAAGTATCCCCAA
1 TGGAGTATCCCCGATTGTTAAAAATTGGTGTTTTAAAAATAAAATCGGGGTTGAAGTATCCCCAA
* *
3088579 TTGT-GATAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCTCTTGAAAATAAGGGGA
66 TTGTGGA-AAATCAATACTTTAGAAACAAAGCCGGGGTTGGAGTATCCTCTCGAAAATAAGGGGA
3088643 T
130 T
* * * ** * * *
3088644 TGGAGTATCCCCGATTATGAAAAGTTAATGTCTTAGAAATAAAACCGGGGTTGGAA-TATCCCC
1 TGGAGTATCCCCGATTGTTAAAAATTGGTGTTTTAAAAATAAAATCGGGGTT-GAAGTATCCCC
3088707 GAGATGAAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
129 6 0.04
130 149 0.91
131 9 0.05
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (130 bp):
TGGAGTATCCCCGATTGTTAAAAATTGGTGTTTTAAAAATAAAATCGGGGTTGAAGTATCCCCAA
TTGTGGAAAATCAATACTTTAGAAACAAAGCCGGGGTTGGAGTATCCTCTCGAAAATAAGGGGAT
Found at i:3094247 original size:20 final size:20
Alignment explanation
Indices: 3094222--3094266 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3094212 AATTGCTTGC
* * *
3094222 ATGTATCGATATATTGAAGA
1 ATGTATCGATACAATGAAAA
3094242 ATGTATCGATACAATGAAAA
1 ATGTATCGATACAATGAAAA
3094262 ATGTA
1 ATGTA
3094267 CATTTGCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGAAAA
Found at i:3100390 original size:7 final size:7
Alignment explanation
Indices: 3100374--3100428 Score: 60
Period size: 8 Copynumber: 7.7 Consensus size: 7
3100364 TATTATGTCT
3100374 AAAAACA
1 AAAAACA
*
3100381 AAAAATA
1 AAAAACA
3100388 AAAAAC-
1 AAAAACA
3100394 AAAAAC-
1 AAAAACA
3100400 AAAAACAA
1 AAAAAC-A
3100408 AAAAGACA
1 AAAA-ACA
3100416 AAAAACGA
1 AAAAAC-A
3100424 AAAAA
1 AAAAA
3100429 AAGTGTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
6 12 0.29
7 13 0.31
8 15 0.36
9 2 0.05
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.02
Consensus pattern (7 bp):
AAAAACA
Found at i:3100399 original size:20 final size:21
Alignment explanation
Indices: 3100375--3100419 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
3100365 ATTATGTCTA
3100375 AAAACAAAAA-ATAAAAA-ACA
1 AAAACAAAAACA-AAAAAGACA
3100395 AAAACAAAAACAAAAAAGACA
1 AAAACAAAAACAAAAAAGACA
3100416 AAAA
1 AAAA
3100420 ACGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAACAAAAACAAAAAAGACA
Found at i:3100756 original size:23 final size:23
Alignment explanation
Indices: 3100730--3100776 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
3100720 TAATTACACA
3100730 TTTTATTCATACCGTCGCCATTT
1 TTTTATTCATACCGTCGCCATTT
* *
3100753 TTTTATTCATACCTTCGTCATTT
1 TTTTATTCATACCGTCGCCATTT
3100776 T
1 T
3100777 CATTCGTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.53
Consensus pattern (23 bp):
TTTTATTCATACCGTCGCCATTT
Found at i:3100781 original size:21 final size:20
Alignment explanation
Indices: 3100728--3100786 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 20
3100718 TATAATTACA
3100728 CATTTTATTCATACCGTCGC
1 CATTTTATTCATACCGTCGC
* *
3100748 CATTTTTTTATTCATACCTTCGT
1 CA---TTTTATTCATACCGTCGC
*
3100771 CATTTTCATTCGTACC
1 CATTTT-ATTCATACC
3100787 CTTATCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 6 0.19
21 8 0.25
23 18 0.56
ACGTcount: A:0.19, C:0.27, G:0.07, T:0.47
Consensus pattern (20 bp):
CATTTTATTCATACCGTCGC
Found at i:3101228 original size:76 final size:76
Alignment explanation
Indices: 3101128--3101292 Score: 206
Period size: 76 Copynumber: 2.2 Consensus size: 76
3101118 TAGGAAATTG
* * * * * **
3101128 CATATTCCCCATCATGTTCTTTTCCTTTAGCCCGTTATTAGTTTGTTTTGGCTGA-TGGTGAAAA
1 CATATTCCTCATTAGGTTCCTTTCCTTTAGCCCATTATTAGTTTGTTTTGG-TGATTGACGAAAA
3101192 TTTTAGAAAATA
65 TTTTAGAAAATA
* * *
3101204 CATATTCCTCATTAGGTTCCTTTCCTTTAGCCTATTATTCGTTTGTTTTGGTTATTGACGAAAAT
1 CATATTCCTCATTAGGTTCCTTTCCTTTAGCCCATTATTAGTTTGTTTTGGTGATTGACGAAAAT
*
3101269 TTTAGAAACTA
66 TTTAGAAAATA
*
3101280 TATATTCCTCATT
1 CATATTCCTCATT
3101293 GTGTTCTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
75 2 0.03
76 74 0.97
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (76 bp):
CATATTCCTCATTAGGTTCCTTTCCTTTAGCCCATTATTAGTTTGTTTTGGTGATTGACGAAAAT
TTTAGAAAATA
Found at i:3101955 original size:67 final size:67
Alignment explanation
Indices: 3101865--3102304 Score: 254
Period size: 66 Copynumber: 6.6 Consensus size: 67
3101855 TTAGTTGACA
* * * * *
3101865 TGATGGTTTTGCCTTAGTTAACCTCTTTTCGACTTCGATTTCACCCTGGCCATCTTTAGGTTTGC
1 TGATGGTTTTGCCCTGGTCAACCTCTTTTCGACTTAGATTTCACCCTGGCCATCTTTAGGTTTGA
3101930 TG
66 TG
* * * * * *
3101932 TGATAGTTTTGCCCTGGTCAACCTTTTTTCGACTTAGGTTTCACCTTGGTCATTTTTAGGTTTGA
1 TGATGGTTTTGCCCTGGTCAACCTCTTTTCGACTTAGATTTCACCCTGGCCATCTTTAGGTTTGA
3101997 TG
66 TG
* ** * * *
3101999 TGATGGTTTTGCCCTGGTCAACCTCTTTTCGACCTA-AGTTTTGCCCTAGTCACCTTTTA-G-TT
1 TGATGGTTTTGCCCTGGTCAACCTCTTTTCGACTTAGA-TTTCACCCTGGCCATC-TTTAGGTTT
3102061 GATG
64 GATG
** * * * * * **** * *
3102065 TGATGGTTTTGCTTTGGTTAACCTTTTTTTGACCTAGGTTTCGTATTGGTCACCTTTTA-G-TTG
1 TGATGGTTTTGCCCTGGTCAACCTCTTTTCGACTTAGATTTCACCCTGGCCATC-TTTAGGTTTG
**
3102128 ACA
65 ATG
* * * * * * * *
3102131 TGATGGTTTCGCACTGGTCAATCTCTTTTCGACCTAGATTTTACCTTGGTCACCTTTTA-G-TTG
1 TGATGGTTTTGCCCTGGTCAACCTCTTTTCGACTTAGATTTCACCCTGGCCATC-TTTAGGTTTG
3102194 ATG
65 ATG
** * * * * ** * *
3102197 TGATGGTTTCACCCTGGTTAACCTATTTTCAACCTT-GGTTTCGTCTTAGTCACAT-TTTA-G-T
1 TGATGGTTTTGCCCTGGTCAACCTCTTTTCGA-CTTAGATTTCACCCT-GGC-CATCTTTAGGTT
3102258 TGATG
63 TGATG
* * * *
3102263 TGATGGTTTTGTCCTGGTCAATCTCTTTTCGACCTAGGTTTC
1 TGATGGTTTTGCCCTGGTCAACCTCTTTTCGACTTAGATTTC
3102305 GCCTTGTTCA
Statistics
Matches: 296, Mismatches: 70, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
65 2 0.01
66 185 0.62
67 103 0.35
68 6 0.02
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.44
Consensus pattern (67 bp):
TGATGGTTTTGCCCTGGTCAACCTCTTTTCGACTTAGATTTCACCCTGGCCATCTTTAGGTTTGA
TG
Found at i:3102099 original size:66 final size:66
Alignment explanation
Indices: 3101931--3102726 Score: 581
Period size: 66 Copynumber: 12.2 Consensus size: 66
3101921 TAGGTTTGCT
* * * * ** * * *
3101931 GTGATAGTTTTGCCCTGGTCAACCTTTTTTCGACTTAGGTTTCACCTTGGTCA-TTTTTAGGTTT
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTA-G-TT
*
3101995 GAT
64 GAC
* * *
3101998 GTGATGGTTTTGCCCTGGTCAACCTCTTTTCGACCTAAGTTTTGCCCTAGTCACCTTTTAGTTGA
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
*
3102063 T
66 C
* ** * * * * *** *
3102064 GTGATGGTTTTGCTTTGGTTAACCTTTTTTTGACCTAGGTTTCGTATTGGTCACCTTTTAGTTGA
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
3102129 C
66 C
* * * * * * * *
3102130 ATGATGGTTTCGCACTGGTCAATCTCTTTTCGACCTAGATTTTACCTTGGTCACCTTTTAGTTGA
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
*
3102195 T
66 C
* * * * * * * *
3102196 GTGATGGTTTCACCCTGGTTAACCTATTTTCAACCTTGGTTTCGTCTTAGTCACATTTTAGTTGA
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
*
3102261 T
66 C
* * * * * * *
3102262 GTGATGGTTTTGTCCTGGTCAATCTCTTTTCGACCTAGGTTTCG-CCTTGTTCATCTTTTAGTTG
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAG-TCACCTTTTAGTTG
3102326 AC
65 AC
* * ** * * * ** *
3102328 ATGATGGTTTCACTTTGGTTAACCTATTTTTGACTTAGGTTTTGCCCTCCTCATCTTTTAGTTGA
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
3102393 C
66 C
* * * * *
3102394 ATGATAGTTTCACCTTGGTCAACCTATTTTCGACTTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
3102459 C
66 C
* * ** * * *
3102460 GTGATGGTTTCTCCCTAGTCATTCTCTTTTCAACATAGG-TTT---C-A--C-CCTTTTAGTTGA
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
3102517 C
66 C
* * ** * * * * * *
3102518 GTGATAGTTTCGCCCTAGTCAATTTCTTTTCAACTTAGGTTTTACACTGGTCACCCTTTT-GTTG
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCA-CCTTTTAGTTG
*
3102582 AT
65 AC
* * * **
3102584 GTGATGGTTTCGCCCTGGTTAACTTCTTTTCGA-CTAAGGTTTCACCCTAGTCACCTTTTAGTTG
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCT-AGGTTTTGCCCTAGTCACCTTTTAGTTG
3102648 AC
65 AC
* * * * * ** * * *
3102650 GTGATGGGTTCGCCCTAGTCAACCTTTTTTCTACTTAGGTTTCACCTTAGTCACTTTTTAGTTAA
1 GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
3102715 C
66 C
3102716 GTGATGGTTTC
1 GTGATGGTTTC
3102727 ATCTAGGTTA
Statistics
Matches: 593, Mismatches: 121, Indels: 31
0.80 0.16 0.04
Matches are distributed among these distances:
58 47 0.08
59 4 0.01
61 1 0.00
62 2 0.00
65 14 0.02
66 464 0.78
67 56 0.09
68 5 0.01
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (66 bp):
GTGATGGTTTCGCCCTGGTCAACCTATTTTCGACCTAGGTTTTGCCCTAGTCACCTTTTAGTTGA
C
Found at i:3102149 original size:34 final size:34
Alignment explanation
Indices: 3102047--3102150 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
3102037 TTTTGCCCTA
** * *
3102047 GTCACCTTTTAGTTGATGTGATGGTTTTGCTTTG
1 GTCACCTTTTAGTTGACATGATGGTTTCGCATTG
* * * *
3102081 GTTAACCTTTT-TTTGACCT-A-GGTTTCGTATTG
1 G-TCACCTTTTAGTTGACATGATGGTTTCGCATTG
*
3102113 GTCACCTTTTAGTTGACATGATGGTTTCGCACTG
1 GTCACCTTTTAGTTGACATGATGGTTTCGCATTG
3102147 GTCA
1 GTCA
3102151 ATCTCTTTTC
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
31 8 0.15
32 16 0.30
33 2 0.04
34 20 0.37
35 8 0.15
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.45
Consensus pattern (34 bp):
GTCACCTTTTAGTTGACATGATGGTTTCGCATTG
Found at i:3102183 original size:132 final size:131
Alignment explanation
Indices: 3101833--3102726 Score: 673
Period size: 132 Copynumber: 6.8 Consensus size: 131
3101823 TTCACCCTAG
* * * * * * *
3101833 TAGGTTTCACCCTGGTCAACTTTTAGTTGACATGATGGTTTTGCCTTAGTTAACCTCTTTTCGAC
1 TAGGTTTCGCCTTGGTCACCTTTTAGTTGACGTGATGGTTTCGCC-TGGTCAACCTCTTTTCGAC
* * * * * * * * *
3101898 TTCGATTTCACCCTGGCCATC-TTTAGGTTTGCTGTGATAGTTTTGCCCTGGTCAACCTTTTTTC
65 TTAGGTTTTACCCTGGTCACCTTTTA-G-TTGATGTGATGGTTTCGCCCTGGTTAACCTTTTTTC
*
3101962 GACT
128 GACC
* * * *
3101966 TAGGTTTCACCTTGGTCA-TTTTTAGGTTTGATGTGATGGTTTTGCCCTGGTCAACCTCTTTTCG
1 TAGGTTTCGCCTTGGTCACCTTTTA-G-TTGACGTGATGGTTTCG-CCTGGTCAACCTCTTTTCG
* * * * * ** *
3102030 ACCTAAGTTTTGCCCTAGTCACCTTTTAGTTGATGTGATGGTTTTGCTTTGGTTAACCTTTTTTT
63 ACTTAGGTTTTACCCTGGTCACCTTTTAGTTGATGTGATGGTTTCGCCCTGGTTAACCTTTTTTC
3102095 GACC
128 GACC
** * *
3102099 TAGGTTTCGTATTGGTCACCTTTTAGTTGACATGATGGTTTCGCACTGGTCAATCTCTTTTCGAC
1 TAGGTTTCGCCTTGGTCACCTTTTAGTTGACGTGATGGTTTCGC-CTGGTCAACCTCTTTTCGAC
* * * * * *
3102164 CTAGATTTTACCTTGGTCACCTTTTAGTTGATGTGATGGTTTCACCCTGGTTAACCTATTTTCAA
65 TTAGGTTTTACCCTGGTCACCTTTTAGTTGATGTGATGGTTTCGCCCTGGTTAACCTTTTTTCGA
3102229 CC
130 CC
* * * * * * *
3102231 TTGGTTTCGTCTTAGTCACATTTTAGTTGATGTGATGGTTTTGTCCTGGTCAATCTCTTTTCGAC
1 TAGGTTTCGCCTTGGTCACCTTTTAGTTGACGTGATGGTTTCG-CCTGGTCAACCTCTTTTCGAC
* ** * * * ** * **
3102296 CTAGGTTTCGCCTTGTTCATCTTTTAGTTGACATGATGGTTTCACTTTGGTTAACCTATTTTT-G
65 TTAGGTTTTACCCTGGTCACCTTTTAGTTGATGTGATGGTTTCGCCCTGGTTAACCT-TTTTTCG
*
3102360 ACT
129 ACC
* * ** * * * * *
3102363 TAGGTTTTGCCCTCCTCATCTTTTAGTTGACATGATAGTTTCACCTTGGTCAACCTATTTTCGAC
1 TAGGTTTCGCCTTGGTCACCTTTTAGTTGACGTGATGGTTTCGCC-TGGTCAACCTCTTTTCGAC
* * * * * * ** * *
3102428 TTAGGTTTTGCCCTAGTCACCTTTTAGTTGACGTGATGGTTTCTCCCTAGTCATTCTCTTTTCAA
65 TTAGGTTTTACCCTGGTCACCTTTTAGTTGATGTGATGGTTTCGCCCTGGTTAACCTTTTTTCGA
*
3102493 CA
130 CC
* * * ** *
3102495 TAGGTTT---C----AC-CCTTTTAGTTGACGTGATAGTTTCGCCCTAGTCAATTTCTTTTCAAC
1 TAGGTTTCGCCTTGGTCACCTTTTAGTTGACGTGATGGTTTCG-CCTGGTCAACCTCTTTTCGAC
*
3102552 TTAGGTTTTACACTGGTCACCCTTTT-GTTGATGTGATGGTTTCGCCCTGGTTAA-CTTCTTTTC
65 TTAGGTTTTACCCTGGTCA-CCTTTTAGTTGATGTGATGGTTTCGCCCTGGTTAACCTT-TTTTC
3102615 GA-C
128 GACC
* * * * * * *
3102618 TAAGGTTTCACCCTAGTCACCTTTTAGTTGACGTGATGGGTTCGCCCTAGTCAACCTTTTTTCTA
1 T-AGGTTTCGCCTTGGTCACCTTTTAGTTGACGTGATGGTTTCG-CCTGGTCAACCTCTTTTCGA
* * * * * *
3102683 CTTAGGTTTCACCTTAGTCACTTTTTAGTTAACGTGATGGTTTC
64 CTTAGGTTTTACCCTGGTCACCTTTTAGTTGATGTGATGGTTTC
3102727 ATCTAGGTTA
Statistics
Matches: 611, Mismatches: 127, Indels: 47
0.78 0.16 0.06
Matches are distributed among these distances:
123 3 0.00
124 87 0.14
125 9 0.01
127 1 0.00
129 1 0.00
131 13 0.02
132 369 0.60
133 72 0.12
134 50 0.08
135 6 0.01
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (131 bp):
TAGGTTTCGCCTTGGTCACCTTTTAGTTGACGTGATGGTTTCGCCTGGTCAACCTCTTTTCGACT
TAGGTTTTACCCTGGTCACCTTTTAGTTGATGTGATGGTTTCGCCCTGGTTAACCTTTTTTCGAC
C
Found at i:3102257 original size:198 final size:195
Alignment explanation
Indices: 3101945--3102726 Score: 697
Period size: 198 Copynumber: 4.0 Consensus size: 195
3101935 TAGTTTTGCC
* * * *
3101945 CTGGTCAACCTTTTTTCGACTTAGGTTTCACCTTGGTCA-TTTTTAGGTTTGATGTGATGGTTTT
1 CTGGTCAACCTCTTTTCGACTTAGGTTTTACCTTGGTCACCTTTTA-G-TTGATGTGATGGTTTC
* * * * *
3102009 GCCCTGGTCAACCTCTTTTCGACCTAAGTTTTGCCCTAGTCACCTTTTAGTTGATGTGATGGTTT
64 ACCCTGGTCAACCTATTTTCGA-CTAGGTTTCGCCCTAGTCACCTTTTAGTTGACGTGATGGTTT
* * * * *
3102074 TGCTTTGGTTAACCTTTTTTTGACCTAGGTTTCGTATTGGTCACCTTTTAGTTGACATGATGGTT
128 TGCTCTGGTCAATCTCTTTTCGACCTAGGTTTCG-ATT-GTCACCTTTTAGTTGACATGATGGTT
3102139 TCGCA
191 TCGCA
* * *
3102144 CTGGTCAATCTCTTTTCGACCTAGATTTTACCTTGGTCACCTTTTAGTTGATGTGATGGTTTCAC
1 CTGGTCAACCTCTTTTCGACTTAGGTTTTACCTTGGTCACCTTTTAGTTGATGTGATGGTTTCAC
* * * * * * *
3102209 CCTGGTTAACCTATTTTCAACCTTGGTTTCGTCTTAGTCACATTTTAGTTGATGTGATGGTTTTG
66 CCTGGTCAACCTATTTTCGA-CTAGGTTTCGCCCTAGTCACCTTTTAGTTGACGTGATGGTTTTG
* *
3102274 -TCCTGGTCAATCTCTTTTCGACCTAGGTTTCGCCTTGTTCATCTTTTAGTTGACATGATGGTTT
130 CT-CTGGTCAATCTCTTTTCGACCTAGGTTTCG-ATTG-TCACCTTTTAGTTGACATGATGGTTT
* *
3102338 CACT
192 CGCA
* * * * * * ** * ** *
3102342 TTGGTTAACCTATTTTTGACTTAGGTTTTGCCCTCCTCATCTTTTAGTTGACATGATAGTTTCAC
1 CTGGTCAACCTCTTTTCGACTTAGGTTTTACCTTGGTCACCTTTTAGTTGATGTGATGGTTTCAC
* *
3102407 CTTGGTCAACCTATTTTCGACTTAGGTTTTGCCCTAGTCACCTTTTAGTTGACGTGATGGTTTCT
66 CCTGGTCAACCTATTTTCGAC-TAGGTTTCGCCCTAGTCACCTTTTAGTTGACGTGATGGTTT-T
* * * * * * *
3102472 -CCCTAGTCATTCTCTTTTCAACATAGGTTTC-A----C-CCTTTTAGTTGACGTGATAGTTTCG
129 GCTCTGGTCAATCTCTTTTCGACCTAGGTTTCGATTGTCACCTTTTAGTTGACATGATGGTTTCG
*
3102530 CC
194 CA
* ** *
3102532 CTAGTCAATTTCTTTTCAACTTAGGTTTTACAC-TGGTCACCCTTTT-GTTGATGTGATGGTTTC
1 CTGGTCAACCTCTTTTCGACTTAGGTTTTAC-CTTGGTCA-CCTTTTAGTTGATGTGATGGTTTC
* * * * * *
3102595 GCCCTGGTTAACTTCTTTTCGACTAAGGTTTCACCCTAGTCACCTTTTAGTTGACGTGATGGGTT
64 ACCCTGGTCAACCTATTTTCGACT-AGGTTTCGCCCTAGTCACCTTTTAGTTGACGTGATGGTTT
* * * * * * * * * *
3102660 CGCCCTAGTCAACCTTTTTTCTACTTAGGTTTC-ACCTTAGTCACTTTTTAGTTAACGTGATGGT
128 TGCTCTGGTCAATCTCTTTTCGACCTAGGTTTCGA--TT-GTCACCTTTTAGTTGACATGATGGT
3102724 TTC
190 TTC
3102727 ATCTAGGTTA
Statistics
Matches: 471, Mismatches: 94, Indels: 37
0.78 0.16 0.06
Matches are distributed among these distances:
189 1 0.00
190 144 0.31
191 7 0.01
197 4 0.01
198 274 0.58
199 36 0.08
200 5 0.01
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (195 bp):
CTGGTCAACCTCTTTTCGACTTAGGTTTTACCTTGGTCACCTTTTAGTTGATGTGATGGTTTCAC
CCTGGTCAACCTATTTTCGACTAGGTTTCGCCCTAGTCACCTTTTAGTTGACGTGATGGTTTTGC
TCTGGTCAATCTCTTTTCGACCTAGGTTTCGATTGTCACCTTTTAGTTGACATGATGGTTTCGCA
Found at i:3102537 original size:58 final size:58
Alignment explanation
Indices: 3102447--3102559 Score: 183
Period size: 58 Copynumber: 1.9 Consensus size: 58
3102437 GCCCTAGTCA
* *
3102447 CCTTTTAGTTGACGTGATGGTTTCTCCCTAGTC-ATTCTCTTTTCAACATAGGTTTCAC
1 CCTTTTAGTTGACGTGATAGTTTCGCCCTAGTCAATT-TCTTTTCAACATAGGTTTCAC
*
3102505 CCTTTTAGTTGACGTGATAGTTTCGCCCTAGTCAATTTCTTTTCAACTTAGGTTT
1 CCTTTTAGTTGACGTGATAGTTTCGCCCTAGTCAATTTCTTTTCAACATAGGTTT
3102560 TACACTGGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
58 48 0.94
59 3 0.06
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (58 bp):
CCTTTTAGTTGACGTGATAGTTTCGCCCTAGTCAATTTCTTTTCAACATAGGTTTCAC
Found at i:3102726 original size:34 final size:33
Alignment explanation
Indices: 3102621--3102727 Score: 96
Period size: 34 Copynumber: 3.2 Consensus size: 33
3102611 TTTCGACTAA
*
3102621 GGTTTCACCCTAGTCACCTTTTAGTTGACGTGAT
1 GGTTTCACCCTAGTCACTTTTTAGTT-ACGTGAT
* * *
3102655 GGGTTCGCCCTAGTCAACCTTTTT--TCTAC-TTA-
1 GGTTTCACCCTAGTC-A-CTTTTTAGT-TACGTGAT
*
3102687 GGTTTCACCTTAGTCACTTTTTAGTTAACGTGAT
1 GGTTTCACCCTAGTCACTTTTTAGTT-ACGTGAT
3102721 GGTTTCA
1 GGTTTCA
3102728 TCTAGGTTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
30 6 0.11
31 2 0.04
32 15 0.26
33 4 0.07
34 23 0.40
35 2 0.04
36 5 0.09
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (33 bp):
GGTTTCACCCTAGTCACTTTTTAGTTACGTGAT
Found at i:3104196 original size:15 final size:15
Alignment explanation
Indices: 3104162--3104197 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3104152 AATTTTGAAA
*
3104162 TTTTTATTTTATGTT
1 TTTTTATTTTATATT
*
3104177 ATTTTATTTTATATT
1 TTTTTATTTTATATT
3104192 TTTTTA
1 TTTTTA
3104198 ACCAATTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTTTATTTTATATT
Found at i:3106472 original size:156 final size:154
Alignment explanation
Indices: 3105896--3107325 Score: 1214
Period size: 157 Copynumber: 9.3 Consensus size: 154
3105886 ATTTTCCCAT
* * * * * * * * *
3105896 TCTTTTAGGGTTACTAAGATATTTTCATATCAAAGGTCTACCCATAGGGGTATTTTTATAATTTT
1 TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACCTATA-GGGCATTTTCATAATTTT
* * ** * * * *
3105961 TTTATAACCGAGTTTTAGGTTATCAAC-GAGATGTTTTTATACCAAATGTGGGTATTTAGGATAG
65 TTTAAAATCGAGTCCTAGGTTGTCACCAG-GATGCTTTTATGCCAAA-GT-GGTATTTAGGATAG
*
3106025 GTTCATCCCATTTATGATCCTTGTTAAG
127 GTTCATCCCATTTATGATCCTTTTTAAG
* * * * ** *
3106053 TCCTTTAGGGTTATTGAGATGCTTTCATGTCGAAACTATACTTATAAGGGCATTTTCATAATTTT
1 TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACCTAT-AGGGCATTTTCATAATTTT
* * *
3106118 TTTAAAATCAAGTCCTAGGTTGTCACTA-GAT-TTTTTATGCCAAAAGTGAGTATTTAGGATAGG
65 TTTAAAATCGAGTCCTAGGTTGTCACCAGGATGCTTTTATGCC-AAAGTG-GTATTTAGGATAGG
* * *
3106181 TTTATCTCATTTATGATCCTTTTTAAC
128 TTCATCCCATTTATGATCCTTTTTAAG
* * * * * *
3106208 TATTTTAAGGTTACT-AGATACTTTTATGTCGAAGATGTA-TTATAGGGGCATTTTTATAATTTT
1 TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACCTATA-GGGCATTTTCATAATTTT
* * * *
3106271 TCTGAAATCGAGTCTTAGGTTATCACCAGGATGCTTTTATGCCAAAGCTAGGTATTTAGGATAGG
65 TTTAAAATCGAGTCCTAGGTTGTCACCAGGATGCTTTTATGCCAAAG-T-GGTATTTAGGATAGG
**
3106336 TTCATCTTATTTATGATCCTTTTTAAG
128 TTCATCCCATTTATGATCCTTTTTAAG
** * *
3106363 TCCATTAAGGTTACTAAGATACTTTCATGTCGAAGGTATACCTATTAGGGTATTTTCATAATTTT
1 TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACCTA-TAGGGCATTTTCATAATTTT
* * * * * *
3106428 CTTAAAATCAAGT-TTATGTTGTCACCAGGATGCTTTTATACCAAAGATAAGTATTTAGGATAGG
65 TTTAAAATCGAGTCCTAGGTTGTCACCAGGATGCTTTTATGCCAAAG-T-GGTATTTAGGATAGG
*
3106492 TTCATCCCATTTATGATTCTTTTTAAG
128 TTCATCCCATTTATGATCCTTTTTAAG
* * * * * *
3106519 TCTTTTAGGGTTACGGAGATACTTTCATGTTGAAGTTATACCTAAAGGAGTATTTTCAT-ATTTT
1 TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACCTATAGG-GCATTTTCATAATTTT
*
3106583 TTTAAAAATC-ATGTCCTAGGTTGTCA--ATGAGATGTTTTTATGCCAAATGTGGGTATTTAGGA
65 TTT-AAAATCGA-GTCCTAGGTTGTCACCA-G-GATGCTTTTATGCCAAA-GT-GGTATTTAGGA
* *
3106645 TAGGTTCATCCCATTTATGATACTTTTTTAG
124 TAGGTTCATCCCATTTATGATCCTTTTTAAG
* * * * * * *
3106676 TCTTTTAGGGTTATTGGGATATTTTTATGTCGAAGGTATACTTATAAGGGCATTTTTATAATTTT
1 TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACCTAT-AGGGCATTTTCATAATTTT
* * *
3106741 TTTAGAATCGAGTCCTAGGTTGTCACCGGGATGCTTTTATGCAAAAGGTTGGTATTTAGGATAGG
65 TTTAAAATCGAGTCCTAGGTTGTCACCAGGATGCTTTTATGCCAAA-G-TGGTATTTAGGATAGG
** *
3106806 TTCATCTTATTTATGATCCTGTTTAAG
128 TTCATCCCATTTATGATCCTTTTTAAG
* * * * *
3106833 TCCTTTAAGATTAC-CATGATATTTTCATGTCAAAGGTATACCTATAGGGGCATTTTCATAATTT
1 TCTTTTAAGGTTACTGA-GATACTTTCATGTCGAAGGTATACCTATA-GGGCATTTTCATAATTT
* * * * * * * *
3106897 TATTAGAATTGAGTCCTAAGTTTTCATCAAGATGCTTTTATCCCAAAGATGGATATTTAGGATAG
64 TTTTAAAATCGAGTCCTAGGTTGTCACCAGGATGCTTTTATGCCAAAG-TGG-TATTTAGGATAG
* * *
3106962 GTTCATTCCTTTTAGGATCCTTTTTAAG
127 GTTCATCCCATTTATGATCCTTTTTAAG
*
3106990 TCTTTTAAGGTTAGC-GAGATACTTTCATGTCG-A-G---A-C-AT------TTTT-GTAATTTT
1 TCTTTTAAGGTTA-CTGAGATACTTTCATGTCGAAGGTATACCTATAGGGCATTTTCATAATTTT
* ** * * * **
3107040 TTT-AAATCGAGTCTTAGGTTGTCA-TGGGATG-GTTTATGCCAAATATGGGAATTTAAAATAGG
65 TTTAAAATCGAGTCCTAGGTTGTCACCAGGATGCTTTTATGCCAAA-GT-GGTATTTAGGATAGG
3107102 TTCATCCCATTTATGATCTCTTTTT-AG
128 TTCATCCCATTTATGATC-CTTTTTAAG
* * * * * * * *
3107129 TCTTTTAGGGTTATTGGGATACTTCCATGTTGAAGGTATACCTACAAGGGTACTTTT-GTAATTT
1 TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACCTA-TAGGGCA-TTTTCATAATTT
* * * *
3107193 TTTTAGAATCAAGT-CTAAGGTTGTCACTAGGATGCTTTTATGCCGAATGTGGGTATTTAGGATA
64 TTTTAAAATCGAGTCCT-AGGTTGTCACCAGGATGCTTTTATGCC-AAAGT-GGTATTTAGGATA
* * **
3107257 GTTTCATCCCATATATGATATTTTTTAAG
126 GGTTCATCCCATTTATGATCCTTTTTAAG
* * * * *
3107286 TTTTTTAGGGTTACTGAGATACTTTTATGCCAAAGGTATA
1 TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATA
3107326 TCCAAAACAT
Statistics
Matches: 1035, Mismatches: 184, Indels: 108
0.78 0.14 0.08
Matches are distributed among these distances:
139 64 0.06
140 13 0.01
141 17 0.02
142 9 0.01
143 4 0.00
144 1 0.00
145 1 0.00
146 1 0.00
150 2 0.00
151 1 0.00
152 2 0.00
153 43 0.04
154 43 0.04
155 148 0.14
156 171 0.17
157 493 0.48
158 22 0.02
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (154 bp):
TCTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACCTATAGGGCATTTTCATAATTTTT
TTAAAATCGAGTCCTAGGTTGTCACCAGGATGCTTTTATGCCAAAGTGGTATTTAGGATAGGTTC
ATCCCATTTATGATCCTTTTTAAG
Found at i:3107268 original size:610 final size:616
Alignment explanation
Indices: 3105976--3107325 Score: 1593
Period size: 610 Copynumber: 2.2 Consensus size: 616
3105966 AACCGAGTTT
* * *
3105976 TAGGTTATCAACGAGATGTTTTTATACCAAATGTGGGTATTTAGGATAGGTTCATCCCATTTATG
1 TAGGTTGTCAATGAGATGTTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCCATTTATG
* * * * * * **
3106041 ATCCTTGTTAAGTCCTTTAGGGTTATTGAGATGCTTTCATGTCGAAACTATACTTATAAGGGCAT
66 ATACTTTTTTAGTCTTTTAGGGTTATTGAGATACTTTTATGTCGAAGGTATACTTATAAGGGCAT
* *
3106106 TTTCATAATTTTTTTAAAATCAAGTCCTAGGTTGTCACTAGATTTTTTATGCCAAAAGTGAGTAT
131 TTTCATAATTTTTTTAAAATCAAGTCCTAGGTTGTCACGAGATCTTTTATGCCAAAAGTGAGTAT
* * * * *
3106171 TTAGGATAGGTTTATCTCATTTATGATCCTTTTTAACTATTTTAAGGTTACTAGATACTTTTATG
196 TTAGGATAGGTTCATCTCATTTATGATCCTGTTTAACTACTTTAAGATTACCAGATACTTTTATG
* * * * * * *
3106236 TCGAAGATGTATTATAGGGGCATTTTTATAATTTTTCTGAAATCGAGTCTTAGGTTATCACCAGG
261 TCAAAGATATACTATAGGGGCATTTTCATAATTTTTCTGAAATCGAGTCCTAAGTTATCACCAAG
* * * *
3106301 ATGCTTTTATGCCAAAGCTAGGTATTTAGGATAGGTTCATCTTATTTATGATCCTTTTTAAGTCC
326 ATGCTTTTATCCCAAAGATAGGTATTTAGGATAGGTTCATCCTATTTAGGATCCTTTTTAAGTCC
3106366 ATTAAGGTTACTAAGATACTTTCATGTCGAAGGTATACCTATTAGGGTATTTTCATAATTTTCTT
391 ATTAAGGTTACTAAGATACTTTCATGTCGAAGG--TACC---TA--GTATTTTCATAATTTTCTT
* * * **
3106431 AAAATCAAGTTTATGTTGTCACCAGGATGCTTTTATACCAAAGATAAGTATTTAGGATAGGTTCA
449 AAAATCAAGTTTAGGTTGTCACCAGGATGCGTTTATACCAAAGATAAGAATTTAAAATAGGTTCA
* *
3106496 TCCCATTTATGATTCTTTTTAAGTCTTTTAGGGTTACGGAGATACTTTCATGTTGAAGTTATACC
514 TCCCATTTATGATTCTTTTTAAGTCTTTTAGGGTTACGGAGATACTTCCATGTTGAAGGTATACC
*
3106561 TAAAGGAGTATTTTCATATTTTTTTAAAAATCATGTCC
579 TAAAGGAGTATTTTCATATTTTTTTAAAAATCAAGTCC
3106599 TAGGTTGTCAATGAGATGTTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCCATTTATG
1 TAGGTTGTCAATGAGATGTTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCCATTTATG
* *
3106664 ATACTTTTTTAGTCTTTTAGGGTTATTGGGATATTTTTATGTCGAAGGTATACTTATAAGGGCAT
66 ATACTTTTTTAGTCTTTTAGGGTTATTGAGATACTTTTATGTCGAAGGTATACTTATAAGGGCAT
* * * *
3106729 TTTTATAATTTTTTTAGAATCGAGTCCTAGGTTGTCACCGGGATGCTTTTATG-CAAAAGGTTG-
131 TTTCATAATTTTTTTAAAATCAAGTCCTAGGTTGTCA-CGAGAT-CTTTTATGCCAAAA-G-TGA
* * *
3106792 GTATTTAGGATAGGTTCATCTTATTTATGATCCTGTTTAAGTCCTTTAAGATTACCATGATA-TT
192 GTATTTAGGATAGGTTCATCTCATTTATGATCCTGTTTAACTACTTTAAGATTACCA-GATACTT
* *
3106856 TTCATGTCAAAGGTATACCTATAGGGGCATTTTCATAATTTTAT-T-AGAATTGAGTCCTAAGTT
256 TT-ATGTCAAAGATATA-CTATAGGGGCATTTTCATAATTTT-TCTGA-AATCGAGTCCTAAGTT
* *
3106919 TTCATCAAGATGCTTTTATCCCAAAGAT-GGATATTTAGGATAGGTTCATTCCT-TTTAGGATCC
317 ATCACCAAGATGCTTTTATCCCAAAGATAGG-TATTTAGGATAGGTTCA-TCCTATTTAGGATCC
** * *
3106982 TTTTTAAGTCTTTTAAGGTTAGC-GAGATACTTTCATGTCG-A-G-A-C-A-T-TTTT-GTAATT
380 TTTTTAAGTCCATTAAGGTTA-CTAAGATACTTTCATGTCGAAGGTACCTAGTATTTTCATAATT
* * ** * * **
3107038 TT-TTTAAATCGAGTCTTAGGTTGTCA-TGGGATG-GTTTATGCCAAATATGGGAATTTAAAATA
444 TTCTTAAAATCAAGT-TTAGGTTGTCACCAGGATGCGTTTATACCAAAGATAAGAATTTAAAATA
*
3107100 GGTTCATCCCATTTATGATCTCTTTTT-AGTCTTTTAGGGTTATTGG-GATACTTCCATGTTGAA
508 GGTTCATCCCATTTATGAT-TCTTTTTAAGTCTTTTAGGGTTA-CGGAGATACTTCCATGTTGAA
* *
3107163 GGTATACCTACAAGG-GTACTTTT-GTAATTTTTTT-AGAATCAAGT-C
571 GGTATACCTA-AAGGAGTA-TTTTCAT-ATTTTTTTAAAAATCAAGTCC
* * * * *
3107208 TAAGGTTGTCACT-AGGATGCTTTTATGCCGAATGTGGGTATTTAGGATAGTTTCATCCCATATA
1 T-AGGTTGTCAATGA-GATGTTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCCATTTA
* * * *
3107272 TGATA-TTTTTTAAGTTTTTTAGGGTTACTGAGATACTTTTATGCCAAAGGTATA
64 TGATACTTTTTT-AGTCTTTTAGGGTTATTGAGATACTTTTATGTCGAAGGTATA
3107326 TCCAAAACAT
Statistics
Matches: 630, Mismatches: 76, Indels: 55
0.83 0.10 0.07
Matches are distributed among these distances:
609 9 0.01
610 188 0.30
611 40 0.06
612 17 0.03
613 4 0.01
614 1 0.00
617 1 0.00
621 1 0.00
622 1 0.00
623 151 0.24
624 9 0.01
625 62 0.10
626 21 0.03
627 120 0.19
628 5 0.01
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (616 bp):
TAGGTTGTCAATGAGATGTTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCCATTTATG
ATACTTTTTTAGTCTTTTAGGGTTATTGAGATACTTTTATGTCGAAGGTATACTTATAAGGGCAT
TTTCATAATTTTTTTAAAATCAAGTCCTAGGTTGTCACGAGATCTTTTATGCCAAAAGTGAGTAT
TTAGGATAGGTTCATCTCATTTATGATCCTGTTTAACTACTTTAAGATTACCAGATACTTTTATG
TCAAAGATATACTATAGGGGCATTTTCATAATTTTTCTGAAATCGAGTCCTAAGTTATCACCAAG
ATGCTTTTATCCCAAAGATAGGTATTTAGGATAGGTTCATCCTATTTAGGATCCTTTTTAAGTCC
ATTAAGGTTACTAAGATACTTTCATGTCGAAGGTACCTAGTATTTTCATAATTTTCTTAAAATCA
AGTTTAGGTTGTCACCAGGATGCGTTTATACCAAAGATAAGAATTTAAAATAGGTTCATCCCATT
TATGATTCTTTTTAAGTCTTTTAGGGTTACGGAGATACTTCCATGTTGAAGGTATACCTAAAGGA
GTATTTTCATATTTTTTTAAAAATCAAGTCC
Found at i:3113611 original size:144 final size:144
Alignment explanation
Indices: 3113354--3113617 Score: 320
Period size: 144 Copynumber: 1.8 Consensus size: 144
3113344 TCAAATCATG
* *
3113354 AAAAGATTGGAGATTATTACGAGAATCCATATTTGTTATATTTAAGGGATGAACTTTGATTCTAA
1 AAAAGATTGGAGATTATTACGAGAATCCAAATTTGTTATATTGAAGGGATGAACTTTGATTCTAA
* * * * *
3113419 GGAAAATTGGGAAAGACAAGCCTTTTTGGTGAAACTAAAGTTTCAATATCATGTAGAATGTTTTT
66 GGAAAATTAGGAAAGAAAAGCCTTTTTGGTGAAACAAAACTCTCAATATCATGTAGAATGTTTTT
3113484 TGGTGCCCAATCTA
131 TGGTGCCCAATCTA
* * * * * *
3113498 AAAAGATTGGCGATTATTATGAGAATCTAAATTT-TTCTTATTGAA-TGATGAACTTTGATTTTA
1 AAAAGATTGGAGATTATTACGAGAATCCAAATTTGTT-ATATTGAAGGGATGAACTTTGATTCTA
* * *
3113561 AGGAATATGTAGGAAAGAAAAG-TTTTTCTTGTGAAACCAAAACTCT-AATATCATGTA
65 AGGAAAAT-TAGGAAAGAAAAGCCTTTT-TGGTGAAA-CAAAACTCTCAATATCATGTA
3113618 TCCTAATAAG
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
143 29 0.29
144 65 0.65
145 6 0.06
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (144 bp):
AAAAGATTGGAGATTATTACGAGAATCCAAATTTGTTATATTGAAGGGATGAACTTTGATTCTAA
GGAAAATTAGGAAAGAAAAGCCTTTTTGGTGAAACAAAACTCTCAATATCATGTAGAATGTTTTT
TGGTGCCCAATCTA
Found at i:3114511 original size:34 final size:35
Alignment explanation
Indices: 3114473--3114539 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3114463 CCTTACAACA
3114473 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
3114507 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
3114540 AATCACTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:3115293 original size:21 final size:21
Alignment explanation
Indices: 3115253--3115293 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3115243 GTCAACCTTG
*
3115253 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
3115274 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
3115294 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:3117814 original size:23 final size:23
Alignment explanation
Indices: 3117783--3117826 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3117773 ATGGCAATTA
* *
3117783 GATATCGTGTTTGTGGTGCCCTC
1 GATAACGTGTTTATGGTGCCCTC
3117806 GATAACGTGTTTATGGTGCCC
1 GATAACGTGTTTATGGTGCCC
3117827 AATCACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (23 bp):
GATAACGTGTTTATGGTGCCCTC
Found at i:3120062 original size:157 final size:158
Alignment explanation
Indices: 3117847--3121693 Score: 1577
Period size: 158 Copynumber: 24.4 Consensus size: 158
3117837 GGACTGAAGC
* * * * * *
3117847 AAAATGGTAGAAAGAAAATCTTTTTTTGAGAAATCAAAGTTTCAATATCATGTATCACAATGAGG
1 AAAATGGTAGAAAGAAAAGCTTTTCTTG-TAAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * * *
3117912 AAAAC---TTTTTGACATTGCCCAATCATGAAAAGAATGGAGTTTGTTACGAGAA-TCTATATTT
65 AGAACGTGTTTTTG---TTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTC-ATGTTT
** * * * *
3117973 GTCTCATTTTGGGGATGAACTTAGATTTTAAACG
126 GTCTCATTTAAGGGATAAACTTTGATTCT-AAGG
* * ** * *
3118007 -AAATGGTGGAAA-AAATGCTTTTCTCT-TGAAACCAAAG-TGTCCTTATCATGTATCCTAATAA
1 AAAATGGTAGAAAGAAAAGCTTTTCT-TGT-AAACCAAAGCT-TCAATATCATGTATCCCAATGA
* * * ** * *
3118068 GGAGAATGTGTTTTTGTTTCCCAATCAAT-AAAAAAAGGGAGATT-GTAATGACAA-TCTATGTT
63 GGAGAACGTGTTTTTGTTGCCCAATC-ATGAAAAGATTGGAGATTATTAA-GAGAATTC-ATGTT
* ** * **
3118130 TGTCTTATTTTTGCGACGAACTTTGATT-TAAGG
125 TGTCTCATTTAAGGGATAAACTTTGATTCTAAGG
* * *** ** * *
3118163 AGAATGGTAGAAAGAAAAGCCTTTT-ATGTGAAACTGGAGCTTCAATATCATGTATTGCAGTAAG
1 AAAATGGTAGAAAGAAAAG-CTTTTCTTGT-AAACCAAAGCTTCAATATCATGTATCCCAATGAG
* * ** * ** ** * *
3118227 AAGAATG-GTTTTTGTTGCGTAGTCACCAAAAGAAAGGAGATT-GTAATGAGAA-TCTATGTTGG
64 GAGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAA-GAGAATTC-ATGTTTG
* * * *
3118289 TCTCATTTGAGGTATGAAA-TTTTATTCTATGG
127 TCTCATTTAAGGGAT-AAACTTTGATTCTAAGG
* * * *
3118321 AAAATGGTGGAAAGAAAAGCTTTTCTTGTGAAACCAAAACTTCAATATCATGTATCCAAAT-ATA
1 AAAATGGTAGAAAGAAAAGCTTTTCTTGT-AAACCAAAGCTTCAATATCATGTATCCCAATGA-G
* * * * * * * * * * ** * *
3118385 CATAACATGCTTGTGGTGCCTAATCATGAAAAGAATGGAAATTTTTACCAGAATCCAAGTTTGTC
64 GAGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGTC
***** * *
3118450 -CTATTTGTCTAACAAACTTTGATTCTAGGG
129 TC-ATTTAAGGGATAAACTTTGATTCTAAGG
* * * * * * * *** * *
3118480 TAAATGGTGGAAAGAAGAGTTTTTCTTGCCAAACCAAAACAT-AATATCATGTATCTTTATCAGA
1 AAAATGGTAGAAAGAAAAGCTTTTCTTG-TAAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * * * * * * * * **
3118544 AG-ATGT-TTTTTGATGCGCATTTAAGAAAAAATTAGAGATTATTATGAAAATCCATGTTTCCCT
65 AGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGTCT
* * *
3118607 CATTTAAGGGACAAACTTTGATTGTAAGT
130 CATTTAAGGGATAAACTTTGATTCTAAGG
* * ** *
3118636 AAAATGGTGGAAAGAAAAGCTTTTTTTAAG-AAACCAAAGCTTCAATATCATGTATAACTA-GAG
1 AAAATGGTAGAAAGAAAAGCTTTTCTT--GTAAACCAAAGCTTCAATATCATGTATCCCAATGAG
* ** * * * * * * * *
3118699 GA-AAAGT-TATTTACATAGCCTAATTATGAAAAGAATGGAGATTATTACGAAAATCCATATTTG
64 GAGAACGTGT-TTT-TGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTG
** * ** * *
3118762 TCTCATTTGTGGTACGAA-TTTAGATTTTAAGC
127 TCTCATTTAAGGGATAAACTTT-GATTCTAAGG
* * *
3118794 AAAATGGTGGAAAGAAAAGATTTTCTCT-TGAAACCAAA-ATCTCAATATCATGTATCCCAATGA
1 AAAATGGTAGAAAGAAAAGCTTTTCT-TGT-AAACCAAAGCT-TCAATATCATGTATCCCAATGA
* * * * ** * * **
3118857 AGAGAATGTGTTTTTGATGCCCAATCATTAAGAA-AAAGTAGATT-GTAAGGAGAATTTGTGTTT
63 GGAGAACGTGTTTTTGTTGCCCAATCATGAA-AAGATTGGAGATTATTAA-GAGAATTCATGTTT
* * ** * *
3118920 GCCTCATTTTAGTAATGAACTTTGATT-TAAAG
126 GTCTCATTTAAGGGATAAACTTTGATTCTAAGG
* * ** ** *
3118952 AGAATGGTAGGAAA-AAAAACTTTTCTTGTAAAAACTGAAGCTTCAATATCATGTATGGCAATAA
1 AAAATGGTA-GAAAGAAAAGCTTTTCTTGT--AAACCAAAGCTTCAATATCATGTATCCCAATGA
* * * ** * * * * * * *
3119016 AGAGATTA-G-GTTTTTGTTACCCAGTCACCAAAAAAATGAAGATCA-TAATAAGAA-CCACGTT
63 GGAGA--ACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAA-GAGAATTCATGTT
* * * * *
3119077 TGTCTTATTTGAGGGATGAACTTTGATTCTATGC
125 TGTCTCATTTAAGGGATAAACTTTGATTCTAAGG
* * * * * * * * *
3119111 AAAATGGTAGAACA-AAAAGCTCTTCTTGCAAAACCAAATCATCATTATCGTGTTTCCTAATTA-
1 AAAATGGTAGAA-AGAAAAGCTTTTCTTG-TAAACCAAAGCTTCAATATCATGTATCCCAATGAG
* * * * * * * * * *
3119174 GA-AAAGTGTGTTTAGGTGCCTAATCTTGAAAAGAATAGAAATTACT-AGTAGAA-TCCTAGTTT
64 GAGAACGTGT-TTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAG-AGAATTCAT-GTTT
* * * *
3119236 GTCTCACCTAAAGGCAT-AACTTTGATTCTATGG
126 GTCTCA-TTTAAGGGATAAACTTTGATTCTAAGG
* ** * ** ** * *
3119269 AGAATAAT-GAAAG--AA-TTTTTCTCACT-AATGAAAGCATT-GATATCATGT-GCCCAAATGA
1 AAAATGGTAGAAAGAAAAGCTTTTCT-TGTAAACCAAAGC-TTCAATATCATGTATCCC-AATGA
* * * * * ** * * * *
3119327 GGAGAACATGTTTTTGCTACCTAATGACAAAAAGAATGGAAATTATTACA-ACAATCCATGTTTG
63 GGAGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTA-AGAGAATTCATGTTTG
* * * *
3119391 TTTCATTTAGGGGATGATCTTTGATTCTAAGG
127 TCTCATTTAAGGGATAAACTTTGATTCTAAGG
* * * *
3119423 AAAATGGTGGAAA-ATAAAGCTCTTCTATG-ACACCAAAGCTTCAATATCATGTATCCCAATAAG
1 AAAATGGTAGAAAGA-AAAGCTTTTCT-TGTAAACCAAAGCTTCAATATCATGTATCCCAATGAG
* * * * * * * * *
3119486 AAGAACTTGTTTTTTTTTGCCCAATCACGAAAAAAAAATAGAGATTATTATGCA-AATCCATGTT
64 GAGAACGTG-TTTTTGTTGCCCAATCATG--AAAAGATTGGAGATTATTAAG-AGAATTCATGTT
* **
3119550 TGTCTCATTTGAA-GGATGAACTTCAATTCTAAGG
125 TGTCTCATTT-AAGGGATAAACTTTGATTCTAAGG
* * * *** * *
3119584 AAAATAGTGGAAAGAAGAGCTTTTCTTGTGTGGCCAAAGCCTCAATATCATGTATCCCAATGAGA
1 AAAATGGTAGAAAGAAAAGCTTTTCTTGT-AAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * * * * * * * *
3119649 AAAATGTGTTTTTGTTACCCAATCATGAAAAAATTAGAGATTATGATGAGAATCCTTATTTATCT
65 AGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGTCT
* * ** *
3119714 AATTTGAGGGACGAACTTTGATTCTAA-A
130 CATTTAAGGGATAAACTTTGATTCTAAGG
* * * * * * *
3119742 AAAAAGGTAGAAAGACAAGCTTTTCTTGTGAAACTAAAGTTTCAATATCATGTATCCTAGTGAGA
1 AAAATGGTAGAAAGAAAAGCTTTTCTTGT-AAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * * ** * * *
3119807 AGAA--TG-----G-TACCCTATCA-CAAAA-AATAGAGATTATTACCAAAATCCACGTTTGTCT
65 AGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGTCT
* * * ** * * *
3119862 TATTTGAGTGACGAATTTTGATTC-CACG
130 CATTTAAGGGATAAACTTTGATTCTAAGG
*
3119890 AAAAGTGGTAGAAAGAAAAGCTTTT-TGTGCTAAACCAAAGCAT-AATATCATGTA-CCCAATGA
1 AAAA-TGGTAGAAAGAAAAGCTTTTCT-TG-TAAACCAAAGCTTCAATATCATGTATCCCAATGA
* * *
3119952 GGAGAACGTGTTTTTGTTGGCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATATATGT
63 GGAGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGT
*
3120017 CTCATTTAAGGGATAATCTTTGATTCTAAGG
128 CTCATTTAAGGGATAAACTTTGATTCTAAGG
3120048 AAAATGGTAGAAAGAAAAGCTTTTCTTGTGAAACCAAAGCTTCAATATCATGTATCCCAATGAGG
1 AAAATGGTAGAAAGAAAAGCTTTTCTTGT-AAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * * ** * *
3120113 AAAACTTGTTATT-TTGCTCAATCATGAAATGATAAGAGATTATTAGGAGAACTCATGTTT-TCT
65 AGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGTCT
* * *
3120176 CATTTAAGGGATGAACTTTAATTCTAAAG
130 CATTTAAGGGATAAACTTTGATTCTAAGG
* * * *
3120205 AAAATGGTGGAAAGAAAAGCTTTTCTTATGT-AGCCAAAGCTTCAATATCATGTATCCTAATAAG
1 AAAATGGTAGAAAGAAAAGCTTTTC-T-TGTAAACCAAAGCTTCAATATCATGTATCCCAATGAG
* ** * * * * * *
3120269 GAGAATGTGTTTTCATTACCCAAT-TTGAAAAGATTGAAGATTATTACGAGAATCCATGTTTATC
64 GAGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGTC
* * *
3120333 TCATTTAAAGGATGAACTTTAATTCTAAGG
129 TCATTTAAGGGATAAACTTTGATTCTAAGG
* * * *
3120363 AAAATGGTAGAAA-AACAGTTTTTCTTGTGAAACCAAAGCTTTAATATTATGTATCCCAATGAGG
1 AAAATGGTAGAAAGAAAAGCTTTTCTTGT-AAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * * ** * * * * *
3120427 AGAATGAGTTTGTGGTACCCTGTCA-AAAAAGAATAGAGATTATTATTACCAGAA-TCCTGTTTG
65 AGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTA--A-GAGAATTCATGTTTG
** * * * *
3120490 TCTTGTTTGAGTGATAAACTTTGATTCCAAAG
127 TCTCATTTAAGGGATAAACTTTGATTCTAAGG
* * * * * *
3120522 AAAATGGT-GAAA-ACAAGCTTTTCTTGCTAAATCAAAG---C----TCATGTAACCTAATAAAG
1 AAAATGGTAGAAAGAAAAGCTTTTCTTG-TAAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * *
3120578 AGAACCTGTTTTTGTTGCCTAATCAGGAAAAGATTGGAGATTATTACA-AAAATTTATGTTTGTC
65 AGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTA-AGAGAATTCATGTTTGTC
* * * *
3120642 TCATTTGAGAGATAAACTTTGATTGTAAGT
129 TCATTTAAGGGATAAACTTTGATTCTAAGG
* * * * * *
3120672 AAAATGGGAGAAAGAAATGCTTTTTCTAAG-AAGCCAAAGCTTCAACAT-AGTGTATCACAATGA
1 AAAATGGTAGAAAGAAAAGC-TTTTCT-TGTAAACCAAAGCTTCAATATCA-TGTATCCCAATGA
** ** * * ** * * ** *
3120735 GGAGAA--TGCTTTTACATTGCCCAATCATTTATAGAATAAAAATTGTTACTAGAATCCATGTTT
63 GGAGAACGTG-TTTT-TGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTT
* **
3120798 GTCTCATTT-AGGAAGA-AAACTTAGATT-TTCGTG
126 GTCTCATTTAAGG--GATAAACTTTGATTCTAAG-G
* * * ** ** *
3120831 -AAATGGT-GGATGAAATGCTTTTCTCTCAAAACCAAAG-TGTCAATATGGTGTATCCCAATGAC
1 AAAATGGTAGAAAGAAAAGCTTTTCT-TGTAAACCAAAGCT-TCAATATCATGTATCCCAATGAG
* * * * ** * * **
3120893 GAGAATGCGTTTTTGTTGCCCCATCAAT-AAAAAAAAGGGGAATT-GTAACGAGAATTTGTGTTT
64 GAGAACGTGTTTTTGTTGCCCAATC-ATGAAAAGATTGGAG-ATTATTAA-GAGAATTCATG-TT
* * * *
3120956 TGTCTTATTTTAGGGATGATCTTTGATTCTAAGG
125 TGTCTCATTTAAGGGATAAACTTTGATTCTAAGG
* * * * * *
3120990 TAAATGGGAGAAAGAAAAGCTTTTCTTGTGAAACCAAAGCTTTAGTATCTTGTATCCTAATG-GG
1 AAAATGGTAGAAAGAAAAGCTTTTCTTGT-AAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * *
3121054 AAGAACTTGTTTTTGTTGCCCAATCATCAAAAGATTGGAGATTATTATGAGAATCCATGTTTCTC
65 -AGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGTC
* **
3121119 TAATTTAAGGGATAAACTTCAATTCTAAGG
129 TCATTTAAGGGATAAACTTTGATTCTAAGG
***
3121149 AAAATGGT-GAAAAGAAAAGCTTTTCTAGTGT-AGTGAAAGCTTCAATATCATGTATCCCAATGA
1 AAAATGGTAG-AAAGAAAAGCTTTTCT--TGTAAACCAAAGCTTCAATATCATGTATCCCAATGA
* * * * * *
3121212 GAAAAATGTGTTTTTGTTGCCTAATCTTG-AAAGATTGGAGATTATTACA-AGAA-TCAATGCTT
63 GGAGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTA-AGAGAATTC-ATGTTT
* * *
3121274 GTCTCATTTGAGGGACAAACTTTGAGTCTAAGG
126 GTCTCATTTAAGGGATAAACTTTGATTCTAAGG
* * * *
3121307 AATATGGT-GAAAAGAAAAGCTTTTCTTGTGAAAACAAAGCTTCAATATTATGTATCTCAATGAG
1 AAAATGGTAG-AAAGAAAAGCTTTTCTTGT-AAACCAAAGCTTCAATATCATGTATCCCAATGAG
* * * * * * * * * * *
3121371 GAGAATGAGTTTATGGTACCCTATTAAGAAAAGAATAGAGATTATTACCA-AG-A-TCCTAGTTT
64 GAGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTA--AGAGAATTCAT-GTTT
* * * ** * * * * *
3121433 ATCTTATTTGAGTAACAAAATTTAATTCCAATG
126 GTCTCATTTAAGGGATAAACTTTGATTCTAAGG
** * ** * ** * *
3121466 AAAATACTAAAAAGAAAAGCTTTTCTTGCTAAACTGAAGCAT-AATATTGTGTATCCTAATAAGG
1 AAAATGGTAGAAAGAAAAGCTTTTCTTG-TAAACCAAAGCTTCAATATCATGTATCCCAATGAGG
* * * * * * * * *
3121530 ACAATGTGTTTCTCTCGCCCAATCATGAAAAGATTGAAAATCT-TTACA-AGAA-TCTTTGTTTA
65 AGAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGAT-TATTA-AGAGAATTC-ATGTTTG
* * * * * *
3121592 TTTTATTTAAGGAACAAACTTTGATTGTAAGT
127 TCTCATTTAAGGGATAAACTTTGATTCTAAGG
* * * * * * *
3121624 AAAATTGTGGAAA-AAGAAGCTTTTTTTGAGAAACCAACGCTTCAATATCGTGTATCACAATGAG
1 AAAATGGTAGAAAGAA-AAGCTTTTCTTG-TAAACCAAAGCTTCAATATCATGTATCCCAATGAG
*
3121688 TAGAAC
64 GAGAAC
3121694 ATTTTGACAT
Statistics
Matches: 2768, Mismatches: 742, Indels: 355
0.72 0.19 0.09
Matches are distributed among these distances:
147 12 0.00
148 61 0.02
149 38 0.01
150 49 0.02
151 35 0.01
152 30 0.01
153 29 0.01
154 69 0.02
155 25 0.01
156 124 0.04
157 469 0.17
158 897 0.32
159 664 0.24
160 57 0.02
161 170 0.06
162 39 0.01
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (158 bp):
AAAATGGTAGAAAGAAAAGCTTTTCTTGTAAACCAAAGCTTCAATATCATGTATCCCAATGAGGA
GAACGTGTTTTTGTTGCCCAATCATGAAAAGATTGGAGATTATTAAGAGAATTCATGTTTGTCTC
ATTTAAGGGATAAACTTTGATTCTAAGG
Found at i:3120854 original size:624 final size:616
Alignment explanation
Indices: 3119409--3120762 Score: 1404
Period size: 624 Copynumber: 2.2 Consensus size: 616
3119399 AGGGGATGAT
* * * *
3119409 CTTTGATTCTAAGGAAAATGGTG-GAAA-ATAAAGCTCTTC-TATGACACCAAAGCTTCAATATC
1 CTTTGATTCTAAGGAAAATGG-GAGAAAGA-AAAGCTTTTCTTAAGAAACCAAAGCTTCAACATC
* * *** * ** * *
3119471 ATGTATCCCAAT-AAGAAGAACTTGTTTTTTTTTGCCCAATCACGAAAAAAAAATAGAGATTATT
64 ATGTATCACAATGAGGAA-AACTTG--TTACATTGCCCAATCATG-AAATGATA-AGAAATTATT
* * * * *
3119535 ATGCA-AA-TCCATGTTTGTCTCATTTGAA-GGATGAACTTCAATTCTAAGGAAAATAGTGGAAA
124 ACG-AGAACT-CATGTTT-TCTCATTT-AAGGGATAAACTTTAATTCTAAAGAAAATGGTGGAAA
* * * * *
3119597 GAAGAGCTTTTCTTGTGTGGCCAAAGCCTCAATATCATGTATCCCAATGAGAAAAATGTGTTTTT
185 GAAAAGCTTTTCTTATGTAGCCAAAGCCTCAATATCATGTATCCCAATAAGAAAAATGTGTTTTC
* * * * *
3119662 GTTACCCAATCATGAAAAAATTAGAGATTATGATGAGAATCCTTATTTATCTAATTTGAGGGACG
250 ATTACCCAATCATGAAAAAATTAGAGATTATGACGAGAATCCATATTTATCTAATTTAAAGGACG
* * *
3119727 AACTTTGATTCTAAAAAAAAGGTAGAAAGACAAGCTTTTCTTGTGAAACTAAAGTTTCAATATCA
315 AACTTTAATTCTAAAAAAAAGGTAGAAAAACAAGCTTTTCTTGTGAAACCAAAGTTTCAATATCA
*
3119792 TGTATCCTAGTGAGAAGAATGGTACCCTATCACAAAAAATAGAGATTATTACCAAAATCCACGTT
380 TGTATCCTAGTGAGAAGAATGGTACCCTATCAAAAAAAATAGAGATTATTACCAAAATCCACGTT
* * *
3119857 TGTCTTATTTGAGTGACGAATTTTGATTCCACGAAAAGTGGTAGAAAGAAAAGCTTTTTGTGCTA
445 TGTCTTATTTGAGTGACAAACTTTGATTCCAAGAAAAGTGGTAGAAAGAAAAGCTTTTTGTGCTA
* * * *
3119922 AACCAAAGCATAATATCATGTACCCAATGAGGAGAACGTGTTTTTGTTGGCCAATCATGAAAAGA
510 AACCAAAGC-----ATCATGTACCCAATAAAGAGAACCTGTTTTTGTTGGCCAATCAGGAAAAGA
* * *
3119987 TTGGAGATTATTAAGAGAATTCATATATGTCTCATTTAAGGGATAAT
570 TTGGAGATTATTAAGAAAATTCATATATGTCTCATTTAAGAGATAAA
* ** *
3120034 CTTTGATTCTAAGGAAAATGGTAGAAAGAAAAGCTTTTCTTGTGAAACCAAAGCTTCAATATCAT
1 CTTTGATTCTAAGGAAAATGGGAGAAAGAAAAGCTTTTCTTAAGAAACCAAAGCTTCAACATCAT
* ** * * *
3120099 GTATCCCAATGAGGAAAACTTGTTATTTTGCTCAATCATGAAATGATAAGAGATTATTAGGAGAA
66 GTATCACAATGAGGAAAACTTGTTACATTGCCCAATCATGAAATGATAAGAAATTATTACGAGAA
*
3120164 CTCATGTTTTCTCATTTAAGGGATGAACTTTAATTCTAAAGAAAATGGTGGAAAGAAAAGCTTTT
131 CTCATGTTTTCTCATTTAAGGGATAAACTTTAATTCTAAAGAAAATGGTGGAAAGAAAAGCTTTT
* * * *
3120229 CTTATGTAGCCAAAGCTTCAATATCATGTATCCTAATAAGGAGAATGTGTTTTCATTACCCAAT-
196 CTTATGTAGCCAAAGCCTCAATATCATGTATCCCAATAAGAAAAATGTGTTTTCATTACCCAATC
* * * * * *
3120293 TTGAAAAGATT-GAAGATTATTACGAGAATCCATGTTTATCTCATTTAAAGGATGAACTTTAATT
261 ATGAAAAAATTAG-AGATTATGACGAGAATCCATATTTATCTAATTTAAAGGACGAACTTTAATT
* * * *
3120357 CTAAGGAAAATGGTAGAAAAAC-AGTTTTTCTTGTGAAACCAAAGCTTT-AATATTATGTATCCC
325 CTAA-AAAAAAGGTAGAAAAACAAGCTTTTCTTGTGAAACCAAAG-TTTCAATATCATGTAT-CC
* * *
3120420 AATGAG-GAGAATGAGTTTGTGGTACCCTGTCAAAAAAGAATAGAGATTATTATTACCAGAATCC
387 --T-AGTGAGAA-GA----ATGGTACCCTATCAAAAAA-AATAGAG---ATTATTACCAAAATCC
* * * *
3120484 -TGTTTGTCTTGTTTGAGTGATAAACTTTGATTCCAAAGAAAA-TGGT-GAAA-ACAAGCTTTTC
440 ACGTTTGTCTTATTTGAGTGACAAACTTTGATTCC-AAGAAAAGTGGTAGAAAGAAAAGCTTTT-
* *
3120545 T-TGCTAAATCAAAGC-TCATGTAACCTAATAAAGAGAACCTGTTTTTGTT-GCCTAATCAGGAA
503 TGTGCTAAACCAAAGCATCATGT-ACCCAATAAAGAGAACCTGTTTTTGTTGGCC-AATCAGGAA
* * * *
3120607 AAGATTGGAGATTATTACA-AAAATTTATGTTTGTCTCATTTGAGAGATAAA
566 AAGATTGGAGATTATTA-AGAAAATTCATATATGTCTCATTTAAGAGATAAA
* * * *
3120658 CTTTGATTGTAAGTAAAATGGGAGAAAGAAATGCTTTT-TCTAAGAAGCCAAAGCTTCAACAT-A
1 CTTTGATTCTAAGGAAAATGGGAGAAAGAAAAGCTTTTCT-TAAGAAACCAAAGCTTCAACATCA
*
3120721 GTGTATCACAATGAGGAGAATGCTT-TTACATTGCCCAATCAT
65 -TGTATCACAATGAGGA-AA-ACTTGTTACATTGCCCAATCAT
3120763 TTATAGAATA
Statistics
Matches: 618, Mismatches: 79, Indels: 64
0.81 0.10 0.08
Matches are distributed among these distances:
619 1 0.00
620 88 0.14
621 124 0.20
622 21 0.03
623 23 0.04
624 159 0.26
625 51 0.08
626 43 0.07
627 4 0.01
628 16 0.03
629 29 0.05
630 5 0.01
631 33 0.05
632 21 0.03
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (616 bp):
CTTTGATTCTAAGGAAAATGGGAGAAAGAAAAGCTTTTCTTAAGAAACCAAAGCTTCAACATCAT
GTATCACAATGAGGAAAACTTGTTACATTGCCCAATCATGAAATGATAAGAAATTATTACGAGAA
CTCATGTTTTCTCATTTAAGGGATAAACTTTAATTCTAAAGAAAATGGTGGAAAGAAAAGCTTTT
CTTATGTAGCCAAAGCCTCAATATCATGTATCCCAATAAGAAAAATGTGTTTTCATTACCCAATC
ATGAAAAAATTAGAGATTATGACGAGAATCCATATTTATCTAATTTAAAGGACGAACTTTAATTC
TAAAAAAAAGGTAGAAAAACAAGCTTTTCTTGTGAAACCAAAGTTTCAATATCATGTATCCTAGT
GAGAAGAATGGTACCCTATCAAAAAAAATAGAGATTATTACCAAAATCCACGTTTGTCTTATTTG
AGTGACAAACTTTGATTCCAAGAAAAGTGGTAGAAAGAAAAGCTTTTTGTGCTAAACCAAAGCAT
CATGTACCCAATAAAGAGAACCTGTTTTTGTTGGCCAATCAGGAAAAGATTGGAGATTATTAAGA
AAATTCATATATGTCTCATTTAAGAGATAAA
Found at i:3122617 original size:159 final size:159
Alignment explanation
Indices: 3121709--3122619 Score: 500
Period size: 159 Copynumber: 5.7 Consensus size: 159
3121699 GACATTTAGA
* * * * * * * * *
3121709 AGAATCCATGTTTGTCTTATTTAGGGGATAAAC-CTAGATTTTTAGCAAAATGGTGGAAAACAAA
1 AGAATCCATATTTGTCTCATTTAAGGGATGAACTTTA-ATTCTAAGGAAAATGGTGG-AAAGAAA
* * * * * *
3121773 AGCTATTCTCTTA--AAACCAAAG-TGTCAATATCGTGTATCCCATTTAGGAGAATGTGTTTTTG
64 AGCT-TT-TCTTATGAAACCAAAGCT-TCAATATCATGTATCCAAATAAGGAAAATGTGTTTTAG
* * *
3121835 TTGCCTAATCA-ATAAAA-AA-AGGAGATCTA--ACA
126 TTGCCCAATCACA-AAAACAATA-AAGAT-TATTACG
* * * * * * * * *
3121867 AGAAGCCATGTTTATCTCATTTTAGCGATGAACTTTGATTTTATGTTATGGAGAATGGTAGAAAG
1 AGAATCCATATTTGTCTCATTTAAGGGATGAACTTTAATTCTA----A-GGAAAATGGTGGAAAG
* * ** * * *
3121932 AAAAGCTTTTTTTGTGAAACTGAAGCTTTAGTATCATGTATCGC-AATGAA-GAAAATGGGTTTT
61 AAAAGCTTTTCTTATGAAACCAAAGCTTCAATATCATGTATC-CAAAT-AAGGAAAATGTGTTTT
* * ** * *
3121995 AGTTGCCTAATCACCAAAACAATGGAGATTATAATG
124 AGTTGCCCAATCACAAAAACAATAAAGATTATTACG
* * * * * *
3122031 AGAATCCATGTTTGTCTTATTTAAAGGATGAACTTTGATTCTATGAAAAATGGTGGAAAGAAAAG
1 AGAATCCATATTTGTCTCATTTAAGGGATGAACTTTAATTCTAAGGAAAATGGTGGAAAGAAAAG
* * * * ** * * * * * *
3122096 CTTTTCTTAAGAAAGCAAAGCATCACTATTGTGTGTCCCAATTAGGAGAATGTG-TGTAGAGTGC
66 CTTTTCTTATGAAACCAAAGCTTCAATATCATGTATCCAAATAAGGAAAATGTGTTTTAG-TTGC
** * * *
3122160 CCAATCTTGAAAAA-AATAGAGTTTATTACC
130 CCAATC-ACAAAAACAATAAAGATTATTACG
* * * ** * *
3122190 AAAATCCATGTTTGTCTCATTTAAGAGACAAACTTTAATTCTTAGGAAAATGGT-G-AA-AAGAG
1 AGAATCCATATTTGTCTCATTTAAGGGATGAACTTTAATTCTAAGGAAAATGGTGGAAAGAAAAG
* * * ** * * **
3122252 CTTTTC-T-TGCTAACCAAAGCATCGATATTGTGTGTCCAAATGAAGAGAACATGT-TTTT-GCA
66 CTTTTCTTATG-AAACCAAAGCTTCAATATCATGTATCCAAAT-AAG-GAAAATGTGTTTTAGTT
* * * * * *
3122313 ACCCAATCCCAAAAAGATTAAAGATAATTATG
128 GCCCAATCACAAAAACAATAAAGATTATTACG
* * * * * * *
3122345 AGAATCTATATTTGTTTCATTTGATGGATGATA-TTTAATTCTAA-CAAAAGAGGTGGAAAGAAG
1 AGAATCCATATTTGTCTCATTTAAGGGATGA-ACTTTAATTCTAAGGAAAA-TGGTGGAAAGAAA
* * * * * ** *
3122408 AGCTTTTCTTGTGAAACAAAAGCTTCAGTATAATGTATCCCAATGGGGAAAATGTGTTTTTGTTG
64 AGCTTTTCTTATGAAACCAAAGCTTCAATATCATGTATCCAAATAAGGAAAATGTGTTTTAGTTG
* * *
3122473 CCTAATCATAAAAACATTAAAGATTATTACG
129 CCCAATCACAAAAACAATAAAGATTATTACG
* * *
3122504 AGAAT-CACTATTTGTCTAATTTAAGGGATGAACTTTAATTTTAAGGAAAATGGTGGGAAGAAAA
1 AGAATCCA-TATTTGTCTCATTTAAGGGATGAACTTTAATTCTAAGGAAAATGGTGGAAAGAAAA
3122568 GCTTTTCTTATGAAACCAAAGCTTCAATATCATGTATCCAAATAAGGAAAAT
65 GCTTTTCTTATGAAACCAAAGCTTCAATATCATGTATCCAAATAAGGAAAAT
3122620 AAGGTTATGG
Statistics
Matches: 567, Mismatches: 149, Indels: 73
0.72 0.19 0.09
Matches are distributed among these distances:
154 10 0.02
155 79 0.14
156 15 0.03
157 19 0.03
158 56 0.10
159 256 0.45
160 13 0.02
161 2 0.00
162 61 0.11
163 19 0.03
164 37 0.07
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (159 bp):
AGAATCCATATTTGTCTCATTTAAGGGATGAACTTTAATTCTAAGGAAAATGGTGGAAAGAAAAG
CTTTTCTTATGAAACCAAAGCTTCAATATCATGTATCCAAATAAGGAAAATGTGTTTTAGTTGCC
CAATCACAAAAACAATAAAGATTATTACG
Found at i:3123006 original size:13 final size:13
Alignment explanation
Indices: 3122988--3123017 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3122978 ATACATTATT
*
3122988 CATTGTATCGATA
1 CATTGTATCGACA
3123001 CATTGTATCGACA
1 CATTGTATCGACA
3123014 CATT
1 CATT
3123018 CTAGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (13 bp):
CATTGTATCGACA
Found at i:3125450 original size:79 final size:78
Alignment explanation
Indices: 3125361--3125817 Score: 461
Period size: 79 Copynumber: 5.8 Consensus size: 78
3125351 TTTTATCTCA
* * ** *
3125361 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAA-C
*
3125426 CCGTTATTTTTGAG
65 CCGTTATTTTCGAG
* * *
3125440 GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATTGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAACC
* * *
3125505 TCATTATTTTGGTG
66 -CGTTATTTTCGAG
* * * * * * * *
3125519 GGGATACTCCAACCCAGACCTTATTTCTAAAGCTTTGATTTTCCACAATCGGTGATACTCTAACC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAA-C
3125584 CCGTTA-TTTCTGAG
65 CCGTTATTTTC-GAG
* * * * * * *
3125598 AGGATACTCCAACTCCGGCTTTATTTTTAAAATATTGATTTCTCACAATCGGGGATATTCCAGTC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCA-AC
3125663 CCGTTATTTTCGCA-
65 CCGTTATTTTCG-AG
* ** * * *
3125677 GAGATACTCTGACCCCGGCCTTATTTCTAAAGCATTAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAACC
3125742 TCGTTATTTTCGAG
66 -CGTTATTTTCGAG
** * ** * *
3125756 GGGATACTCCAACCCCGATTTTATTT-TCAGAACACCGATTTTCCATAATCGGGGATACTCCA
1 GGGATACTCCAACCCCGGCTTTATTTCT-AAAACATTGATTTTTCACAATCGGGGATACTCCA
3125818 GCCCCGTTGT
Statistics
Matches: 303, Mismatches: 66, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
78 9 0.03
79 287 0.95
80 7 0.02
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCCCGGCTTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAACC
CGTTATTTTCGAG
Found at i:3125798 original size:237 final size:237
Alignment explanation
Indices: 3125362--3125825 Score: 574
Period size: 237 Copynumber: 2.0 Consensus size: 237
3125352 TTTATCTCAG
* * *
3125362 GGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCC
1 GGATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAATCC
* * * * * *
3125427 CGTTATTTTTGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATTGG
66 CGTTATTTTCGAGGAGATACTCCAACCCCGGCCTTATTTCTAAAACATTAATTTCTCACAATCGG
* * ***
3125492 GGATACTCCAACCTCATTATTTTGGTGGGGATACTCCAACCCAGACCTTATTTCTAAAGCTTTGA
131 GGATACTCCAACCTCATTATTTTCGAGGGGATACTCCAACCCAGACCTTATTTCTAAAGCACCGA
* *
3125557 TTTTCCACAATCGGTGATACTCTAACCCCGTTATTTCTGAGA
196 TTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGA
* ** * ** * *
3125599 GGATACTCCAACTCCGGCTTTATTTTTAAAATATTGATTTCTCACAATCGGGGATATTCCAGTCC
1 GGATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAATCC
** * *
3125664 CGTTATTTTCGCA-GAGATACTCTGACCCCGGCCTTATTTCTAAAGCATTAATTTTTCACAATCG
66 CGTTATTTTCG-AGGAGATACTCCAACCCCGGCCTTATTTCTAAAACATTAATTTCTCACAATCG
* * **
3125728 GGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTT-TCAGAA-CAC
130 GGGATACTCCAACCTCATTATTTTCGAGGGGATACTCCAACCCAGACCTTATTTCT-A-AAGCAC
* *
3125791 CGATTTTCCATAATCGGGGATACTCCAGCCCCGTT
193 CGATTTTCCACAATCGGGGATACTCCAACCCCGTT
3125826 GTTATCCCTA
Statistics
Matches: 190, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
236 1 0.01
237 186 0.98
238 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (237 bp):
GGATACTCCAACCCCGGCTTTATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAATCC
CGTTATTTTCGAGGAGATACTCCAACCCCGGCCTTATTTCTAAAACATTAATTTCTCACAATCGG
GGATACTCCAACCTCATTATTTTCGAGGGGATACTCCAACCCAGACCTTATTTCTAAAGCACCGA
TTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGA
Found at i:3125818 original size:158 final size:157
Alignment explanation
Indices: 3125363--3125825 Score: 520
Period size: 158 Copynumber: 2.9 Consensus size: 157
3125353 TTATCTCAGG
** * * * *
3125363 GATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCC
1 GATACTCCAACCCCGGCCTTATTTCTAAAGCATTAATTTTTCACAATCGGGGATACTCCAA-CCC
* *
3125428 GTTATTTTTGAGGGGATACTCCAACCCCGGCTTTA-TTTCTAAAATATTGATTTCTCACAATTGG
65 GTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTTC-AAAATATTGATTTCTCACAATCGG
* * ** *
3125492 GGATACTCCA-ACCTCATTATTTTGGTGGG
129 GGATACTCCAGACC-CGTTATTTTCGCAGA
* * * * * * *
3125521 GATACTCCAACCCAGACCTTATTTCTAAAGCTTTGATTTTCCACAATCGGTGATACTCTAACCCC
1 GATACTCCAACCCCGGCCTTATTTCTAAAGCATTAATTTTTCACAATCGGGGATACTCCAA-CCC
* * *
3125586 GTTA-TTTCTGAGAGGATACTCCAACTCCGGCTTTATTTTTAAAATATTGATTTCTCACAATCGG
65 GTTATTTTC-GAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCACAATCGG
* *
3125650 GGATATTCCAGTCCCGTTATTTTCGCAGA
129 GGATACTCCAGACCCGTTATTTTCGCAGA
**
3125679 GATACTCTGACCCCGGCCTTATTTCTAAAGCATTAATTTTTCACAATCGGGGATACTCCAACCTC
1 GATACTCCAACCCCGGCCTTATTTCTAAAGCATTAATTTTTCACAATCGGGGATACTCCAACC-C
** * * ** *
3125744 GTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAGAACACCGATTT-TCCATAATCGG
65 GTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCT-CACAATCGG
*
3125808 GGATACTCCAGCCCCGTT
129 GGATACTCCAGACCCGTT
3125826 GTTATCCCTA
Statistics
Matches: 252, Mismatches: 47, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
157 6 0.02
158 237 0.94
159 9 0.04
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (157 bp):
GATACTCCAACCCCGGCCTTATTTCTAAAGCATTAATTTTTCACAATCGGGGATACTCCAACCCG
TTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCACAATCGGGG
ATACTCCAGACCCGTTATTTTCGCAGA
Found at i:3130601 original size:30 final size:32
Alignment explanation
Indices: 3130565--3130626 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
3130555 TAAGGATCAC
*
3130565 CTCTCACA-TTTGGGGG-GGTAAACAAGAAAA
1 CTCTCACATTTTGGGGGAGGCAAACAAGAAAA
3130595 CTCTCACATTTTGGGGGTAGGCAAACAAGAAA
1 CTCTCACATTTTGGGGG-AGGCAAACAAGAAA
3130627 GCTTGTCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 8 0.29
31 8 0.29
33 12 0.43
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (32 bp):
CTCTCACATTTTGGGGGAGGCAAACAAGAAAA
Found at i:3132183 original size:60 final size:60
Alignment explanation
Indices: 3132007--3132995 Score: 793
Period size: 61 Copynumber: 16.4 Consensus size: 60
3131997 CCCTTTTAGC
* * * * ** **
3132007 CCTTTAGTCCTCAAAAAGCAGGACGTCTTTTTCTTTTTAAAGCAAACATGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
3132068 CCATTTTGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
3132130 CCTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCTCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
3132190 CTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCTCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * *
3132250 TTTTCTAGTCTTTAAAGAGTAGGA------TGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * *
3132305 TTTTCTAGTTCTTAAAGAGCAGGA------TTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
3132360 -CTTCCCAGTCTTCAAAGAGTAGGA---C---ACCTTTCAAAGCCCACACGAGTTAGTGGCA
1 CCTT--TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
3132415 CCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACTCAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * *
3132475 CCTTTTAGTCCTCAAAGAGCAGGACATCTATTTCTTTTCAAAGCCCACACGAGTTGGTCGCA
1 CC-TTTAGTCCTCAAAGAGCAGGACGCCT-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
3132537 CCCCTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCAACACGAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * *
3132599 CCTTTAGTCCTCAAAGAGCAGGATACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * **
3132659 CCTTCTAATCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAACCCCACACAAGTTTATGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * * **
3132720 -CTTCCCAATCCTCAAA-ATGCAGGACG-CTCTCTCCTTTCACCTTTTAGTCCTCAAAGAGCAAG
1 CCTT--TAGTCCTCAAAGA-GCAGGACGCCT-TTTCCTTTCA-----AAGCCCACACA-AG-TTG
*
3132782 AT-GC-
55 GTGGCA
* * * * * *
3132786 CTTTTAATCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
3132847 CCCCTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
3132909 CCTTTAGTCCTCAAAAAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3132969 CCTCCTAGTCCTTAAAGAGCAGGACGC
1 CCT-TTAGTCCTCAAAGAGCAGGACGC
3132996 ACTTCATTTC
Statistics
Matches: 775, Mismatches: 118, Indels: 70
0.80 0.12 0.07
Matches are distributed among these distances:
54 18 0.02
55 120 0.15
56 3 0.00
59 2 0.00
60 195 0.25
61 207 0.27
62 186 0.24
63 3 0.00
65 16 0.02
66 16 0.02
67 7 0.01
68 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:3132305 original size:55 final size:55
Alignment explanation
Indices: 3132103--3132688 Score: 351
Period size: 60 Copynumber: 10.0 Consensus size: 55
3132093 GCCTTTTTCT
* * * *
3132103 TTTCAAAGCCCACACGAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAAGATGCCTTTTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCTTCAAAGAGCAGGATG------CC
* * *
3132163 TTTCAAAGCTCACACAAGTTGGTGGCACTTT-TAGTCCTCAAAGAGCAAGATGCCTTTTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCTTCAAAGAGCAGGATG------CC
* * * *
3132223 TTTCAAAGCTCACACAAGTTGGTGGCATTTTCTAGTCTTTAAAGAGTAGGATGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCTTCAAAGAGCAGGATGCC
* *
3132278 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTTCTT-AAAGAGCAGGATTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAG-TCTTCAAAGAGCAGGATGCC
* * * * **
3132333 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCTTCAAAGAGTAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCTTCAAAGAGCAGGATGCC
* * * *
3132388 TTTCAAAGCCCACACGAGTTAGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCTTTTTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCTTCAAAGAGCAGGATG------CC
* * *
3132448 TTTTAAAGCCCACTCAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACAT-CTATTTC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCTAGTCTTCAAAGAGCAGG--ATGC-----C
* * ** * * *
3132509 TTTTCAAAGCCCACACGAGTTGGTCGCAC-CCCTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
1 -TTTCAAAGCCCACACAAGTTGGTGGCACTTTC-TAGTCTTCAAAGAGCAGG--A-----TGCC
* * * * *
3132572 TTTCAAAGCCAACACGAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATACTTTTTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCTTCAAAGAGCAGG--A----TGCC
* * * * *
3132632 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAATCCTCAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCTTCAAAGAGCAGGATGCC
3132687 TT
1 TT
3132689 CTCCTTTTAA
Statistics
Matches: 446, Mismatches: 52, Indels: 61
0.80 0.09 0.11
Matches are distributed among these distances:
54 20 0.04
55 122 0.27
56 5 0.01
59 1 0.00
60 147 0.33
61 77 0.17
62 70 0.16
63 2 0.00
67 1 0.00
68 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (55 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCTTCAAAGAGCAGGATGCC
Found at i:3132814 original size:26 final size:26
Alignment explanation
Indices: 3132757--3132816 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
3132747 TCTCTCCTTT
*
3132757 CACCTTTTAGTCCTCAAAGAGCAAGA
1 CACCTTTTAATCCTCAAAGAGCAAGA
** * *
3132783 TGCCTTTTAATCCTCAAAGAGTAGGA
1 CACCTTTTAATCCTCAAAGAGCAAGA
3132809 CACCTTTT
1 CACCTTTT
3132817 TCTTTTCAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (26 bp):
CACCTTTTAATCCTCAAAGAGCAAGA
Found at i:3133234 original size:62 final size:62
Alignment explanation
Indices: 3133104--3133303 Score: 332
Period size: 62 Copynumber: 3.3 Consensus size: 62
3133094 CTTATTTTTC
* *
3133104 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
3133165 CCTTTTAGTCCTCAAAGAGTAGGATACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
*
3133227 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
3133289 -CCTTTAGTCCTCAAA
1 CCCTTTAGTCCTCAAA
3133304 AAGTAGGACG
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
61 49 0.38
62 80 0.62
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (62 bp):
CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:3133734 original size:19 final size:19
Alignment explanation
Indices: 3133690--3133806 Score: 87
Period size: 19 Copynumber: 6.7 Consensus size: 19
3133680 ATTCGATGAT
* *
3133690 TTGTATCGATACAAACAGAAA
1 TTGTATCGATACATA-AG-TA
3133711 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
3133730 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
* *
3133744 -TGTATCGATGCATAAGTG
1 TTGTATCGATACATAAGTA
3133762 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
3133776 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
3133794 TTGTATCGATACA
1 TTGTATCGATACA
3133807 ATGTATCGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
13 21 0.27
14 1 0.01
16 4 0.05
19 35 0.45
20 2 0.03
21 14 0.18
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:3133748 original size:32 final size:32
Alignment explanation
Indices: 3133712--3133814 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
3133702 AAACAGAAAT
*
3133712 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3133744 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3133776 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3133808 TGTATCG
1 TGTATCG
3133815 CTACGAAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3133749 original size:13 final size:13
Alignment explanation
Indices: 3133731--3133787 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
3133721 ACATAAGTAT
3133731 TGTATCGATACAA
1 TGTATCGATACAA
*
3133744 TGTATCGATGCATAA
1 TGTATCGAT--ACAA
3133759 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3133776 TGTATCGATACA
1 TGTATCGATACA
3133788 TAAGTGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 21 0.58
15 3 0.08
17 3 0.08
19 9 0.25
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3133877 original size:13 final size:13
Alignment explanation
Indices: 3133859--3133886 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3133849 ATTACTCAAA
3133859 TGTATCGATACAT
1 TGTATCGATACAT
3133872 TGTATCGATACAT
1 TGTATCGATACAT
3133885 TG
1 TG
3133887 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3137143 original size:60 final size:59
Alignment explanation
Indices: 3137055--3137166 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 59
3137045 CGCCTTTTTC
*
3137055 TTTTAAAGCCCACACAAGTTAGGGGCACCTTCTTGTCCTAAAAGAGCAGGACACCTTCT
1 TTTTAAAGCCCACACAAGTTAGGGGCACCTTCTAGTCCTAAAAGAGCAGGACACCTTCT
*
3137114 TTTTCAAAGCCCACACAAGTT-GGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
1 TTTT-AAAGCCCACACAAGTTAGG-GGCACCTTCTAGTCCTAAAAGAGCAGGAC
3137167 GCACTTCATT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
59 6 0.12
60 43 0.88
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (59 bp):
TTTTAAAGCCCACACAAGTTAGGGGCACCTTCTAGTCCTAAAAGAGCAGGACACCTTCT
Found at i:3137213 original size:45 final size:43
Alignment explanation
Indices: 3137149--3137302 Score: 186
Period size: 45 Copynumber: 3.5 Consensus size: 43
3137139 GCACCTTCTA
3137149 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCTTTTT
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTT-TTTTCC-TTTT
* * *
3137194 GTCCTCAAAGAGCAGGACGCATTTTATTTTCCTTTTCTCC-TTT
1 GTCCTCAAAGAGCAGGACGCACTTCA-TTTCCTTTTTTCCTTTT
* *
3137237 GTCCTCAAAGAGCAGGAC-AAGTTCCATTTCCTTATTTTCCCCTTTT
1 GTCCTCAAAGAGCAGGACGCACTT-CATTTCCTT-TTTT--CCTTTT
3137283 GTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
3137303 CTTTTCCTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
42 10 0.11
43 25 0.27
45 31 0.33
46 28 0.30
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.36
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTCCTTTT
Found at i:3137530 original size:61 final size:61
Alignment explanation
Indices: 3137283--3137605 Score: 395
Period size: 62 Copynumber: 5.3 Consensus size: 61
3137273 TTCCCCTTTT
* * *
3137283 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTTA
1 GTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
* * * *
3137344 GTCCTCAAAGAGTAGGACACCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACC-CCTTA
1 GTCCTCAAAGAGCAGGAC-GCTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC-TA
* * ** *
3137406 GTCCTCAAAGAGTAGGATGCCTTTTT-CTTTTCAAAGCCCACATGAGTTGGTGGCATCTT-TA
1 GTCCTCAAAGAGCAGGACG-CTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTA
* *
3137467 GTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGGGGTACCTTCTA
1 GTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
* * * *
3137528 GTCCTCAAAGAGTAGGACGCTTTCTCC-TTCAAAGCCCACACAAGTTGGTGGCACCTCCTA
1 GTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
*
3137588 GTCCTCAATGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
3137606 ACACTTCATT
Statistics
Matches: 228, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
60 73 0.32
61 73 0.32
62 82 0.36
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (61 bp):
GTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
Found at i:3137628 original size:36 final size:37
Alignment explanation
Indices: 3137588--3137695 Score: 103
Period size: 43 Copynumber: 2.8 Consensus size: 37
3137578 GCACCTCCTA
*
3137588 GTCCTCAATGAGCAGGACACACTTCA-TTTCCTTTTT
1 GTCCTCAAAGAGCAGGACACACTTCATTTTCCTTTTT
* * *
3137624 GTCCTCAAAGAGTAGGACGCACTTTATTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTCATTTTCC---T-T--TTT
3137667 GTCCTCAAAGAGCAGGACACA-TTCCATTT
1 GTCCTCAAAGAGCAGGACACACTT-CATTT
3137696 CCTCATTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
36 22 0.39
37 5 0.09
40 1 0.02
41 1 0.02
42 2 0.04
43 26 0.46
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (37 bp):
GTCCTCAAAGAGCAGGACACACTTCATTTTCCTTTTT
Found at i:3137684 original size:43 final size:42
Alignment explanation
Indices: 3137621--3137803 Score: 172
Period size: 43 Copynumber: 4.2 Consensus size: 42
3137611 TCATTTCCTT
*
3137621 TTTGTCCTCAAAGAGTAGGACGCACTTTATTTTCCTTTTCTCC
1 TTTGTCCTCAAAGAGCAGGACGCA-TTTATTTTCCTTTTCTCC
* * * *
3137664 TTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTCATTTTCCCC
1 TTTGTCCTCAAAGAGCAGGACGCATT-TATTT--TCCTTTTCTCC
* * *
3137709 TTTTGCCCTCAAAGAGCAGGATGCACTTTATTTT-CTTTT-TGCT
1 -TTTGTCCTCAAAGAGCAGGACGCA-TTTATTTTCCTTTTCT-CC
** * *
3137752 TTTGTCCTCAAAGAGTGGGACGCATTTCGTTTTCCTTTTTTCC
1 TTTGTCCTCAAAGAGCAGGACGCATTT-ATTTTCCTTTTCTCC
3137795 TTTGTCCTC
1 TTTGTCCTC
3137804 GAAAAGTGGG
Statistics
Matches: 113, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
41 3 0.03
42 26 0.23
43 46 0.41
44 2 0.02
45 9 0.08
46 25 0.22
47 2 0.02
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.42
Consensus pattern (42 bp):
TTTGTCCTCAAAGAGCAGGACGCATTTATTTTCCTTTTCTCC
Found at i:3138112 original size:13 final size:13
Alignment explanation
Indices: 3138094--3138119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3138084 TAAAACCATT
3138094 AAAAAAATTTGAA
1 AAAAAAATTTGAA
3138107 AAAAAAATTTGAA
1 AAAAAAATTTGAA
3138120 TGTCGTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAAAAATTTGAA
Found at i:3141043 original size:79 final size:78
Alignment explanation
Indices: 3140927--3141311 Score: 369
Period size: 79 Copynumber: 4.9 Consensus size: 78
3140917 AACCTGAATT
* * * * * *
3140927 TTATTTCCAAAACATCAAATTTTCATAATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATA
1 TTATTTCTAAAATATC-GATTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATA
* * *
3140992 CTCCAACCCCGACT
65 CTCCAACCTCGGCC
* * * *
3141006 TTATTTCTAAAATATTGATTTATCACAATC-GAAGATACTCCAACCCCGTTATTTTGGCGGGGAT
1 TTATTTCTAAAATATCGATTT-TCACAATCAG-GGATACTCCAACCCCGTTATTTTCGAGGGGAT
3141070 ACTCCAACCTCGGCC
64 ACTCCAACCTCGGCC
* * * * **
3141085 TTATTTTTAAAGCT-TCGATTTTCCACAATCAGTGATACTCCAATCCCGTTATTTTTTAGGGGAT
1 TTATTTCTAAA-ATATCGATTTT-CACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
* * *
3141149 ACTTCAACTTCGGCT
64 ACTCCAACCTCGGCC
* * * *
3141164 TTATTTCTAAAATATTGATTTCTCACAATCAGGGATATTCCAACCCCGTTATTTTTGTGGGGATA
1 TTATTTCTAAAATATCGATTT-TCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATA
**
3141229 CTCTGACCTCGGCC
65 CTCCAACCTCGGCC
* ** * * * * *
3141243 TTATTTTTAAAGCACCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGAGGATA
1 TTATTTCTAAAATATCGA-TTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATA
3141308 CTCC
65 CTCC
3141312 CAATTTTATT
Statistics
Matches: 249, Mismatches: 49, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
78 7 0.03
79 236 0.95
80 6 0.02
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (78 bp):
TTATTTCTAAAATATCGATTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATAC
TCCAACCTCGGCC
Found at i:3141193 original size:158 final size:158
Alignment explanation
Indices: 3140944--3141311 Score: 499
Period size: 158 Copynumber: 2.3 Consensus size: 158
3140934 CAAAACATCA
* *
3140944 AATTTT-CATAATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTT
1 AATTTTCCACAATCAGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTT
3141008 ATTTCTAAAATATTGATTTATCACAATC-GAAGATACTCCAACCCCGTTATTTTGGCGGGGATAC
66 ATTTCTAAAATATTGATTTATCACAATCAG-AGATACTCCAACCCCGTTATTTTGGCGGGGATAC
**
3141072 TCCAACCTCGGCCTTATTTTTAAAGCTTC
130 TCCAACCTCGGCCTTATTTTTAAAGCACC
* * ** * ** *
3141101 GATTTTCCACAATCAGTGATACTCCAATCCCGTTATTTTTTAGGGGATACTTCAACTTCGGCTTT
1 AATTTTCCACAATCAGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTT
* * * * *
3141166 ATTTCTAAAATATTGATTTCTCACAATCAGGGATATTCCAACCCCGTTATTTTTGTGGGGATACT
66 ATTTCTAAAATATTGATTTATCACAATCAGAGATACTCCAACCCCGTTATTTTGGCGGGGATACT
**
3141231 CTGACCTCGGCCTTATTTTTAAAGCACC
131 CCAACCTCGGCCTTATTTTTAAAGCACC
* * *
3141259 AATTTTTCACAATCGGGGATACTCCAA-CCCTGTTATTTTCGAGAGGATACTCC
1 AATTTTCCACAATCAGGGATACTCCAATCCC-GTTATTTTCGAGGGGATACTCC
3141312 CAATTTTATT
Statistics
Matches: 181, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
157 8 0.04
158 172 0.95
159 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (158 bp):
AATTTTCCACAATCAGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTT
ATTTCTAAAATATTGATTTATCACAATCAGAGATACTCCAACCCCGTTATTTTGGCGGGGATACT
CCAACCTCGGCCTTATTTTTAAAGCACC
Found at i:3144103 original size:58 final size:58
Alignment explanation
Indices: 3144016--3144130 Score: 185
Period size: 58 Copynumber: 2.0 Consensus size: 58
3144006 AACAATAAGC
* * *
3144016 CCATAAATATATGCAAATTTGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1 CCATAAATACATGCAAATTAGGCTCCACTCTTCTTGGACATGCGAATTGGGCTCCAAG
* *
3144074 CCATGAATACATGCAAATTAGGCTTCACTCTTCTTGGACATGCGAATTGGGCTCCAA
1 CCATAAATACATGCAAATTAGGCTCCACTCTTCTTGGACATGCGAATTGGGCTCCAA
3144131 CCTTTATTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (58 bp):
CCATAAATACATGCAAATTAGGCTCCACTCTTCTTGGACATGCGAATTGGGCTCCAAG
Found at i:3148606 original size:13 final size:13
Alignment explanation
Indices: 3148588--3148618 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3148578 ACAATTCATC
3148588 ATGTATCGATACA
1 ATGTATCGATACA
3148601 ATGTATCGATACA
1 ATGTATCGATACA
*
3148614 TTGTA
1 ATGTA
3148619 CCATGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3149348 original size:27 final size:27
Alignment explanation
Indices: 3149310--3149390 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
3149300 TCCCCCTTAA
*
3149310 TCAAAGCCTTTCTCCCCTTTTGTCAAT
1 TCAAAGCATTTCTCCCCTTTTGTCAAT
*
3149337 TCAAAGCATTTCTCCCC--CT-T-AA-
1 TCAAAGCATTTCTCCCCTTTTGTCAAT
3149359 TCAAAGCATTTCTCCCCTTTTGTCAAT
1 TCAAAGCATTTCTCCCCTTTTGTCAAT
3149386 TCAAA
1 TCAAA
3149391 AAATTTACTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 17 0.37
23 2 0.04
24 2 0.04
25 2 0.04
26 2 0.04
27 21 0.46
ACGTcount: A:0.25, C:0.32, G:0.06, T:0.37
Consensus pattern (27 bp):
TCAAAGCATTTCTCCCCTTTTGTCAAT
Found at i:3149355 original size:49 final size:49
Alignment explanation
Indices: 3149295--3149390 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
3149285 TAATCAATAA
*
3149295 ATTTCTCCCCCTTAATCAAAGCCTTTCTCCCCTTTTGTCAATTCAAAGC
1 ATTTCTCCCCCTTAATCAAAGCATTTCTCCCCTTTTGTCAATTCAAAGC
3149344 ATTTCTCCCCCTTAATCAAAGCATTTCTCCCCTTTTGTCAATTCAAA
1 ATTTCTCCCCCTTAATCAAAGCATTTCTCCCCTTTTGTCAATTCAAA
3149391 AAATTTACTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.05, T:0.38
Consensus pattern (49 bp):
ATTTCTCCCCCTTAATCAAAGCATTTCTCCCCTTTTGTCAATTCAAAGC
Found at i:3149384 original size:22 final size:22
Alignment explanation
Indices: 3149274--3149375 Score: 107
Period size: 22 Copynumber: 4.4 Consensus size: 22
3149264 AGTTTTCATT
* *
3149274 TTTCTCCTCCTTAATCAATA-AA
1 TTTCTCCCCCTTAATCAA-AGCA
*
3149296 TTTCTCCCCCTTAATCAAAGCC
1 TTTCTCCCCCTTAATCAAAGCA
*
3149318 TTTCTCCCCTTTTGTCAATTCAAAGCA
1 TTTCTCCCC--CT-T-AA-TCAAAGCA
3149345 TTTCTCCCCCTTAATCAAAGCA
1 TTTCTCCCCCTTAATCAAAGCA
3149367 TTTCTCCCC
1 TTTCTCCCC
3149376 TTTTGTCAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.01
22 43 0.63
23 2 0.03
24 2 0.03
25 2 0.03
26 2 0.03
27 16 0.24
ACGTcount: A:0.24, C:0.35, G:0.04, T:0.37
Consensus pattern (22 bp):
TTTCTCCCCCTTAATCAAAGCA
Found at i:3151290 original size:13 final size:13
Alignment explanation
Indices: 3151272--3151308 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
3151262 GTAACCCATG
3151272 TATCGATACAATA
1 TATCGATACAATA
*
3151285 TATCGATACAATG
1 TATCGATACAATA
3151298 TATCGATACAA
1 TATCGATACAA
3151309 GGAATGTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:3157461 original size:19 final size:19
Alignment explanation
Indices: 3157417--3157491 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
3157407 CTGCTAAGTT
**
3157417 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
3157437 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
3157456 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
3157475 CATGTATTGATACAATG
1 CATGTATCGATACAATG
3157492 TATCGATACA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 37 0.71
20 15 0.29
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3159093 original size:28 final size:29
Alignment explanation
Indices: 3159045--3159126 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
3159035 ATTGAAAAAT
* *
3159045 AAGATAGATC-AAGGAAGTGAAATCAA-C
1 AAGAAAGATCAAAGGAAATGAAATCAAGC
*
3159072 AAGAAAGATGAAAGGAAATGAAAT-AAGC
1 AAGAAAGATCAAAGGAAATGAAATCAAGC
**
3159100 AAGAAATTTCAAAGGAAATGAAATCAA
1 AAGAAAGATCAAAGGAAATGAAATCAA
3159127 TAAAGAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.22
28 34 0.74
29 2 0.04
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.15
Consensus pattern (29 bp):
AAGAAAGATCAAAGGAAATGAAATCAAGC
Found at i:3162328 original size:11 final size:11
Alignment explanation
Indices: 3162312--3162340 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
3162302 CTAAGAACTA
3162312 TTTTTTTTC-C
1 TTTTTTTTCTC
3162322 TTTTTTTTCTC
1 TTTTTTTTCTC
3162333 TTTTTTTT
1 TTTTTTTT
3162341 TAAGATGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:3163068 original size:57 final size:58
Alignment explanation
Indices: 3162977--3163092 Score: 180
Period size: 57 Copynumber: 2.0 Consensus size: 58
3162967 AACAATAGGC
3162977 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTAGGCTCCAAG
1 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTAGGCTCCAAG
* * * * *
3163035 CCATGAATATA-GCAAATTGGGCTTCACTTTTCTTGGACATTTGAATTGGGCTCCAAG
1 CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTAGGCTCCAAG
3163092 C
1 C
3163093 TTTATTCTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 43 0.81
58 10 0.19
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (58 bp):
CCATAAATATATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTAGGCTCCAAG
Found at i:3166630 original size:20 final size:21
Alignment explanation
Indices: 3166591--3166630 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3166581 AACATGTTCT
*
3166591 ACCTTCCTTTTCTTCATCATA
1 ACCTTCCTTCTCTTCATCATA
*
3166612 ACCTT-CTTCTCTTCTTCAT
1 ACCTTCCTTCTCTTCATCAT
3166631 CTACCTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (21 bp):
ACCTTCCTTCTCTTCATCATA
Found at i:3166873 original size:30 final size:30
Alignment explanation
Indices: 3166839--3166902 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
3166829 TGGTCTTGGA
*
3166839 CAGCCTTCACAAACAACTTGATATCACTTT
1 CAGCCTTCACAAACAACCTGATATCACTTT
3166869 CAGCCTTCACAAACAACCTGATATCACTTT
1 CAGCCTTCACAAACAACCTGATATCACTTT
3166899 CAGC
1 CAGC
3166903 ATTATCTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.08, T:0.27
Consensus pattern (30 bp):
CAGCCTTCACAAACAACCTGATATCACTTT
Found at i:3167252 original size:28 final size:27
Alignment explanation
Indices: 3167174--3167255 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 27
3167164 TTCATTAATA
* *
3167174 AAGAAATATCAAGGAAGTGAAATCAAC
1 AAGAAATATAAAGGAAGAGAAATCAAC
* * * *
3167201 AAGAAATATGAATGAAAACAAAAT-AAGC
1 AAGAAATATAAAGGAAGA-GAAATCAA-C
3167229 AAGAAATATAAAAGGAAGAGAAATCAA
1 AAGAAATAT-AAAGGAAGAGAAATCAA
3167256 AGAAAAGGGA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
27 16 0.38
28 18 0.43
29 8 0.19
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.13
Consensus pattern (27 bp):
AAGAAATATAAAGGAAGAGAAATCAAC
Found at i:3167681 original size:38 final size:40
Alignment explanation
Indices: 3167605--3167685 Score: 139
Period size: 38 Copynumber: 2.1 Consensus size: 40
3167595 ATGAGAACCA
3167605 TAGGTTTGAAATCACAACCTAAAAACTGATTGGATGGAAT
1 TAGGTTTGAAATCACAACCTAAAAACTGATTGGATGGAAT
*
3167645 TAGG-TTGAAATCACAACC-AAAACCTGATTGGATGGAAT
1 TAGGTTTGAAATCACAACCTAAAAACTGATTGGATGGAAT
3167683 TAG
1 TAG
3167686 ACCCCTAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 22 0.55
39 14 0.35
40 4 0.10
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (40 bp):
TAGGTTTGAAATCACAACCTAAAAACTGATTGGATGGAAT
Found at i:3175330 original size:158 final size:157
Alignment explanation
Indices: 3174650--3176363 Score: 1012
Period size: 159 Copynumber: 10.9 Consensus size: 157
3174640 TTCTTGACAT
* * * * *
3174650 TGAAGATTTGGTTTCACTAGAAAAGGTTTTCTTTCCCCCATTTTCCTAT-AATCAATA-TTTATC
1 TGAAGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCT-TGAATCAA-AGTTCATC
* * * * *
3174713 CCTCAAATGAGATAAATATGGATTCTCATAAAAATCTCTAATCTTTTCATGATT-GGCCAACAAA
64 CCTCAAAAGAGACAAACATGGATTCTCATAATAATCTCCAATCTTTT-ATGATTAGG-CAACAAA
* * * * *
3174777 AACACATTCTCCTCATTGGTATATATGATAT
127 AACACATTCTCCTTATTGGGATACACGATAG
* * * * *
3174808 TGAAGCTTTAGTTTCACAAGAAAAGCTTTTCTTTCCACTATTTCCCTTAGAATTAAAGTTTATCC
1 TGAAGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTT-GAATCAAAGTTCATCC
** * * * * * * *
3174873 CTTGAATGGGACAACCATGGATT-T-TTGACACAATCTTCAATCTTATCATGATTAGGCAACAAA
65 CTCAAAAGAGACAAACATGGATTCTCAT-A-ATAATCTCCAATCTT-TTATGATTAGGCAACAAA
* * * * *
3174936 AACCCTTTCTCCTTATTTGGATACATGATAT
127 AACACATTCTCCTTATTGGGATACACGATAG
* * *
3174967 TGAAGCTTTCGTTTCACAAGAAAAGCTTTTCTTTTCAGCATTTTCCTTAGAATCAAAGTTCATCC
1 TGAAGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTT-GAATCAAAGTTCATCC
* * * * * * * * ***
3175032 CCCAAAAGAGGCAAACATGGATTCTCATACTAATCTCTAATATTTCTGTGAATGGGTGGCAAAAA
65 CTCAAAAGAGACAAACATGGATTCTCATAATAATCTCCAATCTTT-TATGATTAGGCAACAAAAA
*
3175097 CACATTCTTCTTATTGGGATACACGATAG
129 CACATTCTCCTTATTGGGATACACGATAG
* * * * * * *
3175126 TGATGTTTTGG-TTCAGCTAGAAAAGCCTTTCTTTCTACTATTTTCCTTGGAATCAAAGTTCAAC
1 TGAAGCTTTGGTTTCA-CAAGAAAAGCTTTTCTTTCCACCATTTTCCTT-GAATCAAAGTTCATC
* * * * * *
3175190 CATTAAAAGAGACAAACATGGATTCT-AGTAATAATCTCCACTCTTTTAGTGACT-GGCACCATA
64 CCTCAAAAGAGACAAACATGGATTCTCA-TAATAATCTCCAATCTTTTA-TGATTAGGCAACAAA
* * * * *
3175253 AACACATTCTCCTAATTAGAATATACAATAG
127 AACACATTCTCCTTATTGGGATACACGATAG
*
3175284 TGATA-CTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTTGAATCAAAGTTCATCG
1 TGA-AGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTTGAATCAAAGTTCATCC
* * * * * * * ** * *
3175348 CT-AAAATAAGGCAAACATAGTTTCTCATTACAATCCCCTTTCTTAATTA--ATTGGGCAACAAT
65 CTCAAAA-GAGACAAACATGGATTCTCATAATAATCTCCAATCTT--TTATGATTAGGCAACAAA
* * ** * *
3175410 AGCACATTTTCCACATTAGGG-TACATGATAT
127 AACACATTCTCCTTATT-GGGATACACGATAG
** * * * * * *
3175441 TGGTGCTTTGTTTTCA-AGAAAAAAGCTTTTCTTTCCAACATTTTGCTTAAAATCTAAGTTCATT
1 TGAAGCTTTGGTTTCACA-AGAAAAGCTTTTCTTTCCACCATTTTCCTT-GAATCAAAGTTCA-T
* * * * * * * **
3175505 CCCT-AAATGAGACAAACATAGATTC-AAGTTATAATCTCCATTCTTATTGTGA-TAGGGTAGTA
63 CCCTCAAAAGAGACAAACATGGATTCTCA-TAATAATCTCCAATCTT-TTATGATTA-GGCAACA
* *
3175567 AAAACACATTCTCCTTATTGGGGTACAAGAT--
125 AAAACACATTCTCCTTATTGGGATACACGATAG
* *** * *
3175598 T--A----T--TTTCGCAAGAAAA-CTTTTCTTTTTGCCATGTTCCTT-AGATCAAAGTTCATCG
1 TGAAGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTTGA-ATCAAAGTTCATCC
* * * * ** * *
3175653 CT-AAAATAAAGCAAACATGGATTCTCATTATAATCCCCTTTCTTAGTTA--ATTTGGCAACAAT
65 CTCAAAAGAGA-CAAACATGGATTCTCATAATAATCTCCAATCTT--TTATGATTAGGCAACAAA
* * * * * *
3175715 AGCACATTTTCCTCATTAGGATACATGATATT
127 AACACATTCTCCTTATTGGGATACACGATA-G
* * * * * **
3175747 TGATGCTTTGGTTTCA-AGAGAAAAGCTTTTCTTTCCATCATTTTGCTTAAAATCTAAGTTTGTC
1 TGAAGCTTTGGTTTCACA-AGAAAAGCTTTTCTTTCCACCATTTTCCTT-GAATCAAAGTTCATC
* * ** * * * *
3175811 TCC-C-AATGAGACAAACATAGATTCTTGTAATTATCTCCATTCTTTGCATGATT-GGCATCATA
64 -CCTCAAAAGAGACAAACATGGATTCTCATAATAATCTCCAATCTTT-TATGATTAGGCAACA-A
** * * * *
3175873 AAA-ATGTTCTCCCTATTATGG-TACATGATAT
126 AAACACATTCTCCTTATT-GGGATACACGATAG
* * * * * **
3175904 TGACA-CTTTCGTTTCTA-AAGAAAAGCTTTTTTTTCCACCATTTTACTTATAATCAAAATTTTT
1 TGA-AGCTTTGGTTTC-ACAAGAAAAGCTTTTCTTTCCACCATTTTCCTT-GAATCAAAGTTCAT
* * * * * *
3175967 CTCTCAAATGAGACAAACAAGGATTCTTACAACAATCTCCAATCTTTTCAT-AGTTAGGCAACAA
63 CCCTCAAAAGAGACAAACATGGATTCTCATAATAATCTCCAATCTTTT-ATGA-TTAGGCAACAA
* * * * * *
3176031 AATCAGATTGTCCTCATTGGGATACATGATATT
126 AAACACATTCTCCTTATTGGGATACACGATA-G
* * *
3176064 TGAAGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTCTTAAAATCAAAGTTCATCC
1 TGAAGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTT-GAATCAAAGTTCATCC
* *
3176129 CTCAAATGAGACAAACATGGATTCTCATAATAATCTCCAATCTTTTCCTGATT-GGCAACAAAAA
65 CTCAAAAGAGACAAACATGGATTCTCATAATAATCTCCAATCTTTT-ATGATTAGGCAACAAAAA
* * * * * *
3176193 CATATTATCCTCATTAGGATACATGATAT
129 CACATTCTCCTTATTGGGATACACGATAG
* * * * * *
3176222 TAAAGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCAACACTTTTCATAGAAT-AAATGTCCATT
1 TGAAGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCA-TTTTCCTTGAATCAAA-GTTCATC
* * * * *
3176286 CCTCAAATGAGATAAACATGGATTCACAGAATAATCTCCAATCTTTTCATATGATTGGGCAACAA
64 CCTCAAAAGAGACAAACATGGATTCTCATAATAATCTCCAATC-TTT--TATGATTAGGCAACAA
3176351 AAACACATTCTCC
126 AAACACATTCTCC
3176364 GTGTTATGAT
Statistics
Matches: 1208, Mismatches: 271, Indels: 151
0.74 0.17 0.09
Matches are distributed among these distances:
146 39 0.03
147 38 0.03
148 20 0.02
149 10 0.01
150 1 0.00
151 1 0.00
155 1 0.00
156 10 0.01
157 180 0.15
158 359 0.30
159 415 0.34
160 112 0.09
161 22 0.02
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (157 bp):
TGAAGCTTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTTGAATCAAAGTTCATCCC
TCAAAAGAGACAAACATGGATTCTCATAATAATCTCCAATCTTTTATGATTAGGCAACAAAAACA
CATTCTCCTTATTGGGATACACGATAG
Found at i:3175669 original size:305 final size:306
Alignment explanation
Indices: 3175295--3175854 Score: 858
Period size: 305 Copynumber: 1.8 Consensus size: 306
3175285 GATACTTTGG
* *
3175295 TTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTTGAATCAAAGTTCATCGCTAAAATAAGGC
1 TTTCACAAGAAAAGCTTTTCTTTCCACCATGTTCCTTGAATCAAAGTTCATCGCTAAAATAAAGC
*
3175360 AAACATAGTTTCTCATTACAATCCCCTTTCTTAATTAATTGGGCAACAATAGCACATTTTCCACA
66 AAACATAGATTCTCATTACAATCCCCTTTCTTAATTAATTGGGCAACAATAGCACATTTTCCACA
* * *
3175425 TTAGGGTACATGATA-TTGGTGCTTTGTTTTCAAGAAAAAAGCTTTTCTTTCCAACATTTTGCTT
131 TTAGGATACATGATATTTGATGCTTTGGTTTCAAGAAAAAAGCTTTTCTTTCCAACATTTTGCTT
*
3175489 AAAATCTAAGTTCAT-TCCCTAAATGAGACAAACATAGATTCAAGTTATAATCTCCATTCTTATT
196 AAAATCTAAGTTCATCTCCC--AATGAGACAAACATAGATTCAAGTAATAATCTCCATTCTTATT
3175553 GTGATAGGGTAGTAAAAACACATTCTCCTTATTGGGGTACAAGATTAT
259 GTGATAGGGTAGTAAAAACACATTCTCCTTATTGGGGTACAAGATTAT
* ***
3175601 TTTCGCAAGAAAA-CTTTTCTTTTTGCCATGTTCCTT-AGATCAAAGTTCATCGCTAAAATAAAG
1 TTTCACAAGAAAAGCTTTTCTTTCCACCATGTTCCTTGA-ATCAAAGTTCATCGCTAAAATAAAG
* * * * *
3175664 CAAACATGGATTCTCATTATAATCCCCTTTCTTAGTTAATTTGGCAACAATAGCACATTTTCCTC
65 CAAACATAGATTCTCATTACAATCCCCTTTCTTAATTAATTGGGCAACAATAGCACATTTTCCAC
* *
3175729 ATTAGGATACATGATATTTGATGCTTTGGTTTCAAGAGAAAAGCTTTTCTTTCCATCATTTTGCT
130 ATTAGGATACATGATATTTGATGCTTTGGTTTCAAGAAAAAAGCTTTTCTTTCCAACATTTTGCT
** ** *
3175794 TAAAATCTAAGTTTGTCTCCCAATGAGACAAACATAGATTCTTGTAATTATCTCCATTCTT
195 TAAAATCTAAGTTCATCTCCCAATGAGACAAACATAGATTCAAGTAATAATCTCCATTCTT
3175855 TGCATGATTG
Statistics
Matches: 228, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
304 1 0.00
305 153 0.67
306 70 0.31
307 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (306 bp):
TTTCACAAGAAAAGCTTTTCTTTCCACCATGTTCCTTGAATCAAAGTTCATCGCTAAAATAAAGC
AAACATAGATTCTCATTACAATCCCCTTTCTTAATTAATTGGGCAACAATAGCACATTTTCCACA
TTAGGATACATGATATTTGATGCTTTGGTTTCAAGAAAAAAGCTTTTCTTTCCAACATTTTGCTT
AAAATCTAAGTTCATCTCCCAATGAGACAAACATAGATTCAAGTAATAATCTCCATTCTTATTGT
GATAGGGTAGTAAAAACACATTCTCCTTATTGGGGTACAAGATTAT
Found at i:3176324 original size:318 final size:315
Alignment explanation
Indices: 3174656--3176363 Score: 1201
Period size: 318 Copynumber: 5.4 Consensus size: 315
3174646 ACATTGAAGA
* * * * * * *
3174656 TTTGGTTTCACTAGAAAAGGTTTTCTTTCCCCCATTTTCCTATAATCAATA-TTTA-TCCCTCAA
1 TTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCTTAGAATCAA-AGTTCATTCGCTCAA
* * * * *
3174719 ATGAGATAAATATGGATTCTCATAAAAATCTCTAATCTT-TTCAT-GATTGGCCAACAAAAACAC
65 ATGAGACAAACATGGATTCTCATAATAATCTCCAATCTTCTTCATAG-TTGG-CAACAAAAGCAC
* * * * * *
3174782 ATTCTCCTCATTGGTATATATGATATTGAAGCTTTAGTTTCACAAGAAAAGCTTTTCTTTCCACT
128 ATTCTCCTCATTGGGATACATGATATTGATGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCACC
* * * * ** * * * * *
3174847 ATTTCCCTTAGAATTAAAGTTTATCCCTTGAATGGGACAACCATGGATT-TTTGACACAATCTTC
193 ATTTTCCTTAAAATCAAAGTTCATCCCTCAAATGAGACAAACATGGATTCTAT-A-ATAATCTCC
* * * * *
3174911 AATCTTATCATGATTAGGCAACAAAAACCCT-TTCTCCTTATTTGGATACATGATATTGAAGC
256 AATCTTTTCATGATT-GGCAACAAAAA-CATATTCTCCTCATTAGGATACATGATATT-AAAC
* * * * *
3174973 TTTCGTTTCACAAGAAAAGCTTTTCTTTTCAGCATTTTCCTTAGAATCAAAGTTCA-TCCCCCAA
1 TTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTT-CTTAGAATCAAAGTTCATTCGCTCAA
* * * * * * * *
3175037 AAGAGGCAAACATGGATTCTCATACTAATCTCTAATATTTCTGTGAATGGGTGGC-A-AAAA-CA
65 ATGAGACAAACATGGATTCTCATAATAATCTCCAAT-CTTCT-T-CATAGTTGGCAACAAAAGCA
* * * * * * * *
3175099 CATTCTTCTTATTGGGATACACGATAGTGATGTTTTGG-TTCAGCTAGAAAAGCCTTTCTTTCTA
127 CATTCTCCTCATTGGGATACATGATATTGATGCTTTGGTTTC-GCAAGAAAAGCTTTTCTTTCCA
* ** * * * *
3175163 CTATTTTCCTTGGAATCAAAGTTCAACCATTAAAAGAGACAAACATGGATTCTAGTAATAATCTC
191 CCATTTTCCTTAAAATCAAAGTTCATCCCTCAAATGAGACAAACATGGATTCTA-TAATAATCTC
* * * * * * * * ** * *
3175228 CACTCTTTT-AGTGACTGGCACCATAAACACATTCTCCTAATTAGAATATACAATAGTGATAC
255 CAATCTTTTCA-TGATTGGCAACAAAAACATATTCTCCTCATTAGGATACATGATA-TTAAAC
*
3175290 TTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCCTT-GAATCAAAGTTCA-TCGCTAAA
1 TTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTT-CTTAGAATCAAAGTTCATTCGCTCAA
* * * * * * * * * *
3175353 ATAAGGCAAACATAGTTTCTCATTACAATC-CC-CT-TTCTTAATTAATTGGGCAACAATAGCAC
65 ATGAGACAAACATGGATTCTCATAATAATCTCCAATCTTCTTCA-TAGTT-GGCAACAAAAGCAC
* * * *
3175415 ATTTTCCACATTAGGG-TACATGATATTGGTGCTTT-GTTT-TCAAGAAAAAAGCTTTTCTTTCC
128 ATTCTCCTCATT-GGGATACATGATATTGATGCTTTGGTTTCGCAAG--AAAAGCTTTTCTTTCC
* * * * * *
3175477 AACATTTTGCTTAAAATCTAAGTTCATTCCCT-AAATGAGACAAACATAGATTCAAGTTATAATC
190 ACCATTTTCCTTAAAATCAAAGTTCA-TCCCTCAAATGAGACAAACATGGATTCTA-TAATAATC
* * * * ** * * * * *
3175541 TCCATTCTTATT-GTGATAGGGTAGTAAAAACACATTCTCCTTATTGGGGTACA--AGATT--A-
253 TCCAATCTT-TTCATGAT-TGGCAACAAAAACATATTCTCCTCATTAGGATACATGATATTAAAC
* *** * *
3175600 --T--TTTCGCAAGAAAA-CTTTTCTTTTTGCCATGTTCCTTAG-ATCAAAGTTCA-TCGCTAAA
1 TTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCAT-TTTCTTAGAATCAAAGTTCATTCGCTCAA
* * * ** * * *
3175658 AT-AAAGCAAACATGGATTCTCATTATAATCCCCTTTCTTAGTT-A-ATTTGGCAACAATAGCAC
65 ATGAGA-CAAACATGGATTCTCATAATAATCTCCAATCTT-CTTCATAGTTGGCAACAAAAGCAC
* * *
3175720 ATTTTCCTCATTAGGATACATGATATTTGATGCTTTGGTTTC-AAGAGAAAAGCTTTTCTTTCCA
128 ATTCTCCTCATTGGGATACATGATA-TTGATGCTTTGGTTTCGCA-AGAAAAGCTTTTCTTTCCA
* * * ** * * *
3175784 TCATTTTGCTTAAAATCTAAGTTTGTCTCC-C-AATGAGACAAACATAGATTCTTGTAATTATCT
191 CCATTTTCCTTAAAATCAAAGTTCATC-CCTCAAATGAGACAAACATGGATTC-TATAATAATCT
* * * * *
3175847 CCATTCTTTGCATGATTGGCATCATAAAA-ATGTTCTCC-CTATTATGG-TACATGATATTGACA
254 CCAATCTTTTCATGATTGGCAACA-AAAACATATTCTCCTC-ATTA-GGATACATGATATT-AAA
3175909 C
315 C
* * * * * *
3175910 TTTCGTTTCTA-AAGAAAAGCTTTTTTTTCCACCATTTTACTTATAATCAAAATT-TTTCTCTCA
1 TTTGGTTTC-ACAAGAAAAGCTTTTCTTTCCACCATTTT-CTTAGAATCAAAGTTCATTCGCTCA
* * * * * *
3175973 AATGAGACAAACAAGGATTCTTACAACAATCTCCAATCTT-TTCATAGTTAGGCAACAAAATCAG
64 AATGAGACAAACATGGATTCTCATAATAATCTCCAATCTTCTTCATAGTT-GGCAACAAAAGCAC
* *
3176037 ATTGTCCTCATTGGGATACATGATATTTGAAGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCAC
128 ATTCTCCTCATTGGGATACATGATA-TTGATGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCAC
*
3176102 CATTTTTCTTAAAATCAAAGTTCATCCCTCAAATGAGACAAACATGGATTCTCATAATAATCTCC
192 CATTTTCCTTAAAATCAAAGTTCATCCCTCAAATGAGACAAACATGGATTCT-ATAATAATCTCC
* *
3176167 AATCTTTTCCTGATTGGCAACAAAAACATATTATCCTCATTAGGATACATGATATTAAAGC
256 AATCTTTTCATGATTGGCAACAAAAACATATTCTCCTCATTAGGATACATGATATTAAA-C
* * *
3176228 TTTGGTTTCACAAGAAAAGCTTTTCTTTCCAACACTTTTCATAGAAT-AAATGTCCATTC-CTCA
1 TTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCA-TTTTCTTAGAATCAAA-GTTCATTCGCTCA
* * * *
3176291 AATGAGATAAACATGGATTCACAGAATAATCTCCAATCTT-TTCATATGATTGGGCAACAAAAAC
64 AATGAGACAAACATGGATTCTCATAATAATCTCCAATCTTCTTCATA-G-TT-GGCAACAAAAGC
3176355 ACATTCTCC
126 ACATTCTCC
3176364 GTGTTATGAT
Statistics
Matches: 1099, Mismatches: 215, Indels: 151
0.75 0.15 0.10
Matches are distributed among these distances:
304 22 0.02
305 139 0.13
306 74 0.07
307 6 0.01
308 6 0.01
309 3 0.00
310 2 0.00
311 4 0.00
312 8 0.01
313 5 0.00
314 22 0.02
315 119 0.11
316 121 0.11
317 212 0.19
318 308 0.28
319 17 0.02
320 23 0.02
321 2 0.00
322 5 0.00
323 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (315 bp):
TTTGGTTTCACAAGAAAAGCTTTTCTTTCCACCATTTTCTTAGAATCAAAGTTCATTCGCTCAAA
TGAGACAAACATGGATTCTCATAATAATCTCCAATCTTCTTCATAGTTGGCAACAAAAGCACATT
CTCCTCATTGGGATACATGATATTGATGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCACCATT
TTCCTTAAAATCAAAGTTCATCCCTCAAATGAGACAAACATGGATTCTATAATAATCTCCAATCT
TTTCATGATTGGCAACAAAAACATATTCTCCTCATTAGGATACATGATATTAAAC
Found at i:3177702 original size:51 final size:51
Alignment explanation
Indices: 3177639--3177788 Score: 187
Period size: 51 Copynumber: 2.9 Consensus size: 51
3177629 GCCTTTATCT
* * *
3177639 TTATTGAGTACTATTAGGACTATGATTAGGATT-TTCCTTATTTAGTCATG-A
1 TTATTGAATACTATTAGGACTGTAATTAGGATTGTT-CTTATTTAGTCA-GCA
* * * *
3177690 TTATTGAATACTATTAGGATTGTAATTAAGATTGTTCATGTTTAGTCAGCA
1 TTATTGAATACTATTAGGACTGTAATTAGGATTGTTCTTATTTAGTCAGCA
**
3177741 TTATTGAATACTGCTAGGACTGTAATTAGGATTGTTCTTATTTAGTCA
1 TTATTGAATACTATTAGGACTGTAATTAGGATTGTTCTTATTTAGTCA
3177789 AAACTCTACA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.01
51 81 0.96
52 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (51 bp):
TTATTGAATACTATTAGGACTGTAATTAGGATTGTTCTTATTTAGTCAGCA
Found at i:3178616 original size:20 final size:21
Alignment explanation
Indices: 3178591--3178631 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
3178581 TTGGCTAGTC
3178591 CATAATTGCCTTAAC-CTTAT
1 CATAATTGCCTTAACACTTAT
3178611 CATAATTGCCTTAACACTTAT
1 CATAATTGCCTTAACACTTAT
3178632 TCCATGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (21 bp):
CATAATTGCCTTAACACTTAT
Found at i:3181406 original size:28 final size:27
Alignment explanation
Indices: 3181387--3181448 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
3181377 AAATGAAACT
*
3181387 AACAAGAAATATCAAGGGAAACAAAATC
1 AACAAGAAATATCAAGGGAAA-GAAATC
* *
3181415 AGCAAAAAATATCAAGGGAAAGGAAATC
1 AACAAGAAATATCAAGGGAAA-GAAATC
3181443 AACAAG
1 AACAAG
3181449 GAGGAAACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.60, C:0.13, G:0.18, T:0.10
Consensus pattern (27 bp):
AACAAGAAATATCAAGGGAAAGAAATC
Found at i:3184930 original size:27 final size:27
Alignment explanation
Indices: 3184889--3184940 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3184879 TACATTTTGA
*
3184889 CTTAGTTATTGGTTCGTATGGTTTCGT
1 CTTAGTTATTGGTTCATATGGTTTCGT
*
3184916 CTTAGTTATTTGTTCATATGGTTTC
1 CTTAGTTATTGGTTCATATGGTTTC
3184941 ATTTTGTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.12, G:0.21, T:0.54
Consensus pattern (27 bp):
CTTAGTTATTGGTTCATATGGTTTCGT
Found at i:3188287 original size:51 final size:51
Alignment explanation
Indices: 3188229--3188340 Score: 172
Period size: 51 Copynumber: 2.2 Consensus size: 51
3188219 AACGGGGTTG
*
3188229 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATC-GGAGTTA
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGA-TTA
* * *
3188280 GAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGATTG
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGATTA
3188331 GAGTATCCCC
1 GAGTATCCCC
3188341 TTGGAAATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 53 0.95
52 3 0.05
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGATTA
Found at i:3188313 original size:130 final size:129
Alignment explanation
Indices: 3188203--3188547 Score: 516
Period size: 130 Copynumber: 2.7 Consensus size: 129
3188193 CGGGGCTGGG
**
3188203 GTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATA
1 GTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATA
3188268 AAATC-GGAGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGATTGG
66 AAA-CAGG-GTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGATTGG
3188332 A
129 A
* ** ** *
3188333 GTATCCCCTTGGAAATAACGGGGTTAGAGTATCCCTAATGGTGAAAAATCGATGTTTTAGAAATA
1 GTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATA
*
3188398 AAACTGGGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGATTGGA
66 AAAC-AGGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGATTGGA
*
3188463 GTATCCCTTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AGTGTTTT-GAAAA
1 GTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAG-AAA
*
3188526 TAAAACCAGGGTTGGAGTATCC
64 TAAAA-CAGGGTTAGAGTATCC
3188548 ACTCGGAAAT
Statistics
Matches: 193, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
129 3 0.02
130 187 0.97
131 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (129 bp):
GTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATA
AAACAGGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGATTGGA
Found at i:3188417 original size:51 final size:51
Alignment explanation
Indices: 3188351--3188470 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
3188341 TTGGAAATAA
3188351 CGGGGTTAGAGTATCCCTAATGGTGAAAAATCGATGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCTAATGGTGAAAAATCGATGTTTTAGAAATAAAAC
* ** * * *
3188402 TGGGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCTAATGGTGAAAAATCGATGTTTTAGAAATAAAAC
* *
3188453 CGGGATTGGAGTATCCCT
1 CGGGGTTAGAGTATCCCT
3188471 TTGGAAATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCTAATGGTGAAAAATCGATGTTTTAGAAATAAAAC
Found at i:3188486 original size:79 final size:80
Alignment explanation
Indices: 3188403--3188609 Score: 264
Period size: 79 Copynumber: 2.6 Consensus size: 80
3188393 AAATAAAACT
* *
3188403 GGGGTTAGAGTATCCCCGATTGTGGAAAATTGA-TGTTTT-AGAAATAAAACC-GGGATTGGAGT
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGAGTGTTTTGA-AAATAAAACCAGGG-TTGGAGT
*
3188465 ATCC-CTTTGGAAATAAC
64 ATCCAC-TCGGAAATAAC
*
3188482 GGGGTTGGAGTATCCCCGATTATGAAAAATT-AGTGTTTTGAAAATAAAACCAGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGAGTGTTTTGAAAATAAAACCAGGGTTGGAGTAT
3188546 CCACTCGGAAATAAC
66 CCACTCGGAAATAAC
* * ** *
3188561 AGGGTTGGAGTATCCCCGATTGTAAAAAATTG-GCATTTTGGAAATAAAA
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGAGTGTTTTGAAAATAAAA
3188610 ACATGAATGA
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 107 0.95
80 5 0.04
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (80 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATTGAGTGTTTTGAAAATAAAACCAGGGTTGGAGTAT
CCACTCGGAAATAAC
Found at i:3192946 original size:27 final size:25
Alignment explanation
Indices: 3192913--3192996 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 25
3192903 AGGATAATCC
3192913 TAATCATAGTCCTAATAGTAATTAA
1 TAATCATAGTCCTAATAGTAATTAA
* *
3192938 TAAGCTCATAAAGTCCTAACTAAGGCAA-TCA
1 TAA--TCAT--AGTCCTAA-T-A-GTAATTAA
*
3192969 TAATCACAGTCCTAATAGTAATTAA
1 TAATCATAGTCCTAATAGTAATTAA
3192994 TAA
1 TAA
3192997 AGATAAAGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
24 3 0.07
25 9 0.20
26 1 0.02
27 12 0.26
29 11 0.24
30 1 0.02
31 6 0.13
32 3 0.07
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (25 bp):
TAATCATAGTCCTAATAGTAATTAA
Found at i:3195843 original size:28 final size:28
Alignment explanation
Indices: 3195810--3195881 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
3195800 AAATAAAGCT
3195810 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTATCCCC-CGAGAAATAAC
* * * *
3195838 GGGGTTAGAGTATTCTCCGATGAAATAAT
1 GGGGTTGGAGTATCCCCCGA-GAAATAAC
*
3195867 AGGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
3195882 TCGATTGTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
27 3 0.09
28 14 0.40
29 18 0.51
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCGAGAAATAAC
Found at i:3195929 original size:51 final size:51
Alignment explanation
Indices: 3195870--3195984 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
3195860 AAATAATAGG
*
3195870 GTTGGAGTAT-CCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAAA
1 GTTGGAGTATCCCT-GATTGTGAAAAATTGGTGTTTTAGAAATAAAATCAAA
* * ***
3195921 GTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCAAA
3195972 GTTGGAGTATCCC
1 GTTGGAGTATCCC
3195985 CTCGGAAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 54 0.95
52 3 0.05
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCAAA
Found at i:3195999 original size:159 final size:159
Alignment explanation
Indices: 3195701--3196009 Score: 388
Period size: 159 Copynumber: 1.9 Consensus size: 159
3195691 ATCCCCTCGA
* ** ***
3195701 AAATAATGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGATTTAGAAATAAGGTCGGGGTTG
1 AAATAATAGGGTTGGAGTATCCTCGATTATGAAAAATTGATGATTTAGAAATAAAATCAAAGTTG
* * *
3195766 AAGTATCTCCAGTTATGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTATCCCCTCGA
66 AAGTATCTCCAGTTATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA
3195831 AAATAACGGGGTTAGAGTATTCTCCGATG
131 AAATAACGGGGTTAGAGTATTCTCCGATG
* * * *
3195860 AAATAATAGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAAAGTTG
1 AAATAATAGGGTTGGAGTATCCTCGATTATGAAAAATTGATGATTTAGAAATAAAATCAAAGTTG
* * * *** *
3195925 GAGTATC-CCTGATTGTG-GAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
66 AAGTATCTCCAG-TTATGAG-AAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
* *
3195988 GGAAATGACGGGGTTAGAGTAT
129 GAAAATAACGGGGTTAGAGTAT
3196010 CCCCAATTGT
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
158 4 0.03
159 122 0.97
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (159 bp):
AAATAATAGGGTTGGAGTATCCTCGATTATGAAAAATTGATGATTTAGAAATAAAATCAAAGTTG
AAGTATCTCCAGTTATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA
AAATAACGGGGTTAGAGTATTCTCCGATG
Found at i:3196061 original size:79 final size:79
Alignment explanation
Indices: 3195922--3196223 Score: 320
Period size: 79 Copynumber: 3.8 Consensus size: 79
3195912 AAAATCAAAG
* * * * * *
3195922 TTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAAGAAAATCGGGGTTGGAGTATCCCCT
* *
3195987 CGGAAATGACGGGG
66 CGGAAATAACGGGA
* * * * * *
3196001 TTAGAGTATCCCCAATTGTGAAAAACTGGTGTTTTGGGAAGAAAATCGGGGTTGGTGTATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAAGAAAATCGGGGTTGGAGTATCCCCT
* *
3196066 CGAAAATAATGGGA
66 CGGAAATAACGGGA
* * * * * *
3196080 TTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGAAAATG-AAATCGAGGTTAGAGTATCCTC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAA-GAAAATCGGGGTTGGAGTATCCCC
3196144 TCGGAAATAACGGGA
65 TCGGAAATAACGGGA
* ** * *
3196159 TTGGAGTATCTCCGATTATGAAAAATTAATGTTTTGCAAA-ATAAAACTGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAAGA-AAATC-GGGGTTGGAGTATCCC
3196223 C
64 C
3196224 GAGATGAAGA
Statistics
Matches: 183, Mismatches: 36, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
79 168 0.92
80 15 0.08
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAAGAAAATCGGGGTTGGAGTATCCCCT
CGGAAATAACGGGA
Found at i:3201353 original size:24 final size:23
Alignment explanation
Indices: 3201310--3201365 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
3201300 TGTCCAACCT
*
3201310 TTTTTTTTGCTAACTTTTTTTTA
1 TTTTTTTTGCTAACTGTTTTTTA
3201333 TTTGTTTTTGCTGAA-TGTTTTTTA
1 TTT-TTTTTGCT-AACTGTTTTTTA
3201357 TTTTTTTTG
1 TTTTTTTTG
3201366 AAATGATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 9 0.30
24 19 0.63
25 2 0.07
ACGTcount: A:0.11, C:0.05, G:0.11, T:0.73
Consensus pattern (23 bp):
TTTTTTTTGCTAACTGTTTTTTA
Found at i:3204182 original size:61 final size:62
Alignment explanation
Indices: 3204086--3204204 Score: 188
Period size: 61 Copynumber: 1.9 Consensus size: 62
3204076 GCTTTTATCT
*
3204086 TTATTGATTACTATTAAGATTGTGATTAGGATTGTCCTTGTTT-TGTTAGGACTCTATAAACC
1 TTATTGATTACTATTAAGATTGTGATTAGAATTGTCCTTGTTTAT-TTAGGACTCTATAAACC
* *
3204148 TTATTGATTACTATT-ATATTGTGATTAGAATTGTCCTTGTTTATTTAGGACTTTATA
1 TTATTGATTACTATTAAGATTGTGATTAGAATTGTCCTTGTTTATTTAGGACTCTATA
3204205 GATTTTTGGC
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
61 37 0.70
62 16 0.30
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (62 bp):
TTATTGATTACTATTAAGATTGTGATTAGAATTGTCCTTGTTTATTTAGGACTCTATAAACC
Found at i:3208488 original size:56 final size:55
Alignment explanation
Indices: 3208394--3208537 Score: 157
Period size: 56 Copynumber: 2.6 Consensus size: 55
3208384 TTTAAGATTG
* **
3208394 AAAAGGGTTATAACACTAGAACACTTTTTTTTTGTTTTTT-TATGGATGATGAACAAC
1 AAAA-GGTTAGAACACTAGAACAC-TTTTTTTTGTTTTTTATA-AAATGATGAACAAC
* **
3208451 AAAAGGTTAGAACATTAGAACA-TTTTTTTTGCATTTTTTATAAAATGATGAACAGT
1 AAAAGGTTAGAACACTAGAACACTTTTTTTTG--TTTTTTATAAAATGATGAACAAC
* *
3208507 AAAGGGTTAGAAAACTAGAACACTTTTTTTT
1 AAAAGGTTAGAACACTAGAACACTTTTTTTT
3208538 TTATAGATGA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
54 9 0.12
56 51 0.69
57 14 0.19
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (55 bp):
AAAAGGTTAGAACACTAGAACACTTTTTTTTGTTTTTTATAAAATGATGAACAAC
Found at i:3209094 original size:81 final size:80
Alignment explanation
Indices: 3208956--3209107 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 80
3208946 CTAAACAAAG
* * * * * * *
3208956 ACAATCCTAACCAATAAGAAAAAGTTTATTCCTTCTCTTAATTTGGTTAGGACTTATCTAAACAA
1 ACAATCCTAACCAATAAGAAAAAGTCTACTCCTTATCATAATCTGATTAGGAATTATCTAAACAA
*
3209021 CTTAAAATCCTAAAC
66 ATTAAAATCCTAAAC
* **
3209036 ACAATCCTAATCAATAAGGGTAAAGTCTACTCCTTATCATAATCTGATTAGGAATTATCTAAACA
1 ACAATCCTAACCAATAA-GAAAAAGTCTACTCCTTATCATAATCTGATTAGGAATTATCTAAACA
3209101 AATTAAA
65 AATTAAA
3209108 GTTGAAAAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
80 16 0.27
81 44 0.73
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (80 bp):
ACAATCCTAACCAATAAGAAAAAGTCTACTCCTTATCATAATCTGATTAGGAATTATCTAAACAA
ATTAAAATCCTAAAC
Done.