Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 72 of 226
Found at i:23014692 original size:17 final size:18
Alignment explanation
Indices: 23014665--23014706 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23014655 CATGAGATAG
23014665 AAAAA-AATAA-GGAAAA
1 AAAAAGAATAAGGGAAAA
*
23014681 AAACAGAATAAGGGAAAA
1 AAAAAGAATAAGGGAAAA
23014699 AAAAAGAA
1 AAAAAGAA
23014707 GAATTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 5 0.23
18 13 0.59
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (18 bp):
AAAAAGAATAAGGGAAAA
Found at i:23049114 original size:8 final size:8
Alignment explanation
Indices: 23049105--23049134 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23049095 TAGACTATGT
*
23049105 ATGAATGT
1 ATGAATGC
23049113 ATGAATGC
1 ATGAATGC
23049121 ATGAATGC
1 ATGAATGC
23049129 ATGAAT
1 ATGAAT
23049135 TTGCCATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (8 bp):
ATGAATGC
Found at i:23056056 original size:27 final size:27
Alignment explanation
Indices: 23056017--23056527 Score: 435
Period size: 27 Copynumber: 19.1 Consensus size: 27
23056007 AATGGGCCTC
* *
23056017 TAAAATGACCGAAATACCCTCGAT-GGG
1 TAAAATGATCGAAATACCC-CCATAGGG
*
23056044 TAAAATGATCGAAATACCCTCGA-AGGG
1 TAAAATGATCGAAATACCC-CCATAGGG
* * * *
23056071 TAAAGTTA-CTAAAATACCCTCGA-AGGG
1 TAAAATGATC-GAAATACCC-CCATAGGG
* * *
23056098 TAAAATTA-CAAATATACCCTCGAT-GGG
1 TAAAATGATCGAA-ATACCC-CCATAGGG
* *
23056125 TAAAATTA-CTGAAATACCCTCA-ATGGG
1 TAAAATGATC-GAAATACCCCCATA-GGG
** *
23056152 T-AAATTTTC--AATACCCCCATAAGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
23056176 TAAAATGA-CTAAAATACCCCCATAGGG
1 TAAAATGATC-GAAATACCCCCATAGGG
* * * *
23056203 TAAAATGACCAAAATA-CTCCATATGG
1 TAAAATGATCGAAATACCCCCATAGGG
* *
23056229 TAAAATTATCGAAATACCCCCATAAGG
1 TAAAATGATCGAAATACCCCCATAGGG
** *
23056256 TAAAATGA-CTGAAATATTCCTATAGGG
1 TAAAATGATC-GAAATACCCCCATAGGG
*
23056283 TAAAATGATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
**
23056310 TAAAATGATCGAAATACCTTCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* * *
23056337 TAAAATGACCGAAACACCCCCATAGGA
1 TAAAATGATCGAAATACCCCCATAGGG
*
23056364 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
23056391 TAAAATGATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
23056418 TAAAATGA-C-AAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* *
23056443 TAGAATGATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
23056470 -AGAAATGATCGAAATACCCTCATAGGG
1 TA-AAATGATCGAAATACCCCCATAGGG
* * * *
23056497 TAAAATAACCAAAATACCCCCATCGGG
1 TAAAATGATCGAAATACCCCCATAGGG
23056524 TAAA
1 TAAA
23056528 GTGACTGTTA
Statistics
Matches: 414, Mismatches: 49, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.03
25 28 0.07
26 35 0.08
27 333 0.80
28 5 0.01
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCATAGGG
Found at i:23057299 original size:27 final size:27
Alignment explanation
Indices: 23057267--23057455 Score: 197
Period size: 27 Copynumber: 7.0 Consensus size: 27
23057257 TGTTATGATC
* **
23057267 GAAATACCCTGATAAGGTTGAATGACT
1 GAAATACCCTCATAAGGTAAAATGACT
*
23057294 GAAATACCCTCATAGGGTAAAATGA-T
1 GAAATACCCTCATAAGGTAAAATGACT
* *
23057320 CGAAATACCCCCATAGGGTAAAATGA-T
1 -GAAATACCCTCATAAGGTAAAATGACT
* * *
23057347 CAAAATACCCCCATAGGGTAAAATGACT
1 -GAAATACCCTCATAAGGTAAAATGACT
23057375 GAAATACCC-CATAAGGTAAAATGACT
1 GAAATACCCTCATAAGGTAAAATGACT
*
23057401 GAAATACCCTCAT-AGTGTAGAATGACT
1 GAAATACCCTCATAAG-GTAAAATGACT
* * * *
23057428 TAAATACCCCCATAGGGTAAAATAACT
1 GAAATACCCTCATAAGGTAAAATGACT
23057455 G
1 G
23057456 TTATTTCCCC
Statistics
Matches: 142, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 28 0.20
27 112 0.79
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (27 bp):
GAAATACCCTCATAAGGTAAAATGACT
Found at i:23057345 original size:54 final size:54
Alignment explanation
Indices: 23057267--23057455 Score: 231
Period size: 54 Copynumber: 3.5 Consensus size: 54
23057257 TGTTATGATC
** **
23057267 GAAATACCCTGATAAGGTTGAATGACTGAAATACCCTCATAGGGTAAAATGA-T
1 GAAATACCCCCATAAGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACT
* * *
23057320 CGAAATACCCCCATAGGGTAAAATGA-TCAAAATACCCCCATAGGGTAAAATGACT
1 -GAAATACCCCCATAAGGTAAAATGACT-GAAATACCCTCATAGGGTAAAATGACT
* *
23057375 GAAATA-CCCCATAAGGTAAAATGACTGAAATACCCTCATAGTGTAGAATGACT
1 GAAATACCCCCATAAGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACT
* * *
23057428 TAAATACCCCCATAGGGTAAAATAACTG
1 GAAATACCCCCATAAGGTAAAATGACTG
23057456 TTATTTCCCC
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
53 46 0.40
54 69 0.59
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (54 bp):
GAAATACCCCCATAAGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACT
Found at i:23057433 original size:80 final size:81
Alignment explanation
Indices: 23057287--23057455 Score: 245
Period size: 80 Copynumber: 2.1 Consensus size: 81
23057277 GATAAGGTTG
*
23057287 AATGACTGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCAAAA
1 AATGACTGAAATACCCTCATAAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCAAAA
23057352 TACCCCCATAGGGTAA
66 TACCCCCATAGGGTAA
* * * *
23057368 AATGACTGAAATACCC-CATAAGGTAAAATGA-CTGAAATACCCTCATAGTGTAGAATGA-CTTA
1 AATGACTGAAATACCCTCATAAGGTAAAATGATC-GAAATACCCCCATAGGGTAAAATGATC-AA
23057430 AATACCCCCATAGGGTAA
64 AATACCCCCATAGGGTAA
*
23057448 AATAACTG
1 AATGACTG
23057456 TTATTTCCCC
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
79 2 0.03
80 62 0.77
81 16 0.20
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (81 bp):
AATGACTGAAATACCCTCATAAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCAAAA
TACCCCCATAGGGTAA
Found at i:23060997 original size:25 final size:25
Alignment explanation
Indices: 23060979--23061032 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
23060969 GAGCTTCTTA
23060979 ATATTTGGCTCACAAGAGCTTCCAG
1 ATATTTGGCTCACAAGAGCTTCCAG
* * *
23061004 ATTTTTGGCTTACAAGAGCTTCCTG
1 ATATTTGGCTCACAAGAGCTTCCAG
23061029 ATAT
1 ATAT
23061033 ACAAATCGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (25 bp):
ATATTTGGCTCACAAGAGCTTCCAG
Found at i:23064997 original size:28 final size:28
Alignment explanation
Indices: 23064957--23065015 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
23064947 CATCAGGTGA
23064957 GAAAAAACGATATATGAAATGGTTATAT
1 GAAAAAACGATATATGAAATGGTTATAT
* * *
23064985 GAAAAAATGATATGTGTAATGGTTATAT
1 GAAAAAACGATATATGAAATGGTTATAT
23065013 GAA
1 GAA
23065016 TTGGTTACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (28 bp):
GAAAAAACGATATATGAAATGGTTATAT
Found at i:23065054 original size:40 final size:41
Alignment explanation
Indices: 23064967--23065056 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
23064957 GAAAAAACGA
* * *
23064967 TATATGAAATGGTTATATGAAAAAATGATATGTGTAATGGT
1 TATATGAATTGGTTACATGAAAAAATGATATATGTAATGGT
*
23065008 TATATGAATTGGTTACATGGAAAAATGAT-TATGTAATGGT
1 TATATGAATTGGTTACATGAAAAAATGATATATGTAATGGT
23065048 TATATGAAT
1 TATATGAAT
23065057 AAGTTATGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 19 0.42
41 26 0.58
ACGTcount: A:0.40, C:0.01, G:0.21, T:0.38
Consensus pattern (41 bp):
TATATGAATTGGTTACATGAAAAAATGATATATGTAATGGT
Found at i:23071783 original size:21 final size:21
Alignment explanation
Indices: 23071758--23071801 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23071748 AACATTACGG
*
23071758 CACCAAACTACTATGTCATGA
1 CACCAAACTACTATGTCACGA
* *
23071779 CACCACACTCCTATGTCACGA
1 CACCAAACTACTATGTCACGA
23071800 CA
1 CA
23071802 TGGACAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.36, G:0.09, T:0.20
Consensus pattern (21 bp):
CACCAAACTACTATGTCACGA
Found at i:23075098 original size:79 final size:81
Alignment explanation
Indices: 23074962--23075146 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
23074952 TTGAATGATG
* *
23074962 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
23075026 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
23075041 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
23075103 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
23075121 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23075147 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:23075160 original size:40 final size:40
Alignment explanation
Indices: 23074963--23075146 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
23074953 TGAATGATGT
* * * *
23074963 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
23075003 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
23075043 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
23075081 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23075122 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23075147 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:23075168 original size:79 final size:79
Alignment explanation
Indices: 23075015--23075179 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
23075005 GGACTAAGAT
* * **
23075015 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
23075080 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
23075094 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
23075157 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23075173 CCGAAGG
1 CCGAAGG
23075180 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23078640 original size:156 final size:156
Alignment explanation
Indices: 23078354--23078660 Score: 526
Period size: 156 Copynumber: 2.0 Consensus size: 156
23078344 CATATTTGTA
* *
23078354 AATTAGAAGGTGTATTAAATGAATATTGGTCGCTATGACACAACACATATGACTCGATGTCGCAA
1 AATTAGAAGGTGTATTAAATGAATATTGGTCGCTATGACACAACACAGATGACTCGATATCGCAA
*
23078419 CATAAGGAAAAGAATGGAGAAAAATCAACTCTGGCTTTGATGTCATGACACAGACTGAGGATGTC
66 CATAAGGAAAAGAATGGAGAAAAATCAACTCTGGCTTTGATGTCACGACACAGACTGAGGATGTC
23078484 GCGACATACCCCTGAAGATAGCTGAT
131 GCGACATACCCCTGAAGATAGCTGAT
23078510 AATTAGAAGGTGTATTAAATGAATATTGGTCGCTATGACACAACACAGATGACTCGATATCGCAA
1 AATTAGAAGGTGTATTAAATGAATATTGGTCGCTATGACACAACACAGATGACTCGATATCGCAA
* * * * *
23078575 CAT-AGAGAACAGAATGGAGAAAAATCAAGTTTGGCTTTGATGTCACGACATAGACTGAGGGTGT
66 CATAAG-GAAAAGAATGGAGAAAAATCAACTCTGGCTTTGATGTCACGACACAGACTGAGGATGT
23078639 CGCGACATACCCCTGAAGATAG
130 CGCGACATACCCCTGAAGATAG
23078661 TTGAAAAGAA
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
155 2 0.01
156 140 0.99
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (156 bp):
AATTAGAAGGTGTATTAAATGAATATTGGTCGCTATGACACAACACAGATGACTCGATATCGCAA
CATAAGGAAAAGAATGGAGAAAAATCAACTCTGGCTTTGATGTCACGACACAGACTGAGGATGTC
GCGACATACCCCTGAAGATAGCTGAT
Found at i:23097583 original size:20 final size:21
Alignment explanation
Indices: 23097534--23097584 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
23097524 GTATCGATCC
23097534 GGTATCGATA-ATTTTCTTAA
1 GGTATCGATATATTTTCTTAA
*
23097554 GGTACCGATATATTTTC-TAA
1 GGTATCGATATATTTTCTTAA
*
23097574 GGTATTGATAT
1 GGTATCGATAT
23097585 TCCTGCTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (21 bp):
GGTATCGATATATTTTCTTAA
Found at i:23100136 original size:19 final size:21
Alignment explanation
Indices: 23100095--23100140 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23100085 TCATAGGCCT
**
23100095 ACACGGCTGTGTGACTGAGAC
1 ACACGGCTGTAAGACTGAGAC
* *
23100116 ACACGGCTGTAAGACTAACAC
1 ACACGGCTGTAAGACTGAGAC
23100137 ACAC
1 ACAC
23100141 ACCCATGTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (21 bp):
ACACGGCTGTAAGACTGAGAC
Found at i:23100285 original size:66 final size:66
Alignment explanation
Indices: 23100208--23100334 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 66
23100198 TGTGAAAAAT
** *
23100208 TTAACACAATTTTAGAACCAAAGAAGACACGGTCATGTGACTGAATGACACACTCATGTGACAGA
1 TTAACACAATTTTAGAACCAAAGAAGACACGACCATGTGACTGAATGACACACCCATGTGACAGA
23100273 A
66 A
** * *
23100274 TTAACACAATTTTAGAAGTAGAGAAGACACGACCATGTGACTGAATGATACACCCATGTGA
1 TTAACACAATTTTAGAACCAAAGAAGACACGACCATGTGACTGAATGACACACCCATGTGA
23100335 TAGTGATGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (66 bp):
TTAACACAATTTTAGAACCAAAGAAGACACGACCATGTGACTGAATGACACACCCATGTGACAGA
A
Found at i:23101532 original size:31 final size:32
Alignment explanation
Indices: 23101496--23101560 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
23101486 CTTAGATAAT
23101496 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
23101527 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
23101559 TT
1 TT
23101561 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:23107727 original size:31 final size:32
Alignment explanation
Indices: 23107691--23107755 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
23107681 CTTAGATAAT
23107691 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
23107722 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
23107754 TT
1 TT
23107756 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:23109975 original size:40 final size:40
Alignment explanation
Indices: 23109938--23110123 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
23109928 GCTACTCGTT
* *
23109938 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
23109978 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23110018 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
23110058 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
23110099 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23110124 CATCATTCAA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.89
41 12 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23118067 original size:19 final size:20
Alignment explanation
Indices: 23118043--23118103 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
23118033 ATATGAAGGA
23118043 GAGACACAC-CCGTGTGACT
1 GAGACACACACCGTGTGACT
*
23118062 GAGACACACGACCGTGTGGCT
1 GAGACACAC-ACCGTGTGACT
*
23118083 AAGACACACACCTGTGTGACT
1 GAGACACACACC-GTGTGACT
23118104 AGGTTACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 9 0.25
20 3 0.08
21 24 0.67
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGACACACACCGTGTGACT
Found at i:23132660 original size:4 final size:4
Alignment explanation
Indices: 23132651--23132682 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
23132641 TTAATAAAAT
23132651 ATTA ATTA ATTA A-TA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
23132683 AAATATCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:23132665 original size:19 final size:19
Alignment explanation
Indices: 23132641--23132687 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
23132631 ACTAAAAATC
23132641 TTAATAAA-ATATTAATTAA
1 TTAATAAATA-ATTAATTAA
*
23132660 TTAATAATTAATTAATTAA
1 TTAATAAATAATTAATTAA
23132679 TTAA-AAATA
1 TTAATAAATA
23132688 TCACAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAATAAATAATTAATTAA
Found at i:23132676 original size:15 final size:15
Alignment explanation
Indices: 23132651--23132679 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23132641 TTAATAAAAT
23132651 ATTAATTAATTAATA
1 ATTAATTAATTAATA
23132666 ATTAATTAATTAAT
1 ATTAATTAATTAAT
23132680 TAAAAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATTAATTAATA
Found at i:23132931 original size:18 final size:18
Alignment explanation
Indices: 23132908--23132943 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23132898 GGTCCTTCAA
23132908 ATTTTTCATATTTAAATT
1 ATTTTTCATATTTAAATT
23132926 ATTTTTCATATTTAAATT
1 ATTTTTCATATTTAAATT
23132944 TTAACACCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTCATATTTAAATT
Found at i:23137104 original size:24 final size:25
Alignment explanation
Indices: 23137076--23137122 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
23137066 TCATATTTTT
*
23137076 AAAATGATAATA-TGTAAAAGAATA
1 AAAATGATAAAATTGTAAAAGAATA
*
23137100 AAAATTATAAAATTGTAAAAGAA
1 AAAATGATAAAATTGTAAAAGAA
23137123 ATTCTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.26
Consensus pattern (25 bp):
AAAATGATAAAATTGTAAAAGAATA
Found at i:23138385 original size:12 final size:11
Alignment explanation
Indices: 23138359--23138444 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
23138349 ATTTTAAAAA
*
23138359 TTAAAAA-AAT
1 TTAAAAATATT
23138369 TTAAAAAGTATT
1 TTAAAAA-TATT
23138381 TTAAAAATATT
1 TTAAAAATATT
* **
23138392 TTAAAATTAAAAAA
1 TT-AAA--AATATT
* *
23138406 TAAAAAAAATT
1 TTAAAAATATT
*
23138417 TTAAAATTATT
1 TTAAAAATATT
*
23138428 TTAAAATTATT
1 TTAAAAATATT
23138439 TTAAAA
1 TTAAAA
23138445 TTAAAAAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
10 7 0.11
11 35 0.57
12 12 0.20
13 3 0.05
14 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:23138416 original size:47 final size:47
Alignment explanation
Indices: 23138354--23138456 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
23138344 AATTTATTTT
*
23138354 AAAAATTAAAAAAATTTAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATAAAAAAAATTTAAAAAGTATTTTAAAAATATTTTAAAATTA
* * *
23138401 AAAAATAAAAAAAATTTTAAAATTATTTTAAAATTATTTTAAAATTA
1 AAAAATAAAAAAAATTTAAAAAGTATTTTAAAAATATTTTAAAATTA
23138448 AAAAATAAA
1 AAAAATAAA
23138457 TATATTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (47 bp):
AAAAATAAAAAAAATTTAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:23138445 original size:11 final size:11
Alignment explanation
Indices: 23138414--23138447 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
23138404 AATAAAAAAA
23138414 ATTTTAAAATT
1 ATTTTAAAATT
23138425 ATTTTAAAATT
1 ATTTTAAAATT
23138436 ATTTTAAAATT
1 ATTTTAAAATT
23138447 A
1 A
23138448 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:23143129 original size:13 final size:13
Alignment explanation
Indices: 23143111--23143150 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
23143101 CGTTCTTCAT
23143111 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
23143124 TGCTTTTCAGAAG
1 TGCTTTTGAAAAG
23143137 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
23143150 T
1 T
23143151 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:23147836 original size:21 final size:19
Alignment explanation
Indices: 23147811--23147858 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
23147801 GTTGATTAAT
* *
23147811 TTAATTAATTATGTTTTTATC
1 TTAATTAATCAT-ATTTTA-C
23147832 TTAATTAATCATATTTTAC
1 TTAATTAATCATATTTTAC
23147851 TTAATTAA
1 TTAATTAA
23147859 GCAACAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.36
20 5 0.20
21 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAATTAATCATATTTTAC
Found at i:23153497 original size:21 final size:22
Alignment explanation
Indices: 23153445--23153501 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
23153435 TGTCCTTGGG
*
23153445 TCACATGGCCGTGTGCCTCCCT
1 TCACATGGGCGTGTGCCTCCCT
* *
23153467 TTACACGGGCGTGTGCCT-CCT
1 TCACATGGGCGTGTGCCTCCCT
23153488 TCACATGGGCGTGT
1 TCACATGGGCGTGT
23153502 AGACCCTCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.11, C:0.33, G:0.28, T:0.28
Consensus pattern (22 bp):
TCACATGGGCGTGTGCCTCCCT
Found at i:23155471 original size:4 final size:4
Alignment explanation
Indices: 23155462--23155489 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
23155452 TCATAATATT
23155462 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
23155490 GCAGACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:23156889 original size:36 final size:36
Alignment explanation
Indices: 23156837--23156913 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
23156827 AAATTAATAC
* * *
23156837 AGTTCGTCATATTAATATAGA-TCACCAATTTAACAT
1 AGTTCGCCATAATAATATA-ATTCACCAAGTTAACAT
*
23156873 AGTTCGCCATAATAATATAATTTACCAAGTTAACAT
1 AGTTCGCCATAATAATATAATTCACCAAGTTAACAT
*
23156909 GGTTC
1 AGTTC
23156914 ACAATATAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (36 bp):
AGTTCGCCATAATAATATAATTCACCAAGTTAACAT
Found at i:23163261 original size:47 final size:46
Alignment explanation
Indices: 23163157--23163262 Score: 106
Period size: 47 Copynumber: 2.3 Consensus size: 46
23163147 ATATTATAAT
* * * *
23163157 ATATTATTATTCTAAATTTATCATTAACATTATTTTAGGTTTATCAT
1 ATATTATTATT-TAAAGTTAACATTAACATTATTTTAGATTTATCAC
* * **
23163204 GTATTTTTATTTAAAGTTAACATATATTATTATTTT-GAATTTATCAC
1 ATATTATTATTTAAAGTTAACAT-TAACATTATTTTAG-ATTTATCAC
23163251 ATATTATTATTT
1 ATATTATTATTT
23163263 TTTAAAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
46 11 0.23
47 36 0.77
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (46 bp):
ATATTATTATTTAAAGTTAACATTAACATTATTTTAGATTTATCAC
Found at i:23163274 original size:27 final size:26
Alignment explanation
Indices: 23163223--23163276 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
23163213 TTTAAAGTTA
* *
23163223 ACATATATTATTATTTTGAATTTATC
1 ACATATATTATTATTTTAAAATTATC
23163249 ACATATTATTATT-TTTTAAAAATTATC
1 ACATA-TATTATTATTTT-AAAATTATC
23163276 A
1 A
23163277 TCAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (26 bp):
ACATATATTATTATTTTAAAATTATC
Found at i:23171378 original size:11 final size:11
Alignment explanation
Indices: 23171362--23171393 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
23171352 ACCCCAAACA
23171362 TATACATATCT
1 TATACATATCT
23171373 TATACATATCT
1 TATACATATCT
*
23171384 TATACTTATC
1 TATACATATC
23171394 ATGATCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (11 bp):
TATACATATCT
Found at i:23180574 original size:18 final size:20
Alignment explanation
Indices: 23180552--23180589 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23180542 ATAAAAAATT
23180552 AAAAAAA-TTAATTGAGCTA
1 AAAAAAACTTAATTGAGCTA
23180571 AAAAAAACTTAATTGAGCT
1 AAAAAAACTTAATTGAGCT
23180590 TTCAATGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (20 bp):
AAAAAAACTTAATTGAGCTA
Found at i:23183080 original size:24 final size:24
Alignment explanation
Indices: 23183053--23183130 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
23183043 TTTGGTATAC
23183053 GAACCCCCATATGTTTTAATTTGT
1 GAACCCCCATATGTTTTAATTTGT
** * * * *
23183077 GAACCCTAATATGATTTAGTATAT
1 GAACCCCCATATGTTTTAATTTGT
23183101 GAACCCCCATATGTTTT-ATTATGT
1 GAACCCCCATATGTTTTAATT-TGT
23183125 GAACCC
1 GAACCC
23183131 TTATGGATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (24 bp):
GAACCCCCATATGTTTTAATTTGT
Found at i:23183099 original size:48 final size:47
Alignment explanation
Indices: 23183041--23183193 Score: 166
Period size: 48 Copynumber: 3.2 Consensus size: 47
23183031 AACACTTATG
*
23183041 GATTTGGTATACGAACCCCCATATGTTTTAATT-TGTGAACCCTAATAT
1 GATTTAGTATACGAACCCCCATATGTTTT-ATTATGTGAACCCT-ATAT
*
23183089 GATTTAGTATATGAACCCCCATATGTTTTATTATGTGAACCCT-TAT
1 GATTTAGTATACGAACCCCCATATGTTTTATTATGTGAACCCTATAT
* * ** * * * *
23183135 GGATTTAATATGCGAACCCTTATGTGATTTATTATGCGAACCCTCATGT
1 -GATTTAGTATACGAACCCCCATATGTTTTATTATGTGAACCCT-ATAT
23183184 GATTTAGTAT
1 GATTTAGTAT
23183194 GTAAACCTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
46 3 0.03
47 38 0.43
48 46 0.52
49 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (47 bp):
GATTTAGTATACGAACCCCCATATGTTTTATTATGTGAACCCTATAT
Found at i:23183195 original size:71 final size:70
Alignment explanation
Indices: 23183067--23183204 Score: 159
Period size: 71 Copynumber: 2.0 Consensus size: 70
23183057 CCCCATATGT
* * * * * *
23183067 TTTAATTTGTGAACCCTAATATGATTTAGTATATGAACCCCCATATGTTTTATTATGTGAACCCT
1 TTTAATATGCGAACCCTAATATGATTTAGTATACGAACCCCCATATGATTTAGTATGT-AAACCT
23183132 TATGGA
65 TATGGA
* * * * * *
23183138 TTTAATATGCGAACCCTTATGTGATTTATTATGCGAACCCTCATGTGATTTAGTATGTAAACCTT
1 TTTAATATGCGAACCCTAATATGATTTAGTATACGAACCCCCATATGATTTAGTATGTAAACCTT
23183203 AT
66 AT
23183205 ATGCGAACCA
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
70 8 0.15
71 47 0.85
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (70 bp):
TTTAATATGCGAACCCTAATATGATTTAGTATACGAACCCCCATATGATTTAGTATGTAAACCTT
ATGGA
Found at i:23183200 original size:24 final size:24
Alignment explanation
Indices: 23183074--23183200 Score: 121
Period size: 24 Copynumber: 5.3 Consensus size: 24
23183064 TGTTTTAATT
* *
23183074 TGTGAACCCTAATATGATTTAGTA
1 TGTGAACCCTCATGTGATTTAGTA
* * * * *
23183098 TATGAACCCCCATATGTTTTATTA
1 TGTGAACCCTCATGTGATTTAGTA
* *
23183122 TGTGAACCCTTATG-GATTTAATA
1 TGTGAACCCTCATGTGATTTAGTA
* * *
23183145 TGCGAACCCTTATGTGATTTATTA
1 TGTGAACCCTCATGTGATTTAGTA
*
23183169 TGCGAACCCTCATGTGATTTAGTA
1 TGTGAACCCTCATGTGATTTAGTA
*
23183193 TGTAAACC
1 TGTGAACC
23183201 TTATATGCGA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
23 20 0.24
24 65 0.76
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (24 bp):
TGTGAACCCTCATGTGATTTAGTA
Found at i:23183203 original size:47 final size:47
Alignment explanation
Indices: 23183115--23183204 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
23183105 CCCCATATGT
* * *
23183115 TTTATTATGTGAACCCTTATGGATTTAATATGCGAACCCTTATGTGA
1 TTTATTATGCGAACCCTCATGGATTTAATATGCGAAACCTTATGTGA
* *
23183162 TTTATTATGCGAACCCTCATGTGATTTAGTATG-TAAACCTTAT
1 TTTATTATGCGAACCCTCATG-GATTTAATATGCGAAACCTTAT
23183205 ATGCGAACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
47 27 0.73
48 10 0.27
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (47 bp):
TTTATTATGCGAACCCTCATGGATTTAATATGCGAAACCTTATGTGA
Found at i:23184040 original size:3 final size:3
Alignment explanation
Indices: 23184032--23184087 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
23184022 AGCATCTCGT
23184032 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23184080 TTA TTA TT
1 TTA TTA TT
23184088 TCCATTGAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23184685 original size:37 final size:40
Alignment explanation
Indices: 23184639--23184730 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 40
23184629 AAATTTGTGC
*
23184639 TTAAAAATAACAT-ATAATAA-ATAATAAA-ATGTATGAT-
1 TTAAAAATAA-ATAATAATAACACAATAAATATGTATGATA
* *
23184676 TTAAAAATAATTAATAATAACACATTAAATATGTATGATA
1 TTAAAAATAAATAATAATAACACAATAAATATGTATGATA
23184716 TT-AAAATAAA-AATAA
1 TTAAAAATAAATAATAA
23184731 ATTAAATTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 1 0.02
37 17 0.36
38 11 0.23
39 16 0.34
40 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (40 bp):
TTAAAAATAAATAATAATAACACAATAAATATGTATGATA
Found at i:23188826 original size:25 final size:26
Alignment explanation
Indices: 23188796--23188853 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
23188786 ACAGCTCTTA
23188796 TGAGCTTCCCGATT-A-TGGCTCTTTG
1 TGAGCTTCCCG-TTAATTGGCTCTTTG
*
23188821 TGAGCTTCTCGTTAATTGGCTCTTTG
1 TGAGCTTCCCGTTAATTGGCTCTTTG
23188847 TGAGCTT
1 TGAGCTT
23188854 TTCTATAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 11 0.37
26 17 0.57
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.43
Consensus pattern (26 bp):
TGAGCTTCCCGTTAATTGGCTCTTTG
Found at i:23188924 original size:24 final size:25
Alignment explanation
Indices: 23188897--23188980 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 25
23188887 TGCTATCCGA
23188897 AGCTTCCTGTTAATGGCTCTTCA-G
1 AGCTTCCTGTTAATGGCTCTTCATG
* *** * *
23188921 AGCTACCCAATATTGGCTC-GCATG
1 AGCTTCCTGTTAATGGCTCTTCATG
*
23188945 AGCTTCCTG-AATATGGCTCTT-ATG
1 AGCTTCCTGTTA-ATGGCTCTTCATG
23188969 AGCTTCCTGTTA
1 AGCTTCCTGTTA
23188981 TACAGCCCGG
Statistics
Matches: 43, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
23 3 0.07
24 39 0.91
25 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTTCCTGTTAATGGCTCTTCATG
Found at i:23191150 original size:35 final size:35
Alignment explanation
Indices: 23191104--23191175 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
23191094 ATTCCACAAC
*
23191104 ATAAACCCGTCATTGGAATCGGTCTTTGTATATGG
1 ATAAACCCGTCATTGGAATCAGTCTTTGTATATGG
* *
23191139 ATAAACTCGTCATTGGAATCAGTCTTTGTCTATGG
1 ATAAACCCGTCATTGGAATCAGTCTTTGTATATGG
23191174 AT
1 AT
23191176 TCATAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (35 bp):
ATAAACCCGTCATTGGAATCAGTCTTTGTATATGG
Found at i:23192569 original size:42 final size:43
Alignment explanation
Indices: 23192496--23192580 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 43
23192486 TATGTTCTAT
*
23192496 AACCACACGGGCATAGGACAAAGGCATGTGTCCAGGCCGTGTG
1 AACCACACGGGCATAGGACAAAGGCATGTGTCCAGGCCATGTG
* ** *
23192539 AACCATACGGGCA-AGGACATGGGCGTGTGTCCAGGCCATGTG
1 AACCACACGGGCATAGGACAAAGGCATGTGTCCAGGCCATGTG
23192581 GCATATAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 25 0.68
43 12 0.32
ACGTcount: A:0.26, C:0.25, G:0.34, T:0.15
Consensus pattern (43 bp):
AACCACACGGGCATAGGACAAAGGCATGTGTCCAGGCCATGTG
Found at i:23201519 original size:31 final size:32
Alignment explanation
Indices: 23201484--23201552 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
23201474 GTATAACAAT
23201484 ATTTTGAGATAAATATTA-AATTT-ATACATAA
1 ATTTTGAGATAAATA-TACAATTTAATACATAA
* *
23201515 ATTTTG-GTTTAATATACAATTTAATACATAA
1 ATTTTGAGATAAATATACAATTTAATACATAA
23201546 ATTTTGA
1 ATTTTGA
23201553 TTTGACGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 2 0.06
30 11 0.33
31 20 0.61
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (32 bp):
ATTTTGAGATAAATATACAATTTAATACATAA
Found at i:23201804 original size:37 final size:37
Alignment explanation
Indices: 23201754--23201829 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
23201744 TATTTAGCTC
*
23201754 AACAATGAATGTCATATTACTTGGGAAA-GTCACATGG
1 AACAATAAATGTCATATTA-TTGGGAAACGTCACATGG
* *
23201791 AACAATAAATGTCATATTATTTGGAAACTTCACATGG
1 AACAATAAATGTCATATTATTGGGAAACGTCACATGG
23201828 AA
1 AA
23201830 GGTTAGATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 7 0.20
37 28 0.80
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (37 bp):
AACAATAAATGTCATATTATTGGGAAACGTCACATGG
Found at i:23204446 original size:19 final size:19
Alignment explanation
Indices: 23204405--23204446 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
23204395 ATTGAACTTA
* *
23204405 AAAATTGGACTTGAGATCG
1 AAAATTGGACTTGAGAACC
23204424 AAAATTGGA-TCTGAGAACC
1 AAAATTGGACT-TGAGAACC
23204443 AAAA
1 AAAA
23204447 ACCAAGACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (19 bp):
AAAATTGGACTTGAGAACC
Found at i:23204877 original size:61 final size:61
Alignment explanation
Indices: 23204744--23204874 Score: 196
Period size: 61 Copynumber: 2.2 Consensus size: 61
23204734 CAAAAATAAT
* * **
23204744 ATTATTTTAATAGTTTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATTCT
1 ATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATTAA
*
23204805 ATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTAA
1 ATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATTAA
23204863 ATTAATTTAATA
1 ATTAATTTAATA
23204875 ATAAAGTGAT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
58 22 0.34
59 1 0.02
60 1 0.02
61 41 0.63
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATTAA
Found at i:23205905 original size:68 final size:68
Alignment explanation
Indices: 23205789--23206037 Score: 372
Period size: 68 Copynumber: 3.7 Consensus size: 68
23205779 TCCGTTAGGT
* *
23205789 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATGAAGTTTTCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTTGCCAG
*
23205854 GAC
66 AAC
* * * *
23205857 AACAAAAATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTCTGCCAA
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTTGCCAG
23205922 AAC
66 AAC
* * * * *
23205925 AATAAACATGGGATCATATTGTGTAAAACCACAACTATGCTATAGTAACATATAAAGTTCGCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTTGCCAG
23205990 AAC
66 AAC
* *
23205993 AATAAACATGGGATCATATTGTTTAAGACCACAGCTAGGCTATGG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGG
23206038 TGCCATATGA
Statistics
Matches: 160, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 160 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (68 bp):
AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTTGCCAG
AAC
Found at i:23208733 original size:21 final size:21
Alignment explanation
Indices: 23208708--23208764 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
23208698 ACCAAGAAGT
*
23208708 GGTATCAATACTTTGGGTA-AG
1 GGTATCAATACTTT-GATAGAG
* * *
23208729 GGTATTATTACCTT-ATAGAG
1 GGTATCAATACTTTGATAGAG
23208749 GGTATCAATACTTTGA
1 GGTATCAATACTTTGA
23208765 CCCTTGGGAG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 12 0.44
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (21 bp):
GGTATCAATACTTTGATAGAG
Found at i:23212577 original size:23 final size:25
Alignment explanation
Indices: 23212536--23212583 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
23212526 TTATCTTTTG
* *
23212536 TATTATTATATTAAGTTTCTTCATA
1 TATTAATATATTAAGTTTCATCATA
23212561 TATTAATAT-TTAA-TTTCATCATA
1 TATTAATATATTAAGTTTCATCATA
23212584 AATCATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (25 bp):
TATTAATATATTAAGTTTCATCATA
Found at i:23213125 original size:4 final size:4
Alignment explanation
Indices: 23213116--23213142 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23213106 ATCTCTTTTG
23213116 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
23213143 TTATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:23215797 original size:24 final size:24
Alignment explanation
Indices: 23215765--23215813 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
23215755 AAAAAAAACA
23215765 CATAAAAAATTTCTTTCTATTCTT
1 CATAAAAAATTTCTTTCTATTCTT
23215789 CATAAAAAATTTCTTTCTATTCTT
1 CATAAAAAATTTCTTTCTATTCTT
23215813 C
1 C
23215814 CACTATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (24 bp):
CATAAAAAATTTCTTTCTATTCTT
Found at i:23220081 original size:17 final size:17
Alignment explanation
Indices: 23220055--23220090 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23220045 AAAATTAAAT
* *
23220055 ATTTTGATATGACACTA
1 ATTTTAATATAACACTA
23220072 ATTTTAATATAACACTA
1 ATTTTAATATAACACTA
23220089 AT
1 AT
23220091 GACTTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTTTAATATAACACTA
Found at i:23220907 original size:26 final size:26
Alignment explanation
Indices: 23220851--23220907 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
23220841 GTGATTATGT
*
23220851 ATTATCCACACAAACATCTTTCATTC
1 ATTATCCACACAAACATCTTTCATCC
* *
23220877 ATTATCCACTCACACA-CTTTTCATCC
1 ATTATCCACACAAACATC-TTTCATCC
*
23220903 TTTAT
1 ATTAT
23220908 AGAGGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTATCCACACAAACATCTTTCATCC
Found at i:23232964 original size:28 final size:28
Alignment explanation
Indices: 23232933--23232997 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
23232923 ATTTAAGAAA
**
23232933 TAAATATAATATATGTAAATTAA-AATAT
1 TAAA-ATAATATAAATAAATTAACAATAT
*
23232961 TAAAATAAATTTAAATAAATTAACAATAT
1 TAAAAT-AATATAAATAAATTAACAATAT
23232990 TAAAATAA
1 TAAAATAA
23232998 GTTGAAGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 19 0.59
29 11 0.34
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
TAAAATAATATAAATAAATTAACAATAT
Found at i:23233010 original size:29 final size:28
Alignment explanation
Indices: 23232948--23233044 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 28
23232938 ATAATATATG
*
23232948 TAAATTAAAATATTAAAATAAATTTAAA
1 TAAATTAAAATATTAAAATAAATTGAAA
* *
23232976 TAAATTAACAATATTAAAATAAGTTGAAG
1 TAAATTAA-AATATTAAAATAAATTGAAA
* * *
23233005 TGAATTAAAGATGTTAAAAT-ATTTGAAA
1 TAAATTAAA-ATATTAAAATAAATTGAAA
*
23233033 GAAA-TAAAATAT
1 TAAATTAAAATAT
23233045 CTATATAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.05
27 4 0.07
28 17 0.30
29 33 0.58
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (28 bp):
TAAATTAAAATATTAAAATAAATTGAAA
Found at i:23234804 original size:50 final size:50
Alignment explanation
Indices: 23234750--23234931 Score: 197
Period size: 50 Copynumber: 3.6 Consensus size: 50
23234740 AATCTATTTT
* *
23234750 ACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTTC
1 ACTACAACGTCGGAGAAGTAAGATTCGTTGTTGTAGCTTTAACCTGCTTC
* ** * ** ** *
23234800 ACTACAACGCCAGG-GAAGTAAGATTCACTGTTGTAACTTTAGTCTATTTT
1 ACTACAACGTC-GGAGAAGTAAGATTCGTTGTTGTAGCTTTAACCTGCTTC
**
23234850 ACTGTAACGTCGGAGAAGTAAGATTCGTTGTTGTAGCTTTAACCTGCTTC
1 ACTACAACGTCGGAGAAGTAAGATTCGTTGTTGTAGCTTTAACCTGCTTC
* *
23234900 ACTACAACGTC-GAGGAAATAAGATTCGCTGTT
1 ACTACAACGTCGGA-GAAGTAAGATTCGTTGTT
23234932 ATAACCTCAA
Statistics
Matches: 103, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
49 4 0.04
50 97 0.94
51 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (50 bp):
ACTACAACGTCGGAGAAGTAAGATTCGTTGTTGTAGCTTTAACCTGCTTC
Found at i:23234859 original size:100 final size:100
Alignment explanation
Indices: 23234736--23234936 Score: 305
Period size: 100 Copynumber: 2.0 Consensus size: 100
23234726 TTGCCTTCAG
23234736 CTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTTCA
1 CTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTTCA
* *
23234801 CTACAACGCC-AGGGAAGTAAGATTCACTGTTGTAA
66 CTACAACGCCGA-GGAAATAAGATTCACTGTTATAA
* ** * *
23234836 CTTTAGTCTATTTTACTGTAACGTCGGAGAAGTAAGATTCGTTGTTGTAGCTTTAACCTGCTTCA
1 CTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTTCA
* *
23234901 CTACAACGTCGAGGAAATAAGATTCGCTGTTATAA
66 CTACAACGCCGAGGAAATAAGATTCACTGTTATAA
23234936 C
1 C
23234937 CTCAATCTGC
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 90 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (100 bp):
CTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTTCA
CTACAACGCCGAGGAAATAAGATTCACTGTTATAA
Found at i:23235160 original size:132 final size:131
Alignment explanation
Indices: 23234941--23235334 Score: 572
Period size: 132 Copynumber: 3.0 Consensus size: 131
23234931 TATAACCTCA
* * * * * * *
23234941 ATCTGCTTCACTATTGCTCAGAGAGACATGATCTACAATCTTCAACCTACTCCGCTGGTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGACA-GATCTACAATCTTCAACCTACTCCACTGCTGCTAAG
* * *
23235006 GGAGATAGGACTGGTGGTTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTT
65 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
*
23235071 TG
130 GG
* * *
23235073 ATCTGCTCCACTACTGCTTAGGGAGACGAGATCTACATTCTTTAACCTACTCCACTGCTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGAC-AGATCTACAATCTTCAACCTACTCCACTGCTGCTAAG
* *
23235138 GGAGATAGAATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
65 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
23235203 GG
130 GG
* *
23235205 ATCTGCTCCACTACTACTTAGGGAGACAAGATCCACAATCTTCAACCTACTCCACTGCTGCTAAG
1 ATCTGCTCCACTACTGCTTAGGGAGAC-AGATCTACAATCTTCAACCTACTCCACTGCTGCTAAG
* * *
23235270 GGAGACAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTT
65 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
23235335 CTTCAATCCA
Statistics
Matches: 235, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 234 1.00
133 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (131 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAGATCTACAATCTTCAACCTACTCCACTGCTGCTAAGG
GAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTG
G
Found at i:23235246 original size:44 final size:45
Alignment explanation
Indices: 23235160--23235246 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
23235150 GGTGGCTTAA
* * *
23235160 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGG
1 ATCTGCTTCCCTACTACCTTGGGAAGACAAGATCCACAATCTTGG
23235205 ATCTGC-TCCACTACTA-CTTAGGG-AGACAAGATCCACAATCTT
1 ATCTGCTTCC-CTACTACCTT-GGGAAGACAAGATCCACAATCTT
23235247 CAACCTACTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 22 0.59
45 15 0.41
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCTGCTTCCCTACTACCTTGGGAAGACAAGATCCACAATCTTGG
Found at i:23236330 original size:26 final size:26
Alignment explanation
Indices: 23236276--23236330 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
23236266 AGTATCTTGA
* *
23236276 AAAGAATAAAGTATTCCAAGAATAGC
1 AAAGAATAAAGTATTCCAAGAACAAC
* *
23236302 AAAGAATAAATTATTCCAAGGACAAC
1 AAAGAATAAAGTATTCCAAGAACAAC
23236328 AAA
1 AAA
23236331 ATCAATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.18
Consensus pattern (26 bp):
AAAGAATAAAGTATTCCAAGAACAAC
Found at i:23238807 original size:50 final size:49
Alignment explanation
Indices: 23238703--23238893 Score: 177
Period size: 50 Copynumber: 3.7 Consensus size: 49
23238693 AAAGAGATCA
*
23238703 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTAGGACATGGC-TTGGCA-CC--GAG---ATGAGAGGTCC
* * *
23238759 CATGGAAGACCATGTCTACGACATGGCGTTGGCACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTAGGACATGGC-TTGGCACCGAGATGAGAGGTCC
* * * **
23238809 CTTGTAAGACCATGTCT-GAGACATGGCATGGACACCGATATGAGAACATCC
1 CATGTAAGACCATGTCTAG-GACATGGCTTGG-CACCGAGATGAG-AGGTCC
*
23238860 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTAGGACATGGC-TTGGCA
23238894 TGTTATGATC
Statistics
Matches: 115, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
49 3 0.03
50 44 0.38
51 29 0.25
52 4 0.03
53 3 0.03
55 2 0.02
56 30 0.26
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (49 bp):
CATGTAAGACCATGTCTAGGACATGGCTTGGCACCGAGATGAGAGGTCC
Found at i:23246335 original size:50 final size:50
Alignment explanation
Indices: 23246227--23246475 Score: 282
Period size: 50 Copynumber: 4.8 Consensus size: 50
23246217 ATTTGGGTAA
* *
23246227 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * *
23246283 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** *
23246333 AGAGGTCCCATGGAAGACCATGTCTACGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
23246383 AGAGGTCCCCCGTAAGGCCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
23246433 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23246476 TGTTATGATC
Statistics
Matches: 168, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
50 91 0.54
51 33 0.20
53 4 0.02
55 1 0.01
56 39 0.23
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:23254408 original size:34 final size:34
Alignment explanation
Indices: 23254365--23254432 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
23254355 CTATGGCTGC
*
23254365 ATTTCGAAAGCGGTCCACTATCCTGCACGGAGGT
1 ATTTCGAAAGCAGTCCACTATCCTGCACGGAGGT
23254399 ATTTCGAAAGCAGTCCACTATCCTGCACGGAGGT
1 ATTTCGAAAGCAGTCCACTATCCTGCACGGAGGT
23254433 GAAAACCTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (34 bp):
ATTTCGAAAGCAGTCCACTATCCTGCACGGAGGT
Found at i:23255548 original size:28 final size:28
Alignment explanation
Indices: 23255517--23255609 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
23255507 ATTTAAGAAA
**
23255517 TAAATATAATATATGTAAATT-AAAATAT
1 TAAA-ATAATATAAATAAATTAAAAATAT
*
23255545 TAAAATAAATTTAAATAAATTAAAAATAT
1 TAAAAT-AATATAAATAAATTAAAAATAT
* * *
23255574 TAAAATAAGT-TGAAATGAATTAAAGATTT
1 TAAAATAA-TAT-AAATAAATTAAAAATAT
23255603 TAAAATA
1 TAAAATA
23255610 TTTGAAAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 2 0.04
28 18 0.33
29 35 0.64
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (28 bp):
TAAAATAATATAAATAAATTAAAAATAT
Found at i:23255555 original size:18 final size:19
Alignment explanation
Indices: 23255532--23255609 Score: 54
Period size: 19 Copynumber: 4.1 Consensus size: 19
23255522 ATAATATATG
23255532 TAAATTAAA-ATATTAAAA
1 TAAATTAAAGATATTAAAA
* *
23255550 TAAATTTAAATAAATTAAAA
1 TAAA-TTAAAGATATTAAAA
* *
23255570 -ATATTAAA-ATAAGTTGAAA
1 TAAATTAAAGAT-A-TTAAAA
* *
23255589 TGAATTAAAGATTTTAAAA
1 TAAATTAAAGATATTAAAA
23255608 TA
1 TA
23255610 TTTGAAAGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
17 1 0.02
18 10 0.22
19 18 0.40
20 14 0.31
21 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TAAATTAAAGATATTAAAA
Found at i:23255570 original size:29 final size:29
Alignment explanation
Indices: 23255532--23255625 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
23255522 ATAATATATG
*
23255532 TAAATT-AAAATATTAAAATAAATTTAAA
1 TAAATTAAAAATATTAAAATAAATTGAAA
*
23255560 TAAATTAAAAATATTAAAATAAGTTGAAA
1 TAAATTAAAAATATTAAAATAAATTGAAA
* * * *
23255589 TGAATTAAAGATTTTAAAAT-ATTTGAAA
1 TAAATTAAAAATATTAAAATAAATTGAAA
*
23255617 GAAA-TAAAA
1 TAAATTAAAA
23255626 TATCTATATA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
27 4 0.07
28 15 0.27
29 37 0.66
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (29 bp):
TAAATTAAAAATATTAAAATAAATTGAAA
Found at i:23255571 original size:11 final size:10
Alignment explanation
Indices: 23255532--23255597 Score: 66
Period size: 10 Copynumber: 6.9 Consensus size: 10
23255522 ATAATATATG
23255532 TAAATTAAAA
1 TAAATTAAAA
23255542 T--ATTAAAA
1 TAAATTAAAA
*
23255550 TAAATTTAAA
1 TAAATTAAAA
23255560 TAAATTAAAA
1 TAAATTAAAA
*
23255570 -ATATTAAAA
1 TAAATTAAAA
* *
23255579 TAAGTTGAAA
1 TAAATTAAAA
*
23255589 TGAATTAAA
1 TAAATTAAA
23255598 GATTTTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
8 8 0.18
9 8 0.18
10 28 0.64
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (10 bp):
TAAATTAAAA
Found at i:23255581 original size:19 final size:20
Alignment explanation
Indices: 23255532--23255597 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 20
23255522 ATAATATATG
23255532 TAAATTAAAAT--ATTAAAA
1 TAAATTAAAATAAATTAAAA
*
23255550 TAAATTTAAATAAATTAAAA
1 TAAATTAAAATAAATTAAAA
* * *
23255570 -ATATTAAAATAAGTTGAAA
1 TAAATTAAAATAAATTAAAA
*
23255589 TGAATTAAA
1 TAAATTAAA
23255598 GATTTTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 10 0.26
19 15 0.39
20 13 0.34
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAATTAAAATAAATTAAAA
Found at i:23274863 original size:14 final size:14
Alignment explanation
Indices: 23274835--23274863 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23274825 GCTTAGTGGC
23274835 TTTTGACTTGATTT
1 TTTTGACTTGATTT
23274849 TTTTG-CTTGATTT
1 TTTTGACTTGATTT
23274862 TT
1 TT
23274864 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTTTGACTTGATTT
Found at i:23285342 original size:22 final size:22
Alignment explanation
Indices: 23285317--23285358 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23285307 GAGGAGTGAA
*
23285317 TGAGGAATGGTTGAGGGATGCT
1 TGAGGAATGGTTCAGGGATGCT
* *
23285339 TGAGGGATGTTTCAGGGATG
1 TGAGGAATGGTTCAGGGATG
23285359 TTTTAGTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.45, T:0.29
Consensus pattern (22 bp):
TGAGGAATGGTTCAGGGATGCT
Found at i:23290172 original size:22 final size:22
Alignment explanation
Indices: 23290142--23290190 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
23290132 TATATCTATT
*
23290142 TATTATAATCATGTTAACATAA
1 TATTTTAATCATGTTAACATAA
*
23290164 TATTTTAATCATTTTAACATAA
1 TATTTTAATCATGTTAACATAA
23290186 TATTT
1 TATTT
23290191 CCAAACTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (22 bp):
TATTTTAATCATGTTAACATAA
Found at i:23296910 original size:24 final size:23
Alignment explanation
Indices: 23296878--23296922 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
23296868 CTAAACTAAT
* *
23296878 CAGATTTTAATTGAAACAAATAAA
1 CAGAGTTTAACTGAAA-AAATAAA
23296902 CAGAGTTTAACTGAAAAAATA
1 CAGAGTTTAACTGAAAAAATA
23296923 TTTCTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (23 bp):
CAGAGTTTAACTGAAAAAATAAA
Found at i:23302258 original size:17 final size:17
Alignment explanation
Indices: 23302232--23302264 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23302222 CAATGTTTAC
23302232 AACTAAATAAA-AGATT
1 AACTAAATAAACAGATT
23302248 AACTGAAATAAACAGAT
1 AACT-AAATAAACAGAT
23302265 ATTCAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (17 bp):
AACTAAATAAACAGATT
Found at i:23306133 original size:18 final size:17
Alignment explanation
Indices: 23306112--23306154 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
23306102 ATTGTTTCTG
*
23306112 CTCTTTTTGTTTTCTGTT
1 CTCTTTTTATTTTCT-TT
*
23306130 CTCTGCTTTATTTTCTTT
1 CTCT-TTTTATTTTCTTT
23306148 CTCTTTT
1 CTCTTTT
23306155 GTAGGTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 10 0.48
19 9 0.43
ACGTcount: A:0.02, C:0.21, G:0.07, T:0.70
Consensus pattern (17 bp):
CTCTTTTTATTTTCTTT
Found at i:23306831 original size:94 final size:94
Alignment explanation
Indices: 23306711--23306990 Score: 289
Period size: 94 Copynumber: 3.0 Consensus size: 94
23306701 CAATTTCAAA
* * * * * *
23306711 GAGATAAGATTTGTTGTAGTAGATTCAATCTGATCCACTGCAACTTTAGGGGTATAGGATTTGTA
1 GAGATAAGATTCGCTATAGTAGATTCAATCTGACCCACTGCAACTTCAAGGGTATAGGATTTGTA
*
23306776 GCTTCAATCTGCTTCACTACAACTTCAGG
66 GCTTCAATCTGATTCACTACAACTTCAGG
* *
23306805 GAGATAAGATTCGCTATGGTAGATTCAAT-TAGACCCACTGCAACTTCAAGGATAT-GAGATTTG
1 GAGATAAGATTCGCTATAGTAGATTCAATCT-GACCCACTGCAACTTCAAGGGTATAG-GATTTG
* * * *
23306868 TAGCTTC-ATCTTGTTTTACTGCAACTTTAGG
64 TAGCTTCAATC-TGATTCACTACAACTTCAGG
* * * ** * * * *
23306899 GAGATAAGATTCGCCATCA-TAGTTTCATTCCAACCCACTACAACTTCACGGGTATAGAAATTGT
1 GAGATAAGATTCGCTAT-AGTAGATTCAATCTGACCCACTGCAACTTCAAGGGTATAGGATTTGT
*
23306963 AGCTTTAATCTGATTCACTACAACTTCA
65 AGCTTCAATCTGATTCACTACAACTTCA
23306991 AGGATATAGG
Statistics
Matches: 151, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
93 5 0.03
94 142 0.94
95 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (94 bp):
GAGATAAGATTCGCTATAGTAGATTCAATCTGACCCACTGCAACTTCAAGGGTATAGGATTTGTA
GCTTCAATCTGATTCACTACAACTTCAGG
Found at i:23315158 original size:40 final size:40
Alignment explanation
Indices: 23314920--23315144 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
23314910 TCGAATGATG
* * * *
23314920 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23314960 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23315000 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23315039 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23315079 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23315120 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23315145 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23315166 original size:119 final size:119
Alignment explanation
Indices: 23314920--23315167 Score: 290
Period size: 119 Copynumber: 2.1 Consensus size: 119
23314910 TCGAATGATG
* *
23314920 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
23314985 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
23315039 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
23315102 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
23315159 TCC-GGTTAA
1 TCCGGGTTAA
23315168 ATTCCAAAGG
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.69
120 31 0.28
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:23322084 original size:32 final size:32
Alignment explanation
Indices: 23322022--23322090 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
23322012 TTATGGGGTA
* ** *
23322022 AAAATAAAAAAAAATAAAAAAGGAGTAGGACG
1 AAAATAAAAAAAAACAAAAAAGGAAAAGGACC
**
23322054 AAAATAAAAAGGAACAAAAAAGGAAAAGGACC
1 AAAATAAAAAAAAACAAAAAAGGAAAAGGACC
23322086 AAAAT
1 AAAAT
23322091 GGAAATTACC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.70, C:0.06, G:0.17, T:0.07
Consensus pattern (32 bp):
AAAATAAAAAAAAACAAAAAAGGAAAAGGACC
Found at i:23324846 original size:90 final size:90
Alignment explanation
Indices: 23324693--23324871 Score: 358
Period size: 90 Copynumber: 2.0 Consensus size: 90
23324683 CACCGACTGC
23324693 TGCATCGATCAATTGCCTAGTTGAGGGGTTCAACCTGTTGTAGAAGGTTTGAACCTGTAGCCATA
1 TGCATCGATCAATTGCCTAGTTGAGGGGTTCAACCTGTTGTAGAAGGTTTGAACCTGTAGCCATA
23324758 GAGGTAACCTATGGTGAGGGCATCA
66 GAGGTAACCTATGGTGAGGGCATCA
23324783 TGCATCGATCAATTGCCTAGTTGAGGGGTTCAACCTGTTGTAGAAGGTTTGAACCTGTAGCCATA
1 TGCATCGATCAATTGCCTAGTTGAGGGGTTCAACCTGTTGTAGAAGGTTTGAACCTGTAGCCATA
23324848 GAGGTAACCTATGGTGAGGGCATC
66 GAGGTAACCTATGGTGAGGGCATC
23324872 GTCTTAATAA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (90 bp):
TGCATCGATCAATTGCCTAGTTGAGGGGTTCAACCTGTTGTAGAAGGTTTGAACCTGTAGCCATA
GAGGTAACCTATGGTGAGGGCATCA
Found at i:23330736 original size:8 final size:8
Alignment explanation
Indices: 23330723--23330748 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
23330713 AAATTTTTAT
23330723 TTTTAAAA
1 TTTTAAAA
23330731 TTTTAAAA
1 TTTTAAAA
23330739 TTTTAAAA
1 TTTTAAAA
23330747 TT
1 TT
23330749 AATCAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:23335112 original size:18 final size:18
Alignment explanation
Indices: 23335089--23335137 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
23335079 TTTAGATTAA
23335089 TTAGAGTTTCATTACATT
1 TTAGAGTTTCATTACATT
* *
23335107 TTAGAGTTTTATTATATT
1 TTAGAGTTTCATTACATT
*
23335125 TTATAGTTTCATT
1 TTAGAGTTTCATT
23335138 TAGAGGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (18 bp):
TTAGAGTTTCATTACATT
Found at i:23336988 original size:22 final size:24
Alignment explanation
Indices: 23336946--23336989 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
23336936 TGATAATATG
23336946 TTTTGATATAATAAATTAAAGTGA
1 TTTTGATATAATAAATTAAAGTGA
*
23336970 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAATAAATTAAAGT
23336990 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAGTGA
Found at i:23357534 original size:16 final size:16
Alignment explanation
Indices: 23357513--23357564 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
23357503 TTTGGTTCAC
*
23357513 TGTATTGGATTCGAGG
1 TGTATTGGATTAGAGG
23357529 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
23357545 TGTAATGAAATAGAGG
1 TGTATTGGATTAGAGG
23357561 TGTA
1 TGTA
23357565 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23357817 original size:16 final size:16
Alignment explanation
Indices: 23357780--23357821 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23357770 TTAATCATAT
*
23357780 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23357796 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23357811 TTAAAATATAT
1 TTAAAATATAT
23357822 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23357828 original size:14 final size:15
Alignment explanation
Indices: 23357789--23357830 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23357779 TTTAAACATA
*
23357789 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23357804 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23357818 A-TATAATTTAATA
1 ATTATAATTAAATA
23357831 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23357902 original size:107 final size:108
Alignment explanation
Indices: 23357778--23357988 Score: 388
Period size: 107 Copynumber: 2.0 Consensus size: 108
23357768 ATTTAATCAT
*
23357778 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTCAATA
* *
23357843 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
23357886 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTCAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTCAATA
23357950 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
23357989 TAATACTATA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 96 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTCAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:23357926 original size:16 final size:16
Alignment explanation
Indices: 23357883--23357928 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
23357873 CATAATATAG
*
23357883 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
23357899 ATTATT-AAATATATT
1 ATAATTAAAATATATT
23357914 ATAATTAAAATATAT
1 ATAATTAAAATATAT
23357929 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:23357935 original size:14 final size:15
Alignment explanation
Indices: 23357883--23357937 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
23357873 CATAATATAG
23357883 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
23357899 ATTATTAAATATATT
1 ATAATTAAATATATT
23357914 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
23357927 ATAATTTAATA
1 ATAATTAAATA
23357938 AAATTCTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:23357965 original size:53 final size:53
Alignment explanation
Indices: 23357801--23357965 Score: 151
Period size: 53 Copynumber: 3.1 Consensus size: 53
23357791 TATTATTAAA
*
23357801 TATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATTATAATTAAAATATATAATTTAATAAAATTCTAAATAATTAATATTCT
* * * * * **
23357854 TATATGA-ATTTACTCAAAT-CATAATATAGAT--AATT-TAACATAATTATTATTAAA
1 TATATTATAATTA---AAATATATAATTTA-ATAAAATTCTAA-ATAATTAATATT-CT
* *
23357908 TATATTATAATTAAAATATATAATTTAATAAAATTCTCAATAATCAATATTCT
1 TATATTATAATTAAAATATATAATTTAATAAAATTCTAAATAATTAATATTCT
23357961 TATAT
1 TATAT
23357966 GAATTTACTA
Statistics
Matches: 84, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
52 12 0.14
53 33 0.39
54 27 0.32
55 12 0.14
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.44
Consensus pattern (53 bp):
TATATTATAATTAAAATATATAATTTAATAAAATTCTAAATAATTAATATTCT
Found at i:23358039 original size:107 final size:107
Alignment explanation
Indices: 23357781--23358044 Score: 344
Period size: 107 Copynumber: 2.5 Consensus size: 107
23357771 TAATCATATT
* * * *
23357781 TAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTCAATAATC
* * *
23357846 AATATTCTTATATGAATTTACTCAAATCATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
23357889 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTCAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTCAATAATCA
*
23357954 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
23357997 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
23358045 ATATGATTTA
Statistics
Matches: 143, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
102 5 0.03
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 98 0.69
108 12 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTCAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:23369667 original size:31 final size:30
Alignment explanation
Indices: 23369606--23369667 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
23369596 GATTAATCAA
*
23369606 GTTATAAATATCGAATTTATAGATACATTTT
1 GTTATAAATATC-AATTTATAGATAAATTTT
*
23369637 GTTATAATATAT-AATTTAATATATAAATTTT
1 GTTATAA-ATATCAATTT-ATAGATAAATTTT
23369668 AATTTTGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.19
31 18 0.67
32 4 0.15
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (30 bp):
GTTATAAATATCAATTTATAGATAAATTTT
Found at i:23370960 original size:64 final size:64
Alignment explanation
Indices: 23370859--23370985 Score: 254
Period size: 64 Copynumber: 2.0 Consensus size: 64
23370849 GCACTTGCAT
23370859 AAAATCTATTTTAAAGAATTAAAATTTTAAATAAAATAATAATGATGCTTTTTATTATTTATGC
1 AAAATCTATTTTAAAGAATTAAAATTTTAAATAAAATAATAATGATGCTTTTTATTATTTATGC
23370923 AAAATCTATTTTAAAGAATTAAAATTTTAAATAAAATAATAATGATGCTTTTTATTATTTATG
1 AAAATCTATTTTAAAGAATTAAAATTTTAAATAAAATAATAATGATGCTTTTTATTATTTATG
23370986 GTGTGCTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (64 bp):
AAAATCTATTTTAAAGAATTAAAATTTTAAATAAAATAATAATGATGCTTTTTATTATTTATGC
Found at i:23372206 original size:22 final size:22
Alignment explanation
Indices: 23372178--23372222 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
23372168 TGAAAACCAT
*
23372178 GAGATAAAATAAGATTATATTG
1 GAGATAAAATAAGATCATATTG
23372200 GAGATAAAATAAGATCATATTG
1 GAGATAAAATAAGATCATATTG
23372222 G
1 G
23372223 GAGAACGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.20, T:0.29
Consensus pattern (22 bp):
GAGATAAAATAAGATCATATTG
Found at i:23372346 original size:18 final size:18
Alignment explanation
Indices: 23372323--23372357 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23372313 GTTTTCATAA
*
23372323 TGTGTTAGAATGTGTAAG
1 TGTGTTAGAATCTGTAAG
23372341 TGTGTTAGAATCTGTAA
1 TGTGTTAGAATCTGTAA
23372358 TAGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.40
Consensus pattern (18 bp):
TGTGTTAGAATCTGTAAG
Found at i:23373024 original size:32 final size:30
Alignment explanation
Indices: 23372959--23373026 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 30
23372949 GAAATTCAAG
* *
23372959 AATAAAAAAAAAAGATTCAAAGCATAGATA
1 AATAAAAAAAAAAAATTAAAAGCATAGATA
*
23372989 AATAAAGAAAACAAAAATTAAAAG-ATGGATCA
1 AATAAA-AAAA-AAAAATTAAAAGCATAGAT-A
23373021 AATAAA
1 AATAAA
23373027 CTGATGGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 6 0.19
31 9 0.28
32 17 0.53
ACGTcount: A:0.68, C:0.06, G:0.10, T:0.16
Consensus pattern (30 bp):
AATAAAAAAAAAAAATTAAAAGCATAGATA
Found at i:23373232 original size:28 final size:29
Alignment explanation
Indices: 23373201--23373262 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
23373191 TATAAATATT
*
23373201 TATGGAGTTACTAT-AAAATATATTGAAG
1 TATGGAGTTAATATAAAAATATATTGAAG
23373229 TATGGAGTTAATATAAAAATATATTGAAG
1 TATGGAGTTAATATAAAAATATATTGAAG
*
23373258 AATGG
1 TATGG
23373263 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (29 bp):
TATGGAGTTAATATAAAAATATATTGAAG
Found at i:23376048 original size:22 final size:25
Alignment explanation
Indices: 23376003--23376058 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
23375993 TAAACTAAAC
23376003 ATAAAAAAAATTACTACATAAAAAA
1 ATAAAAAAAATTACTACATAAAAAA
23376028 ATAAAAAAAATTACT-C-TAAAAATTA
1 ATAAAAAAAATTACTACATAAAAA--A
23376053 ATAAAA
1 ATAAAA
23376059 TTAAATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.21
24 1 0.03
25 22 0.76
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (25 bp):
ATAAAAAAAATTACTACATAAAAAA
Found at i:23386307 original size:61 final size:60
Alignment explanation
Indices: 23386192--23386314 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 60
23386182 AAATGCATAC
*
23386192 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACATAATATTAAAATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACAT-ATACTAAAATTTTGCAAAT
* * * *
23386253 GAATGGTGCTTCCAATATAGTTACCATGGTGATTCCAATGCAT-TACTAAGATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAA--CATATACTAAAATTTTGCAAAT
23386314 G
1 G
23386315 CAAATGAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 52 0.95
63 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (60 bp):
GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACATATACTAAAATTTTGCAAAT
Found at i:23386348 original size:23 final size:23
Alignment explanation
Indices: 23386322--23386381 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
23386312 ATGCAAATGA
*
23386322 ATAGTGATTCCAATACAATTATC
1 ATAGTGATTCCAATACAATTACC
*
23386345 ATAGTGATTGCAATACAATTACC
1 ATAGTGATTCCAATACAATTACC
*
23386368 ATGGTGATTCCAAT
1 ATAGTGATTCCAAT
23386382 GTAGTACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (23 bp):
ATAGTGATTCCAATACAATTACC
Found at i:23386609 original size:17 final size:17
Alignment explanation
Indices: 23386587--23386665 Score: 71
Period size: 17 Copynumber: 4.9 Consensus size: 17
23386577 AATACTTAGT
23386587 GTTATGACCATTTTGAG
1 GTTATGACCATTTTGAG
*
23386604 GTTATGACCTTTTTGA-
1 GTTATGACCATTTTGAG
* *
23386620 --AATGA-CA-CTT-AG
1 GTTATGACCATTTTGAG
23386632 TGTTATGACCATTTTGAG
1 -GTTATGACCATTTTGAG
*
23386650 GTTATGACCTTTTTGA
1 GTTATGACCATTTTGA
23386666 AATAACACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
11 1 0.02
12 2 0.04
13 1 0.02
14 4 0.08
15 4 0.08
16 2 0.04
17 32 0.67
18 2 0.04
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (17 bp):
GTTATGACCATTTTGAG
Found at i:23386634 original size:46 final size:46
Alignment explanation
Indices: 23386580--23386721 Score: 232
Period size: 46 Copynumber: 3.1 Consensus size: 46
23386570 CTAAAACAAT
23386580 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGAC
1 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGAC
*
23386626 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATAAC
1 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGAC
* * *
23386672 ACTTAGTGTTATGACCTTTTTGAGGTTATGA-CTTTTCTAAAAGGAC
1 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTT-TGAAATGAC
23386718 ACTT
1 ACTT
23386722 TATGATCATT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 5 0.06
46 85 0.94
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (46 bp):
ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGAC
Found at i:23388841 original size:23 final size:23
Alignment explanation
Indices: 23388798--23388841 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23388788 TTCGGTACTA
*
23388798 CTGTTACTTGCACTTTAGTGCTC
1 CTGTTACTTGCACTATAGTGCTC
* *
23388821 CTGTTCCTTGCACTATGGTGC
1 CTGTTACTTGCACTATAGTGC
23388842 GATCCTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.41
Consensus pattern (23 bp):
CTGTTACTTGCACTATAGTGCTC
Found at i:23390611 original size:25 final size:25
Alignment explanation
Indices: 23390577--23390628 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
23390567 TAAGTATTAG
23390577 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
23390602 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
23390627 TA
1 TA
23390629 CCTTAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
TAAGTTAAAATAGAATATCTAAACT
Found at i:23390634 original size:25 final size:25
Alignment explanation
Indices: 23390581--23390634 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
23390571 TATTAGTAAG
*
23390581 TTAAAATAGAATATCTAAACTTAAG
1 TTAAAATAGAATATCTAAACTTAAC
*
23390606 TTAAAATAGAATATCTAAACTTACC
1 TTAAAATAGAATATCTAAACTTAAC
23390631 TTAA
1 TTAA
23390635 TCCATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (25 bp):
TTAAAATAGAATATCTAAACTTAAC
Found at i:23393406 original size:41 final size:41
Alignment explanation
Indices: 23393342--23393429 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
23393332 GTGTAAACGG
*
23393342 GGGCACGTATGTACTATCCAGGGGTACTGAAGAACAAACAA
1 GGGCACGTATGTACAATCCAGGGGTACTGAAGAACAAACAA
* ** *
23393383 GGGCACGTATGTGCAATTTAGGGGTACTGAAGTACAAACAA
1 GGGCACGTATGTACAATCCAGGGGTACTGAAGAACAAACAA
23393424 GGGCAC
1 GGGCAC
23393430 ACATGTTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (41 bp):
GGGCACGTATGTACAATCCAGGGGTACTGAAGAACAAACAA
Found at i:23393441 original size:41 final size:41
Alignment explanation
Indices: 23393360--23393446 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
23393350 ATGTACTATC
**
23393360 CAGGGGTACTGAAGAACAAACAAGGGCACGTATGTGCAATT
1 CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
* * *
23393401 TAGGGGTACTGAAGTACAAACAAGGGCACACATGTTCAATT
1 CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
23393442 CAGGG
1 CAGGG
23393447 TATAATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (41 bp):
CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
Found at i:23395437 original size:77 final size:77
Alignment explanation
Indices: 23395310--23395463 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
23395300 CTCAAATACA
*
23395310 GAAAAACCACAAGATATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
23395375 CTTAATGGAGAT
66 CTTAATGGAGAT
* *
23395387 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAATAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
*
23395452 CTTGATGGAGAT
66 CTTAATGGAGAT
23395464 CCACTTCCGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (77 bp):
GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
CTTAATGGAGAT
Found at i:23395674 original size:30 final size:30
Alignment explanation
Indices: 23395638--23395725 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
23395628 CACGGCCTAG
* * *
23395638 CACATGGGCGTGTGTCCGGCCCATGTGGCT
1 CACATGGACGTGTGCCCAGCCCATGTGGCT
23395668 CACATGGACGTGTGCCCAGCCCATGTGGCT
1 CACATGGACGTGTGCCCAGCCCATGTGGCT
* *
23395698 CACATGGAAGTGTGCCCAGCCCGTGTGG
1 CACATGGACGTGTGCCCAGCCCATGTGG
23395726 AAATGCCCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.15, C:0.31, G:0.34, T:0.20
Consensus pattern (30 bp):
CACATGGACGTGTGCCCAGCCCATGTGGCT
Found at i:23401036 original size:24 final size:24
Alignment explanation
Indices: 23401004--23401056 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
23400994 CAATGACTCT
*
23401004 GACCACCACTA-CAGGGCCACCATC
1 GACCACCACTACCA-GACCACCATC
*
23401028 GACCACCACTACCAGACCACCGTC
1 GACCACCACTACCAGACCACCATC
23401052 GACCA
1 GACCA
23401057 TTGTAGTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.30, C:0.47, G:0.15, T:0.08
Consensus pattern (24 bp):
GACCACCACTACCAGACCACCATC
Found at i:23407450 original size:26 final size:25
Alignment explanation
Indices: 23407416--23407534 Score: 105
Period size: 26 Copynumber: 4.6 Consensus size: 25
23407406 CTTACACCAG
23407416 TGTTCATTTAGCAGGCCTTGAGCCGA
1 TGTT-ATTTAGCAGGCCTTGAGCCGA
* * * *
23407442 TGATTATTTAGTAGGCCTTAAGCTGG
1 TG-TTATTTAGCAGGCCTTGAGCCGA
* *
23407468 TGTTTATTTAGCAGGCCTTGAGTCGG
1 TG-TTATTTAGCAGGCCTTGAGCCGA
* *
23407494 TGGTTATTTAGCAGGTCTTGGGCC-A
1 T-GTTATTTAGCAGGCCTTGAGCCGA
23407519 GTGTATATTTAGCAGG
1 -TGT-TATTTAGCAGG
23407535 TACTATGTAG
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
25 2 0.03
26 71 0.93
27 3 0.04
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.36
Consensus pattern (25 bp):
TGTTATTTAGCAGGCCTTGAGCCGA
Found at i:23407459 original size:52 final size:52
Alignment explanation
Indices: 23407393--23407534 Score: 162
Period size: 52 Copynumber: 2.7 Consensus size: 52
23407383 GAGCCAACGT
23407393 TTATTTAGTAGGCCTTACA-CCAGTGTTCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGTAGGCCTTA-AGCCAGTGTTCATTTAGCAGGCCTTGAGCCGATGA
** * * * *
23407445 TTATTTAGTAGGCCTTAAGCTGGTGTTTATTTAGCAGGCCTTGAGTCGGTGG
1 TTATTTAGTAGGCCTTAAGCCAGTGTTCATTTAGCAGGCCTTGAGCCGATGA
* * **
23407497 TTATTTAGCAGGTCTTGGGCCAGTGTAT-ATTTAGCAGG
1 TTATTTAGTAGGCCTTAAGCCAGTGT-TCATTTAGCAGG
23407535 TACTATGTAG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.01
52 74 0.97
53 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (52 bp):
TTATTTAGTAGGCCTTAAGCCAGTGTTCATTTAGCAGGCCTTGAGCCGATGA
Found at i:23415237 original size:26 final size:26
Alignment explanation
Indices: 23415208--23415338 Score: 81
Period size: 26 Copynumber: 5.1 Consensus size: 26
23415198 ATACCAGAAA
*
23415208 AGCAAGCCTTGAGCCGATGGTTATTT
1 AGCAGGCCTTGAGCCGATGGTTATTT
* * ** *
23415234 AGCAGGACTTAAGTTGGT-GTTGATTT
1 AGCAGGCCTTGAGCCGATGGTT-ATTT
* * *
23415260 AGCAGGCCTTAAACC-AGTGTTTA-TT
1 AGCAGGCCTTGAGCCGA-TGGTTATTT
** * *
23415285 AGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCGATGGTTATTT
*
23415311 AGTAGGCCTTGAGCC-ATTGGTTATTT
1 AGCAGGCCTTGAGCCGA-TGGTTATTT
23415337 AG
1 AG
23415339 TAAGCTTTGA
Statistics
Matches: 77, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
25 22 0.29
26 53 0.69
27 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (26 bp):
AGCAGGCCTTGAGCCGATGGTTATTT
Found at i:23415304 original size:25 final size:26
Alignment explanation
Indices: 23415228--23415320 Score: 107
Period size: 26 Copynumber: 3.6 Consensus size: 26
23415218 GAGCCGATGG
*
23415228 TTATTTAGCAGGACTTAAGTTGGTGT
1 TTATTTAGCAGGCCTTAAGTTGGTGT
* ****
23415254 TGATTTAGCAGGCCTTAAACCAGTGT
1 TTATTTAGCAGGCCTTAAGTTGGTGT
*
23415280 TTA-TTAGCAGGCCTTGAGTTGGTGT
1 TTATTTAGCAGGCCTTAAGTTGGTGT
*
23415305 TTATTTAGTAGGCCTT
1 TTATTTAGCAGGCCTT
23415321 GAGCCATTGG
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 20 0.38
26 33 0.62
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.40
Consensus pattern (26 bp):
TTATTTAGCAGGCCTTAAGTTGGTGT
Done.