Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 111 of 204
Found at i:33731485 original size:22 final size:21
Alignment explanation
Indices: 33731414--33731485 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
33731404 GCAAAGCTGC
* *
33731414 CAATAACCAGAATGGCTAAGAA
1 CAATAAACAGAATGGCTAA-AG
* * *
33731436 CAATAAACAGGATAGCTATAGG
1 CAATAAACAGAATGGCTA-AAG
*
33731458 CTATAAACAGAATGGCTACAAG
1 CAATAAACAGAATGGCTA-AAG
*
33731480 CCATAA
1 CAATAA
33731486 GTACAGTAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
22 37 0.97
23 1 0.03
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.17
Consensus pattern (21 bp):
CAATAAACAGAATGGCTAAAG
Found at i:33731539 original size:32 final size:32
Alignment explanation
Indices: 33731477--33731583 Score: 99
Period size: 32 Copynumber: 3.4 Consensus size: 32
33731467 GAATGGCTAC
* ***
33731477 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGACCAGCACA
** *
33731508 AAGCCATCAGTTGCAGTGATATGACCAGCACA
1 AAGCCATCAGTAACAGTAATATGACCAGCACA
* * * * *
33731540 CAGCCCTCAGTAACGGTAATATGACCGGTACA
1 AAGCCATCAGTAACAGTAATATGACCAGCACA
33731572 AAGCCATCAGTA
1 AAGCCATCAGTA
33731584 GCATCGCAGC
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
31 10 0.17
32 49 0.83
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGACCAGCACA
Found at i:33731661 original size:24 final size:27
Alignment explanation
Indices: 33731627--33731686 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
33731617 AACAAAGCTG
* *
33731627 CCAGTAATAAT-ATATGTGGCCAAGCCA
1 CCAGTAATAGTGAT-TGTGGCAAAGCCA
33731654 CCAGTAATAGTGATTGTGGCAAAGCCA
1 CCAGTAATAGTGATTGTGGCAAAGCCA
33731681 CCAGTA
1 CCAGTA
33731687 CAGTACTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
CCAGTAATAGTGATTGTGGCAAAGCCA
Found at i:33731813 original size:24 final size:24
Alignment explanation
Indices: 33731758--33731831 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 24
33731748 TGCTCAGAAG
**
33731758 CAGTCATACAAATCACAGACAAAT
1 CAGTCATTTAAATCACAGACAAAT
*
33731782 CAGTCATTTAAATCACATACAAAT
1 CAGTCATTTAAATCACAGACAAAT
* * * *
33731806 TAGTCATTTACATTACGGACAAAT
1 CAGTCATTTAAATCACAGACAAAT
33731830 CA
1 CA
33731832 ATGATTTACA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.26
Consensus pattern (24 bp):
CAGTCATTTAAATCACAGACAAAT
Found at i:33731949 original size:27 final size:27
Alignment explanation
Indices: 33731877--33732162 Score: 245
Period size: 27 Copynumber: 10.6 Consensus size: 27
33731867 CCACTAGGGC
33731877 ATTACGGTCATTTTA-CCT-TCAGGGGT
1 ATTACGGTCATTTTACCCTAT-AGGGGT
* * * * *
33731903 ATTTCGGTCATCTAATCCTATGGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
** * *
33731930 ATTACGGTTGTTTTACCCTATAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
33731957 ATGACAGTCATTTTACCCTATAGGGAGT
1 ATTACGGTCATTTTACCCTATAGGG-GT
* * ** *
33731985 TTTTCAATCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
** *
33732012 ATTACGGTCATTTTACATTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
33732039 ATTATGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
*
33732066 ATTACAGTCATTTTACCCTAT-GAGGGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
* * * *
33732093 TTTTCAGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
33732120 ATTATGGTCATTTTACCTTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
*
33732147 ATTACGGTTATTTTAC
1 ATTACGGTCATTTTAC
33732163 AAATATTGGG
Statistics
Matches: 203, Mismatches: 52, Indels: 9
0.77 0.20 0.03
Matches are distributed among these distances:
26 13 0.06
27 167 0.82
28 23 0.11
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGT
Found at i:33736874 original size:50 final size:51
Alignment explanation
Indices: 33736814--33736998 Score: 196
Period size: 51 Copynumber: 3.6 Consensus size: 51
33736804 TATCATTCGA
* * * *
33736814 TACACGTAGTAGCCTTCACGTAGTACTACACACGTGATC-AAACTTTCTGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACCTTCCGG
*
33736864 TTCACGTAGTAG-CTTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
1 TACACGTAGTAGCCTT-CACATAGTACTACACACGTGACCAAAACCTTCCGG
* * * ** * *
33736915 TACACATAGTAGCCTACACATAGTACTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACCT-TCCGG
* * *
33736966 TACAAGTAGTAGCCTGCACTTAGTACTACACAC
1 TACACGTAGTAGCCTTCACATAGTACTACACAC
33736999 TTGTTTATAG
Statistics
Matches: 113, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
49 3 0.03
50 32 0.28
51 75 0.66
52 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACCTTCCGG
Found at i:33736945 original size:12 final size:13
Alignment explanation
Indices: 33736915--33736947 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
33736905 AACCTTCCGG
33736915 TACACATAGTAGCC
1 TACACATAGTA-CC
33736929 TACACATAGTA-C
1 TACACATAGTACC
33736941 TACACAT
1 TACACAT
33736948 GTGACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
14 11 0.58
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:33739925 original size:47 final size:47
Alignment explanation
Indices: 33739857--33739948 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
33739847 ACATATGTGG
*
33739857 ACAAGCCACCAAATTTACAGACAAGCTGCCAATTCACATAGTTGTAC
1 ACAAGCCACCAAATTTACAGACAAGCTGCCAATGCACATAGTTGTAC
* * *
33739904 ACAATCCACCGAAA-TTCCAGACAAGCTGCCAATGCATATAGTTGT
1 ACAAGCCACC-AAATTTACAGACAAGCTGCCAATGCACATAGTTGT
33739949 GGATAAACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 37 0.93
48 3 0.08
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (47 bp):
ACAAGCCACCAAATTTACAGACAAGCTGCCAATGCACATAGTTGTAC
Found at i:33743215 original size:10 final size:10
Alignment explanation
Indices: 33743171--33743220 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
33743161 AAATCTGTCG
*
33743171 AAAATAAATT
1 AAAATTAATT
* *
33743181 AAAATTTATG
1 AAAATTAATT
33743191 AAAATTAATTAT
1 AAAATTAA-T-T
33743203 AAAATTAATT
1 AAAATTAATT
33743213 AAAATTAA
1 AAAATTAA
33743221 ATATGTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 23 0.70
11 2 0.06
12 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:33746649 original size:50 final size:50
Alignment explanation
Indices: 33746594--33746760 Score: 181
Period size: 50 Copynumber: 3.3 Consensus size: 50
33746584 GTGGTACTGT
* * ** * *
33746594 GTGAAGGCTACTACGTGAATCATTAATGATGGTGACATGTGTAGTACCAA
1 GTGAAGGCTACTACGTGAACCATAAAACATGATCACATGTGTAGTACCAA
* * * * *
33746644 GTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTAT
1 GTGAAGGCTACTACGTGAACCATAAAACATGATCACATGTGTAGTACCAA
* * * * * *
33746694 GTGAAGGCTACTACGTGAACCGTAAAACTTGCTCACGTGTGTAGTACTAT
1 GTGAAGGCTACTACGTGAACCATAAAACATGATCACATGTGTAGTACCAA
33746744 GTGAAGGCTACTACGTG
1 GTGAAGGCTACTACGTG
33746761 TATCGAATGA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 105 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (50 bp):
GTGAAGGCTACTACGTGAACCATAAAACATGATCACATGTGTAGTACCAA
Found at i:33746735 original size:100 final size:100
Alignment explanation
Indices: 33746480--33746760 Score: 313
Period size: 100 Copynumber: 2.8 Consensus size: 100
33746470 TATCGATGAA
* *
33746480 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCGATAAATGATGGTCAC---AT-GTACT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAATGATGGTCACTGTGTAGTACT
* * * * *
33746541 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
65 AAGTGAAGGCTACTACGTGAACCGAGAAACTTTGAT
* * * * * *
33746577 CACGTGTGTGGTACTGTGTGAAGGCTACTACGTGAATCATTAATGATGGTGACATGTGTAGTACC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAATGATGGTCAC-TGTGTAGTACT
33746642 AAGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGAT
65 AAGTGAAGGCTACTACGTGAACCG-AGAAACTTTGAT
* *** *
33746677 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGCTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAATGATGGTCAC-TGTGTAGTACT
*
33746742 ATGTGAAGGCTACTACGTG
65 AAGTGAAGGCTACTACGTG
33746761 TATCGAATGA
Statistics
Matches: 152, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
96 12 0.08
97 35 0.23
100 76 0.50
101 28 0.18
102 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAATGATGGTCACTGTGTAGTACTA
AGTGAAGGCTACTACGTGAACCGAGAAACTTTGAT
Found at i:33757410 original size:37 final size:35
Alignment explanation
Indices: 33757335--33757412 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
33757325 CTAAAGAATC
* *
33757335 TATATATTGTTTAAATGGTGTCGCCCTGAAAGACA
1 TATATATCGTTTAAATGGTGACGCCCTGAAAGACA
* * * *
33757370 TATATATCGTTTTAATGGTGACGTCCTGAAGGACC
1 TATATATCGTTTAAATGGTGACGCCCTGAAAGACA
33757405 TATATATC
1 TATATATC
33757413 ATTATCACGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (35 bp):
TATATATCGTTTAAATGGTGACGCCCTGAAAGACA
Found at i:33758966 original size:14 final size:14
Alignment explanation
Indices: 33758947--33758978 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
33758937 ACACCGAGAA
33758947 GTACTCCGAGGATC
1 GTACTCCGAGGATC
33758961 GTACTCCGAGGATC
1 GTACTCCGAGGATC
33758975 GTAC
1 GTAC
33758979 CTAAGGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (14 bp):
GTACTCCGAGGATC
Found at i:33761720 original size:21 final size:20
Alignment explanation
Indices: 33761667--33761725 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
33761657 TCAGTAAACA
*
33761667 ACACATAAGTGCCTGAAACG
1 ACACATAAGTGCCTGATACG
* *
33761687 ACACACGATGTGCCTGATACG
1 ACACA-TAAGTGCCTGATACG
33761708 ACACATAAAGTGCCTGAT
1 ACACAT-AAGTGCCTGAT
33761726 CGGCAAAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
ACACATAAGTGCCTGATACG
Found at i:33762365 original size:13 final size:13
Alignment explanation
Indices: 33762349--33762374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33762339 TTGCTTTTTC
33762349 TAATAATATAATA
1 TAATAATATAATA
33762362 TAATAATATAATA
1 TAATAATATAATA
33762375 GTTTTACTTA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:33769139 original size:26 final size:26
Alignment explanation
Indices: 33769110--33769163 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
33769100 TGAGTCTCAG
* *
33769110 GTTTGATTTTTTTCCTACTTACATTT
1 GTTTGATTCTTTTCCTACTCACATTT
33769136 GTTTGATTCTTTTCCTACTCACATTT
1 GTTTGATTCTTTTCCTACTCACATTT
33769162 GT
1 GT
33769164 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.19, G:0.09, T:0.57
Consensus pattern (26 bp):
GTTTGATTCTTTTCCTACTCACATTT
Found at i:33769175 original size:26 final size:25
Alignment explanation
Indices: 33769110--33769170 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
33769100 TGAGTCTCAG
*
33769110 GTTTGATTTTTTTCCTACTTACATTT
1 GTTT-ATTTTTTTCCTACTCACATTT
*
33769136 GTTTGATTCTTTTCCTACTCACATTT
1 GTTT-ATTTTTTTCCTACTCACATTT
33769162 G--TATTTTTT
1 GTTTATTTTTT
33769171 ATTTCATGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.19
24 1 0.03
26 25 0.78
ACGTcount: A:0.15, C:0.16, G:0.08, T:0.61
Consensus pattern (25 bp):
GTTTATTTTTTTCCTACTCACATTT
Found at i:33769430 original size:50 final size:50
Alignment explanation
Indices: 33769330--33769430 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 50
33769320 TTTCATGTTG
** *
33769330 TTTCAAGTTTTTTTTATTTTTAATTAATGTTTATAATTAATAAATATTTT
1 TTTCAAGTTTTTTTTATTTTTAATTAAACTTTATAATGAATAAATATTTT
*
33769380 TTTCAAGTTTTTTTTTATTTTT-ATTACAACTTTTTAATGAATAAAT-TTTT
1 TTTCAAG-TTTTTTTTATTTTTAATTA-AACTTTATAATGAATAAATATTTT
33769430 T
1 T
33769431 ATTTATAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 16 0.36
51 29 0.64
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (50 bp):
TTTCAAGTTTTTTTTATTTTTAATTAAACTTTATAATGAATAAATATTTT
Found at i:33770598 original size:21 final size:20
Alignment explanation
Indices: 33770573--33770620 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
33770563 AGCGTTCCCC
*
33770573 TTTTAGGATTAGGGTTTTAAT
1 TTTTAGGAGTAGGGTTTT-AT
**
33770594 TTTTAAAAGTAGGGTTTTAT
1 TTTTAGGAGTAGGGTTTTAT
33770614 TTTTAGG
1 TTTTAGG
33770621 GTTAAAGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (20 bp):
TTTTAGGAGTAGGGTTTTAT
Found at i:33780472 original size:2 final size:2
Alignment explanation
Indices: 33780465--33780504 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
33780455 TGATGACTAT
33780465 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33780505 TAAATATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:33781954 original size:41 final size:41
Alignment explanation
Indices: 33781894--33781999 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
33781884 AATGAGATAA
* *
33781894 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
* *
33781935 TTTAGACTATACGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
33781976 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
33782000 AATTGCCAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:33782303 original size:2 final size:2
Alignment explanation
Indices: 33782296--33782334 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
33782286 TTTATGATCG
33782296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33782335 CATGTATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33783736 original size:23 final size:24
Alignment explanation
Indices: 33783699--33783751 Score: 99
Period size: 23 Copynumber: 2.2 Consensus size: 24
33783689 GTAAATTAAA
33783699 TATATTAATAATATATTTAATTTT
1 TATATTAATAATATATTTAATTTT
33783723 TATATT-ATAATATATTTAATTTT
1 TATATTAATAATATATTTAATTTT
33783746 TATATT
1 TATATT
33783752 GATAGAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTAATAATATATTTAATTTT
Found at i:33785988 original size:21 final size:21
Alignment explanation
Indices: 33785964--33786006 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
33785954 CAAAAAGTCC
*
33785964 ATTTCTAGCCAACTAAACACT
1 ATTTCTAGCCAACCAAACACT
33785985 ATTTCTAGCCAACCAAACACT
1 ATTTCTAGCCAACCAAACACT
33786006 A
1 A
33786007 ATCAATCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.30, G:0.05, T:0.26
Consensus pattern (21 bp):
ATTTCTAGCCAACCAAACACT
Found at i:33790616 original size:6 final size:6
Alignment explanation
Indices: 33790605--33790639 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
33790595 TAGGTGTCCA
33790605 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
33790640 ATTAATTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:33794277 original size:16 final size:16
Alignment explanation
Indices: 33794256--33794287 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33794246 ATTTTGTTGC
*
33794256 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
33794272 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
33794288 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:33794484 original size:46 final size:44
Alignment explanation
Indices: 33794417--33794506 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 44
33794407 AATAGATACA
*
33794417 CGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAATGATATC
1 CGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAATGATATC
* *
33794463 CGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAATGATATC
1 CGGT-GGATTCAGCACACAGCAACCACCTTATAATCAATGATATC
33794507 GGTTCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 15 0.38
45 2 0.05
46 20 0.50
47 3 0.08
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
CGGTGGATTCAGCACACAGCAACCACCTTATAATCAATGATATC
Found at i:33794573 original size:51 final size:52
Alignment explanation
Indices: 33794511--33794653 Score: 202
Period size: 51 Copynumber: 2.8 Consensus size: 52
33794501 GATATCGGTT
* *
33794511 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCA-TTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTATCCGATA
* * *
33794562 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCAGCTATCCGATA
*
33794613 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCATCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCA
33794654 CTTTCGCTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
50 3 0.04
51 74 0.93
52 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (52 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTATCCGATA
Found at i:33800834 original size:35 final size:35
Alignment explanation
Indices: 33800787--33800925 Score: 190
Period size: 35 Copynumber: 4.0 Consensus size: 35
33800777 ATCGGTAGGT
* *
33800787 CTGGCTCTTATGAGCATTTGGTGTGTTGAATGGTA
1 CTGGCTCTTATGAGCATCTGGTGTGCTGAATGGTA
* * *
33800822 TTGGCTCTTATGAGCATCTGGTATGCTGGATGGTA
1 CTGGCTCTTATGAGCATCTGGTGTGCTGAATGGTA
33800857 CTGGCTCTTATGAGCATCTGGTGTGCT-AGATGGTA
1 CTGGCTCTTATGAGCATCTGGTGTGCTGA-ATGGTA
* * *
33800892 CTGGCTCTTATGAGCATGTGGTGTGTTGGATGGT
1 CTGGCTCTTATGAGCATCTGGTGTGCTGAATGGT
33800926 TAACCATGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.16, C:0.14, G:0.33, T:0.37
Consensus pattern (35 bp):
CTGGCTCTTATGAGCATCTGGTGTGCTGAATGGTA
Found at i:33815088 original size:33 final size:33
Alignment explanation
Indices: 33815051--33815154 Score: 138
Period size: 33 Copynumber: 3.2 Consensus size: 33
33815041 TCTCTATTCA
*
33815051 GTGTGATGGTTGGTTTAGCTCTTCTGAGCATTG
1 GTGTGATGGTTGGTTTAGCTCTTATGAGCATTG
* * *
33815084 GTGTGATGGCTGGATTAGCTCTTATAAGCATTG
1 GTGTGATGGTTGGTTTAGCTCTTATGAGCATTG
* *
33815117 GTGTGATGGTT-GTATTAGCTTTTATGAGCATTA
1 GTGTGATGGTTGGT-TTAGCTCTTATGAGCATTG
33815150 GTGTG
1 GTGTG
33815155 TTGGAGGGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 1 0.02
33 60 0.98
ACGTcount: A:0.17, C:0.10, G:0.32, T:0.41
Consensus pattern (33 bp):
GTGTGATGGTTGGTTTAGCTCTTATGAGCATTG
Found at i:33820407 original size:11 final size:12
Alignment explanation
Indices: 33820383--33820408 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33820373 CCAAGCCCCG
33820383 TTTTTAATGTTT
1 TTTTTAATGTTT
33820395 TTTTTAATGTTT
1 TTTTTAATGTTT
33820407 TT
1 TT
33820409 AGAGTCCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTAATGTTT
Found at i:33820749 original size:30 final size:30
Alignment explanation
Indices: 33820715--33820773 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
33820705 TTCGAGCTTT
33820715 GGGGCAAAAGTGTAAATATG-CAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGTC-AAAGTTTA
* *
33820745 GGGGCAAAATTGTAATTATGTCAAAGTTT
1 GGGGCAAAAGTGTAAATATGTCAAAGTTT
33820774 GAGTCAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGTCAAAGTTTA
Found at i:33821249 original size:50 final size:50
Alignment explanation
Indices: 33821174--33821291 Score: 155
Period size: 50 Copynumber: 2.4 Consensus size: 50
33821164 TGAGAGGTCT
* * *
33821174 AGTCCCACGTAAGACCTTGTCTGGGACATGGCGTTGGCACCGAGATGAGA
1 AGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGA
* * * *
33821224 GGTCCCCCGTAAGACCATGTGTGGGACATGGCATGGGCACCGATATGAGA
1 AGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGA
* *
33821274 ACTCCCATGTAAGACCAT
1 AGTCCCACGTAAGACCAT
33821292 ATCTAGGTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.19
Consensus pattern (50 bp):
AGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGA
Found at i:33821588 original size:20 final size:20
Alignment explanation
Indices: 33821563--33821611 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
33821553 TGAATTATTT
33821563 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
33821583 AAGTAAG-AGAGTTAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
33821603 AAG-AAGCAA
1 AAGTAAGCAA
33821612 AGACGATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.24, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:33822793 original size:15 final size:15
Alignment explanation
Indices: 33822769--33822815 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
33822759 TAAGTCAGGT
*
33822769 AATAATTGGTTAATC
1 AATAACTGGTTAATC
33822784 AATAACTGG-TAAT-
1 AATAACTGGTTAATC
33822797 AAT---TGGTTAATC
1 AATAACTGGTTAATC
33822809 AATAACT
1 AATAACT
33822816 AATCCACCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
10 3 0.12
11 4 0.15
12 3 0.12
13 3 0.12
14 4 0.15
15 9 0.35
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (15 bp):
AATAACTGGTTAATC
Found at i:33822794 original size:25 final size:25
Alignment explanation
Indices: 33822766--33822815 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33822756 AGTTAAGTCA
33822766 GGTAATAATTGGTTAATCAATAACT
1 GGTAATAATTGGTTAATCAATAACT
33822791 GGTAATAATTGGTTAATCAATAACT
1 GGTAATAATTGGTTAATCAATAACT
33822816 AATCCACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (25 bp):
GGTAATAATTGGTTAATCAATAACT
Found at i:33826023 original size:6 final size:6
Alignment explanation
Indices: 33826012--33826046 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
33826002 AGGTTTCCAA
* *
33826012 AAATGG AAATGG AAATGG AAATGG CAATGG CAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
33826047 ATTCATTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:33826237 original size:26 final size:26
Alignment explanation
Indices: 33826208--33826266 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
33826198 TTTACCAAGG
*
33826208 GTAAAATCGTCAAAATTTTATCGGGA
1 GTAAAATCATCAAAATTTTATCGGGA
* *
33826234 GTAAAATCATCTAAATTTTATTGGGA
1 GTAAAATCATCAAAATTTTATCGGGA
33826260 GTAAAAT
1 GTAAAAT
33826267 TGGGATGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (26 bp):
GTAAAATCATCAAAATTTTATCGGGA
Found at i:33847304 original size:6 final size:6
Alignment explanation
Indices: 33847289--33847322 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
33847279 ATAAATAAAT
* *
33847289 TTTATA TTTATG TTTATG TTTATG TTTATT TTTA
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTA
33847323 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (6 bp):
TTTATG
Found at i:33847350 original size:17 final size:16
Alignment explanation
Indices: 33847320--33847354 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
33847310 ATGTTTATTT
33847320 TTACTTTTAATTTTAG
1 TTACTTTTAATTTTAG
*
33847336 TTACATTTTACTTTTAG
1 TTAC-TTTTAATTTTAG
33847353 TT
1 TT
33847355 GTAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.63
Consensus pattern (16 bp):
TTACTTTTAATTTTAG
Found at i:33847474 original size:14 final size:14
Alignment explanation
Indices: 33847455--33847486 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33847445 ATTAAGTGAA
33847455 ATTAGAGTTAGTTT
1 ATTAGAGTTAGTTT
*
33847469 ATTAGAGTTATTTT
1 ATTAGAGTTAGTTT
33847483 ATTA
1 ATTA
33847487 TATTTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (14 bp):
ATTAGAGTTAGTTT
Found at i:33861470 original size:18 final size:18
Alignment explanation
Indices: 33861429--33861486 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
33861419 ATTGTTGTTG
*
33861429 AGAAGAAAGTTGCTGCTTAGA
1 AGAAG-AAGTTGTTGC-TA-A
*
33861450 AGAGGAAGTTGTTGCTAA
1 AGAAGAAGTTGTTGCTAA
**
33861468 AGAAGAAGAAGTTGCTAA
1 AGAAGAAGTTGTTGCTAA
33861486 A
1 A
33861487 TATGAAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.53
19 2 0.06
20 9 0.28
21 4 0.12
ACGTcount: A:0.41, C:0.07, G:0.29, T:0.22
Consensus pattern (18 bp):
AGAAGAAGTTGTTGCTAA
Found at i:33871664 original size:53 final size:53
Alignment explanation
Indices: 33871601--33871745 Score: 211
Period size: 53 Copynumber: 2.7 Consensus size: 53
33871591 AGACCATAAC
33871601 TGGTGGGTTATGGTATCATATGGGAAAAAGACCATATCGTGTAAGATCGTAAA
1 TGGTGGGTTATGGTATCATATGGGAAAAAGACCATATCGTGTAAGATCGTAAA
** * * *
33871654 TGGTGGGTTATGCCATCATAT-GGAAAGCAGATCATATCGTGTAAGATCGTAAT
1 TGGTGGGTTATGGTATCATATGGGAAA-AAGACCATATCGTGTAAGATCGTAAA
* *
33871707 TGATGGGTTATGGTATCATATGGGAAGAAGACCATATCG
1 TGGTGGGTTATGGTATCATATGGGAAAAAGACCATATCG
33871746 CGTCAGGGCA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
52 5 0.06
53 70 0.89
54 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (53 bp):
TGGTGGGTTATGGTATCATATGGGAAAAAGACCATATCGTGTAAGATCGTAAA
Found at i:33874343 original size:36 final size:36
Alignment explanation
Indices: 33874302--33874377 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
33874292 AAAAACTTAG
33874302 TTTAGAAGAAAGATAACCTTAGTGCATTAGGAGGTA
1 TTTAGAAGAAAGATAACCTTAGTGCATTAGGAGGTA
*
33874338 TTTAGAAGAAAGATAACTTTAGTGCATTAGGAGGTA
1 TTTAGAAGAAAGATAACCTTAGTGCATTAGGAGGTA
33874374 TTTA
1 TTTA
33874378 CTATAGTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (36 bp):
TTTAGAAGAAAGATAACCTTAGTGCATTAGGAGGTA
Found at i:33882192 original size:50 final size:51
Alignment explanation
Indices: 33882085--33882193 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 51
33882075 CATTATTAAG
* * * *
33882085 GGTATGAGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCC
1 GGTATGAGAGGTCCCACGTAAGACTATGTCTAGGACATGGCATGGGCACCC
* * *
33882136 AG-ATGAGAGGTCCCCCGTAAGA-TCATGTCTAGGACATGGCATGGGCA-TC
1 GGTATGAGAGGTCCCACGTAAGACT-ATGTCTAGGACATGGCATGGGCACCC
33882185 GGTATGAGA
1 GGTATGAGA
33882194 ACTCTCATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.06
50 44 0.92
51 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (51 bp):
GGTATGAGAGGTCCCACGTAAGACTATGTCTAGGACATGGCATGGGCACCC
Found at i:33888264 original size:27 final size:27
Alignment explanation
Indices: 33888057--33888256 Score: 165
Period size: 27 Copynumber: 7.4 Consensus size: 27
33888047 CAGAAAGGTT
* * **
33888057 GTAAGATTATCGAAATAAACCCGAAGG
1 GTAAAATTATCAAAATACCCCCGAAGG
**
33888084 GTAAAATTA-CTAAAATACCCTTGATA-G
1 GTAAAATTATC-AAAATACCCCCGA-AGG
* * *
33888111 GTAAAATTACCGAAATACCCCCAAAGG
1 GTAAAATTATCAAAATACCCCCGAAGG
* *
33888138 GTAAAATTATTAAAATACCCTCGATA-G
1 GTAAAATTATCAAAATACCCCCGA-AGG
* * * *
33888165 ATAAAATTATCAAAATACCACTGAAAG
1 GTAAAATTATCAAAATACCCCCGAAGG
** *
33888192 GTAAAATTA-CTAAAATACCCTTGATGG
1 GTAAAATTATC-AAAATACCCCCGAAGG
*
33888219 GTAAAATTACCAAAATACCCCCGAAGG
1 GTAAAATTATCAAAATACCCCCGAAGG
33888246 GTAAAATTATC
1 GTAAAATTATC
33888257 GGAATACCTC
Statistics
Matches: 136, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
26 4 0.03
27 128 0.94
28 4 0.03
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (27 bp):
GTAAAATTATCAAAATACCCCCGAAGG
Found at i:33888264 original size:54 final size:54
Alignment explanation
Indices: 33888076--33888254 Score: 268
Period size: 54 Copynumber: 3.3 Consensus size: 54
33888066 TCGAAATAAA
*
33888076 CCCGAAGGGTAAAATTACTAAAATACCCTTGATAGGTAAAATTACCGAAATACC
1 CCCGAAGGGTAAAATTACTAAAATACCCTTGATAGGTAAAATTACCAAAATACC
* * * * *
33888130 CCCAAAGGGTAAAATTATTAAAATACCCTCGATAGATAAAATTATCAAAATACC
1 CCCGAAGGGTAAAATTACTAAAATACCCTTGATAGGTAAAATTACCAAAATACC
* * * *
33888184 ACTGAAAGGTAAAATTACTAAAATACCCTTGATGGGTAAAATTACCAAAATACC
1 CCCGAAGGGTAAAATTACTAAAATACCCTTGATAGGTAAAATTACCAAAATACC
33888238 CCCGAAGGGTAAAATTA
1 CCCGAAGGGTAAAATTA
33888255 TCGGAATACC
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (54 bp):
CCCGAAGGGTAAAATTACTAAAATACCCTTGATAGGTAAAATTACCAAAATACC
Found at i:33888264 original size:81 final size:81
Alignment explanation
Indices: 33888076--33888256 Score: 215
Period size: 81 Copynumber: 2.2 Consensus size: 81
33888066 TCGAAATAAA
* *
33888076 CCCGAAGGGTAAAATTA-CTAAAATACCCTTGATAGGTAAAATTACCGAAATACCCCCAAAGGGT
1 CCCGAAGGGTAAAATTATC-AAAATACCCTTGAAAGGTAAAATTACCAAAATACCCCCAAAGGGT
**
33888140 AAAATTATTAAAATACC
65 AAAATTACCAAAATACC
* * * *** *
33888157 CTCGATA-GATAAAATTATCAAAATACCAC-TGAAAGGTAAAATTACTAAAATACCCTTGATGGG
1 CCCGA-AGGGTAAAATTATCAAAATACC-CTTGAAAGGTAAAATTACCAAAATACCCCCAAAGGG
33888220 TAAAATTACCAAAATACC
64 TAAAATTACCAAAATACC
33888238 CCCGAAGGGTAAAATTATC
1 CCCGAAGGGTAAAATTATC
33888257 GGAATACCTC
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
80 1 0.01
81 79 0.95
82 3 0.04
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (81 bp):
CCCGAAGGGTAAAATTATCAAAATACCCTTGAAAGGTAAAATTACCAAAATACCCCCAAAGGGTA
AAATTACCAAAATACC
Found at i:33891111 original size:25 final size:25
Alignment explanation
Indices: 33891083--33891132 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
33891073 CTGGCAAGGA
33891083 GGCGACACAGGTGTGGTAAGCAGGT
1 GGCGACACAGGTGTGGTAAGCAGGT
* *
33891108 GGCGTCACAGGTGTGGTAAGGAGGT
1 GGCGACACAGGTGTGGTAAGCAGGT
33891133 CAGAGGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.46, T:0.18
Consensus pattern (25 bp):
GGCGACACAGGTGTGGTAAGCAGGT
Found at i:33892801 original size:27 final size:26
Alignment explanation
Indices: 33892766--33893000 Score: 247
Period size: 27 Copynumber: 8.8 Consensus size: 26
33892756 CAAAAAGGTT
*
33892766 GTAAGATTACCGAAATACACCTGAAGG
1 GTAAAATTACCGAAATAC-CCTGAAGG
* * *
33892793 GTAAAATTACCAAAATACACTTGATGG
1 GTAAAATTACCGAAATAC-CCTGAAGG
* *
33892820 GTAAAATTATCGAAATACCCTTGATGG
1 GTAAAATTACCGAAATACCC-TGAAGG
*
33892847 GTAAAATTATCGAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCC-TGAAGG
* *
33892874 GTAAAATTACCGAAATACCCTCGATGA
1 GTAAAATTACCGAAATACCCT-GAAGG
33892901 GTAAAATTA-CGAAAATACCCTTGAAGG
1 GTAAAATTACCG-AAATACCC-TGAAGG
* * *
33892928 GTAAAATTATCGAAACACCCTCGATGG
1 GTAAAATTACCGAAATACCCT-GAAGG
* * * *
33892955 ATAAAATTACTGAAATACCCCGAAAG
1 GTAAAATTACCGAAATACCCTGAAGG
33892981 GTAAAATTACCGAAATACCC
1 GTAAAATTACCGAAATACCC
33893001 CATAGGGTAA
Statistics
Matches: 178, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.15
27 149 0.84
28 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (26 bp):
GTAAAATTACCGAAATACCCTGAAGG
Found at i:33892863 original size:54 final size:53
Alignment explanation
Indices: 33892766--33893000 Score: 294
Period size: 54 Copynumber: 4.4 Consensus size: 53
33892756 CAAAAAGGTT
* * * * *
33892766 GTAAGATTACCGAAATACACCT-GAAGGGTAAAATTACCAAAATACACTTGATGG
1 GTAAAATTACCGAAATAC-CCTCGATGGGTAAAATTA-CGAAATACCCTTGAAGG
* *
33892820 GTAAAATTATCGAAATACCCTTGATGGGTAAAATTATCGAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTA-CGAAATACCCTTGAAGG
*
33892874 GTAAAATTACCGAAATACCCTCGATGAGTAAAATTACGAAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTACG-AAATACCCTTGAAGG
* * * * *
33892928 GTAAAATTATCGAAACACCCTCGATGGATAAAATTACTGAAATACCC-CGAAAG
1 GTAAAATTACCGAAATACCCTCGATGGGTAAAATTAC-GAAATACCCTTGAAGG
33892981 GTAAAATTACCGAAATACCC
1 GTAAAATTACCGAAATACCC
33893001 CATAGGGTAA
Statistics
Matches: 160, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
53 27 0.17
54 132 0.82
55 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (53 bp):
GTAAAATTACCGAAATACCCTCGATGGGTAAAATTACGAAATACCCTTGAAGG
Found at i:33892917 original size:81 final size:81
Alignment explanation
Indices: 33892766--33893000 Score: 289
Period size: 81 Copynumber: 2.9 Consensus size: 81
33892756 CAAAAAGGTT
* * * * * * *
33892766 GTAAGATTACCGAAATACACC-TGAAGGGTAAAATTACCAAAATACACTTGATGGGTAAAATTAT
1 GTAAAATTATCGAAATAC-CCTTGAAGGGTAAAATTACCGAAATACCCTCGATGAGTAAAATTAC
*
33892830 CGAAATACCCTTGATGG
65 CGAAATACCCTTGAAGG
33892847 GTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACCGAAATACCCTCGATGAGTAAAATTA-C
1 GTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACCGAAATACCCTCGATGAGTAAAATTACC
33892911 GAAAATACCCTTGAAGG
66 G-AAATACCCTTGAAGG
* * * * * *
33892928 GTAAAATTATCGAAACACCCTCGATGGATAAAATTACTGAAATACCC-CGA-AAGGTAAAATTAC
1 GTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACCGAAATACCCTCGATGA-GTAAAATTAC
33892991 CGAAATACCC
65 CGAAATACCC
33893001 CATAGGGTAA
Statistics
Matches: 137, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
79 1 0.01
80 24 0.18
81 112 0.82
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (81 bp):
GTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACCGAAATACCCTCGATGAGTAAAATTACC
GAAATACCCTTGAAGG
Found at i:33904807 original size:25 final size:26
Alignment explanation
Indices: 33904766--33904832 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
33904756 AATAAATACA
*
33904766 TCTTTGCATTCATTTTTGAGACAA-TAT
1 TCTTT-CATTC-TTTTTGAAACAATTAT
*
33904793 T-TTTCCATTCTTTTTGAAATAATTAT
1 TCTTT-CATTCTTTTTGAAACAATTAT
33904819 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
33904833 GGATTTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 10 0.29
26 21 0.60
27 4 0.11
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (26 bp):
TCTTTCATTCTTTTTGAAACAATTAT
Found at i:33907170 original size:88 final size:85
Alignment explanation
Indices: 33907020--33907358 Score: 315
Period size: 88 Copynumber: 4.0 Consensus size: 85
33907010 AAAAGATTAT
* * * ** * *
33907020 TGAAGATAGCAGATCTTGCCTTCTTGTACCGGTAGCGAAGCAGA-TAAAAGACACCAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA-ATTCAAAGACACCAGTCTTGCC
* *
33907084 TCCCTGGGTTGCAGCGGATCA
65 TCCCTAGGTTGCAGCGGAGCA
* * *
33907105 GGTTGAAAATAGTAGATCTTGCCTTCCTGTACTGACAGCAAAGCAATTCGAAGACACCAGTCTTG
1 ---TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAATTCAAAGACACCAGTCTTG
*
33907170 CCTCCCTAGGTTGCAGTGGAGCAAA
63 CCTCCCTAGGTTGCAGCGGAGC--A
* * *
33907195 CT-AAAGATAGCAGATCTTGCCTTCCTGTACCGACAACGAAGCAGA-TCAAAGAAACCAG-CATT
1 -TGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA-ATTCAAAGACACCAGTC-TT
* *
33907257 GCCTCCCTGGGTTGCAGCAGAGCA
62 GCCTCCCTAGGTTGCAGCGGAGCA
*
33907281 -G------GCAGATCTTGCCTTCCTGTACTGACAGCGAAGC-ATATCAAAAACACCAGTCTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAAT-TCAAAGACACCAGTCTTGCC
*
33907338 TCCCTAGGTTGCAGTGGAGCA
65 TCCCTAGGTTGCAGCGGAGCA
33907359 GACTGAAGAC
Statistics
Matches: 211, Mismatches: 30, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
76 1 0.00
78 65 0.31
79 1 0.00
86 1 0.00
87 5 0.02
88 136 0.64
89 1 0.00
90 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (85 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAATTCAAAGACACCAGTCTTGCCT
CCCTAGGTTGCAGCGGAGCA
Found at i:33907359 original size:78 final size:78
Alignment explanation
Indices: 33907204--33907351 Score: 228
Period size: 78 Copynumber: 1.9 Consensus size: 78
33907194 ACTAAAGATA
*
33907204 GCAGATCTTGCCTTCCTGTACCGACAACGAAGCAGATCAAAGAAACCAGCATTGCCTCCCTGGGT
1 GCAGATCTTGCCTTCCTGTACCGACAACGAAGCAGATCAAAGAAACCAGCATTGCCTCCCTAGGT
33907269 TGCAGCAGAGCAG
66 TGCAGCAGAGCAG
* * *
33907282 GCAGATCTTGCCTTCCTGTACTGACAGCGAAGCATATCAAA-AACACCAGTC-TTGCCTCCCTAG
1 GCAGATCTTGCCTTCCTGTACCGACAACGAAGCAGATCAAAGAA-ACCAG-CATTGCCTCCCTAG
33907345 GTTGCAG
64 GTTGCAG
33907352 TGGAGCAGAC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
77 2 0.03
78 61 0.95
79 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (78 bp):
GCAGATCTTGCCTTCCTGTACCGACAACGAAGCAGATCAAAGAAACCAGCATTGCCTCCCTAGGT
TGCAGCAGAGCAG
Found at i:33907474 original size:88 final size:88
Alignment explanation
Indices: 33907348--33907674 Score: 302
Period size: 88 Copynumber: 3.7 Consensus size: 88
33907338 TCCCTAGGTT
* * * *
33907348 GCAGTGGAGCAGA-CTGAAGACACTAGCCTTGACTCCCTGAGTTACAGCGGAGTAGGTTAAAAAT
1 GCAGTGAAGCAGATC-GAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGTAGGTTAAAAAT
*
33907412 AGCAGATCTTGCCTTCCTGTACCG
65 AGCAGATCTTGCCTTCCTGTACCA
* * * * * * * * *
33907436 GCAGCGAAGCATATCAAAGATACCAGCCTTGCCTCCCTGGGTTGGAGCGGAGGAGGTTGAAAATT
1 GCAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGTAGGTTAAAAATA
* ** * * * *
33907501 GTAGATCTTATCTCCCT-AAGCT
66 GCAGATCTTGCCTTCCTGTACCA
* * * * * *
33907523 GTAGTGGAGTAGATCGAAGACACTAGCCTTGCC-CCCGTCG-GTGGCAGCGGAGTAGGTTAAAGA
1 GCAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCC-T-GAGTTGCAGCGGAGTAGGTTAAAAA
*
33907586 TAGCAGATCTTGCCTTCCTGTACTA
64 TAGCAGATCTTGCCTTCCTGTACCA
* * * * *
33907611 ACAGTGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTGAAAAT
1 GCAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGTAGGTTAAAAAT
33907675 TACATATCTT
Statistics
Matches: 180, Mismatches: 53, Indels: 12
0.73 0.22 0.05
Matches are distributed among these distances:
86 3 0.02
87 60 0.33
88 113 0.63
89 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (88 bp):
GCAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGTAGGTTAAAAATA
GCAGATCTTGCCTTCCTGTACCA
Found at i:33907579 original size:175 final size:175
Alignment explanation
Indices: 33907350--33907717 Score: 499
Period size: 175 Copynumber: 2.1 Consensus size: 175
33907340 CCTAGGTTGC
* *
33907350 AGTGGAGCAGA-CTGAAGACACTAGCCTTGACTCCCTGAGTTACAGCGGAGTAGGTTAAAAATAG
1 AGTGGAGCAGATC-GAAGACACTAGCCTTGACCCCCTGAGTGACAGCGGAGTAGGTTAAAAATAG
** * * **
33907414 CAGATCTTGCCTTCCTGTACCGGCAGCGAAGCATATCAAAGATACCAGCCTTGCCTCCCTGGGTT
65 CAGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAAGTT
* * ** *
33907479 GGAGCGGAGGAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCTGT
130 GCAGCGGAGCAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
33907525 AGTGGAGTAGATCGAAGACACTAGCCTTG-CCCCCGTCG-GTGGCAGCGGAGTAGGTTAAAGATA
1 AGTGGAGCAGATCGAAGACACTAGCCTTGACCCCC-T-GAGTGACAGCGGAGTAGGTTAAAAATA
* * **
33907588 GCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTAAGT
64 GCAGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAAGT
*
33907653 TGCAGCGGAGCAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGT
129 TGCAGCGGAGCAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
33907700 AGTGGAGCAGATCGAAGA
1 AGTGGAGCAGATCGAAGA
33907718 TGGCATATCT
Statistics
Matches: 168, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
174 4 0.02
175 162 0.96
176 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (175 bp):
AGTGGAGCAGATCGAAGACACTAGCCTTGACCCCCTGAGTGACAGCGGAGTAGGTTAAAAATAGC
AGATCTTGCCTTCCTGTACCAACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAAGTTG
CAGCGGAGCAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
Found at i:33909376 original size:30 final size:30
Alignment explanation
Indices: 33909342--33909441 Score: 98
Period size: 30 Copynumber: 3.3 Consensus size: 30
33909332 ATTAATTTCA
*
33909342 ATATATGTAATTATTATTATTTATTTTTAT
1 ATATATGTAATTATTATTATTTATTTATAT
* *
33909372 ATATATGTAATTATCT-TT-TTTATAATCTAT
1 ATATATGTAATTAT-TATTATTTAT-TTATAT
*
33909402 ATATATGTATATAATTATTATTT-TTTATAT
1 ATATATGTA-ATTATTATTATTTATTTATAT
*
33909432 AGTACATGTA
1 A-TATATGTA
33909442 TATATTTATA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
29 5 0.09
30 35 0.60
31 15 0.26
32 3 0.05
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (30 bp):
ATATATGTAATTATTATTATTTATTTATAT
Found at i:33909595 original size:8 final size:8
Alignment explanation
Indices: 33909559--33909596 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
33909549 TTTTTAACGC
33909559 ATAT-TTT
1 ATATATTT
33909566 ATA-ATTT
1 ATATATTT
*
33909573 ATATATAT
1 ATATATTT
33909581 ATATATTT
1 ATATATTT
33909589 ATATATTT
1 ATATATTT
33909597 TTCTTTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 9 0.33
8 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATATTT
Found at i:33921537 original size:49 final size:49
Alignment explanation
Indices: 33921471--33921656 Score: 214
Period size: 49 Copynumber: 3.8 Consensus size: 49
33921461 GATAATAACA
* * *
33921471 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAT
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC
* * *
33921520 TGCGAATGCCATATCCCAAATATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC
* * * * *
33921569 TGCCAATGTCATATCCCAGATATGATCTTACATGGGA-GTTATCATAT-C
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC
* *
33921617 GGTGCCCATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 --TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAT
33921657 CTCTTTACCC
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
48 4 0.03
49 80 0.69
50 32 0.28
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (49 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC
Found at i:33927927 original size:15 final size:15
Alignment explanation
Indices: 33927909--33927939 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33927899 TTTTTTAATC
*
33927909 TATTTTTTTGTATTT
1 TATTTTTCTGTATTT
33927924 TATTTTTCTGTATTT
1 TATTTTTCTGTATTT
33927939 T
1 T
33927940 TTCGATCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.06, T:0.77
Consensus pattern (15 bp):
TATTTTTCTGTATTT
Found at i:33928820 original size:8 final size:8
Alignment explanation
Indices: 33928807--33928832 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
33928797 TAAAATTGGG
33928807 AATAATAA
1 AATAATAA
33928815 AATAATAA
1 AATAATAA
33928823 AATAATAA
1 AATAATAA
33928831 AA
1 AA
33928833 GCTGATAAAT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:33931918 original size:15 final size:15
Alignment explanation
Indices: 33931882--33931912 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33931872 TCTTTGAAAA
33931882 TCACATACCACAAGT
1 TCACATACCACAAGT
*
33931897 TCACATACCTCAAGT
1 TCACATACCACAAGT
33931912 T
1 T
33931913 TTCATATTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (15 bp):
TCACATACCACAAGT
Found at i:33932907 original size:21 final size:21
Alignment explanation
Indices: 33932868--33932908 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33932858 GTGAGCAGAT
* *
33932868 AGTATTGAGTTTCAGAAACAA
1 AGTATTGAATTTCAAAAACAA
*
33932889 AGTATTGAATTTTAAAAACA
1 AGTATTGAATTTCAAAAACA
33932909 CCCTTGTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (21 bp):
AGTATTGAATTTCAAAAACAA
Found at i:33933257 original size:22 final size:21
Alignment explanation
Indices: 33933231--33933285 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
33933221 AGATCAAGAC
*
33933231 AAATATAATCACGTACATATCA
1 AAATATAATCACAT-CATATCA
*
33933253 AAATATCAATCTCATCATATCA
1 AAATAT-AATCACATCATATCA
33933275 ATAATCATAAT
1 A-AAT-ATAAT
33933286 AATCACAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 14 0.50
23 12 0.43
24 2 0.07
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATATAATCACATCATATCA
Found at i:33937829 original size:18 final size:18
Alignment explanation
Indices: 33937808--33937843 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33937798 TTGTGAAAAG
*
33937808 TATGTTAAAAGTGATTAT
1 TATGTGAAAAGTGATTAT
*
33937826 TATGTGATAAGTGATTAT
1 TATGTGAAAAGTGATTAT
33937844 GAGGGCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (18 bp):
TATGTGAAAAGTGATTAT
Found at i:33938025 original size:22 final size:22
Alignment explanation
Indices: 33937995--33938067 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
33937985 CATCAATGTT
*
33937995 ATCAATGACAGTTTATCTGTAA
1 ATCAGTGACAGTTTATCTGTAA
33938017 ATCAGTGACAGTTTATCTGTAA
1 ATCAGTGACAGTTTATCTGTAA
* * * *
33938039 ATCAGTGGCAATTTAACTGCAA
1 ATCAGTGACAGTTTATCTGTAA
33938061 ATCAGTG
1 ATCAGTG
33938068 GTGGCTTGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (22 bp):
ATCAGTGACAGTTTATCTGTAA
Found at i:33943222 original size:41 final size:42
Alignment explanation
Indices: 33943177--33943268 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 42
33943167 AAGAATATTG
*
33943177 TTGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTA-CCC
1 TTGAATTGCACATATGTGCCCCTGTTTATACTTCGGTATCCC
* *
33943218 TTGAATTGGACATATGTGCCCCTGTTTATACTTTGGTATCCC
1 TTGAATTGCACATATGTGCCCCTGTTTATACTTCGGTATCCC
33943260 -TGAA-TGCAC
1 TTGAATTGCAC
33943269 TTTTATACCC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 4 0.09
41 39 0.85
42 3 0.07
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (42 bp):
TTGAATTGCACATATGTGCCCCTGTTTATACTTCGGTATCCC
Found at i:33961709 original size:51 final size:51
Alignment explanation
Indices: 33961621--33961734 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
33961611 GGGTGTGGAT
* *
33961621 ATCCTGAGGCAACAATAGAGGGTAGTGACTGACTAGAGATGGAAAATGAAG
1 ATCCAGAGGCAACAATAGAGGGTAGTGACTGACTAGAGATAGAAAATGAAG
* * * * * *
33961672 ATCCAGAGGCAGCAATAGATGGTAGTGGCTGAGTAGAGATAGAAAGTGGAG
1 ATCCAGAGGCAACAATAGAGGGTAGTGACTGACTAGAGATAGAAAATGAAG
*
33961723 ATTCAGAGGCAA
1 ATCCAGAGGCAA
33961735 TCCCTTTCAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.11, G:0.33, T:0.18
Consensus pattern (51 bp):
ATCCAGAGGCAACAATAGAGGGTAGTGACTGACTAGAGATAGAAAATGAAG
Found at i:33969783 original size:20 final size:20
Alignment explanation
Indices: 33969745--33969783 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33969735 AAAGCAAGCA
* *
33969745 AGTAAGTAAATAAGTAAGTG
1 AGTAAGTAAAGAAGAAAGTG
33969765 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAAGAAGAAAGT
33969784 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
AGTAAGTAAAGAAGAAAGTG
Found at i:33975263 original size:49 final size:50
Alignment explanation
Indices: 33975142--33975268 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 50
33975132 GGGTGATGAG
* *
33975142 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGACAGGAGAAC
* * *
33975193 -TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAGGA-AAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACG-ACAGGAGAAC
*
33975241 ATCCCATGTAAGACTATGTCTGGGACAT
1 ATCCCATGTAAGACCATGTCTGGGACAT
33975269 AGCTTTGGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
48 4 0.06
49 28 0.42
50 34 0.52
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACGACAGGAGAAC
Found at i:33975277 original size:49 final size:50
Alignment explanation
Indices: 33975142--33975278 Score: 163
Period size: 49 Copynumber: 2.8 Consensus size: 50
33975132 GGGTGATGAG
* * *
33975142 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGAGAAC
* *
33975193 -TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAGGA-AAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAGGAGAAC
* * *
33975241 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33975279 TATTATATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.05
49 36 0.49
50 34 0.46
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACAGGAGAAC
Found at i:33975529 original size:20 final size:20
Alignment explanation
Indices: 33975491--33975529 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33975481 TAAGCAAGCA
*
33975491 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
33975511 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
33975530 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:33989820 original size:19 final size:20
Alignment explanation
Indices: 33989782--33989822 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
33989772 ACAGTTAGTG
*
33989782 GCATTTTAGGTCATTTCATTA
1 GCATTTTA-GTCATTGCATTA
33989803 GCATTTTA-TCATTGCATTA
1 GCATTTTAGTCATTGCATTA
33989822 G
1 G
33989823 GAGCTTGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
GCATTTTAGTCATTGCATTA
Found at i:33992156 original size:22 final size:22
Alignment explanation
Indices: 33992128--33992171 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33992118 TTTTGAACCA
33992128 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
33992150 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
33992172 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:33992501 original size:21 final size:22
Alignment explanation
Indices: 33992475--33992526 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
33992465 AGACTCGTGA
33992475 AAAAAAATTTTGAAAAAAAATA-
1 AAAAAAATTTTGAAAAAAAA-AG
*
33992497 AAAAAAA-ATTGAAAAAAAAAG
1 AAAAAAATTTTGAAAAAAAAAG
33992518 AAAAAAATT
1 AAAAAAATT
33992527 GTATACGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 18 0.69
22 7 0.27
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (22 bp):
AAAAAAATTTTGAAAAAAAAAG
Found at i:33994773 original size:20 final size:20
Alignment explanation
Indices: 33994748--33994792 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
33994738 GCGAAAATAC
*
33994748 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATCAAA
*
33994768 AAAAG-AAAGAAAATTCAAA
1 AAAAGAAAAGAAAAATCAAA
33994787 AAAAGA
1 AAAAGA
33994793 GAATGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATCAAA
Found at i:33994840 original size:14 final size:15
Alignment explanation
Indices: 33994811--33994840 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33994801 AGAGAGCGAG
33994811 AAAAGAAAAAGATGA
1 AAAAGAAAAAGATGA
33994826 AAAAGAAAAAG-TGA
1 AAAAGAAAAAGATGA
33994840 A
1 A
33994841 TGAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAGATGA
Found at i:33998199 original size:31 final size:32
Alignment explanation
Indices: 33998143--33998209 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
33998133 TTATTTATAT
*
33998143 AGGTTGGCCGAATGTGTGGGATCA-TTTAACA
1 AGGTTAGCCGAATGTGTGGGATCATTTTAACA
*
33998174 AGGTTAGCCGAAT-T-TGGAGATTCATTTTAGCA
1 AGGTTAGCCGAATGTGTGG-GA-TCATTTTAACA
33998206 AGGT
1 AGGT
33998210 GCATGCATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 3 0.10
31 15 0.48
32 10 0.32
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (32 bp):
AGGTTAGCCGAATGTGTGGGATCATTTTAACA
Found at i:33999029 original size:22 final size:22
Alignment explanation
Indices: 33999001--33999044 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33998991 TTTTCAACCA
33999001 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
33999023 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
33999045 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:34004743 original size:14 final size:14
Alignment explanation
Indices: 34004724--34004752 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34004714 GGTTTACCGA
34004724 AATTATATTAATGT
1 AATTATATTAATGT
34004738 AATTATATTAATGT
1 AATTATATTAATGT
34004752 A
1 A
34004753 CACACAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
AATTATATTAATGT
Found at i:34006583 original size:16 final size:17
Alignment explanation
Indices: 34006536--34006584 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
34006526 GTACTTTATG
*
34006536 TAATTAATGTAAAATAA
1 TAATTAATCTAAAATAA
34006553 T-ATT-ATCTAAAATAA
1 TAATTAATCTAAAATAA
*
34006568 TAATTAAT-TAACATAA
1 TAATTAATCTAAAATAA
34006584 T
1 T
34006585 TAACTCTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 11 0.39
16 14 0.50
17 3 0.11
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (17 bp):
TAATTAATCTAAAATAA
Found at i:34006643 original size:24 final size:26
Alignment explanation
Indices: 34006580--34006659 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 26
34006570 ATTAATTAAC
*
34006580 ATAATTAACTCTAATATTAGTTAAGTC
1 ATAATTAACTCTAATATTA-TTAAGTA
34006607 ATAATTAA----AATATT-TT-AGTA
1 ATAATTAACTCTAATATTATTAAGTA
* *
34006627 ATAATTAACTCTAATATTGTTCAAATA
1 ATAATTAACTCTAATATTATT-AAGTA
34006654 ATAATT
1 ATAATT
34006660 TCAGTAACTC
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
20 11 0.25
21 2 0.05
23 6 0.14
24 6 0.14
25 2 0.05
27 17 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (26 bp):
ATAATTAACTCTAATATTATTAAGTA
Found at i:34008779 original size:18 final size:18
Alignment explanation
Indices: 34008749--34008797 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
34008739 ATATTCATAC
*
34008749 TCAATAATCATAATCATAT
1 TCAATTATCATAAT-ATAT
*
34008768 TCTATT-TCATAAATATAT
1 TCAATTATCAT-AATATAT
34008786 TCAATTATCATA
1 TCAATTATCATA
34008798 CTTACTCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (18 bp):
TCAATTATCATAATATAT
Found at i:34009615 original size:14 final size:15
Alignment explanation
Indices: 34009598--34009640 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
34009588 AAATAATTTA
34009598 AAAATTATAAAAT-T
1 AAAATTATAAAATAT
*
34009612 AAAATTAAAAAATAT
1 AAAATTATAAAATAT
34009627 AAAAGTTCATAAAA
1 AAAA-TT-ATAAAA
34009641 ATTCAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 5 0.21
16 2 0.08
17 5 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
AAAATTATAAAATAT
Found at i:34009639 original size:31 final size:30
Alignment explanation
Indices: 34009585--34009654 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
34009575 ATGTCATGTC
* *
34009585 AATAAATAATTTAAAAATTAT-AAAATTAA
1 AATAAAAAATATAAAAATTATAAAAATTAA
* *
34009614 AATTAAAAAATATAAAAGTTCATAAAAATTCA
1 AA-TAAAAAATATAAAAATT-ATAAAAATTAA
34009646 AATAAAAAA
1 AATAAAAAA
34009655 CTATGGAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 2 0.06
30 14 0.41
31 9 0.26
32 9 0.26
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (30 bp):
AATAAAAAATATAAAAATTATAAAAATTAA
Found at i:34014441 original size:22 final size:23
Alignment explanation
Indices: 34014413--34014460 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
34014403 CCTAGGTTTG
34014413 GAAAGAACAATACG-TGAAACTT
1 GAAAGAACAATACGCTGAAACTT
* *
34014435 GAAAGAACAATATGCTGAAGCTT
1 GAAAGAACAATACGCTGAAACTT
34014458 GAA
1 GAA
34014461 CTCTGATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (23 bp):
GAAAGAACAATACGCTGAAACTT
Found at i:34032003 original size:16 final size:17
Alignment explanation
Indices: 34031982--34032015 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34031972 TCTTCTAGTG
*
34031982 TCACAA-TCTATAGTTT
1 TCACAATTCTATACTTT
34031998 TCACAATTCTATACTTT
1 TCACAATTCTATACTTT
34032015 T
1 T
34032016 AAAGTCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (17 bp):
TCACAATTCTATACTTT
Found at i:34036373 original size:17 final size:17
Alignment explanation
Indices: 34036348--34036381 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34036338 GATAGGAACT
*
34036348 TTTTAAAATGTGCATCG
1 TTTTAAAATATGCATCG
*
34036365 TTTTCAAATATGCATCG
1 TTTTAAAATATGCATCG
34036382 ATATGACCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (17 bp):
TTTTAAAATATGCATCG
Found at i:34036625 original size:18 final size:20
Alignment explanation
Indices: 34036593--34036630 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
34036583 GAAATGTTTC
*
34036593 TTTTACGATTGTGG-ATTTT
1 TTTTAAGATTGTGGAATTTT
34036612 TTTTAAGATT-TGGAATTTT
1 TTTTAAGATTGTGGAATTTT
34036631 ATGGACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (20 bp):
TTTTAAGATTGTGGAATTTT
Found at i:34052976 original size:20 final size:20
Alignment explanation
Indices: 34052951--34052988 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34052941 ACATGACCTA
*
34052951 GCACACGACCTCGTACACGG
1 GCACACGACCTCGCACACGG
34052971 GCACACGACCTCGCACAC
1 GCACACGACCTCGCACAC
34052989 AAGAGTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.45, G:0.21, T:0.08
Consensus pattern (20 bp):
GCACACGACCTCGCACACGG
Found at i:34054181 original size:18 final size:17
Alignment explanation
Indices: 34054153--34054187 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34054143 GAGAAAGAAT
34054153 CAATAAATACAAATAAG
1 CAATAAATACAAATAAG
*
34054170 CAATACAATACACATAAG
1 CAATA-AATACAAATAAG
34054188 AGCAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (17 bp):
CAATAAATACAAATAAG
Found at i:34054915 original size:14 final size:14
Alignment explanation
Indices: 34054896--34054933 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
34054886 GCGGTGGTAA
34054896 TAATAATAATAAAT
1 TAATAATAATAAAT
*
34054910 TAATAATAATAGAT
1 TAATAATAATAAAT
34054924 TAATAATAAT
1 TAATAATAAT
34054934 GTTAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:34054915 original size:17 final size:17
Alignment explanation
Indices: 34054893--34054933 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
34054883 ATAGCGGTGG
34054893 TAATAATAATA-ATAAA
1 TAATAATAATAGATAAA
*
34054909 TTAATAATAATAGATTAA
1 -TAATAATAATAGATAAA
34054927 TAATAAT
1 TAATAAT
34054934 GTTAATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TAATAATAATAGATAAA
Found at i:34057759 original size:50 final size:50
Alignment explanation
Indices: 34057705--34057841 Score: 202
Period size: 50 Copynumber: 2.7 Consensus size: 50
34057695 AAGTAAGTGG
*
34057705 CAGTATATCTGCATATTAGTGGTGGCTTGTCTACAAAGTGTTATCAGTAC
1 CAGTATATCTGCATATCAGTGGTGGCTTGTCTACAAAGTGTTATCAGTAC
* **
34057755 CAGTATATCTGCATATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGG
1 CAGTATATCTGCATATCAGTGGTGGCTTGTCTACAAAGTGTTATCAGTAC
* * * *
34057805 CAGTTTATCTGCAAACCGGTGGTGGCTTGTCTACAAA
1 CAGTATATCTGCATATCAGTGGTGGCTTGTCTACAAA
34057842 TGGTATTTTG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (50 bp):
CAGTATATCTGCATATCAGTGGTGGCTTGTCTACAAAGTGTTATCAGTAC
Found at i:34062143 original size:137 final size:137
Alignment explanation
Indices: 34061872--34062135 Score: 411
Period size: 137 Copynumber: 1.9 Consensus size: 137
34061862 TATGCAATCT
* * * *
34061872 AGTCATTTTTTACATTTTTACAAAATTGCCCCTAAAGTTTTACTTTTATTTAATTTAATCTCTGA
1 AGTCATTTTTCACATTTTTACAAAATTGCCCCTAAAATTTTACTTTTATTCAATTTAATCCCTGA
** * *
34061937 GCTGAAACCATGCAAATTAACCATTTTTACCCAAAATTGAGTCTACCCGAATACTCAAGGTACCC
66 GCCCAAAACATGCAAATTAACCATTTTTACCCAAAATTGAGTCTACCCGAATACACAAGGTACCC
34062002 AAAATTG
131 AAAATTG
* *
34062009 AGTCATTTTTCACATTTTTATAAAATTTCCCCTAAAATTTTACTTTTATTCAATTTAATCCCTGA
1 AGTCATTTTTCACATTTTTACAAAATTGCCCCTAAAATTTTACTTTTATTCAATTTAATCCCTGA
* * *
34062074 GCCCAAAACATGCAAATTAACCATTTTTACCCAAATTTGAGTCTAGCCGAATTCACAAGGTA
66 GCCCAAAACATGCAAATTAACCATTTTTACCCAAAATTGAGTCTACCCGAATACACAAGGTA
34062136 TCTAAAATAG
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
137 114 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (137 bp):
AGTCATTTTTCACATTTTTACAAAATTGCCCCTAAAATTTTACTTTTATTCAATTTAATCCCTGA
GCCCAAAACATGCAAATTAACCATTTTTACCCAAAATTGAGTCTACCCGAATACACAAGGTACCC
AAAATTG
Found at i:34063486 original size:20 final size:19
Alignment explanation
Indices: 34063460--34063510 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
34063450 GTGAAGCAAG
*
34063460 AATATCGATACCTTAGGAA
1 AATATCGATACCTTAAGAA
34063479 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
34063499 AATTATCGATAC
1 AA-TATCGATAC
34063511 TTGATCAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:34065768 original size:20 final size:20
Alignment explanation
Indices: 34065745--34065783 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34065735 TATTGATACA
*
34065745 TTTCTTAAGGTATCAATATC
1 TTTCCTAAGGTATCAATATC
*
34065765 TTTCCTAAGGTATCGATAT
1 TTTCCTAAGGTATCAATAT
34065784 TCCTACTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAGGTATCAATATC
Found at i:34069166 original size:50 final size:50
Alignment explanation
Indices: 34069087--34069206 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 50
34069077 CCTATATATG
* ** * *
34069087 GTCTTACATGGGAGTTCTCATATCGGTGCCCATGACATGTCCCAAACATC
1 GTCTTACAGGGGACCTCTCATATCAGTGCCAATGACATGTCCCAAACATC
* * * * *
34069137 GTCTTACAGGGGACCTCTCATCTCAGTGCCAATGCCATGTCCTAGACATG
1 GTCTTACAGGGGACCTCTCATATCAGTGCCAATGACATGTCCCAAACATC
34069187 GTCTTAC-GTGGGACCTCTCA
1 GTCTTACAG-GGGACCTCTCA
34069207 CAACTTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 1 0.02
50 58 0.98
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
GTCTTACAGGGGACCTCTCATATCAGTGCCAATGACATGTCCCAAACATC
Found at i:34069206 original size:100 final size:99
Alignment explanation
Indices: 34069023--34069206 Score: 235
Period size: 100 Copynumber: 1.8 Consensus size: 99
34069013 ATGCCAAAGC
* * ** * * * *
34069023 CATGTCCCAAACATGGTCTTACATGGGATGTTTCATGTGCTGCCAATGCCATATCCTATATATGG
1 CATGTCCCAAACATCGTCTTACAGGGGACCTCTCATCTGCTGCCAATGCCATATCCTAGACATGG
**
34069088 TCTTACATGGGAGTTCTCATATCGGTGCCCATGA
66 TCTTACATGGGACCTCTCATATCGGTGCCCATGA
*
34069122 CATGTCCCAAACATCGTCTTACAGGGGACCTCTCATCT-CAGTGCCAATGCCATGTCCTAGACAT
1 CATGTCCCAAACATCGTCTTACAGGGGACCTCTCATCTGC--TGCCAATGCCATATCCTAGACAT
*
34069186 GGTCTTACGTGGGACCTCTCA
64 GGTCTTACATGGGACCTCTCA
34069207 CAACTTCAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
98 1 0.01
99 32 0.45
100 38 0.54
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (99 bp):
CATGTCCCAAACATCGTCTTACAGGGGACCTCTCATCTGCTGCCAATGCCATATCCTAGACATGG
TCTTACATGGGACCTCTCATATCGGTGCCCATGA
Found at i:34091566 original size:12 final size:12
Alignment explanation
Indices: 34091551--34091575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34091541 ATGGGATTCA
34091551 GTCTTCTCTAAT
1 GTCTTCTCTAAT
34091563 GTCTTCTCTAAT
1 GTCTTCTCTAAT
34091575 G
1 G
34091576 CTCGGTAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (12 bp):
GTCTTCTCTAAT
Found at i:34113034 original size:13 final size:13
Alignment explanation
Indices: 34113016--34113042 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34113006 TTAACTTATA
34113016 TGTGTGAAAATTT
1 TGTGTGAAAATTT
34113029 TGTGTGAAAATTT
1 TGTGTGAAAATTT
34113042 T
1 T
34113043 ATCGTTTGTG
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:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:34114236 original size:42 final size:42
Alignment explanation
Indices: 34114131--34114289 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
34114121 AATGTGATAT
* * * *
34114131 CCTGTAAAACCATGTCTGGGACGTTGGCATCGGTTTAAGATTTA
1 CCTGTAAGACCATGTCTGGGACATTGGCATC-GTATATGA-TTA
** *
34114175 TGTGTAAGACCATGTCTGGGACATTGGCGTCGTATATGATTA
1 CCTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTA
* * * *
34114217 CCTGTAAGACCCTGTCTGGGATAGTGGCATCGTTATTTGATTA
1 CCTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTA
* * **
34114260 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CCTGTAAGACCATGTCTGGGACATTGGCAT
34114290 TGTACGAGTT
Statistics
Matches: 95, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 29 0.31
43 40 0.42
44 26 0.27
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
CCTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTA
Found at i:34121391 original size:13 final size:12
Alignment explanation
Indices: 34121361--34121387 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34121351 AATTTAGATC
34121361 CGTAAATTTTTT
1 CGTAAATTTTTT
34121373 CGTAAATTTTTT
1 CGTAAATTTTTT
34121385 CGT
1 CGT
34121388 TAAAGTCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (12 bp):
CGTAAATTTTTT
Found at i:34122192 original size:20 final size:20
Alignment explanation
Indices: 34122167--34122205 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34122157 TACTTTCTTC
34122167 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
34122187 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
34122206 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:34132066 original size:29 final size:29
Alignment explanation
Indices: 34132033--34132145 Score: 167
Period size: 29 Copynumber: 3.9 Consensus size: 29
34132023 GTGTTACAGA
34132033 AAGCCTTTGTGGCTATCTCT-GTTAAAAGG
1 AAGCCTTTGTGGCTATCT-TAGTTAAAAGG
*
34132062 AAGCCTTTTTGGCTATCTTAGTTAAAA-G
1 AAGCCTTTGTGGCTATCTTAGTTAAAAGG
*
34132090 AATGTCTTTGTGGCTATCTTAGTTAAAAGG
1 AA-GCCTTTGTGGCTATCTTAGTTAAAAGG
*
34132120 AAGCCTTTGTGGCTATCTCAGTTAAA
1 AAGCCTTTGTGGCTATCTTAGTTAAA
34132146 TGAATGCCTT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
28 4 0.05
29 69 0.91
30 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (29 bp):
AAGCCTTTGTGGCTATCTTAGTTAAAAGG
Found at i:34132127 original size:58 final size:58
Alignment explanation
Indices: 34132037--34132151 Score: 187
Period size: 58 Copynumber: 2.0 Consensus size: 58
34132027 TACAGAAAGC
* *
34132037 CTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTTTGGCTATCTTAGTTAAAAGAATGT
1 CTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTGTGGCTATCTCAGTTAAAAGAATGT
*
34132095 CTTTGTGGCTATCT-TAGTTAAAAGGAAGCCTTTGTGGCTATCTCAGTTAAATGAATG
1 CTTTGTGGCTATCTCT-GTTAAAAGGAAGCCTTTGTGGCTATCTCAGTTAAAAGAATG
34132152 CCTTATGGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
57 1 0.02
58 52 0.98
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (58 bp):
CTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTGTGGCTATCTCAGTTAAAAGAATGT
Found at i:34133832 original size:32 final size:32
Alignment explanation
Indices: 34133769--34133832 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
34133759 TGTTGTTTCG
* **
34133769 GTGAACTATGTTCACAAGTATGTCTGTTAAGT
1 GTGAACTAGGTTCACAAGTATGTCTAATAAGT
* *
34133801 GTGAACTGGGTTCACAAGTTTGTCTAATAAGT
1 GTGAACTAGGTTCACAAGTATGTCTAATAAGT
34133833 TTGAGATGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (32 bp):
GTGAACTAGGTTCACAAGTATGTCTAATAAGT
Found at i:34149968 original size:40 final size:40
Alignment explanation
Indices: 34149901--34149976 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
34149891 ACAAAAAATC
* *
34149901 GAGCATTAGCGGCGATTTAGCCAAAGCGCTGCTAAAGGTA
1 GAGCATCAGCGGCGATTTAGCCAAAGCGCCGCTAAAGGTA
* *
34149941 GAGCATCAGCGGCGA-TTATCCGGAAGCGCCGCTAAA
1 GAGCATCAGCGGCGATTTAGCC-AAAGCGCCGCTAAA
34149977 AATAGGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.16
40 26 0.84
ACGTcount: A:0.29, C:0.24, G:0.30, T:0.17
Consensus pattern (40 bp):
GAGCATCAGCGGCGATTTAGCCAAAGCGCCGCTAAAGGTA
Found at i:34150129 original size:41 final size:41
Alignment explanation
Indices: 34150056--34150375 Score: 277
Period size: 41 Copynumber: 7.8 Consensus size: 41
34150046 TTTTTTAAAC
* * *
34150056 CTTTAGCGGCGTTTTTGTGTAAGTGCCGCTAATGCTCCGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* ** * * * *
34150097 CTTTCGCGGCGTTTTTGTGAAAGCGCCACTAATTCCCCGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
34150138 CTTTAGCGGCGATTTCGTCTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
34150179 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
34150220 CTTTAGCGGCGTTTTTATAC-AAGCGTCGCTAATTCTCGGAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGGAT
* ** * * * *
34150261 CTTTAGCGGCGTTTCTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GGAT
* * * * * *** *
34150302 CTTCAGCGGCGTTTGTATTTAAGCGTCGCTAATG-TATTTAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGAT
* *
34150343 CTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
34150376 AGTAACAAAA
Statistics
Matches: 226, Mismatches: 48, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
40 3 0.01
41 221 0.98
42 2 0.01
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:34150286 original size:123 final size:123
Alignment explanation
Indices: 34150056--34150335 Score: 316
Period size: 123 Copynumber: 2.3 Consensus size: 123
34150046 TTTTTTAAAC
* * * *
34150056 CTTTAGCGGCGTTTTTGTGTAAGTGCCGCTAATGCTCCGATCTTTCGCGGCGTTTTTGTGAAAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTATGAAAGC
*
34150121 GCCACTAATTCCCCGATCTTTAGCGGCGATTTCGTCTAAGCGCCGCTAATGCTC-GGAT
66 GCCACTAATTCCCCGATCTTTAGCGGCGATTTCGTCTAAGCGCCACTAATGCTCTGG-T
* * *
34150179 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTAT-ACAAG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTATGA-AAG
* * * * * * *
34150243 CGTCGCTAATTCTCGGATCTTTAGCGGCG-TTTC-TAACTGAGCGCCACTAATTCTCTTGT
65 CGCCACTAATTCCCCGATCTTTAGCGGCGATTTCGT--CTAAGCGCCACTAATGCTCTGGT
* * * * *
34150302 CTTCAGCGGCGTTTGTATTTAAGCGTCGCTAATG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATG
34150336 TATTTACCTT
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
121 1 0.01
122 5 0.04
123 125 0.95
124 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.35
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTATGAAAGC
GCCACTAATTCCCCGATCTTTAGCGGCGATTTCGTCTAAGCGCCACTAATGCTCTGGT
Found at i:34150877 original size:15 final size:15
Alignment explanation
Indices: 34150856--34150893 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
34150846 TTTAAGGTTA
34150856 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
34150871 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
34150886 ATTTAGGG
1 ATTTAGGG
34150894 TTAATTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:34152287 original size:37 final size:38
Alignment explanation
Indices: 34152217--34152288 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
34152207 AAATTTGATG
*
34152217 TTTAGGGGTTAGGGGGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGGGGGATTTAGGGTGTAAGGGTTATGC
34152255 TTTAGGGGTTA-GGGGATTTAGGG-GTAATGGGTTA
1 TTTAGGGGTTAGGGGGATTTAGGGTGTAA-GGGTTA
34152289 GGGGGTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 3 0.09
37 18 0.56
38 11 0.34
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.36
Consensus pattern (38 bp):
TTTAGGGGTTAGGGGGATTTAGGGTGTAAGGGTTATGC
Found at i:34152307 original size:15 final size:15
Alignment explanation
Indices: 34152241--34152309 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
34152231 GGATTTAGGG
* *
34152241 TTTAAGGGTTAT-GC
1 TTTAGGGGTTATGGA
*
34152255 TTTAGGGGTTAGGGGA
1 TTTAGGGGTTA-TGGA
*
34152271 TTTAGGGGTAATGG-
1 TTTAGGGGTTATGGA
*
34152285 GTTAGGGGGTTATGGA
1 TTTA-GGGGTTATGGA
34152301 TTT-GGGGTT
1 TTTAGGGGTT
34152310 TAGGGTTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
14 19 0.44
15 11 0.26
16 13 0.30
ACGTcount: A:0.17, C:0.01, G:0.43, T:0.38
Consensus pattern (15 bp):
TTTAGGGGTTATGGA
Found at i:34155346 original size:31 final size:31
Alignment explanation
Indices: 34155321--34155984 Score: 666
Period size: 31 Copynumber: 22.3 Consensus size: 31
34155311 AATATAAGAT
34155321 ATTACATAACTTACATTAGTTAATATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
34155353 ATTACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
34155384 ATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
34155410 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
*
34155440 ATTACATAACTTAATTAGTTAATTTACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
*
34155471 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
34155502 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
34155528 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
34155558 ATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
34155584 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
34155614 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
* * *
34155645 ATTACATAACATACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
34155676 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
** *
34155702 A-TACATAACTTACATTA-ACATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
*
34155732 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
*
34155763 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
34155794 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
34155825 ATTACATAACTTAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTAGTTAA-TATACATAA
* * * *
34155857 ATTACATAACATACATTA-ATATTATACAGAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
34155888 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
34155914 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
34155944 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
34155975 ATTACATAAC
1 ATTACATAAC
34155985 ATACATAATA
Statistics
Matches: 529, Mismatches: 57, Indels: 93
0.78 0.08 0.14
Matches are distributed among these distances:
25 79 0.15
26 20 0.04
28 9 0.02
30 33 0.06
31 339 0.64
32 45 0.09
33 4 0.01
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (31 bp):
ATTACATAACTTAATTAGTTAATATACATAA
Found at i:34155416 original size:25 final size:22
Alignment explanation
Indices: 34155386--34155439 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
34155376 ATACATAAAT
34155386 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTA---AATTAATATTA
*
34155411 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
34155433 TACATAA
1 TACATAA
34155440 ATTACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 17 0.61
25 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:34155429 original size:22 final size:22
Alignment explanation
Indices: 34155401--34155446 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
34155391 AACTTAGTTA
*
34155401 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
34155423 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
34155445 AT
1 AT
34155447 AACTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:34155469 original size:118 final size:118
Alignment explanation
Indices: 34155321--34155984 Score: 655
Period size: 118 Copynumber: 5.6 Consensus size: 118
34155311 AATATAAGAT
*
34155321 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTACATTA-ATATTATACATAAA
1 ATTACATAACTTA-ATTAGTTAATTTACATAAATTACATAACTTA-ATTAGATATTATACATAAA
34155385 TTACATAACTTAGTTAATTAATATTATACATAACTTACATTAATATTATACATAA
64 TTACATAACTTAGTTAATTAATATTATACATAACTTACATTAATATTATACATAA
* * *
34155440 ATTACATAACTTAATTAGTTAATTTACATAAATTACATAACATAATTAGTTAATATACATAAATT
1 ATTACATAACTTAATTAGTTAATTTACATAAATTACATAACTTAATTAGATATTATACATAAATT
*
34155505 ACATAACTTAGTTATTTAATATTATACATAACTTACATTAATATTATACATAA
66 ACATAACTTAGTTAATTAATATTATACATAACTTACATTAATATTATACATAA
*
34155558 ATTACATAAC----TTAGTTAA-TTA-AT-ATTATACATAACTTACATTA-ATATTATACATAAA
1 ATTACATAACTTAATTAGTTAATTTACATAAAT-TACATAACTTA-ATTAGATATTATACATAAA
* * *
34155615 TTACATAACTTAATTAGTTAATATACATAAATTACATAACATACATTAATATTATACATAA
64 TTACATAACTTAGTTAATTAATAT---T--A-TACATAACTTACATTAATATTATACATAA
* *
34155676 ATTACATAAC----TTAGTT-ATTTA-AT-ATTATACATAACTTACATTA-ACATTATACATAAA
1 ATTACATAACTTAATTAGTTAATTTACATAAAT-TACATAACTTA-ATTAGATATTATACATAAA
* * * *
34155733 TTACATAACATAATTAGTTAATATACATA-AATTACATAACATA-ATTAGTTAATATACATAA
64 TTACATAAC----TTAGTTAAT-TA-ATATTA-TACATAACTTACATTA-ATATTATACATAA
* *
34155794 ATTACATAACTTAATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
1 ATTACATAACTTAATTAGTTAATTTACATAAATTACATAACTTAATTAGAT-ATTATACATAAAT
* *
34155859 TACATAAC--A--TACATTAATATTATACAGAAATTACA-TAACTTAGTTATTTA-AT-A
65 TACATAACTTAGTTA-ATTAATATTATACATAACTTACATTAA--TA-TTA--TACATAA
* * * *
34155912 TTATACATAACTTACATTA-AT-ATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 AT-TACATAACTTA-ATTAGTTAATT-TACATAAATTACATAACTTAATTAGATATTATACATAA
34155975 ATTACATAAC
63 ATTACATAAC
34155985 ATACATAATA
Statistics
Matches: 476, Mismatches: 32, Indels: 75
0.82 0.05 0.13
Matches are distributed among these distances:
111 2 0.00
112 46 0.10
113 7 0.01
114 8 0.02
115 1 0.00
116 13 0.03
117 18 0.04
118 258 0.54
119 55 0.12
120 6 0.01
122 13 0.03
123 10 0.02
124 16 0.03
125 23 0.05
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (118 bp):
ATTACATAACTTAATTAGTTAATTTACATAAATTACATAACTTAATTAGATATTATACATAAATT
ACATAACTTAGTTAATTAATATTATACATAACTTACATTAATATTATACATAA
Found at i:34155548 original size:22 final size:22
Alignment explanation
Indices: 34155520--34155564 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
34155510 ACTTAGTTAT
*
34155520 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
34155542 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
34155564 T
1 T
34155565 AACTTAGTTA
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:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:34155603 original size:22 final size:22
Alignment explanation
Indices: 34155575--34155682 Score: 88
Period size: 22 Copynumber: 5.1 Consensus size: 22
34155565 AACTTAGTTA
*
34155575 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
34155597 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
* * *
34155619 A-TAACT-TAATTA-GTTAATATAC
1 ATTAA-TATTA-TACATAAAT-TAC
34155641 A-TAA-A-T-TACATAACA-TAC
1 ATTAATATTATACATAA-ATTAC
34155659 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
34155681 AT
1 AT
34155683 AACTTAGTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
18 6 0.09
19 5 0.07
20 2 0.03
21 11 0.16
22 44 0.65
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Done.