Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 399 of 770
Found at i:122650777 original size:40 final size:40
Alignment explanation
Indices: 122650741--122650885 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
122650731 CTACTCGTTT
*
122650741 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCAC
*
122650781 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* ** * *
122650821 AAATGCCTTC-GGATCTTAGTCTGGATTTAGTAACTTAGCAC
1 AAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCAC
* * *
122650862 AAA-GCCTTCAGGACTTAGCCCGGA
1 AAATGCCTTCGGGACATAACCCGGA
122650886 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
AAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
Found at i:122655774 original size:11 final size:10
Alignment explanation
Indices: 122655742--122655796 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
122655732 CATGAGATTT
122655742 TGATAT-ACA
1 TGATATGACA
*
122655751 TGATTTGACA
1 TGATATGACA
122655761 TGATATGCACA
1 TGATATG-ACA
*
122655772 TGATATG-TA
1 TGATATGACA
122655781 TGATATGCACA
1 TGATATG-ACA
122655792 TGATA
1 TGATA
122655797 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:122655876 original size:25 final size:25
Alignment explanation
Indices: 122655844--122655913 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
122655834 GAGGAAGTGC
*
122655844 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
122655869 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
122655894 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
122655914 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:122655937 original size:50 final size:50
Alignment explanation
Indices: 122655844--122655938 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
122655834 GAGGAAGTGC
* **
122655844 AAAAGGGCTTTGCCCTAGTTTACCAAAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTAGGCCCCAGTTTATCG
**
122655894 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAG-GGCTAGGCC-CCAGTT
122655939 ATGTGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTAGGCCCCAGTTTATCG
Found at i:122656170 original size:30 final size:31
Alignment explanation
Indices: 122656134--122656216 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
122656124 CGTTTACAGT
122656134 AAAGGCTTTGGCCCAGTGATATG-ATAATGA
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
* * *
122656164 AAAGGCTTTGGCCCAATGACATGAATAATGC
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
*
122656195 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTTGGCCCAGTGATATG
122656217 TTGAGATTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 25 0.54
31 21 0.46
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGAATAATGA
Found at i:122658105 original size:30 final size:30
Alignment explanation
Indices: 122658047--122658108 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
122658037 TTCCCGAGCC
*
122658047 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
* * * *
122658077 TAGGGGCAAAATTATAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
122658107 TA
1 TA
122658109 AGTTAAGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAGTATAAATATGCAAAAGTT
Found at i:122660758 original size:16 final size:17
Alignment explanation
Indices: 122660731--122660765 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
122660721 ATTCCCCTTT
122660731 CACCTATTCATTCAACA
1 CACCTATTCATTCAACA
*
122660748 CACCT-TTCATTCCACA
1 CACCTATTCATTCAACA
122660764 CA
1 CA
122660766 TCTCTCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.40, G:0.00, T:0.29
Consensus pattern (17 bp):
CACCTATTCATTCAACA
Found at i:122662071 original size:23 final size:24
Alignment explanation
Indices: 122662030--122662076 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
122662020 TTGTTGAAAG
122662030 CATACATGGCAAAAACTGACTCCT
1 CATACATGGCAAAAACTGACTCCT
122662054 CATACATGGC-AAAACTGACTCCT
1 CATACATGGCAAAAACTGACTCCT
122662077 TGATCCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.36, C:0.30, G:0.13, T:0.21
Consensus pattern (24 bp):
CATACATGGCAAAAACTGACTCCT
Found at i:122664249 original size:56 final size:56
Alignment explanation
Indices: 122664157--122664264 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
122664147 GAAAAAAAAA
122664157 AAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
** ***
122664213 AAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
122664265 GAAAAGGGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
55 2 0.04
56 40 0.89
57 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (56 bp):
AAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:122665525 original size:40 final size:40
Alignment explanation
Indices: 122665459--122665625 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
122665449 AAATTGAATG
* * **
122665459 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTGATT
* * **
122665498 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTGATT
* *
122665538 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTGATT
* * *
122665578 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCTCGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTGATT
122665618 ATATCCGG
1 ATATCCGG
122665626 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTGATT
Found at i:122669712 original size:46 final size:45
Alignment explanation
Indices: 122669594--122669715 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 45
122669584 TATATCCCGA
*
122669594 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAAT
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCAC-T-TCTCAAT
* * * *
122669641 -GCCGATGCCTGTCCCAAACACGTCTTACACTAGCAC-TCAT-AATGT
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTTC-TCAA--T
*
122669686 GGCCAATGCATGTCCCAGGCATGTCTTACA
1 GGCCAATGCATGTCCCAGACATGTCTTACA
122669716 TTGGCTCACA
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
43 4 0.07
44 1 0.02
45 1 0.02
46 55 0.90
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTTCTCAAT
Found at i:122675389 original size:40 final size:40
Alignment explanation
Indices: 122675293--122675471 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
122675283 CGAATGGTGT
* * * *
122675293 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
122675334 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
122675374 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
122675414 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
122675454 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
122675472 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 89 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:122675432 original size:80 final size:80
Alignment explanation
Indices: 122675293--122675485 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
122675283 CGAATGGTGT
* * * *
122675293 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
122675358 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
122675374 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
122675438 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
122675454 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
122675486 CGCTATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:122675492 original size:40 final size:40
Alignment explanation
Indices: 122675414--122675497 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
122675404 GTTATTAAAT
* * *
122675414 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
122675454 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
122675494 CCGG
1 CCGG
122675498 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:122683496 original size:80 final size:79
Alignment explanation
Indices: 122683362--122683579 Score: 215
Period size: 80 Copynumber: 2.7 Consensus size: 79
122683352 CGAATGGTGT
* * * *
122683362 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAATCCCGAAGGCAATTG
* *
122683427 TGCGAGTTACCAAAA
65 TGCGAATCACCAAAA
* * *
122683442 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AA-TCCCGAAGGCAATT
* *
122683506 GTGCGAATCACTATAA
64 GTGCGAATCACCAAAA
* * * * * * * *
122683522 CCGGGCTATGTCCCGAAGACAATCGAGCGAGTCG-CTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT-GACTAAATCCGGGTCAATCCCGAAGG
122683580 TACGTGATTC
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
78 1 0.01
79 24 0.21
80 87 0.78
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAATCCCGAAGGCAATTGT
GCGAATCACCAAAA
Found at i:122683526 original size:40 final size:40
Alignment explanation
Indices: 122683361--122683544 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 40
122683351 TCGAATGGTG
** * *
122683361 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAA-TTACTAAA
* * *
122683402 TCCGGG-TCAA-TCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCAATTGTGCGAATTACTAAA
* * * *
122683441 ACCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCAATT-GTGCGAATTACTAAA
* *
122683481 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACTA-AA
* *
122683522 -CCGGGCTATGTCCCGAAGACAAT
1 TCCGGGCTAAGTCCCGAAGGCAAT
122683545 CGAGCGAGTC
Statistics
Matches: 119, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 15 0.13
40 91 0.76
41 13 0.11
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACTAAA
Found at i:122683560 original size:40 final size:40
Alignment explanation
Indices: 122683482--122683565 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
122683472 GTTATTAAAT
* * *
122683482 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
122683522 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
122683562 CCGG
1 CCGG
122683566 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:122690356 original size:25 final size:25
Alignment explanation
Indices: 122690285--122690360 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 25
122690275 GGAACACATT
* *
122690285 TTCA-CAAAATTTTACCAGGGGCAAA
1 TTCATCAAAATTTTACTA-GGGTAAA
* *
122690310 ATCGTCAAAATTTTACTAAGGGTAAA
1 TTCATCAAAATTTTACT-AGGGTAAA
122690336 TTCATCAAAATTTTACTAGGGTAAA
1 TTCATCAAAATTTTACTAGGGTAAA
122690361 ATAGGGATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 10 0.23
26 32 0.74
27 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (25 bp):
TTCATCAAAATTTTACTAGGGTAAA
Found at i:122691440 original size:54 final size:54
Alignment explanation
Indices: 122691377--122691491 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
122691367 GTCCCTTCGA
* * * *
122691377 ACTACCCCGTGTTTAAAGTCATGTCAGACTATCCTC-TGTTTAATGTCCCGTTAG
1 ACTATCCCGTGTTTAAAGTCATCTCAAACTATCC-CATGTTTAACGTCCCGTTAG
* * * *
122691431 ACTATCCCGTGTTTAACGTCCTCTCAAAGTATCCCATGTTTAACGTCCTGTTAG
1 ACTATCCCGTGTTTAAAGTCATCTCAAACTATCCCATGTTTAACGTCCCGTTAG
*
122691485 ATTATCC
1 ACTATCC
122691492 TTGATGTCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.36
Consensus pattern (54 bp):
ACTATCCCGTGTTTAAAGTCATCTCAAACTATCCCATGTTTAACGTCCCGTTAG
Found at i:122691490 original size:27 final size:26
Alignment explanation
Indices: 122691377--122691491 Score: 95
Period size: 27 Copynumber: 4.3 Consensus size: 26
122691367 GTCCCTTCGA
* * *
122691377 ACTACCCCGTGTTTAAAGTCATGTCAG
1 ACTATCCC-TGTTTAACGTCCTGTCAG
* * *
122691404 ACTATCCTCTGTTTAATGTCCCGTTAG
1 ACTATCC-CTGTTTAACGTCCTGTCAG
* *
122691431 ACTATCCCGTGTTTAACGTCCTCTCAA
1 ACTATCCC-TGTTTAACGTCCTGTCAG
* *
122691458 AGTATCCCATGTTTAACGTCCTGTTAG
1 ACTATCCC-TGTTTAACGTCCTGTCAG
*
122691485 ATTATCC
1 ACTATCC
122691492 TTGATGTCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 68 0.97
28 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.36
Consensus pattern (26 bp):
ACTATCCCTGTTTAACGTCCTGTCAG
Found at i:122693103 original size:27 final size:28
Alignment explanation
Indices: 122693070--122693139 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
122693060 ATAGTGATTC
122693070 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
122693097 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
122693125 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
122693140 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:122694689 original size:22 final size:20
Alignment explanation
Indices: 122694651--122694690 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
122694641 CTATTTGATA
*
122694651 AAAATTCACCTGCAATTTAC
1 AAAATTCACCTGAAATTTAC
122694671 AAAATTCAACCATGAAATTT
1 AAAATTC-ACC-TGAAATTT
122694691 TCACACATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 3 0.18
22 7 0.41
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAATTCACCTGAAATTTAC
Found at i:122696225 original size:29 final size:29
Alignment explanation
Indices: 122696190--122696326 Score: 127
Period size: 29 Copynumber: 4.7 Consensus size: 29
122696180 CTACTCGATT
* *
122696190 TCGCACACTTAGTGCCACGTAATTT-AAGC
1 TCGCACACTTAGTGCCA-ATAATTTCCAGC
** **
122696219 TCGCACACACAGTGCCATATTTTTTTCCAGC
1 TCGCACACTTAGTGCCA-A-TAATTTCCAGC
*
122696250 TTGCACACTTAGTGCCAA-ATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
122696279 ACGCACACTTAGTGCC-ATATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
122696308 ACGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
122696327 CTCGACACCA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 64 0.72
30 7 0.08
31 17 0.19
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TCGCACACTTAGTGCCAATAATTTCCAGC
Found at i:122696266 original size:60 final size:58
Alignment explanation
Indices: 122696191--122696325 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 58
122696181 TACTCGATTT
** * * *
122696191 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATATTTTTTTCCAGCT
1 CGCACACTTAGTGCCAAAT-ATTTCAAGCACGCACACACAGTGCCATA--TATTTCCAGCA
* * **
122696251 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
122696309 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
122696326 TCTCGACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 25 0.39
59 4 0.06
60 35 0.55
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:122704248 original size:29 final size:27
Alignment explanation
Indices: 122704213--122704340 Score: 136
Period size: 29 Copynumber: 4.6 Consensus size: 27
122704203 CTACTCGATT
*
122704213 TCGCACACTTAGTGCCACGTAATTT-AAGC
1 TCGCACACTTAGTGCCA--T-ATTTCCAGC
**
122704242 TCGCACACACAGTGCCAT-TTTCCAGC
1 TCGCACACTTAGTGCCATATTTCCAGC
122704268 T-GCACACTTAGTGCCAATATTTCCAGC
1 TCGCACACTTAGTGCC-ATATTTCCAGC
*
122704295 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCC--ATATTTCCAGC
*
122704324 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
122704341 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
25 15 0.17
26 6 0.07
27 10 0.11
28 14 0.16
29 42 0.48
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.26
Consensus pattern (27 bp):
TCGCACACTTAGTGCCATATTTCCAGC
Found at i:122704340 original size:57 final size:53
Alignment explanation
Indices: 122704214--122704342 Score: 143
Period size: 53 Copynumber: 2.3 Consensus size: 53
122704204 TACTCGATTT
* *
122704214 CGCACACTTAGTGCCACGTAATTTAAGCTCGCACACACAGTGCCATTTTCCAGC
1 CGCACACTTAGTGCCA-ATAATTTAAGCACGCACACACAGTGCCATTTTCCAGC
* * **
122704268 TGCACACTTAGTGCCAAT-ATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGC
1 CGCACACTTAGTGCCAATAATTT-AAGCACGCACACACAGTGCC--AT-TTTCCAGC
122704324 ACGCACACTTAGTGCCAAT
1 -CGCACACTTAGTGCCAAT
122704343 CTCGTCACCA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
52 4 0.06
53 17 0.27
54 15 0.24
55 2 0.03
56 8 0.13
57 17 0.27
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCCAATAATTTAAGCACGCACACACAGTGCCATTTTCCAGC
Found at i:122714820 original size:40 final size:40
Alignment explanation
Indices: 122714761--122714902 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
122714751 AAATTGAATG
* * *
122714761 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
122714801 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
122714841 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
122714881 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
122714903 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:122714903 original size:40 final size:39
Alignment explanation
Indices: 122714800--122714928 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
122714790 TGCTGGAAAT
* * *
122714800 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
122714840 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
122714880 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
122714920 TATATCCGG
1 TATATCCGG
122714929 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:122716571 original size:28 final size:27
Alignment explanation
Indices: 122716474--122716588 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
122716464 AGCAGGGCTG
** * *
122716474 CCAGAACAGAT-ATTGTGATAGAGTCA
1 CCAGAACAGATAATTGTGGCATAGCCA
*
122716500 CCAGATACAGAT-ATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCATAGCCA
*
122716527 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCATAGCCA
122716554 CCAGGAACAGATAATTGTGGCATAGCCA
1 CCA-GAACAGATAATTGTGGCATAGCCA
122716582 CCAGAAC
1 CCAGAAC
122716589 GCTTCCTCGA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 11 0.14
27 43 0.54
28 26 0.32
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCATAGCCA
Found at i:122716585 original size:55 final size:53
Alignment explanation
Indices: 122716474--122716588 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 53
122716464 AGCAGGGCTG
* *
122716474 CCAGAACAGATATTGTGATAGAGTCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCA
* * *
122716527 CCAGAACAGATATTTGTGGCATAGCCACCAGGA-ACAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCA-GATACAGAT-ATTGTGGCAGAGCCA
122716582 CCAGAAC
1 CCAGAAC
122716589 GCTTCCTCGA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 12 0.22
54 19 0.35
55 23 0.43
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCA
Found at i:122720182 original size:40 final size:40
Alignment explanation
Indices: 122720137--122720266 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
122720127 CGGAATACAA
122720137 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
122720177 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
122720217 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
122720257 CCGGATATAA
1 CCGGATATAA
122720267 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:122724128 original size:27 final size:26
Alignment explanation
Indices: 122724084--122724194 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
122724074 TGGCTGCCAT
* *
122724084 AACAGATATTGTGATAGAGTCACCAG
1 AACAGATATTGTGGTAGAGCCACCAG
*
122724110 ATACAGATATCGTGGTAGAGCCACCAG
1 A-ACAGATATTGTGGTAGAGCCACCAG
* *
122724137 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGTAGAGCCACCAG
* *
122724164 AAACAGATAATTGTGGCATAGCCACCAG
1 -AACAGAT-ATTGTGGTAGAGCCACCAG
122724192 AAC
1 AAC
122724195 GCTTCCTCGA
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 8 0.11
27 41 0.55
28 25 0.33
29 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGTAGAGCCACCAG
Found at i:122724177 original size:28 final size:28
Alignment explanation
Indices: 122724104--122724193 Score: 121
Period size: 28 Copynumber: 3.3 Consensus size: 28
122724094 GTGATAGAGT
* * * *
122724104 CACCAGATACAGAT-ATCGTGGTAGAGC
1 CACCAGAAACAGATAATTGTGGCATAGC
*
122724131 CACCAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATAATTGTGGCATAGC
122724158 CACCAGAAACAGATAATTGTGGCATAGC
1 CACCAGAAACAGATAATTGTGGCATAGC
122724186 CACCAGAA
1 CACCAGAA
122724194 CGCTTCCTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.11
27 21 0.38
28 28 0.51
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (28 bp):
CACCAGAAACAGATAATTGTGGCATAGC
Found at i:122743255 original size:8 final size:8
Alignment explanation
Indices: 122743228--122743270 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
122743218 AGATCGGCAT
122743228 AAGCCGAA
1 AAGCCGAA
* *
122743236 ATGCCAAA
1 AAGCCGAA
122743244 AAGCCGAA
1 AAGCCGAA
*
122743252 AAGCTGAA
1 AAGCCGAA
*
122743260 ATGCCGAA
1 AAGCCGAA
122743268 AAG
1 AAG
122743271 TTGAAAGTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.49, C:0.21, G:0.23, T:0.07
Consensus pattern (8 bp):
AAGCCGAA
Found at i:122743265 original size:16 final size:16
Alignment explanation
Indices: 122743246--122743276 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
122743236 ATGCCAAAAA
122743246 GCCGAAAAGCTGAAAT
1 GCCGAAAAGCTGAAAT
*
122743262 GCCGAAAAGTTGAAA
1 GCCGAAAAGCTGAAA
122743277 GTTTGGCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (16 bp):
GCCGAAAAGCTGAAAT
Found at i:122743518 original size:28 final size:29
Alignment explanation
Indices: 122743487--122743632 Score: 129
Period size: 29 Copynumber: 5.1 Consensus size: 29
122743477 GTGAGCATGG
* **
122743487 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
* * *
122743515 ATATAAATGAG-ATTTGGCCTAACGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
*
122743543 ATATAAATGTGAATTGGGCCTAATAGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
* **
122743572 ATATGAACATGAATTGGGCC-AGATGGGCC
1 ATATAAATGTGAATTGGGCCTA-ATGGGCC
* * * *
122743601 ATATAAATGAG-GTTGGGCCTAGTGAGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
122743629 ATAT
1 ATAT
122743633 GCATGTATGC
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
28 43 0.46
29 50 0.54
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
ATATAAATGTGAATTGGGCCTAATGGGCC
Found at i:122743529 original size:29 final size:29
Alignment explanation
Indices: 122743487--122743632 Score: 133
Period size: 28 Copynumber: 5.1 Consensus size: 29
122743477 GTGAGCATGG
* **
122743487 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATAAATGAGATTTGGGCCTAATGGGCC
*
122743515 ATATAAATGAGATTT-GGCCTAACGGGCC
1 ATATAAATGAGATTTGGGCCTAATGGGCC
* * *
122743543 ATATAAATGTGAATTGGGCCTAATAGGCC
1 ATATAAATGAGATTTGGGCCTAATGGGCC
122743572 ATATGAACATGA-A-TTGGGCC-AGATGGGCC
1 ATAT-AA-ATGAGATTTGGGCCTA-ATGGGCC
* * *
122743601 ATATAAATGAG-GTTGGGCCTAGTGAGCC
1 ATATAAATGAGATTTGGGCCTAATGGGCC
122743629 ATAT
1 ATAT
122743633 GCATGTATGC
Statistics
Matches: 98, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
27 4 0.04
28 46 0.47
29 42 0.43
30 3 0.03
31 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
ATATAAATGAGATTTGGGCCTAATGGGCC
Found at i:122743552 original size:57 final size:58
Alignment explanation
Indices: 122743487--122743609 Score: 146
Period size: 57 Copynumber: 2.2 Consensus size: 58
122743477 GTGAGCATGG
* * * *
122743487 ATAT-AATGTGATTTGGGCCGGATGGGCCATAT-AA-ATGAGATTTGGCCTA-ACGGGCC
1 ATATAAATGTGAATTGGGCCGAATAGGCCATATGAACATGA-ATTGGGCC-AGACGGGCC
* *
122743543 ATATAAATGTGAATTGGGCCTAATAGGCCATATGAACATGAATTGGGCCAGATGGGCC
1 ATATAAATGTGAATTGGGCCGAATAGGCCATATGAACATGAATTGGGCCAGACGGGCC
122743601 ATATAAATG
1 ATATAAATG
122743610 AGGTTGGGCC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
56 4 0.07
57 25 0.44
58 24 0.42
59 4 0.07
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (58 bp):
ATATAAATGTGAATTGGGCCGAATAGGCCATATGAACATGAATTGGGCCAGACGGGCC
Found at i:122745379 original size:29 final size:29
Alignment explanation
Indices: 122745342--122745415 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
122745332 TGAATGTGAC
*
122745342 TGGGCCTAATAGGCCATATAAATGTAATT
1 TGGGCCTAATAGGCCATATAAAGGTAATT
* * *
122745371 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATAGGCCATATAAAGGTAATT
*
122745400 TGGGCCTAACAGGCCA
1 TGGGCCTAATAGGCCA
122745416 ATGAATATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATAGGCCATATAAAGGTAATT
Found at i:122750542 original size:40 final size:40
Alignment explanation
Indices: 122750497--122750664 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
122750487 CGGAATATAA
122750497 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
122750537 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
122750577 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
122750617 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
122750657 CCGGATAT
1 CCGGATAT
122750665 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:122759095 original size:27 final size:28
Alignment explanation
Indices: 122759065--122759134 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
122759055 ATAATAAGTC
*
122759065 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
122759092 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
122759120 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
122759135 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:122767016 original size:27 final size:28
Alignment explanation
Indices: 122766986--122767055 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
122766976 ATAATAAGTC
*
122766986 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
122767013 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
122767041 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
122767056 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:122772500 original size:71 final size:70
Alignment explanation
Indices: 122772412--122772574 Score: 317
Period size: 71 Copynumber: 2.3 Consensus size: 70
122772402 CGAGATGTAT
122772412 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
122772477 AGGAC
66 AGGAC
122772482 ACCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG
1 -CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG
122772547 AAGGAC
65 AAGGAC
122772553 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
122772575 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 22 0.24
71 70 0.76
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGAC
Found at i:122777890 original size:47 final size:47
Alignment explanation
Indices: 122777836--122778124 Score: 407
Period size: 47 Copynumber: 6.1 Consensus size: 47
122777826 TTAGGATTTT
** * *
122777836 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
122777883 ATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATA--TGTGATAAGGCCGAATGGCCA
** *
122777934 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
** *
122777981 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
122778028 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
122778075 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
122778122 ATG
1 ATG
122778125 AGAAATGTGT
Statistics
Matches: 223, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 176 0.79
49 9 0.04
51 38 0.17
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:122778234 original size:46 final size:46
Alignment explanation
Indices: 122778098--122778234 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
122778088 GAACATGTAT
* *
122778098 ATATGTGGTAAGGCCGAATGGCTAATGAGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATGG
* * *
122778144 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATGG
* * * *
122778190 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATG
122778235 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATGG
Found at i:122784452 original size:55 final size:55
Alignment explanation
Indices: 122784393--122784501 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
122784383 GGCTGCCAAT
* *
122784393 ACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCACCAGA
1 ACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCACCAGA
** * *
122784448 ACAGATATTTGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCACCAG
1 ACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCACCAG
122784502 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 1 0.02
55 29 0.63
56 16 0.35
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (55 bp):
ACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCACCAGA
Found at i:122784464 original size:27 final size:27
Alignment explanation
Indices: 122784412--122784501 Score: 128
Period size: 27 Copynumber: 3.2 Consensus size: 27
122784402 GTGACAGAGT
122784412 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
*
122784441 CACCAGAACAGATATTTGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
122784468 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
122784496 CACCAG
1 CACCAG
122784502 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 25 0.44
28 25 0.44
29 7 0.12
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:122784653 original size:28 final size:28
Alignment explanation
Indices: 122784606--122784673 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
122784596 AAATTAACCC
* *
122784606 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
122784634 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
122784662 TAGGGGTATAAT
1 TAGGGGTATAAT
122784674 AGTATATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:122789776 original size:33 final size:33
Alignment explanation
Indices: 122789734--122789803 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
122789724 AGTAAGTGAT
122789734 TGATTATCACCCTGGGCAAACTATTATAGTCTC
1 TGATTATCACCCTGGGCAAACTATTATAGTCTC
*
122789767 TGATTATCACCTTGGGCAAACTATTATAGTCTC
1 TGATTATCACCCTGGGCAAACTATTATAGTCTC
122789800 TGAT
1 TGAT
122789804 GTTCTGAGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (33 bp):
TGATTATCACCCTGGGCAAACTATTATAGTCTC
Found at i:122795414 original size:21 final size:21
Alignment explanation
Indices: 122795390--122795432 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
122795380 CAACTACATG
122795390 TTAGTCTTAATGCATTATTGT
1 TTAGTCTTAATGCATTATTGT
122795411 TTAGTCTTAATGCATTATTGT
1 TTAGTCTTAATGCATTATTGT
122795432 T
1 T
122795433 GTCCTAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.53
Consensus pattern (21 bp):
TTAGTCTTAATGCATTATTGT
Found at i:122799348 original size:39 final size:40
Alignment explanation
Indices: 122799290--122799390 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
122799280 AAATTGAATG
* *
122799290 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
122799329 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
122799369 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
122799391 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:122799383 original size:40 final size:40
Alignment explanation
Indices: 122799290--122799472 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
122799280 AAATTGAATG
* * * * *
122799290 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
122799329 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
122799369 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
122799409 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
122799449 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
122799473 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:122807415 original size:40 final size:40
Alignment explanation
Indices: 122807313--122807496 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
122807303 AAATTGAATG
* * * * *
122807313 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
122807353 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
122807393 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
122807433 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
122807473 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
122807497 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:122810421 original size:20 final size:23
Alignment explanation
Indices: 122810398--122810452 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
122810388 CAAGTTGGAG
*
122810398 TTAATTTGTCTTAG-T-T-GAAT
1 TTAATTTGTCCTAGCTGTCGAAT
*
122810418 TTAAGTTGTCCTAGCTGTCGAAT
1 TTAATTTGTCCTAGCTGTCGAAT
122810441 TTAATTTGTCCT
1 TTAATTTGTCCT
122810453 TAAGATTGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.41
21 1 0.03
22 1 0.03
23 15 0.52
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (23 bp):
TTAATTTGTCCTAGCTGTCGAAT
Found at i:122813611 original size:39 final size:39
Alignment explanation
Indices: 122813536--122813718 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
122813526 CCGCACAAAG
* *
122813536 GCCTTCGGGACTTAACCCGAATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
122813576 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
122813615 GCCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
122813654 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
122813693 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
122813719 TCGAACATTC
Statistics
Matches: 133, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 124 0.93
40 9 0.07
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:122813658 original size:78 final size:78
Alignment explanation
Indices: 122813496--122813718 Score: 311
Period size: 78 Copynumber: 2.8 Consensus size: 78
122813486 TCGTTCAAAC
* * ** * ** * *
122813496 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGAATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
122813561 ACAATTTGCACAATT
64 ACAATTTGCACAATT
*
122813576 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
122813641 AATTTGCACAATT
66 AATTTGCACAATT
* * *
122813654 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
122813719 TCGAACATTC
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
78 88 0.68
79 32 0.25
80 9 0.07
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
AATTTGCACAATT
Found at i:122821663 original size:39 final size:39
Alignment explanation
Indices: 122821579--122821764 Score: 249
Period size: 39 Copynumber: 4.9 Consensus size: 39
122821569 TATGGTAACC
** * *
122821579 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
122821619 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
122821658 CGCACAATTGCCTTCGGGCTTAGCCCGG-TAT--C-A-T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
122821692 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
122821730 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
122821765 TCGAACATTC
Statistics
Matches: 132, Mismatches: 8, Indels: 13
0.86 0.05 0.08
Matches are distributed among these distances:
33 27 0.20
34 4 0.03
35 1 0.01
36 1 0.01
37 1 0.01
38 4 0.03
39 79 0.60
40 15 0.11
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:122821736 original size:72 final size:73
Alignment explanation
Indices: 122821619--122821763 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 73
122821609 TATCACAATT
*
122821619 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCC
1 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
122821684 GG-TATCA
66 GGATATCA
* *
122821691 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCCC
1 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
122821756 GGATATCA
66 GGATATCA
122821764 CTCGAACATT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 64 0.93
73 5 0.07
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (73 bp):
TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCA
Found at i:122823665 original size:43 final size:44
Alignment explanation
Indices: 122823545--122823701 Score: 130
Period size: 43 Copynumber: 3.6 Consensus size: 44
122823535 AGCTCGTACA
* *
122823545 ATGCCAAC-GTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* * * *
122823588 ATGCCACTGTCCCAGATAGGGTCTAACAC-AAAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
122823630 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATG-CCACTGTCCCAGACATGGTCTTACACGTAAATCA-AATATCG
* **
122823674 ATACCAAC-GTCCCAGACGCGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
122823702 TGAGAACACA
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 26 0.29
43 39 0.43
44 25 0.28
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:122824091 original size:8 final size:8
Alignment explanation
Indices: 122824078--122824118 Score: 82
Period size: 8 Copynumber: 5.1 Consensus size: 8
122824068 AAATTAGCCC
122824078 TCACATTT
1 TCACATTT
122824086 TCACATTT
1 TCACATTT
122824094 TCACATTT
1 TCACATTT
122824102 TCACATTT
1 TCACATTT
122824110 TCACATTT
1 TCACATTT
122824118 T
1 T
122824119 AGTCCCTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (8 bp):
TCACATTT
Found at i:122827135 original size:27 final size:27
Alignment explanation
Indices: 122827074--122827313 Score: 259
Period size: 27 Copynumber: 8.9 Consensus size: 27
122827064 GGGCAAAATG
* * * * *
122827074 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
122827101 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ***
122827128 GTATTTCTACCCTACAACCGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
122827154 GATAATTCTACCCTTCAGCGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
122827182 GTAATTCTA-CCTTCAGCGGTGTTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
122827208 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
122827235 GTAATTCTACCCTACAGGGCTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
122827262 ATAATTCTACCCTATAGGGATATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
122827289 GTATTTCTACCCTACAAGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
122827314 TGGTAATTTT
Statistics
Matches: 180, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 25 0.14
27 154 0.86
28 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:122827241 original size:80 final size:81
Alignment explanation
Indices: 122827102--122827313 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 81
122827092 GGTATCTCGG
* * * * * **
122827102 TAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAACCGTATTTCGATAATTCTACCC
1 TAATTCTACCCTATAGGGATATTTCAATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
* *
122827167 TTCAGCGG-TATTTCAG
66 TACAG-GGCTATTTCAA
* *
122827183 TAATTCTA-CCT-TCAGCGG-TGTTTCAATAATTCTACCCTACAGGGGTATTTC-AGTAATTCTA
1 TAATTCTACCCTAT-AG-GGATATTTCAATAATTCTACCCTACAAGGGTATTTCGA-TAATTCTA
122827244 CCCTACAGGGCTATTTCAA
63 CCCTACAGGGCTATTTCAA
* *
122827263 TAATTCTACCCTATAGGGATATTTCAGTATTTCTACCCTACAAGGGTATTT
1 TAATTCTACCCTATAGGGATATTTCAATAATTCTACCCTACAAGGGTATTT
122827314 TGGTAATTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
79 3 0.03
80 63 0.57
81 43 0.39
82 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTATAGGGATATTTCAATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
TACAGGGCTATTTCAA
Found at i:122827288 original size:107 final size:107
Alignment explanation
Indices: 122827102--122827299 Score: 294
Period size: 107 Copynumber: 1.9 Consensus size: 107
122827092 GGTATCTCGG
* * *
122827102 TAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAACCGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAACCGTATTTCAATAATTCTACCC
122827167 TTCAGCGGTATTTCAGTAATTCTACCTTCAGCGGTGTTTCAA
66 TTCAGCGGTATTTCAGTAATTCTACCTTCAGCGGTGTTTCAA
**
122827209 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAC-AGGGCTATTTCAATAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAACCG-TATTTCAATAATTCTACC
*
122827273 CTAT-AG-GGATATTTCAGTATTTCTACC
65 CT-TCAGCGG-TATTTCAGTAATTCTACC
122827300 CTACAAGGGT
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
106 4 0.05
107 77 0.94
108 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (107 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAACCGTATTTCAATAATTCTACCC
TTCAGCGGTATTTCAGTAATTCTACCTTCAGCGGTGTTTCAA
Found at i:122827422 original size:161 final size:161
Alignment explanation
Indices: 122827250--122827568 Score: 432
Period size: 161 Copynumber: 2.0 Consensus size: 161
122827240 TCTACCCTAC
** * **
122827250 AGGGCTATTTCAATAATTCTACCCTAT-AGGGATATTTCAGT-ATTTCTACCCTA-CAAGGGTAT
1 AGGGCTATTTCAATAATT-TACCAAATCAGGG-TATTTAAGTAATTT-T-CCAAATCAAGGGTAT
* *
122827312 TTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTC-AGTAATTT
62 TTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGA-TAATTT
122827376 TATAAACCGGGGGTACTTTGGTAATTTTACAAGTCG
126 TATAAACCGGGGGTACTTTGGTAATTTTACAAGTCG
* ** * *
122827412 AGGG-TATTTCAGTAATTTTGCAAATCGAGGGTATTTAAGTAATTTTGCAAATTAAGGGTATTTC
1 AGGGCTATTTCAATAATTTACCAAATC-AGGGTATTTAAGTAATTTTCCAAATCAAGGGTATTTC
*
122827476 GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGATGGTATTTCGATAATTTTATA
65 GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGATAATTTTATA
122827541 AACCGGGGGTACTTTGGTAATTTTACAA
130 AACCGGGGGTACTTTGGTAATTTTACAA
122827569 ACTAGGGGTA
Statistics
Matches: 139, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
160 6 0.04
161 120 0.86
162 13 0.09
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (161 bp):
AGGGCTATTTCAATAATTTACCAAATCAGGGTATTTAAGTAATTTTCCAAATCAAGGGTATTTCG
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGATAATTTTATAA
ACCGGGGGTACTTTGGTAATTTTACAAGTCG
Found at i:122827483 original size:81 final size:79
Alignment explanation
Indices: 122827303--122827569 Score: 329
Period size: 80 Copynumber: 3.3 Consensus size: 79
122827293 TTCTACCCTA
* *
122827303 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTC
1 CAAGGGTA-TTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTA
*
122827368 AGTAATTTTATAAAC
65 AGTAATTTTACAAAC
** * * *
122827383 CGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTGCAAATCGAGGGTATTT
1 CAAGGGTA-TTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATCGACGGTATTT
* *
122827448 AAGTAATTTTGCAAAT
64 AAGTAATTTTACAAAC
* *
122827464 TAAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGATGGTATTT-
1 CAAGGGTATTT-GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTA
* *
122827528 CGATAATTTTATAAAC
65 AG-TAATTTTACAAAC
**
122827544 CGGGGGTACTTTGGTAATTTTACAAA
1 CAAGGGTA-TTTGGTAATTTTACAAA
122827570 CTAGGGGTAT
Statistics
Matches: 159, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
79 1 0.01
80 89 0.56
81 69 0.43
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (79 bp):
CAAGGGTATTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTAA
GTAATTTTACAAAC
Found at i:122827570 original size:27 final size:27
Alignment explanation
Indices: 122827305--122827569 Score: 288
Period size: 27 Copynumber: 9.9 Consensus size: 27
122827295 CTACCCTACA
** *
122827305 AGGGTATTTTGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
122827332 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
122827358 ACGGTATTTCAGTAATTTTATAAACCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
122827385 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
*
122827412 AGGGTATTTCAGTAATTTTGCAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * **
122827439 AGGGTATTTAAGTAATTTTGCAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
122827466 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
122827493 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
122827519 ATGGTATTTC-GATAATTTTATAAACCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
122827546 GGGGTACTTT-GGTAATTTTACAAA
1 AGGGTA-TTTCAGTAATTTTACAAA
122827570 CTAGGGGTAT
Statistics
Matches: 200, Mismatches: 31, Indels: 14
0.82 0.13 0.06
Matches are distributed among these distances:
25 1 0.00
26 49 0.25
27 143 0.71
28 7 0.04
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:122831204 original size:17 final size:18
Alignment explanation
Indices: 122831162--122831210 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
122831152 AGTTGAAAAG
122831162 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
122831181 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
122831198 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
122831211 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:122832098 original size:40 final size:40
Alignment explanation
Indices: 122832032--122832198 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
122832022 AAATTGAATG
* * *
122832032 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
122832071 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
122832111 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
122832151 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
122832191 ATATCCGG
1 ATATCCGG
122832199 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:122839204 original size:17 final size:18
Alignment explanation
Indices: 122839162--122839210 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
122839152 AGTTGAAAAG
122839162 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
122839181 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
122839198 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
122839211 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:122840111 original size:39 final size:40
Alignment explanation
Indices: 122840029--122840193 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
122840019 AATTGAATGA
* * ** *
122840029 TATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATTC
* * *
122840068 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTC
* *
122840107 TATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATTC
* *
122840147 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATTC
122840187 TATCCGG
1 TATCCGG
122840194 TTATATTCCG
Statistics
Matches: 104, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
38 3 0.03
39 43 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTC
Found at i:122844346 original size:40 final size:39
Alignment explanation
Indices: 122844178--122844348 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
122844168 AGAAATTGAA
* *
122844178 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
122844218 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
122844258 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
122844298 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
122844338 TGATATCCGGG
1 TGATATCCGGG
122844349 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:122852321 original size:39 final size:40
Alignment explanation
Indices: 122852263--122852363 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
122852253 AAATTGAATG
* *
122852263 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
122852302 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
122852342 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
122852364 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:122852356 original size:40 final size:40
Alignment explanation
Indices: 122852263--122852444 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
122852253 AAATTGAATG
* * * * *
122852263 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
122852302 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
122852342 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
122852382 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
122852422 ATATCCGGG-TAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
122852445 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 44 0.36
40 75 0.62
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:122857689 original size:29 final size:29
Alignment explanation
Indices: 122857599--122857750 Score: 164
Period size: 29 Copynumber: 5.2 Consensus size: 29
122857589 ACTCGATTTC
* * **
122857599 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
122857628 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
122857656 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
122857686 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
122857715 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
122857744 GCACACT
1 GCACACT
122857751 ATATTTCCAG
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.02
29 100 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:122857755 original size:20 final size:20
Alignment explanation
Indices: 122857730--122857770 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
122857720 CTTAGTGCCA
122857730 TATATTTCCAGCATGCACAC
1 TATATTTCCAGCATGCACAC
122857750 TATATTTCCAGCATGCACAC
1 TATATTTCCAGCATGCACAC
122857770 T
1 T
122857771 TAGTGCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (20 bp):
TATATTTCCAGCATGCACAC
Found at i:122862755 original size:40 final size:40
Alignment explanation
Indices: 122862688--122862966 Score: 461
Period size: 40 Copynumber: 7.0 Consensus size: 40
122862678 CGGGATTTAG
* * *
122862688 CCGGATATAACCACAT-GCCCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAAC-TCGCACAAATGCCTTCGGGTCTTAAC
* *
122862728 CCGGACATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
122862768 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
122862808 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
122862848 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
122862888 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
122862928 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAA
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAA
122862967 ATTGTAACAC
Statistics
Matches: 227, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 226 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:122864406 original size:40 final size:40
Alignment explanation
Indices: 122864347--122864432 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
122864337 CGGAATACAA
*
122864347 CCGGATATAACCACGTGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATAGAACCACGTGCACGAATGCCCTCGGGTCTTAGC
* * *
122864387 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACGTGCACGAATGCCCTCGGGTCTTAGC
*
122864427 CTGGAT
1 CCGGAT
122864433 GTAGTCGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (40 bp):
CCGGATAGAACCACGTGCACGAATGCCCTCGGGTCTTAGC
Found at i:122865773 original size:17 final size:18
Alignment explanation
Indices: 122865753--122865789 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
122865743 ACTTTTCTTC
*
122865753 CTTTCTTT-TTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
122865770 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
122865788 CT
1 CT
122865790 CTCATGTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:122867060 original size:2 final size:2
Alignment explanation
Indices: 122867055--122867082 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
122867045 ATTCGGCAAC
122867055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
122867083 GTCAATGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122878746 original size:23 final size:24
Alignment explanation
Indices: 122878702--122878746 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
122878692 CATCCTACGT
122878702 GGAGAAATAAGGAAGGTGAGAGAA
1 GGAGAAATAAGGAAGGTGAGAGAA
*
122878726 GGAGAAATAAGG-TGGTGAGAG
1 GGAGAAATAAGGAAGGTGAGAG
122878747 GGCAAAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.11
Consensus pattern (24 bp):
GGAGAAATAAGGAAGGTGAGAGAA
Found at i:122881513 original size:19 final size:19
Alignment explanation
Indices: 122881466--122881513 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
122881456 AGAAATAGGG
122881466 TCACATGCCCGTGTGTCTT
1 TCACATGCCCGTGTGTCTT
*
122881485 TCACACGCCCGTGTGTC-T
1 TCACATGCCCGTGTGTCTT
122881503 TCAACATGCCC
1 TC-ACATGCCC
122881514 ATGTCCTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.15, C:0.38, G:0.19, T:0.29
Consensus pattern (19 bp):
TCACATGCCCGTGTGTCTT
Found at i:122884922 original size:19 final size:19
Alignment explanation
Indices: 122884900--122884945 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
122884890 TATATCAATA
122884900 GCCAACATAACCATCATAG
1 GCCAACATAACCATCATAG
* *
122884919 GCCATCATAACCATTATAG
1 GCCAACATAACCATCATAG
122884938 GCCAACAT
1 GCCAACAT
122884946 TCAATGGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.20
Consensus pattern (19 bp):
GCCAACATAACCATCATAG
Found at i:122885566 original size:43 final size:43
Alignment explanation
Indices: 122885479--122885592 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
122885469 GTTACCATAC
* * * *
122885479 CGATGCC-ATATCCCAGATATGGTCTTACATGGGATCTTATAT
1 CGATGCCAATAGCCCAGATATGGTCTTACATGAGATCTCACAT
* *
122885521 CGATGCCAATAGCCTAGCTATGGTCTTACATGA-AGTCTCACAT
1 CGATGCCAATAGCCCAGATATGGTCTTACATGAGA-TCTCACAT
* *
122885564 CGATGCC-ATATCCCAGATATGATCTTACA
1 CGATGCCAATAGCCCAGATATGGTCTTACA
122885593 CATAATCTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
CGATGCCAATAGCCCAGATATGGTCTTACATGAGATCTCACAT
Found at i:122890997 original size:40 final size:40
Alignment explanation
Indices: 122890953--122891174 Score: 200
Period size: 39 Copynumber: 5.7 Consensus size: 40
122890943 GTTCAAAACA
* * ***
122890953 CCTTCGGGACGTAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
122890993 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * ** *
122891033 CCTTCGGG-CTTAGCCCGGATATCATAGCTTGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * * *
122891072 CCTTCGGG-TTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * * * *
122891111 CCTTCGGG-CTTAGCTCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
122891150 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGATATCAC
122891175 TCGAACATTC
Statistics
Matches: 162, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 122 0.75
40 40 0.25
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:122891067 original size:39 final size:39
Alignment explanation
Indices: 122890983--122891173 Score: 301
Period size: 39 Copynumber: 4.9 Consensus size: 39
122890973 TATGGTAACC
* * * *
122890983 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
122891023 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
* *
122891062 TGCACAATTGCCTTCGGGTTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
* *
122891101 CGCACAATTGCCTTCGGGCTTAGCTCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
122891140 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
122891174 CTCGAACATT
Statistics
Matches: 139, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 122 0.88
40 17 0.12
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:122894052 original size:29 final size:29
Alignment explanation
Indices: 122894019--122894091 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
122894009 GTGACGAGAT
122894019 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
122894048 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
122894077 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
122894092 GAGCTCGAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:122894088 original size:58 final size:58
Alignment explanation
Indices: 122894019--122894151 Score: 153
Period size: 58 Copynumber: 2.3 Consensus size: 58
122894009 GTGACGAGAT
* * *
122894019 TGGCACTAAGTGTGC-ATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGA-GCTCGAAAAATATGGCACTGAGTGTGCAGGCT-GAAATCACA
*** * * *
122894077 TGGCACTAAGTGTGCGAGCTCGAAGGGTATGGCACTGTGTGTGCAGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAAATATGGCACTGAGTGTGCAGGCTGAAATCACA
122894135 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
122894152 AATCGAGTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 4 0.06
58 59 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAAATATGGCACTGAGTGTGCAGGCTGAAATCACA
Found at i:122895929 original size:17 final size:16
Alignment explanation
Indices: 122895900--122895934 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
122895890 ATGCCCGGGA
122895900 GTGTGTGGCTGATGAG
1 GTGTGTGGCTGATGAG
122895916 GTGTGTGTGCTGATGAG
1 GTGTGTG-GCTGATGAG
122895933 GT
1 GT
122895935 TGCTATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.11, C:0.06, G:0.49, T:0.34
Consensus pattern (16 bp):
GTGTGTGGCTGATGAG
Found at i:122901404 original size:28 final size:29
Alignment explanation
Indices: 122901373--122901444 Score: 128
Period size: 28 Copynumber: 2.5 Consensus size: 29
122901363 GTGACGAGAT
122901373 TGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
122901401 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
122901430 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
122901445 GAGCTCGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 24 0.59
29 17 0.41
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:122901460 original size:29 final size:29
Alignment explanation
Indices: 122901428--122901504 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
122901418 GCTGGAAATA
* *
122901428 TATGGCACTAAGTGTGCGAGCTCGAAGGG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
** * * *
122901457 TATGGCACTGTGTGTGCGGGCTTAAATCG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
*
122901486 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
122901505 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAGCTCAAAGCG
Found at i:122901472 original size:58 final size:58
Alignment explanation
Indices: 122901373--122901504 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 58
122901363 GTGACGAGAT
* * *
122901373 TGGCACTAAGTGTGC-ATGCTGGAAAATATGGCACTGAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGATGCTCGAAAATATGGCACTGAGTGTGCAGGCT-GAAATCACA
** * * * *
122901430 TGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGATGCTCGAA-AATATGGCACTGAGTGTGCAGGCTGAAATCACA
122901488 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
122901505 AATCGAGTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
57 25 0.40
58 38 0.60
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGATGCTCGAAAATATGGCACTGAGTGTGCAGGCTGAAATCACA
Found at i:122914931 original size:6 final size:6
Alignment explanation
Indices: 122914922--122914947 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
122914912 AAAATTCATT
122914922 TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TT
122914948 ATTCGTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:122915234 original size:21 final size:22
Alignment explanation
Indices: 122915210--122915256 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
122915200 ATATTATAGG
*
122915210 TTCATAGGTCTACGAATTAGT-
1 TTCATAGGTCTACCAATTAGTA
*
122915231 TTCATAGGTCTGCCAATTAGTA
1 TTCATAGGTCTACCAATTAGTA
122915253 TTCA
1 TTCA
122915257 ATTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (22 bp):
TTCATAGGTCTACCAATTAGTA
Found at i:122922502 original size:23 final size:22
Alignment explanation
Indices: 122922473--122922524 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
122922463 AGTGTCTAAA
122922473 ACGACACACGAGGTGCCTG-AT
1 ACGACACACGAGGTGCCTGAAT
122922494 ACGACACACGAGGTGCCTGAAAT
1 ACGACACACGAGGTGCCTG-AAT
122922517 ACGACACA
1 ACGACACA
122922525 TAAAGTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 19 0.66
23 10 0.34
ACGTcount: A:0.35, C:0.29, G:0.25, T:0.12
Consensus pattern (22 bp):
ACGACACACGAGGTGCCTGAAT
Found at i:122922532 original size:23 final size:23
Alignment explanation
Indices: 122922450--122922536 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
122922440 CCTGATCAGT
* *
122922450 ATACGACACATAAAGTGTCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
122922472 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
122922492 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
122922515 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
122922537 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.61
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:122922932 original size:15 final size:15
Alignment explanation
Indices: 122922907--122922964 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
122922897 TCATATATAT
122922907 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
122922923 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
122922938 AATAATTTTAATCAA
1 TATAAATTCAATCAA
122922953 TATAAATTCAAT
1 TATAAATTCAAT
122922965 AAAACAGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:122923959 original size:13 final size:13
Alignment explanation
Indices: 122923941--122923968 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
122923931 CCTCTTTTTA
122923941 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
122923954 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
122923967 TT
1 TT
122923969 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:122923976 original size:2 final size:2
Alignment explanation
Indices: 122923969--122924010 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
122923959 TTGTTTCTTT
122923969 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122924011 ATGACAATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122929230 original size:5 final size:5
Alignment explanation
Indices: 122929220--122929250 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
122929210 AATAACAAAA
*
122929220 TATTT TATTT TATTT TATTT TATGT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
122929251 TGTTTCCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:122931464 original size:35 final size:35
Alignment explanation
Indices: 122931420--122931586 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
122931410 TCCTCATTGA
** *
122931420 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
122931455 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
122931495 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
122931530 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
122931565 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
122931587 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:122931503 original size:75 final size:73
Alignment explanation
Indices: 122931415--122931586 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
122931405 GGTTTTCCTC
** * * **
122931415 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
122931479 TCAGTATGG
65 TCAGTATGG
*
122931488 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
122931553 CTCAGTATGG
64 CTCAGTATGG
122931563 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
122931587 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:122938967 original size:35 final size:35
Alignment explanation
Indices: 122938923--122939089 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
122938913 TCCTCATTGA
** *
122938923 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
122938958 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
122938998 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
122939033 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
122939068 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
122939090 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:122939006 original size:75 final size:73
Alignment explanation
Indices: 122938918--122939089 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
122938908 GGTTTTCCTC
** * * **
122938918 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
122938982 TCAGTATGG
65 TCAGTATGG
*
122938991 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
122939056 CTCAGTATGG
64 CTCAGTATGG
122939066 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
122939090 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:122945321 original size:7 final size:7
Alignment explanation
Indices: 122945309--122945337 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
122945299 TATACAGAAA
122945309 TCACTTG
1 TCACTTG
122945316 TCACTTG
1 TCACTTG
122945323 TCACTTG
1 TCACTTG
122945330 TCACTTG
1 TCACTTG
122945337 T
1 T
122945338 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:122945371 original size:31 final size:31
Alignment explanation
Indices: 122945336--122945544 Score: 276
Period size: 31 Copynumber: 6.7 Consensus size: 31
122945326 CTTGTCACTT
* *
122945336 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
122945367 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
122945398 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
122945429 GTAGCCGAAGCTACCACTTTTCACTGATTA-
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
122945459 GTAAGCAGAAGCTACCACTTTTCACTGATCAA
1 GT-AGCCGAAGCTACCACTTTTCACTGATCAG
* *
122945491 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
122945522 GTAGCTGAAGGTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
122945545 GTTGTCATTT
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
30 2 0.01
31 154 0.97
32 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:122945621 original size:50 final size:50
Alignment explanation
Indices: 122945562--122945698 Score: 238
Period size: 50 Copynumber: 2.7 Consensus size: 50
122945552 TTTGCCATTG
122945562 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
* * * *
122945612 ATCAGATAAGTGTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTG
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
122945662 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
122945699 GTTTCCATGG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (50 bp):
ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
Found at i:122948128 original size:13 final size:14
Alignment explanation
Indices: 122948112--122948147 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
122948102 CAATCTTATA
122948112 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
122948125 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
122948138 TCTC-ATTTCA
1 TCTCAATTTCA
122948148 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:122948771 original size:2 final size:2
Alignment explanation
Indices: 122948764--122948793 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
122948754 TACATAGATC
122948764 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122948794 ATTTCAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122948808 original size:15 final size:15
Alignment explanation
Indices: 122948790--122948839 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
122948780 ATATATATAT
122948790 TATAATTTCAATCAA
1 TATAATTTCAATCAA
*
122948805 TATAAATTCAATCAA
1 TATAATTTCAATCAA
* *
122948820 AATGATTTCAATCAA
1 TATAATTTCAATCAA
122948835 TATAA
1 TATAA
122948840 ATTTGATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAATTTCAATCAA
Found at i:122949261 original size:19 final size:19
Alignment explanation
Indices: 122949237--122949275 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
122949227 AATACTTATT
* *
122949237 TATTATTTATACATTTGTA
1 TATTATTAATACATGTGTA
122949256 TATTATTAATACATGTGTA
1 TATTATTAATACATGTGTA
122949275 T
1 T
122949276 CTATTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTATTAATACATGTGTA
Found at i:122949581 original size:2 final size:2
Alignment explanation
Indices: 122949574--122949601 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
122949564 TAACTTCATA
122949574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
122949602 TTTAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122951288 original size:2 final size:2
Alignment explanation
Indices: 122951281--122951305 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
122951271 TGTACGTAAA
122951281 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 A
122951306 AATAGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122951364 original size:25 final size:23
Alignment explanation
Indices: 122951312--122951366 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
122951302 TATAAATAGT
122951312 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
122951335 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
122951360 AATAGTG
1 AATAGTG
122951367 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:122951730 original size:25 final size:25
Alignment explanation
Indices: 122951697--122951827 Score: 101
Period size: 25 Copynumber: 5.3 Consensus size: 25
122951687 TAATATTTAT
*
122951697 ATATGTACATAATATAGTGTTAAAA
1 ATATATACATAATATAGTGTTAAAA
*
122951722 ATACATACATAATATA--GTT-AAA
1 ATATATACATAATATAGTGTTAAAA
* * *
122951744 ATATATACATAAGATAACATG-TAGAAT
1 ATATATACATAATAT-A-GTGTTA-AAA
* * *
122951771 ATATATATATAATATAGTATTAAAG
1 ATATATACATAATATAGTGTTAAAA
* *
122951796 ATATATACATAAAATAGT-ATAGAAA
1 ATATATACATAATATAGTGTTA-AAA
122951821 ATATATA
1 ATATATA
122951828 TACGTAACGT
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
22 16 0.19
23 4 0.05
24 2 0.02
25 43 0.51
26 4 0.05
27 15 0.18
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (25 bp):
ATATATACATAATATAGTGTTAAAA
Found at i:122951774 original size:27 final size:25
Alignment explanation
Indices: 122951739--122951807 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 25
122951729 CATAATATAG
122951739 TTAAA-ATATATACATAAGATAACA
1 TTAAAGATATATACATAAGATAACA
* * * **
122951763 TGTAGAATATATATATATAATATAGTA
1 T-TA-AAGATATATACATAAGATAACA
122951790 TTAAAGATATATACATAA
1 TTAAAGATATATACATAA
122951808 AATAGTATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
24 1 0.03
25 15 0.42
26 4 0.11
27 16 0.44
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (25 bp):
TTAAAGATATATACATAAGATAACA
Found at i:122951824 original size:52 final size:49
Alignment explanation
Indices: 122951717--122951829 Score: 122
Period size: 52 Copynumber: 2.3 Consensus size: 49
122951707 AATATAGTGT
* * *
122951717 TAAAA-ATACATACATAATATAGTTAAAATATATACATAAGATAACATG
1 TAAAATATATATATATAATATAGTTAAAATATATACATAAAATAACATG
* **
122951765 TAGAATATATATATATAATATAGTATTAAAGATATATACATAAAATAGTATAG
1 TAAAATATATATATATAATATAG--TTAAA-ATATATACATAAAATAACAT-G
122951818 -AAAATATATATA
1 TAAAATATATATA
122951830 CGTAACGTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
48 4 0.08
49 15 0.28
51 5 0.09
52 28 0.53
53 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (49 bp):
TAAAATATATATATATAATATAGTTAAAATATATACATAAAATAACATG
Found at i:122952415 original size:18 final size:18
Alignment explanation
Indices: 122952392--122952445 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
122952382 ACAAGTGGTG
122952392 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
122952410 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
122952422 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
122952440 GTGGAG
1 GTGGAG
122952446 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:122952423 original size:30 final size:30
Alignment explanation
Indices: 122952387--122952455 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
122952377 TAGGTACAAG
122952387 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
122952417 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
122952447 TGGTGGTGG
1 TGGTGGTGG
122952456 CAAAGGCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.14, C:0.06, G:0.52, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:122953268 original size:87 final size:89
Alignment explanation
Indices: 122953070--122953387 Score: 292
Period size: 87 Copynumber: 3.6 Consensus size: 89
122953060 TTATTCTTTA
* * ** * *
122953070 CTCGGCATGTGATCCTGA-GCTTAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAC-TAG
1 CTCGGCATGTGA-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTCAAAACATA-
* * *
122953132 ACATT-AAAAACAGA-AATTGAAAATAG
63 A-ATTGAAAAAAAAATAATTGAAAATAC
* * * * *
122953158 CTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-AAAACA-AAAT
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAACATAAA-
* * * *
122953221 TTGTAAAATAGAT-TTTGAAAATAC
65 TTGAAAAAAAAATAATTGAAAATAC
* * * *
122953245 CTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATTTTTGCAAAGCATAAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-CAAAACATAAA
122953310 TTGAAAAAAAAATCAATTGAAAATAC
65 TTGAAAAAAAAAT-AATTGAAAATAC
* * *
122953336 CTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
122953388 AAGAAATTGA
Statistics
Matches: 188, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 73 0.39
88 37 0.20
89 15 0.08
90 3 0.02
91 56 0.30
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (89 bp):
CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAACATAAAT
TGAAAAAAAAATAATTGAAAATAC
Found at i:122953435 original size:66 final size:67
Alignment explanation
Indices: 122953324--122953453 Score: 181
Period size: 66 Copynumber: 1.9 Consensus size: 67
122953314 AAAAAAAATC
* * * *
122953324 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTA
1 AATTGAAAATACCTCAGCGTGT-ACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTA
122953389 AGA
65 AGA
* * *
122953392 AATTGAAAATATCTCAGCGTGT-CCTAAGGCTGAACTCACCTCTCGTAATATGAGTTAATTTT
1 AATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
122953454 TTGGAAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 35 0.64
68 20 0.36
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (67 bp):
AATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTAA
GA
Done.