Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 73 of 170
Found at i:22140824 original size:102 final size:102
Alignment explanation
Indices: 22140648--22140898 Score: 333
Period size: 102 Copynumber: 2.5 Consensus size: 102
22140638 CATGAGAACT
* * ** * * *
22140648 CATGTGTAGTACTATGTGCAGGCTACTATGAGTATAAAATAGTTATGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACGTGTGTAATACTA
**
22140713 TGTGCAGGCTACTACA-TGCACTGGATGGTAATGGTCA
66 TGTGCAGGCTACTA-AGTGCACCAGATGGTAATGGTCA
*
22140750 CATGTGTAGTACCAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACGTGTGTAATACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACGTGTGTAATACTA
* *
22140815 TGTGCAGGCTAGTAAGTGTACCAGATGGTAATGGTCA
66 TGTGCAGGCTACTAAGTGCACCAGATGGTAATGGTCA
** * * *
22140852 CATGTGTAACACTAAGTGTAGGCTACTATGTGTACCGGATAGCTTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTG
22140899 ATCATAAGGG
Statistics
Matches: 130, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
101 1 0.01
102 129 0.99
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (102 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACGTGTGTAATACTA
TGTGCAGGCTACTAAGTGCACCAGATGGTAATGGTCA
Found at i:22140885 original size:51 final size:51
Alignment explanation
Indices: 22140648--22140887 Score: 237
Period size: 51 Copynumber: 4.7 Consensus size: 51
22140638 CATGAGAACT
* * * ** * * *
22140648 CATGTGTAGTACTATGTGCAGGCTACTATGAGTATAAAATAGTTATGGTCA
1 CATGTGTAATACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
* * * ** * **
22140699 CGTGTGTAGTACTATGTGCAGGCTACTACATGCACTGGATGGTAATGGTCA
1 CATGTGTAATACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
* * * **
22140750 CATGTGTAGTACCAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCA
1 CATGTGTAATACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
* * * *
22140801 CGTGTGTAATACTATGTGCAGGCTAGTAAGTGTACCAGATGGTAATGGTCA
1 CATGTGTAATACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
* *
22140852 CATGTGTAACACTAAGTGTAGGCTACTATGTGTACC
1 CATGTGTAATACTAAGTGCAGGCTACTATGTGTACC
22140888 GGATAGCTTT
Statistics
Matches: 152, Mismatches: 37, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 152 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (51 bp):
CATGTGTAATACTAAGTGCAGGCTACTATGTGTACCAGATGGTAATGGTCA
Found at i:22142891 original size:25 final size:25
Alignment explanation
Indices: 22142854--22142943 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
22142844 CTATACATGC
* *
22142854 ATGCTCATACGAGCTGTGAATTGGT
1 ATGCTCACACGAGCTGTAAATTGGT
*
22142879 ATGCTCACTCGAGCAT-TAAATTGGT
1 ATGCTCACACGAGC-TGTAAATTGGT
* * *
22142904 ATGCTCTCACGAGTTGTAAATCGGT
1 ATGCTCACACGAGCTGTAAATTGGT
*
22142929 ATGCTCTCACGAGCT
1 ATGCTCACACGAGCT
22142944 TCTCGATGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTAAATTGGT
Found at i:22147851 original size:30 final size:30
Alignment explanation
Indices: 22147815--22147875 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
22147805 GAGGTACCTA
22147815 TAATAATTAGATGACCTTTCTGAGCAAACT
1 TAATAATTAGATGACCTTTCTGAGCAAACT
*
22147845 TAATAATTGGATGACCTTTCTGAGCAAACT
1 TAATAATTAGATGACCTTTCTGAGCAAACT
22147875 T
1 T
22147876 GTAGAACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (30 bp):
TAATAATTAGATGACCTTTCTGAGCAAACT
Found at i:22151087 original size:29 final size:29
Alignment explanation
Indices: 22151027--22151124 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
22151017 TCATTGACTA
* * *
22151027 ATGAAAAGGGATAACTTTGACTATCC-AAT
1 ATGAAAAGGGATAGCTTTGGCTA-CCGATT
*
22151056 ATGAAAAGGGATAGCTATGGCTACCGATT
1 ATGAAAAGGGATAGCTTTGGCTACCGATT
* * *
22151085 ATGAAAAGAGATAGTTTTGG-TGATCGATT
1 ATGAAAAGGGATAGCTTTGGCT-ACCGATT
22151114 ATG-AAAGGGAT
1 ATGAAAAGGGAT
22151125 GGTGATGACC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 10 0.17
29 48 0.83
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.28
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGGCTACCGATT
Found at i:22151164 original size:29 final size:29
Alignment explanation
Indices: 22151113--22151183 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
22151103 GGTGATCGAT
** *
22151113 TATG-AAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACAACCACCAAC
*
22151141 TATGAAAAGGGATGGTGACAACCACCAAT
1 TATGAAAAGGGATGGTGACAACCACCAAC
*
22151170 TAATAAAAAGGGAT
1 T-ATGAAAAGGGAT
22151184 TGTTTCGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 4 0.11
29 21 0.58
30 11 0.31
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACAACCACCAAC
Found at i:22157333 original size:20 final size:21
Alignment explanation
Indices: 22157287--22157334 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
22157277 TACCATAAGC
*
22157287 AAATAAAA-AAAACTTAGAAA
1 AAATAAAATAAAACTTAAAAA
*
22157307 ACA-AAAATAAAAC-TAAAAA
1 AAATAAAATAAAACTTAAAAA
22157326 AAATAAAAT
1 AAATAAAAT
22157335 GCAATAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (21 bp):
AAATAAAATAAAACTTAAAAA
Found at i:22161291 original size:27 final size:27
Alignment explanation
Indices: 22161260--22161311 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
22161250 CCAATGAACC
*
22161260 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
22161287 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
22161312 TTCACATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:22161351 original size:103 final size:104
Alignment explanation
Indices: 22161165--22161387 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
22161155 AATGGATATC
22161165 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
22161230 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
22161269 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
22161333 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
22161372 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
22161388 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 73 0.65
104 39 0.35
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:22161749 original size:29 final size:29
Alignment explanation
Indices: 22161716--22161779 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
22161706 TAATCCACCA
22161716 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
22161745 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
22161775 CCCAA
1 CCCAA
22161780 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:22161753 original size:30 final size:30
Alignment explanation
Indices: 22161723--22161779 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22161713 CCACCCAACT
22161723 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
22161752 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
22161780 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:22166790 original size:20 final size:20
Alignment explanation
Indices: 22166727--22166787 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
22166717 TAAAACTTTG
**
22166727 AAATAATTTTAAAATCAAGTGC
1 AAATAATTTT-AAA-CAAGTTA
*
22166749 AAATAATTTTAACCAAGTTA
1 AAATAATTTTAAACAAGTTA
*
22166769 AAATGATTTTCAAACAAGT
1 AAATAATTTT-AAACAAGT
22166788 AAATTTGCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 14 0.42
21 9 0.27
22 10 0.30
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATAATTTTAAACAAGTTA
Found at i:22169322 original size:17 final size:16
Alignment explanation
Indices: 22169278--22169323 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
22169268 AATTTGAGCG
*
22169278 ATTAAATGGCTTAATGA
1 ATTAAATGG-TAAATGA
22169295 A-TAAA-GGTAAATGGA
1 ATTAAATGGTAAAT-GA
22169310 ATTAAATGGTAAAT
1 ATTAAATGGTAAAT
22169324 AAACCATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.16
15 5 0.20
16 8 0.32
17 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.30
Consensus pattern (16 bp):
ATTAAATGGTAAATGA
Found at i:22174018 original size:27 final size:27
Alignment explanation
Indices: 22173988--22174427 Score: 277
Period size: 27 Copynumber: 16.3 Consensus size: 27
22173978 CCGACTCCTA
*
22173988 GGGGTATAATAGTCATTTTACCCTAT-G
1 GGGGTAT-TTAGTCATTTTACCCTATCG
* *
22174015 GGGGTATTTCTGTCATTTTA-CCTATTG
1 GGGGTATTT-AGTCATTTTACCCTATCG
* *
22174042 GGGGTATTTAAGCCATTTTACCCT-TCA
1 GGGGTATTT-AGTCATTTTACCCTATCG
*
22174069 GGGGTATTTCGATCATTTTACCC-ATCG
1 GGGGTATTTAG-TCATTTTACCCTATCG
* *
22174096 GGGGTATTTTGGTCATTTTACCCT-TAG
1 GGGGTA-TTTAGTCATTTTACCCTATCG
* * *
22174123 GGGCTATTTCTA-TCATTTTAACCTAT-A
1 GGGGTA-TT-TAGTCATTTTACCCTATCG
*
22174150 GGGGTATTTCGATCATTTTACCCT-TCG
1 GGGGTATTTAG-TCATTTTACCCTATCG
* * *
22174177 AGGGTATTTCGGTCATTTTATCCT-TCG
1 GGGGTATTT-AGTCATTTTACCCTATCG
* *
22174204 AGGGTATTTCTGTCATTTTACCCTA-CG
1 GGGGTATTT-AGTCATTTTACCCTATCG
* * * *
22174231 GAGGTATTTTGATCATTTTACCC-CTCA
1 GGGGTATTTAG-TCATTTTACCCTATCG
* * * *
22174258 GAGGTATTTCGATCATTTTACTCT-TCA
1 GGGGTATTTAG-TCATTTTACCCTATCG
* * * *
22174285 GAGGTATTTTGATCATTTTACCC-CTCA
1 GGGGTATTTAG-TCATTTTACCCTATCG
* *
22174312 GGGGTATTTCGGTCATTTTA-CCTTTCG
1 GGGGTATTT-AGTCATTTTACCCTATCG
22174339 GGGGTATGTTAGTCATTTTACCCT-TCG
1 GGGGTAT-TTAGTCATTTTACCCTATCG
* * *
22174366 GGGGTATTTTGGTCACTTTACCCT-TCA
1 GGGGTA-TTTAGTCATTTTACCCTATCG
* *
22174393 GGGGTATTTCAGTCAATTTA-CCTTTC-
1 GGGGTATTT-AGTCATTTTACCCTATCG
22174419 GGGGTATTT
1 GGGGTATTT
22174428 CGGTCACTTG
Statistics
Matches: 345, Mismatches: 43, Indels: 51
0.79 0.10 0.12
Matches are distributed among these distances:
25 1 0.00
26 29 0.08
27 298 0.86
28 17 0.05
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGGTATTTAGTCATTTTACCCTATCG
Found at i:22174059 original size:54 final size:53
Alignment explanation
Indices: 22173988--22174427 Score: 340
Period size: 54 Copynumber: 8.2 Consensus size: 53
22173978 CCGACTCCTA
* *
22173988 GGGGTATAATAGTCATTTTACCCTAT-GGGGGTATTTCTGTCATTTTACCTATTG
1 GGGGTAT-TTAGTCATTTTACCCT-TCGGGGGTATTTCTGTCATTTTACCTATCG
* * *
22174042 GGGGTATTTAAGCCATTTTACCCTTCAGGGGTATTTC-GATCATTTTACCCATCG
1 GGGGTATTT-AGTCATTTTACCCTTCGGGGGTATTTCTG-TCATTTTACCTATCG
* * * * *
22174096 GGGGTATTTTGGTCATTTTACCCTTAGGGGCTATTTCTATCATTTTAACCTAT-A
1 GGGGTA-TTTAGTCATTTTACCCTTCGGGGGTATTTCTGTCATTTT-ACCTATCG
* * *
22174150 GGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTATCCT-TCG
1 GGGGTATTTAG-TCATTTTACCCTTCGGGGGTATTTCTGTCATTTTA-CCTATCG
* * * * ** *
22174204 AGGGTATTTCTGTCATTTTACCCTACGGAGGTATTT-TGATCATTTTACCCCTCA
1 GGGGTATTT-AGTCATTTTACCCTTCGGGGGTATTTCTG-TCATTTTACCTATCG
* * * * * ** *
22174258 GAGGTATTTCGATCATTTTACTCTTCAGAGGTATTT-TGATCATTTTACCCCTCA
1 GGGGTATTTAG-TCATTTTACCCTTCGGGGGTATTTCTG-TCATTTTACCTATCG
* * *
22174312 GGGGTATTTCGGTCATTTTACCTTTCGGGGGTATGTT-AGTCATTTTACCCT-TCG
1 GGGGTATTT-AGTCATTTTACCCTTCGGGGGTAT-TTCTGTCATTTTA-CCTATCG
* * * * * *
22174366 GGGGTATTTTGGTCACTTTACCCTTCAGGGGTATTTCAGTCAATTTACCTTTC-
1 GGGGTA-TTTAGTCATTTTACCCTTCGGGGGTATTTCTGTCATTTTACCTATCG
22174419 GGGGTATTT
1 GGGGTATTT
22174428 CGGTCACTTG
Statistics
Matches: 320, Mismatches: 47, Indels: 40
0.79 0.12 0.10
Matches are distributed among these distances:
52 3 0.01
53 24 0.08
54 275 0.86
55 18 0.06
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (53 bp):
GGGGTATTTAGTCATTTTACCCTTCGGGGGTATTTCTGTCATTTTACCTATCG
Found at i:22174131 original size:81 final size:80
Alignment explanation
Indices: 22174000--22174433 Score: 436
Period size: 81 Copynumber: 5.4 Consensus size: 80
22173990 GGTATAATAG
* * * * *
22174000 TCATTTTACCCTAT-GGGGGTATTTCTGTCATTTTACCTATTGGGGGTATTTAAGCCATTTTACC
1 TCATTTTACCCT-TCGGGGGTATTTCGGTCATTTTACC-CTTAGGGGTATTTTAGTCATTTTACC
22174064 CTTCAGGGGTATTTCGA
64 CTTCAGGGGTATTTCGA
* * *
22174081 TCATTTTACCCATCGGGGGTATTTTGGTCATTTTACCCTTAGGGGCTATTTCTA-TCATTTTAAC
1 TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTAGGGG-TATTT-TAGTCATTTTACC
22174145 CTAT-AGGGGTATTTCGA
64 CT-TCAGGGGTATTTCGA
* * *
22174162 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTATCCTTCGAGGGTATTTCT-GTCATTTTACC
1 TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTAG-GGGTATTT-TAGTCATTTTACC
* *
22174226 CTAC-GGAGGTATTTTGA
64 CTTCAGG-GGTATTTCGA
* * * * * *
22174243 TCATTTTACCCCTCAGAGGTATTTCGATCATTTTACTCTTCAGAGGTATTTT-GATCATTTTACC
1 TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTT-AGGGGTATTTTAG-TCATTTTACC
* *
22174307 CCTCAGGGGTATTTCGG
64 CTTCAGGGGTATTTCGA
* * * * *
22174324 TCATTTTACCTTTCGGGGGTATGTT-AGTCATTTTACCCTTCGGGGGTATTTTGGTCACTTTACC
1 TCATTTTACCCTTCGGGGGTAT-TTCGGTCATTTTACCCTT-AGGGGTATTTTAGTCATTTTACC
22174388 CTTCAGGGGTATTTC-A
64 CTTCAGGGGTATTTCGA
* *
22174404 GTCAATTTACCTTTC-GGGGTATTTCGGTCA
1 -TCATTTTACCCTTCGGGGGTATTTCGGTCA
22174434 CTTGCCTACG
Statistics
Matches: 295, Mismatches: 43, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
79 2 0.01
80 22 0.07
81 260 0.88
82 11 0.04
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTAGGGGTATTTTAGTCATTTTACCCT
TCAGGGGTATTTCGA
Found at i:22176281 original size:23 final size:23
Alignment explanation
Indices: 22176251--22176296 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22176241 GTGTTTCATG
22176251 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
22176274 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
22176297 ACTAGCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (23 bp):
TCTGCTGCCTGATTAAGTTACAT
Found at i:22176656 original size:45 final size:46
Alignment explanation
Indices: 22176606--22176696 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
22176596 TTCTTCACAG
**
22176606 AATTAAA-TTCCTACTATAAAATTTTTGAAAAATACAACCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
* * *
22176651 AATTAAATTTCCTACTTTGAAATTTTCAAAAAATACAATCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
22176697 GACATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 7 0.17
46 33 0.82
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.35
Consensus pattern (46 bp):
AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
Found at i:22182908 original size:91 final size:92
Alignment explanation
Indices: 22182785--22182977 Score: 291
Period size: 91 Copynumber: 2.1 Consensus size: 92
22182775 TTGATTTTAG
* *
22182785 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
22182850 ATTTAAT-ATTAATTATTTTAAATTGTA
66 ATGTAATAATT-ATTATTTTAAATTATA
* * *
22182877 TAAATTCATATGAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
22182941 ATGTAATAATTATTATTTTAAATTATA
66 ATGTAATAATTATTATTTTAAATTATA
*
22182968 CAAATTCATA
1 TAAATTCATA
22182978 AAATATAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 74 0.80
92 18 0.20
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:22183132 original size:120 final size:118
Alignment explanation
Indices: 22183008--22183298 Score: 460
Period size: 120 Copynumber: 2.4 Consensus size: 118
22182998 AATTATTTTA
* * *
22183008 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
22183071 TTATAGTATCATATATTATGATTTGAGTAAATTCACATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCACATAAG-A-ATTAATTATTAAG
*
22183128 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
22183193 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCACATAAGAATTAATTATTAAG
* *
22183246 AATTTTATTAAATTATATATTTTAATTTAAATATATTTAATAATATTTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
22183299 TAAATATGAT
Statistics
Matches: 160, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
118 63 0.39
119 6 0.04
120 89 0.56
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (118 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCACATAAGAATTAATTATTAAG
Found at i:22183168 original size:15 final size:15
Alignment explanation
Indices: 22183133--22183184 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22183123 TTAAGAATTT
*
22183133 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22183147 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22183161 TATTTAATAATAAT-
1 TATTTAATTATAATA
22183175 TATGTTAATT
1 TAT-TTAATT
22183185 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22183264 original size:59 final size:58
Alignment explanation
Indices: 22183081--22183266 Score: 171
Period size: 59 Copynumber: 3.1 Consensus size: 58
22183071 TTATAGTATC
22183081 ATATATTATGATTTGAGTAAATTCACATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCA-ATAAG-A-ATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * * *
22183142 ATATATTTTAATTAT-AATATATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCAATAAGAATTA-ATT-ATTAAGAATTTTATTA-AATT
22183201 ATATATTATGATTTGAGTAAATTCATATAAGAATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCA-ATAAGAATTAATTATTAAGAATTTTATTAAATT
22183260 ATATATT
1 ATATATT
22183267 TTAATTTAAA
Statistics
Matches: 93, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
58 10 0.11
59 46 0.49
60 18 0.19
61 18 0.19
62 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (58 bp):
ATATATTATGATTTGAGTAAATTCAATAAGAATTAATTATTAAGAATTTTATTAAATT
Found at i:22183311 original size:26 final size:25
Alignment explanation
Indices: 22183271--22183320 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
22183261 TATATTTTAA
22183271 TTTAAATATATTTAATAATATTTATG
1 TTTAAATATATTTAA-AATATTTATG
*
22183297 TTTAAATATGA-TTAAATTATTTAT
1 TTTAAATAT-ATTTAAAATATTTAT
22183321 TATTGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTAAATATATTTAAAATATTTATG
Found at i:22183432 original size:18 final size:17
Alignment explanation
Indices: 22183404--22183438 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22183394 ATTATTAAGA
*
22183404 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22183421 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22183439 TTAATAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22183521 original size:157 final size:157
Alignment explanation
Indices: 22183235--22183551 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
22183225 ATATAAGAAT
* *
22183235 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTTAAATATATTTAATAATATTTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
22183300 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
* *
22183365 TAATAATTTACCAAAACAAATTTCTGC
131 TAACAATTTACCAAAACAAATTTATGC
22183392 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
22183457 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
*
22183522 TAACCATTTACCAAAACAAATTTATGC
131 TAACAATTTACCAAAACAAATTTATGC
22183549 TAA
1 TAA
22183552 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
TAACAATTTACCAAAACAAATTTATGC
Found at i:22183708 original size:17 final size:16
Alignment explanation
Indices: 22183674--22183726 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
22183664 GATTTGCTAT
22183674 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22183690 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
22183707 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22183723 TACA
1 TACA
22183727 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:22190578 original size:18 final size:16
Alignment explanation
Indices: 22190557--22190590 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
22190547 GCGTGAGAGC
22190557 TAAGAGAGTTGAGAGAAT
1 TAAGAGAG--GAGAGAAT
22190575 TAAGAGAGGAGAGAAT
1 TAAGAGAGGAGAGAAT
22190591 GATGAGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.35, T:0.18
Consensus pattern (16 bp):
TAAGAGAGGAGAGAAT
Found at i:22195642 original size:26 final size:26
Alignment explanation
Indices: 22195619--22195680 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
22195609 CAATATCGTT
22195619 GCAAAGCTGCCAGTAGT-AGCATCGCA
1 GCAAAGCTGCCAGTA-TCAGCATCGCA
* *
22195645 GTAGAGCTGCCAGTATCAGCATCGCA
1 GCAAAGCTGCCAGTATCAGCATCGCA
* *
22195671 ACATAGCTGC
1 GCAAAGCTGC
22195681 TAGAAACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (26 bp):
GCAAAGCTGCCAGTATCAGCATCGCA
Found at i:22195874 original size:27 final size:27
Alignment explanation
Indices: 22195844--22196213 Score: 273
Period size: 27 Copynumber: 13.7 Consensus size: 27
22195834 CCGACTCTTA
**
22195844 GGGGTATAACAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
22195871 GGGGTATTTCAATCATTTTACCCTTTAG
1 GGGGTATTTCAGTCATTTTACCC-TTCG
**
22195899 GGGGTATTTTGGTCATTTTACCCTAT-G
1 GGGGTATTTCAGTCATTTTACCCT-TCG
* * *
22195926 GAGGGTATTTTAGTCGTTTTACCCTT-T
1 G-GGGTATTTCAGTCATTTTACCCTTCG
* * *
22195953 GGGGTATTTCGGTCATTTTACCGTTCA
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
22195980 GAGGTATTTCAGTGATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
** * * *
22196007 AAGGTATTTCGGTCAGTTTACCTTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * *
22196034 GGTGTATTTC-GTTCATTTTACTCTTCA
1 GGGGTATTTCAG-TCATTTTACCCTTCG
* * *
22196061 GGGGTATTTCGGTCATTTTATCCATCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * ** * * *
22196088 AGGATATTTTTGGCATTTTATCCTAT-A
1 GGGGTATTTCAGTCATTTTACCCT-TCG
* * * *
22196115 GGGGTATTTCGGCCATTTTACCTTTCA
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * *
22196142 AGGGTAGTTCGGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
22196169 AGGATATTTC-GATCATTTTACCCTTCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
*
22196196 GGGGTATTTCAGTTATTT
1 GGGGTATTTCAGTCATTT
22196214 GCCCATGAAT
Statistics
Matches: 272, Mismatches: 61, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
26 23 0.08
27 201 0.74
28 48 0.18
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTTCG
Found at i:22195899 original size:54 final size:54
Alignment explanation
Indices: 22195841--22196213 Score: 324
Period size: 54 Copynumber: 6.9 Consensus size: 54
22195831 ATTCCGACTC
** * *
22195841 TTAGGGGTATAACAGTCATTTTACCCTTCGGGGGTATTTCAATCATTTTACCCT
1 TTAGGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCT
* * *
22195895 TTAGGGGGTATTTTGGTCATTTTACCCTAT-GGAGGGTATTTTAGTCGTTTTACCCT
1 TTA-GGGGTATTTCGGTCATTTTACCCT-TCGG-GGGTATTTCAGTCATTTTACCCT
* * * *
22195951 TT-GGGGTATTTCGGTCATTTTACCGTTCAGAGGTATTTCAGTGATTTTACCC-
1 TTAGGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCT
* * * * * *
22196003 TTCGAAGGTATTTCGGTCAGTTTACCTTTCGGGTGTATTTC-GTTCATTTTACTCT
1 TTAG-GGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAG-TCATTTTACCCT
* * * * * ** * *
22196058 TCAGGGGTATTTCGGTCATTTTATCCATCGAGGATATTTTTGGCATTTTATCCT
1 TTAGGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCT
* * * ** * *
22196112 ATAGGGGTATTTCGGCCATTTTACCTTTCAAGGGTAGTTCGGTCATTTTACCC-
1 TTAGGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCT
* * * *
22196165 TTCGAGGATATTTCGATCATTTTACCCTTCGGGGGTATTTCAGTTATTT
1 TTAG-GGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTCATTT
22196214 GCCCATGAAT
Statistics
Matches: 249, Mismatches: 60, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
52 2 0.01
53 23 0.09
54 176 0.71
55 25 0.10
56 23 0.09
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (54 bp):
TTAGGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCT
Found at i:22196041 original size:81 final size:79
Alignment explanation
Indices: 22195855--22196205 Score: 323
Period size: 81 Copynumber: 4.3 Consensus size: 79
22195845 GGGTATAACA
* ** * * *
22195855 GTCATTTTACCCTTCGGGGGTATTTCAATCATTTTACCCTTTAGGGGGTATTTTGGTCATTTTAC
1 GTCATTTTACCTTTC-GGGGTATTTCGGTCATTTTA-CCTTCA-GAGGTATTTCGGTCATTTTAC
* * **
22195920 CCTATGGAGGGTATTTTA
63 CCT-TCGAGGATATTTCG
* * *
22195938 GTCGTTTTACCCTTT-GGGGTATTTCGGTCATTTTACCGTTCAGAGGTATTTCAGTGATTTTACC
1 GTCATTTTA-CCTTTCGGGGTATTTCGGTCATTTTACC-TTCAGAGGTATTTCGGTCATTTTACC
22196002 CTTCGAAGG-TATTTCG
64 CTTCG-AGGATATTTCG
* * * *
22196018 GTCAGTTTACCTTTCGGGTGTATTTCGTTCATTTTACTCTTCAGGGGTATTTCGGTCATTTTATC
1 GTCATTTTACCTTTCGGG-GTATTTCGGTCATTTTAC-CTTCAGAGGTATTTCGGTCATTTTACC
* *
22196083 CATCGAGGATATTTTTG
64 CTTCGAGGATA-TTTCG
* * * *
22196100 G-CATTTTATCCTATAGGGGTATTTCGGCCATTTTACCTTTCA-AGGGTAGTTCGGTCATTTTAC
1 GTCATTTTA-CCTTTCGGGGTATTTCGGTCATTTTACC-TTCAGA-GGTATTTCGGTCATTTTAC
22196163 CCTTCGAGGATATTTCG
63 CCTTCGAGGATATTTCG
* *
22196180 ATCATTTTACCCTTCGGGGGTATTTC
1 GTCATTTTACCTTTC-GGGGTATTTC
22196206 AGTTATTTGC
Statistics
Matches: 220, Mismatches: 35, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
79 5 0.02
80 28 0.13
81 141 0.64
82 34 0.15
83 8 0.04
84 4 0.02
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (79 bp):
GTCATTTTACCTTTCGGGGTATTTCGGTCATTTTACCTTCAGAGGTATTTCGGTCATTTTACCCT
TCGAGGATATTTCG
Found at i:22203132 original size:41 final size:40
Alignment explanation
Indices: 22203075--22203229 Score: 229
Period size: 41 Copynumber: 3.8 Consensus size: 40
22203065 CTATTCTCTG
*
22203075 AATTGCACTTACGTGCCCCCGTTTGTACTTCAGTACCCCTA
1 AATTGCACTTACGTGCCCCTGTTTGTACTTC-GTACCCCTA
*
22203116 AATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTT
1 AATTGCACTTACGTGCCCCTGTTTGTACTTC-GTACCCCTA
* *
22203157 AATTACACTTACATGCCCCTGTTTGTACTTCGATACCCCTA
1 AATTGCACTTACGTGCCCCTGTTTGTACTTCG-TACCCCTA
* *
22203198 AATTGAACTTACGTGCCCCTGTTTGTGCTTCG
1 AATTGCACTTACGTGCCCCTGTTTGTACTTCG
22203230 GTAACCTGAA
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 102 0.99
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (40 bp):
AATTGCACTTACGTGCCCCTGTTTGTACTTCGTACCCCTA
Found at i:22203154 original size:20 final size:19
Alignment explanation
Indices: 22203090--22203229 Score: 57
Period size: 21 Copynumber: 6.9 Consensus size: 19
22203080 CACTTACGTG
*
22203090 CCCCCGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTC-GTA
** * *
22203110 CCCCTAAATTGCACTTACGTG
1 CCCCT-GTTTGTACTT-CGTA
22203131 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
** * *
22203151 CCCCT-TAATTACACTTACATG
1 CCCCTGT--TTGTACTT-CGTA
22203172 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCG-TA
** * *
22203192 CCCCTAAATTGAACTTACGTG
1 CCCCT-GTTTGTACTT-CGTA
*
22203213 CCCCTGTTTGTGCTTCG
1 CCCCTGTTTGTACTTCG
22203230 GTAACCTGAA
Statistics
Matches: 85, Mismatches: 25, Indels: 21
0.65 0.19 0.16
Matches are distributed among these distances:
19 5 0.06
20 36 0.42
21 39 0.46
22 5 0.06
ACGTcount: A:0.18, C:0.32, G:0.15, T:0.35
Consensus pattern (19 bp):
CCCCTGTTTGTACTTCGTA
Found at i:22203217 original size:82 final size:82
Alignment explanation
Indices: 22203075--22203232 Score: 255
Period size: 82 Copynumber: 1.9 Consensus size: 82
22203065 CTATTCTCTG
* * *
22203075 AATTGCACTTACGTGCCCCCGTTTGTACTTCAGTACCCCTAAATTGCACTTACGTGCCCCTGTTT
1 AATTACACTTACATGCCCCCGTTTGTACTTCAGTACCCCTAAATTGAACTTACGTGCCCCTGTTT
22203140 GTACTTCGGTACCCCTT
66 GTACTTCGGTACCCCTT
*
22203157 AATTACACTTACATGCCCCTGTTTGTACTTC-GATACCCCTAAATTGAACTTACGTGCCCCTGTT
1 AATTACACTTACATGCCCCCGTTTGTACTTCAG-TACCCCTAAATTGAACTTACGTGCCCCTGTT
*
22203221 TGTGCTTCGGTA
65 TGTACTTCGGTA
22203233 ACCTGAATAC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
81 1 0.01
82 69 0.99
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (82 bp):
AATTACACTTACATGCCCCCGTTTGTACTTCAGTACCCCTAAATTGAACTTACGTGCCCCTGTTT
GTACTTCGGTACCCCTT
Found at i:22205239 original size:25 final size:25
Alignment explanation
Indices: 22205204--22205348 Score: 218
Period size: 25 Copynumber: 5.8 Consensus size: 25
22205194 TTATCAATAC
*
22205204 GCCATAAAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
*
22205229 GCCACAGAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
*
22205254 GCCACAGAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
* *
22205279 GCCACAAAGGCTTCATTTCAAATAC
1 GCCACAAAGGCTTCATTTCAGATAT
* *
22205304 ACCACAAATGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
*
22205329 GCCACAAAGGATTCATTTCA
1 GCCACAAAGGCTTCATTTCA
22205349 AATACAATAC
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 108 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (25 bp):
GCCACAAAGGCTTCATTTCAGATAT
Found at i:22205290 original size:50 final size:50
Alignment explanation
Indices: 22205199--22205372 Score: 231
Period size: 50 Copynumber: 3.5 Consensus size: 50
22205189 AAGAGTTATC
* * *
22205199 AATACGCCATAAAGGCTTCATTTCAGATATGCCACAGAGGCTTCATTTCA
1 AATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGCTTCATTTCA
* ** *
22205249 GATATGCCACAGAGGCTTCATTTCAGATATGCCACAAAGGCTTCATTTCA
1 AATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGCTTCATTTCA
* *
22205299 AATACACCACAAATGCTTCATTTCAGATATGCCACAAAGGATTCATTTCA
1 AATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGCTTCATTTCA
** *
22205349 AATACAATACACAGGCTTCCATTT
1 AATACACCACAAAGGCTT-CATTT
22205373 ATTGATGTGT
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 103 0.95
51 5 0.05
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (50 bp):
AATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGCTTCATTTCA
Found at i:22205365 original size:75 final size:75
Alignment explanation
Indices: 22205209--22205372 Score: 202
Period size: 75 Copynumber: 2.2 Consensus size: 75
22205199 AATACGCCAT
* ** * * *
22205209 AAAGGCTTCATTTCAGATATGCCACAGAGGCTTCATTTCAGATATGCCACAGAGGCTTCATTTCA
1 AAAGGCTTCATTTCAAATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGATTCATTTCA
* ***
22205274 GATATGCCAC
66 AATACAACAC
*
22205284 AAAGGCTTCATTTCAAATACACCACAAATGCTTCATTTCAGATATGCCACAAAGGATTCATTTCA
1 AAAGGCTTCATTTCAAATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGATTCATTTCA
*
22205349 AATACAATAC
66 AATACAACAC
*
22205359 ACAGGCTTCCATTT
1 AAAGGCTT-CATTT
22205373 ATTGATGTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
75 70 0.93
76 5 0.07
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (75 bp):
AAAGGCTTCATTTCAAATACACCACAAAGGCTTCATTTCAGATATGCCACAAAGGATTCATTTCA
AATACAACAC
Found at i:22210867 original size:20 final size:20
Alignment explanation
Indices: 22210836--22210887 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
22210826 TGAACCACTT
22210836 CAAGCACATATAAATAAGTCA
1 CAAGC-CATATAAATAAGTCA
22210857 CAAGCCATATAAATAAGTCA
1 CAAGCCATATAAATAAGTCA
*
22210877 TAAGCCATATA
1 CAAGCCATATA
22210888 TTTATAGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (20 bp):
CAAGCCATATAAATAAGTCA
Found at i:22211883 original size:20 final size:20
Alignment explanation
Indices: 22211855--22211907 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22211845 CTAACAAAGG
* * *
22211855 CACCGAAGTGTAAGCAGAGA
1 CACCAAAGTGCAAACAGAGA
*
22211875 CACCAAAGTGCAAACAGAGG
1 CACCAAAGTGCAAACAGAGA
*
22211895 CACCAATGTGCAA
1 CACCAAAGTGCAA
22211908 TCTTGTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.25, G:0.25, T:0.09
Consensus pattern (20 bp):
CACCAAAGTGCAAACAGAGA
Found at i:22217661 original size:26 final size:27
Alignment explanation
Indices: 22217632--22217715 Score: 102
Period size: 26 Copynumber: 3.2 Consensus size: 27
22217622 ACATAGTTGC
*
22217632 TCACATGAGTTGTGAAATAGGTATG-T
1 TCACACGAGTTGTGAAATAGGTATGCT
* *
22217658 TCACACGAGCTATGAAATAGGTATGCT
1 TCACACGAGTTGTGAAATAGGTATGCT
* *
22217685 T-ACACGAGTTGTGAAATGGGTCTGC-
1 TCACACGAGTTGTGAAATAGGTATGCT
22217710 TCACAC
1 TCACAC
22217716 AAGCTATGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
25 1 0.02
26 46 0.94
27 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (27 bp):
TCACACGAGTTGTGAAATAGGTATGCT
Found at i:22219758 original size:15 final size:15
Alignment explanation
Indices: 22219740--22219771 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22219730 TAAACTTGTA
*
22219740 TAAATTAAATTAAAC
1 TAAATTAAATAAAAC
22219755 TAAATTAAATAAAAC
1 TAAATTAAATAAAAC
22219770 TA
1 TA
22219772 CTAAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAATTAAATAAAAC
Found at i:22243364 original size:22 final size:22
Alignment explanation
Indices: 22243339--22243413 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
22243329 TGAACAAGCC
*
22243339 ACCACTGATTTGCATATGAACT
1 ACCACTGATTTGCAGATGAACT
* *
22243361 ACCACTAATTTACAGATGAACT
1 ACCACTGATTTGCAGATGAACT
* *
22243383 GCCACT-AGTTTGTAGAT-AAGCT
1 ACCACTGA-TTTGCAGATGAA-CT
22243405 ACCACTGAT
1 ACCACTGAT
22243414 AACACTTTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 3 0.07
22 39 0.91
23 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (22 bp):
ACCACTGATTTGCAGATGAACT
Found at i:22243459 original size:28 final size:29
Alignment explanation
Indices: 22243391--22243459 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
22243381 CTGCCACTAG
* *
22243391 TTTGTAGATAAGCTACCACTGATAACACT
1 TTTGTAGACAAGCCACCACTGATAACACT
* **
22243420 TTTGT-GAACAAGCCATCACTGATATGA-T
1 TTTGTAG-ACAAGCCACCACTGATAACACT
22243448 TTTGTAGACAAG
1 TTTGTAGACAAG
22243460 GCATGATTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (29 bp):
TTTGTAGACAAGCCACCACTGATAACACT
Found at i:22251612 original size:14 final size:15
Alignment explanation
Indices: 22251584--22251613 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22251574 GCAAAGGAGC
22251584 AAAAAGAAAAGATAG
1 AAAAAGAAAAGATAG
22251599 AAAAAGAAAA-ATAG
1 AAAAAGAAAAGATAG
22251613 A
1 A
22251614 GTGAGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
AAAAAGAAAAGATAG
Found at i:22254851 original size:28 final size:28
Alignment explanation
Indices: 22254819--22254874 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
22254809 TTAAATGTGT
* *
22254819 TTTTATTATATGTTATTAATG-TGTCTAA
1 TTTTATTACATGCT-TTAATGATGTCTAA
22254847 TTTTATTACATGCTTTAATGATGTCTAA
1 TTTTATTACATGCTTTAATGATGTCTAA
22254875 GTCAAGCCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.54
Consensus pattern (28 bp):
TTTTATTACATGCTTTAATGATGTCTAA
Found at i:22263675 original size:15 final size:16
Alignment explanation
Indices: 22263655--22263684 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22263645 GTTGAAACTT
22263655 TTTAAAATAA-AATTA
1 TTTAAAATAATAATTA
22263670 TTTAAAATAATAATT
1 TTTAAAATAATAATT
22263685 TAATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAAATAATAATTA
Found at i:22264876 original size:27 final size:28
Alignment explanation
Indices: 22264835--22264898 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
22264825 AAAAATTACT
22264835 AAAATATTATAAATTTTTTTATTTACCAA
1 AAAATA-TATAAATTTTTTTATTTACCAA
22264864 AAAATATAT-AATTTTTTTATTTACCAA
1 AAAATATATAAATTTTTTTATTTACCAA
*
22264891 AATATATA
1 AAAATATA
22264899 AAAAACAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 25 0.74
28 3 0.09
29 6 0.18
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAATATATAAATTTTTTTATTTACCAA
Found at i:22264910 original size:7 final size:8
Alignment explanation
Indices: 22264898--22264936 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
22264888 CAAAATATAT
22264898 AAAAAACA
1 AAAAAACA
22264906 AAAAAACA
1 AAAAAACA
22264914 AAAAAA-A
1 AAAAAACA
22264921 TAAAAAACA
1 -AAAAAACA
22264930 GAAAAAA
1 -AAAAAA
22264937 AAACCTGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 1 0.04
8 20 0.71
9 7 0.25
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAAACA
Found at i:22264918 original size:17 final size:17
Alignment explanation
Indices: 22264898--22264939 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
22264888 CAAAATATAT
*
22264898 AAAAAACAAAAAAACA-
1 AAAAAAAAAAAAAACAG
*
22264914 AAAAAAATAAAAAACAG
1 AAAAAAAAAAAAAACAG
22264931 AAAAAAAAA
1 AAAAAAAAA
22264940 CCTGAACTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAACAG
Found at i:22265010 original size:27 final size:27
Alignment explanation
Indices: 22264980--22265046 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
22264970 AGGGAAGCAG
*
22264980 GTTGGCGGCACCAAACAAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGAATCCCT
****
22265007 GTTGGCGGCACCAGTGGAGGAATCCCT
1 GTTGGCGGCACCAAACAAGGAATCCCT
22265034 GTTGGCGGCACCA
1 GTTGGCGGCACCA
22265047 GTCCTGCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.16
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGAATCCCT
Found at i:22270372 original size:29 final size:30
Alignment explanation
Indices: 22270333--22270390 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22270323 ACAAACTCTT
* *
22270333 TTTTTCATTTT-CATCACTCGTTTCTTTTTC
1 TTTTTCATTTTGAATCACTC-TCTCTTTTTC
22270363 TTTTTC-TTTTGAATCACTCTCTCTTTTT
1 TTTTTCATTTTGAATCACTCTCTCTTTTT
22270391 TTTATCACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.10, C:0.22, G:0.03, T:0.64
Consensus pattern (30 bp):
TTTTTCATTTTGAATCACTCTCTCTTTTTC
Found at i:22274166 original size:18 final size:18
Alignment explanation
Indices: 22274138--22274182 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
22274128 CTCACATCAT
* * *
22274138 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAAAAGG
*
22274156 TGGTTGCGAAGAAAAAGG
1 TGGTGGCGAAGAAAAAGG
22274174 TGGTGGCGA
1 TGGTGGCGA
22274183 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.44, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAAAAGG
Found at i:22276571 original size:15 final size:15
Alignment explanation
Indices: 22276547--22276585 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
22276537 CAATAACCAC
*
22276547 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
22276562 AATAATT-AAATTAG
1 AATAATTAAAACTAG
22276576 AATAATTAAA
1 AATAATTAAA
22276586 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:22276578 original size:14 final size:14
Alignment explanation
Indices: 22276559--22276587 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22276549 TAACTAAAAC
22276559 TAGAATAATTAAAT
1 TAGAATAATTAAAT
22276573 TAGAATAATTAAAT
1 TAGAATAATTAAAT
22276587 T
1 T
22276588 GATACAAAAA
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:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:22277577 original size:17 final size:17
Alignment explanation
Indices: 22277555--22277588 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22277545 AAGATGTCAA
22277555 GAATATTAGAATAGCAT
1 GAATATTAGAATAGCAT
22277572 GAATATTAGAATAGCAT
1 GAATATTAGAATAGCAT
22277589 CTTACCCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (17 bp):
GAATATTAGAATAGCAT
Found at i:22279317 original size:49 final size:49
Alignment explanation
Indices: 22279264--22279362 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
22279254 CATTGAATCA
*
22279264 ATGAGAAAATTGGTTTCTTATGGAGAAGAATTTTGTTTGCTGCATGTTG
1 ATGAGAAAATTGGTTTCTTATGGAGAAGAACTTTGTTTGCTGCATGTTG
22279313 ATGAGAAAATTGGTTTCTTATGGAGAAGAACTTTGTTTGCTGCATGTTG
1 ATGAGAAAATTGGTTTCTTATGGAGAAGAACTTTGTTTGCTGCATGTTG
22279362 A
1 A
22279363 GGGGAGATAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.27, C:0.07, G:0.26, T:0.39
Consensus pattern (49 bp):
ATGAGAAAATTGGTTTCTTATGGAGAAGAACTTTGTTTGCTGCATGTTG
Found at i:22282729 original size:17 final size:17
Alignment explanation
Indices: 22282707--22282748 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
22282697 AAATATTGAC
*
22282707 ATAAAAAA-ATTAAAAT
1 ATAAAAAAGATAAAAAT
22282723 ATGAAAAAAGATAAAAAT
1 AT-AAAAAAGATAAAAAT
22282741 ATAAAAAA
1 ATAAAAAA
22282749 TATATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 12 0.52
18 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
ATAAAAAAGATAAAAAT
Found at i:22282730 original size:18 final size:17
Alignment explanation
Indices: 22282709--22282748 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
22282699 ATATTGACAT
*
22282709 AAAAAAATTAAAATATGA
1 AAAAAAATAAAAATAT-A
*
22282727 AAAAAGATAAAAATATA
1 AAAAAAATAAAAATATA
22282744 AAAAA
1 AAAAA
22282749 TATATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAAAATATA
Found at i:22282877 original size:18 final size:17
Alignment explanation
Indices: 22282847--22282899 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
22282837 ATGAGTTCAT
22282847 AATTTTTATGAATTTTATA
1 AATTTTTA-GAATTTTA-A
22282866 AATTTTTAGAATTATTAA
1 AATTTTTAGAATT-TTAA
* *
22282884 TATTTTTATAATTTTA
1 AATTTTTAGAATTTTA
22282900 CACTCATTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 3 0.10
18 17 0.55
19 11 0.35
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
AATTTTTAGAATTTTAA
Found at i:22293828 original size:21 final size:20
Alignment explanation
Indices: 22293799--22293840 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
22293789 GTGTCTTGAT
22293799 GGTGTGGTGCGA-TAAGCAAG
1 GGTGTGGTGCGAGT-AGCAAG
22293819 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
22293840 G
1 G
22293841 CGCGGTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 15 0.75
22 1 0.05
ACGTcount: A:0.21, C:0.10, G:0.48, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:22294395 original size:19 final size:19
Alignment explanation
Indices: 22294354--22294393 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
22294344 TGAAAAGTTG
22294354 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
22294373 ATAATAGATATAATTATATAT
1 ATAATA-AT-TAA-TATATAT
22294394 AAATGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 3 0.17
22 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:22294513 original size:30 final size:30
Alignment explanation
Indices: 22294456--22294513 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
22294446 GCCTTTTGAA
* *
22294456 AATATTTACAAAAAGAGACATCTAATTTCT
1 AATATTTACAAAAAGAGACACCAAATTTCT
22294486 AATATTTACAAAAAGAG-CAACCAAATTT
1 AATATTTACAAAAAGAGAC-ACCAAATTT
22294514 TGAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTCT
Found at i:22306545 original size:48 final size:48
Alignment explanation
Indices: 22306444--22306594 Score: 160
Period size: 48 Copynumber: 3.1 Consensus size: 48
22306434 ATACCGATAT
* * ***
22306444 TCTGTTACGATACAAGGGTGGCACGGACTGTGTGCAGGCCAAC-ATTG
1 TCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAGAA
*
22306491 TCCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCGAGAA
1 T-CTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAGAA
** * * * * *
22306540 TCTGTTATTACACAAAGGTGGTACGGACTGTGTGCAGACCACCGCGAAA
1 TCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAG-AA
22306589 TCTGTT
1 TCTGTT
22306595 TTTTTATTCC
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 76 0.87
49 10 0.11
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (48 bp):
TCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAGAA
Found at i:22313878 original size:48 final size:48
Alignment explanation
Indices: 22313807--22313949 Score: 139
Period size: 48 Copynumber: 3.0 Consensus size: 48
22313797 TTTGCGTACA
*
22313807 GATATTCTGTTATGATACAAGGGTGGCACAGAATGTGTACAGGCCACC
1 GATATTCTGTTACGATACAAGGGTGGCACAGAATGTGTACAGGCCACC
* * * *
22313855 GATATTCTGTTACGATTA-AAGGGTGGCACGGACTGTGTGCAGGCGACC
1 GATATTCTGTTACGA-TACAAGGGTGGCACAGAATGTGTACAGGCCACC
* * * * * *
22313903 -AT-TGACCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCAC
1 GATAT--TCTGTTACGATACAAGGGTGGCACAGAATGTGTACAGGCCAC
22313950 TGAGAATCTA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
46 1 0.01
47 4 0.05
48 75 0.91
49 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
GATATTCTGTTACGATACAAGGGTGGCACAGAATGTGTACAGGCCACC
Found at i:22322937 original size:20 final size:20
Alignment explanation
Indices: 22322898--22322940 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22322888 CCCTGTAGTT
* *
22322898 TGAAAATTTCCATCTTTTTC
1 TGAAAATTTCCATATGTTTC
*
22322918 TGAAAATTTCTATATGTTTC
1 TGAAAATTTCCATATGTTTC
22322938 TGA
1 TGA
22322941 TTTAGTCCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (20 bp):
TGAAAATTTCCATATGTTTC
Found at i:22329631 original size:27 final size:27
Alignment explanation
Indices: 22329601--22329805 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
22329591 ATATTGAGTC
* * * *
22329601 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22329628 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22329655 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22329683 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22329710 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22329737 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22329764 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
22329791 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
22329806 GTACAATTTA
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 132 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22337636 original size:27 final size:27
Alignment explanation
Indices: 22337606--22337810 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
22337596 ATATTGAGTC
* * * *
22337606 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22337633 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22337660 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22337688 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22337715 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22337742 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22337769 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22337796 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22337811 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22352385 original size:23 final size:23
Alignment explanation
Indices: 22352355--22352400 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22352345 GTGTTTCATG
22352355 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
22352378 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
22352401 CTAATTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (23 bp):
TCTGCTGCCTGATTAAGTTACAT
Found at i:22352705 original size:45 final size:46
Alignment explanation
Indices: 22352655--22352745 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
22352645 TTCTTCACAG
**
22352655 AATTAAA-TTCCTACTATAAAATTTTTGAAAAATACAACCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
* * *
22352700 AATTAAATTTCCTACTTTGAAATTTTCAAAAAATACAATCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
22352746 GACATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 7 0.17
46 33 0.82
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.35
Consensus pattern (46 bp):
AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
Found at i:22358984 original size:91 final size:92
Alignment explanation
Indices: 22358861--22359053 Score: 291
Period size: 91 Copynumber: 2.1 Consensus size: 92
22358851 TTGATTTTAG
* *
22358861 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
22358926 ATTTAAT-ATTAATTATTTTAAATTGTA
66 ATGTAATAATT-ATTATTTTAAATTATA
* * *
22358953 TAAATTCATATGAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
22359017 ATGTAATAATTATTATTTTAAATTATA
66 ATGTAATAATTATTATTTTAAATTATA
*
22359044 CAAATTCATA
1 TAAATTCATA
22359054 AAATATAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 74 0.80
92 18 0.20
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:22359242 original size:15 final size:15
Alignment explanation
Indices: 22359207--22359258 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22359197 TTAAGAATTT
*
22359207 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22359221 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22359235 TATTTAATAATAAT-
1 TATTTAATTATAATA
22359249 TATGTTAATT
1 TAT-TTAATT
22359259 TATATTTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22359360 original size:117 final size:120
Alignment explanation
Indices: 22359085--22359375 Score: 434
Period size: 117 Copynumber: 2.5 Consensus size: 120
22359075 TTATTTTAAA
* * * * *
22359085 TTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTTTAT
1 TTTATTAAATTATATATTTTAATTTAAATATATTTAATAATAATTATGTT-AAATTTTCATTTAC
22359149 AGTATCATATATTATGATTTGAGTAAATTCACATAAGAATATCAATTATTAAGAAT
65 AGTATCATATATTATGATTTGAGTAAATTCACATAAGAATATCAATTATTAAGAAT
22359205 TTTATTAAATTATATATTTTAA-TTATAATATATTTAATAATAATTATGTT-AATTTAT-ATTTA
1 TTTATTAAATTATATATTTTAATTTA-AATATATTTAATAATAATTATGTTAAATTT-TCATTTA
* *
22359267 CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT-T-AATTATTAAGATT
64 CAGTATCATATATTATGATTTGAGTAAATTCACATAAGAATATCAATTATTAAGAAT
22359322 TTTATTAAATTATATATTTTAATTTAAATATATTTAATAAT-ATTATGTTTAAAT
1 TTTATTAAATTATATATTTTAATTTAAATATATTTAATAATAATTATG-TTAAAT
22359376 ATGATTAAAT
Statistics
Matches: 158, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
116 6 0.04
117 51 0.32
118 7 0.04
119 50 0.32
120 42 0.27
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TTTATTAAATTATATATTTTAATTTAAATATATTTAATAATAATTATGTTAAATTTTCATTTACA
GTATCATATATTATGATTTGAGTAAATTCACATAAGAATATCAATTATTAAGAAT
Found at i:22359403 original size:75 final size:75
Alignment explanation
Indices: 22359324--22359557 Score: 179
Period size: 75 Copynumber: 3.0 Consensus size: 75
22359314 TTAAGATTTT
22359324 TATTAAATTATATATTTTAATTTAAATATATTTAATAATATTATGTTTAAATATGATTAAATTAT
1 TATTAAATTATATATTTTAATTTAAATATATTTAATAATATTATGTTTAAATATGATTAAATTAT
22359389 TTATTATTGA
66 TTATTATTGA
* * ** ** * * * * **
22359399 TATT-AATAATCTTATTAAAATTTAAATA-ACAATAACAATAATA-ATTTACCAAAACAAATTTC
1 TATTAAATTAT-ATATTTTAATTTAAATATA-TTTAATAATATTATGTTTA--AATA-TGA--T-
* * ** *
22359461 TGCTAATTATTAAGAATT-T
58 T--AAATTATTTATTATTGA
*
22359480 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTTAAATATATTTAATAAT-ATTATGTTTAAATATGATTAAATTA
22359545 TTTATTATTGA
65 TTTATTATTGA
22359556 TA
1 TA
22359558 ATAATAATCT
Statistics
Matches: 109, Mismatches: 35, Indels: 29
0.63 0.20 0.17
Matches are distributed among these distances:
74 10 0.09
75 38 0.35
76 5 0.05
77 2 0.02
78 1 0.01
79 1 0.01
80 2 0.02
81 26 0.24
82 20 0.18
83 4 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
TATTAAATTATATATTTTAATTTAAATATATTTAATAATATTATGTTTAAATATGATTAAATTAT
TTATTATTGA
Found at i:22359504 original size:18 final size:17
Alignment explanation
Indices: 22359476--22359510 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22359466 ATTATTAAGA
*
22359476 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22359493 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22359511 TTAATAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22359574 original size:157 final size:156
Alignment explanation
Indices: 22359308--22359623 Score: 560
Period size: 157 Copynumber: 2.0 Consensus size: 156
22359298 ATATAAGAAT
* *
22359308 TAATTATTAAGATTTTTATTAAATTATATATTTTAATTTAAATATATTTAATAATATTATGTTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATATTATGTTTA
* *
22359373 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAAT
* *
22359438 AATAATTTACCAAAACAAATTTCTGC
131 AACAATTTACCAAAACAAATTTATGC
22359464 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT-ATTATGTTT
22359529 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
65 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAA
*
22359594 TAACCATTTACCAAAACAAATTTATGC
130 TAACAATTTACCAAAACAAATTTATGC
22359621 TAA
1 TAA
22359624 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 53 0.35
157 99 0.65
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATATTATGTTTA
AATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTGAAATAACAATAACAAT
AACAATTTACCAAAACAAATTTATGC
Found at i:22359780 original size:17 final size:16
Alignment explanation
Indices: 22359746--22359798 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
22359736 GATTTGCTAT
22359746 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22359762 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
22359779 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22359795 TACA
1 TACA
22359799 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:22363444 original size:20 final size:21
Alignment explanation
Indices: 22363416--22363454 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
22363406 TAAATTCCAA
22363416 TTTAACCAAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
22363436 TTTACCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
22363455 AAACCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:22365662 original size:66 final size:66
Alignment explanation
Indices: 22365575--22365717 Score: 277
Period size: 66 Copynumber: 2.2 Consensus size: 66
22365565 CCGCAAAACT
22365575 TGAAGAACCACTCTCAAATTCTCATCCTACTCATCCTCTGATCAAGAATACACCAATATGTCATC
1 TGAA-AACCACTCTCAAATTCTCATCCTACTCATCCTCTGATCAAGAATACACCAATATGTCATC
22365640 TA
65 TA
22365642 TGAAAACCACTCTCAAATTCTCATCCTACTCATCCTCTGATCAAGAATACACCAATATGTCATCT
1 TGAAAACCACTCTCAAATTCTCATCCTACTCATCCTCTGATCAAGAATACACCAATATGTCATCT
22365707 A
66 A
22365708 TGAAAACCAC
1 TGAAAACCAC
22365718 AATGAACCGA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 72 0.95
67 4 0.05
ACGTcount: A:0.36, C:0.30, G:0.07, T:0.27
Consensus pattern (66 bp):
TGAAAACCACTCTCAAATTCTCATCCTACTCATCCTCTGATCAAGAATACACCAATATGTCATCT
A
Found at i:22370250 original size:84 final size:83
Alignment explanation
Indices: 22370102--22370269 Score: 273
Period size: 84 Copynumber: 2.0 Consensus size: 83
22370092 GGTAATGCTT
* * * *
22370102 TGTAACCCTATTCTGGTTATGGATACGGGTTAGGGGTGTTACACGTGGCCTCTCTAGTTCGGGGC
1 TGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTACTTCGGGGC
22370167 TCTCTAACTGTGTAAACTC
66 TCTCTAA-TGTGTAAACTC
*
22370186 TGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTACTTTGGGGC
1 TGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTACTTCGGGGC
*
22370251 TCTCTAATTTGTAAACTC
66 TCTCTAATGTGTAAACTC
22370269 T
1 T
22370270 ATCTGGACCT
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 11 0.14
84 67 0.86
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (83 bp):
TGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTACTTCGGGGC
TCTCTAATGTGTAAACTC
Found at i:22373366 original size:13 final size:13
Alignment explanation
Indices: 22373348--22373372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22373338 CAAATACTAT
22373348 AGCTAACATCTAC
1 AGCTAACATCTAC
22373361 AGCTAACATCTA
1 AGCTAACATCTA
22373373 ATTTATTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
AGCTAACATCTAC
Found at i:22376008 original size:42 final size:41
Alignment explanation
Indices: 22375961--22376069 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 41
22375951 ACGGCCTAAC
*
22375961 ACACGGCCTCACACACGACTGTGTGAGGTTATTTTGAAGGGT
1 ACACGGCCT-ACACACGACTGTGTGAGGTTATTTCGAAGGGT
*
22376003 ACACGGCCTAGCACACGGGC-GTGTGAGGTTATTTCGAAGGGT
1 ACACGGCCTA-CACAC-GACTGTGTGAGGTTATTTCGAAGGGT
* * *
22376045 ACACGGCTTGGCACACGAGTGTGTG
1 ACACGGCCT-ACACACGACTGTGTG
22376070 GCTTGGCCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
41 2 0.04
42 53 0.93
43 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (41 bp):
ACACGGCCTACACACGACTGTGTGAGGTTATTTCGAAGGGT
Found at i:22381493 original size:25 final size:24
Alignment explanation
Indices: 22381456--22381504 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
22381446 CAATGTTTCA
* * *
22381456 CCTCTTTCGTTCTTTTTTCCTCTT
1 CCTCTTTCCTTCTTCTTGCCTCTT
22381480 CCTCTTTTCCTTCTTCTTGCCTCTT
1 CCTC-TTTCCTTCTTCTTGCCTCTT
22381505 TCATCCTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.00, C:0.37, G:0.04, T:0.59
Consensus pattern (24 bp):
CCTCTTTCCTTCTTCTTGCCTCTT
Found at i:22390229 original size:27 final size:27
Alignment explanation
Indices: 22390199--22390287 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
22390189 TGAAGACCAA
*
22390199 CTCGCCAAGCCTACTTGCGAACACCTG
1 CTCGCCAAGCCTACTGGCGAACACCTG
*
22390226 CTCGCCAAGCCTACTGGTGAACA-CTG
1 CTCGCCAAGCCTACTGGCGAACACCTG
* *
22390252 ACTCACCAAGCCTACTGGGGAAC-CCTTG
1 -CTCGCCAAGCCTACTGGCGAACACC-TG
22390280 CTCGCCAA
1 CTCGCCAA
22390288 TTCCATTGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
26 3 0.06
27 49 0.91
28 2 0.04
ACGTcount: A:0.24, C:0.38, G:0.20, T:0.18
Consensus pattern (27 bp):
CTCGCCAAGCCTACTGGCGAACACCTG
Found at i:22390337 original size:27 final size:27
Alignment explanation
Indices: 22390307--22390370 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
22390297 CAAACCCCTA
22390307 CTCACCAAGTCCACTAGCAAACACCAG
1 CTCACCAAGTCCACTAGCAAACACCAG
* ** * ** *
22390334 CTCATCAAGTTTACTGGTGAACACTAG
1 CTCACCAAGTCCACTAGCAAACACCAG
22390361 CTCACCAAGT
1 CTCACCAAGT
22390371 TCAACTGGCG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (27 bp):
CTCACCAAGTCCACTAGCAAACACCAG
Found at i:22392433 original size:14 final size:14
Alignment explanation
Indices: 22392414--22392440 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22392404 AAAATGAATA
22392414 AAATGACCAAATTC
1 AAATGACCAAATTC
22392428 AAATGACCAAATT
1 AAATGACCAAATT
22392441 TCGTTCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATGACCAAATTC
Found at i:22393914 original size:26 final size:26
Alignment explanation
Indices: 22393871--22393940 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
22393861 TTTTACATCG
* * *
22393871 TTGCTCATAGGAGTTGTGAAATGGG-
1 TTGCTCACACGAGCTGTGAAATGGGC
22393896 TCTGCTCACACGAGCTGTGAAATGGGC
1 T-TGCTCACACGAGCTGTGAAATGGGC
*
22393923 TTGCTCACACGAGTTGTG
1 TTGCTCACACGAGCTGTG
22393941 GGTCGAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 1 0.03
26 37 0.95
27 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (26 bp):
TTGCTCACACGAGCTGTGAAATGGGC
Found at i:22394627 original size:12 final size:13
Alignment explanation
Indices: 22394600--22394628 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22394590 ATTGGTAAAT
22394600 TTATCAAAATTAC
1 TTATCAAAATTAC
22394613 TTATCAAAA-TAC
1 TTATCAAAATTAC
22394625 TTAT
1 TTAT
22394629 AAATAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (13 bp):
TTATCAAAATTAC
Found at i:22403715 original size:41 final size:40
Alignment explanation
Indices: 22403663--22403835 Score: 184
Period size: 41 Copynumber: 4.2 Consensus size: 40
22403653 ACCAAAGTGT
* * *
22403663 AAACAAGGGCACGTATATGTTATTTAGGGGTATCAAAGTAC
1 AAACAGGGGCACGTATGTGCTATTTAGGGGTA-CAAAGTAC
* * *
22403704 AAACAGTGGCACGTATGTGCAATTTAGAGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCTATTTAGGGGTA-CAAAGTAC
* *
22403745 AAATAGGGGCACGTATGTGCTATTTAAGGGTACTAAAGTAC
1 AAACAGGGGCACGTATGTGCTATTTAGGGGTAC-AAAGTAC
* * * * * *
22403786 AACCAGGGGCACATGTGTGCAATTAAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCTATTTAGGGGTA-CAAAGTAC
22403827 AAACAGGGG
1 AAACAGGGG
22403836 ATAATTCAAT
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 1 0.01
41 107 0.98
42 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCTATTTAGGGGTACAAAGTAC
Found at i:22403797 original size:82 final size:82
Alignment explanation
Indices: 22403652--22403835 Score: 226
Period size: 82 Copynumber: 2.2 Consensus size: 82
22403642 GATTTGAAGT
** * * * * *
22403652 TACCAAAGTGTAAACAAGGGCACGTATATGTTATTTAGGGGTATCAAAGTACAAACAGTGGCACG
1 TACCAAAGTACAAACAGGGGCACGTATATGCTATTTAAGGGTATCAAAGTACAAACAGGGGCACA
*
22403717 TATGTGCAATTTAGAGG
66 TATGTGCAATTAAGAGG
* * *
22403734 TACCAAAGTACAAATAGGGGCACGTATGTGCTATTTAAGGGTA-CTAAAGTACAACCAGGGGCAC
1 TACCAAAGTACAAACAGGGGCACGTATATGCTATTTAAGGGTATC-AAAGTACAAACAGGGGCAC
* *
22403798 ATGTGTGCAATTAAGGGG
65 ATATGTGCAATTAAGAGG
*
22403816 TACCGAAGTACAAACAGGGG
1 TACCAAAGTACAAACAGGGG
22403836 ATAATTCAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 1 0.01
82 85 0.99
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (82 bp):
TACCAAAGTACAAACAGGGGCACGTATATGCTATTTAAGGGTATCAAAGTACAAACAGGGGCACA
TATGTGCAATTAAGAGG
Found at i:22407676 original size:8 final size:8
Alignment explanation
Indices: 22407663--22407691 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
22407653 TTTTAAATGA
22407663 TATTTTAT
1 TATTTTAT
22407671 TATTTTAT
1 TATTTTAT
22407679 TATTTTAT
1 TATTTTAT
22407687 TATTT
1 TATTT
22407692 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:22412189 original size:114 final size:113
Alignment explanation
Indices: 22411866--22412634 Score: 566
Period size: 115 Copynumber: 6.8 Consensus size: 113
22411856 CGTTTACAAC
* * * * * *
22411866 AAAGCGTCGCAAAATCTCTTAACCAAAACGCAGCGTTTTCGTCTTGATGTATACAAGAATTAGTG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTG
* * *
22411931 GCGCTTA-GGAGAAAACGCCGCTAAA-GC---GTATTAGCGGCGTTTTACGA
66 GCGCTTATAG-GAAAACGCCGC-AAACGCATAGTATTAGCGGCG-CTTGC-A
* * * ** * * * *
22411978 GATGCACCGCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTAATGTATCCTAGAATTAGT
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTTGGTCTTGAGGTATACTAGAATTAGT
** * *
22412043 GGCGCTTACCGGAAAATGCCGCTAACGCATAGTATTAGCGGCGCTTGGCAA
65 GGCGCTTATAGGAAAACGCCGCAAACGCATAGTATTAGCGGCGCTT-GC-A
* * * * **
22412094 AAAGCGCCGCAAAAGATCTTAACCAAAACACAGAG-TTCGGTCTAGAGGTATGTTAGAATTAGTG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTG
*
22412158 GCGCTTATAGGAAAACGCCGCAAACGGATAGTATTAGCGGCGCTT---
66 GCGCTTATAGGAAAACGCCGCAAACGCATAGTATTAGCGGCGCTTGCA
* ** * *
22412203 -----GCCGCAAAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGT
1 AAAGCGCCGCAAAATATCTT-AACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGT
22412262 GGCG-TT-TACGGTAAAACGCCGCTAAA-GCATAGTATTAGCGGCGATTCTTTGC-
65 GGCGCTTATA-GG-AAAACGCCGC-AAACGCATAGTATTAGCGGCG---C-TTGCA
* * * * * * * *
22412314 -TAGCGCTGTAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTG
* * * *
22412378 GCGCTTATGGGAAACCGCCGCTAAA-GAATAGTATTAGCGGCGCTTACTGA
66 GCGCTTATAGGAAAACGCCGC-AAACGCATAGTATTAGCGGCGCTTGC--A
* ** * *
22412428 AAAGCG-CGACAAAATATCTTAACCAAAACGCATAGTTTTAATCTTGA-TTATACTATAATTAGT
1 AAAGCGCCG-CAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGT
* *
22412491 GGCGCTTACTA-GAAAACGCCGTTAAA-TCATAGTATTAGCGGCGCTTTTTCTTTGCAA
65 GGCGCTTA-TAGGAAAACGCCG-CAAACGCATAGTATTAGCGGCG------C-TTGC-A
* **
22412548 AAAGCGCCGCAACATATCTTAA-CAAAACGCAGAG-TTTGGTCTTGAGGTATGTTAGAATTAGTG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTG
* *
22412611 GCGCTTATAAGAAAATGCCGCAAA
66 GCGCTTATAGGAAAACGCCGCAAA
22412635 ATATCTGAAC
Statistics
Matches: 529, Mismatches: 86, Indels: 78
0.76 0.12 0.11
Matches are distributed among these distances:
103 4 0.01
104 26 0.05
105 52 0.10
106 3 0.01
108 1 0.00
109 2 0.00
111 3 0.01
112 32 0.06
113 44 0.08
114 113 0.21
115 122 0.23
116 47 0.09
117 1 0.00
118 14 0.03
119 40 0.08
120 20 0.04
121 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (113 bp):
AAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTG
GCGCTTATAGGAAAACGCCGCAAACGCATAGTATTAGCGGCGCTTGCA
Found at i:22412490 original size:334 final size:332
Alignment explanation
Indices: 22411873--22412536 Score: 765
Period size: 334 Copynumber: 2.0 Consensus size: 332
22411863 AACAAAGCGT
* *
22411873 CGCAAAATCTCTTAACCAAAACGCAGCGTTTTCGTCTTGATGTATACAAGAATTAGTGGCGCTTA
1 CGCAAAATATCTTAACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGCTTA
*
22411938 GGAGAAAACGCCGCTAAAGCGTATTAGCGGCGTTTTACGAGATGCACCGCAAAATATCTTAACCA
66 GGAGAAAACGCCGCTAAAGCGTATTAGCGGCGTTTTACGAGATGCACCGCAAAATATCCTAACCA
* * * * *
22412003 AAACGCATCGTTTTTGGTGTTAATGTATCCTAGAATTAGTGGCGCTTACCGGAAAATGCCGCTAA
131 AAACGCAGCGTTTTTGGTCTTAATGTATACTAAAATTAGTGGCGCTTACCGGAAAACGCCGCTAA
* * * *
22412068 CGCATAGTATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTTCG
196 AGAATAGTATTAGCGGCGCTTGACAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTTCA
* **
22412133 GTCTAGAGGTATGTTAGAATTAGTGGCGCTTA-TAGGAAAACGCCG-CAAA-CGGATAGTATTAG
261 ATCTAGAGGTATACTAGAATTAGTGGCGCTTACTA-GAAAACGCCGTCAAATC--ATAGTATTAG
22412195 CGGCGCTTGC
323 CGGCGCTTGC
* * * * *
22412205 CGCAAAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGCGTTT
1 CGCAAAATATCTT-AACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGCTT
* * ** * * *
22412269 ACGG-TAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTT-TGCTA-GCGCTGTAAAATATC
65 A-GGAGAAAACGCCGCTAAAGC---GTATTAGCGGCG-TT-TTACGAGATGCACCGCAAAATATC
* * ** *
22412331 CTAACTAAAACGCAGCG-TTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTTATGGGAAACCG
124 CTAACCAAAACGCAGCGTTTTTGGTCTTAATGTATACTAAAATTAGTGGCGCTTACCGGAAAACG
* * *
22412395 CCGCTAAAGAATAGTATTAGCGGCGCTT-ACTGAAAAGCG-CGACAAAATATCTTAACCAAAACG
189 CCGCTAAAGAATAGTATTAGCGGCGCTTGAC-AAAAAGCGCCG-CAAAAGATCTTAACCAAAACA
* * * * * *
22412458 CATAGTTTTAATCTTGA-TTATACTATAATTAGTGGCGCTTACTAGAAAACGCCGTTAAATCATA
252 CAGAG-TTCAATCTAGAGGTATACTAGAATTAGTGGCGCTTACTAGAAAACGCCGTCAAATCATA
22412522 GTATTAGCGGCGCTT
316 GTATTAGCGGCGCTT
22412537 TTTCTTTGCA
Statistics
Matches: 278, Mismatches: 41, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
331 2 0.01
332 71 0.26
333 5 0.02
334 143 0.51
335 50 0.18
336 5 0.02
337 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (332 bp):
CGCAAAATATCTTAACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGCTTA
GGAGAAAACGCCGCTAAAGCGTATTAGCGGCGTTTTACGAGATGCACCGCAAAATATCCTAACCA
AAACGCAGCGTTTTTGGTCTTAATGTATACTAAAATTAGTGGCGCTTACCGGAAAACGCCGCTAA
AGAATAGTATTAGCGGCGCTTGACAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTTCA
ATCTAGAGGTATACTAGAATTAGTGGCGCTTACTAGAAAACGCCGTCAAATCATAGTATTAGCGG
CGCTTGC
Found at i:22412683 original size:76 final size:80
Alignment explanation
Indices: 22412570--22412777 Score: 196
Period size: 84 Copynumber: 2.6 Consensus size: 80
22412560 CATATCTTAA
* * * ** *
22412570 CAAAACGCAGAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGCGCTTA-TAAGAAA-AT-G-C-
1 CAAAACGCAGCGTTTTGGTCGTGATGTATACTAAAATTAGTGGCGCTTACT-AGAAACATCGCCA
*
22412629 CGCAAAATATCTGAAC
65 CGCAAAATACCTGAAC
* ** * *
22412645 CAAAACGCATCGTTTTGGTC-TCGATGTATACTTCAATTAGTGGCGCTTACGTTGAAACGTCGCC
1 CAAAACGCAGCGTTTTGGTCGT-GATGTATACTAAAATTAGTGGCGCTTAC-TAGAAACATCGCC
*
22412709 AAAACGCAAAATACCTTAAC
64 ---ACGCAAAATACCTGAAC
22412729 CAAAACGCAGCGTTTTGGTCGTGATGTATACTAAAATTAGTGGCGCTTA
1 CAAAACGCAGCGTTTTGGTCGTGATGTATACTAAAATTAGTGGCGCTTA
22412778 GGGTAAACCG
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
75 11 0.10
76 29 0.27
77 4 0.04
78 2 0.02
79 1 0.01
80 1 0.01
84 58 0.54
85 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (80 bp):
CAAAACGCAGCGTTTTGGTCGTGATGTATACTAAAATTAGTGGCGCTTACTAGAAACATCGCCAC
GCAAAATACCTGAAC
Found at i:22413183 original size:7 final size:7
Alignment explanation
Indices: 22413171--22413222 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
22413161 TTGGTGTCTT
22413171 GGGTTTA
1 GGGTTTA
22413178 GGGTTTA
1 GGGTTTA
*
22413185 GTAGTTTA
1 G-GGTTTA
22413193 GGGTTTA
1 GGGTTTA
* *
22413200 AGGTTTG
1 GGGTTTA
*
22413207 GGGTCTA
1 GGGTTTA
*
22413214 AGGTTTA
1 GGGTTTA
22413221 GG
1 GG
22413223 CTGTTTTAGT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:22414189 original size:23 final size:22
Alignment explanation
Indices: 22414161--22414228 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
22414151 CTCCACTCTG
*
22414161 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCC-ATTTCATTTCCCCA
*
22414184 ATTT-CCCATTTCCTATTCCCCCA
1 ATTTCCCCATTT-C-ATTTCCCCA
*
22414207 ACTTCCCCGATTTCATTTCCCC
1 ATTTCCCC-ATTTCATTTCCCC
22414229 TCAATTCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 21 0.57
24 4 0.11
25 4 0.11
ACGTcount: A:0.18, C:0.41, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTTCCCCATTTCATTTCCCCA
Found at i:22415767 original size:15 final size:15
Alignment explanation
Indices: 22415747--22415779 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
22415737 AAGTTTTCTA
22415747 TATTAGTATTAAATT
1 TATTAGTATTAAATT
22415762 TATTAGTATTAAATT
1 TATTAGTATTAAATT
22415777 TAT
1 TAT
22415780 AAGTTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
TATTAGTATTAAATT
Found at i:22415776 original size:43 final size:45
Alignment explanation
Indices: 22415728--22415819 Score: 134
Period size: 43 Copynumber: 2.1 Consensus size: 45
22415718 ATAAGTTTTC
* * *
22415728 TAAATTTATAAGTTTTCTATATTAGT-AT-TAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAA
*
22415771 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTATTAGTAA
1 TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAA
22415816 TAAA
1 TAAA
22415820 ATTTTTAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 24 0.56
44 1 0.02
45 18 0.42
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (45 bp):
TAAATTTATAAGTTTTCTAAATAAGTGATCTAAATTTATTAGTAA
Found at i:22415785 original size:60 final size:60
Alignment explanation
Indices: 22415717--22415853 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 60
22415707 TTAATATCTA
* *
22415717 TATAAGTTTTCTAAATTTATAAGTTTTCT-A-TATTAGT-ATTAAATTTATTAGTATTAAATT
1 TATAAGTTTTCTAAA--TATAAGTGTTCTAATTATTAGTAATAAAATTT-TTAGTATTAAATT
*
22415777 TATAAGTTTTCT-AA-ATAAGTGTTCTAAATTTATTAGTAATAAAATTTTTAGTATTAATTT
1 TATAAGTTTTCTAAATATAAGTGTTCT-AA-TTATTAGTAATAAAATTTTTAGTATTAAATT
*
22415837 TTTAAGTTTTCTAAATA
1 TATAAGTTTTCTAAATA
22415854 ATTATATCAC
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
56 10 0.15
58 1 0.02
59 2 0.03
60 42 0.64
61 10 0.15
62 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (60 bp):
TATAAGTTTTCTAAATATAAGTGTTCTAATTATTAGTAATAAAATTTTTAGTATTAAATT
Found at i:22415982 original size:17 final size:17
Alignment explanation
Indices: 22415962--22416045 Score: 122
Period size: 17 Copynumber: 5.2 Consensus size: 17
22415952 TTAATATCTA
22415962 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
22415979 TATAAGTGTTCTAAATT
1 TATAAGTTTTCTAAATT
22415996 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
22416013 TATAAGTTTTCT--A--
1 TATAAGTTTTCTAAATT
*
22416026 TATAAGTGTTCTAAATT
1 TATAAGTTTTCTAAATT
22416043 TAT
1 TAT
22416046 TAGTAATAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
13 11 0.18
15 2 0.03
17 47 0.78
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:22416141 original size:24 final size:26
Alignment explanation
Indices: 22416114--22416169 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
22416104 TTATATATCT
* *
22416114 TACATAATACATAAC-TACATAA-CA
1 TACATAATACAGAACTTACATAATAA
22416138 TACATAATACAGAACTTACATAATAA
1 TACATAATACAGAACTTACATAATAA
22416164 TACATA
1 TACATA
22416170 CCGTACATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.50
25 7 0.25
26 7 0.25
ACGTcount: A:0.54, C:0.18, G:0.02, T:0.27
Consensus pattern (26 bp):
TACATAATACAGAACTTACATAATAA
Found at i:22416143 original size:9 final size:9
Alignment explanation
Indices: 22416098--22416383 Score: 196
Period size: 9 Copynumber: 33.4 Consensus size: 9
22416088 ATAATTATAT
*
22416098 ATAAGCTTAT
1 ATAA-CTTAC
*
22416108 ATATCTTAC
1 ATAACTTAC
22416117 ATAA--TAC
1 ATAACTTAC
22416124 ATAAC-TAC
1 ATAACTTAC
*
22416132 ATAACATAC
1 ATAACTTAC
22416141 ATAA--TAC
1 ATAACTTAC
*
22416148 AGAACTTAC
1 ATAACTTAC
22416157 ATAA-TAATAC
1 ATAACT--TAC
* *
22416167 ATACCGTAC
1 ATAACTTAC
* *
22416176 ATAAATTAA
1 ATAACTTAC
*
22416185 ATAAGTTAC
1 ATAACTTAC
22416194 ATAA--TAC
1 ATAACTTAC
***
22416201 A-AAAAAAC
1 ATAACTTAC
*
22416209 AAAAACTTAC
1 -ATAACTTAC
22416219 ATAACTTAC
1 ATAACTTAC
22416228 ATAA--TAC
1 ATAACTTAC
* *
22416235 ACAACTGAC
1 ATAACTTAC
22416244 ATAACTTAC
1 ATAACTTAC
22416253 ATAA--TAC
1 ATAACTTAC
*
22416260 ACAACTTAC
1 ATAACTTAC
22416269 ATAACTTAC
1 ATAACTTAC
22416278 ATAA--TAC
1 ATAACTTAC
*
22416285 ATAATTTAC
1 ATAACTTAC
22416294 ATAACTTAC
1 ATAACTTAC
*
22416303 ATAA--GAC
1 ATAACTTAC
22416310 ATAACTTAC
1 ATAACTTAC
* *
22416319 ATAAGTTTC
1 ATAACTTAC
22416328 ATAA--TAC
1 ATAACTTAC
*
22416335 ACAACTTAC
1 ATAACTTAC
*
22416344 ACAACTTAC
1 ATAACTTAC
22416353 ATAACTTAC
1 ATAACTTAC
*
22416362 ACAACTTAC
1 ATAACTTAC
22416371 ATAACTTAC
1 ATAACTTAC
22416380 ATAA
1 ATAA
22416384 TAAATAACTT
Statistics
Matches: 221, Mismatches: 34, Indels: 43
0.74 0.11 0.14
Matches are distributed among these distances:
6 2 0.01
7 47 0.21
8 11 0.05
9 148 0.67
10 13 0.06
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (9 bp):
ATAACTTAC
Found at i:22416176 original size:19 final size:19
Alignment explanation
Indices: 22416135--22416179 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22416125 TAACTACATA
*
22416135 ACATACATAATACAGAACTT
1 ACATA-ATAATACAGAACGT
* *
22416155 ACATAATAATACATACCGT
1 ACATAATAATACAGAACGT
22416174 ACATAA
1 ACATAA
22416180 ATTAAATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.24
Consensus pattern (19 bp):
ACATAATAATACAGAACGT
Found at i:22416240 original size:25 final size:25
Alignment explanation
Indices: 22416212--22416394 Score: 258
Period size: 25 Copynumber: 7.2 Consensus size: 25
22416202 AAAAAACAAA
22416212 AACTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
22416237 AACTGACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
22416262 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAC
* * *
22416287 AATTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAC
* *
22416312 AACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACAC
*
22416337 AACTTACACAACTTACATAACTTACAC
1 AACTTACATAACTTACATAA--TACAC
* *
22416364 AACTTACATAACTTACATAATAAAT
1 AACTTACATAACTTACATAATACAC
22416389 AACTTA
1 AACTTA
22416395 TTCCTAAATC
Statistics
Matches: 140, Mismatches: 16, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
25 116 0.83
27 24 0.17
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:22416392 original size:16 final size:17
Alignment explanation
Indices: 22416121--22416394 Score: 165
Period size: 16 Copynumber: 16.1 Consensus size: 17
22416111 TCTTACATAA
*
22416121 TACATAACTACATAACA
1 TACATAACTACATAACT
*
22416138 TACATAA-TACAGAACT
1 TACATAACTACATAACT
* * *
22416154 TACATAATAATACATACCG
1 TACAT-A-ACTACATAACT
* * *
22416173 TACATAAATTAAATAAGT
1 TACAT-AACTACATAACT
**
22416191 TACATAA-TACA-AAAA
1 TACATAACTACATAACT
* *
22416206 AACAAAAACTTACATAACT
1 TAC-ATAAC-TACATAACT
*
22416225 TACATAA-TACACAACT
1 TACATAACTACATAACT
*
22416241 GACATAACTTACATAA--
1 TACATAAC-TACATAACT
*
22416257 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
22416275 TACATAA-TACATAATT
1 TACATAACTACATAACT
22416291 TACATAACTTACATAA--
1 TACATAAC-TACATAACT
* *
22416307 GACATAACTTACATAAGT
1 TACATAAC-TACATAACT
* *
22416325 TTCATAA-TACACAACT
1 TACATAACTACATAACT
*
22416341 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
22416359 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
22416377 TACATAA-TAAATAACT
1 TACATAACTACATAACT
22416393 TA
1 TA
22416395 TTCCTAAATC
Statistics
Matches: 204, Mismatches: 36, Indels: 35
0.74 0.13 0.13
Matches are distributed among these distances:
15 4 0.02
16 98 0.48
17 10 0.05
18 75 0.37
19 17 0.08
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (17 bp):
TACATAACTACATAACT
Found at i:22416394 original size:34 final size:35
Alignment explanation
Indices: 22416216--22416394 Score: 153
Period size: 34 Copynumber: 5.3 Consensus size: 35
22416206 AACAAAAACT
* * *
22416216 TACATAACTTACATAA--TACACAACTGACATAAC
1 TACATAACTTACACAACTTACATAACTTACATAAC
22416249 TTACATAA--TACACAACTTACATAACTTACATAA-
1 -TACATAACTTACACAACTTACATAACTTACATAAC
* * *
22416282 TACATAATTTACATAACTTACATAA--GACATAAC
1 TACATAACTTACACAACTTACATAACTTACATAAC
* * * * *
22416315 TTACATAAGTTTCATAA--TACACAACTTACACAAC
1 -TACATAACTTACACAACTTACATAACTTACATAAC
22416349 TTACATAACTTACACAACTTACATAACTTACATAA-
1 -TACATAACTTACACAACTTACATAACTTACATAAC
*
22416384 TAAATAACTTA
1 TACATAACTTA
22416395 TTCCTAAATC
Statistics
Matches: 119, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
32 25 0.21
34 80 0.67
36 14 0.12
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (35 bp):
TACATAACTTACACAACTTACATAACTTACATAAC
Found at i:22418966 original size:21 final size:21
Alignment explanation
Indices: 22418941--22419009 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
22418931 CAACTTAAAA
*
22418941 CAGAGGCAGCAGCGAGGGAAG
1 CAGAGGCAGCAGCGAGAGAAG
* *
22418962 CAGAGGCTGCAGTGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
*
22418983 CAGAGGCCGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
22419004 CAGAGG
1 CAGAGG
22419010 TTCAAAAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.45, T:0.03
Consensus pattern (21 bp):
CAGAGGCAGCAGCGAGAGAAG
Found at i:22419557 original size:43 final size:42
Alignment explanation
Indices: 22419468--22419714 Score: 289
Period size: 42 Copynumber: 5.8 Consensus size: 42
22419458 GAGCACTACT
* * * *
22419468 TTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATTA-C
1 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
* * *
22419509 TTTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGATCATGTTTC
1 -TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG-ATC
* * * *
22419553 TTTAGCGGTGTTTTCTCCCAAGCGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
* *
22419595 ATTAGCGGCGTTTTTTTCCTGAGCGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTTTTT-CTAAGCGCCGCTAAAGAACATGATC
* * *
22419638 ATTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGACC
1 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
*
22419680 TTTAGCGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 TTTAGCGGCGTTTTTTTC--TAAGCGCCGCTAAAG
22419715 TTAGCGACGT
Statistics
Matches: 174, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
42 87 0.50
43 72 0.41
44 15 0.09
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
Found at i:22419557 original size:85 final size:83
Alignment explanation
Indices: 22419468--22419698 Score: 302
Period size: 85 Copynumber: 2.7 Consensus size: 83
22419458 GAGCACTACT
* *
22419468 TTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCTAAAC
1 TTTAGCGGCGTTTTTT-CCAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCTAAAC
* *
22419533 GCCGCTAAAGATCATGTTTC
65 GCCGCTAAAGAACATG-ATC
* * * *
22419553 TTTAGCGGTGTTTTCTCCCAAGCGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCCTGA
1 TTTAGCGGCGTTTT-TTCCAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTT-CTAA
*
22419617 GCGCCGCTAAAGAACATGATC
63 ACGCCGCTAAAGAACATGATC
* *
22419638 ATTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCT
1 TTTAGCGGCGTTTTTTCC-AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCT
22419699 GTAAGCGCCG
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
84 6 0.05
85 101 0.80
86 20 0.16
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (83 bp):
TTTAGCGGCGTTTTTTCCAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCTAAACG
CCGCTAAAGAACATGATC
Found at i:22420266 original size:11 final size:10
Alignment explanation
Indices: 22420241--22420331 Score: 71
Period size: 10 Copynumber: 8.9 Consensus size: 10
22420231 AAAAATTTAT
22420241 TTTAAAAAT-
1 TTTAAAAATA
22420250 TTTAAAAAGTA
1 TTTAAAAA-TA
22420261 TTTAAAAAATA
1 TTT-AAAAATA
*
22420272 TTTTAAAAATG
1 -TTTAAAAATA
*
22420283 TTT-TAAA-A
1 TTTAAAAATA
* *
22420291 TTAAAAAAAA
1 TTTAAAAATA
22420301 TTTAAAAAGTA
1 TTTAAAAA-TA
22420312 TTTTAAAAATA
1 -TTTAAAAATA
*
22420323 TTTTAAAAT
1 TTTAAAAAT
22420332 TAAAAAATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
8 2 0.03
9 14 0.21
10 20 0.30
11 14 0.21
12 16 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:22420274 original size:23 final size:22
Alignment explanation
Indices: 22420244--22420290 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
22420234 AATTTATTTT
22420244 AAAAATTTTAAAAA-GTATTTAA
1 AAAAATTTTAAAAATGT-TTTAA
22420266 AAAATATTTTAAAAATGTTTTAA
1 AAAA-ATTTTAAAAATGTTTTAA
22420289 AA
1 AA
22420291 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAAATTTTAAAAATGTTTTAA
Found at i:22420306 original size:40 final size:40
Alignment explanation
Indices: 22420251--22420392 Score: 187
Period size: 40 Copynumber: 3.5 Consensus size: 40
22420241 TTTAAAAATT
** *
22420251 TTAAAAAGTATTTAAAAAATATTTTAAAAATGTTTTAAAA
1 TTAAAAAAAATTTAAAAAATATTTTAAAAATATTTTAAAA
*
22420291 TTAAAAAAAATTTAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAAAATATTTTAAAAATATTTTAAAA
** *
22420331 TTAAAAAATAATAAAAAAAAGTATTTTAAAAATATTTTATAA
1 TTAAAAAA-AATTTAAAAAA-TATTTTAAAAATATTTTAAAA
*
22420373 TT-TAAAAAATTTAAAAAATA
1 TTAAAAAAAATTTAAAAAATA
22420393 AATATATTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 53 0.60
41 12 0.13
42 22 0.25
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
TTAAAAAAAATTTAAAAAATATTTTAAAAATATTTTAAAA
Found at i:22420308 original size:29 final size:29
Alignment explanation
Indices: 22420262--22420319 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
22420252 TAAAAAGTAT
* * *
22420262 TTAAAAAATATTTTAAAAATGTTTTAAAA
1 TTAAAAAAAATTTAAAAAATATTTTAAAA
*
22420291 TTAAAAAAAATTTAAAAAGTATTTTAAAA
1 TTAAAAAAAATTTAAAAAATATTTTAAAA
22420320 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
TTAAAAAAAATTTAAAAAATATTTTAAAA
Found at i:22420363 original size:42 final size:42
Alignment explanation
Indices: 22420264--22420390 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
22420254 AAAAGTATTT
* *
22420264 AAAAAA-TATTTTAAAAATGTTTTAAAATTAAAAAA-AAT-T
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAA
*
22420303 TAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAA
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAA
* *
22420345 AAAAAAGTATTTTAAAAATATTTTATAATTTAAAAAAT-TTAA
1 AAAAAAGTATTTTAAAAATATTTTA-AAATTAAAAAATAATAA
22420387 AAAA
1 AAAA
22420391 TAAATATATT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
39 5 0.06
40 28 0.36
41 3 0.04
42 31 0.40
43 11 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (42 bp):
AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAA
Found at i:22427217 original size:2 final size:2
Alignment explanation
Indices: 22427204--22427363 Score: 250
Period size: 2 Copynumber: 80.5 Consensus size: 2
22427194 TGCATCAACT
*
22427204 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
22427246 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
22427288 AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * * *
22427330 AT AC AT AC AC AC AC AT AC -C AT AC AT AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
22427364 TACCATACAT
Statistics
Matches: 143, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
1 1 0.01
2 142 0.99
ACGTcount: A:0.50, C:0.46, G:0.00, T:0.04
Consensus pattern (2 bp):
AC
Found at i:22428872 original size:15 final size:15
Alignment explanation
Indices: 22428852--22428882 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22428842 ATGTGTTTAA
22428852 TGTTATTTAACTTAT
1 TGTTATTTAACTTAT
22428867 TGTTATTTAACTTAT
1 TGTTATTTAACTTAT
22428882 T
1 T
22428883 ATAAGACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
TGTTATTTAACTTAT
Found at i:22430053 original size:29 final size:29
Alignment explanation
Indices: 22430021--22430123 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 29
22430011 ACAGAATCAG
*
22430021 CCACAATGGCTCACATATAACATACTTCA
1 CCACAAAGGCTCACATATAACATACTTCA
* * * **
22430050 CCACAAAGG--CGCATTTGACA-AAATCA
1 CCACAAAGGCTCACATATAACATACTTCA
* * *
22430076 GCCACAAGGGCTCACATATATCATACTTCC
1 -CCACAAAGGCTCACATATAACATACTTCA
* *
22430106 CCACAAAGACTCTCATAT
1 CCACAAAGGCTCACATAT
22430124 CACGGATATC
Statistics
Matches: 53, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
26 4 0.08
27 16 0.30
29 30 0.57
30 3 0.06
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.21
Consensus pattern (29 bp):
CCACAAAGGCTCACATATAACATACTTCA
Found at i:22430075 original size:56 final size:56
Alignment explanation
Indices: 22429993--22430113 Score: 179
Period size: 56 Copynumber: 2.2 Consensus size: 56
22429983 TAGATAGATA
* * * *
22429993 ACCATAAAGGTGCATTTAACAGAATCAGCCACAATGGCTCACATATAACATACTTC
1 ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
* *
22430049 ACCACAAAGGCGCATTTGACAAAATCAGCCACAAGGGCTCACATATATCATACTTC
1 ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
*
22430105 CCCACAAAG
1 ACCACAAAG
22430114 ACTCTCATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.20
Consensus pattern (56 bp):
ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
Found at i:22438768 original size:16 final size:16
Alignment explanation
Indices: 22438747--22438778 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22438737 GTTTTGTTGC
*
22438747 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
22438763 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
22438779 CTTTCAATTA
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:22439064 original size:51 final size:51
Alignment explanation
Indices: 22438996--22439348 Score: 414
Period size: 51 Copynumber: 7.0 Consensus size: 51
22438986 ATTAATGATA
*
22438996 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
* * * * **
22439047 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-TAGAAGCTA-
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTAT
* *
22439097 CTCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 C-CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTAT
*
22439148 CTGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
* * * * **
22439199 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-TAGAAGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTAT
* * *
22439250 TCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTAT
* * *
22439300 CCGGTACACTTAGTAACCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
22439349 TCCACTTTCA
Statistics
Matches: 251, Mismatches: 40, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
49 8 0.03
50 84 0.33
51 155 0.62
53 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
Found at i:22439242 original size:152 final size:152
Alignment explanation
Indices: 22438996--22439348 Score: 652
Period size: 152 Copynumber: 2.3 Consensus size: 152
22438986 ATTAATGATA
*
22438996 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
22439061 AGCCTGCACATAGTACTACACACGTGATAGAAGCTACTCGGTACGCATAGTAGCCTGCACATAGT
66 AGCCTGCACATAGTACTACACACGTGATAGAAGCTACTCGGTACGCATAGTAGCCTGCACATAGT
22439126 ACTACACATGCGACCTATCATT
131 ACTACACATGCGACCTATCATT
*
22439148 CTGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
*
22439213 AGCCTGCACATAGTACTACACACGTGATAGAAGCTATTCGGTACGCATAGTAGCCTGCACATAGT
66 AGCCTGCACATAGTACTACACACGTGATAGAAGCTACTCGGTACGCATAGTAGCCTGCACATAGT
22439278 ACTACACATGCGACCTATCATT
131 ACTACACATGCGACCTATCATT
* * *
22439300 CCGGTACACTTAGTAACCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
22439349 TCCACTTTCA
Statistics
Matches: 194, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 194 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (152 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
AGCCTGCACATAGTACTACACACGTGATAGAAGCTACTCGGTACGCATAGTAGCCTGCACATAGT
ACTACACATGCGACCTATCATT
Done.