Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 422 of 770
Found at i:130187976 original size:23 final size:23
Alignment explanation
Indices: 130187945--130188028 Score: 64
Period size: 26 Copynumber: 3.6 Consensus size: 23
130187935 TTATAAATCG
130187945 AAATA-TATTAATATAATAATAT
1 AAATATTATTAATATAATAATAT
* *
130187967 AAATATTATTAATTACTTAATATTCT
1 AAATATTATTAA-TA--TAATAATAT
* * *
130187993 TAATATTAATAACA-AATAATAT
1 AAATATTATTAATATAATAATAT
*
130188015 AAATTAATATTAAT
1 AAA-TATTATTAAT
130188029 TGCTAATAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 13 0.28
23 13 0.28
24 2 0.04
25 1 0.02
26 17 0.37
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTATTAATATAATAATAT
Found at i:130188036 original size:26 final size:26
Alignment explanation
Indices: 130187949--130188037 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
130187939 AAATCGAAAT
130187949 ATATTAA-TA-TAATAATATAAA-TA
1 ATATTAATTACTAATAATATAAATTA
* **
130187972 TTATTAATTACT--TAATAT-TCTTA
1 ATATTAATTACTAATAATATAAATTA
* *
130187995 ATATTAATAACAAATAATATAAATTA
1 ATATTAATTACTAATAATATAAATTA
*
130188021 ATATTAATTGCTAATAA
1 ATATTAATTACTAATAA
130188038 CTTGTAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 23 0.47
24 2 0.04
25 7 0.14
26 17 0.35
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATTAATTACTAATAATATAAATTA
Found at i:130193693 original size:15 final size:15
Alignment explanation
Indices: 130193675--130193705 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
130193665 ATCTCTCATC
130193675 TATCTATCTATTTTT
1 TATCTATCTATTTTT
130193690 TATCTATCTATTTTT
1 TATCTATCTATTTTT
130193705 T
1 T
130193706 CTTTAGTTAT
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:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATCTATTTTT
Found at i:130194407 original size:16 final size:17
Alignment explanation
Indices: 130194380--130194413 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
130194370 AAATGGATTT
130194380 AATAGAAATTAAATAGA
1 AATAGAAATTAAATAGA
130194397 AATAG-AATTAAATAGA
1 AATAGAAATTAAATAGA
130194413 A
1 A
130194414 TTCTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AATAGAAATTAAATAGA
Found at i:130195343 original size:15 final size:15
Alignment explanation
Indices: 130195314--130195375 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
130195304 GTAGAAAGCC
* *
130195314 TATTTTTTTTTCTAG
1 TATTTTATTTACTAG
130195329 TATTTTATTTACTAG
1 TATTTTATTTACTAG
**
130195344 CGTGTTTATTTACTAGCG
1 TAT-TTTATTTACTA--G
130195362 TA-TTTATTTACTAG
1 TATTTTATTTACTAG
130195376 CGTATTTGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
14 1 0.03
15 14 0.37
16 22 0.58
18 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (15 bp):
TATTTTATTTACTAG
Found at i:130195353 original size:16 final size:16
Alignment explanation
Indices: 130195332--130195382 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
130195322 TTTCTAGTAT
*
130195332 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
130195348 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
130195364 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
130195380 TTT
1 TTT
130195383 GCTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:130196732 original size:13 final size:14
Alignment explanation
Indices: 130196699--130196732 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
130196689 GCCCGGAGGC
*
130196699 TAAAGAAAAAGTGA
1 TAAAAAAAAAGTGA
130196713 TAAAAAAAAAGTGA
1 TAAAAAAAAAGTGA
130196727 TGAAAA
1 T-AAAA
130196733 GTTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
TAAAAAAAAAGTGA
Found at i:130206265 original size:41 final size:40
Alignment explanation
Indices: 130206138--130206282 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
130206128 CTCGGACAAG
* * * * *
130206138 GCCTTCGAGTCTTAGCCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
130206178 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
130206218 GCCTTC-GGATCTTAGTCCGGATGTAGTCCCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
130206259 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
130206283 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:130206998 original size:2 final size:2
Alignment explanation
Indices: 130206991--130207018 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
130206981 ATGTGCAAAC
130206991 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130207019 GTGCAAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130210286 original size:28 final size:28
Alignment explanation
Indices: 130210249--130210355 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
130210239 GCAATCAAAT
*
130210249 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
130210277 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
130210305 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
130210333 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
130210356 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:130212676 original size:36 final size:36
Alignment explanation
Indices: 130212629--130212701 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
130212619 AGATGTGATA
*
130212629 CACAACATACAAAAATAAATACTTAAAATTTTGGGG
1 CACAAAATACAAAAATAAATACTTAAAATTTTGGGG
130212665 CACAAAATACAAAAATAAATACTTAAAATTTTGGGG
1 CACAAAATACAAAAATAAATACTTAAAATTTTGGGG
130212701 C
1 C
130212702 GTTACATACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (36 bp):
CACAAAATACAAAAATAAATACTTAAAATTTTGGGG
Found at i:130217788 original size:26 final size:26
Alignment explanation
Indices: 130217759--130217813 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
130217749 TGAAAAATAA
*
130217759 AATGGTTATATGCAATAGA-TATATGG
1 AATGGTTATATG-AATAAATTATATGG
*
130217785 AATGGTTATGTGAATAAATTATATGG
1 AATGGTTATATGAATAAATTATATGG
130217811 AAT
1 AAT
130217814 CGAATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (26 bp):
AATGGTTATATGAATAAATTATATGG
Found at i:130217853 original size:27 final size:27
Alignment explanation
Indices: 130217802--130217854 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
130217792 ATGTGAATAA
130217802 ATTATATGGAATCGAATATATAAAATG
1 ATTATATGGAATCGAATATATAAAATG
130217829 ATTATAT-GAATC-AATTATATGAAAAT
1 ATTATATGGAATCGAA-TATAT-AAAAT
130217855 AGTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 2 0.08
26 10 0.42
27 12 0.50
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (27 bp):
ATTATATGGAATCGAATATATAAAATG
Found at i:130217864 original size:27 final size:26
Alignment explanation
Indices: 130217810--130217865 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
130217800 AAATTATATG
*
130217810 GAATCGAATATATAAAATGATTATAT
1 GAATCGAATATATAAAATGATTAAAT
130217836 GAATC-AATTATATGAAAAT-AGTTAAAT
1 GAATCGAA-TATAT-AAAATGA-TTAAAT
130217863 GAA
1 GAA
130217866 GTATTTATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.08
26 11 0.42
27 13 0.50
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (26 bp):
GAATCGAATATATAAAATGATTAAAT
Found at i:130220809 original size:28 final size:28
Alignment explanation
Indices: 130220769--130220838 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
130220759 ATAGTAAGTC
*
130220769 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
130220797 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
130220825 CGCACACTTAGTGC
1 CGCACACTTAGTGC
130220839 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:130222803 original size:25 final size:25
Alignment explanation
Indices: 130222769--130222819 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
130222759 AGAAACACTT
130222769 TATCTCCCACCTGATACTCAATGTC
1 TATCTCCCACCTGATACTCAATGTC
130222794 TATCTCCCACCTGATACTCAATGTC
1 TATCTCCCACCTGATACTCAATGTC
130222819 T
1 T
130222820 TTTGTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.35, G:0.08, T:0.33
Consensus pattern (25 bp):
TATCTCCCACCTGATACTCAATGTC
Found at i:130228723 original size:28 final size:28
Alignment explanation
Indices: 130228683--130228752 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
130228673 ATAGTAAGTC
*
130228683 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
130228711 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
130228739 CGCACACTTAGTGC
1 CGCACACTTAGTGC
130228753 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:130239384 original size:40 final size:40
Alignment explanation
Indices: 130239192--130239377 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
130239182 TCGAATGATG
* * * *
130239192 TCCGGGCTATGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
130239232 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
130239272 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
130239312 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
130239353 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
130239378 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:130239384 original size:80 final size:80
Alignment explanation
Indices: 130239192--130239410 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
130239182 TCGAATGATG
* * * **
130239192 TCCGGGCTATGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTATGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
130239256 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* * *
130239272 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTATG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
130239335 TTGTGCGAGTTACTATAA
64 TTGTGCGAGTTACTA-AA
**
130239353 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
130239411 TACGTGATTC
Statistics
Matches: 118, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
79 17 0.14
80 91 0.77
81 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:130247430 original size:41 final size:41
Alignment explanation
Indices: 130247295--130247441 Score: 169
Period size: 40 Copynumber: 3.6 Consensus size: 41
130247285 TCGAATGATG
* * * *
130247295 TCCGGGCTATGTCTCGAAGGC-TTTGTGCTAAGTGACTAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
130247335 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
130247375 TCCGGGTTAAGTCCCGAAGGCATTTGTTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA
*
130247417 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
130247442 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.01
40 46 0.50
41 42 0.46
42 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:130251198 original size:21 final size:21
Alignment explanation
Indices: 130251165--130251211 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
130251155 CCAAAATTTT
130251165 CATT-ATTTCACACATTTCAC
1 CATTAATTTCACACATTTCAC
*
130251185 CATTAATTTTACACATTTCAC
1 CATTAATTTCACACATTTCAC
*
130251206 AATTAA
1 CATTAA
130251212 ATCCCTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.40
Consensus pattern (21 bp):
CATTAATTTCACACATTTCAC
Found at i:130253578 original size:27 final size:26
Alignment explanation
Indices: 130253549--130253711 Score: 132
Period size: 27 Copynumber: 6.1 Consensus size: 26
130253539 ATTTTAGCTT
*
130253549 ACAGAGGTATTTTAGTAATTTTACACT
1 ACAGAGGTATTTTAGTAATTTTACA-A
*
130253576 ACA-AGGGTATTTTGGTAATTTTACAA
1 ACAGA-GGTATTTTAGTAATTTTACAA
** * * **
130253602 ATTGGGGGCATTTCGGTAATTTTACAA
1 A-CAGAGGTATTTTAGTAATTTTACAA
* * *
130253629 GCCAAAGGTATTTCAGTAATTTTACAA
1 -ACAGAGGTATTTTAGTAATTTTACAA
130253656 ACCAGAGGTATTTTAGTAATTTTACAA
1 A-CAGAGGTATTTTAGTAATTTTACAA
* *
130253683 ACTGGGGGTATTTT-GATAATTTTACAA
1 AC-AGAGGTATTTTAG-TAATTTTACAA
130253710 AC
1 AC
130253712 TGGGGTCTTA
Statistics
Matches: 110, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
26 4 0.04
27 106 0.96
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.37
Consensus pattern (26 bp):
ACAGAGGTATTTTAGTAATTTTACAA
Found at i:130253666 original size:81 final size:81
Alignment explanation
Indices: 130253553--130253709 Score: 226
Period size: 81 Copynumber: 1.9 Consensus size: 81
130253543 TAGCTTACAG
* * * * *
130253553 AGGTATTTTAGTAATTTTACACTACAAGGGTATTTTGGTAATTTTACAAATTGGGGGCATTTCGG
1 AGGTATTTCAGTAATTTTACACAACAAGGGTATTTTAGTAATTTTACAAACTGGGGGCATTTCGA
130253618 TAATTTTACAAGCCAA
66 TAATTTTACAAGCCAA
* * *
130253634 AGGTATTTCAGTAATTTTACA-AACCAGAGGTATTTTAGTAATTTTACAAACTGGGGGTATTTTG
1 AGGTATTTCAGTAATTTTACACAACAAG-GGTATTTTAGTAATTTTACAAACTGGGGGCATTTCG
130253698 ATAATTTTACAA
65 ATAATTTTACAA
130253710 ACTGGGGTCT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 4 0.06
81 63 0.94
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (81 bp):
AGGTATTTCAGTAATTTTACACAACAAGGGTATTTTAGTAATTTTACAAACTGGGGGCATTTCGA
TAATTTTACAAGCCAA
Found at i:130253675 original size:54 final size:54
Alignment explanation
Indices: 130253550--130253682 Score: 149
Period size: 54 Copynumber: 2.5 Consensus size: 54
130253540 TTTTAGCTTA
** * ** *
130253550 CAGAGGTATTTTAGTAATTTTACACTACAAGGGTATTTTGGTAATTTTACAAAT
1 CAGAGGTATTTTAGTAATTTTACAAGACAAAGGTATTTCAGTAATTTTACAAAC
** * * ** *
130253604 TGGGGGCATTTCGGTAATTTTACAAGCCAAAGGTATTTCAGTAATTTTACAAAC
1 CAGAGGTATTTTAGTAATTTTACAAGACAAAGGTATTTCAGTAATTTTACAAAC
130253658 CAGAGGTATTTTAGTAATTTTACAA
1 CAGAGGTATTTTAGTAATTTTACAA
130253683 ACTGGGGGTA
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (54 bp):
CAGAGGTATTTTAGTAATTTTACAAGACAAAGGTATTTCAGTAATTTTACAAAC
Found at i:130256422 original size:47 final size:47
Alignment explanation
Indices: 130256359--130256651 Score: 482
Period size: 47 Copynumber: 6.3 Consensus size: 47
130256349 CCCTTCGGGA
* *
130256359 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
**
130256406 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
130256453 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
130256500 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
130256547 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
130256594 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTC--C
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
130256639 CTTATCACATATA
1 CTTATCACATATA
130256652 CATATCTTGT
Statistics
Matches: 228, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 14 0.06
47 214 0.94
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:130261126 original size:40 final size:40
Alignment explanation
Indices: 130261081--130261246 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
130261071 CGGAATATAA
130261081 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
130261121 CCGGATAGAATAACTCGCACGAATGCCTTC-GGTCTTAG-
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
130261159 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
130261199 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
130261239 CCGGATAT
1 CCGGATAT
130261247 CATTCAATTT
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
38 23 0.22
39 16 0.16
40 64 0.62
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:130261229 original size:78 final size:80
Alignment explanation
Indices: 130261097--130261246 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 80
130261087 ATAATCACGT
* *
130261097 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTC-GGTCTTAG-C
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
130261160 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
130261175 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
130261238 CCCGGATAT
64 CCCGGATAT
130261247 CATTCAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
77 3 0.05
78 42 0.70
79 7 0.12
80 8 0.13
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:130270407 original size:40 final size:39
Alignment explanation
Indices: 130270351--130270513 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 39
130270341 TGAATGATAC
*
130270351 CCGGGCTAAGTA-CCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAG-ACCCGAAGGCAATTATGCTAGTG-TTATAT
*
130270391 CCGGGCTAAGACCCGAAGGC-ATTCATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-ATGCTAG-TGTTATAT
* * * *
130270431 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGTGT--TATAT
* * *
130270471 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGTGTTATAT
130270510 CCGG
1 CCGG
130270514 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
38 1 0.01
39 11 0.10
40 87 0.83
41 6 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCTAGTGTTATAT
Found at i:130279164 original size:31 final size:32
Alignment explanation
Indices: 130279088--130279168 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 32
130279078 ATCATTTTAG
* * *
130279088 ATTTAATGTTTTTGGTTGTATTTTTTATGCTAC
1 ATTTATTGTTTTTGGTTGGA-TTTTCATGCTAC
* *
130279121 ATTT-TCTATTTTTGGTTGGA-TTTCATGCTAT
1 ATTTAT-TGTTTTTGGTTGGATTTTCATGCTAC
130279152 ATTTATTGTTTTTGGTT
1 ATTTATTGTTTTTGGTT
130279169 AGATATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
31 23 0.57
32 1 0.03
33 16 0.40
ACGTcount: A:0.16, C:0.06, G:0.16, T:0.62
Consensus pattern (32 bp):
ATTTATTGTTTTTGGTTGGATTTTCATGCTAC
Found at i:130279306 original size:43 final size:43
Alignment explanation
Indices: 130279254--130279451 Score: 181
Period size: 43 Copynumber: 4.6 Consensus size: 43
130279244 CAAAAGCGTT
** *
130279254 GCTAAAAGCCATGACTTTTAGCGGTGCTTCTCCTACAAACACA
1 GCTAAAAGCCATGACTTTTAGCGGTGCTTCTCCCGCAAACGCA
** * *
130279297 GCTAAAAGCCATGACTTTTAGCAGCAGC-TC-CACCGCAAATGCC
1 GCTAAAAGCCATGACTTTTAGC-GGTGCTTCTC-CCGCAAACGCA
* * * *
130279340 GCTAAAAGCCGTGACTTTTAGCGGTGCCTC-CACCGCAAATGCC
1 GCTAAAAGCCATGACTTTTAGCGGTGCTTCTC-CCGCAAACGCA
* * *
130279383 GCTAAAAGCTATCACTTTTAGCGGCGCTTCTCCCGCAAACGCCA
1 GCTAAAAGCCATGACTTTTAGCGGTGCTTCTCCCGCAAACG-CA
*
130279427 -CTAAAAGTCATGATCTTTT-GCGGTG
1 GCTAAAAGCCATGA-CTTTTAGCGGTG
130279452 TTTTTTTCAA
Statistics
Matches: 128, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
42 4 0.03
43 114 0.89
44 10 0.08
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
GCTAAAAGCCATGACTTTTAGCGGTGCTTCTCCCGCAAACGCA
Found at i:130279400 original size:86 final size:86
Alignment explanation
Indices: 130279254--130279451 Score: 215
Period size: 86 Copynumber: 2.3 Consensus size: 86
130279244 CAAAAGCGTT
* * *
130279254 GCTAAAAGCCATGACTTTTAGCGGTGCTTCTCCTACAAACACAGCTAAAAGCCATGACTTTTAGC
1 GCTAAAAGCCATGACTTTTAGCGGTGCCTCTCCCACAAACACAGCTAAAAGCCATCACTTTTAGC
*
130279319 AGCAGC-TC-CACCGCAAATGCC
66 AGC-GCTTCTC-CCGCAAACGCC
* * ** * *
130279340 GCTAAAAGCCGTGACTTTTAGCGGTGCCTC-CACCGCAAATGCCGCTAAAAGCTATCACTTTTAG
1 GCTAAAAGCCATGACTTTTAGCGGTGCCTCTC-CCACAAACACAGCTAAAAGCCATCACTTTTAG
*
130279404 CGGCGCTTCTCCCGCAAACGCC
65 CAGCGCTTCTCCCGCAAACGCC
* *
130279426 ACTAAAAGTCATGATCTTTT-GCGGTG
1 GCTAAAAGCCATGA-CTTTTAGCGGTG
130279452 TTTTTTTCAA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
85 3 0.03
86 85 0.90
87 6 0.06
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (86 bp):
GCTAAAAGCCATGACTTTTAGCGGTGCCTCTCCCACAAACACAGCTAAAAGCCATCACTTTTAGC
AGCGCTTCTCCCGCAAACGCC
Found at i:130282239 original size:21 final size:21
Alignment explanation
Indices: 130282168--130282246 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
130282158 GTAGGCTTGC
*
130282168 ATGTCTCAAGACATTGGCTTCT
1 ATGTCTCAAGACATTGCCTT-T
* *
130282190 ATGTCTTAAGAAATTGATCC-TT
1 ATGTCTCAAGACATTG--CCTTT
* *
130282212 ACGTCTCGAGACATTGCCTTT
1 ATGTCTCAAGACATTGCCTTT
*
130282233 ATGTCTCGAGACAT
1 ATGTCTCAAGACAT
130282247 AACTTTGGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
20 2 0.04
21 15 0.33
22 27 0.59
23 1 0.02
24 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (21 bp):
ATGTCTCAAGACATTGCCTTT
Found at i:130286055 original size:13 final size:13
Alignment explanation
Indices: 130286033--130286065 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
130286023 AAGGATTTGT
130286033 TTAT-TAAACTAA
1 TTATCTAAACTAA
130286045 TTATCTAAACTAA
1 TTATCTAAACTAA
*
130286058 TTAACTAA
1 TTATCTAA
130286066 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:130287370 original size:29 final size:29
Alignment explanation
Indices: 130287331--130287441 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
130287321 GACCGAATCT
* * *
130287331 CATTTATATGGCCCATCCGGTCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
*
130287360 CATTCATATGGCCCATCAGGCCCAATTTA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * *
130287389 CATTCATATGGCCCGTTAGGCCCAA-TCT
1 CATTCATATGGCCCATCAGGCCCAATTCA
*
130287417 CA-TCTATATGGCCCATCCGGCCCAA
1 CATTC-ATATGGCCCATCAGGCCCAA
130287442 ATCATATTAC
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.03
28 20 0.29
29 48 0.69
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:130287690 original size:16 final size:16
Alignment explanation
Indices: 130287669--130287706 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
130287659 CAAACTTTTG
130287669 GCTTTTC-GCTATTTCA
1 GCTTTTCAGC-ATTTCA
*
130287685 GCTTTTCAGCATTTCG
1 GCTTTTCAGCATTTCA
130287701 GCTTTT
1 GCTTTT
130287707 GCCGATCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.11, C:0.24, G:0.16, T:0.50
Consensus pattern (16 bp):
GCTTTTCAGCATTTCA
Found at i:130294055 original size:17 final size:18
Alignment explanation
Indices: 130294018--130294055 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
130294008 CATTGAAGTA
130294018 TTTTATTGAAAACCTTGT
1 TTTTATTGAAAACCTTGT
130294036 TTTTATTGAAAACCTT-T
1 TTTTATTGAAAACCTTGT
130294053 TTT
1 TTT
130294056 CAAGATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (18 bp):
TTTTATTGAAAACCTTGT
Found at i:130296342 original size:40 final size:41
Alignment explanation
Indices: 130296287--130296502 Score: 302
Period size: 40 Copynumber: 5.4 Consensus size: 41
130296277 GATGATAATG
* *
130296287 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
130296327 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
130296367 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
** *
130296407 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
*
130296447 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATATCC
* *
130296487 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
130296503 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
39 18 0.11
40 146 0.89
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
Found at i:130298471 original size:57 final size:55
Alignment explanation
Indices: 130298356--130298500 Score: 154
Period size: 57 Copynumber: 2.6 Consensus size: 55
130298346 ACATACATGC
*
130298356 ATATGGCCCA-CTAGGCCCAATCTCATTTATATGGCCCATCTGGCCCAATTCACGTT
1 ATATGGCCCATC-AGGCCCAATCACA-TTATATGGCCCATCTGGCCCAATTCACGTT
* *
130298412 ATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCGT-TAGGCCCAATCTCA-TTT
1 ATATGGCCCATCAGGCCCAA-TCACATT-ATATGGCCCATCT-GGCCCAAT-TCACGTT
*
130298469 ATATGACCCATCCA-GCCCAAATCACATTATAT
1 ATATGGCCCAT-CAGGCCC-AATCACATTATAT
130298501 CCATGCTTAC
Statistics
Matches: 78, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
56 25 0.32
57 46 0.59
58 7 0.09
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.28
Consensus pattern (55 bp):
ATATGGCCCATCAGGCCCAATCACATTATATGGCCCATCTGGCCCAATTCACGTT
Found at i:130298486 original size:28 final size:28
Alignment explanation
Indices: 130298356--130298488 Score: 146
Period size: 28 Copynumber: 4.7 Consensus size: 28
130298346 ACATACATGC
130298356 ATATGGCCCA-CTAGGCCCAATCTCATTT
1 ATATGGCCCATC-AGGCCCAATCTCATTT
* *
130298384 ATATGGCCCATCTGGCCCAAT-TCACGTT
1 ATATGGCCCATCAGGCCCAATCTCA-TTT
* *
130298412 ATATGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATCAGGCCCAA-TCTCATTT
* *
130298441 ATATGGCCCGTTAGGCCCAATCTCATTT
1 ATATGGCCCATCAGGCCCAATCTCATTT
*
130298469 ATATGACCCATCCA-GCCCAA
1 ATATGGCCCAT-CAGGCCCAA
130298489 ATCACATTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.03
28 60 0.69
29 22 0.25
30 2 0.02
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATCTCATTT
Found at i:130300285 original size:25 final size:25
Alignment explanation
Indices: 130300225--130300339 Score: 86
Period size: 25 Copynumber: 4.6 Consensus size: 25
130300215 GAATGGCAAC
* * * * *
130300225 TCACCATAAAGGTTTTCCAAAGAAT
1 TCACCACAAAGGCTTTCTAGAGGAT
* * *
130300250 TCATCATAAAGGCTTTCTAGAGTAT
1 TCACCACAAAGGCTTTCTAGAGGAT
** * *
130300275 TTGCCACAAAGGATTTCTACAGGAT
1 TCACCACAAAGGCTTTCTAGAGGAT
* * *
130300300 TCACTACAAAGGCTTTCTAGAGAAG
1 TCACCACAAAGGCTTTCTAGAGGAT
*
130300325 TCACCACATAGGCTT
1 TCACCACAAAGGCTT
130300340 CCCAGAAAAT
Statistics
Matches: 69, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 69 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
TCACCACAAAGGCTTTCTAGAGGAT
Found at i:130303571 original size:35 final size:35
Alignment explanation
Indices: 130303532--130303624 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 35
130303522 TTTAACACAG
* *
130303532 TAGCATGCTTAACATGCGATTCAGAATCATAATAA
1 TAGCATGCTTAACATGCGAATCAGAATAATAATAA
* * *
130303567 TAGCATGGTCAACATGCGAATCATAATAATAATAA
1 TAGCATGCTTAACATGCGAATCAGAATAATAATAA
*
130303602 TAGCATGCTTAACATGCAAATCA
1 TAGCATGCTTAACATGCGAATCA
130303625 AAGTATCAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (35 bp):
TAGCATGCTTAACATGCGAATCAGAATAATAATAA
Found at i:130316122 original size:33 final size:34
Alignment explanation
Indices: 130316071--130316137 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
130316061 CCACACTATA
* *
130316071 ACTGTATAGGGCTAAGGCCCAGACTG-TACTGAT
1 ACTGAATAGGGCTAAGGCCCAAACTGTTACTGAT
*
130316104 ACTGAATAGGGCTCAGGCCCAAACTGTTACTGAT
1 ACTGAATAGGGCTAAGGCCCAAACTGTTACTGAT
130316138 CTGGGCTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (34 bp):
ACTGAATAGGGCTAAGGCCCAAACTGTTACTGAT
Found at i:130320523 original size:69 final size:71
Alignment explanation
Indices: 130320374--130320535 Score: 301
Period size: 70 Copynumber: 2.3 Consensus size: 71
130320364 CGATTTGTCT
*
130320374 CGTAGCTCTCTTGTCTACATCGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
130320439 CTTTCA
66 CTTTCA
130320445 CGTAGCTCTC-TGTCTACATGGTGTCCTTCACTTGGAATCACGCAT-CGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
130320508 CTTTCA
66 CTTTCA
130320514 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
130320536 GATACATCTC
Statistics
Matches: 89, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
69 34 0.38
70 45 0.51
71 10 0.11
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:130323078 original size:40 final size:38
Alignment explanation
Indices: 130323029--130323136 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
130323019 ATCACGATTT
*
130323029 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
130323069 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
130323109 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
130323137 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:130331136 original size:80 final size:80
Alignment explanation
Indices: 130331052--130331200 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
130331042 TATGGTAACC
* * * *
130331052 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
130331116 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
130331132 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
130331197 CCGG
66 CCGG
130331201 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:130331142 original size:40 final size:38
Alignment explanation
Indices: 130331093--130331200 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
130331083 ATCACGATTT
*
130331093 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
130331133 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
130331173 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
130331201 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:130337917 original size:22 final size:22
Alignment explanation
Indices: 130337887--130337937 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
130337877 GAACAAGTAG
130337887 GGGAGAATGTCATGGGTTGCAAA
1 GGGA-AATGTCATGGGTTGCAAA
*
130337910 GGGAAATGTCATGGGTTGCGAA
1 GGGAAATGTCATGGGTTGCAAA
130337932 GGGAAA
1 GGGAAA
130337938 CTTGCAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.41, T:0.20
Consensus pattern (22 bp):
GGGAAATGTCATGGGTTGCAAA
Found at i:130338081 original size:35 final size:35
Alignment explanation
Indices: 130338042--130338112 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
130338032 CATCTCCGGA
* *
130338042 GCTTGGAAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAATATGAAAAGGAATCTTCAAAGATAT
* *
130338077 GCTTGGCAAATATGAAAAGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGAAAAGGAATCTTCAAAGATAT
130338112 G
1 G
130338113 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATGAAAAGGAATCTTCAAAGATAT
Found at i:130340415 original size:27 final size:28
Alignment explanation
Indices: 130340385--130340454 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
130340375 ATAATAAGTC
*
130340385 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
130340412 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
130340440 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
130340455 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:130348613 original size:40 final size:40
Alignment explanation
Indices: 130348558--130348725 Score: 210
Period size: 40 Copynumber: 4.2 Consensus size: 40
130348548 GGCGTTTGGA
** *
130348558 TAAAAAATACCACTATAGATCGAGCATTAGCGGTGCTTTT
1 TAAAAAACGCCACTATAGATCGAGCATTAGCGGCGCTTTT
* * * *
130348598 TGAAAAACGCCACTATAGATCGAGAATTAGCAGTGCTTTT
1 TAAAAAACGCCACTATAGATCGAGCATTAGCGGCGCTTTT
* *
130348638 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCACTATAGATCGAGCATTAGCGGCGCTTTT
* * * *
130348678 TAAAAAACGCCACTACAGGTCGACCATTAGCTGCGCTTTT
1 TAAAAAACGCCACTATAGATCGAGCATTAGCGGCGCTTTT
*
130348718 TGAAAAAC
1 TAAAAAAC
130348726 ACCGCAAAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (40 bp):
TAAAAAACGCCACTATAGATCGAGCATTAGCGGCGCTTTT
Found at i:130348654 original size:80 final size:80
Alignment explanation
Indices: 130348558--130348730 Score: 247
Period size: 80 Copynumber: 2.2 Consensus size: 80
130348548 GGCGTTTGGA
* * * * * *
130348558 TAAAAAATACCACTATAGATCGAGCATTAGCGGTGCTTTTTGAAAAACGCCACTATAGATCGAGA
1 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCACTACAGATCGACA
*
130348623 ATTAGCAGTGCTTTT
66 ATTAGCAGCGCTTTT
* *
130348638 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCACTACAGGTCGACC
1 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCACTACAGATCGACA
*
130348703 ATTAGCTGCGCTTTT
66 ATTAGCAGCGCTTTT
*
130348718 TGAAAAACACCGC
1 TAAAAAACACCGC
130348731 AAAAAAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (80 bp):
TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCACTACAGATCGACA
ATTAGCAGCGCTTTT
Found at i:130348798 original size:74 final size:74
Alignment explanation
Indices: 130348702--130348878 Score: 212
Period size: 74 Copynumber: 2.4 Consensus size: 74
130348692 ACAGGTCGAC
* * * *
130348702 CATTAGCTGCGCTTTTTGAAAAACACCGCAAAAAAATAAGCACA-ACGCCATTGTTTTATGTTGA
1 CATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATAAGCA-AGAAGCCATCGTTTTATGTTGA
*
130348766 GCTTTAATGG
65 GATTTAATGG
* ** * * * *
130348776 CATTAGCGGCGCTTTTTGAAAAATGTTGCAAAAAATTCAGTAAGAAGCCGTCGTTTTATGTTGAG
1 CATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATAAGCAAGAAGCCATCGTTTTATGTTGAG
*
130348841 ATTTAGTGG
66 ATTTAATGG
*
130348850 CATTAGCGGTGCTTTTTGAAAAACGCCGC
1 CATTAGCGGCGCTTTTTGAAAAACGCCGC
130348879 TTTAGATCTA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
73 1 0.01
74 84 0.99
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (74 bp):
CATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATAAGCAAGAAGCCATCGTTTTATGTTGAG
ATTTAATGG
Found at i:130348894 original size:40 final size:40
Alignment explanation
Indices: 130348849--130348958 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
130348839 AGATTTAGTG
** * *
130348849 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTTTAGATCTA
1 GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGA
* * **
130348889 GCATTAGCAGCACTTTCTGAAAAACGTTGCTATAGATCGA
1 GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGA
130348929 GCATTAGCGGCACTTTTTGAAAAACGCCGC
1 GCATTAGCGGCACTTTTTGAAAAACGCCGC
130348959 AAAAAAATTC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (40 bp):
GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:130349391 original size:7 final size:7
Alignment explanation
Indices: 130349379--130349590 Score: 83
Period size: 7 Copynumber: 29.9 Consensus size: 7
130349369 TATCATTATA
130349379 GTTTAGG
1 GTTTAGG
130349386 GTTTAGG
1 GTTTAGG
130349393 GTTTAGG
1 GTTTAGG
130349400 GTTTAGG
1 GTTTAGG
* *
130349407 GTATATG
1 GTTTAGG
*
130349414 ATTTAGG
1 GTTTAGG
* **
130349421 TTTTAAA
1 GTTTAGG
130349428 GTTTAGG
1 GTTTAGG
**
130349435 AG-TTACT
1 -GTTTAGG
* *
130349442 ATTGTAAG
1 GTT-TAGG
*
130349450 GTTTATG
1 GTTTAGG
* *
130349457 GATTATGA
1 GTTTA-GG
130349465 GTTTAGG
1 GTTTAGG
* *
130349472 GATTATG
1 GTTTAGG
*
130349479 GTTTATG
1 GTTTAGG
*
130349486 GTTTATG
1 GTTTAGG
*
130349493 GTTTATG
1 GTTTAGG
130349500 GTTTAAGG
1 GTTT-AGG
130349508 G-TT-GG
1 GTTTAGG
*
130349513 AGTTTAAG
1 -GTTTAGG
*
130349521 ATTTAGG
1 GTTTAGG
*
130349528 GGTTAGG
1 GTTTAGG
130349535 GTTTAAGG
1 GTTT-AGG
130349543 GTTATA--
1 GTT-TAGG
*
130349549 GTTTATG
1 GTTTAGG
*
130349556 GTTTATG
1 GTTTAGG
130349563 GTTTAGG
1 GTTTAGG
**
130349570 GGATAGGG
1 GTTTA-GG
*
130349578 GTTAAGG
1 GTTTAGG
130349585 GTTTAG
1 GTTTAG
130349591 ATTAATTAGT
Statistics
Matches: 152, Mismatches: 40, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
5 4 0.03
6 4 0.03
7 119 0.78
8 24 0.16
9 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:130349405 original size:21 final size:21
Alignment explanation
Indices: 130349379--130349570 Score: 102
Period size: 21 Copynumber: 9.0 Consensus size: 21
130349369 TATCATTATA
*
130349379 GTTTAGGGTTTAGGGTTTAGG
1 GTTTAGGGTTTATGGTTTAGG
* *
130349400 GTTTAGGGTATATGATTTAGG
1 GTTTAGGGTTTATGGTTTAGG
* ** * **
130349421 TTTTAAAGTTTA-GGAGTTACT
1 GTTTAGGGTTTATGG-TTTAGG
* * * *
130349442 ATTGTAAGGTTTATGGATTATGA
1 GTT-TAGGGTTTATGGTTTA-GG
* *
130349465 GTTTAGGGATTATGGTTTATG
1 GTTTAGGGTTTATGGTTTAGG
*
130349486 GTTTATGGTTTATGGTTTAAGG
1 GTTTAGGGTTTATGGTTT-AGG
* *
130349508 G-TT-GGAGTTTAAGATTTAGG
1 GTTTAGG-GTTTATGGTTTAGG
* * * **
130349528 GGTTAGGGTTTAAGGGTTATA
1 GTTTAGGGTTTATGGTTTAGG
*
130349549 GTTTATGGTTTATGGTTTAGG
1 GTTTAGGGTTTATGGTTTAGG
130349570 G
1 G
130349571 GATAGGGGTT
Statistics
Matches: 125, Mismatches: 38, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
20 6 0.05
21 86 0.69
22 29 0.23
23 4 0.03
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (21 bp):
GTTTAGGGTTTATGGTTTAGG
Found at i:130354590 original size:21 final size:20
Alignment explanation
Indices: 130354566--130354609 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
130354556 AATTCTTTTT
130354566 AATA-TTACTTAAATTGTAAAA
1 AATATTTACTTAAA-TG-AAAA
*
130354587 AATATTTATTTAAATGAAAA
1 AATATTTACTTAAATGAAAA
130354607 AAT
1 AAT
130354610 TAAAATACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
AATATTTACTTAAATGAAAA
Found at i:130364332 original size:6 final size:6
Alignment explanation
Indices: 130364317--130364360 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
130364307 ACTGAGTCCA
* *
130364317 TTTATC TTTATT TTTATT TTTATT TTTATT TTTATG TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
130364361 GTTTTCCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:130365309 original size:6 final size:6
Alignment explanation
Indices: 130365295--130365324 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
130365285 TTTTAGTTGT
130365295 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
130365325 TATAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:130366078 original size:47 final size:47
Alignment explanation
Indices: 130366009--130366103 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
130365999 TACTTAGCAT
*
130366009 ATTTTTAGATGATTTATTAGATAATTTAGTGAATTAGATGCTCCTAA
1 ATTTTTAGATGATTTATCAGATAATTTAGTGAATTAGATGCTCCTAA
130366056 ATTTTTAGATGATTTATCAGATAATTTAGTGAATTAGATGCTCCTAA
1 ATTTTTAGATGATTTATCAGATAATTTAGTGAATTAGATGCTCCTAA
130366103 A
1 A
130366104 CCTTTAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (47 bp):
ATTTTTAGATGATTTATCAGATAATTTAGTGAATTAGATGCTCCTAA
Found at i:130369482 original size:2 final size:2
Alignment explanation
Indices: 130369475--130369508 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
130369465 GCACTTATGA
130369475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130369509 GGTATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130370207 original size:40 final size:40
Alignment explanation
Indices: 130370102--130370308 Score: 269
Period size: 40 Copynumber: 5.2 Consensus size: 40
130370092 CGGATTGATA
* * *
130370102 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
130370142 CCGGGCTAAG-CCTGAAGGAATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
130370181 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
130370221 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
130370261 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
130370301 CC-GGCTAA
1 CCGGGCTAA
130370309 ACTCCGAAGG
Statistics
Matches: 149, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.27
40 109 0.73
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:130370317 original size:119 final size:119
Alignment explanation
Indices: 130370101--130370318 Score: 282
Period size: 119 Copynumber: 1.8 Consensus size: 119
130370091 TCGGATTGAT
* * * *
130370101 ACCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCTGAAGGAATTTG
1 ACCGAGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGAATTTG
* *
130370166 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATA
66 AGCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGTGAGTTACTATA
* * *
130370220 ACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATT
1 ACCGAGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGAATT
*
130370284 TGAGCTAG-TAGCTATATCC-GGCTAAACT-CCGAAGG
64 TGAGCGAGTTA-CTATATCCGGGCT-AACTCCCGAAGG
130370319 TACTTGATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 56 0.66
120 27 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
ACCGAGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGAATTTG
AGCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGTGAGTTACTATA
Found at i:130374744 original size:2 final size:2
Alignment explanation
Indices: 130374739--130374769 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
130374729 CATATATAGG
130374739 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
130374770 GTGTGCCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:130377532 original size:40 final size:40
Alignment explanation
Indices: 130377477--130377646 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
130377467 AACATTGGAA
130377477 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
130377517 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
130377557 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
130377596 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
130377637 CTATATCCGG
1 ATATATCCGG
130377647 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:130384454 original size:39 final size:39
Alignment explanation
Indices: 130384388--130384491 Score: 111
Period size: 39 Copynumber: 2.6 Consensus size: 39
130384378 AAATTGAATG
* * **
130384388 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATTT
1 ATATCCGGGCTAAG-ACCGAAGGCAATTATGCTAG-AAGCT
* * *
130384428 ATATCCGGGTTAAGACCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCGAAGGCAATTATGCTAGAAGCT
130384467 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGA-CCGAAGGCA
130384492 TTCGTGCAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 31 0.57
40 23 0.43
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCGAAGGCAATTATGCTAGAAGCT
Found at i:130384518 original size:41 final size:39
Alignment explanation
Indices: 130384430--130384541 Score: 136
Period size: 41 Copynumber: 2.8 Consensus size: 39
130384420 TGAAATTTAT
* * *
130384430 ATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTAGCTAA
* *
130384469 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCAA-GTAGCTAA
130384510 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCAA
130384542 ATCGTGATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
39 15 0.23
40 13 0.20
41 34 0.53
42 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTAGCTAA
Found at i:130392538 original size:40 final size:39
Alignment explanation
Indices: 130392370--130392555 Score: 162
Period size: 40 Copynumber: 4.7 Consensus size: 39
130392360 AGAAATTGAA
* *
130392370 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
130392410 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
130392450 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
130392490 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* * *
130392530 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
130392556 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 4 0.03
40 107 0.90
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:130403973 original size:20 final size:20
Alignment explanation
Indices: 130403937--130403975 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
130403927 TAAAAGTTAC
*
130403937 TTAATCGAGATGGTTTCAAT
1 TTAATCGAGATGATTTCAAT
130403957 TTAA-CGAGTATGATTTCAA
1 TTAATCGAG-ATGATTTCAA
130403976 AACCTATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
TTAATCGAGATGATTTCAAT
Found at i:130405977 original size:30 final size:30
Alignment explanation
Indices: 130405943--130406003 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
130405933 TTCCCGACCG
130405943 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
130405973 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
130406003 T
1 T
130406004 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:130411043 original size:36 final size:36
Alignment explanation
Indices: 130410994--130411066 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
130410984 ACAATAGGAG
130410994 TCTGTTGAAAAAACTTCAGGTAAAA-TCGACATGGAT
1 TCTGTTGAAAAAACTTCAGGTAAAACT-GACATGGAT
**
130411030 TCTGTTGGTAAAACTTCAGGTAAAACTGACATGGAT
1 TCTGTTGAAAAAACTTCAGGTAAAACTGACATGGAT
130411066 T
1 T
130411067 GATTAGATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (36 bp):
TCTGTTGAAAAAACTTCAGGTAAAACTGACATGGAT
Found at i:130415760 original size:28 final size:28
Alignment explanation
Indices: 130415728--130415826 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
130415718 GCAATAAGCC
*
130415728 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
130415756 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
130415784 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
130415813 CGCACACTTAGTGC
1 CGCACACTTAGTGC
130415827 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:130423440 original size:28 final size:28
Alignment explanation
Indices: 130423408--130423506 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
130423398 GCAATAAGCC
*
130423408 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
130423436 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
130423464 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
130423493 CGCACACTTAGTGC
1 CGCACACTTAGTGC
130423507 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:130427281 original size:40 final size:40
Alignment explanation
Indices: 130427222--130427441 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
130427212 CATTTGAATG
*
130427222 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
130427262 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
130427302 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
130427342 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
130427381 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
130427421 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
130427442 AAACTTGGGT
Statistics
Matches: 163, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 48 0.29
40 114 0.70
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:130427395 original size:79 final size:79
Alignment explanation
Indices: 130427222--130427441 Score: 325
Period size: 79 Copynumber: 2.8 Consensus size: 79
130427212 CATTTGAATG
* *
130427222 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAGACCCGAAGGCA
*
130427287 TTTGTGCGAGTTGTT
65 TTTGTGCGAGTTGCT
*
130427302 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGCTAAGACCCGAAGGCAT
130427367 TTGTGCGAGTTGCT
66 TTGTGCGAGTTGCT
* * * * * *
130427381 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTTATATCCGGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGCTAAGA-CCCGAAG
130427442 AAACTTGGGT
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
78 1 0.01
79 83 0.65
80 44 0.34
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:130435489 original size:40 final size:40
Alignment explanation
Indices: 130435423--130435589 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
130435413 AAATTGAATG
* * *
130435423 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
130435462 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
130435502 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
130435542 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
130435582 ATATCCGG
1 ATATCCGG
130435590 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:130443460 original size:40 final size:40
Alignment explanation
Indices: 130443401--130443542 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
130443391 AAATTGAATG
* * *
130443401 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
130443441 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
130443481 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
130443521 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
130443543 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:130443543 original size:40 final size:39
Alignment explanation
Indices: 130443440--130443568 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
130443430 TGCTGGAAAT
* * *
130443440 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
130443480 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
130443520 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
130443560 TATATCCGG
1 TATATCCGG
130443569 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:130447752 original size:40 final size:39
Alignment explanation
Indices: 130447587--130447770 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
130447577 AAATTGAATG
* * *
130447587 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
130447627 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
130447667 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
130447707 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
130447746 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
130447771 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:130447795 original size:80 final size:81
Alignment explanation
Indices: 130447627--130447815 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
130447617 GCTGGAAATT
* * * *
130447627 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
130447692 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
130447708 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
130447771 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
130447787 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
130447816 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:130451641 original size:124 final size:123
Alignment explanation
Indices: 130451420--130451642 Score: 286
Period size: 124 Copynumber: 1.8 Consensus size: 123
130451410 GAATTATGTG
* * * * * *
130451420 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTTATGAGTATTCGAATAATGCCCGGG
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGTCATGAGAAATCGAATAATACCCGGG
* * * **
130451485 CTAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 CTAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
130451543 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTG-CATGAGAAATCGAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGTCATGAGAAATCGAATAATACCCG
*
130451607 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
64 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
130451643 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
123 16 0.19
124 47 0.57
125 20 0.24
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (123 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGTCATGAGAAATCGAATAATACCCGGG
CTAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:130451726 original size:40 final size:40
Alignment explanation
Indices: 130451601--130451752 Score: 150
Period size: 40 Copynumber: 3.8 Consensus size: 40
130451591 AATCGAATGA
* * * * *
130451601 TATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGACATTC
* * *
130451641 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCT-G-GACATTC
130451682 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GACATTC
*
130451721 TATCCGGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCC-GGGCTAAGACCCGAAGGCAATTGTGC
130451753 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 57 0.62
41 24 0.26
42 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGACATTC
Found at i:130451766 original size:41 final size:40
Alignment explanation
Indices: 130451638--130451768 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
130451628 ATGCTGGAAA
* * *
130451638 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
130451678 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
130451718 TTCTATCCGGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCC-GGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
130451759 TTATATCCGG
1 TTATATCCGG
130451769 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
40 39 0.54
41 33 0.46
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:130451768 original size:81 final size:80
Alignment explanation
Indices: 130451600--130451768 Score: 200
Period size: 81 Copynumber: 2.1 Consensus size: 80
130451590 AAATCGAATG
* *
130451600 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
130451665 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
130451680 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCC-GGGCTAAGACCCGAAG
* *
130451743 GCATTTGTGC-ACGTGGTT
63 GCAATTGTGCTA-GTGGCT
130451761 ATATCCGG
1 ATATCCGG
130451769 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
79 4 0.05
80 35 0.47
81 36 0.48
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:130456535 original size:101 final size:101
Alignment explanation
Indices: 130456393--130456624 Score: 288
Period size: 101 Copynumber: 2.3 Consensus size: 101
130456383 AGACAGGGTT
* * * **
130456393 TTACTCGCACA-CATATATCGGAATCACATTTCGATGCCAACGTATAAAACGTGGGCTTACTCGC
1 TTACTCGCACATCACATATCGGAATCACATATCAATGCCAACGTATAAAACAAGGGCTTACTCGC
***
130456457 ACACATATATCA-AAATCATTTATCGATGCCATGGTC
66 ACACATATAT-AGAAATCACACATCGATGCCATGGTC
* * * *
130456493 TTCCTCGCACATCACATATCGGAATCACATATCAATGGCAACGTATTAAACAAGGTCTTACTCGC
1 TTACTCGCACATCACATATCGGAATCACATATCAATGCCAACGTATAAAACAAGGGCTTACTCGC
* *
130456558 GCACATATATAGGAATCACACATCGATGCCATGGTC
66 ACACATATATAGAAATCACACATCGATGCCATGGTC
* *
130456594 TTACTTGCACATCACATATCAGAATTCACAT
1 TTACTCGCACATCACATATCGGAA-TCACAT
130456625 GTCGATGTCT
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
100 11 0.10
101 95 0.85
102 6 0.05
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (101 bp):
TTACTCGCACATCACATATCGGAATCACATATCAATGCCAACGTATAAAACAAGGGCTTACTCGC
ACACATATATAGAAATCACACATCGATGCCATGGTC
Found at i:130457726 original size:27 final size:27
Alignment explanation
Indices: 130457688--130457750 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
130457678 TTTAATTTTT
130457688 ATGTTATAATATAAAATATATTACTTA
1 ATGTTATAATATAAAATATATTACTTA
*
130457715 ATGTTATAATATAACATATATTACTTA
1 ATGTTATAATATAAAATATATTACTTA
130457742 ATGTT-TAAT
1 ATGTTATAAT
130457751 TTACATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (27 bp):
ATGTTATAATATAAAATATATTACTTA
Found at i:130462618 original size:11 final size:11
Alignment explanation
Indices: 130462602--130462629 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
130462592 AACTAAAACG
130462602 AAATAAATTCA
1 AAATAAATTCA
130462613 AAATAAATTCA
1 AAATAAATTCA
130462624 AAATAA
1 AAATAA
130462630 TAAAACAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAAATTCA
Found at i:130468327 original size:26 final size:27
Alignment explanation
Indices: 130468279--130468331 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
130468269 GTGTCTCAAT
*
130468279 TTATTATTTGTGTTTAATATGTCCTAG
1 TTATTACTTGTGTTTAATATGTCCTAG
*
130468306 TTATTACTTGT-TTTAATGTGTCCTAG
1 TTATTACTTGTGTTTAATATGTCCTAG
130468332 CTGAATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (27 bp):
TTATTACTTGTGTTTAATATGTCCTAG
Found at i:130479478 original size:55 final size:55
Alignment explanation
Indices: 130479377--130479505 Score: 127
Period size: 55 Copynumber: 2.3 Consensus size: 55
130479367 GACAATCTTT
* * ** * *
130479377 CCAAAACAACATGGGCATGCGACATGCCCCTGTCTATAAGTCGTGGTTGAAACTA
1 CCAAAACAACACGGGCGTGCGACACACCCCTGTCTAGAAGTCGTGGTCGAAACTA
* * *
130479432 CCAAAACAACACGGGCGTTCGACACACCCGTGTCTAGAAG-CTGTGGTCGATACTA
1 CCAAAACAACACGGGCGTGCGACACACCCCTGTCTAGAAGTC-GTGGTCGAAACTA
* *
130479487 TC-AAACTAACACAGGCGTG
1 CCAAAAC-AACACGGGCGTG
130479506 TGCATTTATA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
54 5 0.08
55 55 0.92
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (55 bp):
CCAAAACAACACGGGCGTGCGACACACCCCTGTCTAGAAGTCGTGGTCGAAACTA
Found at i:130481469 original size:20 final size:19
Alignment explanation
Indices: 130481441--130481478 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
130481431 TTTTAAAGAC
*
130481441 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
130481460 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
130481479 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:130484026 original size:11 final size:11
Alignment explanation
Indices: 130484010--130484035 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
130484000 AACTAAAATG
130484010 AAATAAATTCA
1 AAATAAATTCA
130484021 AAATAAATTCA
1 AAATAAATTCA
130484032 AAAT
1 AAAT
130484036 GAGCAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAAATTCA
Found at i:130493230 original size:14 final size:12
Alignment explanation
Indices: 130493190--130493224 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
130493180 ACTCTTTTTC
*
130493190 TTTTTCATTCTT
1 TTTTTCAATCTT
130493202 TTTTTCAATCTT
1 TTTTTCAATCTT
130493214 TTTTTCAATCT
1 TTTTTCAATCT
130493225 CATTTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTCAATCTT
Found at i:130501524 original size:24 final size:24
Alignment explanation
Indices: 130501497--130501545 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
130501487 CTCGATTAAC
130501497 TCGTTAACTTGTAGTTGCAATTTT
1 TCGTTAACTTGTAGTTGCAATTTT
130501521 TCGTTAACTTGTAGTTGCAATTTT
1 TCGTTAACTTGTAGTTGCAATTTT
130501545 T
1 T
130501546 TAGTCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.51
Consensus pattern (24 bp):
TCGTTAACTTGTAGTTGCAATTTT
Found at i:130502242 original size:45 final size:44
Alignment explanation
Indices: 130502187--130502276 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
130502177 ACTCATTTTC
* * *
130502187 TCACTTTCTTTTTCT-TTTTCATCTTTGTCTTTTCTCATTTTCTTT
1 TCACTCTCTTTTGCTATTTT-ATCTTTCT-TTTTCTCATTTTCTTT
* *
130502232 TCACTCTCTTTTGCTATTTTTTCTTTCTTTTTCTCATTTTTTTT
1 TCACTCTCTTTTGCTATTTTATCTTTCTTTTTCTCATTTTCTTT
130502276 T
1 T
130502277 TCTTTCACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 16 0.41
45 19 0.49
46 4 0.10
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (44 bp):
TCACTCTCTTTTGCTATTTTATCTTTCTTTTTCTCATTTTCTTT
Found at i:130502263 original size:20 final size:20
Alignment explanation
Indices: 130502238--130502281 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
130502228 CTTTTCACTC
*
130502238 TCTTTTGCT-ATTTTTTCTT
1 TCTTTTTCTCATTTTTTCTT
*
130502257 TCTTTTTCTCATTTTTTTTT
1 TCTTTTTCTCATTTTTTCTT
130502277 TCTTT
1 TCTTT
130502282 CACTTTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (20 bp):
TCTTTTTCTCATTTTTTCTT
Found at i:130502288 original size:45 final size:44
Alignment explanation
Indices: 130502216--130502302 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 44
130502206 CATCTTTGTC
* *
130502216 TTTTCTCATTTTCTTTTCACTCTCTTTTGCTATT-TTTTCTTTCT
1 TTTTCTCATTTTCTTTTCACTCACTTTTAC-ATTCTTTTCTTTCT
* **
130502260 TTTTCTCATTTTTTTTTTCTTTCACTTTTACATTCTTTTCTTT
1 TTTTCTCA-TTTTCTTTTCACTCACTTTTACATTCTTTTCTTT
130502303 TTCTCTCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 11 0.31
45 25 0.69
ACGTcount: A:0.08, C:0.21, G:0.01, T:0.70
Consensus pattern (44 bp):
TTTTCTCATTTTCTTTTCACTCACTTTTACATTCTTTTCTTTCT
Found at i:130502293 original size:24 final size:25
Alignment explanation
Indices: 130502248--130502303 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
130502238 TCTTTTGCTA
* *
130502248 TTTTTTCTTTCTTTTTCTCATT-TT
1 TTTTTTCTTTCCTTTTCACATTCTT
130502272 TTTTTTCTTTCACTTTT-ACATTCTT
1 TTTTTTCTTTC-CTTTTCACATTCTT
130502297 TTCTTTT
1 TT-TTTT
130502304 TCTCTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 15 0.56
25 8 0.30
26 4 0.15
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTTCTTTCCTTTTCACATTCTT
Found at i:130504470 original size:40 final size:40
Alignment explanation
Indices: 130504404--130504570 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
130504394 AAATTGAATG
* * *
130504404 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
130504443 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
130504483 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
130504523 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
130504563 ATATCCGG
1 ATATCCGG
130504571 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:130508804 original size:28 final size:28
Alignment explanation
Indices: 130508739--130508839 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
130508729 ATAGTGAATC
*
130508739 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
130508768 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
130508796 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
130508826 CGCACACTTAGTGC
1 CGCACACTTAGTGC
130508840 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:130508888 original size:29 final size:29
Alignment explanation
Indices: 130508827--130508957 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
130508817 TTTTAAACCC
*** *
130508827 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
130508855 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
130508885 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
130508914 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
130508943 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
130508958 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:130516721 original size:28 final size:28
Alignment explanation
Indices: 130516656--130516756 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
130516646 ATAGTGAATC
*
130516656 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
130516685 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
130516713 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
130516743 CGCACACTTAGTGC
1 CGCACACTTAGTGC
130516757 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:130516805 original size:29 final size:29
Alignment explanation
Indices: 130516744--130516874 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
130516734 TTTTAAACCC
*** *
130516744 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
130516772 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
130516802 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
130516831 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
130516860 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
130516875 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:130521706 original size:40 final size:40
Alignment explanation
Indices: 130521579--130521708 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
130521569 ATGCTGGAAA
* * * *
130521579 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
130521619 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
* *
130521659 TTCTATCCGGGCTAAGACCCAAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
130521699 TTATATCCGG
1 TTATATCCGG
130521709 TTATATTCCG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:130528975 original size:30 final size:30
Alignment explanation
Indices: 130528941--130528998 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
130528931 TTCCAGCCTA
130528941 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * * *
130528971 GGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
130528999 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:130530917 original size:16 final size:15
Alignment explanation
Indices: 130530883--130530925 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
130530873 GGAATACATG
*
130530883 GAAACTATGGTAT-AT
1 GAAA-TATGATATAAT
130530898 GAAATATTGATATAAT
1 GAAATA-TGATATAAT
130530914 GAAATATGATAT
1 GAAATATGATAT
130530926 GTGTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 2 0.08
15 15 0.60
16 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (15 bp):
GAAATATGATATAAT
Found at i:130534174 original size:68 final size:66
Alignment explanation
Indices: 130534102--130534287 Score: 171
Period size: 67 Copynumber: 2.8 Consensus size: 66
130534092 CATCATGTGT
* * * *
130534102 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
130534165 TGTAG
62 TGTAG
** * *
130534170 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
130534235 AG
65 AG
* * * * * *
130534237 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTCAGTG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATAC-CAGTG
130534288 TTCACCATGT
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
64 24 0.24
65 3 0.03
66 26 0.26
67 34 0.34
68 13 0.13
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:130534207 original size:64 final size:64
Alignment explanation
Indices: 130534126--130534309 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
130534116 AGACATTATG
* * *
130534126 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
130534190 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
130534255 AA
63 AA
* * *
130534257 AT-TGGCTAGGTCACATGGGTGGTACTCA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
130534310 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:130540383 original size:16 final size:16
Alignment explanation
Indices: 130540362--130540393 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
130540352 ATACCAATGA
130540362 CATAACATAGTTTACT
1 CATAACATAGTTTACT
130540378 CATAACATAGTTTACT
1 CATAACATAGTTTACT
130540394 TATGTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
CATAACATAGTTTACT
Found at i:130545079 original size:28 final size:28
Alignment explanation
Indices: 130545047--130545115 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
130545037 GCGTAGATCA
130545047 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
130545075 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
130545103 CGATA-TACCCCTA
1 CGAAATTACCCCTA
130545116 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:130551666 original size:71 final size:71
Alignment explanation
Indices: 130551582--130551745 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
130551572 CGATTTGTCT
130551582 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
130551647 CTTTCA
66 CTTTCA
130551653 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
130551718 CTTTCA
66 CTTTCA
130551724 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
130551746 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:130551783 original size:71 final size:70
Alignment explanation
Indices: 130551582--130551779 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
130551572 CGATTTGTCT
* * * *
130551582 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
130551647 CTTTCA
65 CTTTCA
* * * *
130551653 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
130551718 CTTTCA
65 CTTTCA
* *
130551724 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
130551780 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:130559234 original size:71 final size:71
Alignment explanation
Indices: 130559148--130559311 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
130559138 CGATTTGTCT
130559148 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
130559213 CTTTCA
66 CTTTCA
130559219 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
130559284 CTTTCA
66 CTTTCA
130559290 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
130559312 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:130559349 original size:71 final size:70
Alignment explanation
Indices: 130559148--130559345 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
130559138 CGATTTGTCT
* * * *
130559148 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
130559213 CTTTCA
65 CTTTCA
* * * *
130559219 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
130559284 CTTTCA
65 CTTTCA
* *
130559290 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
130559346 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:130566800 original size:71 final size:71
Alignment explanation
Indices: 130566716--130566879 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
130566706 CGATTTGTCT
130566716 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
130566781 CTTTCA
66 CTTTCA
130566787 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
130566852 CTTTCA
66 CTTTCA
130566858 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
130566880 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:130571323 original size:15 final size:15
Alignment explanation
Indices: 130571303--130571333 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
130571293 GACGGTTCCG
130571303 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
130571318 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
130571333 T
1 T
130571334 ACTGATACAG
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:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:130574778 original size:20 final size:19
Alignment explanation
Indices: 130574748--130574831 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
130574738 GATGTTAGAA
130574748 TATTAATTCTATTATATATT
1 TATT-ATTCTATTATATATT
130574768 TATCTATTCTATTATATA--
1 TAT-TATTCTATTATATATT
*
130574786 TA-TATTCTAATATATATT
1 TATTATTCTATTATATATT
130574804 AGTATTATT-T-TTATATTATT
1 --TATTATTCTATTATA-TATT
130574824 TATCTATT
1 TAT-TATT
130574832 TCTTATCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 8 0.15
20 23 0.43
21 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TATTATTCTATTATATATT
Found at i:130574793 original size:16 final size:17
Alignment explanation
Indices: 130574753--130574802 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
130574743 TAGAATATTA
130574753 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
130574773 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
130574789 ATTCTAATATATAT
1 ATTCTATTATATAT
130574803 TAGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:130576557 original size:18 final size:18
Alignment explanation
Indices: 130576536--130576572 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
130576526 AATTCGACGC
* *
130576536 AGTGGATAAATTAGATAA
1 AGTGGAAAAATGAGATAA
130576554 AGTGGAAAAATGAGATAA
1 AGTGGAAAAATGAGATAA
130576572 A
1 A
130576573 CCAGCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (18 bp):
AGTGGAAAAATGAGATAA
Found at i:130579445 original size:17 final size:17
Alignment explanation
Indices: 130579423--130579456 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
130579413 ATAGATTCGC
*
130579423 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
130579440 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
130579457 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:130588469 original size:24 final size:25
Alignment explanation
Indices: 130588427--130588479 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
130588417 TTTTCTTTCT
130588427 ATATTATTAATATTATTT-ATTTAA
1 ATATTATTAATATTATTTAATTTAA
*
130588451 ATATTATTAATA-TATTTTAATTTAT
1 ATATTATTAATATTA-TTTAATTTAA
130588476 ATAT
1 ATAT
130588480 ATTTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 15 0.58
25 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTAATATTATTTAATTTAA
Found at i:130588482 original size:24 final size:23
Alignment explanation
Indices: 130588426--130588495 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
130588416 ATTTTCTTTC
130588426 TATAT-TATTAATATTATTTATT
1 TATATATATTAATATTATTTATT
*
130588448 TAAATATTATTAATA-TATTTTAATT
1 TATATA-TATTAATATTA-TTT-ATT
*
130588473 TATATATATTTAA-ATTATATATT
1 TATATATA-TTAATATTATTTATT
130588496 GAAATGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
22 4 0.10
23 5 0.13
24 16 0.41
25 14 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATATATATTAATATTATTTATT
Done.