Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 250 of 427
Found at i:71352373 original size:55 final size:52
Alignment explanation
Indices: 71352273--71352511 Score: 166
Period size: 55 Copynumber: 4.5 Consensus size: 52
71352263 ATACAAATGT
* * * *
71352273 CATGTACGACCATGCCAAGACATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAAT-
1 CATGTAAGACCATGTCAAGACATGG-CATTGATAA-G-TTCATAAGGCAA--AAATC
* **
71352328 CATGTAAGACCATGTCAAGACATGGCATTTATAAGTTACTATAAGGCAAATGTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGGCAAAAAT-C
* * * * * *
71352383 CATGTAAGACCATGCCGAGGCATGGCATTGGTGAGTTCATAAGGCAATAATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGCAAAAAT-C
* * * * *
71352436 TATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTCAAAAGG---ATA-C
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAG-TTCATAAGGCAAAAATC
* *
71352485 CATGTAAGACCATGACAAGTCATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
71352512 ATGGTAAGGT
Statistics
Matches: 149, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
49 25 0.17
51 1 0.01
52 2 0.01
53 44 0.30
54 15 0.10
55 62 0.42
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (52 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGCAAAAATC
Found at i:71352618 original size:23 final size:24
Alignment explanation
Indices: 71352592--71352636 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
71352582 AAGGTATGGT
*
71352592 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
71352615 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
71352637 GAAGAGCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:71352735 original size:16 final size:16
Alignment explanation
Indices: 71352714--71352744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71352704 AATAATTTGA
71352714 TTAAGTAAGTAAGTAC
1 TTAAGTAAGTAAGTAC
*
71352730 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
71352745 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAC
Found at i:71355423 original size:23 final size:23
Alignment explanation
Indices: 71355387--71355522 Score: 123
Period size: 23 Copynumber: 5.8 Consensus size: 23
71355377 GGACTCACCA
* *
71355387 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCATTAGAGCTTACTGTTT
* * *
71355410 CAGCTCATTGGAGCTTACCGATT
1 CAGCTCATTAGAGCTTACTGTTT
*
71355433 CAGCTCGA-AAGAGCTTACTGTTT
1 CAGCTC-ATTAGAGCTTACTGTTT
* *
71355456 CAGCTCATTAAAGCTTACCGTTT
1 CAGCTCATTAGAGCTTACTGTTT
*
71355479 CCAGCTCAATAG-GCTTACTGTTTAT
1 -CAGCTCATTAGAGCTTACTG-TT-T
*
71355504 CAGCTCAGTAAGAGCTTAC
1 CAGCTCA-TTAGAGCTTAC
71355523 CGACCATGAC
Statistics
Matches: 89, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
22 1 0.01
23 60 0.67
24 19 0.21
25 3 0.03
26 6 0.07
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (23 bp):
CAGCTCATTAGAGCTTACTGTTT
Found at i:71355454 original size:46 final size:46
Alignment explanation
Indices: 71355387--71355542 Score: 174
Period size: 46 Copynumber: 3.3 Consensus size: 46
71355377 GGACTCACCA
* *
71355387 CAGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATT
1 CAGCTCGAAAGAGCTTACTGTTTCAGCTCATTAGAGCTTACCGATT
* *
71355433 CAGCTCGAAAGAGCTTACTGTTTCAGCTCATTAAAGCTTACCGTTT
1 CAGCTCGAAAGAGCTTACTGTTTCAGCTCATTAGAGCTTACCGATT
* *
71355479 CCAGCTC-AATAG-GCTTACTGTTTATCAGCTCAGTAAGAGCTTACCGA-C
1 -CAGCTCGAA-AGAGCTTACTG-TT-TCAGCTCA-TTAGAGCTTACCGATT
71355527 CATGACTCGAAAGAGC
1 CA-G-CTCGAAAGAGC
71355543 ATGTATGATG
Statistics
Matches: 93, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
46 52 0.56
47 12 0.13
48 9 0.10
49 16 0.17
50 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (46 bp):
CAGCTCGAAAGAGCTTACTGTTTCAGCTCATTAGAGCTTACCGATT
Found at i:71360556 original size:43 final size:43
Alignment explanation
Indices: 71360490--71360576 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
71360480 TTTGATAAAT
71360490 AAGTCCGTAAATATTATTATTTAATATTTATGAGTTACATATG
1 AAGTCCGTAAATATTATTATTTAATATTTATGAGTTACATATG
*
71360533 AAGTTCGTAAATATTATTATTTAATATTTATGAGTTACATATG
1 AAGTCCGTAAATATTATTATTTAATATTTATGAGTTACATATG
71360576 A
1 A
71360577 TGTTATTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (43 bp):
AAGTCCGTAAATATTATTATTTAATATTTATGAGTTACATATG
Found at i:71360776 original size:22 final size:22
Alignment explanation
Indices: 71360751--71360794 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
71360741 TTTGTACTTA
71360751 AATT-ATTAACATAATAAATTTT
1 AATTAATT-ACATAATAAATTTT
**
71360773 AATTAATTTTATAATAAATTTT
1 AATTAATTACATAATAAATTTT
71360795 GACTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTAATTACATAATAAATTTT
Found at i:71360801 original size:22 final size:22
Alignment explanation
Indices: 71360761--71360804 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
71360751 AATTATTAAC
*
71360761 ATAATAAATTTTAATTAATTTT
1 ATAATAAATTTTAACTAATTTT
*
71360783 ATAATAAATTTTGACTAATTTT
1 ATAATAAATTTTAACTAATTTT
71360805 GGTCATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAACTAATTTT
Found at i:71366455 original size:23 final size:23
Alignment explanation
Indices: 71366411--71366455 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
71366401 GTTCACATGT
*
71366411 AACAATATAATATATAATACATC
1 AACAATATAATATATAAGACATC
* * *
71366434 AACAATTTCATATATACGACAT
1 AACAATATAATATATAAGACAT
71366456 TAGAATAGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (23 bp):
AACAATATAATATATAAGACATC
Found at i:71369391 original size:28 final size:28
Alignment explanation
Indices: 71369348--71369412 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
71369338 ATTTAATAGA
*
71369348 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
71369376 ATTCCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
71369404 ATACCCCTA
1 ATACCCCTA
71369413 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:71369559 original size:28 final size:27
Alignment explanation
Indices: 71369518--71369607 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
71369508 AGGAAGCGTC
71369518 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
71369546 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
71369573 CTGGTGGCACTGCCACAGAATATCTGTAT
1 CTGGTGGCACTGCCACA-AATATCTGT-T
71369602 CTGGTG
1 CTGGTG
71369608 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:71369618 original size:29 final size:28
Alignment explanation
Indices: 71369518--71369607 Score: 114
Period size: 28 Copynumber: 3.2 Consensus size: 28
71369508 AGGAAGCGTC
71369518 CTGGTGGCTA-TGCCACA-AATTATCTGTT
1 CTGGTGGC-ACTGCCACAGAA-TATCTGTT
* *
71369546 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAGAATATCTGTT
71369573 CTGGTGGCACTGCCACAGAATATCTGTAT
1 CTGGTGGCACTGCCACAGAATATCTGT-T
71369602 CTGGTG
1 CTGGTG
71369608 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAGAATATCTGTT
Found at i:71369626 original size:55 final size:56
Alignment explanation
Indices: 71369518--71369632 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
71369508 AGGAAGCGTC
* *
71369518 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
71369573 CTGGTGGC-ACTGCCACAGAA-TATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACA-AATTATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
71369629 CTGG
1 CTGG
71369633 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 22 0.43
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:71370100 original size:18 final size:18
Alignment explanation
Indices: 71370061--71370101 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
71370051 TAATAAGGCC
* *
71370061 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
71370079 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
71370097 TTTTA
1 TTTTA
71370102 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:71376809 original size:18 final size:17
Alignment explanation
Indices: 71376786--71376819 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
71376776 TAGCTGTGCC
71376786 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
71376804 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
71376820 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:71377967 original size:25 final size:25
Alignment explanation
Indices: 71377938--71377985 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71377928 TTATAATATG
* * *
71377938 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71377963 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
71377986 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71378047 original size:20 final size:20
Alignment explanation
Indices: 71378022--71378064 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
71378012 ATTTTGATAA
71378022 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71378042 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71378062 ACA
1 ACA
71378065 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71378072 original size:20 final size:20
Alignment explanation
Indices: 71378029--71378072 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
71378019 TAAACATGAT
* *
71378029 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
71378049 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
71378069 ATGT
1 ATGT
71378073 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:71378198 original size:24 final size:24
Alignment explanation
Indices: 71378118--71378212 Score: 133
Period size: 23 Copynumber: 4.0 Consensus size: 24
71378108 GAGGAAGTGC
71378118 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
71378142 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
71378165 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
71378189 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
71378213 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
23 29 0.45
24 19 0.29
25 17 0.26
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:71378440 original size:31 final size:31
Alignment explanation
Indices: 71378405--71378468 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
71378395 CGTTTACAGT
*
71378405 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
** *
71378436 AAAGGCTTCGGCCCAATGTTATGAATTATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
71378467 AA
1 AA
71378469 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:71379695 original size:29 final size:29
Alignment explanation
Indices: 71379662--71379735 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71379652 GTGACGAGAT
71379662 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71379691 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71379720 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71379736 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71379751 original size:29 final size:29
Alignment explanation
Indices: 71379719--71379794 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
71379709 CTGGAAATAT
* *
71379719 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
71379748 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
71379777 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
71379795 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:71386513 original size:29 final size:29
Alignment explanation
Indices: 71386480--71386553 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71386470 GTGACGAGAT
71386480 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71386509 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71386538 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71386554 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71386569 original size:29 final size:29
Alignment explanation
Indices: 71386537--71386612 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
71386527 CTGGAAATAT
* *
71386537 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
71386566 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
71386595 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
71386613 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:71393692 original size:18 final size:17
Alignment explanation
Indices: 71393669--71393702 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
71393659 TAGCTGTGCC
71393669 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
71393687 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
71393703 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:71394831 original size:25 final size:25
Alignment explanation
Indices: 71394802--71394849 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71394792 TTATAATATG
* * *
71394802 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71394827 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
71394850 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71394911 original size:20 final size:20
Alignment explanation
Indices: 71394886--71394928 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
71394876 ATTTTGATAA
71394886 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71394906 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71394926 ACA
1 ACA
71394929 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71394936 original size:20 final size:20
Alignment explanation
Indices: 71394893--71394936 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
71394883 TAAACATGAT
* *
71394893 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
71394913 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
71394933 ATGT
1 ATGT
71394937 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:71395072 original size:24 final size:24
Alignment explanation
Indices: 71394982--71395099 Score: 145
Period size: 23 Copynumber: 5.0 Consensus size: 24
71394972 GAGGAAGTGC
* *
71394982 AAAAGGGCTTACGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
71395006 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
71395029 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
71395052 AAAAAGGGCTT-TGCCCTAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
71395076 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
71395100 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 50 0.60
24 18 0.21
25 16 0.19
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:71395327 original size:31 final size:31
Alignment explanation
Indices: 71395292--71395355 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71395282 CGTTTACAGT
71395292 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
71395323 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71395354 AA
1 AA
71395356 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71397419 original size:23 final size:23
Alignment explanation
Indices: 71397375--71397419 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
71397365 GTTCACATGT
*
71397375 AACAATATAATATATAATACATC
1 AACAATATAATATATAAGACATC
* * *
71397398 AACAATTTCATATATACGACAT
1 AACAATATAATATATAAGACAT
71397420 TAGAATAGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (23 bp):
AACAATATAATATATAAGACATC
Found at i:71411283 original size:40 final size:40
Alignment explanation
Indices: 71411143--71411348 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
71411133 CAATTGAATG
* * ** * **
71411143 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
71411183 ATATCC-GGTTAAGACCCGAAGGCAATT-GTGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* *
71411222 ACATCC-GGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
71411261 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
71411301 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
71411341 ATATCCGG
1 ATATCCGG
71411349 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.02
39 56 0.40
40 81 0.58
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:71419232 original size:40 final size:40
Alignment explanation
Indices: 71419173--71419365 Score: 224
Period size: 40 Copynumber: 4.8 Consensus size: 40
71419163 CAATTGAATG
* * * *
71419173 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
71419213 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
71419253 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * *
71419293 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* *
71419333 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
71419366 TGTGGTTATT
Statistics
Matches: 129, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:71420776 original size:24 final size:24
Alignment explanation
Indices: 71420749--71420979 Score: 381
Period size: 24 Copynumber: 9.6 Consensus size: 24
71420739 CTTATTATGT
* * *
71420749 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
71420773 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
71420797 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
71420821 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
71420845 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
71420869 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
71420893 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
71420917 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
71420941 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
71420965 TCGCACACATAGTGC
1 TCGCACACATAGTGC
71420980 ATTTGAGATA
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 198 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:71421437 original size:2 final size:2
Alignment explanation
Indices: 71421430--71421459 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71421420 TGGGCATACT
71421430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71421460 CATACCCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71424135 original size:11 final size:11
Alignment explanation
Indices: 71424110--71424140 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
71424100 TAGATATGAA
71424110 CATATCATG-G
1 CATATCATGTG
71424120 CATATCATGTG
1 CATATCATGTG
71424131 CATATCATGT
1 CATATCATGT
71424141 ACAAACCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (11 bp):
CATATCATGTG
Found at i:71426078 original size:31 final size:31
Alignment explanation
Indices: 71426043--71426108 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
71426033 TATCCTAGTA
*
71426043 GACTATCTATTT-TGTGTTTACTGTCTCAACG
1 GACTATCT-TTTCTGTGTTTACTGTCCCAACG
* *
71426074 GACTATCTTTTCTGTGTTTATTGTCCCAGCG
1 GACTATCTTTTCTGTGTTTACTGTCCCAACG
71426105 GACT
1 GACT
71426109 TTCTCTATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (31 bp):
GACTATCTTTTCTGTGTTTACTGTCCCAACG
Found at i:71437355 original size:39 final size:39
Alignment explanation
Indices: 71437296--71437371 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
71437286 TCATGGGAAA
71437296 ACAACCTCATCTCTACCAACTCATCCAATTGTAACATCC
1 ACAACCTCATCTCTACCAACTCATCCAATTGTAACATCC
*
71437335 ACAACCTCATCTCTATCAACTCATCCAATTGTAACAT
1 ACAACCTCATCTCTACCAACTCATCCAATTGTAACAT
71437372 TCTTCTCTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.34, C:0.36, G:0.03, T:0.28
Consensus pattern (39 bp):
ACAACCTCATCTCTACCAACTCATCCAATTGTAACATCC
Found at i:71446061 original size:157 final size:157
Alignment explanation
Indices: 71445775--71446088 Score: 601
Period size: 157 Copynumber: 2.0 Consensus size: 157
71445765 TGCAACACGC
* *
71445775 CCGTGTCTATCCCCCGTGGACAACACTATCGAAATACCACGGATGTGTGTGGAGCTACATGACTG
1 CCGTGTCTATCCCCCCTGGACAACACTATCGAAATACCACGGATGTGTGTGGAGCTACACGACTG
*
71445840 TGGGAGAAGCGATCCACATCGTACACGGCTAAAGCACACAGGCGTGCCAGAAGGCCGTGTGACGA
66 TGGGAGAAGCGATCCACATCGCACACGGCTAAAGCACACAGGCGTGCCAGAAGGCCGTGTGACGA
71445905 CATCTTAATTTGAGACAAACAGGGGCG
131 CATCTTAATTTGAGACAAACAGGGGCG
71445932 CCGTGTCTATCCCCCCTGGACAACACTATCGAAATACCACGGATGTGTGTGGAGCTACACGACTG
1 CCGTGTCTATCCCCCCTGGACAACACTATCGAAATACCACGGATGTGTGTGGAGCTACACGACTG
71445997 TGGGAGAAGCGATCCACATCGCACACGGCTAAAGCACACAGGCGTGCCAGAAGGCCGTGTGACGA
66 TGGGAGAAGCGATCCACATCGCACACGGCTAAAGCACACAGGCGTGCCAGAAGGCCGTGTGACGA
71446062 CATCTTAATTTGAGACAAACAGGGGCG
131 CATCTTAATTTGAGACAAACAGGGGCG
71446089 AGCTACGGTG
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (157 bp):
CCGTGTCTATCCCCCCTGGACAACACTATCGAAATACCACGGATGTGTGTGGAGCTACACGACTG
TGGGAGAAGCGATCCACATCGCACACGGCTAAAGCACACAGGCGTGCCAGAAGGCCGTGTGACGA
CATCTTAATTTGAGACAAACAGGGGCG
Found at i:71452012 original size:39 final size:38
Alignment explanation
Indices: 71451937--71452243 Score: 319
Period size: 39 Copynumber: 7.9 Consensus size: 38
71451927 CAATCAGCAC
* *
71451937 CACAAAGCATGCGGGACTTTAAGCCCGGATATAATACCAG
1 CACAAAGCCTTCGGGAC-TT-AGCCCGGATATAATACCAG
* *
71451977 CACAAAGCCTACGGGACTTTAGCCCGAATATAATACCAG
1 CACAAAGCCTTCGGGAC-TTAGCCCGGATATAATACCAG
* *
71452016 CACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
1 CAC-AAAGCCTTCGGGACTTAGCCCGGATATAATACCAG
* *
71452055 GACAAATGCCTTCGGGACTTAGCCCGGATATAATACCGG
1 CACAAA-GCCTTCGGGACTTAGCCCGGATATAATACCAG
* **
71452094 TACGAATTCCTTCGGGACTTAGCCCGGATATAATACCAG
1 CAC-AAAGCCTTCGGGACTTAGCCCGGATATAATACCAG
** * * *
71452133 CACGAATTCCTTTGGGACTTAGCCTGGATATAATCCCAG
1 CAC-AAAGCCTTCGGGACTTAGCCCGGATATAATACCAG
* ** *
71452172 CATGAATTCCTTCGGGACTTAGCCCGGATATAACACCAG
1 CA-CAAAGCCTTCGGGACTTAGCCCGGATATAATACCAG
** *
71452211 CACAAATG-CTTTTGGACTTAACCCGGATATAAT
1 CACAAA-GCCTTCGGGACTTAGCCCGGATATAAT
71452244 TCTCCATTAT
Statistics
Matches: 231, Mismatches: 31, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
38 25 0.11
39 174 0.75
40 32 0.14
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
CACAAAGCCTTCGGGACTTAGCCCGGATATAATACCAG
Found at i:71452087 original size:78 final size:78
Alignment explanation
Indices: 71451948--71452243 Score: 398
Period size: 78 Copynumber: 3.8 Consensus size: 78
71451938 ACAAAGCATG
* * *
71451948 CGGGACTTTAAGCCCGGATATAATACCAGCACAAA-GCCTACGGGACTTTAGCCCGAATATAATA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTTCGGGAC-TTAGCCCGGATATAATA
*
71452012 CCAGCACGAATGCCTT
63 CCAGCACGAATTCCTT
* *
71452028 CGGGACTTAGCCCGGATATAACACCAGGACAAATGCCTTCGGGACTTAGCCCGGATATAATACCG
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCA
*
71452093 GTACGAATTCCTT
66 GCACGAATTCCTT
* * * * * *
71452106 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTTTGGGACTTAGCCTGGATATAATCCCA
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCA
*
71452171 GCATGAATTCCTT
66 GCACGAATTCCTT
** *
71452184 CGGGACTTAGCCCGGATATAACACCAGCACAAATG-CTTTTGGACTTAACCCGGATATAAT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
71452244 TCTCCATTAT
Statistics
Matches: 192, Mismatches: 23, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
77 22 0.11
78 152 0.79
79 12 0.06
80 6 0.03
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCA
GCACGAATTCCTT
Found at i:71452164 original size:117 final size:117
Alignment explanation
Indices: 71451948--71452216 Score: 362
Period size: 117 Copynumber: 2.3 Consensus size: 117
71451938 ACAAAGCATG
71451948 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGCCTACGGGACTTTAGCCCGAATATAATAC
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACAAAGCCTACGGGACTTTAGCCCGAATATAATAC
*
71452013 CAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA-CACCAGGACAAATGCCTT
64 CAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATC-CCAGCACAAATGCCTT
* * ** * *
71452067 CGGGACTTAGCCCGGATATAATACCGGTACGAATTCCTTCGGGAC-TTAGCCCGGATATAATACC
1 CGGGACTTAGCCCGGATATAATACCAGCAC-AAAGCCTACGGGACTTTAGCCCGAATATAATACC
* * * ** *
71452131 AGCACGAATTCCTTTGGGACTTAGCCTGGATATAATCCCAGCATGAATTCCTT
65 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATCCCAGCACAAATGCCTT
*
71452184 CGGGACTTAGCCCGGATATAACACCAGCACAAA
1 CGGGACTTAGCCCGGATATAATACCAGCACAAA
71452217 TGCTTTTGGA
Statistics
Matches: 131, Mismatches: 17, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
116 2 0.02
117 109 0.83
118 14 0.11
119 6 0.05
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (117 bp):
CGGGACTTAGCCCGGATATAATACCAGCACAAAGCCTACGGGACTTTAGCCCGAATATAATACCA
GCACGAATGCCTTCGGGACTTAGCCCGGATATAATCCCAGCACAAATGCCTT
Found at i:71458096 original size:39 final size:39
Alignment explanation
Indices: 71457801--71458089 Score: 391
Period size: 39 Copynumber: 7.4 Consensus size: 39
71457791 ACAAAGCATG
** *
71457801 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATTCCTT
* *
71457841 CGGGACTTTAGCCCAGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACGAATTCCTT
* * * *
71457881 CGGGACTTAGCCCGGATATAACACTAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
*
71457920 CGGGACTTAGCCCGGATATAATACCAGTACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
71457959 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
*
71457998 TGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
* * * *
71458037 CGGGACTTAACCCGGATATAACACCAACACAAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
* *
71458076 CGAGACTTAACCCG
1 CGGGACTTAGCCCG
71458090 TTTATAATTC
Statistics
Matches: 228, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 207 0.91
40 21 0.09
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
Found at i:71462684 original size:40 final size:40
Alignment explanation
Indices: 71462625--71462766 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
71462615 AAATTGAATG
* * *
71462625 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
71462665 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
71462705 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
71462745 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
71462767 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:71462767 original size:40 final size:39
Alignment explanation
Indices: 71462664--71462792 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
71462654 TGCTGGAAAT
* * *
71462664 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
71462704 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
71462744 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
71462784 TATATCCGG
1 TATATCCGG
71462793 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:71469638 original size:28 final size:28
Alignment explanation
Indices: 71469569--71469669 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
71469559 GACAAGATTG
* * * *
71469569 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71469599 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
71469627 GCACTAAGTGTGCGAG-CTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71469656 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71469670 GATTCACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 19 0.30
30 18 0.29
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71477574 original size:28 final size:28
Alignment explanation
Indices: 71477505--71477605 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71477495 GACAAGATTG
* * * *
71477505 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71477535 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71477563 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71477592 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71477606 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71482124 original size:40 final size:40
Alignment explanation
Indices: 71482042--71482222 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
71482032 ACCCAAGTAT
* ** *
71482042 CTTCGGGATTTAG-CCGGATATAG-CAACTCTCACAAATTC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
71482081 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
71482121 CTTCAGGACTTAGCCCGGATATAGTCAGTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
71482161 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
71482201 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
71482223 CATCCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 11 0.09
40 109 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:71489316 original size:40 final size:40
Alignment explanation
Indices: 71489238--71489417 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
71489228 ACCCAAGTAT
* *
71489238 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
71489277 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
71489317 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
71489357 CTTCGGGACTTAGCCC-GATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
71489396 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
71489418 CATCCGAATA
Statistics
Matches: 128, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 48 0.38
40 79 0.62
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:71489396 original size:79 final size:80
Alignment explanation
Indices: 71489238--71489417 Score: 267
Period size: 79 Copynumber: 2.3 Consensus size: 80
71489228 ACCCAAGTAT
* * *
71489238 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* **
71489302 CACTAGCATGAATGC
66 AACTAGCACAAATGC
71489317 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCC-GATATAG
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
71489380 TAACTTGCACAAATGC
65 TAACTAGCACAAATGC
71489396 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
71489418 CATCCGAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 53 0.58
80 38 0.41
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGC
Found at i:71491987 original size:27 final size:28
Alignment explanation
Indices: 71491930--71491999 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
71491920 AAAATTGTAC
**
71491930 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
71491958 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
71491985 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71492000 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:71492008 original size:27 final size:28
Alignment explanation
Indices: 71491901--71492011 Score: 102
Period size: 27 Copynumber: 4.0 Consensus size: 28
71491891 GACAAGATTG
* * *
71491901 GCACTAAGTGTGCGGATTTAAAATTGTACA
1 GCACTAAGTGTGCGGACTT--AATTATATA
* * *
71491931 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCGGACTTAATTATATA
* *
71491959 GCACTATGTGTGC-GAGC-TGATTATATA
1 GCACTAAGTGTGCGGA-CTTAATTATATA
71491986 GCACTAAGTGTGCGGACTT-ATTATAT
1 GCACTAAGTGTGCGGACTTAATTATAT
71492012 GCTTTTGCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
27 31 0.44
28 21 0.30
30 18 0.26
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGGACTTAATTATATA
Found at i:71499903 original size:27 final size:28
Alignment explanation
Indices: 71499846--71499915 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
71499836 AAAATTGTAC
**
71499846 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
71499874 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
71499901 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71499916 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:71499924 original size:27 final size:28
Alignment explanation
Indices: 71499817--71499927 Score: 102
Period size: 27 Copynumber: 4.0 Consensus size: 28
71499807 GACAAGATTG
* * *
71499817 GCACTAAGTGTGCGGATTTAAAATTGTACA
1 GCACTAAGTGTGCGGACTT--AATTATATA
* * *
71499847 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCGGACTTAATTATATA
* *
71499875 GCACTATGTGTGC-GAGC-TGATTATATA
1 GCACTAAGTGTGCGGA-CTTAATTATATA
71499902 GCACTAAGTGTGCGGACTT-ATTATAT
1 GCACTAAGTGTGCGGACTTAATTATAT
71499928 GCTTTTGCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
27 31 0.44
28 21 0.30
30 18 0.26
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGGACTTAATTATATA
Found at i:71510607 original size:21 final size:20
Alignment explanation
Indices: 71510583--71510628 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
71510573 CGAAATGCAA
71510583 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
71510604 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
71510624 T-AACC
1 TCAACC
71510629 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:71511503 original size:21 final size:21
Alignment explanation
Indices: 71511463--71511504 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
71511453 AAAATAATCA
* **
71511463 AAATTAATTCAAATTTATTAT
1 AAATTAATTAAAATACATTAT
71511484 AAATTAATTAAAATACATTAT
1 AAATTAATTAAAATACATTAT
71511505 GTTAATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTAATTAAAATACATTAT
Found at i:71520577 original size:27 final size:27
Alignment explanation
Indices: 71520539--71520593 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
71520529 CAATCAGGTT
71520539 TGAGTGCACACAGTTATTCTCTCGCTC
1 TGAGTGCACACAGTTATTCTCTCGCTC
71520566 TGAGTGCACACAGTTATTCTCTCGCTC
1 TGAGTGCACACAGTTATTCTCTCGCTC
71520593 T
1 T
71520594 TTCTCTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (27 bp):
TGAGTGCACACAGTTATTCTCTCGCTC
Found at i:71522108 original size:49 final size:49
Alignment explanation
Indices: 71522030--71522312 Score: 322
Period size: 49 Copynumber: 5.7 Consensus size: 49
71522020 AAAGCTATCT
*
71522030 GATACGCATAGTAGCCTGCACTTAGTACTACACATGTGATCAACAATTC
1 GATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCAACAATTC
*
71522079 GTTACACATAGTAGCCTGCACTTAGTACTACACATGTGATCAACAATTC
1 GATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCAACAATTC
* * * * *
71522128 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATC-ATCC
1 GATACACATAGTAGCCTGCACTTAGTACTACACATGTGA--TCAACAATTC
* *
71522178 GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAA-AGTCATT-
1 GATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCAACA---ATTC
* * * *
71522228 GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTAT-
1 GA-TACACATAGTAGCCTGCACTTAGTACTACACATGTGA-TCAACAAT-TC
* * *
71522279 GATACACGTAGTAGCCTACAGTTAGTACTACACA
1 GATACACATAGTAGCCTGCACTTAGTACTACACA
71522313 CGTGTTTTCA
Statistics
Matches: 204, Mismatches: 20, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
48 3 0.01
49 83 0.41
50 72 0.35
51 42 0.21
52 3 0.01
53 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (49 bp):
GATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCAACAATTC
Found at i:71522132 original size:26 final size:25
Alignment explanation
Indices: 71522054--71522128 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
71522044 CCTGCACTTA
71522054 GTACTACACATGTGATCAACAATTC
1 GTACTACACATGTGATCAACAATTC
* ** * *
71522079 GT--TACACATAGT-AGCCTGCACTTA
1 GTACTACACAT-GTGA-TCAACAATTC
71522103 GTACTACACATGTGATCAACAATTC
1 GTACTACACATGTGATCAACAATTC
71522128 G
1 G
71522129 GTACACGTAG
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
23 8 0.23
24 9 0.26
25 10 0.29
26 8 0.23
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (25 bp):
GTACTACACATGTGATCAACAATTC
Found at i:71522286 original size:101 final size:97
Alignment explanation
Indices: 71522032--71522316 Score: 351
Period size: 101 Copynumber: 2.9 Consensus size: 97
71522022 AGCTATCTGA
* *
71522032 TACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-TCAACAATTCGTTACACATAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGTGACTCAAC-ATT-GATACACGTAGTAGCCT
*
71522096 GCACTTAGTACTACACATGTGATCAACAATTCGG
64 GCACTTAGTACTACACACGTGATCAACAATTCGG
* * * * *
71522130 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATCCGATACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CTCAACAT-TGATACACGTAGTAGCCT
71522195 GCACTTAGTACTACACACGTGATCAA-AGTCATT-GAG
64 GCACTTAGTACTACACACGTGATCAACA---ATTCG-G
* *
71522231 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGATACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGTGACTCAACA-T-TGATACACGTAGTAGCCT
* *
71522296 ACAGTTAGTACTACACACGTG
64 GCACTTAGTACTACACACGTG
71522317 TTTTCACAAT
Statistics
Matches: 161, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
98 35 0.22
99 42 0.26
100 10 0.06
101 74 0.46
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (97 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGTGACTCAACATTGATACACGTAGTAGCCTGC
ACTTAGTACTACACACGTGATCAACAATTCGG
Found at i:71527996 original size:39 final size:39
Alignment explanation
Indices: 71527940--71528083 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
71527930 GAATGTTCGA
*
71527940 GTGATATCCGGGATAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
71527979 GTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
71528018 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
71528057 GTGATATCCGAGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
71528084 CTTTGTGCGG
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 84 0.90
40 9 0.10
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:71528035 original size:78 final size:79
Alignment explanation
Indices: 71527941--71528123 Score: 251
Period size: 78 Copynumber: 2.3 Consensus size: 79
71527931 AATGTTCGAG
* * *
71527941 TGATATCCGGGATAAGCCCGAAGGCAATTGTGCAAATTGTGATATCTGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGAGCTAAGTCCCGAAGGC
71528005 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
71528019 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGAGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGAGCTAAGTCCCGAAGGC
** *
71528084 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
71528098 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
71528124 GTTTGAACGA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 51 0.55
79 32 0.35
80 9 0.10
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGAGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:71532880 original size:51 final size:49
Alignment explanation
Indices: 71532745--71532930 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 49
71532735 GGAAGCTATC
* * * * *
71532745 TGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATC
1 TGATACACATAGTAGCCTACACTTAGTACTACACATGTGA-CTAATCATA
* * *
71532795 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCAT-
1 TGATACACATAGTAGCCTACACTTAGTACTACACATGTGA-CTAA-TCATA
* *
71532845 TGAGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACTTAA-CAATA
1 TGA-TACACATAGTAGCCTACACTTAGTACTACACATGTGAC-TAATC-ATA
*
71532896 TGATACACGTAGTAGCCTACACTTAGTACTACACA
1 TGATACACATAGTAGCCTACACTTAGTACTACACA
71532931 CATCCATTCA
Statistics
Matches: 118, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
49 1 0.01
50 75 0.64
51 42 0.36
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (49 bp):
TGATACACATAGTAGCCTACACTTAGTACTACACATGTGACTAATCATA
Found at i:71532923 original size:101 final size:101
Alignment explanation
Indices: 71532748--71532930 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 101
71532738 AGCTATCTGA
* * * *
71532748 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATCTGATACACGTAGTAGCCT
1 TACGCATAGTAGCCTACACTTAGTACTACACACGCGACCTCAACATATGATACACGTAGTAGCCT
*
71532813 GCACTTAGTACTACACATGTGATCGAAGTCATTGAG
66 ACACTTAGTACTACACATGTGATCGAAGTCATTGAG
* *
71532849 TACGCATAGTAGCCTACACTTAGTACTACACATGCGA-CTTAACAATATGATACACGTAGTAGCC
1 TACGCATAGTAGCCTACACTTAGTACTACACACGCGACCTCAAC-ATATGATACACGTAGTAGCC
71532913 TACACTTAGTACTACACA
65 TACACTTAGTACTACACA
71532931 CATCCATTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 4 0.05
101 70 0.95
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (101 bp):
TACGCATAGTAGCCTACACTTAGTACTACACACGCGACCTCAACATATGATACACGTAGTAGCCT
ACACTTAGTACTACACATGTGATCGAAGTCATTGAG
Found at i:71535782 original size:17 final size:17
Alignment explanation
Indices: 71535760--71535794 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
71535750 ATTCCCTTAT
*
71535760 TCAAGATTAAGTTGCAA
1 TCAAGATTAAGCTGCAA
71535777 TCAAGATTAAGCTGCAA
1 TCAAGATTAAGCTGCAA
71535794 T
1 T
71535795 TTTTGTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (17 bp):
TCAAGATTAAGCTGCAA
Found at i:71539810 original size:46 final size:46
Alignment explanation
Indices: 71539760--71539932 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
71539750 TGGTTGAGCA
71539760 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
71539806 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
71539851 CATCCGAACTTGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71539899 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71539933 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71539916 original size:93 final size:93
Alignment explanation
Indices: 71539757--71539927 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71539747 GGATGGTTGA
* * *
71539757 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
71539822 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
71539850 GCATCCGAACTTGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
71539915 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71539928 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:71547453 original size:47 final size:47
Alignment explanation
Indices: 71547335--71547507 Score: 189
Period size: 47 Copynumber: 3.7 Consensus size: 47
71547325 GGATGGTTGA
* *
71547335 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
71547383 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* * *
71547428 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
*
71547475 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
71547508 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.06
45 32 0.30
46 30 0.28
47 34 0.31
48 1 0.01
49 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:71547504 original size:92 final size:93
Alignment explanation
Indices: 71547335--71547504 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
71547325 GGATGGTTGA
* *
71547335 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
71547400 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
71547428 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
71547492 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71547505 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 40 0.55
93 33 0.45
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71547771 original size:19 final size:20
Alignment explanation
Indices: 71547734--71547771 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
71547724 ATAAGGTGGT
71547734 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
71547754 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
71547772 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:71550619 original size:26 final size:26
Alignment explanation
Indices: 71550543--71550612 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
71550533 CCAACACACC
* *
71550543 AATATTGCAGCAAAGTTGCCAGTAGT
1 AATATTGCAGCAAAGCTGCCAGTAAT
*
71550569 AATATTGCAGCAAAGCTGGCAGTAAT
1 AATATTGCAGCAAAGCTGCCAGTAAT
*
71550595 AATATTACAGCAAAGCTG
1 AATATTGCAGCAAAGCTG
71550613 TTAGTAACAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (26 bp):
AATATTGCAGCAAAGCTGCCAGTAAT
Found at i:71560076 original size:28 final size:27
Alignment explanation
Indices: 71560005--71560087 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
71559995 AGGAAGCGTC
71560005 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGTT
* *
71560032 CTGGTGGCTCTGCCACAAATATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGT-T
* *
71560060 CTGGTGACTATGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGTT
71560086 CT
1 CT
71560088 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 3 0.06
27 32 0.65
28 14 0.29
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGTT
Found at i:71566075 original size:40 final size:40
Alignment explanation
Indices: 71566016--71566157 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
71566006 AAATTGAATG
* * *
71566016 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
71566056 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
71566096 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
71566136 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
71566158 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:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:71566181 original size:40 final size:39
Alignment explanation
Indices: 71566054--71566183 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
71566044 ATGCTGGAAA
* * *
71566054 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
71566095 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
71566133 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
71566174 TTATATCCGG
1 TTATATCCGG
71566184 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:71572241 original size:31 final size:31
Alignment explanation
Indices: 71572198--71572261 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
71572188 CCTTTTCATA
*
71572198 TTTCATAATTCATAACATTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
71572229 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
71572260 TT
1 TT
71572262 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:71572504 original size:24 final size:24
Alignment explanation
Indices: 71572468--71572596 Score: 215
Period size: 24 Copynumber: 5.4 Consensus size: 24
71572458 CTGGAAGCCT
*
71572468 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
71572493 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
71572517 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
71572540 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
71572564 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
71572588 AGCCCTTTT
1 AGCCCTTTT
71572597 TCACTTCCTC
Statistics
Matches: 101, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
23 23 0.23
24 74 0.73
25 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:71572544 original size:47 final size:48
Alignment explanation
Indices: 71572468--71572596 Score: 215
Period size: 47 Copynumber: 2.7 Consensus size: 48
71572458 CTGGAAGCCT
*
71572468 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
71572517 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
71572564 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
71572597 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
47 45 0.59
48 27 0.36
49 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:71572667 original size:9 final size:9
Alignment explanation
Indices: 71572653--71572705 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
71572643 ACATCATGTG
71572653 CATATCATA
1 CATATCATA
*
71572662 CATATCATGTG
1 CATATCA--TA
71572673 CATATCATA
1 CATATCATA
*
71572682 CATGTCATGA
1 CATATCAT-A
71572692 GCATATCATA
1 -CATATCATA
71572702 CATA
1 CATA
71572706 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 19 0.53
10 2 0.06
11 15 0.42
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (9 bp):
CATATCATA
Found at i:71572670 original size:20 final size:20
Alignment explanation
Indices: 71572645--71572711 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
71572635 TTATGATTAC
71572645 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
71572665 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
71572685 GTCATGAGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71572705 ACCATGT
1 ATCATGT
71572712 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:71572780 original size:25 final size:25
Alignment explanation
Indices: 71572748--71572795 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71572738 ATACATAAAC
* * *
71572748 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
71572773 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
71572796 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:71580347 original size:30 final size:31
Alignment explanation
Indices: 71580311--71580373 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71580301 CCTTTTCATA
71580311 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
71580341 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
71580372 TT
1 TT
71580374 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:71580616 original size:24 final size:24
Alignment explanation
Indices: 71580580--71580708 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
71580570 CTGGAGGCCT
*
71580580 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
71580605 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
71580629 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
71580652 AGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
71580676 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
71580700 AGCCCTTTT
1 AGCCCTTTT
71580709 TCACTTCCTC
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 23 0.23
24 72 0.73
25 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:71580656 original size:47 final size:48
Alignment explanation
Indices: 71580580--71580708 Score: 206
Period size: 47 Copynumber: 2.7 Consensus size: 48
71580570 CTGGAGGCCT
* *
71580580 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATA
*
71580629 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATA
*
71580676 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
71580709 TCACTTCCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
47 44 0.59
48 27 0.36
49 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATA
Found at i:71580782 original size:20 final size:20
Alignment explanation
Indices: 71580757--71580823 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
71580747 TTATGATTAC
71580757 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
71580777 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71580797 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71580817 ACCATGT
1 ATCATGT
71580824 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:71580788 original size:11 final size:11
Alignment explanation
Indices: 71580757--71580812 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
71580747 TTATGATTAC
71580757 ATCATGTGCAT
1 ATCATGTGCAT
*
71580768 ATCA--TACAT
1 ATCATGTGCAT
71580777 ATCATGTGCAT
1 ATCATGTGCAT
*
71580788 ATCA--TACAT
1 ATCATGTGCAT
*
71580797 GTCATGTGCAT
1 ATCATGTGCAT
71580808 ATCAT
1 ATCAT
71580813 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:71580887 original size:25 final size:25
Alignment explanation
Indices: 71580859--71580906 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71580849 ATACATAAAC
* * *
71580859 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
71580884 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
71580907 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:71583968 original size:36 final size:36
Alignment explanation
Indices: 71583928--71583998 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
71583918 GGAGCGCATC
* *
71583928 AGTCAAAATAGATCCAAAAAGCTGTTGAACTGAATT
1 AGTCAAAATAGATCCAAAAAGCTGCTAAACTGAATT
* * *
71583964 AGTCAGAATAGATCTAAAAGGCTGCTAAACTGAAT
1 AGTCAAAATAGATCCAAAAAGCTGCTAAACTGAAT
71583999 AGAGTTTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (36 bp):
AGTCAAAATAGATCCAAAAAGCTGCTAAACTGAATT
Found at i:71585186 original size:31 final size:31
Alignment explanation
Indices: 71585151--71585213 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
71585141 GACCACATTG
71585151 ATATACCATAAGAAAAGTACCAAGAGGTGCT
1 ATATACCATAAGAAAAGTACCAAGAGGTGCT
*
71585182 ATATATCATAAGAAAAGTACCAAGAGGTGCT
1 ATATACCATAAGAAAAGTACCAAGAGGTGCT
71585213 A
1 A
71585214 AGTTCGGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (31 bp):
ATATACCATAAGAAAAGTACCAAGAGGTGCT
Found at i:71594217 original size:39 final size:40
Alignment explanation
Indices: 71594163--71594341 Score: 283
Period size: 40 Copynumber: 4.5 Consensus size: 40
71594153 AACCCATGTA
* *
71594163 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
71594202 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
71594242 CCTTCGAGACTTAGCCCAGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
71594281 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
71594321 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
71594342 GTCATCCGAA
Statistics
Matches: 129, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 50 0.39
40 78 0.60
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:71594294 original size:79 final size:80
Alignment explanation
Indices: 71594163--71594337 Score: 275
Period size: 79 Copynumber: 2.2 Consensus size: 80
71594153 AACCCATGTA
* * *
71594163 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
71594227 TCAATAGCACAAATG
66 TCAATAGCACAAATG
*
71594242 CCTTCGAGACTTAGCCCAGATATAGTC-ACTAGCAC-AATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCAGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
71594305 GTCACTAGCACAAATG
65 GTCAATAGCACAAATG
71594321 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
71594338 GGATGTCATC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
79 71 0.81
80 16 0.18
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATG
Found at i:71596635 original size:27 final size:27
Alignment explanation
Indices: 71596536--71596627 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
71596526 CCTTAATCGA
*
71596536 TAAAATGACTGTTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
71596563 TAAAATGACTGTTTTGCCCATATGTGA
1 TAAAATGACTGTTTTGCCCTTATGAGG
71596590 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
71596617 TAAAACGACTG
1 TAAAATGACTG
71596628 AAATGCCCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:71596653 original size:54 final size:54
Alignment explanation
Indices: 71596534--71596667 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 54
71596524 ACCCTTAATC
* * *** **
71596534 GATAAAATGACTGTTTTTCCCTTATGAGGTAAAATGACTGTTTTGCCCATATGT
1 GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
* *
71596588 GATAAAATGACTGTTTTGCCCTTATGAGGTAAAACGACTGAAATGCCCCTACAT
1 GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
* * * *
71596642 GGTAAATTGACTATTTTACCCCTATG
1 GATAAAATGACTGTTTTACCCTTATG
71596668 TGAGGTTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (54 bp):
GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
Found at i:71601718 original size:40 final size:40
Alignment explanation
Indices: 71601644--71601821 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
71601634 GAGTCACGTA
** *
71601644 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
71601683 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
71601723 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
71601763 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
71601803 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
71601822 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:71603933 original size:27 final size:27
Alignment explanation
Indices: 71603903--71603994 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
71603893 CCTTAATCGA
71603903 TAAAATGATTGTTTGGCTCTTATGAGG
1 TAAAATGATTGTTTGGCTCTTATGAGG
* * * * * *
71603930 TAAAATGACTATTTTGCCCCTATGTGG
1 TAAAATGATTGTTTGGCTCTTATGAGG
* *
71603957 TAAAATGACTAT-TTTGCCT-TTATGCGG
1 TAAAATGA-T-TGTTTGGCTCTTATGAGG
71603984 TAAAATGATTG
1 TAAAATGATTG
71603995 AAATGCCCCT
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 43 0.86
28 4 0.08
29 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (27 bp):
TAAAATGATTGTTTGGCTCTTATGAGG
Found at i:71605269 original size:13 final size:13
Alignment explanation
Indices: 71605251--71605277 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71605241 GAAGCACTTG
71605251 CACACGGGCGTGT
1 CACACGGGCGTGT
71605264 CACACGGGCGTGT
1 CACACGGGCGTGT
71605277 C
1 C
71605278 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:71610757 original size:40 final size:40
Alignment explanation
Indices: 71610670--71610957 Score: 391
Period size: 40 Copynumber: 7.2 Consensus size: 40
71610660 TCTTCAGAAT
* ** * *
71610670 TTAG-CCGGATATAACCACAAGCACGATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
71610709 TTAACCCGGGTATAGCAACTGGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
71610749 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCAGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
71610789 TTAGCCCGGATATAACAACTCACACGAATGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
71610829 TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
71610869 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
71610909 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
71610949 TTAGCCCGG
1 TTAGCCCGG
71610958 GTATCATTCA
Statistics
Matches: 224, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 3 0.01
40 220 0.98
41 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:71621497 original size:19 final size:20
Alignment explanation
Indices: 71621475--71621513 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
71621465 GTCATACTTA
71621475 TTAGCCACA-ATT-CATTCAT
1 TTAG-CACATATTCCATTCAT
71621494 TTAGCACATATTCCATTCAT
1 TTAGCACATATTCCATTCAT
71621514 CTCACATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAGCACATATTCCATTCAT
Found at i:71622552 original size:25 final size:25
Alignment explanation
Indices: 71622524--71622577 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
71622514 TTCAATATCC
* *
71622524 ATAACACTAATTGCATACTCATGGA
1 ATAACACCAATTCCATACTCATGGA
71622549 ATAACACCAATTCCATACTCATGGA
1 ATAACACCAATTCCATACTCATGGA
71622574 ATAA
1 ATAA
71622578 TCAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (25 bp):
ATAACACCAATTCCATACTCATGGA
Found at i:71624567 original size:7 final size:7
Alignment explanation
Indices: 71624555--71624582 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
71624545 GCCGAAGCCT
71624555 TTTCATA
1 TTTCATA
71624562 TTTCATA
1 TTTCATA
71624569 TTTCATA
1 TTTCATA
71624576 TTTCATA
1 TTTCATA
71624583 ACATTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:71624905 original size:26 final size:25
Alignment explanation
Indices: 71624831--71624916 Score: 111
Period size: 25 Copynumber: 3.4 Consensus size: 25
71624821 TAACTATGGC
* *
71624831 AAAGCCATTTTGATAAATTGGGGCA
1 AAAGCCCTTTTGATAAACTGGGGCA
*
71624856 AAAGCCCTTTTAATAAACTGGGGCA
1 AAAGCCCTTTTGATAAACTGGGGCA
*
71624881 AAAGCCCTTTTCGGTAAACTGGGGC-
1 AAAGCCCTTTT-GATAAACTGGGGCA
*
71624906 ATAGCCCTTTT
1 AAAGCCCTTTT
71624917 TGCACTTCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 43 0.80
26 11 0.20
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGCCCTTTTGATAAACTGGGGCA
Found at i:71624987 original size:20 final size:20
Alignment explanation
Indices: 71624964--71625010 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
71624954 TTATGAATAC
71624964 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
71624983 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
71625004 ATCATGT
1 ATCATGT
71625011 ATATTAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:71632648 original size:7 final size:7
Alignment explanation
Indices: 71632636--71632663 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
71632626 GCCGAAGCCT
71632636 TTTCATA
1 TTTCATA
71632643 TTTCATA
1 TTTCATA
71632650 TTTCATA
1 TTTCATA
71632657 TTTCATA
1 TTTCATA
71632664 ACACTAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:71632688 original size:31 final size:31
Alignment explanation
Indices: 71632650--71632713 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
71632640 ATATTTCATA
71632650 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** * *
71632681 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
71632712 TT
1 TT
71632714 ACTATAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:71632984 original size:25 final size:25
Alignment explanation
Indices: 71632922--71633004 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
71632912 CTGGAGGCCT
*
71632922 AGCCTCTTTTAAT-AACTTAGGC-AA
1 AGCC-CTTTTAATAAACTGAGGCAAA
*
71632946 AGCCCTTTTGATAAACTGAGGCAAA
1 AGCCCTTTTAATAAACTGAGGCAAA
* *
71632971 AGCCCTTGTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGAGGCAAA
71632996 AGCCCTTTT
1 AGCCCTTTT
71633005 CGGTAAACTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 7 0.14
24 12 0.24
25 32 0.63
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGAGGCAAA
Found at i:71633100 original size:20 final size:20
Alignment explanation
Indices: 71633077--71633123 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
71633067 TTATGAATAC
71633077 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
71633096 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
71633117 ATCATGT
1 ATCATGT
71633124 ATATCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:71637037 original size:18 final size:18
Alignment explanation
Indices: 71637014--71637053 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
71637004 CTGAAGCTGC
*
71637014 ACGGACGTGTGTGACCGT
1 ACGGACGTGTGTGACCAT
71637032 ACGGACGTGTGTGACCAT
1 ACGGACGTGTGTGACCAT
71637050 ACGG
1 ACGG
71637054 CCTACCCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.38, T:0.20
Consensus pattern (18 bp):
ACGGACGTGTGTGACCAT
Found at i:71639849 original size:34 final size:33
Alignment explanation
Indices: 71639744--71639849 Score: 77
Period size: 34 Copynumber: 3.0 Consensus size: 33
71639734 TAGGCAAATA
71639744 CAGTCTGGGCCTAAGCCCATTTCAGTAACATTCTAGTAC
1 CAGT-TGGGCCTAAGCCCATTTCAGT-A-A--C-AGTAC
* * * ** *
71639783 CAGTTAGGGCCTCAGCCCATTACAATCTCAGTAT
1 CAGTT-GGGCCTAAGCCCATTTCAGTAACAGTAC
*
71639817 CAGTGTGGGCCTTAGCCCATTTCAGTAACAGTA
1 CAGT-TGGGCCTAAGCCCATTTCAGTAACAGTA
71639850 ATAGAAATGC
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
34 30 0.56
35 2 0.04
38 1 0.02
39 21 0.39
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (33 bp):
CAGTTGGGCCTAAGCCCATTTCAGTAACAGTAC
Found at i:71646461 original size:46 final size:48
Alignment explanation
Indices: 71646311--71646482 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 48
71646301 GTCATTGTGG
* * * ** *
71646311 GCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGATA
* *
71646357 GCTAGTGAAAGACCATGTCTGGGACATGGCATCGG-TATCGAGATGAGT-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CAAGATGA-TA
*
71646405 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTACAAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGATA
* * *
71646451 GTTAGTGTAAGACCATGTATTGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
71646483 TAACATGAGA
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 35 0.34
47 42 0.40
48 26 0.25
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGATA
Found at i:71646476 original size:94 final size:94
Alignment explanation
Indices: 71646311--71646482 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 94
71646301 GTCATTGTGG
* ** *
71646311 GCTAGTGTAAGACGTGTCTGGGACATGCATCAGCCACATTATGAGAGCTAGTGAAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCTAGTGAAAGACCATGTA
71646376 TGGGACATGGCATCGGTATCGAGATGAGT
66 TGGGACATGGCATCGGTATCGAGATGAGT
** * * * *
71646405 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCTACAAGATGATAGTTAGTGTAAGACCATGTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCTAGTGAAAGACCATGTA
*
71646470 TTGGACATGGCAT
66 TGGGACATGGCAT
71646483 TAACATGAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 67 1.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCTAGTGAAAGACCATGTA
TGGGACATGGCATCGGTATCGAGATGAGT
Found at i:71651656 original size:6 final size:6
Alignment explanation
Indices: 71651624--71651742 Score: 57
Period size: 6 Copynumber: 19.3 Consensus size: 6
71651614 AAGAAACATT
* * * *
71651624 ATCAGA A-CTAGA ATCAAA ATAAAA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
71651673 ATCAGA ATCAAA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
71651724 AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
71651743 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 6 0.07
6 66 0.79
7 8 0.10
8 4 0.05
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:71651678 original size:25 final size:25
Alignment explanation
Indices: 71651647--71651714 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
71651637 TCAAAATAAA
71651647 AATCAGAATCAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGGTGACAG
* *
71651672 AATCAGAATCAAAATTAGGTGACAG
1 AATCAGAATCAGAATCAGGTGACAG
*
71651697 AATTAGAATCAGAATCAG
1 AATCAGAATCAGAATCAG
71651715 TATCAGGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTGACAG
Found at i:71651730 original size:31 final size:31
Alignment explanation
Indices: 71651669--71651742 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
71651659 AATCAGGTGA
* *
71651669 CAGAATCAGAATCAAAATTAGGTGACAGAAT
1 CAGAATCAGAATCAAAATCAGGTAACAGAAT
* ** *
71651700 TAGAATCAGAATCAGTATCAGGTAATAGAAT
1 CAGAATCAGAATCAAAATCAGGTAACAGAAT
*
71651731 CAAAATCAGAAT
1 CAGAATCAGAAT
71651743 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (31 bp):
CAGAATCAGAATCAAAATCAGGTAACAGAAT
Found at i:71651966 original size:71 final size:67
Alignment explanation
Indices: 71651887--71652028 Score: 167
Period size: 67 Copynumber: 2.1 Consensus size: 67
71651877 TCACTAGATA
* * * *
71651887 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCAAAGCCACCAAATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAAC--A-A-ATATATGTGGCAAAGCCACCAAATTGCAACGA
71651952 GGCTGC
62 GGCTGC
* * * * *
71651958 CAGATATTGTGACGAAGTCACCAGAACAAATATATGTGGCGAGGCCACCAGATTGCAACGAGGTT
1 CAGATATTGTGACGAAGCCACCAGAACAAATATATGTGGCAAAGCCACCAAATTGCAACGAGGCT
71652023 GC
66 GC
71652025 CAGA
1 CAGA
71652029 ATGTTTCCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
67 37 0.60
68 1 0.02
69 1 0.02
71 23 0.37
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAAATATATGTGGCAAAGCCACCAAATTGCAACGAGGCT
GC
Found at i:71652274 original size:27 final size:27
Alignment explanation
Indices: 71652244--71652598 Score: 453
Period size: 27 Copynumber: 13.2 Consensus size: 27
71652234 AACACCCTAG
** * **
71652244 GGGTAAAATGGTAATTTTATAAATTAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71652271 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71652298 AGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
71652325 GGGT-AAACAGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
71652351 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
71652378 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71652405 GGGCAAAAC-GATAATTCTGTAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
* *
71652432 GGGTAAAACAGTAATTCTGTAACTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
71652459 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
71652486 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
71652513 GGGTAAAACAGTAATTTTTTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
71652540 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71652567 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
71652594 GGGTA
1 GGGTA
71652599 CTTTGCTAAT
Statistics
Matches: 289, Mismatches: 36, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 25 0.09
27 263 0.91
28 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:71652621 original size:54 final size:54
Alignment explanation
Indices: 71652244--71652643 Score: 340
Period size: 54 Copynumber: 7.4 Consensus size: 54
71652234 AACACCCTAG
** * ** * * **
71652244 GGGTAAAATGGTAATTTTATAAATTAAGGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATTTTACAAATCGA
* * * * *
71652298 AGGTAAAACAGTAATTCTGTAAATCGAGGGT-AAACAG-TAATTCTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAAC-GCTAATTTTACAAATCGA
* * **
71652351 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATTTTACAAATCGA
* * * ** *
71652405 GGGCAAAAC-GATAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAACTCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGAGGGTAAAAC-GCTAATTTTACAAATCGA
* * * ** *
71652459 GGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATTTTACAAATCGA
* * **
71652513 GGGTAAAACAGTAATTTTTTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATTTTACAAATCGA
* * **** *
71652567 GGGTAAAATAGTAATTTTGTAAATTGAGGGTACTTTGCTAATTTTACAAGTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATTTTACAAATCGA
*** *
71652621 GGGTATTTCAGTAATTTGGTAAA
1 GGGTAAAACAGTAATTTTGTAAA
71652644 CTAAAGTATT
Statistics
Matches: 294, Mismatches: 45, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
53 49 0.17
54 244 0.83
55 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATTTTACAAATCGA
Found at i:71654800 original size:31 final size:31
Alignment explanation
Indices: 71654762--71654871 Score: 121
Period size: 31 Copynumber: 3.4 Consensus size: 31
71654752 AATCAAAATG
71654762 AAAATCAGAATTAGAATCAGGTGACAGAATC
1 AAAATCAGAATTAGAATCAGGTGACAGAATC
*
71654793 AAAATCAGAATTAGAATCAAAATTAGGTGACAGAATT
1 AAAATCAGAATTAGAATC------AGGTGACAGAATC
* * * *
71654830 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AAAATCAGAATTAGAATCAGGTGACAGAATC
71654861 AAAATCAGAAT
1 AAAATCAGAAT
71654872 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
31 39 0.59
37 27 0.41
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (31 bp):
AAAATCAGAATTAGAATCAGGTGACAGAATC
Found at i:71654848 original size:12 final size:12
Alignment explanation
Indices: 71654741--71654871 Score: 54
Period size: 12 Copynumber: 10.7 Consensus size: 12
71654731 AAGAAACATT
71654741 ATCAGAA-CTAGA
1 ATCAGAATC-AGA
* * *
71654753 ATCAAAATGAAA
1 ATCAGAATCAGA
*
71654765 ATCAGAATTAGA
1 ATCAGAATCAGA
*
71654777 ATCAG-GTGACAGA
1 ATCAGAAT--CAGA
*
71654790 ATCAAAATCAGA
1 ATCAGAATCAGA
* *
71654802 ATTAGAATCAAA
1 ATCAGAATCAGA
* *
71654814 ATTAG-GTGACAGA
1 ATCAGAAT--CAGA
*
71654827 ATTAGAATCAGA
1 ATCAGAATCAGA
*
71654839 ATCAGTATCAGGTA
1 ATCAGAATCA-G-A
*
71654853 A-CAGAATCAAA
1 ATCAGAATCAGA
71654864 ATCAGAAT
1 ATCAGAAT
71654872 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
11 4 0.04
12 58 0.65
13 23 0.26
14 4 0.04
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (12 bp):
ATCAGAATCAGA
Found at i:71654871 original size:37 final size:37
Alignment explanation
Indices: 71654750--71654871 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
71654740 TATCAGAACT
* * * *
71654750 AGAATCAAAATGAAAATCAGAATTAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* * * *
71654787 AGAATCAAAATCAGAATTAGAATCAAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
*
71654824 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
71654855 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
71654872 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
31 25 0.37
32 1 0.01
36 1 0.01
37 41 0.60
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:71655335 original size:27 final size:27
Alignment explanation
Indices: 71655276--71655630 Score: 374
Period size: 27 Copynumber: 13.2 Consensus size: 27
71655266 AACACCCTAG
* *
71655276 GGGTAAAACGGTAATTTT-AAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71655302 AGTTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* **
71655329 GGGTAAAAC-GATAATTCTAAAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
** *
71655356 GGGTAAAGTAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71655383 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71655410 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71655437 GGGTAAAA-TGATAATTCTGTAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
** * *
71655464 GGGTAAAATGGTAATTTTGAAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * *
71655491 GGGTAAAATAGTAATGTTGTAATTTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
71655518 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71655545 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71655572 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
71655599 TGGTGAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
71655626 GGGTA
1 GGGTA
71655631 CTTTGGTAAT
Statistics
Matches: 276, Mismatches: 48, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
26 17 0.06
27 257 0.93
28 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:71655666 original size:27 final size:27
Alignment explanation
Indices: 71655608--71655669 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
71655598 ATGGTGAAAC
**
71655608 AGTAATTTTGTAAATCGAGGGTACTTT
1 AGTAATTTTACAAATCGAGGGTACTTT
* * *
71655635 GGTAATTTTACAAGTCGAGGGTATTTT
1 AGTAATTTTACAAATCGAGGGTACTTT
71655662 AGTAATTT
1 AGTAATTT
71655670 GGTAAACTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (27 bp):
AGTAATTTTACAAATCGAGGGTACTTT
Done.