Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 201 of 311
Found at i:69218633 original size:117 final size:117
Alignment explanation
Indices: 69218487--69218702 Score: 321
Period size: 117 Copynumber: 1.8 Consensus size: 117
69218477 TTCCAACACA
* * *
69218487 AATGCCTTCGGGACTTAGCTCGAATATAACACCAGCACGAAT-ACCTTCGGGACTTAGCTC-GAA
1 AATGCCTTCGGGACTTAGCTCGAACATAACACCAGCACGAATGA-CTTCAGGACTTAGCCCAG-A
*
69218550 TATAACACTAGCACGAATGCCTTCGAGACTTAGCCCACACATAACACCAGCACG
64 TATAACACCAGCACGAATGCCTTCGAGACTTAGCCCACACATAACACCAGCACG
* *
69218604 AATGCCTTCGGGACTTAGC-CTGGACATAACACCAGCACGATTGACTTCAGGACTTAGCCCAGAT
1 AATGCCTTCGGGACTTAGCTC-GAACATAACACCAGCACGAATGACTTCAGGACTTAGCCCAGAT
*
69218668 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCC
65 ATAACACCAGCACGAATGCCTTCGAGACTTAGCCC
69218703 GGATATAAAT
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
116 1 0.01
117 86 0.97
118 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (117 bp):
AATGCCTTCGGGACTTAGCTCGAACATAACACCAGCACGAATGACTTCAGGACTTAGCCCAGATA
TAACACCAGCACGAATGCCTTCGAGACTTAGCCCACACATAACACCAGCACG
Found at i:69226743 original size:20 final size:20
Alignment explanation
Indices: 69226718--69226756 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
69226708 GGATTTTCGT
*
69226718 AATTTTTGAGAATTTGGTAA
1 AATTTTTGAAAATTTGGTAA
*
69226738 AATTTTTTAAAATTTGGTA
1 AATTTTTGAAAATTTGGTA
69226757 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
AATTTTTGAAAATTTGGTAA
Found at i:69226988 original size:84 final size:85
Alignment explanation
Indices: 69226846--69227017 Score: 319
Period size: 84 Copynumber: 2.0 Consensus size: 85
69226836 TTTATAATTT
* *
69226846 TGGACTTAAGGAGTTAGGGGCATTGGTTAGATGGCCTTATAAAAAGATGTAGGTAAAATGTAACA
1 TGGACTTAAGGAGTTAGGGGCACTGGTTACATGGCCTTATAAAAAGATGTAGGTAAAATGTAACA
69226911 CAAGAGAGCCTCTGGCATAG
66 CAAGAGAGCCTCTGGCATAG
69226931 TGGACTTAAGGAGTTA-GGGCACTGGTTACATGGCCTTATAAAAAGATGTAGGTAAAATGTAACA
1 TGGACTTAAGGAGTTAGGGGCACTGGTTACATGGCCTTATAAAAAGATGTAGGTAAAATGTAACA
69226995 CAAGAGAGCCTCTGGCATAG
66 CAAGAGAGCCTCTGGCATAG
69227015 TGG
1 TGG
69227018 CTAAGTGACG
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
84 69 0.81
85 16 0.19
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (85 bp):
TGGACTTAAGGAGTTAGGGGCACTGGTTACATGGCCTTATAAAAAGATGTAGGTAAAATGTAACA
CAAGAGAGCCTCTGGCATAG
Found at i:69229052 original size:25 final size:23
Alignment explanation
Indices: 69229007--69229061 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
69228997 AGTTAGTAAT
*
69229007 AAAGAAATGGAGAAAAAAAAAGA
1 AAAGAAAAGGAGAAAAAAAAAGA
*
69229030 GAAAGAAAAGGATGAAAACAAAAGA
1 -AAAGAAAAGGA-GAAAAAAAAAGA
69229055 AAA-AAAA
1 AAAGAAAA
69229062 TGTGTCCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 13 0.46
25 11 0.39
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAGAAAAGGAGAAAAAAAAAGA
Found at i:69230404 original size:39 final size:41
Alignment explanation
Indices: 69230303--69230486 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
69230293 TCGAATGATG
* * *
69230303 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
69230343 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
69230383 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
69230422 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
69230462 ACCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69230487 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
39 49 0.39
40 67 0.53
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:69230439 original size:79 final size:80
Alignment explanation
Indices: 69230303--69230484 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
69230293 TCGAATGATG
* *
69230303 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
69230367 TGTGCGAGTTACTA-A
65 TGTGCGAGTTACTATA
* * * **
69230382 TTCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
69230445 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* * *
69230462 ACCGGGCTATGTCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATT
69230485 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 70 0.79
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:69230493 original size:79 final size:78
Alignment explanation
Indices: 69230356--69230519 Score: 206
Period size: 79 Copynumber: 2.1 Consensus size: 78
69230346 GGACTAAGAT
* **
69230356 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
69230420 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* * *
69230435 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTA
* *
69230499 TATCCGGTTAAATT
65 AATCCGGTTAAATC
69230513 CCGAAGG
1 CCGAAGG
69230520 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 18 0.24
79 56 0.76
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:69237040 original size:23 final size:25
Alignment explanation
Indices: 69237014--69237070 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
69237004 AGTTAGTAAT
*
69237014 AAAGAAATGGA-GAAAA-AAAAGAG
1 AAAGAAATGGATGAAAACAAAAGAA
*
69237037 AAAGAAAAGGATGAAAACAAAAGAA
1 AAAGAAATGGATGAAAACAAAAGAA
*
69237062 AAAAAAATG
1 AAAGAAATG
69237071 TGTCCATCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 10 0.36
24 5 0.18
25 13 0.46
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (25 bp):
AAAGAAATGGATGAAAACAAAAGAA
Found at i:69238388 original size:40 final size:39
Alignment explanation
Indices: 69238304--69238488 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
69238294 TCGAATGATG
* * * *
69238304 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
69238344 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69238384 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
69238423 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
69238464 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
69238489 AATGAGTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69238440 original size:79 final size:81
Alignment explanation
Indices: 69238304--69238486 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
69238294 TCGAATGATG
* *
69238304 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
69238368 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
69238383 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
69238445 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
69238463 ACCAGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
69238487 TGAATGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:69246192 original size:11 final size:10
Alignment explanation
Indices: 69246160--69246196 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
69246150 CATGAGATTT
69246160 TGATAT-ACA
1 TGATATGACA
69246169 TGATATGACA
1 TGATATGACA
69246179 TGATATGCACA
1 TGATATG-ACA
69246190 TGATATG
1 TGATATG
69246197 TTATGAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:69246202 original size:21 final size:21
Alignment explanation
Indices: 69246166--69246230 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
69246156 ATTTTGATAT
**
69246166 ACATGATATGACATGATATGC
1 ACATGATATGTTATGATATGC
* *
69246187 ACATGATATGTTATGAGATAC
1 ACATGATATGTTATGATATGC
* * *
69246208 ACAAGATATATTCATTATATGC
1 ACATGATATGTT-ATGATATGC
69246230 A
1 A
69246231 TGGGCTGGGT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (21 bp):
ACATGATATGTTATGATATGC
Found at i:69246330 original size:25 final size:25
Alignment explanation
Indices: 69246261--69246333 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
69246251 GGAGGAAGTG
* *
69246261 CAAAAAGGGCTTTGCCCCAATTTAC
1 CAAAAAGGGCTTTGCCCCAGTTAAC
* *
69246286 CGAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAAGGGCTTTGCCCCAGTTAAC
*
69246311 CAAAAAGTGCTTTGCCCCAGTTA
1 CAAAAAGGGCTTTGCCCCAGTTA
69246334 TTAAAAGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTAAC
Found at i:69253376 original size:11 final size:11
Alignment explanation
Indices: 69253336--69253376 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
69253326 TTTGATATAA
69253336 ATGATATG-AC
1 ATGATATGTAC
*
69253346 ATGATATGCAC
1 ATGATATGTAC
69253357 ATGATATGTAC
1 ATGATATGTAC
69253368 ATGATATGT
1 ATGATATGT
69253377 TATGAGATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGTAC
Found at i:69261233 original size:14 final size:13
Alignment explanation
Indices: 69261214--69261247 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
69261204 ATTTGACTTA
69261214 TTCTTAATTATGTG
1 TTCTTAATTAT-TG
69261228 TTCTTAATTATTG
1 TTCTTAATTATTG
69261241 TT-TTAAT
1 TTCTTAAT
69261248 ATTCCAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (13 bp):
TTCTTAATTATTG
Found at i:69261474 original size:128 final size:128
Alignment explanation
Indices: 69261246--69261502 Score: 496
Period size: 128 Copynumber: 2.0 Consensus size: 128
69261236 TATTGTTTTA
*
69261246 ATATTCCAGGATATTGCTTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCCTGTCTAAGAG
1 ATATTCCAGGATATTGATTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCCTGTCTAAGAG
69261311 TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
66 TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
*
69261374 ATATTCCAGGATATTGATTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCTTGTCTAAGAG
1 ATATTCCAGGATATTGATTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCCTGTCTAAGAG
69261439 TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
66 TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
69261502 A
1 A
69261503 GATTAGGGTG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (128 bp):
ATATTCCAGGATATTGATTCAAGTTAATACTCTTATTCAGAGGAGGAATAGACCCTGTCTAAGAG
TAAATTTGTCATAATTAAGCGCAGTTGAGTGCAAGACTAGAGATAGGGTGATAAGATTTTACC
Found at i:69262428 original size:53 final size:54
Alignment explanation
Indices: 69262360--69262566 Score: 217
Period size: 53 Copynumber: 3.9 Consensus size: 54
69262350 TTTCCTTTTT
* * * *
69262360 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
*
69262413 GAACTCACCAATGCCATGCCTTCG-CATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTT-GACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * *
69262467 GTAACTCATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
69262522 GAACTTATCC-ATGCCAGGCCTTGACGTGGTCTTACAT-ATATCCTT
1 GAACTCA-CCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
69262567 ATCTTACCAA
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 50 0.39
54 31 0.24
55 44 0.34
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:69262498 original size:55 final size:53
Alignment explanation
Indices: 69262371--69262558 Score: 209
Period size: 55 Copynumber: 3.5 Consensus size: 53
69262361 AACTTACCAT
* * *
69262371 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
*
69262424 TGCCATGCCTTCG-CATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTT-GACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * * * *
69262479 TGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCCA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* *
69262533 TGCCAGGCCTTGACGTGGTCTTACAT
1 TGCCATGCCTTGACATGGTCTTACAT
69262559 ATATCCTTAT
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 33 0.29
55 43 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:69262711 original size:47 final size:48
Alignment explanation
Indices: 69262591--69262711 Score: 113
Period size: 47 Copynumber: 2.5 Consensus size: 48
69262581 CTTGTTACAA
* * *
69262591 ACATGGTCTTACATGGTATCCTT-GTCTTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTTAATC-TAATGCCAATGCCACACCTTG
** * * * **
69262639 ATGTTGCCTTACATGG-AGTCTTTAATC-AATGCCAATGCCATGCCTTG
1 ACATGGTCTTACATGGTA-TCCTTAATCTAATGCCAATGCCACACCTTG
69262686 ACATGGTCTTACATGGTATCCTTAAT
1 ACATGGTCTTACATGGTATCCTTAAT
69262712 TATCAATTCC
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
47 36 0.65
48 17 0.31
49 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (48 bp):
ACATGGTCTTACATGGTATCCTTAATCTAATGCCAATGCCACACCTTG
Found at i:69266916 original size:46 final size:46
Alignment explanation
Indices: 69266863--69267038 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
69266853 TGGTTGAGCA
* *
69266863 TCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
** * * * * * *
69266909 TTTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-GCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
*
69266956 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
69267002 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69267039 GTGGGTTACG
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.67
47 33 0.31
48 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:69267019 original size:93 final size:93
Alignment explanation
Indices: 69266860--69267030 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
69266850 GGATGGTTGA
* ***
69266860 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAATGTTTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69266925 TGAGTCCGAGTTCGTGAGATGTAGCTAG
66 TGAGTCCGAGTTCGTGAGATGTAGCTAG
* * *
69266953 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69267018 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
69267031 ACTTATGGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAGCTAG
Found at i:69270524 original size:40 final size:40
Alignment explanation
Indices: 69270469--69270693 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
69270459 TATTCGGATG
* *
69270469 ATATCTGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
69270509 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
69270552 ATACCCGGGCTAAGTCCCGAAGGCATTTTTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
69270592 ATTTCCGGGCTAAGACCGGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
69270632 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
69270672 ATATCC-GGCTAAATCCCAAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
69270694 TACTTGGTTT
Statistics
Matches: 156, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
39 13 0.08
40 106 0.68
41 1 0.01
43 36 0.23
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:69270614 original size:83 final size:80
Alignment explanation
Indices: 69270475--69270663 Score: 252
Period size: 83 Copynumber: 2.3 Consensus size: 80
69270465 GATGATATCT
* * * *
69270475 GGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTGTG
*
69270540 CGAGTAGTTGCTATACCC
66 C--G-AGTTACTATACCC
* * * *
69270558 GGGCTAAGTCCCGAAGGCATTTTTGCTAGTGACTATTTCCGGGCTAAGACCGGAAGGCATGTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTGTG
*
69270623 CGAGTTACTATATCC
66 CGAGTTACTATACCC
*
69270638 GGGTTAAGTCCCGAAGGCATTTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGC
69270664 GAGTTGCGAT
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 35 0.37
81 1 0.01
83 58 0.62
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTGTG
CGAGTTACTATACCC
Found at i:69272301 original size:22 final size:19
Alignment explanation
Indices: 69272255--69272305 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
69272245 CGGGTTTGGG
*
69272255 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTACC
69272274 ACACGGGCGTGTCCCTATACCC
1 ACACGGGCGTGTCCC--TA-CC
69272296 ACACGGGCGT
1 ACACGGGCGT
69272306 ATGAAGCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 15 0.54
21 2 0.07
22 11 0.39
ACGTcount: A:0.18, C:0.37, G:0.29, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTCCCTACC
Found at i:69276392 original size:40 final size:40
Alignment explanation
Indices: 69276337--69276515 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
69276327 TACTCGCTAA
* * *
69276337 CTTCGGGACATAGCCCTGATGTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
69276377 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* *
69276417 CTTCAGGG-CTTAACTCGGATATAGTAACTCGC-CACAATGC
1 CTTC-GGGACTTAGCCCGGATATAGTAACTCGCACA-AATGC
* * *
69276457 CTTCGGGACTTAGCCCGGA-ACTAGTCCACTAGCGCAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGT-AACTCGCACAAATGC
69276498 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
69276516 TTATCATCCG
Statistics
Matches: 124, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
39 6 0.05
40 85 0.69
41 31 0.25
42 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:69279349 original size:27 final size:27
Alignment explanation
Indices: 69279318--69279494 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
69279308 TAAATTGTAC
69279318 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
69279345 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69279371 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
69279399 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
69279427 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69279454 AGCACTAAGTGT-CGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69279480 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69279495 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 82 0.65
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69279459 original size:82 final size:80
Alignment explanation
Indices: 69279319--69279473 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 80
69279309 AAATTGTACA
* *
69279319 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
69279384 GCGAATTGACCATGCG
66 -CGAATTGACCATGCG
** *
69279400 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
69279464 GTCGAGTTGA
64 GTCGAATTGA
69279474 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 23 0.35
82 43 0.65
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
CGAATTGACCATGCG
Found at i:69287421 original size:27 final size:26
Alignment explanation
Indices: 69287390--69287565 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 26
69287380 AAATTGTTAC
69287390 AGCACTAAAGTGTGCGATTGACTATGT
1 AGCACT-AAGTGTGCGATTGACTATGT
* * *
69287417 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
*
69287443 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
69287471 CGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
69287498 AGCCACTAAGTGTGCGATTGATTACGT
1 AG-CACTAAGTGTGCGATTGACTATGT
*
69287525 AGCACTAAGTGTGCGAGTTGA-TATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
69287551 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69287566 GACTCAATAT
Statistics
Matches: 128, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
26 41 0.32
27 73 0.57
28 14 0.11
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:69287530 original size:81 final size:81
Alignment explanation
Indices: 69287391--69287545 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
69287381 AATTGTTACA
* *
69287391 GCACTAAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
69287456 GCGAATTGACCATGTC
66 GCGAATTGACCATGTC
* *
69287472 GCACT-AAGTGTGCGAGTTGACTATGTAGCCACTAAGTGTGCG-ATTGATTACG-TAGCACTAAG
1 GCACTAAAGTGTGCGA-TTGACTATGTAG-CACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
*
69287534 TGTGCGAGTTGA
63 TGTGCGAATTGA
69287546 TATATAGCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 11 0.17
81 42 0.64
82 13 0.20
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGTC
Found at i:69291909 original size:31 final size:31
Alignment explanation
Indices: 69291874--69291934 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
69291864 CACTCAAAAC
69291874 CGAGTAGCACAAGTTGTCTAACATAATTTAT
1 CGAGTAGCACAAGTTGTCTAACATAATTTAT
69291905 CGAGTAGCACAAGTTGTCTAACATAATTTA
1 CGAGTAGCACAAGTTGTCTAACATAATTTA
69291935 AAACCTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (31 bp):
CGAGTAGCACAAGTTGTCTAACATAATTTAT
Found at i:69298411 original size:54 final size:54
Alignment explanation
Indices: 69298218--69298425 Score: 176
Period size: 54 Copynumber: 3.9 Consensus size: 54
69298208 TTTTCTTTTT
* * * *
69298218 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * ** *
69298271 GAACTCACCAATTCTATG-CGTTCG-CATGGTCTTACATGGGA-CCTTTCCCTT-TCA
1 GAACTCACCAATGCCATGTC-TT-GACATGGTCTTACATGATATCC-TTGCCTTAT-A
* * *
69298325 GTAACTCATCAATACCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
69298380 GAACTTATCAATGCCAT-TCCTTGGCATGGTCTTACATGATCTCCTT
1 GAACTCACCAATGCCATGT-CTTGACATGGTCTTACATGATATCCTT
69298426 ATCTTACCAA
Statistics
Matches: 126, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
52 4 0.03
53 38 0.30
54 42 0.33
55 38 0.30
56 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (54 bp):
GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:69305034 original size:54 final size:54
Alignment explanation
Indices: 69304844--69305051 Score: 222
Period size: 55 Copynumber: 3.9 Consensus size: 54
69304834 TTTCCTTTTT
* * * * *
69304844 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * ** * *
69304897 GAACTCACCAATGCCATGCATTGGCATGGTCTTACATGGGA-CCTTTCCCTTTTA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
69304951 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
69305006 GAACTTATCAATGCCAAGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
69305052 ATCTTACCTA
Statistics
Matches: 128, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 41 0.32
54 41 0.32
55 42 0.33
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:69305137 original size:48 final size:47
Alignment explanation
Indices: 69305078--69305195 Score: 127
Period size: 47 Copynumber: 2.5 Consensus size: 47
69305068 CTTTCCAAAC
* *
69305078 ATGGTCTTACATGGTATCCTT-GTCATAGTGCCA-ATGCCACATCTTGATG
1 ATGGTCTTACATGGTATCCTTAATCA-A-TG-CAGATGCCACACCTTGA-G
**
69305127 -TGGTCTTACATGG-AGTCCTTAATCAATGCAGATGCCATGCCTTGAG
1 ATGGTCTTACATGGTA-TCCTTAATCAATGCAGATGCCACACCTTGAG
69305173 ATGGTCTTACATGGTATCCTTAA
1 ATGGTCTTACATGGTATCCTTAA
69305196 CTGTCAATTC
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
46 3 0.05
47 34 0.57
48 20 0.33
49 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTAATCAATGCAGATGCCACACCTTGAG
Found at i:69305277 original size:44 final size:44
Alignment explanation
Indices: 69305198--69305282 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
69305188 ATCCTTAACT
** *
69305198 GTCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTTCC
1 GTCAATTCCTCCTTAAATGCCATGGCATCAACATGGACTTTTCC
* *
69305242 GTCAATTCTTCCTTAATTGCCATGGCA-CAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGCATCAA-CATGGACTTT
69305283 GAGATATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGCATCAACATGGACTTTTCC
Found at i:69307921 original size:42 final size:41
Alignment explanation
Indices: 69307800--69307921 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 41
69307790 TACCATGCCA
*
69307800 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GAATCTCATATCG
* *
69307842 ATGCCAATAGT-CTAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCC-ATA-TCCCAGATATGGTCTTACATGAA-TCTCATATCG
*
69307885 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATG-AATCTCA
69307922 AATAACCCTA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 31 0.45
43 36 0.52
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:69324414 original size:24 final size:25
Alignment explanation
Indices: 69324359--69324408 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
69324349 CTTCCACAGG
69324359 GATACTTTCAAAAACTCTGTATCCC
1 GATACTTTCAAAAACTCTGTATCCC
69324384 GATACTTTCAAAAACTCTGTATCCC
1 GATACTTTCAAAAACTCTGTATCCC
69324409 TAACTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (25 bp):
GATACTTTCAAAAACTCTGTATCCC
Found at i:69330107 original size:49 final size:47
Alignment explanation
Indices: 69329991--69330112 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 47
69329981 AATGCCGATG
* * * **
69329991 CCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACC
* * * *
69330038 CCATGTCCCAAACATAGTCTTACACTGACT-ATCGAAATTGAGGCCGACC
1 CCATGTCCCAGACATGGTCTTACACTGACTCATC--AA-TCAAGCCGACC
69330087 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
69330113 AGCTCTCATA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
46 3 0.05
47 27 0.44
48 1 0.02
49 30 0.49
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACC
Found at i:69332711 original size:42 final size:43
Alignment explanation
Indices: 69332602--69332714 Score: 156
Period size: 43 Copynumber: 2.7 Consensus size: 43
69332592 AAGCTCATCA
* * * *
69332602 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATGG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATGG
* * *
69332645 ATACCACTGTCCCAGACAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATGG
69332687 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
69332715 TGATAACACA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATGG
Found at i:69345685 original size:2 final size:2
Alignment explanation
Indices: 69345678--69345720 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
69345668 ATGCTATTCT
* *
69345678 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
69345720 T
1 T
69345721 TTATATTCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:69349763 original size:18 final size:17
Alignment explanation
Indices: 69349736--69349772 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
69349726 AGGCTGTGCA
69349736 TTCTTCTTCTTTTCTTCT
1 TTCTTCTTCTTTT-TTCT
*
69349754 TTCTTTTTCTTTTTTCT
1 TTCTTCTTCTTTTTTCT
69349771 TT
1 TT
69349773 TTACTATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTCTTCTTTTTTCT
Found at i:69353351 original size:19 final size:20
Alignment explanation
Indices: 69353329--69353372 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
69353319 AGTCACAATG
69353329 CTTTTGTCTT-T-GTTCTGTA
1 CTTTTGTCTTGTCGTTCT-TA
69353348 CTTTT-TCTTGTCGTTCTTA
1 CTTTTGTCTTGTCGTTCTTA
69353367 CTTTTG
1 CTTTTG
69353373 ATTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.05, C:0.18, G:0.14, T:0.64
Consensus pattern (20 bp):
CTTTTGTCTTGTCGTTCTTA
Found at i:69359382 original size:14 final size:14
Alignment explanation
Indices: 69359356--69359385 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
69359346 GTATTCGACC
69359356 AAGGGAAGAAAAAT
1 AAGGGAAGAAAAAT
69359370 AAGGAGAAGAAAAAT
1 AAGG-GAAGAAAAAT
69359385 A
1 A
69359386 TTTCTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
AAGGGAAGAAAAAT
Found at i:69362934 original size:27 final size:27
Alignment explanation
Indices: 69362864--69362936 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
69362854 CTCGACTTGT
* *
69362864 AAAATTACCAAAATACCCCCGATTTAC
1 AAAATTATCGAAATACCCCCGATTTAC
*** **
69362891 AAAATTATCGTTTTACCCTTGATTTAC
1 AAAATTATCGAAATACCCCCGATTTAC
*
69362918 AAAATTATTGAAATACCCC
1 AAAATTATCGAAATACCCC
69362937 TGTAGGGTAG
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCCGATTTAC
Found at i:69362950 original size:27 final size:27
Alignment explanation
Indices: 69362920--69363042 Score: 147
Period size: 27 Copynumber: 4.6 Consensus size: 27
69362910 TGATTTACAA
*
69362920 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
69362947 AATTACTGAAATACTCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
69362974 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
69363001 AAATACAGAAATACCCTTGTAGCGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
69363028 AATTACCGAGATACC
1 AATTACTGAAATACC
69363043 TGTGACATCC
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:69363042 original size:54 final size:54
Alignment explanation
Indices: 69362928--69363034 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
69362918 AAAATTATTG
* * *
69362928 AAATACCCCTGTAGGGTAGAATTACTGAAATACTCCTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAAATACAGAAATACTCCTGTAGCGTAGAATTACCA
*
69362982 AAATACCCTTGTAGGGTAGAAATACAGAAATAC-CCTTGTAGCGTAGAATTACC
1 AAATACCCCTGTAGGGTAGAAATACAGAAATACTCC-TGTAGCGTAGAATTACC
69363035 GAGATACCTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAAATACAGAAATACTCCTGTAGCGTAGAATTACCA
Found at i:69365553 original size:47 final size:47
Alignment explanation
Indices: 69365495--69366024 Score: 835
Period size: 47 Copynumber: 11.3 Consensus size: 47
69365485 ACAAGATATG
*
69365495 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
69365542 TATATGAGATAAGACCTAATGGACGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
69365589 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
69365636 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
69365683 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
69365730 TATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
69365777 TATATGTGATAAAGCCTAATGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
69365824 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
69365871 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
69365918 TATATGAGCTAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
69365965 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
69366012 TAAATGTGATAAG
1 TATATGTGATAAG
69366025 TCCCGAAGGG
Statistics
Matches: 441, Mismatches: 42, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 441 1.00
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:69365667 original size:22 final size:22
Alignment explanation
Indices: 69365639--69365714 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
69365629 AAGTGTATAT
69365639 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
69365661 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
69365685 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
69365708 ATGTGAT
1 ATGTGAT
69365715 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:69367948 original size:22 final size:22
Alignment explanation
Indices: 69367888--69367948 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
69367878 GCCAATTATT
*
69367888 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
69367910 CT-ATATATGGCTTTGTGCCAAC
1 CTGAT-TATGGCTTTGTGCCAAC
*
69367932 CTGATTATGGCTGTGTG
1 CTGATTATGGCTTTGTG
69367949 TGTCATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:69368049 original size:27 final size:27
Alignment explanation
Indices: 69368019--69368099 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
69368009 ATTCTGTTAA
* *
69368019 GTGGCTTTACCACATTATTTG-ACTCTG
1 GTGGCTCTACCACAATATTTGTA-TCTG
*
69368046 GTGGCTCTGCCACAATATTTGTATCTG
1 GTGGCTCTACCACAATATTTGTATCTG
* ** *
69368073 GTGACTCTGTCACAATATCTGT-TCTG
1 GTGGCTCTACCACAATATTTGTATCTG
69368099 G
1 G
69368100 CAACCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.11
27 41 0.87
28 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTCTACCACAATATTTGTATCTG
Found at i:69368227 original size:6 final size:6
Alignment explanation
Indices: 69368216--69368329 Score: 63
Period size: 6 Copynumber: 18.5 Consensus size: 6
69368206 ATTGCATTTA
* * * * *
69368216 GATTCT GATTCT GATTCT GTTATGT GATACT AATTCT GATTCT G-TCACCT
1 GATTCT GATTCT GATTCT GAT-TCT GATTCT GATTCT GATTCT GAT--TCT
* * * * *
69368266 AATTCT GATTCT GATTCT G-TCACCT GATTCT GATTCT GATCCT CATTTT
1 GATTCT GATTCT GATTCT GAT--TCT GATTCT GATTCT GATTCT GATTCT
69368315 GATTCT -AGTTCT GAT
1 GATTCT GA-TTCT GAT
69368330 AATGTTTCTT
Statistics
Matches: 79, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
5 3 0.04
6 64 0.81
7 10 0.13
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
GATTCT
Found at i:69368276 original size:25 final size:25
Alignment explanation
Indices: 69368216--69368305 Score: 126
Period size: 25 Copynumber: 3.6 Consensus size: 25
69368206 ATTGCATTTA
* **
69368216 GATTCTGATTCTGATTCTGTTATGT
1 GATTCTGATTCTGATTCTGTCACCT
* *
69368241 GATACTAATTCTGATTCTGTCACCT
1 GATTCTGATTCTGATTCTGTCACCT
*
69368266 AATTCTGATTCTGATTCTGTCACCT
1 GATTCTGATTCTGATTCTGTCACCT
69368291 GATTCTGATTCTGAT
1 GATTCTGATTCTGAT
69368306 CCTCATTTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.46
Consensus pattern (25 bp):
GATTCTGATTCTGATTCTGTCACCT
Found at i:69374731 original size:28 final size:27
Alignment explanation
Indices: 69374699--69374758 Score: 93
Period size: 28 Copynumber: 2.2 Consensus size: 27
69374689 TAGAAATAGT
*
69374699 ATCAGGTGGGCCTTAGCCCAATAACAGA
1 ATCAGGTGGGCCTAAGCCCAA-AACAGA
*
69374727 ATCAGGTGGGCCTAAGCCCAACACAGA
1 ATCAGGTGGGCCTAAGCCCAAAACAGA
69374754 ATCAG
1 ATCAG
69374759 TATCAGATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 10 0.33
28 20 0.67
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.15
Consensus pattern (27 bp):
ATCAGGTGGGCCTAAGCCCAAAACAGA
Found at i:69375233 original size:27 final size:27
Alignment explanation
Indices: 69375185--69375237 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
69375175 CATTCTACCA
* *
69375185 TACAGGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACAGTCATTTTACAC
* *
69375212 TACAAGGGTATTTCAGTGATTTTACA
1 TACAAGGGTATTACAGTCATTTTACA
69375238 AACCGGGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACAGTCATTTTACAC
Found at i:69381516 original size:56 final size:54
Alignment explanation
Indices: 69381397--69381553 Score: 163
Period size: 56 Copynumber: 2.8 Consensus size: 54
69381387 CATGACATAG
** * *
69381397 CACGCCTCTCAACAGGGCTACATATGAGAACCCAGACCTAGCATGCATCACATTAC
1 CACGCCTCTCAACAGGGCTACATA--AGCTCCCAGACCTAGCATGTACCACATTAC
* *
69381453 CACGCCTCTCAACAAGGCTACATAAGCTCCCAGACCTAGCGTGTACCACATAATTA-
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCAC---ATTAC
* * * * *
69381509 CATGCCTCTCAACGGGGCTACACAAGCTCTCGGACCTAGCATGTA
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTA
69381554 TCATGTCATC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 20 0.24
56 61 0.72
57 4 0.05
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCACATTAC
Found at i:69388988 original size:54 final size:55
Alignment explanation
Indices: 69388885--69389038 Score: 150
Period size: 56 Copynumber: 2.8 Consensus size: 55
69388875 GACATAGCAT
* * * *
69388885 GCCTTTCAACAGGGCTACATATGAG-TACCCGGACCTAGCATGCATCACATTACCACA
1 GCCTCTCAACAGGGCTACATA--AGCT-CCCGGACCTAGCATGTACCACATAACCACA
* * **
69388942 -CCTCTCAACAAGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTACA
1 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATAACCACA
* * * *
69388996 TGCCTTTCAATAGGGCTACACAAGCTCCCGAACCTAGCATGTA
1 -GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTA
69389039 TCATGTCATC
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
54 26 0.32
55 1 0.01
56 53 0.66
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (55 bp):
GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATAACCACA
Found at i:69405064 original size:16 final size:16
Alignment explanation
Indices: 69405043--69405074 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69405033 AATTAAGGAC
*
69405043 TAAAATGTTAAAATAT
1 TAAAATGTGAAAATAT
69405059 TAAAATGTGAAAATAT
1 TAAAATGTGAAAATAT
69405075 GAGGGCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
TAAAATGTGAAAATAT
Found at i:69405585 original size:43 final size:43
Alignment explanation
Indices: 69405436--69405587 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 43
69405426 CATAGGATTC
* * * *
69405436 CGATATGTGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTACATGTAAGACCATGTCTGGGACAG-TGGCAT
* *
69405479 CGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACA-TCGACAT
1 CGATATT-TGA-TTACATGTAAGACCATGTCTGGGACAGT-GGCAT
* * *
69405523 C-ATATTTGTTTTCTTGTAAGACCATGTCTGGGACAGTGGCAT
1 CGATATTTGATTACATGTAAGACCATGTCTGGGACAGTGGCAT
69405565 CGATATTTGATTACATGTAAGAC
1 CGATATTTGATTACATGTAAGAC
69405588 TACGTCTAGG
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 30 0.34
43 29 0.33
44 29 0.33
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:69405606 original size:43 final size:43
Alignment explanation
Indices: 69405436--69405607 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
69405426 CATAGGATTC
* * *
69405436 CGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
* * * * *
69405479 CGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATCGACAT
1 CGATATT-TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
69405523 C-ATATTTGTTTTCTTGTAAGACCATGTCTGGGACAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
* *
69405565 CGATATTTGATTACATGTAAGACTACGTCTAGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
69405608 TGTACGAGTT
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
42 30 0.29
43 42 0.41
44 30 0.29
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:69407841 original size:42 final size:43
Alignment explanation
Indices: 69407741--69407854 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
69407731 AACTCGTACA
* ***
69407741 ATGCCAACGTCCCAGACGCAGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGCGGTCTTACACAAAATCAAATATCG
*
69407784 ATGCC-ACTGTCCCAGATAG-GGTCTTACACAAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGA-CGCGGTCTTACACAAAATCAAATATCG
*
69407826 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGCGGTCTTACAC
69407855 GAAACCACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 32 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGCGGTCTTACACAAAATCAAATATCG
Found at i:69415841 original size:20 final size:20
Alignment explanation
Indices: 69415768--69415842 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
69415758 TGCAAAACAA
* *
69415768 GGGCACCAAAGTGTAATCAG
1 GGGCACCAGAGTGCAATCAG
* * * *
69415788 GGGCATCGGAGTGCAGTCAA
1 GGGCACCAGAGTGCAATCAG
* * *
69415808 GAGCACGAGTGTGCAATCAG
1 GGGCACCAGAGTGCAATCAG
*
69415828 GGGCACCCGAGTGCA
1 GGGCACCAGAGTGCA
69415843 GTCAAGGGAA
Statistics
Matches: 38, Mismatches: 17, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.28, C:0.23, G:0.36, T:0.13
Consensus pattern (20 bp):
GGGCACCAGAGTGCAATCAG
Found at i:69415900 original size:18 final size:21
Alignment explanation
Indices: 69415853--69415904 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
69415843 GTCAAGGGAA
69415853 CAAATGCACTATCGGGGGCAC
1 CAAATGCACTATCGGGGGCAC
*
69415874 CAGAATGCA-T-TCGGGGGC-T
1 CA-AATGCACTATCGGGGGCAC
69415893 CAAATGCACTAT
1 CAAATGCACTAT
69415905 TAGGGACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 6 0.22
19 3 0.11
20 9 0.33
21 3 0.11
22 6 0.22
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (21 bp):
CAAATGCACTATCGGGGGCAC
Found at i:69418536 original size:29 final size:27
Alignment explanation
Indices: 69418503--69418589 Score: 101
Period size: 24 Copynumber: 3.2 Consensus size: 27
69418493 GTGACAGAGT
69418503 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
*
69418532 CACCAGAACA-A-ATATGTGGCAG-GC
1 CACCAGAACAGATATTTGTGGCAGTGC
69418556 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
69418584 CACCAG
1 CACCAG
69418590 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
24 12 0.24
25 10 0.20
26 1 0.02
27 10 0.20
28 11 0.22
29 7 0.14
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:69418763 original size:27 final size:27
Alignment explanation
Indices: 69418695--69418784 Score: 153
Period size: 27 Copynumber: 3.3 Consensus size: 27
69418685 AAATTAACCC
* *
69418695 TAGGGTATAAAGGTCATTTTGCATACA
1 TAGGGTATAATGGTAATTTTGCATACA
69418722 TAGGGGTATAATGGTAATTTTGCATACA
1 TA-GGGTATAATGGTAATTTTGCATACA
69418750 TAGGGTATAATGGTAATTTTGCATACA
1 TAGGGTATAATGGTAATTTTGCATACA
69418777 TAGGGTAT
1 TAGGGTAT
69418785 TCTAGTACAT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 35 0.58
28 25 0.42
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (27 bp):
TAGGGTATAATGGTAATTTTGCATACA
Found at i:69419058 original size:8 final size:8
Alignment explanation
Indices: 69419032--69419061 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
69419022 CCAAAATACC
69419032 GCTTTTCG
1 GCTTTTCG
*
69419040 GCATTTCG
1 GCTTTTCG
69419048 GCTTTTCG
1 GCTTTTCG
69419056 GCTTTT
1 GCTTTT
69419062 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:69425925 original size:13 final size:13
Alignment explanation
Indices: 69425909--69425954 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
69425899 TTCTTTCATC
69425909 ATAATAAAATAAA
1 ATAATAAAATAAA
69425922 ATAATAAAAGTAAA
1 ATAATAAAA-TAAA
* *
69425936 ACAAAAAAATAAAA
1 ATAATAAAAT-AAA
69425950 ATAAT
1 ATAAT
69425955 TAAGCGGCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
ATAATAAAATAAA
Found at i:69425941 original size:19 final size:19
Alignment explanation
Indices: 69425913--69425949 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
69425903 TTCATCATAA
* *
69425913 TAAAATAAAATAATAAAAG
1 TAAAACAAAAAAATAAAAG
69425932 TAAAACAAAAAAATAAAA
1 TAAAACAAAAAAATAAAA
69425950 ATAATTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (19 bp):
TAAAACAAAAAAATAAAAG
Found at i:69426453 original size:55 final size:56
Alignment explanation
Indices: 69426388--69426502 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
69426378 AGCATGGCTG
* *
69426388 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
69426444 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
69426499 CCAG
1 CCAG
69426503 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:69426465 original size:27 final size:27
Alignment explanation
Indices: 69426413--69426502 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
69426403 GTGACAGAGT
69426413 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
69426442 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
69426469 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
69426497 CACCAG
1 CACCAG
69426503 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:69426655 original size:28 final size:28
Alignment explanation
Indices: 69426608--69426700 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
69426598 AAATTAACCC
* *
69426608 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
69426636 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
69426664 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
69426692 TAGGGGTAT
1 TAGGGGTAT
69426701 TCTAGTACAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:69429277 original size:37 final size:37
Alignment explanation
Indices: 69429227--69429301 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
69429217 GATTTTTGAG
69429227 TCAATTTGAATAATGTGAGTAACAAATAAGCTATATT
1 TCAATTTGAATAATGTGAGTAACAAATAAGCTATATT
69429264 TCAATTTGAATAATGTGAGTAACAAATAAGCTATATT
1 TCAATTTGAATAATGTGAGTAACAAATAAGCTATATT
69429301 T
1 T
69429302 GAAATGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (37 bp):
TCAATTTGAATAATGTGAGTAACAAATAAGCTATATT
Found at i:69433559 original size:15 final size:15
Alignment explanation
Indices: 69433539--69433611 Score: 110
Period size: 15 Copynumber: 4.9 Consensus size: 15
69433529 TATGATATTG
*
69433539 TATCTTGGATTTCTA
1 TATCTTGGATTTCTT
69433554 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
69433569 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
* *
69433584 TGTCTTGGACTTCTT
1 TATCTTGGATTTCTT
*
69433599 TATCTTGGTTTTC
1 TATCTTGGATTTC
69433612 ATGTCATCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 52 1.00
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:69442344 original size:7 final size:7
Alignment explanation
Indices: 69442334--69442360 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
69442324 AATGATGAAT
69442334 GATGAGG
1 GATGAGG
69442341 GATGAGG
1 GATGAGG
69442348 GATGAGG
1 GATGAGG
69442355 GATGAG
1 GATGAG
69442361 TAGAAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:69444204 original size:26 final size:25
Alignment explanation
Indices: 69444159--69444208 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
69444149 TCATTCATTT
69444159 ATTAAAACATACTTATGAAAGAAATG
1 ATTAAAACATACTTATGAAA-AAATG
69444185 ATTAAAACATACTTGA-GAAAAAAT
1 ATTAAAACATACTT-ATGAAAAAAT
69444209 TTAAAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.17
26 18 0.78
27 1 0.04
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (25 bp):
ATTAAAACATACTTATGAAAAAATG
Found at i:69456618 original size:20 final size:21
Alignment explanation
Indices: 69456588--69456650 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 21
69456578 CACCGGAGTG
*
69456588 TAGTCAAGGGCACGAATGTGC
1 TAGTCAGGGGCACGAATGTGC
** *
69456609 TA-TCAGGGGCATTAAAGTGC
1 TAGTCAGGGGCACGAATGTGC
*
69456629 -AGTCAGGGGCACGAATATGC
1 TAGTCAGGGGCACGAATGTGC
69456649 TA
1 TA
69456651 ACAAGGACAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.88
21 3 0.09
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (21 bp):
TAGTCAGGGGCACGAATGTGC
Found at i:69456667 original size:40 final size:40
Alignment explanation
Indices: 69456584--69456667 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
69456574 GGGGCACCGG
* * * * * *
69456584 AGTGTAGTCAAGGGCACGAATGTGCTATCAGGGGCATTAA
1 AGTGCAGTCAAGGGCACGAATATGCTAACAAGGACACTAA
* *
69456624 AGTGCAGTCAGGGGCACGAATATGCTAACAAGGACACTGA
1 AGTGCAGTCAAGGGCACGAATATGCTAACAAGGACACTAA
69456664 AGTG
1 AGTG
69456668 TTTACAGGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (40 bp):
AGTGCAGTCAAGGGCACGAATATGCTAACAAGGACACTAA
Found at i:69456676 original size:40 final size:40
Alignment explanation
Indices: 69456632--69456720 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
69456622 AAAGTGCAGT
*
69456632 CAGGGGCACGAA-TATGCTAACAAGGACACTGAAGTGTTTA
1 CAGGGGCAC-AATTATGCAAACAAGGACACTGAAGTGTTTA
* * * *
69456672 CAGGGGCACAATTGTGCAAATAGGGACATTGAAGTGTTTA
1 CAGGGGCACAATTATGCAAACAAGGACACTGAAGTGTTTA
69456712 CAGGGGCAC
1 CAGGGGCAC
69456721 TGGCTGCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.05
40 41 0.95
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (40 bp):
CAGGGGCACAATTATGCAAACAAGGACACTGAAGTGTTTA
Found at i:69458790 original size:46 final size:44
Alignment explanation
Indices: 69458736--69458912 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 44
69458726 ATATTTGGGC
69458736 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
69458780 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* * *
69458829 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GA
* *
69458874 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69458913 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 69 0.63
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:69458892 original size:93 final size:93
Alignment explanation
Indices: 69458733--69458904 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
69458723 AGGATATTTG
* ***
69458733 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
69458798 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
69458826 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
69458891 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
69458905 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:69460628 original size:27 final size:27
Alignment explanation
Indices: 69460597--69460654 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
69460587 ACAATCATAC
*
69460597 ATCACATAAGGACAAAACAGTCATTTT
1 ATCACATAAGGACAAAACAATCATTTT
* * *
69460624 ATCACATAGGGGCATAACAATCATTTT
1 ATCACATAAGGACAAAACAATCATTTT
69460651 ATCA
1 ATCA
69460655 ATTAGAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (27 bp):
ATCACATAAGGACAAAACAATCATTTT
Found at i:69464411 original size:27 final size:27
Alignment explanation
Indices: 69464379--69464431 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
69464369 CATACATTAC
*
69464379 ATAGGGGAAAAATAATCATTTTATCAT
1 ATAGGGGAAAAACAATCATTTTATCAT
* * *
69464406 ATAGGGGCATAACAGTCATTTTATCA
1 ATAGGGGAAAAACAATCATTTTATCA
69464432 ATTAGAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (27 bp):
ATAGGGGAAAAACAATCATTTTATCAT
Found at i:69471239 original size:27 final size:28
Alignment explanation
Indices: 69471170--69471244 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
69471160 ATAGGAAAAC
* *
69471170 AAAATAAACATAAAAAGAAAGAAAAATA
1 AAAATAAACATAAAGATAAAGAAAAATA
69471198 AAAATAAACATAAAGATAAA-AAAACA-A
1 AAAATAAACATAAAGATAAAGAAAA-ATA
69471225 AAAATAAACATAAAGATAAA
1 AAAATAAACATAAAGATAAA
69471245 TGGACTCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.12
Consensus pattern (28 bp):
AAAATAAACATAAAGATAAAGAAAAATA
Found at i:69476520 original size:13 final size:13
Alignment explanation
Indices: 69476502--69476530 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
69476492 GCTTAGCAGG
69476502 GACACGCCCGTGT
1 GACACGCCCGTGT
69476515 GACACGCCCGTGT
1 GACACGCCCGTGT
69476528 GAC
1 GAC
69476531 GTGATTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.38, G:0.31, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:69479565 original size:25 final size:25
Alignment explanation
Indices: 69479531--69479587 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
69479521 TCATGTGCTC
69479531 TCCTCTGCGTC-CCCCCATTAGGTCT
1 TCCTCTGCGTCTCCCCC-TTAGGTCT
69479556 TCCTCTGCGTCTCCCCCTTAGGTCT
1 TCCTCTGCGTCTCCCCCTTAGGTCT
69479581 TCCTCTG
1 TCCTCTG
69479588 GTATGTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.05, C:0.44, G:0.16, T:0.35
Consensus pattern (25 bp):
TCCTCTGCGTCTCCCCCTTAGGTCT
Found at i:69479707 original size:13 final size:13
Alignment explanation
Indices: 69479689--69479722 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
69479679 TCCACAGGGG
69479689 CGTGTGGCCAGCC
1 CGTGTGGCCAGCC
69479702 CGTGTGGCCAGCC
1 CGTGTGGCCAGCC
69479715 CGTGTGGC
1 CGTGTGGC
69479723 TCACACAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.35, G:0.41, T:0.18
Consensus pattern (13 bp):
CGTGTGGCCAGCC
Found at i:69481495 original size:49 final size:50
Alignment explanation
Indices: 69481442--69481583 Score: 178
Period size: 49 Copynumber: 2.9 Consensus size: 50
69481432 AAGGTGGAAG
69481442 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAT-ATAT
1 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATGATAT
* * ** * *
69481491 CAGTGGCAGTATATCTACATATCAGTGGTCACTTGTCCACAAAGTGTTAT
1 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATGATAT
* * * * *
69481541 TAGTGGTAGTTTATCTGCAAACCAGTGGTGGCTTATCCACAAA
1 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAA
69481584 TGGTGTTTCA
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 40 0.52
50 37 0.48
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (50 bp):
CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATGATAT
Found at i:69484810 original size:15 final size:15
Alignment explanation
Indices: 69484790--69484843 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
69484780 GTATCTTGGG
69484790 TTCTTTATTTTGGAT
1 TTCTTTATTTTGGAT
*
69484805 TTCTTTATTTTGGGT
1 TTCTTTATTTTGGAT
*
69484820 TT-TTCTATCTTGGAT
1 TTCTT-TATTTTGGAT
*
69484835 TTTTTTATT
1 TTCTTTATT
69484844 CGGTTTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.06
15 29 0.88
16 2 0.06
ACGTcount: A:0.11, C:0.07, G:0.13, T:0.69
Consensus pattern (15 bp):
TTCTTTATTTTGGAT
Found at i:69484835 original size:30 final size:29
Alignment explanation
Indices: 69484785--69484843 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
69484775 GTATCGTATC
*
69484785 TTGGGTTCTTTATTTTGGATTTCTTTATT
1 TTGGGTTCTTTATCTTGGATTTCTTTATT
* *
69484814 TTGGGTTTTTCTATCTTGGATTTTTTTATT
1 TTGGGTTCTT-TATCTTGGATTTCTTTATT
69484844 CGGTTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.66
Consensus pattern (29 bp):
TTGGGTTCTTTATCTTGGATTTCTTTATT
Found at i:69487159 original size:49 final size:49
Alignment explanation
Indices: 69486993--69487230 Score: 305
Period size: 49 Copynumber: 4.8 Consensus size: 49
69486983 TGAGGTCGCA
* * * * *
69486993 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
69487044 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
69487094 TGTGTCGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * *
69487143 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATATTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
69487192 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
69487231 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 87 0.53
50 45 0.27
51 33 0.20
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:69487172 original size:99 final size:100
Alignment explanation
Indices: 69486985--69487230 Score: 343
Period size: 99 Copynumber: 2.5 Consensus size: 100
69486975 ATCTATTGTG
* * *
69486985 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
* *
69487050 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 GTACTAAGTGCAGGCTACTACGTGTACCAGAT-ATT
* * * * *
69487086 AGGTCACGTGTGTCGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
*
69487149 GTACTAAGTGCAGGCTACTACGTGTACCGGATATT
66 GTACTAAGTGCAGGCTACTACGTGTACCAGATATT
* * *
69487184 TGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
69487231 GCTTTGGCTA
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 42 0.33
99 43 0.34
100 1 0.01
101 41 0.32
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
GTACTAAGTGCAGGCTACTACGTGTACCAGATATT
Found at i:69489750 original size:40 final size:40
Alignment explanation
Indices: 69489720--69489929 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
69489710 GGACTAAGAT
* * * **
69489720 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69489760 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69489800 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69489840 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
69489880 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69489919 CCGAAGGCATT
1 CCGAAGGCATT
69489930 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:69497679 original size:40 final size:40
Alignment explanation
Indices: 69497649--69497858 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
69497639 GGACTAAGAT
* * * **
69497649 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69497689 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69497729 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69497769 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
69497809 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
69497848 CCGAAGGCATT
1 CCGAAGGCATT
69497859 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:69501392 original size:25 final size:25
Alignment explanation
Indices: 69501364--69501437 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 25
69501354 ATTCCGACCC
*
69501364 ATAGCTCGTGTGAGCATACCGATTT
1 ATAGCTCGTGTGAGCATACAGATTT
* ** *
69501389 ATAGCTTGTGAAAGCATACAGATCT
1 ATAGCTCGTGTGAGCATACAGATTT
* ** *
69501414 ACAGCTCAAGTGAGCATACTGATT
1 ATAGCTCGTGTGAGCATACAGATT
69501438 CACAACTCGT
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
ATAGCTCGTGTGAGCATACAGATTT
Found at i:69504441 original size:138 final size:140
Alignment explanation
Indices: 69504158--69504455 Score: 467
Period size: 138 Copynumber: 2.1 Consensus size: 140
69504148 AAAAACTTAG
69504158 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATATTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATATTACTGAATTTATT
* * * *
69504223 AATATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCT
66 AATACATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATAGAAATTAATATTCG
69504288 TTTCGAAAGA
131 TTTCGAAAGA
*
69504298 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-TGAAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATATTACTG-AATTTAT
* * * *
69504362 TAATACA-AAA-AGTTATATTAATTAATTTTAGTTAAAATATAAAAGACATGGAAATTAATATTC
65 TAATACATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATAGAAATTAATATTC
*
69504425 GTTTGGAAAGA
130 GTTTCGAAAGA
*
69504436 ATATAATTAATATATTAATT
1 ATATAATTAATATATGAATT
69504456 GTATATATTT
Statistics
Matches: 146, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
138 75 0.51
139 5 0.03
140 66 0.45
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (140 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATATTACTGAATTTATT
AATACATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATAGAAATTAATATTCG
TTTCGAAAGA
Found at i:69504451 original size:116 final size:116
Alignment explanation
Indices: 69504331--69504559 Score: 368
Period size: 116 Copynumber: 2.0 Consensus size: 116
69504321 TTCATACAAA
** * *
69504331 ATATTAATTGTATATATTTTATGAAATTTATTAATACAAAAAGTTATATTAATTAATTTTAGTTA
1 ATATTAATTGTATATATTTTACCAAATTTATTAATACAAAAAGTTATATTAATTAATTTCAGTCA
*
69504396 AAATATAAAAGACATGGAAATTAATATTCGTTTGGAAAGAATATAATTAAT
66 AAATATAAAAGACATGGAAATTAATATTCGTTTGAAAAGAATATAATTAAT
* * *
69504447 ATATTAATTGTATATATTTTACCAAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCA
1 ATATTAATTGTATATATTTTACCAAATTTATTAATACAAAAAGTTATATTAATTAATTTCAGTCA
* *
69504512 AAATATAAAAGACTTGGAAATTAATATTCTTTTGAAAAGAATATAATT
66 AAATATAAAAGACATGGAAATTAATATTCGTTTGAAAAGAATATAATT
69504560 CATTTTTCTA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 103 1.00
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (116 bp):
ATATTAATTGTATATATTTTACCAAATTTATTAATACAAAAAGTTATATTAATTAATTTCAGTCA
AAATATAAAAGACATGGAAATTAATATTCGTTTGAAAAGAATATAATTAAT
Found at i:69504662 original size:75 final size:75
Alignment explanation
Indices: 69504539--69504681 Score: 220
Period size: 75 Copynumber: 1.9 Consensus size: 75
69504529 AAATTAATAT
* *
69504539 TCTTTTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAATG-GAA
1 TCTTTTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGACTTCTATATTAATAA-GAGAA
69504603 TAATTCTATAC
65 TAATTCTATAC
69504614 TCTTTT-AGAAAGAATATAATT-ATTTTTTCTAACTTTCCATTTGACTTCTATATTAATAAGAGA
1 TCTTTTGA-AAAGAATATAATTCA-TTTTTCTAACTTTCCATTTGACTTCTATATTAATAAGAGA
69504677 ATAAT
64 ATAAT
69504682 CTTGGTTTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
74 3 0.05
75 60 0.95
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (75 bp):
TCTTTTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGACTTCTATATTAATAAGAGAAT
AATTCTATAC
Found at i:69510972 original size:21 final size:24
Alignment explanation
Indices: 69510947--69510993 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
69510937 ATGTTACAGT
69510947 ATTGTTAT-ATT-TTTTAAT-TTA
1 ATTGTTATCATTATTTTAATATTA
*
69510968 ATTGTTATCATTATTTTTATATTA
1 ATTGTTATCATTATTTTAATATTA
69510992 AT
1 AT
69510994 AAATATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 3 0.14
23 6 0.27
24 5 0.23
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (24 bp):
ATTGTTATCATTATTTTAATATTA
Found at i:69511816 original size:18 final size:21
Alignment explanation
Indices: 69511775--69511816 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
69511765 TTGAAATATA
69511775 TAATTATCTTTACAATAGAAT
1 TAATTATCTTTACAATAGAAT
69511796 TAATTAT-TTTA-AATA-AAT
1 TAATTATCTTTACAATAGAAT
69511814 TAA
1 TAA
69511817 ATTTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 4 0.19
21 7 0.33
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATTATCTTTACAATAGAAT
Found at i:69512490 original size:17 final size:17
Alignment explanation
Indices: 69512468--69512502 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69512458 TGTAATTGTC
69512468 GAGCTGAATTTTAAATT
1 GAGCTGAATTTTAAATT
69512485 GAGCTGAATTTTAAATT
1 GAGCTGAATTTTAAATT
69512502 G
1 G
69512503 TTTACTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (17 bp):
GAGCTGAATTTTAAATT
Found at i:69513168 original size:14 final size:14
Alignment explanation
Indices: 69513149--69513180 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
69513139 ATTTTAGGGT
69513149 TGTGAAACTGAGAC
1 TGTGAAACTGAGAC
*
69513163 TGTGAAATTGAGAC
1 TGTGAAACTGAGAC
69513177 TGTG
1 TGTG
69513181 TAAGACTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (14 bp):
TGTGAAACTGAGAC
Found at i:69519862 original size:24 final size:23
Alignment explanation
Indices: 69519835--69519904 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
69519825 CAACAGGAAA
69519835 CTCAGAAGAGTTTTAATCAGGGAG
1 CTCAGAAGAGTTTT-ATCAGGGAG
* * * *
69519859 CTCA-TAGAGCTTTAT-AGGTAA
1 CTCAGAAGAGTTTTATCAGGGAG
*
69519880 CTCCGAAGAGTTATTATCAGGGAG
1 CTCAGAAGAGTT-TTATCAGGGAG
69519904 C
1 C
69519905 ACCGGATAAG
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
21 7 0.21
22 7 0.21
23 11 0.32
24 9 0.26
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (23 bp):
CTCAGAAGAGTTTTATCAGGGAG
Found at i:69522682 original size:19 final size:19
Alignment explanation
Indices: 69522658--69522695 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
69522648 TCGATACTAC
69522658 CACCACCAAACCACCACTT
1 CACCACCAAACCACCACTT
* *
69522677 CACCACCATAGCACCACTT
1 CACCACCAAACCACCACTT
69522696 TACCTTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.50, G:0.03, T:0.13
Consensus pattern (19 bp):
CACCACCAAACCACCACTT
Found at i:69523685 original size:15 final size:14
Alignment explanation
Indices: 69523660--69523689 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
69523650 CCACATATGT
69523660 GATGGTGTGTTTTG
1 GATGGTGTGTTTTG
69523674 GATGGATGTGTTTTG
1 GATGG-TGTGTTTTG
69523689 G
1 G
69523690 GGAACCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.10, C:0.00, G:0.43, T:0.47
Consensus pattern (14 bp):
GATGGTGTGTTTTG
Found at i:69525051 original size:28 final size:28
Alignment explanation
Indices: 69524992--69525057 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
69524982 AAATAGCCTG
* * **
69524992 CAGTAACAGTCTTGGCCTTAGCCTTATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
* *
69525020 CAGTAACAGTGTGGGCCTAAGCCCAATT
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
*
69525048 CAGTATCAGT
1 CAGTAACAGT
69525058 ACAGTGCAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCAATA
Found at i:69525111 original size:21 final size:21
Alignment explanation
Indices: 69525086--69525142 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
69525076 CCACCCCAAT
*
69525086 CCAACCAACACACCACCTGTA
1 CCAACCAACACACCACCCGTA
69525107 CCAACCAACACACCACCCGTA
1 CCAACCAACACACCACCCGTA
*
69525128 CCAACCAAGACACCA
1 CCAACCAACACACCA
69525143 ATATCACAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.40, C:0.49, G:0.05, T:0.05
Consensus pattern (21 bp):
CCAACCAACACACCACCCGTA
Found at i:69531095 original size:34 final size:34
Alignment explanation
Indices: 69531057--69531137 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
69531047 TTAGCCCCTC
**
69531057 TTTCAGTAGTAGTAGCAGTCTGGGCCTAAGCCCA
1 TTTCAGTAACAGTAGCAGTCTGGGCCTAAGCCCA
* *
69531091 TTTCAGTAACAGTGGCAGTCTGGGCCTTAGCCCA
1 TTTCAGTAACAGTAGCAGTCTGGGCCTAAGCCCA
69531125 TTTCAGT-ACAGTA
1 TTTCAGTAACAGTA
69531138 TGCAAACAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 5 0.12
34 37 0.88
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (34 bp):
TTTCAGTAACAGTAGCAGTCTGGGCCTAAGCCCA
Found at i:69532428 original size:10 final size:10
Alignment explanation
Indices: 69532415--69532439 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
69532405 AAAGAGCAGG
69532415 GAAGAGAAAA
1 GAAGAGAAAA
69532425 GAAGAGAAAA
1 GAAGAGAAAA
69532435 GAAGA
1 GAAGA
69532440 CAAGATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAGAGAAAA
Found at i:69542894 original size:24 final size:24
Alignment explanation
Indices: 69542849--69542894 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
69542839 TAAGTACTTT
*
69542849 TTATTTCATTTTCCTTTATTATTA
1 TTATTTCATTTTACTTTATTATTA
*
69542873 TTATTTCAATTTTAGTTT-TTAT
1 TTATTTC-ATTTTACTTTATTAT
69542895 AATTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (24 bp):
TTATTTCATTTTACTTTATTATTA
Found at i:69548528 original size:34 final size:34
Alignment explanation
Indices: 69548471--69548546 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
69548461 TTAGCCCCTC
* *
69548471 TTTCAGTAGCAGTAGCAGTCTGGGCCTGAGCCCA
1 TTTCAGTAACAGTAGCAGCCTGGGCCTGAGCCCA
* * *
69548505 TTTTAGTAACAGTGGCAGCCTGGGCCTTAGCCCA
1 TTTCAGTAACAGTAGCAGCCTGGGCCTGAGCCCA
69548539 TTTCAGTA
1 TTTCAGTA
69548547 CATTATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (34 bp):
TTTCAGTAACAGTAGCAGCCTGGGCCTGAGCCCA
Found at i:69557155 original size:40 final size:40
Alignment explanation
Indices: 69557096--69557229 Score: 151
Period size: 40 Copynumber: 3.4 Consensus size: 40
69557086 GGTTATTTGT
* * * *
69557096 GGCACTTAGTATGCAATACGACATAGCTTCAACTATATAG
1 GGCACTTAGTGTGCGATACGACATAGCTTCAGCTATATAC
* *
69557136 GGCACTTAGTGTGCGATACGATATAGCTTCGGCTATATAC
1 GGCACTTAGTGTGCGATACGACATAGCTTCAGCTATATAC
* * ** * *
69557176 GACACCTAGTGTGCGATTTGAGATAGCTTCAGCTATGTAC
1 GGCACTTAGTGTGCGATACGACATAGCTTCAGCTATATAC
*
69557216 AGCACTTAGTGTGC
1 GGCACTTAGTGTGC
69557230 AAATTATTAG
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (40 bp):
GGCACTTAGTGTGCGATACGACATAGCTTCAGCTATATAC
Found at i:69557271 original size:28 final size:28
Alignment explanation
Indices: 69557240--69557299 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
69557230 AAATTATTAG
*
69557240 GTATAGCACTTAGTGTGTGAGATATCGA
1 GTATAGCACTTAGTGTGCGAGATATCGA
* *
69557268 GTATGGCACTTAGTGTGCGAGATATTGA
1 GTATAGCACTTAGTGTGCGAGATATCGA
69557296 GTAT
1 GTAT
69557300 TCAACGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.33
Consensus pattern (28 bp):
GTATAGCACTTAGTGTGCGAGATATCGA
Found at i:69572396 original size:14 final size:14
Alignment explanation
Indices: 69572377--69572405 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
69572367 TGATGAACCC
69572377 TCGGTAAGGTTTGA
1 TCGGTAAGGTTTGA
69572391 TCGGTAAGGTTTGA
1 TCGGTAAGGTTTGA
69572405 T
1 T
69572406 TGAGTAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (14 bp):
TCGGTAAGGTTTGA
Found at i:69575051 original size:68 final size:67
Alignment explanation
Indices: 69574979--69575164 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 67
69574969 CATCATGTGT
* * *
69574979 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
69575041 ATGTAG
62 ATGTAG
** * * *
69575047 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
69575112 AG
66 AG
* * *
69575114 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
69575165 TTCACCATGT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 25 0.25
67 31 0.31
68 15 0.15
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:69575084 original size:64 final size:64
Alignment explanation
Indices: 69575003--69575186 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
69574993 AGACATTATG
* *
69575003 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
69575067 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
69575132 AA
63 AA
* * * *
69575134 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
69575187 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:69577009 original size:20 final size:20
Alignment explanation
Indices: 69576984--69577023 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
69576974 ACCACTCTAT
69576984 TTAC-TTCCTATTCCATTTAC
1 TTACTTTCC-ATTCCATTTAC
*
69577004 TTACTTTCCATTTCATTTAC
1 TTACTTTCCATTCCATTTAC
69577024 ATAGCATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (20 bp):
TTACTTTCCATTCCATTTAC
Found at i:69577014 original size:15 final size:16
Alignment explanation
Indices: 69576982--69577016 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
69576972 GAACCACTCT
*
69576982 ATTTACTTCCTATTCC
1 ATTTACTTACTATTCC
69576998 ATTTACTTACT-TTCC
1 ATTTACTTACTATTCC
69577013 ATTT
1 ATTT
69577017 CATTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTACTTACTATTCC
Found at i:69578779 original size:5 final size:5
Alignment explanation
Indices: 69578769--69578797 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
69578759 TGATAAAAGT
69578769 TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
69578798 TCAAATTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:69588084 original size:26 final size:26
Alignment explanation
Indices: 69588055--69588112 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
69588045 TCATCTTTTC
* *
69588055 CAAAACCAAATTTTAGGAAAAAATTT
1 CAAAACCAAATTTGAGAAAAAAATTT
* *
69588081 CAAACCCTAATTTGAGAAAAAAATTT
1 CAAAACCAAATTTGAGAAAAAAATTT
69588107 -AAAACC
1 CAAAACC
69588113 CATTCCACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (26 bp):
CAAAACCAAATTTGAGAAAAAAATTT
Found at i:69588113 original size:26 final size:26
Alignment explanation
Indices: 69588063--69588113 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
69588053 TCCAAAACCA
* * *
69588063 AATTTTAGGAAAAAATTTCAAACCCT
1 AATTTGAGAAAAAAATTTAAAACCCT
69588089 AATTTGAGAAAAAAATTTAAAACCC
1 AATTTGAGAAAAAAATTTAAAACCC
69588114 ATTCCACATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (26 bp):
AATTTGAGAAAAAAATTTAAAACCCT
Found at i:69589846 original size:17 final size:17
Alignment explanation
Indices: 69589813--69589846 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69589803 CTGCACACAC
* *
69589813 AACTAATTAATAGGTAG
1 AACTAATTAAAAAGTAG
69589830 AACTAATTAAAAAGTAG
1 AACTAATTAAAAAGTAG
69589847 CCTAAACCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (17 bp):
AACTAATTAAAAAGTAG
Found at i:69593175 original size:43 final size:44
Alignment explanation
Indices: 69593127--69593281 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 44
69593117 TCCAAGATGA
* * *
69593127 GATTACATGTAAGACCATGTGTGGGACATTGGCATTGTAT-TGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * *
69593170 GATTACGTGTAAGACTATGTCTGGGACATTGACATCGT-TATAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * *
69593213 GATTTCGTGTAAGACCATGTTTGGGACATTGGCATCG-ATATGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * *
69593256 GATAACTTGTAAGACCATATCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
69593282 TATGGTATTG
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 92 0.99
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
Done.