Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 108 of 318
Found at i:33052565 original size:92 final size:91
Alignment explanation
Indices: 33052378--33052593 Score: 240
Period size: 92 Copynumber: 2.4 Consensus size: 91
33052368 CCGTGCTGAC
*
33052378 GCATGTCCCAGACATGTCTTACACTAG-CACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
1 GCATGTCCCAGACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
* * *
33052442 ACACTGGCTATCATCTCGAGGCCGAT
66 ACACTAGCCATCATCTCAAGGCCGAT
* * * *
33052468 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGTC
1 GCATGTCCCAGACATGTCTTACACTGGC-CACAT-CTCGTAGCCGACGCATGTCCCAGACATGTC
* * * *
33052532 TTACACTAGCCCTCGTCTCAATGCC-AT
64 TGACACTAGCCATCATCTCAAGGCCGAT
* *
33052559 GCCATGTCTCATACATGGTCTTACACTGGCACACA
1 G-CATGTCCCAGACAT-GTCTTACACTGGC-CACA
33052594 AATCTCATGT
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
90 26 0.25
91 3 0.03
92 58 0.55
93 18 0.17
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (91 bp):
GCATGTCCCAGACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
ACACTAGCCATCATCTCAAGGCCGAT
Found at i:33062223 original size:29 final size:28
Alignment explanation
Indices: 33062161--33062261 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
33062151 GTGACGAGAT
* * *
33062161 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-GATATA
* *
33062190 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGA-TATA
* *
33062219 TGGCACTATGTGTGCGGGCTT-GA-ATCA
1 TGGCACTAAGTGTGCGAGCTTGGATAT-A
33062246 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33062262 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 16 0.27
28 3 0.05
29 39 0.65
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGGATATA
Found at i:33062268 original size:27 final size:27
Alignment explanation
Indices: 33062191--33062268 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
33062181 TGTAATGTAC
*
33062191 GGCACTAAGTGTGCGAGTTTGGACTATAT
1 GGCACTAAGTGTGCGAGATT-GAC-ATAT
* * *
33062220 GGCACTATGTGTGCGGGCTTGA-ATCAT
1 GGCACTAAGTGTGCGAGATTGACAT-AT
*
33062247 GGCACTAAGTGTGCGTGATTGA
1 GGCACTAAGTGTGCGAGATTGA
33062269 GTATTAAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 21 0.50
28 2 0.05
29 17 0.40
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (27 bp):
GGCACTAAGTGTGCGAGATTGACATAT
Found at i:33088455 original size:20 final size:20
Alignment explanation
Indices: 33088393--33088455 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
33088383 TTGGGCACTT
33088393 AAGTATTGATATTTTAACAAA
1 AAGTATTGATATTTTAAC-AA
** * * *
33088414 AAAAATCGATACTTCAGA-AA
1 AAGTATTGATATTTTA-ACAA
33088434 AAGTATTGATATTTTAACAA
1 AAGTATTGATATTTTAACAA
33088454 AA
1 AA
33088456 CTACCGATAC
Statistics
Matches: 30, Mismatches: 10, Indels: 5
0.67 0.22 0.11
Matches are distributed among these distances:
19 1 0.03
20 17 0.57
21 11 0.37
22 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.32
Consensus pattern (20 bp):
AAGTATTGATATTTTAACAA
Found at i:33088455 original size:21 final size:21
Alignment explanation
Indices: 33088393--33088455 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
33088383 TTGGGCACTT
33088393 AAGTATTGATATTTTAACAAA
1 AAGTATTGATATTTTAACAAA
** * * * *
33088414 AAAAATCGATA-CTTCAGAAA
1 AAGTATTGATATTTTAACAAA
33088434 AAGTATTGATATTTTAACAAA
1 AAGTATTGATATTTTAACAAA
33088455 A
1 A
33088456 CTACCGATAC
Statistics
Matches: 29, Mismatches: 12, Indels: 2
0.67 0.28 0.05
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.32
Consensus pattern (21 bp):
AAGTATTGATATTTTAACAAA
Found at i:33088475 original size:41 final size:41
Alignment explanation
Indices: 33088393--33088480 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 41
33088383 TTGGGCACTT
* *
33088393 AAGTATTGATATTTTAACAAAAAAAATCGATACTTCAGAAA
1 AAGTATTGATATTTTAACAAAAAAAACCGATACTTAAGAAA
**
33088434 AAGTATTGATATTTTAAC-AAAACTACCGATACTTAAGGAAA
1 AAGTATTGATATTTTAACAAAAAAAACCGATACTTAA-GAAA
33088475 AAGTAT
1 AAGTAT
33088481 CTGTAACATC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 14 0.33
41 28 0.67
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (41 bp):
AAGTATTGATATTTTAACAAAAAAAACCGATACTTAAGAAA
Found at i:33090216 original size:25 final size:25
Alignment explanation
Indices: 33090187--33090234 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33090177 TTATAACATG
* * *
33090187 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
33090212 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
33090235 GTTTATGTAT
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:33090318 original size:11 final size:11
Alignment explanation
Indices: 33090281--33090337 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
33090271 ACATGGTATG
33090281 TATGATATGCA
1 TATGATATGCA
* *
33090292 CATGACATG--
1 TATGATATGCA
33090301 TATGATATGCA
1 TATGATATGCA
*
33090312 CATGATATG--
1 TATGATATGCA
33090321 TATGATATGCA
1 TATGATATGCA
33090332 TATGAT
1 TATGAT
33090338 GTATTCATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:33090337 original size:20 final size:20
Alignment explanation
Indices: 33090271--33090337 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
33090261 ATTTTGATAA
*
33090271 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33090291 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
33090311 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33090331 ATATGAT
1 ACATGAT
33090338 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33090455 original size:46 final size:47
Alignment explanation
Indices: 33090388--33090483 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
33090378 AGGAAGTGAA
33090388 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
33090434 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
33090481 AAA
1 AAA
33090484 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 23 0.48
47 25 0.52
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:33090466 original size:24 final size:24
Alignment explanation
Indices: 33090387--33090504 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
33090377 GAGGAAGTGA
33090387 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33090411 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33090434 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33090457 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33090481 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
33090505 ATGATAAAGT
Statistics
Matches: 88, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
23 46 0.52
24 31 0.35
25 11 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33090732 original size:31 final size:31
Alignment explanation
Indices: 33090697--33090760 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33090687 CGTTTACAGT
*
33090697 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
33090728 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
33090759 AA
1 AA
33090761 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:33098393 original size:20 final size:20
Alignment explanation
Indices: 33098370--33098429 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
33098360 TAAACATAGT
33098370 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
33098390 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
33098410 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
33098430 GTATTCATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:33098410 original size:11 final size:11
Alignment explanation
Indices: 33098374--33098428 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
33098364 CATAGTATGT
33098374 ATGATATGCAC
1 ATGATATGCAC
* *
33098385 ATGACATG--T
1 ATGATATGCAC
33098394 ATGATATGCAC
1 ATGATATGCAC
*
33098405 ATGATATG--T
1 ATGATATGCAC
33098414 ATGATATGCAC
1 ATGATATGCAC
33098425 ATGA
1 ATGA
33098429 CGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:33098511 original size:23 final size:23
Alignment explanation
Indices: 33098480--33098552 Score: 110
Period size: 23 Copynumber: 3.1 Consensus size: 23
33098470 AGGAAGTGAA
*
33098480 AAAGTGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
33098503 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
33098526 AAAAGGGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
33098550 AAA
1 AAA
33098553 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:33098571 original size:25 final size:24
Alignment explanation
Indices: 33098479--33098573 Score: 122
Period size: 24 Copynumber: 4.0 Consensus size: 24
33098469 GAGGAAGTGA
*
33098479 AAAAGTGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33098503 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
33098526 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33098550 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
33098574 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
23 22 0.35
24 30 0.48
25 10 0.16
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33098801 original size:31 final size:31
Alignment explanation
Indices: 33098766--33098829 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
33098756 CGTTTACAGT
* *
33098766 AAAGGCTTCGGCCCTGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
33098797 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
33098828 AA
1 AA
33098830 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:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:33099676 original size:23 final size:23
Alignment explanation
Indices: 33099631--33099676 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33099621 TACCCAAACG
* *
33099631 AAAACCTCCAAACCTAACTTTCA
1 AAAACCTCAAAACCTAACATTCA
* *
33099654 AAAACCTCAAAATCTATCATTCA
1 AAAACCTCAAAACCTAACATTCA
33099677 TTCTTCAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (23 bp):
AAAACCTCAAAACCTAACATTCA
Found at i:33107641 original size:16 final size:17
Alignment explanation
Indices: 33107620--33107652 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33107610 CGTGATCTTC
33107620 CCAAAAA-AATAAAAAT
1 CCAAAAATAATAAAAAT
33107636 CCAAAAATAATAAAAAT
1 CCAAAAATAATAAAAAT
33107653 AAAACTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (17 bp):
CCAAAAATAATAAAAAT
Found at i:33107656 original size:15 final size:16
Alignment explanation
Indices: 33107621--33107663 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
33107611 GTGATCTTCC
33107621 CAAAAA-AATAAAAAT
1 CAAAAATAATAAAAAT
33107636 CCAAAAATAATAAAAAT
1 -CAAAAATAATAAAAAT
*
33107653 -AAAACTAATAA
1 CAAAAATAATAA
33107664 TTATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 10 0.40
16 6 0.24
17 9 0.36
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (16 bp):
CAAAAATAATAAAAAT
Found at i:33109706 original size:22 final size:22
Alignment explanation
Indices: 33109681--33109733 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
33109671 GCTTATCATC
*
33109681 TTGCGCTTTGGCGCTTACCGTT
1 TTGCACTTTGGCGCTTACCGTT
* *
33109703 TTGCACTTTGGTGCTTATCGTT
1 TTGCACTTTGGCGCTTACCGTT
*
33109725 CTGCACTTT
1 TTGCACTTT
33109734 AGTGCCTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.45
Consensus pattern (22 bp):
TTGCACTTTGGCGCTTACCGTT
Found at i:33109738 original size:22 final size:22
Alignment explanation
Indices: 33109693--33109738 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
33109683 GCGCTTTGGC
* *
33109693 GCTTACCGTTTTGCACTTTGGT
1 GCTTACCGTTCTGCACTTTAGT
*
33109715 GCTTATCGTTCTGCACTTTAGT
1 GCTTACCGTTCTGCACTTTAGT
33109737 GC
1 GC
33109739 CTACTGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (22 bp):
GCTTACCGTTCTGCACTTTAGT
Found at i:33109793 original size:22 final size:22
Alignment explanation
Indices: 33109736--33109793 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
33109726 TGCACTTTAG
* *
33109736 TGCCTACTGTTTTACACTTCGA
1 TGCCTACTATTTTGCACTTCGA
* * *
33109758 CGCTTAGTGA-TTTGCACTTCGA
1 TGCCTACT-ATTTTGCACTTCGA
33109780 TGCCTACTATTTTG
1 TGCCTACTATTTTG
33109794 TTAGTGCACT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (22 bp):
TGCCTACTATTTTGCACTTCGA
Found at i:33115138 original size:17 final size:16
Alignment explanation
Indices: 33115117--33115156 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
33115107 ATAGTAGGTT
33115117 TTTTTTTCAAGTGACA
1 TTTTTTTCAAGTGACA
33115133 TTTTTTTCAAGTGACA
1 TTTTTTTCAAGTGACA
*
33115149 ATTTTTTC
1 TTTTTTTC
33115157 TTTCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (16 bp):
TTTTTTTCAAGTGACA
Found at i:33115405 original size:20 final size:20
Alignment explanation
Indices: 33115380--33115417 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33115370 TTAAATATTT
33115380 TTTTATTTC-TTTATTAAATG
1 TTTTA-TTCATTTATTAAATG
33115400 TTTTATTCATTTATTAAA
1 TTTTATTCATTTATTAAA
33115418 CGTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTATTCATTTATTAAATG
Found at i:33115523 original size:18 final size:18
Alignment explanation
Indices: 33115500--33115548 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
33115490 CATACGGATC
*
33115500 AAAATTGATTTACAGATAA
1 AAAATTGATTTACA-AAAA
* *
33115519 AAATTTGGTTTACAAAAA
1 AAAATTGATTTACAAAAA
*
33115537 AAAAATGATTTA
1 AAAATTGATTTA
33115549 TGAATAACAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (18 bp):
AAAATTGATTTACAAAAA
Found at i:33116573 original size:31 final size:32
Alignment explanation
Indices: 33116520--33116582 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
33116510 AATTTTTGTA
*
33116520 AAAATTTACACAAAAAAAAACT-GATAAATTT
1 AAAATTTACACAAAAAAAAACTGGAAAAATTT
33116551 AAAATTTA-A-AAAAAAATCAACTGGAAAAATTT
1 AAAATTTACACAAAAAAA--AACTGGAAAAATTT
33116583 TGAAATTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 7 0.25
30 1 0.04
31 12 0.43
32 8 0.29
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.25
Consensus pattern (32 bp):
AAAATTTACACAAAAAAAAACTGGAAAAATTT
Found at i:33129333 original size:26 final size:26
Alignment explanation
Indices: 33129304--33129356 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
33129294 TATCGTTAGC
33129304 TAGGTGTCATATCTATCAATATTTTT
1 TAGGTGTCATATCTATCAATATTTTT
33129330 TAGGTGTCATATCTATCAATATTTTT
1 TAGGTGTCATATCTATCAATATTTTT
33129356 T
1 T
33129357 CTCCTAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (26 bp):
TAGGTGTCATATCTATCAATATTTTT
Found at i:33131633 original size:85 final size:85
Alignment explanation
Indices: 33131490--33131662 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 85
33131480 GGGAAAGTGT
33131490 AGAAAGAATTGAAATTGTTTGGGAAAGAATCCATGTATAGTTGTAAATTGTATGGTTAGTAGGTG
1 AGAAAGAATTGAAATTGTTTGGGAAAGAATCCATGTATAGTTGTAAATTGTATGGTTAGTAGGTG
33131555 GTAGGGACGAATGCGGAATA
66 GTAGGGACGAATGCGGAATA
33131575 AGAAAGAATTGAAATTGTTTGGGAAAGAATCCATGTATAGTTGTAAATTGTATGGTTAGTAGGTG
1 AGAAAGAATTGAAATTGTTTGGGAAAGAATCCATGTATAGTTGTAAATTGTATGGTTAGTAGGTG
*
33131640 GTAGGGACGAATGTGGAATA
66 GTAGGGACGAATGCGGAATA
33131660 AGA
1 AGA
33131663 TCGCAAATTT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.36, C:0.04, G:0.31, T:0.29
Consensus pattern (85 bp):
AGAAAGAATTGAAATTGTTTGGGAAAGAATCCATGTATAGTTGTAAATTGTATGGTTAGTAGGTG
GTAGGGACGAATGCGGAATA
Found at i:33137561 original size:40 final size:39
Alignment explanation
Indices: 33137516--33137723 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
33137506 CGGAATACAA
*
33137516 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
33137556 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
33137596 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
33137636 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
33137676 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
33137716 CCGGATAT
1 CCGGATAT
33137724 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:33137656 original size:80 final size:81
Alignment explanation
Indices: 33137516--33137721 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
33137506 CGGAATACAA
* * *
33137516 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
33137580 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
33137596 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
33137659 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
33137676 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
33137722 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:33143358 original size:15 final size:16
Alignment explanation
Indices: 33143333--33143364 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33143323 ACCAATTCGG
33143333 TTAATTTTGGTTAATT
1 TTAATTTTGGTTAATT
33143349 TTAA-TTTGGTTAATT
1 TTAATTTTGGTTAATT
33143364 T
1 T
33143365 GGTTAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (16 bp):
TTAATTTTGGTTAATT
Found at i:33143363 original size:9 final size:9
Alignment explanation
Indices: 33143326--33143370 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
33143316 ATATATTACC
*
33143326 AATTCGGTT
1 AATTTGGTT
33143335 AATTTTGGTT
1 AA-TTTGGTT
33143345 AA-TT--TT
1 AATTTGGTT
33143351 AATTTGGTT
1 AATTTGGTT
33143360 AATTTGGTT
1 AATTTGGTT
33143369 AA
1 AA
33143371 ATGAACATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
6 4 0.13
7 2 0.06
8 2 0.06
9 15 0.48
10 8 0.26
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.53
Consensus pattern (9 bp):
AATTTGGTT
Found at i:33144618 original size:9 final size:9
Alignment explanation
Indices: 33144596--33144633 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
33144586 TGTTATAAAA
*
33144596 TAAAAATATA
1 TAAAAATA-C
33144606 TAAAAATAC
1 TAAAAATAC
33144615 TAAAAATAC
1 TAAAAATAC
33144624 TAAAAATAC
1 TAAAAATAC
33144633 T
1 T
33144634 TCTAGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAATAC
Found at i:33153092 original size:30 final size:30
Alignment explanation
Indices: 33153058--33153117 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
33153048 ACATGCCATA
33153058 GTTTCTAGAATACTGTTTTAACCATTTTAC
1 GTTTCTAGAATACTGTTTTAACCATTTTAC
33153088 GTTTCTAGAATACTGTTTTAACCATTTTAC
1 GTTTCTAGAATACTGTTTTAACCATTTTAC
33153118 CAGTTTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (30 bp):
GTTTCTAGAATACTGTTTTAACCATTTTAC
Found at i:33155309 original size:71 final size:71
Alignment explanation
Indices: 33155221--33155384 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
33155211 GAGATGTATC
33155221 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33155286 AGGACA
66 AGGACA
*
33155292 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
33155357 CGGACA
66 AGGACA
33155363 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
33155385 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:33162374 original size:71 final size:71
Alignment explanation
Indices: 33162286--33162449 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
33162276 GAGATGTATC
33162286 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33162351 AGGACA
66 AGGACA
*
33162357 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
33162422 CGGACA
66 AGGACA
33162428 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
33162450 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:33167446 original size:22 final size:22
Alignment explanation
Indices: 33167420--33167461 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33167410 CTTTTGGGGT
*
33167420 AAAATTAATTAATCAATTTTAA
1 AAAATAAATTAATCAATTTTAA
*
33167442 AAAATAAATTAATTAATTTT
1 AAAATAAATTAATCAATTTT
33167462 TTTAAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATAAATTAATCAATTTTAA
Found at i:33168574 original size:51 final size:51
Alignment explanation
Indices: 33168519--33168616 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
33168509 AATTCGAGGA
33168519 TGGAACACAGTACTGAAATCTAATCATGTACCTAAAGCCTTATTAATGGGT
1 TGGAACACAGTACTGAAATCTAATCATGTACCTAAAGCCTTATTAATGGGT
* * * *
33168570 TGGAACATAGTACTGAAATTTAATCGTGTATCTAAAGCCTTATTAAT
1 TGGAACACAGTACTGAAATCTAATCATGTACCTAAAGCCTTATTAAT
33168617 AGTACTATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (51 bp):
TGGAACACAGTACTGAAATCTAATCATGTACCTAAAGCCTTATTAATGGGT
Found at i:33170256 original size:23 final size:23
Alignment explanation
Indices: 33170226--33170279 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
33170216 TTCTTTAATC
33170226 ACATATTATTA-AAAATGAAAGTG
1 ACATATTA-TACAAAATGAAAGTG
* *
33170249 ACATATTATACTCAAATTAAAGTG
1 ACATATTATAC-AAAATGAAAGTG
33170273 ACATATT
1 ACATATT
33170280 TTAGATCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 8 0.30
24 17 0.63
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (23 bp):
ACATATTATACAAAATGAAAGTG
Found at i:33180012 original size:40 final size:40
Alignment explanation
Indices: 33179937--33180184 Score: 356
Period size: 40 Copynumber: 6.2 Consensus size: 40
33179927 TCTTTGGAAT
* ** *
33179937 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
33179976 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
33180016 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
33180056 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
33180096 TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
33180136 TTAGCCTGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
33180176 TTAGCCCGG
1 TTAGCCCGG
33180185 GTATCATTCA
Statistics
Matches: 188, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 3 0.02
40 184 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:33182593 original size:26 final size:27
Alignment explanation
Indices: 33182564--33182687 Score: 94
Period size: 27 Copynumber: 4.6 Consensus size: 27
33182554 TTAGTTTACC
**
33182564 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCCAAATACCCCCAGTTTGTA
*
33182590 AAATTA-CCAAAGTA-CCCCAGGTTTATA
1 AAATTACCCAAA-TACCCCCA-GTTTGTA
* *
33182617 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCCAAATACCCCCAG-TTTGTA
* * * *
33182644 AAATTACCAAAATTCCCTCAGTTTGCA
1 AAATTACCCAAATACCCCCAGTTTGTA
**
33182671 AAATTACTGAAATACCC
1 AAATTACCCAAATACCC
33182688 TCGACATGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
25 8 0.10
26 10 0.13
27 52 0.66
28 9 0.11
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACCCAAATACCCCCAGTTTGTA
Found at i:33182656 original size:27 final size:27
Alignment explanation
Indices: 33182585--33182703 Score: 91
Period size: 27 Copynumber: 4.4 Consensus size: 27
33182575 ATACCCCCAG
* * *
33182585 TTGTAAAATTACCAAAGTA-CCCCAGGT
1 TTGTAAAATTACCAAAATATCCTC-GAT
* *
33182612 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCAAAATATCCTCGAT
33182639 TTGTAAAATTACCAAAAT-TCCCTC-AGT
1 TTGTAAAATTACCAAAATAT-CCTCGA-T
* ** * *
33182666 TTGCAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATATCCTCGAT
*
33182693 ATGTAAAATTA
1 TTGTAAAATTA
33182704 TTAAAGTACC
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
26 2 0.03
27 67 0.92
28 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATATCCTCGAT
Found at i:33182716 original size:54 final size:55
Alignment explanation
Indices: 33182557--33182717 Score: 175
Period size: 54 Copynumber: 3.0 Consensus size: 55
33182547 GAATACTTTA
* * *
33182557 GTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCC-CAG
1 GTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAG
* ** * * * *
33182610 GTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCAAAATTCCCTCA-
1 GTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAG
* * **
33182664 GTTTGCAAAATTACTGAAATACCCTCGACATGTAAAATTATTAAAGTACCCTCA
1 GTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCA
33182718 ATTACAGAAT
Statistics
Matches: 86, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
53 19 0.22
54 65 0.76
55 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (55 bp):
GTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAG
Found at i:33182739 original size:26 final size:27
Alignment explanation
Indices: 33182710--33182767 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
33182700 ATTATTAAAG
33182710 TACCCTC-AATTACAGAATTACTG-TTT
1 TACCCTCGAATTACAGAATTAC-GATTT
* *
33182736 TACCCTCGATTTATAGAATTACGATTT
1 TACCCTCGAATTACAGAATTACGATTT
33182763 TACCC
1 TACCC
33182768 CTAGGATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGAATTACAGAATTACGATTT
Found at i:33185541 original size:20 final size:20
Alignment explanation
Indices: 33185498--33185539 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
33185488 TAAAGAAATT
33185498 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
33185518 AAATGCAACT-GAAAGTAA-G
1 AAATGCAA-TGGAAAGTAATG
33185537 AAA
1 AAA
33185540 ATTTGGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 16 0.76
21 1 0.05
ACGTcount: A:0.55, C:0.07, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:33193441 original size:29 final size:29
Alignment explanation
Indices: 33193408--33193481 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
33193398 CCTTCGAGCT
33193408 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
33193437 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
33193466 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
33193482 ATCTCGTCAC
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:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:33193442 original size:58 final size:58
Alignment explanation
Indices: 33193349--33193481 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
33193339 ATACTCGATT
* * * * *
33193349 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
33193407 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
33193465 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
33193482 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:33200844 original size:52 final size:51
Alignment explanation
Indices: 33200766--33200869 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 51
33200756 AAGAGGTTTG
33200766 AAGAAGGATTGAATGAAGATCTAAAGCTACTAGTGGGTATTTTGGAAGATAA
1 AAGAAGGATTGAATGAAGATCTAAAGCTACTAGTGGGTATTTTGG-AGATAA
33200818 AAGAAGGATTGAATGAAGATCTAAAGCTACTAGTGGGTATTTTGGAGATAA
1 AAGAAGGATTGAATGAAGATCTAAAGCTACTAGTGGGTATTTTGGAGATAA
33200869 A
1 A
33200870 GAATTCGTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 7 0.13
52 45 0.87
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.27
Consensus pattern (51 bp):
AAGAAGGATTGAATGAAGATCTAAAGCTACTAGTGGGTATTTTGGAGATAA
Found at i:33206507 original size:27 final size:28
Alignment explanation
Indices: 33206450--33206519 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
33206440 AAACTTGTAC
*
33206450 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
33206478 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
33206505 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
33206520 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:33206530 original size:27 final size:27
Alignment explanation
Indices: 33206450--33206531 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
33206440 AAACTTGTAC
* * *
33206450 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
33206478 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
33206505 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
33206532 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:33207951 original size:40 final size:39
Alignment explanation
Indices: 33207907--33208014 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 39
33207897 GGGTGTTACA
* * *
33207907 GACTACATCCGGACTAAGATCCGAAGGCATTTGTGGTAGC
1 GACTATATCCGG-CTAAGATCCGAAGGCATTTATGCTAGC
*
33207947 GACTATATCCTGGCTAAG-TCCCGAAGGCATTTATGCTAGT
1 GACTATATCC-GGCTAAGAT-CCGAAGGCATTTATGCTAGC
* *
33207987 GACCATATCCGGGCTAAGACCCGAAGGC
1 GACTATATCC-GGCTAAGATCCGAAGGC
33208015 CTTGTGCGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 55 0.95
41 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (39 bp):
GACTATATCCGGCTAAGATCCGAAGGCATTTATGCTAGC
Found at i:33215187 original size:33 final size:34
Alignment explanation
Indices: 33215116--33215253 Score: 94
Period size: 33 Copynumber: 4.1 Consensus size: 34
33215106 TTAATCACTT
* *
33215116 TAATATTAAATTTAATATAATATTTATCTTGATAAAAA
1 TAATATTAAATTTAATAT--TA-TAATCTT-ATTAAAA
*
33215154 TTATATTAAATTTAATATTA-AATCTTATTAAAA
1 TAATATTAAATTTAATATTATAATCTTATTAAAA
* * ** *
33215187 TAATA-GAATATTT-ATA-TACAA-GGTA--AACA
1 TAATATTAA-ATTTAATATTATAATCTTATTAAAA
*
33215216 TAAAATTAAATTTAATATTA-AATCTTATTAAAA
1 TAATATTAAATTTAATATTATAATCTTATTAAAA
33215249 TAATA
1 TAATA
33215254 GAATATTTAT
Statistics
Matches: 78, Mismatches: 14, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
29 11 0.14
30 7 0.09
31 8 0.10
32 7 0.09
33 21 0.27
34 5 0.06
36 2 0.03
38 17 0.22
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (34 bp):
TAATATTAAATTTAATATTATAATCTTATTAAAA
Found at i:33215233 original size:62 final size:62
Alignment explanation
Indices: 33215158--33215298 Score: 264
Period size: 62 Copynumber: 2.3 Consensus size: 62
33215148 TAAAAATTAT
*
33215158 ATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATATACAAGGTAAACATAAA
1 ATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATATACAAGATAAACATAAA
*
33215220 ATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATATACAAGATAAACATTAA
1 ATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATATACAAGATAAACATAAA
33215282 ATTAAATTTAATATTAA
1 ATTAAATTTAATATTAA
33215299 GATAATCATT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 77 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (62 bp):
ATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATATACAAGATAAACATAAA
Found at i:33215324 original size:20 final size:18
Alignment explanation
Indices: 33215277--33215383 Score: 62
Period size: 20 Copynumber: 5.8 Consensus size: 18
33215267 CAAGATAAAC
33215277 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
33215294 ATTAAGA-TAATCATTTGAAT
1 ATTAA-ATTAAT-ATTT-AAT
* *
33215314 ATTAAATTAATAATATATT
1 ATTAAATTAAT-ATTTAAT
33215333 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
* *
33215350 ATTAAATTTCATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
33215370 ATTAAAATAATATT
1 ATTAAATTAATATT
33215384 GTTTTTGGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
16 1 0.01
17 15 0.22
18 8 0.12
19 22 0.32
20 23 0.33
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:33217044 original size:24 final size:24
Alignment explanation
Indices: 33217007--33217055 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
33216997 TTAACTTTAG
**
33217007 TTATTTATTTATCATTCAAATAAA
1 TTATTTATCCATCATTCAAATAAA
33217031 TTATTTATCCATCATTCAAATAAA
1 TTATTTATCCATCATTCAAATAAA
33217055 T
1 T
33217056 AGAAAACAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTTATCCATCATTCAAATAAA
Found at i:33219136 original size:24 final size:24
Alignment explanation
Indices: 33219072--33219166 Score: 113
Period size: 23 Copynumber: 3.9 Consensus size: 24
33219062 AAGCTCCTCC
*
33219072 TGAGCTGCTAAACAGTAAGCTCTAT
1 TGAGCTG-AAAACAGTAAGCTCTAT
*
33219097 TGAGCTG-AAACGGTAAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
33219120 TGAGCTGAAAACAGTAAGCTCT-T
1 TGAGCTGAAAACAGTAAGCTCTAT
*
33219143 TCGAGCTGATATATCAGTAAGCTC
1 T-GAGCTGA-A-AACAGTAAGCTC
33219167 ATACGAGCTG
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
23 24 0.38
24 20 0.32
25 8 0.13
26 11 0.17
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:33219137 original size:47 final size:49
Alignment explanation
Indices: 33219058--33219151 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 49
33219048 GATCCATGAT
* *
33219058 CGGTAAGCTCCTCCTGAGCTGCTAAACAGTAAGCTCTATT-GAGCTGAAA
1 CGGTAAGCTCCTACTGAGCTGCAAAACAGTAAGCTCT-TTCGAGCTGAAA
*
33219107 CGGTAAGCT-CTATTGAGCTG-AAAACAGTAAGCTCTTTCGAGCTGA
1 CGGTAAGCTCCTACTGAGCTGCAAAACAGTAAGCTCTTTCGAGCTGA
33219152 TATATCAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
46 2 0.05
47 21 0.51
48 9 0.22
49 9 0.22
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (49 bp):
CGGTAAGCTCCTACTGAGCTGCAAAACAGTAAGCTCTTTCGAGCTGAAA
Found at i:33221603 original size:50 final size:50
Alignment explanation
Indices: 33221487--33221716 Score: 250
Period size: 50 Copynumber: 4.6 Consensus size: 50
33221477 TCTGATAGTA
* * * *
33221487 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
33221536 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
33221586 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGA-TACACG
*** ** * *
33221637 TAGTAGCCTGCACTTAGTACTACACATACGAATTAA-CAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACACG
*
33221687 TAGTAGCCTGCACTTAGTACTATACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
33221717 TATTCACAAT
Statistics
Matches: 152, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 33 0.22
50 80 0.53
51 39 0.26
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:33226178 original size:27 final size:27
Alignment explanation
Indices: 33226142--33226390 Score: 229
Period size: 27 Copynumber: 9.2 Consensus size: 27
33226132 TTAGTTTACC
*
33226142 AAATTACCAAAATACTCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGCA
33226169 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGCA
* * *
33226196 AAATTACCAAAATATCCTTGATTAGTA
1 AAATTACCAAAATACCCTCGATTAGCA
*
33226223 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTAGCA
* * *
33226250 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTAGCA
* * * *
33226277 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTAGCA
* *
33226304 AAATTTACC-AAATACCC-CTGATTTGTA
1 AAA-TTACCAAAATACCCTC-GATTAGCA
* * * *
33226331 AAATTATCGAAATACCCCCGATTTGCA
1 AAATTACCAAAATACCCTCGATTAGCA
* * *
33226358 AACTTACCGAAATA-CCTCTGATTTGCA
1 AAATTACCAAAATACCCTC-GATTAGCA
33226385 AAATTA
1 AAATTA
33226391 TTGAAAAACC
Statistics
Matches: 199, Mismatches: 17, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
26 9 0.05
27 184 0.92
28 6 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTAGCA
Found at i:33226388 original size:81 final size:82
Alignment explanation
Indices: 33226145--33226389 Score: 277
Period size: 81 Copynumber: 3.0 Consensus size: 82
33226135 GTTTACCAAA
* * * *
33226145 TTACCAAAATACTCTCGATTAGCAAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATA
1 TTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCCGATTTGCAAAATTACCAAAATA
*
33226210 TCCT-TGATTAGTAAAA-
66 -CCTCTGATTTGTAAAAT
* * *
33226226 TTACCAAAATACCCTCGATTAGTAAAATTACCAAAATA-CCCCTAGTTTGTAAAATTATCAAAAT
1 TTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCCGA-TTTGCAAAATTACCAAAAT
*
33226290 ACCCCT-AGTTTGTAAAAT
65 ACCTCTGA-TTTGTAAAAT
* * * * *
33226308 TTACC-AAATACCC-CTGATTTGTAAAATTATCGAAATACCCCCGATTTGCAAACTTACCGAAAT
1 TTACCAAAATACCCTC-GATTAGTAAAATTACCAAAATACCCCCGATTTGCAAAATTACCAAAAT
*
33226371 ACCTCTGATTTGCAAAAT
65 ACCTCTGATTTGTAAAAT
33226389 T
1 T
33226390 ATTGAAAAAC
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
80 8 0.06
81 119 0.86
82 11 0.08
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (82 bp):
TTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCCGATTTGCAAAATTACCAAAATA
CCTCTGATTTGTAAAAT
Found at i:33226391 original size:54 final size:54
Alignment explanation
Indices: 33226142--33226391 Score: 258
Period size: 54 Copynumber: 4.6 Consensus size: 54
33226132 TTAGTTTACC
* * * *
33226142 AAATTACCAAAATA-CTCTCGATTAGCAAAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCTCT-GATTTGTAAAATTATCAAAATACCCCCGATTAGCA
* * * *
33226196 AAATTACCAAAATATCCT-TGATTAGTAAAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATA-CCTCTGATTTGTAAAATTATCAAAATACCCCCGATTAGCA
* * * *
33226250 AAATTACCAAAATACCCCT-AGTTTGTAAAATTATCAAAATA-CCCCTAGTTTGTA
1 AAATTACCAAAATACCTCTGA-TTTGTAAAATTATCAAAATACCCCCGA-TTAGCA
* * *
33226304 AAATTTACC-AAATACCCCTGATTTGTAAAATTATCGAAATACCCCCGATTTGCA
1 AAA-TTACCAAAATACCTCTGATTTGTAAAATTATCAAAATACCCCCGATTAGCA
* * *
33226358 AACTTACCGAAATACCTCTGATTTGCAAAATTAT
1 AAATTACCAAAATACCTCTGATTTGTAAAATTAT
33226392 TGAAAAACCC
Statistics
Matches: 173, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
53 12 0.07
54 147 0.85
55 12 0.07
56 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCTCTGATTTGTAAAATTATCAAAATACCCCCGATTAGCA
Found at i:33226416 original size:27 final size:27
Alignment explanation
Indices: 33226405--33227079 Score: 882
Period size: 27 Copynumber: 24.6 Consensus size: 27
33226395 AAAACCCTTA
* *
33226405 TAGGGTAGAATTATCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
33226432 TAGGGTAGAAATACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
33226459 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* **
33226486 TGGGGTAGAATTACTAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* ** *
33226513 TAGGATAGAATTACTAAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
33226540 TAGCGTAGAATTACCGAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
33226567 TAGGGTAGAATTACTGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
33226594 TAGGGTAGAAATACCGAAATACCCTTA
1 TAGGGTAGAATTACCGAAATACCCCTG
**
33226621 TAGGGTAGAATTACTAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
33226648 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
33226675 TAGGGTAGAATTATCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
** *
33226702 TAGGGTAGAACAGGGTAAAATTACCGAAATACCCCTG
1 TAGGGTAG-A-A---T----TACCG-AAATACCCCTG
*
33226739 TAGGGTAGAATTACCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
33226766 TAAGGTAGAATTACCGAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
*
33226793 TAGGGTAGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
33226820 TAGGGTACAATTACCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
33226847 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
33226874 TAGAGTAGAATTACCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
33226901 TAGGGTAGAATTACTGAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
* * * *
33226928 TAGGGTAGAATTATCTATATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
33226955 TAGGGTAGAAATACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
33226982 TGGGGTAGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
33227009 TAGGGTAGAATTACCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
33227036 TAGGGTAGAATTACAGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
33227063 TAGGGTAGAATTACCGA
1 TAGGGTAGAATTACCGA
33227080 GATATCCTTA
Statistics
Matches: 565, Mismatches: 73, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
27 536 0.95
28 3 0.01
29 1 0.00
32 2 0.00
35 1 0.00
36 3 0.01
37 19 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTG
Found at i:33226730 original size:37 final size:37
Alignment explanation
Indices: 33226676--33226748 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
33226666 ATACCCCTGT
* *
33226676 AGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAAC
1 AGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAAC
33226713 AGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAA
1 AGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAA
33226749 TTACCGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (37 bp):
AGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAAC
Found at i:33227533 original size:22 final size:22
Alignment explanation
Indices: 33227508--33227556 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
33227498 ATGGCTTTCA
*
33227508 GCCAACCT-ACATATGGCTCTGT
1 GCCAACCTGA-ATATGGCTATGT
*
33227530 GCCAACCTGATTATGGCTATGT
1 GCCAACCTGAATATGGCTATGT
33227552 GCCAA
1 GCCAA
33227557 ACGTATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (22 bp):
GCCAACCTGAATATGGCTATGT
Found at i:33227745 original size:27 final size:26
Alignment explanation
Indices: 33227715--33227798 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 26
33227705 ATTCTGTTAA
* *
33227715 GTGGCTTTGCCATATTATATGTTTCTG
1 GTGGCTATGCCACA-TATATGTTTCTG
* *
33227742 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCACATATATGT-TTCTG
* * *
33227769 GTGGCTCTGCCACAATATTTGTATCTG
1 GTGGCTATGCCAC-ATATATGTTTCTG
33227796 GTG
1 GTG
33227799 ACTCTATCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.11
27 36 0.78
28 5 0.11
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (26 bp):
GTGGCTATGCCACATATATGTTTCTG
Found at i:33227773 original size:54 final size:53
Alignment explanation
Indices: 33227715--33227822 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
33227705 ATTCTGTTAA
* * * * * *
33227715 GTGGCTTTGCCATATTATATGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATATGTATCTGGTGACTATACCAC-AATATCTGTTCTG
* * *
33227769 GTGGCTCTGCCACAATATTTGTATCTGGTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATATGTATCTGGTGACTATACCACAATATCTGTTCTG
33227822 G
1 G
33227823 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.39
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATATGTATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:33227803 original size:27 final size:26
Alignment explanation
Indices: 33227737--33227822 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
33227727 TATTATATGT
*
33227737 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
*
33227764 TTCTGGTGGCTCTGCCACAATATTTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* **
33227790 TATCTGGTGACTCTATCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
33227817 TTCTGG
1 TTCTGG
33227823 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.25
27 39 0.75
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:33227974 original size:25 final size:25
Alignment explanation
Indices: 33227940--33228161 Score: 209
Period size: 25 Copynumber: 8.7 Consensus size: 25
33227930 TTGTATTCAC
* *
33227940 ATTCTAATTCTGATTTTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
33227965 ATACTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
33227990 ATTCTAATTCTGATTCTG--ATCTG
1 ATTCTGATTCTGATTCTGTTACCTG
*
33228013 ATTCTGATTCTG-TTACCTGATA-CTG
1 ATTCTGATTCTGATT--CTGTTACCTG
33228038 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
33228063 ATACTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGT----T-A-CCTG
*
33228094 ATTTTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * *
33228119 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTTACCTG
* *
33228144 ATTTTGATTCTAATTCTG
1 ATTCTGATTCTGATTCTG
33228162 ATTCTGTCAC
Statistics
Matches: 164, Mismatches: 21, Indels: 24
0.78 0.10 0.11
Matches are distributed among these distances:
22 2 0.01
23 15 0.09
24 8 0.05
25 112 0.68
26 4 0.02
27 1 0.01
29 1 0.01
30 1 0.01
31 20 0.12
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:33227977 original size:6 final size:6
Alignment explanation
Indices: 33227940--33228167 Score: 139
Period size: 6 Copynumber: 37.0 Consensus size: 6
33227930 TTGTATTCAC
* * * *
33227940 ATTCTA ATTCTG ATTTTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
33227990 ATTCTA ATTCTG ATTCTG A-TCTG ATTCTG ATTCTG -TTACCTG ATACTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
33228038 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
33228088 ATTCTG ATTTTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * *
33228137 -TCACCTA ATTTTG ATTCTA ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
33228168 TCACCTGATT
Statistics
Matches: 171, Mismatches: 29, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
5 16 0.09
6 130 0.76
7 18 0.11
8 7 0.04
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:33227981 original size:31 final size:30
Alignment explanation
Indices: 33227940--33228136 Score: 152
Period size: 31 Copynumber: 6.4 Consensus size: 30
33227930 TTGTATTCAC
* *
33227940 ATTCTAATTCTGATTTTG-TTACCTGATACTG
1 ATTCTGATTCTGATTCTGATT--CTGATACTG
* * *
33227971 ATTCTGATTCTG-TCACCTGATTCTAATTCTG
1 ATTCTGATTCTGAT--TCTGATTCTGATACTG
*
33228002 ATTCTGA-TCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGATTCTGATA-CTG
* *
33228032 ATACTGATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGATTCTGATA-CTG
* * * *
33228063 ATACTGATTCTGATTCTG-TCACCTAATTCTG
1 ATTCTGATTCTGATTCTGAT--TCTGATACTG
*
33228094 ATTTTGATTCTGATTCTG-TTACCTGATACTG
1 ATTCTGATTCTGATTCTGATT--CTGATACTG
33228125 ATTCTGATTCTG
1 ATTCTGATTCTG
33228137 TCACCTAATT
Statistics
Matches: 136, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
29 9 0.07
30 15 0.11
31 105 0.77
32 5 0.04
33 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGATTCTGATACTG
Found at i:33228095 original size:56 final size:56
Alignment explanation
Indices: 33227987--33228191 Score: 281
Period size: 56 Copynumber: 3.7 Consensus size: 56
33227977 ATTCTGTCAC
* * * *
33227987 CTGATTCTAATTCTGATT--CTGAT-CTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTG-TTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
33228041 CTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
* *
33228097 TTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTGATT
1 CTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
* * * * *
33228153 CTAATTCTGATTCTGTCACCTGATTCTTATTTTGATTCT
1 CTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCT
33228192 AGTTTTGATA
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 2 0.01
54 14 0.10
55 5 0.04
56 115 0.85
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (56 bp):
CTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:33228160 original size:31 final size:30
Alignment explanation
Indices: 33228009--33228191 Score: 152
Period size: 31 Copynumber: 6.3 Consensus size: 30
33227999 CTGATTCTGA
* * *
33228009 TCTGATTCTGATTCTGTTACCTGATACTGAT
1 TCTGATTCTGATTCTGTCACCTAAT-TTGAT
*
33228040 TCTGATTCTGATTCTGTTACC-----TGAT
1 TCTGATTCTGATTCTGTCACCTAATTTGAT
*
33228065 ACTGATTCTGATTCTGTCACCTAATTCTGAT
1 TCTGATTCTGATTCTGTCACCTAATT-TGAT
* *
33228096 TTTGATTCTGATTCTGTTACC-----TGAT
1 TCTGATTCTGATTCTGTCACCTAATTTGAT
*
33228121 ACTGATTCTGATTCTGTCACCTAATTTTGAT
1 TCTGATTCTGATTCTGTCACCTAA-TTTGAT
* * *
33228152 TCTAATTCTGATTCTGTCACCTGATTCTTAT
1 TCTGATTCTGATTCTGTCACCTAATT-TGAT
*
33228183 TTTGATTCT
1 TCTGATTCT
33228192 AGTTTTGATA
Statistics
Matches: 125, Mismatches: 14, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
25 45 0.36
30 2 0.02
31 78 0.62
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.48
Consensus pattern (30 bp):
TCTGATTCTGATTCTGTCACCTAATTTGAT
Found at i:33228176 original size:25 final size:25
Alignment explanation
Indices: 33227940--33228191 Score: 208
Period size: 25 Copynumber: 9.7 Consensus size: 25
33227930 TTGTATTCAC
* * *
33227940 ATTCTAATTCTGATTTTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
33227965 ATACTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
33227990 ATTCTAATTCTGATTCTG--ATCTG
1 ATTCTGATTCTGATTCTGTCACCTG
33228013 ATTCTGATTCTG-TTACCTGAT-A-CTG
1 ATTCTGATTCTGATT--CTG-TCACCTG
*
33228038 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
33228063 ATACTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCA-C-----CTG
* *
33228094 ATTTTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
33228119 ATACTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTCACC------TG
*
33228150 ATTCTAATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
33228175 ATTCTTATTTTGATTCT
1 ATTCTGATTCTGATTCT
33228192 AGTTTTGATA
Statistics
Matches: 188, Mismatches: 20, Indels: 38
0.76 0.08 0.15
Matches are distributed among these distances:
22 2 0.01
23 16 0.09
24 7 0.04
25 114 0.61
26 4 0.02
30 1 0.01
31 44 0.23
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:33231440 original size:40 final size:40
Alignment explanation
Indices: 33231332--33231441 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
33231322 ATTGAATGAT
* * * * *
33231332 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
33231372 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
33231412 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
33231442 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:33231456 original size:40 final size:39
Alignment explanation
Indices: 33231332--33231481 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
33231322 ATTGAATGAT
* * * * * * *
33231332 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
33231372 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
33231412 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
33231452 ATCCGGGTTAAGTCCCGAAGGCTTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
33231482 GGGTTACTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:33232958 original size:29 final size:29
Alignment explanation
Indices: 33232926--33233085 Score: 198
Period size: 29 Copynumber: 5.5 Consensus size: 29
33232916 ATAGTGAATC
33232926 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
33232955 CGCACACTTAGTGCTATAAAATTTTCAGCT
1 CGCACACTTAGTGCTAT-ATATTTTCAGCT
33232985 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * *
33233014 CGCACACTTAGTGCTGTATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
33233042 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
33233072 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33233086 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.18
29 48 0.41
30 45 0.38
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:33232981 original size:30 final size:30
Alignment explanation
Indices: 33232926--33233085 Score: 186
Period size: 30 Copynumber: 5.5 Consensus size: 30
33232916 ATAGTGAATC
*
33232926 CGCACACTTAGTGCTAT-ATATTTTCAGCT
1 CGCACACTTAGTGCTATAAAATTTTCAGCT
33232955 CGCACACTTAGTGCTATAAAATTTTCAGCT
1 CGCACACTTAGTGCTATAAAATTTTCAGCT
*
33232985 CGCACACTTAGTGCTAT-ATATTTTCAGCT
1 CGCACACTTAGTGCTATAAAATTTTCAGCT
* * *
33233014 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATAAAATTTTC-AGCT
* * * * *
33233042 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATAAAATTTTCAGCT
33233072 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33233086 CAATCTTGTC
Statistics
Matches: 116, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.20
29 44 0.38
30 46 0.40
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATAAAATTTTCAGCT
Found at i:33233018 original size:59 final size:57
Alignment explanation
Indices: 33232926--33233085 Score: 205
Period size: 59 Copynumber: 2.8 Consensus size: 57
33232916 ATAGTGAATC
*
33232926 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAAAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAAAA---TCAAACT
* *
33232985 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAAAATCAAACT
* * * * *
33233042 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
33233086 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 48 0.53
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAAAATCAAACT
Found at i:33251362 original size:17 final size:17
Alignment explanation
Indices: 33251340--33251383 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
33251330 ATGCATGTCA
33251340 ACTTCTTAACAATTTAT
1 ACTTCTTAACAATTTAT
*
33251357 ACTTCTGAACAATTTAT
1 ACTTCTTAACAATTTAT
33251374 ACTTACTTAA
1 ACTT-CTTAA
33251384 GACTTCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.43
Consensus pattern (17 bp):
ACTTCTTAACAATTTAT
Found at i:33252271 original size:48 final size:48
Alignment explanation
Indices: 33252204--33252353 Score: 174
Period size: 48 Copynumber: 3.1 Consensus size: 48
33252194 AACATTGTAG
* * * * *
33252204 GATGCCAATGCCATATCCCAGATATTGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACAGATC
* * ** *
33252252 GATGTCAATGTCATGTCCCAGACATGGTCTTATATGGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACAGATC
* * * *
33252300 GATACCAATGCCATGTCCTAGACATGGTCTTATATGGGATCACACATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACAGATC
33252348 GATGCC
1 GATGCC
33252354 GATAGCCAAG
Statistics
Matches: 82, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACAGATC
Found at i:33264000 original size:15 final size:15
Alignment explanation
Indices: 33263980--33264011 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
33263970 GGTTAGGTTT
33263980 TTTTCTTTTTCTGTC
1 TTTTCTTTTTCTGTC
33263995 TTTTCTTTTTCTGTC
1 TTTTCTTTTTCTGTC
33264010 TT
1 TT
33264012 GGAGGATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTTCTGTC
Found at i:33275901 original size:49 final size:49
Alignment explanation
Indices: 33275841--33276246 Score: 658
Period size: 49 Copynumber: 8.4 Consensus size: 49
33275831 TTTGTATGAG
*
33275841 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
* *
33275890 GTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
*
33275939 GTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
*
33275988 GTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
*
33276037 GTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
*
33276086 GTATATATATGTGATAAGGCCTAATGGCCGACGTGAAGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
* *
33276135 GTATATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-
1 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
* * * * *
33276182 GTGTATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
33276231 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
33276247 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 48 0.14
48 7 0.02
49 284 0.84
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
GTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
Found at i:33278860 original size:43 final size:42
Alignment explanation
Indices: 33278765--33278887 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 42
33278755 TGCATCAATA
* * *
33278765 CATCCGATGATGCACTTACATGCCAATATGATTGCTTTGATT
1 CATCCGATGATGCACTTGCATGCCAATATAATTGTTTTGATT
* * * * *
33278807 TATTCAATGATGCACTATGCCTGCCAATATAATTGTTTTGGTT
1 CATCCGATGATGCACT-TGCATGCCAATATAATTGTTTTGATT
* * * *
33278850 CGTCCGATGATACACTTTGTATGCCAGTATAATTGTTT
1 CATCCGATGATGCAC-TTGCATGCCAATATAATTGTTT
33278888 AGGCTTGCTC
Statistics
Matches: 63, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
42 13 0.21
43 49 0.78
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (42 bp):
CATCCGATGATGCACTTGCATGCCAATATAATTGTTTTGATT
Found at i:33278901 original size:43 final size:43
Alignment explanation
Indices: 33278813--33278922 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 43
33278803 GATTTATTCA
* ** * *
33278813 ATGATGCACTATGCCTGCCAATATAATTGTTTTGGTTCGTCCG
1 ATGATGAACTATGTATGCCAGTATAATTGTTTAGGTTCGTCCG
*
33278856 ATGAT-ACACTTTGTATGCCAGTATAATTGTTTAGGCTT-G-CTCG
1 ATGATGA-ACTATGTATGCCAGTATAATTGTTTAGG-TTCGTC-CG
*
33278899 ATGATGAACTATGTGTGCCAGTAT
1 ATGATGAACTATGTATGCCAGTAT
33278923 CTTTCCTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
42 1 0.02
43 51 0.93
44 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (43 bp):
ATGATGAACTATGTATGCCAGTATAATTGTTTAGGTTCGTCCG
Found at i:33280684 original size:52 final size:50
Alignment explanation
Indices: 33280628--33280736 Score: 141
Period size: 50 Copynumber: 2.1 Consensus size: 50
33280618 ATGAGTTATT
*
33280628 TAATGCAAGAC-TTAATTTAATAATGC-TGACTTAAACTAACATGGGAGTTACA
1 TAATGCAAGACATT-ATTT-ATAATGCAT-ACTT-AACTAACATGAGAGTTACA
* *
33280680 TAATGCAAGTCATTATTTATGATGCATACTTAACTAACATGAGAGTTACA
1 TAATGCAAGACATTATTTATAATGCATACTTAACTAACATGAGAGTTACA
33280730 TAATGCA
1 TAATGCA
33280737 TTACTTTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
50 25 0.48
51 10 0.19
52 15 0.29
53 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (50 bp):
TAATGCAAGACATTATTTATAATGCATACTTAACTAACATGAGAGTTACA
Found at i:33284421 original size:42 final size:42
Alignment explanation
Indices: 33284368--33284655 Score: 165
Period size: 42 Copynumber: 6.8 Consensus size: 42
33284358 CTTACCTGCT
* * * ** * *
33284368 AGTATATTTGTTTTGGTTTATTTGATGATGTACTTATGTGTC
1 AGTATAATTGTTTCGGCTTATCCGATGATGCACTTATGTGCC
33284410 AGTATAATTGTTTCGGCTTATCCGATGATGCACTTATGTGCC
1 AGTATAATTGTTTCGGCTTATCCGATGATGCACTTATGTGCC
** * * *
33284452 AGTATAATTACTTCGG-TACATCTGATGATGCACTTATGTGCT
1 AGTATAATTGTTTCGGCT-TATCCGATGATGCACTTATGTGCC
* * ** * * *
33284494 AGCATGATTACTTCGGTTTATTCGATGATGCA-TTAAGCGTGCC
1 AGTATAATTGTTTCGGCTTATCCGATGATGCACTT-A-TGTGCC
* **
33284537 AGTATAATTGCTTT-GG-TTCGTCCGAT-ATGCACCTCGTGTGCC
1 AGTATAATTG-TTTCGGCTT-ATCCGATGATGCA-CTTATGTGCC
* * ** *
33284579 ATTATAATTGCTTCGGCTTGCCCAATGATGCA-TTATGTGTGCC
1 AGTATAATTGTTTCGGCTTATCCGATGATGCACTTA--TGTGCC
* ** * * *
33284622 AATATCTTTCTTTCGGTTTATCCGATGATACACT
1 AGTATAATTGTTTCGGCTTATCCGATGATGCACT
33284656 GTGGTGCCAG
Statistics
Matches: 188, Mismatches: 44, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
41 6 0.03
42 124 0.66
43 54 0.29
44 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (42 bp):
AGTATAATTGTTTCGGCTTATCCGATGATGCACTTATGTGCC
Found at i:33284593 original size:85 final size:84
Alignment explanation
Indices: 33284391--33284597 Score: 202
Period size: 84 Copynumber: 2.5 Consensus size: 84
33284381 TGGTTTATTT
* * * * *
33284391 GATGATGTACTTATGTGTCAGTATAATTGTTTCGGCTTATCCGATGATGCACTTATGTGCCAGTA
1 GATGATGCACTCATGTGCCAGTATAATTGCTTCGGCTTATCCGATGATGCACTTACGTGCCAGTA
*
33284456 TAATTACTTCGGTACATCT
66 TAATTACTTCGGTACATCC
* * * * * * *
33284475 GATGATGCACTTATGTGCTAGCATGATTACTTCGGTTTATTCGATGATGCA-TTAAGCGTGCCAG
1 GATGATGCACTCATGTGCCAGTATAATTGCTTCGGCTTATCCGATGATGCACTT-A-CGTGCCAG
* * * *
33284539 TATAATTGCTTTGGTTCGTCC
64 TATAATTACTTCGGTACATCC
* *
33284560 GAT-ATGCACCTCGTGTGCCATTATAATTGCTTCGGCTT
1 GATGATGCA-CTCATGTGCCAGTATAATTGCTTCGGCTT
33284598 GCCCAATGAT
Statistics
Matches: 97, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
83 2 0.02
84 48 0.49
85 47 0.48
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (84 bp):
GATGATGCACTCATGTGCCAGTATAATTGCTTCGGCTTATCCGATGATGCACTTACGTGCCAGTA
TAATTACTTCGGTACATCC
Found at i:33285800 original size:22 final size:22
Alignment explanation
Indices: 33285775--33285824 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
33285765 AAATGGTAGC
33285775 AAAATAAGTA-GAAAACAACAA
1 AAAATAAGTATGAAAACAACAA
*
33285796 GAAAAT-AGTATTAAAACAACAA
1 -AAAATAAGTATGAAAACAACAA
33285818 AAAATAA
1 AAAATAA
33285825 CAAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.14
Consensus pattern (22 bp):
AAAATAAGTATGAAAACAACAA
Found at i:33286188 original size:26 final size:25
Alignment explanation
Indices: 33286151--33286228 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 25
33286141 AGTCTATTAA
*
33286151 ATATAATGGATTCATTTAAAAAAAT
1 ATATAATGGATTCATTTAATAAAAT
* *
33286176 ATATACATGGATTCGTTTAGCGTAAAA-
1 ATATA-ATGGATTCATTTA--ATAAAAT
*
33286203 ATATAATGGATTTATTTAATAAAAT
1 ATATAATGGATTCATTTAATAAAAT
33286228 A
1 A
33286229 AAAGTATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 5 0.12
25 6 0.14
26 23 0.53
27 5 0.12
28 4 0.09
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (25 bp):
ATATAATGGATTCATTTAATAAAAT
Found at i:33289876 original size:17 final size:16
Alignment explanation
Indices: 33289854--33289885 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
33289844 AAAAAATAAT
33289854 TTAAAAATTATAAAATA
1 TTAAAAATT-TAAAATA
33289871 TTAAAAATTTAAAAT
1 TTAAAAATTTAAAAT
33289886 TAGAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAAAATTTAAAATA
Found at i:33296853 original size:266 final size:264
Alignment explanation
Indices: 33296379--33296907 Score: 995
Period size: 266 Copynumber: 2.0 Consensus size: 264
33296369 AGTCTTTGAG
33296379 AAGCTCACCATAGTTCTTATGCTATCGACTAGGGAAGTAACAAGAGGTATAATGATTTGAAACCA
1 AAGCTCACCATAGTTCTTATGCTATCGACTAGGGAAGTAACAAGAGGTATAATGATTTGAAACCA
* *
33296444 TTTTACTAGTGGCCGAGAATAAAATAGGACATCACCGAGTATGTAGCCAAGTGTTTGGTATGCCA
66 TTTTACTAGTGGCCGAGAATAAAATAGGACATCACCGAATATATAGCCAAGTGTTTGGTATGCCA
**
33296509 ACAAGTAAAAGTTTGAGCATCAAGTTCCCTTAAGATTGTTGCAACTTATTTCGATACTTGAGTGG
131 ACAAGTAAAAGTTTGAGCATCAAGTTCCCTTAAGATTGTTGCAACCCATTTCGATACTTGAGTGG
33296574 AAATGAGAATGAGTGACCCCATGAATTTTGTAGTTGGTTTGCTATTAACCTCGAGAAAAAAAATT
196 AAATGAGAATGAGTGA--CCATGAATTTTGTAGTTGGTTTGCTATTAACCTCGAGAAAAAAAATT
33296639 CAATTT
259 CAATTT
33296645 AAGCTCACCATAGTTCTTATGCTATCGACTAGGGAAGTAACAAGAGGTATAATGATTTGAAACCA
1 AAGCTCACCATAGTTCTTATGCTATCGACTAGGGAAGTAACAAGAGGTATAATGATTTGAAACCA
33296710 TTTTACTAGTGGCCGAGAATAAAATAGGACATCACCGAATATATAGCCAAGTGTTTGGTATGCCA
66 TTTTACTAGTGGCCGAGAATAAAATAGGACATCACCGAATATATAGCCAAGTGTTTGGTATGCCA
33296775 ACAAGTAAAAGTTTGAGCATCAAGTTCCCTTAAGATTGTTGCAACCCATTTCGATACTTGAGTGG
131 ACAAGTAAAAGTTTGAGCATCAAGTTCCCTTAAGATTGTTGCAACCCATTTCGATACTTGAGTGG
*
33296840 AAATGAGAATGAGTGACCATGAATTTTGTAGTTGGTTTGCTATTGACCTCGAGAAAAAAAATTCA
196 AAATGAGAATGAGTGACCATGAATTTTGTAGTTGGTTTGCTATTAACCTCGAGAAAAAAAATTCA
33296905 ATT
261 ATT
33296908 CAGGTTATTG
Statistics
Matches: 258, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
264 51 0.20
266 207 0.80
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (264 bp):
AAGCTCACCATAGTTCTTATGCTATCGACTAGGGAAGTAACAAGAGGTATAATGATTTGAAACCA
TTTTACTAGTGGCCGAGAATAAAATAGGACATCACCGAATATATAGCCAAGTGTTTGGTATGCCA
ACAAGTAAAAGTTTGAGCATCAAGTTCCCTTAAGATTGTTGCAACCCATTTCGATACTTGAGTGG
AAATGAGAATGAGTGACCATGAATTTTGTAGTTGGTTTGCTATTAACCTCGAGAAAAAAAATTCA
ATTT
Found at i:33300161 original size:14 final size:14
Alignment explanation
Indices: 33300142--33300177 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
33300132 ACTTTTAATG
*
33300142 AGAATTTAGCCAAA
1 AGAATTAAGCCAAA
33300156 AGAATTAAGCCAAA
1 AGAATTAAGCCAAA
*
33300170 GGAATTAA
1 AGAATTAA
33300178 ATGGGCTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (14 bp):
AGAATTAAGCCAAA
Found at i:33306689 original size:10 final size:10
Alignment explanation
Indices: 33306655--33306706 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
33306645 ATTTTAGAAA
33306655 ATTTTTA-A-
1 ATTTTTATAT
33306663 ATTTTTA-AT
1 ATTTTTATAT
*
33306672 TTTCTTTATAT
1 ATT-TTTATAT
33306683 ATTTTTATAT
1 ATTTTTATAT
33306693 -TTTTTATA-
1 ATTTTTATAT
33306701 ATTTTT
1 ATTTTT
33306707 TAAAACATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 8 0.21
9 15 0.39
10 11 0.29
11 4 0.11
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:33306706 original size:19 final size:18
Alignment explanation
Indices: 33306656--33306708 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
33306646 TTTTAGAAAA
*
33306656 TTTTTA-AATTTTTAATT
1 TTTTTATAATTTTTTATT
33306673 TTCTTTAT-ATATTTTTATAT
1 TT-TTTATAAT-TTTTTAT-T
33306693 TTTTTATAATTTTTTA
1 TTTTTATAATTTTTTA
33306709 AAACATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 2 0.07
18 6 0.20
19 17 0.57
20 5 0.17
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATAATTTTTTATT
Found at i:33306775 original size:20 final size:19
Alignment explanation
Indices: 33306720--33306790 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 19
33306710 AACATATATG
33306720 TTTTGGAATTTTTATAAA-TA
1 TTTT-GAATTTTTA-AAATTA
*
33306740 TTTTGAATTTTAAAAATTA
1 TTTTGAATTTTTAAAATTA
33306759 TTTTGAATTTTTGAAAATTA
1 TTTTGAATTTTT-AAAATTA
33306779 TTTTGAATTTTT
1 TTTTGAATTTTT
33306791 TTTTGTAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
18 3 0.06
19 21 0.45
20 23 0.49
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTTGAATTTTTAAAATTA
Found at i:33307167 original size:2 final size:2
Alignment explanation
Indices: 33307160--33307190 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33307150 AATTTAAAAC
33307160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33307191 AACTTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33307394 original size:19 final size:20
Alignment explanation
Indices: 33307329--33307416 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 20
33307319 TATTCATTAG
* *
33307329 ATTTTTTAAAATTATTATG-
1 ATTTTTAAAAATTATTTTGA
*
33307348 TTTTTTAAAAATATGAATTTTAGA
1 ATTTTTAAAAAT-T--ATTTT-GA
*
33307372 ATTTTTATAAA-TATTTTGA
1 ATTTTTAAAAATTATTTTGA
*
33307391 A-TTTAAAAAATTATTTTGA
1 ATTTTTAAAAATTATTTTGA
33307410 AGTTTTT
1 A-TTTTT
33307417 TTTTATAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
18 7 0.13
19 22 0.42
20 6 0.11
21 3 0.06
22 5 0.09
23 1 0.02
24 9 0.17
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
ATTTTTAAAAATTATTTTGA
Found at i:33308704 original size:9 final size:9
Alignment explanation
Indices: 33308690--33308726 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33308680 TATAGTTTAA
33308690 TATTCGAAT
1 TATTCGAAT
33308699 TATTCGAAT
1 TATTCGAAT
*
33308708 TATTCGAGT
1 TATTCGAAT
33308717 TATTCGAAT
1 TATTCGAAT
33308726 T
1 T
33308727 CGAAAATTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33309355 original size:17 final size:17
Alignment explanation
Indices: 33309333--33309366 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33309323 TATATATATA
*
33309333 TTTAGGATTTGTTTGAT
1 TTTAGGATTTATTTGAT
33309350 TTTAGGATTTATTTGAT
1 TTTAGGATTTATTTGAT
33309367 AAATCATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (17 bp):
TTTAGGATTTATTTGAT
Found at i:33309863 original size:15 final size:15
Alignment explanation
Indices: 33309807--33309863 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
33309797 ATTTATATCT
33309807 TTAATATTTAAAAATA
1 TTAAT-TTTAAAAATA
*
33309823 TTAATTTAAAAAATA
1 TTAATTTTAAAAATA
*
33309838 -TAATGTT--AAATA
1 TTAATTTTAAAAATA
*
33309850 TTATTTTTAAAAAT
1 TTAATTTTAAAAAT
33309864 GAGAATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
12 5 0.15
13 5 0.15
14 5 0.15
15 13 0.39
16 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TTAATTTTAAAAATA
Found at i:33321049 original size:26 final size:26
Alignment explanation
Indices: 33320977--33321043 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
33320967 GAGGAAGTGC
33320977 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
33321003 AAAAGGGCTCATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
33321029 AAAAGGGCTTTTGCC
1 AAAAGGGCTTATGCC
33321044 TTAGTTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:33323190 original size:46 final size:46
Alignment explanation
Indices: 33323132--33323312 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
33323122 ACTAGGATTT
33323132 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
33323178 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
33323224 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
33323271 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33323313 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:33323293 original size:93 final size:93
Alignment explanation
Indices: 33323134--33323304 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
33323124 TAGGATTTGA
* *
33323134 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33323199 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
33323227 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33323292 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33323305 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33325834 original size:37 final size:37
Alignment explanation
Indices: 33325775--33325883 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
33325765 AGCTCAGATG
* * *
33325775 AAATCTCCACACGAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
33325812 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
33325849 TAATCTCCACACGTAGTCATCGGGTTTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
33325884 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33326081 original size:48 final size:48
Alignment explanation
Indices: 33326023--33326313 Score: 494
Period size: 48 Copynumber: 6.0 Consensus size: 48
33326013 ATATACACAC
*
33326023 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33326071 ATCTCATACATATTTCACACTAGCCATTC-GCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33326118 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33326168 ATCTCATACATATTTCACATTAGCCGTTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33326216 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33326264 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33326312 AT
1 AT
33326314 ATTTATCTTG
Statistics
Matches: 231, Mismatches: 9, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 23 0.10
48 163 0.71
49 22 0.10
50 23 0.10
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:33348351 original size:6 final size:6
Alignment explanation
Indices: 33348340--33348373 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
33348330 AGGTTTCCAA
33348340 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
33348374 TTGCAATCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:33348544 original size:25 final size:25
Alignment explanation
Indices: 33348516--33348589 Score: 85
Period size: 26 Copynumber: 2.9 Consensus size: 25
33348506 AATTTTCTGG
*
33348516 AAATTTTATCAGGGTAAAATTGTCA
1 AAATTTTATCGGGGTAAAATTGTCA
* * **
33348541 AAATTTTACCGGGGGTAGAATCATCA
1 AAATTTTATC-GGGGTAAAATTGTCA
33348567 AAATTTTATCGGAGGTAAAATTG
1 AAATTTTATCGG-GGTAAAATTG
33348590 AGATGAGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 11 0.29
26 27 0.71
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.32
Consensus pattern (25 bp):
AAATTTTATCGGGGTAAAATTGTCA
Found at i:33350934 original size:46 final size:46
Alignment explanation
Indices: 33350867--33351036 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
33350857 TGTAACCCGC
*
33350867 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* *
33350913 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * * *
33350963 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
33351006 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
33351037 TTCAGATGCT
Statistics
Matches: 105, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
46 59 0.56
47 27 0.26
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:33350981 original size:93 final size:93
Alignment explanation
Indices: 33350875--33351045 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
33350865 GCCCATAAGT
* * *
33350875 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
33350940 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
*
33350968 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
33351033 CGAGTTCAGATGC
66 CGAGCTCAGATGC
33351046 TCAACCATCC
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:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:33351061 original size:46 final size:45
Alignment explanation
Indices: 33350918--33351061 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 45
33350908 TGCATCCATA
* *
33350918 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCC-A---ACCATC-CT
* * *
33350967 --CGAACTCGGACTCAACTCAACGAGTTC-G--GACATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCA-AC-CATCC-T
33351010 AAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAGATGC-CAACCATCCT
33351057 AGTGA
1 AGTGA
33351062 CATGTCACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 2 0.03
46 32 0.41
47 27 0.35
48 5 0.06
49 2 0.03
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCAACCATCCT
Found at i:33357324 original size:18 final size:18
Alignment explanation
Indices: 33357303--33357339 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33357293 ATATATCCAT
*
33357303 CGAATTTCATTATTTAAA
1 CGAATTTCATTATTCAAA
33357321 CGAATTTCATTATTCAAA
1 CGAATTTCATTATTCAAA
33357339 C
1 C
33357340 ATATATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (18 bp):
CGAATTTCATTATTCAAA
Found at i:33361987 original size:22 final size:22
Alignment explanation
Indices: 33361959--33362004 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
33361949 ACCTTTATGC
33361959 CATTTTTCAAAATAAAATACAT
1 CATTTTTCAAAATAAAATACAT
33361981 CATTTTTCAAAATAAAATACAT
1 CATTTTTCAAAATAAAATACAT
33362003 CA
1 CA
33362005 CCAAGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (22 bp):
CATTTTTCAAAATAAAATACAT
Found at i:33363353 original size:26 final size:26
Alignment explanation
Indices: 33363304--33363353 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33363294 TTTCCCTTTC
* *
33363304 CTTTTTCTTTTCTTCTTTCTTTCTCT
1 CTTTTTCGTTTCTTCTCTCTTTCTCT
33363330 CTTTTTCGTTTCTT-TCTCTATTCT
1 CTTTTTCGTTTCTTCTCTCT-TTCT
33363354 GATTCTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (26 bp):
CTTTTTCGTTTCTTCTCTCTTTCTCT
Found at i:33368028 original size:93 final size:93
Alignment explanation
Indices: 33367916--33368087 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33367906 CGCCCATAAG
* *
33367916 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33367981 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
33368009 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33368074 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33368088 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33368084 original size:46 final size:46
Alignment explanation
Indices: 33367909--33368084 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33367899 TGTAACCCGC
* * *
33367909 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
33367955 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33368005 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33368048 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33368085 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33375562 original size:93 final size:93
Alignment explanation
Indices: 33375450--33375621 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33375440 CGCCCATAAG
* *
33375450 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33375515 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
33375543 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33375608 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33375622 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33375618 original size:46 final size:46
Alignment explanation
Indices: 33375443--33375618 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33375433 TGTAACCCGC
* * *
33375443 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
33375489 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33375539 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33375582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33375619 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33377496 original size:27 final size:26
Alignment explanation
Indices: 33377420--33377503 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 26
33377410 TTGGAGGAAG
* *
33377420 TTCTGTACTAGTGGCTTTGCCACGTA
1 TTCTGTACTGGTGGCTTTGCCACATA
* *
33377446 TTTGCTGTTCTGGTGGCTTAGCCACATA
1 -TT-CTGTACTGGTGGCTTTGCCACATA
33377474 TTCTGATACTGGTGGCTTTGCCACGATA
1 TTCTG-TACTGGTGGCTTTGCCAC-ATA
33377502 TT
1 TT
33377504 ATTATTAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
26 3 0.06
27 20 0.42
28 25 0.52
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (26 bp):
TTCTGTACTGGTGGCTTTGCCACATA
Found at i:33380060 original size:93 final size:91
Alignment explanation
Indices: 33379903--33380071 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 91
33379893 GCCCCTAAGT
*
33379903 GAACTCGGACTCAACTAACGAGCTTGGACGTTCGCATCCATAAATGACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTAACGAGCTTGGACATTCGCATCCATAAATGACTCGGACTCAACTCAACG
33379968 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
* *
33379994 GAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACT-AACGAGCTT-GGACATTCGCATCCATAAATG-ACTCGGACTCAACTCA
33380058 ACGAGTTCGGATGC
63 ACGAGTTCGGATGC
33380072 TCAACCATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
91 18 0.25
92 24 0.33
93 30 0.42
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTAACGAGCTTGGACATTCGCATCCATAAATGACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Done.