Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 24 of 230
Found at i:6534591 original size:22 final size:22
Alignment explanation
Indices: 6534536--6534599 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
6534526 TTTTATATTT
*
6534536 ATTTAACCAAATATT-TTAATAA
1 ATTTAA-CAAATCTTATTAATAA
* *
6534558 A-TTAA-AATTCTTATTTATAA
1 ATTTAACAAATCTTATTAATAA
*
6534578 ATTTAACAAATCTTATGAATAA
1 ATTTAACAAATCTTATTAATAA
6534600 TAGAAATACG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 8 0.24
22 13 0.39
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTAACAAATCTTATTAATAA
Found at i:6540597 original size:6 final size:6
Alignment explanation
Indices: 6540582--6540621 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
6540572 GGGCTTCACT
*
6540582 TCTTCG TCTTCC TCTTCC TCTTCC TCTTTCC -CTTCC TCTT
1 TCTTCC TCTTCC TCTTCC TCTTCC TC-TTCC TCTTCC TCTT
6540622 GTTCTACTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.53
Consensus pattern (6 bp):
TCTTCC
Found at i:6543657 original size:2 final size:2
Alignment explanation
Indices: 6543650--6543686 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6543640 GTAAACAGCC
6543650 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6543687 ATGAGTGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6551578 original size:17 final size:18
Alignment explanation
Indices: 6551545--6551580 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
6551535 TTTATAAAAT
6551545 ATAAAATATATTAATTTA
1 ATAAAATATATTAATTTA
*
6551563 ATAAAA-ATATTTATTTA
1 ATAAAATATATTAATTTA
6551580 A
1 A
6551581 ATTAGTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAAATATATTAATTTA
Found at i:6553373 original size:40 final size:40
Alignment explanation
Indices: 6553288--6553423 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
6553278 CGTTTGAATT
* * *
6553288 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAAATCAAGCATTAGTGGCGATTTTAC
* * *
6553328 AAAAACGCCGCTAAAGATCGAGCATTAGTGGCGAATTTT-G
1 AAAAACGCCGCTAAAAATCAAGCATTAGTGGCG-ATTTTAC
* * * *
6553368 GAAAACACCGCCAAAAAT-AAGCATTAGTGGCG-TTTTCC
1 AAAAACGCCGCTAAAAATCAAGCATTAGTGGCGATTTTAC
*
6553406 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
6553424 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 4 0.05
38 4 0.05
39 23 0.29
40 43 0.55
41 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGTGGCGATTTTAC
Found at i:6553524 original size:41 final size:42
Alignment explanation
Indices: 6553463--6553648 Score: 211
Period size: 41 Copynumber: 4.5 Consensus size: 42
6553453 TTTTGGGGCA
*
6553463 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCCTG-CC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCTGACC
* * ** *
6553504 TTTAGCGGCTTTTTTAAAAAATTGCCGCTAATGCTTCTGACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCTGACC
* * * * *
6553546 TTTAGCGACGTTATTGATAAAGCGCCGGTAATGCTCGTG-CC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCTGACC
* *
6553587 TTTAGTGGCGTTTCTGAAAAAAGCGCCGCTAATG---CTGACC
1 TTTAGCGGCGTTTTTG-AAAAAGCGCCGCTAATGCTCCTGACC
6553627 TTTAGCGGCGTTTTTGAAAAAG
1 TTTAGCGGCGTTTTTGAAAAAG
6553649 TGTTGCTAAT
Statistics
Matches: 118, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 8 0.07
40 16 0.14
41 48 0.41
42 46 0.39
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCTGACC
Found at i:6553607 original size:83 final size:81
Alignment explanation
Indices: 6553476--6553648 Score: 213
Period size: 83 Copynumber: 2.1 Consensus size: 81
6553466 AGCGGCATTT
* * **
6553476 TTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGGC-TTTTTTAAAAAATTGCCGCTAATGCTT
1 TTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGGCGTTTCTAAAAAAAGCGCCGCTAATG---
6553540 CTGACCTTTAGCGACGTTA
63 CTGACCTTTAGCGACGTTA
* * * * *
6553559 TTGATAAAGCGCCGGTAATGCTCGTGCCTTTAGTGGCGTTTCTGAAAAAAGCGCCGCTAATGCTG
1 TTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGGCGTTTCTAAAAAAAGCGCCGCTAATGCTG
* *
6553624 ACCTTTAGCGGCGTTT
66 ACCTTTAGCGACGTTA
6553640 TTGAAAAAG
1 TTGAAAAAG
6553649 TGTTGCTAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 25 0.32
83 33 0.42
84 20 0.26
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (81 bp):
TTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGGCGTTTCTAAAAAAAGCGCCGCTAATGCTG
ACCTTTAGCGACGTTA
Found at i:6554801 original size:10 final size:10
Alignment explanation
Indices: 6554786--6554813 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6554776 TAATGCTTTT
6554786 ATATTTAAAA
1 ATATTTAAAA
6554796 ATATTTAAAA
1 ATATTTAAAA
6554806 ATATTTAA
1 ATATTTAA
6554814 TCTAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:6561320 original size:42 final size:43
Alignment explanation
Indices: 6561133--6561426 Score: 344
Period size: 42 Copynumber: 6.9 Consensus size: 43
6561123 TTTCTGTGAG
* * * **
6561133 AAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTTTGACAAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-AGGAA
* * * * *
6561176 AAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
* **
6561219 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTATAAAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTA-GGAA
*
6561263 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGTGTTTG-AGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
* * * *
6561305 AAGCGCCACTAAAGGTCTTGGTCTTTAGTGGCATTTGTCGG-A
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
* * *
6561347 AAGCGCTGTTAAAGGTCTTGGTCTTTAGCGGCATTTGT-GGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
*
6561389 AAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
6561427 TTCTAAAAAC
Statistics
Matches: 215, Mismatches: 32, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 105 0.49
43 55 0.26
44 53 0.25
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
Found at i:6561545 original size:22 final size:22
Alignment explanation
Indices: 6561517--6561559 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6561507 TAGCGGCGCT
*
6561517 AAAAAGCGCCACTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
6561539 AAAAAGCGCCACTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
6561560 GTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:6564125 original size:21 final size:21
Alignment explanation
Indices: 6564100--6564143 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6564090 ATCTTCGAGG
6564100 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
6564121 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
6564142 AT
1 AT
6564144 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:6564149 original size:19 final size:19
Alignment explanation
Indices: 6564099--6564154 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
6564089 AATCTTCGAG
6564099 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6564118 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
6564139 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
6564155 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:6564161 original size:22 final size:23
Alignment explanation
Indices: 6564112--6564177 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
6564102 ATGCAATCTT
*
6564112 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
6564133 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
6564155 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
6564178 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:6564187 original size:22 final size:23
Alignment explanation
Indices: 6564143--6564187 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6564133 AGATATGATA
*
6564143 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
6564166 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
6564188 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:6564385 original size:19 final size:21
Alignment explanation
Indices: 6564361--6564399 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6564351 GTTTTCTTTT
*
6564361 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
6564380 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
6564400 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:6567764 original size:26 final size:26
Alignment explanation
Indices: 6567735--6567786 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
6567725 AAAATATAAT
*
6567735 AAAAAATGAACTCAAAGTCATGAGTG
1 AAAAAATAAACTCAAAGTCATGAGTG
6567761 AAAAAATAAACTCAAAGTCATGAGTG
1 AAAAAATAAACTCAAAGTCATGAGTG
6567787 CCATGGCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (26 bp):
AAAAAATAAACTCAAAGTCATGAGTG
Found at i:6569452 original size:15 final size:15
Alignment explanation
Indices: 6569432--6569466 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
6569422 AATCGCCCGT
6569432 GAAGACTACACCGAA
1 GAAGACTACACCGAA
6569447 GAAGACTACACCGAA
1 GAAGACTACACCGAA
6569462 GAAGA
1 GAAGA
6569467 ATGGGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.23, T:0.06
Consensus pattern (15 bp):
GAAGACTACACCGAA
Found at i:6579758 original size:20 final size:19
Alignment explanation
Indices: 6579725--6579767 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
6579715 TTATTAACAT
* *
6579725 AATAATATATATAAATATAA
1 AATAAGATAGATAAA-ATAA
6579745 AATAAGATAGATAAAATAA
1 AATAAGATAGATAAAATAA
6579764 AATA
1 AATA
6579768 CTCAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
AATAAGATAGATAAAATAA
Found at i:6589427 original size:24 final size:24
Alignment explanation
Indices: 6589384--6589433 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6589374 TTTTTCTTCA
6589384 TTGCATTTGGAGTTCCAGAAGTGT
1 TTGCATTTGGAGTTCCAGAAGTGT
*
6589408 TTGCATTTAGGA-TTCTAGAAGTGT
1 TTGCATTT-GGAGTTCCAGAAGTGT
6589432 TT
1 TT
6589434 TTTTCTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.42
Consensus pattern (24 bp):
TTGCATTTGGAGTTCCAGAAGTGT
Found at i:6590070 original size:123 final size:123
Alignment explanation
Indices: 6589836--6590206 Score: 627
Period size: 123 Copynumber: 3.0 Consensus size: 123
6589826 TTTTTTTAAG
** *
6589836 AACACTTTTTTATCGCAACAACAATGGAGAATTAGCCCTAAAAACTAGTAAAGTCCAAACCAAAG
1 AACACTTTTAAATC-CAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAG
*
6589901 TCCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATAATTGCCCATA
65 TCCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATCATTGCCCATA
6589960 AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAGT
1 AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAGT
6590025 CCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATCATTGCCCATA
66 CCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATCATTGCCCATA
*
6590083 AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGCCCAAACCAAAGT
1 AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAGT
* * * * *
6590148 CCACAGATGGTAATCACAAATGATGTGACTA-AGAGACTTACGTATATCATTGCCCATA
66 CCACAAATGGTAATCACACATGATGTGACTAGA-AAACCTATGTATATCATTGCCCATA
6590206 A
1 A
6590207 TAAGTTTCGA
Statistics
Matches: 236, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
122 1 0.00
123 223 0.94
124 12 0.05
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (123 bp):
AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAGT
CCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATCATTGCCCATA
Found at i:6590615 original size:24 final size:24
Alignment explanation
Indices: 6590588--6590637 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
6590578 AAAAGAATGA
6590588 GAAAAGACGAAAATTGTTATTTTG
1 GAAAAGACGAAAATTGTTATTTTG
6590612 GAAAAGACGAAAATTGTTATTTTG
1 GAAAAGACGAAAATTGTTATTTTG
6590636 GA
1 GA
6590638 TTTTTAGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (24 bp):
GAAAAGACGAAAATTGTTATTTTG
Found at i:6601296 original size:27 final size:27
Alignment explanation
Indices: 6601258--6601312 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6601248 AGGGGTTAAA
6601258 TGTCCAAATTTCATCACTTACAATAAC
1 TGTCCAAATTTCATCACTTACAATAAC
6601285 TGTCCAAATTTCATCACTTACAATAAC
1 TGTCCAAATTTCATCACTTACAATAAC
6601312 T
1 T
6601313 TTCTCATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (27 bp):
TGTCCAAATTTCATCACTTACAATAAC
Found at i:6602353 original size:185 final size:187
Alignment explanation
Indices: 6601995--6602391 Score: 576
Period size: 185 Copynumber: 2.2 Consensus size: 187
6601985 CATACTACTG
** *
6601995 CTGTAAAAGCTTTTAGTCTTTGAC---T--TTTAGAACTGGTAAACCTGTCTTTTATGTTCATCA
1 CTGTAAAAGCTTTTAGTCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATATTCATCA
* * *
6602055 TCTCTTGATAATATCAGATTTAGATCATCCTAGCAGTGTCATTGAACACCGCAAAAATCCCTAAG
66 TCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGCAAAAATCCCTAAG
* *
6602120 CCTGTTATGCCACATTATTCATGTGCTATTAGGTCATCCTACCAGTGTCATTGAACA
131 CCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAACA
* * *
6602177 CTGTAAAAGCTTTTAGTCTTCGACTTTTAGTTTAGAACTGGTAGACCTACCTTTTATATTCATTA
1 CTGTAAAAGCTTTTAGTCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATATTCATCA
* *
6602242 TCTCATGATAATATCATATTTAGATCATCCTACCAGTGACATTG-A-A-CGCTAAAAATCCCTGA
66 TCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGC-AAAAATCCCTAA
* * *
6602304 TCTTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAGCA
130 GCCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAACA
*
6602362 CTGTAAAAGCTTTTAGCCTTTGACTTTTAG
1 CTGTAAAAGCTTTTAGTCTTTGACTTTTAG
6602392 AAATGGTAAA
Statistics
Matches: 191, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
182 23 0.12
184 3 0.02
185 94 0.49
186 1 0.01
187 70 0.37
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (187 bp):
CTGTAAAAGCTTTTAGTCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATATTCATCA
TCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGCAAAAATCCCTAAG
CCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAACA
Found at i:6607180 original size:94 final size:89
Alignment explanation
Indices: 6607038--6607330 Score: 246
Period size: 94 Copynumber: 3.3 Consensus size: 89
6607028 GACTTAAAAT
* * * *
6607038 GCTAGCAATGGCTCTGCTATTGACTTAGCTAGTAGTACCCTCGAAGGGTGTGTGTCGTTTTAACT
1 GCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAATACCCTCGAAGGGTGTGTGT--TGTT---T
6607103 TAATGAAATTTGGCTAAGTGCCTTTGAAG
61 TAATGAAATTTGGCTAAGTGCCTTTGAAG
* *
6607132 GCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAATATCCGT-GGAGGGTGTGTGTTGTTTTAAT
1 GCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAATA-CCCTCGAAGGGTGTGTGTTGTTTTAAT
6607196 GAAATTTGGCTAAGTGCC-TT-ATA-
65 GAAATTTGGCTAAGTGCCTTTGA-AG
** * * ** *
6607219 G-TAG---TGGCTTTGCTATT-AGCTTAGCTAGCAGTGCCCTCGAAGGGTGCATG-TGTTTTAAC
1 GCTAGCAATGGCCCTGCTATTGA-CTTAGCTAGCAATACCCTCGAAGGGTGTGTGTTGTTTTAAT
* * **
6607278 GAAATTTGTCTAACTGCCTTAAAAG
65 GAAATTTGGCTAAGTGCCTTTGAAG
* * * * *
6607303 GATAGTATTGGCACTGCTATTAACTTAG
1 GCTAGCAATGGCCCTGCTATTGACTTAG
6607331 GGCCACTTCT
Statistics
Matches: 167, Mismatches: 20, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
82 28 0.17
83 34 0.20
84 2 0.01
85 3 0.02
86 3 0.02
87 2 0.01
88 19 0.11
89 24 0.14
92 3 0.02
94 46 0.28
95 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (89 bp):
GCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAATACCCTCGAAGGGTGTGTGTTGTTTTAATG
AAATTTGGCTAAGTGCCTTTGAAG
Found at i:6607368 original size:13 final size:13
Alignment explanation
Indices: 6607345--6607397 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
6607335 ACTTCTTCAT
6607345 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
6607358 TGCTATGGAAAAG
1 TGCTTTTGAAAAG
*
6607371 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
6607384 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
6607397 T
1 T
6607398 TTGATTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:6607892 original size:13 final size:13
Alignment explanation
Indices: 6607874--6607910 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
6607864 TTTTTAGCAC
6607874 CTTTTCAAAAGTG
1 CTTTTCAAAAGTG
6607887 CTTTTCAAAAGTG
1 CTTTTCAAAAGTG
6607900 CTTTTCAAAAG
1 CTTTTCAAAAG
6607911 CACTTCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (13 bp):
CTTTTCAAAAGTG
Found at i:6607922 original size:26 final size:26
Alignment explanation
Indices: 6607874--6607923 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6607864 TTTTTAGCAC
** *
6607874 CTTTTCAAAAGTGCTTTTCAAAAGTG
1 CTTTTCAAAAGCACTTCTCAAAAGTG
*
6607900 CTTTTCAAAAGCACTTCTGAAAAG
1 CTTTTCAAAAGCACTTCTCAAAAG
6607924 CTAAAACTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (26 bp):
CTTTTCAAAAGCACTTCTCAAAAGTG
Found at i:6617942 original size:41 final size:41
Alignment explanation
Indices: 6617882--6618085 Score: 282
Period size: 41 Copynumber: 5.0 Consensus size: 41
6617872 GCATATTCGG
* * *
6617882 ATCACCGGTACTTAACCTGCTAGGTTTATAACCTGATTAAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * * *
6617923 ATCACCGGTACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
6617964 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * * * *
6618005 ATCATCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* *
6618046 ATCACTGGCACTTAGCCTGCTAGGTGTATAACCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
6618086 ATTCACCAAT
Statistics
Matches: 143, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 143 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:6617983 original size:82 final size:82
Alignment explanation
Indices: 6617876--6618092 Score: 337
Period size: 82 Copynumber: 2.6 Consensus size: 82
6617866 AATTTAGCAT
* * * **
6617876 ATTCGGATCACCGGTACTTAACCTGCTAGGTTTATAACCTGATTAATATCACCGGTACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGACACTTAGCCT
6617941 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
* *
6617958 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCATCGACACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGACACTTAGCCT
6618023 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
* *
6618040 ATTCAGATCACTGGCACTTAGCCTGCTAGGTGTATAACCTGATTCAAT-TCACC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-AATATCACC
6618093 AATTCTAAAC
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
82 121 0.98
83 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (82 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGACACTTAGCCT
GCTAGGCTTATAGCCTG
Found at i:6622812 original size:45 final size:45
Alignment explanation
Indices: 6622763--6622854 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
6622753 TTATTATTTT
*
6622763 AAAAAAAATTAA-TTTAGAATTTTT-TAAAAATTATT-ATAATTTAA
1 AAAAAAAATAAACTTTAGAATTTTTATAAAAATT-TTGA-AATTTAA
* * *
6622807 AAAAAACATAAACTTTTGAATTTTTATAAATATTTTGAAATTTAA
1 AAAAAAAATAAACTTTAGAATTTTTATAAAAATTTTGAAATTTAA
6622852 AAA
1 AAA
6622855 TTATTTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
44 10 0.24
45 23 0.56
46 8 0.20
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (45 bp):
AAAAAAAATAAACTTTAGAATTTTTATAAAAATTTTGAAATTTAA
Found at i:6622844 original size:19 final size:20
Alignment explanation
Indices: 6622820--6622867 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
6622810 AAACATAAAC
*
6622820 TTTTGAATTTTTATAAA-TA
1 TTTTGAATTTTTAAAAATTA
*
6622839 TTTTGAA-ATTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
6622858 TTTTGAATTT
1 TTTTGAATTT
6622868 CTTTTTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.29
19 16 0.67
20 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:6632046 original size:23 final size:23
Alignment explanation
Indices: 6632014--6632057 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6632004 AAAATTCATT
* *
6632014 TATAATTTTTACAATAATAAAAA
1 TATAACTTTTAAAATAATAAAAA
*
6632037 TATAACTTTTAAAATATTAAA
1 TATAACTTTTAAAATAATAAA
6632058 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
TATAACTTTTAAAATAATAAAAA
Found at i:6632510 original size:12 final size:12
Alignment explanation
Indices: 6632493--6632517 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6632483 CGAGAATAAT
6632493 TTTTTAATATTA
1 TTTTTAATATTA
6632505 TTTTTAATATTA
1 TTTTTAATATTA
6632517 T
1 T
6632518 AAAAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAATATTA
Found at i:6637781 original size:19 final size:20
Alignment explanation
Indices: 6637737--6637786 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
6637727 CCTTATATAT
6637737 TTTTTATAATATTTTTACTGA
1 TTTTTATAATATTTTTA-TGA
* *
6637758 TTTTTATAGTATTTTT-TTA
1 TTTTTATAATATTTTTATGA
6637777 TTTTTATAAT
1 TTTTTATAAT
6637787 TTTGGAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
21 15 0.58
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTTATAATATTTTTATGA
Found at i:6640695 original size:31 final size:31
Alignment explanation
Indices: 6640660--6640721 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
6640650 TGATCAATCA
6640660 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
1 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
*
6640691 TATGTTTTGTGTCATTAAGTTTTTCGAGTCT
1 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
6640722 ATTATGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.55
Consensus pattern (31 bp):
TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
Found at i:6640712 original size:15 final size:15
Alignment explanation
Indices: 6640663--6640713 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
6640653 TCAATCATAT
6640663 GTTTTGTGTCATTAA
1 GTTTTGTGTCATTAA
*
6640678 GTTTT-TCAAGTC-TTAT
1 GTTTTGT---GTCATTAA
6640694 GTTTTGTGTCATTAA
1 GTTTTGTGTCATTAA
6640709 GTTTT
1 GTTTT
6640714 TCGAGTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 8 0.28
17 4 0.14
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.57
Consensus pattern (15 bp):
GTTTTGTGTCATTAA
Found at i:6640714 original size:16 final size:16
Alignment explanation
Indices: 6640664--6640714 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
6640654 CAATCATATG
6640664 TTTTGTGTCATTAAGT
1 TTTTGTGTCATTAAGT
** *
6640680 TTTTCAAGTC-TTATG-
1 TTTT-GTGTCATTAAGT
6640695 TTTTGTGTCATTAAGT
1 TTTTGTGTCATTAAGT
6640711 TTTT
1 TTTT
6640715 CGAGTCTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
14 3 0.12
15 8 0.31
16 12 0.46
17 3 0.12
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (16 bp):
TTTTGTGTCATTAAGT
Found at i:6645114 original size:21 final size:21
Alignment explanation
Indices: 6645080--6645120 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6645070 TCTGAAAAGA
6645080 CGAAATTATATTATTGTATTCT
1 CGAAATTATATTATT-TATTCT
6645102 CGAAATT-TATTATTTATTC
1 CGAAATTATATTATTTATTC
6645121 CAATAATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (21 bp):
CGAAATTATATTATTTATTCT
Found at i:6646275 original size:19 final size:19
Alignment explanation
Indices: 6646238--6646289 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
6646228 AATTAGTTGG
*
6646238 ATAAATTTTAAAATT-ATAT
1 ATAAATTTT-AATTTAATAT
6646257 ATAAATTTTAATTTAATAT
1 ATAAATTTTAATTTAATAT
* *
6646276 GT-AATTTGAATTTA
1 ATAAATTTTAATTTA
6646290 TGATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
ATAAATTTTAATTTAATAT
Found at i:6652057 original size:114 final size:112
Alignment explanation
Indices: 6651580--6652196 Score: 718
Period size: 113 Copynumber: 5.5 Consensus size: 112
6651570 GTAAAAAATG
* * * * * * *
6651580 TTAACCAAAACGCATCGTTTGGTCTTGAGGTATGTTAGTATTTGTGGCGTTTATGAAAAACGTCG
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCG
* * * ** * *
6651645 CTATAGCATATTATCAGCGGCGTTTTGCACGAAACGCCGCAAAAAATG
66 CTATAGCATAGTATTAGCGGCGCTTTATA-GAAACGCCGCAAAATATC
** * * * *
6651693 TTAACCAAAACGCATTGTTTGGTCTTGAGGTATATTAGAACTGGTGGCGCTAACTAAAAACGCCG
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCG
* * * * * *
6651758 CTATAGGATAGTATTAGCGGCGTTTTGTACAAAACGTCGCAAAATATG
66 CTATAGCATAGTATTAGCGGCGCTTTATA-GAAACGCCGCAAAATATC
* * * *
6651806 TTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTCCAAAAAAAGCCG
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCG
* * *
6651871 CTATAGGATAGTATTAGCGGCG-TTTTTATGAAACGCCGCAACATATC
66 CTATAGCATAGTATTAGCGGCGCTTTATA-GAAACGCCGCAAAATATC
* * * *
6651918 TTAACCAAAACGCAGCGTTTGGTCTTTAGGTATATTAGAGTTAGTGGCGCTTAGGGACAAACGCC
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA-CGAAAAACGCC
*
6651983 GCTATAGCATAGTATTAGCGGCGCTTTATAGAAAACGCCGCAAAGTATC
65 GCTATAGCATAGTATTAGCGGCGCTTTATAG-AAACGCCGCAAAATATC
* * *
6652032 TTAACCAAAACGCAGCGTTTAGTCTTCAGGTATATTAGAATTAGTGGCGCTTATTGAAAAACGCC
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA-CGAAAAACGCC
* *
6652097 GCTAAAGCAGAGTATTAGCGGCGCTGTGTA-AGAAACGCCG-AAAAGTATC
65 GCTATAGCATAGTATTAGCGGCGCT-T-TATAGAAACGCCGCAAAA-TATC
* * *
6652146 TTAACCAAAACGCAGCGTTTGGTCTTGATGTCTATTAGAATTAGTAGCGCT
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
6652197 CATGTAAAAG
Statistics
Matches: 440, Mismatches: 58, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
112 68 0.15
113 207 0.47
114 160 0.36
115 3 0.01
116 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (112 bp):
TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCG
CTATAGCATAGTATTAGCGGCGCTTTATAGAAACGCCGCAAAATATC
Found at i:6654567 original size:89 final size:89
Alignment explanation
Indices: 6654416--6654618 Score: 370
Period size: 89 Copynumber: 2.3 Consensus size: 89
6654406 TTTTGAAAAA
*
6654416 CACATTACTTGGTATTCTGTTTTGGCACAACACTTACGCAAATGACTTTGTGGATTACTTGGTAT
1 CACATTACTTGGTATTCTGTTTTGGCACAACACTTAAGCAAATGACTTTGTGGATTACTTGGTAT
6654481 TCTGTTTTGGTAGGATTGTTTTGG
66 TCTGTTTTGGTAGGATTGTTTTGG
* * *
6654505 CACATTACTTGGTAATCTGTTTTGGCACAACAGTTAAGCAAATGGCTTTGTGGATTACTTGGTAT
1 CACATTACTTGGTATTCTGTTTTGGCACAACACTTAAGCAAATGACTTTGTGGATTACTTGGTAT
6654570 TCTGTTTTGGTAGGATTGTTTTGG
66 TCTGTTTTGGTAGGATTGTTTTGG
6654594 CACATTACTTGGTATTCTGTTTTGG
1 CACATTACTTGGTATTCTGTTTTGG
6654619 TACTCTGTTT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 109 1.00
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (89 bp):
CACATTACTTGGTATTCTGTTTTGGCACAACACTTAAGCAAATGACTTTGTGGATTACTTGGTAT
TCTGTTTTGGTAGGATTGTTTTGG
Found at i:6654620 original size:13 final size:13
Alignment explanation
Indices: 6654602--6654632 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6654592 GGCACATTAC
*
6654602 TTGGTATTCTGTT
1 TTGGTACTCTGTT
6654615 TTGGTACTCTGTT
1 TTGGTACTCTGTT
6654628 TTGGT
1 TTGGT
6654633 CGGGTTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.10, G:0.26, T:0.58
Consensus pattern (13 bp):
TTGGTACTCTGTT
Found at i:6654855 original size:21 final size:21
Alignment explanation
Indices: 6654831--6654884 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
6654821 GAGGCCGCAA
*
6654831 CGAGGGAAGCAGAGGTTACAG
1 CGAGAGAAGCAGAGGTTACAG
*
6654852 CGAGAGAAGCAGAGGTTGCAG
1 CGAGAGAAGCAGAGGTTACAG
*
6654873 CGAGAAAAGCAG
1 CGAGAGAAGCAG
6654885 CAAGAGAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.41, T:0.07
Consensus pattern (21 bp):
CGAGAGAAGCAGAGGTTACAG
Found at i:6654896 original size:33 final size:33
Alignment explanation
Indices: 6654849--6654917 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
6654839 GCAGAGGTTA
* *
6654849 CAGCGAGAGAAGCAGAGGTTGCAGCGAGAAAAG
1 CAGCAAGAGAAGCAGAGGCTGCAGCGAGAAAAG
* *
6654882 CAGCAAGAGAAGCAGAGGCTGCAGCTAGAGAAG
1 CAGCAAGAGAAGCAGAGGCTGCAGCGAGAAAAG
6654915 CAG
1 CAG
6654918 AGGTTCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.38, T:0.06
Consensus pattern (33 bp):
CAGCAAGAGAAGCAGAGGCTGCAGCGAGAAAAG
Found at i:6654911 original size:21 final size:21
Alignment explanation
Indices: 6654881--6654920 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6654871 AGCGAGAAAA
6654881 GCAGCAAGAGAAGCAGAGGCT
1 GCAGCAAGAGAAGCAGAGGCT
*
6654902 GCAGCTAGAGAAGCAGAGG
1 GCAGCAAGAGAAGCAGAGG
6654921 TTCAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.40, T:0.05
Consensus pattern (21 bp):
GCAGCAAGAGAAGCAGAGGCT
Found at i:6655359 original size:43 final size:44
Alignment explanation
Indices: 6655306--6655412 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 44
6655296 CGTTTTCTGT
* * *
6655306 AAAAGTGCCGCTAAAAG-TCATGTTC-TATAGCGGCGTTTGTGAA
1 AAAAGCGCCGCTAAAAGAACAT-TTCTTATAGCGACGTTTGTGAA
* *
6655349 AAAAGCGCCGCT-AAAGAACATTTCTTTTCGCGACGTTTGTGAA
1 AAAAGCGCCGCTAAAAGAACATTTCTTATAGCGACGTTTGTGAA
**
6655392 TCAAGCGCCGCT-AAAGAACAT
1 AAAAGCGCCGCTAAAAGAACAT
6655413 GATCTTTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 7 0.13
43 48 0.87
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (44 bp):
AAAAGCGCCGCTAAAAGAACATTTCTTATAGCGACGTTTGTGAA
Found at i:6655453 original size:42 final size:42
Alignment explanation
Indices: 6655394--6655635 Score: 337
Period size: 42 Copynumber: 5.7 Consensus size: 42
6655384 TTTGTGAATC
6655394 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
*
6655436 AAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTT-ATT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-TTTTTTCATT
* *
6655478 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTGCATT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
* * * *
6655520 AAGCGCCGCTAAAGAACATGATCTTTAACGGCGTTTCTCTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
*
6655562 AAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTT--TCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-T-TTTTTCAT-T
* *
6655605 AAGCGCCACTAAAGAACATGACCTTTAGCGG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGG
6655636 TGTTTTTTTT
Statistics
Matches: 180, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
41 4 0.02
42 137 0.76
43 35 0.19
44 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
Found at i:6655543 original size:126 final size:127
Alignment explanation
Indices: 6655351--6655641 Score: 408
Period size: 126 Copynumber: 2.3 Consensus size: 127
6655341 TTTGTGAAAA
* * *
6655351 AAGCGCCGCTAAAGAACAT-TTCTTTTCGCGACGTTTGTGAATCAAGCGCCGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTT-TGAATCAAGCGCCGCTAAAGAACATGA
* * * *
6655415 TCTTTAGCGGCTTTTTTCATTAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGT-TTTTTAT-T
64 TCTTTAACGGCGTTTCTCATTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTT-TCT
* *
6655478 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTGCATTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTGAATCAAGCGCCGCTAAAGAACATGATC
* *
6655543 TTTAACGGCGTTTCTCTTTAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCT
66 TTTAACGGCGTTTCTCATTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCT
* * *
6655605 AAGCGCCACTAAAGAACATGACCTTTAGCGGTGTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
6655642 TTTTGGTAAA
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
126 75 0.51
127 70 0.48
128 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTGAATCAAGCGCCGCTAAAGAACATGATC
TTTAACGGCGTTTCTCATTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCT
Found at i:6657639 original size:12 final size:12
Alignment explanation
Indices: 6657622--6657658 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
6657612 TTTATTACAT
6657622 ATAATAGTAATA
1 ATAATAGTAATA
*
6657634 ATAATAGTAATT
1 ATAATAGTAATA
6657646 ATAATAGTAATA
1 ATAATAGTAATA
6657658 A
1 A
6657659 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGTAATA
Found at i:6658853 original size:19 final size:18
Alignment explanation
Indices: 6658819--6658859 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
6658809 AATGACAAAT
* *
6658819 ATGATAAATGAATATGAG
1 ATGAGAAATGAATATGAA
6658837 ATGAGAAATGAAATATGAA
1 ATGAGAAATG-AATATGAA
6658856 ATGA
1 ATGA
6658860 TGAATTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:6660340 original size:49 final size:49
Alignment explanation
Indices: 6660268--6660361 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
6660258 TCGAGAGGGA
6660268 ATAAATAGTGATAAGAGTGTAGACAATGGAA-AACCAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGAA-CAAGTTTAGCAATGT
*
6660317 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGAACAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGAACAAGTTTAGCA
6660362 TTGCATAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
49 41 0.95
50 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAATGGAAGAACAAGTTTAGCAATGT
Found at i:6662467 original size:7 final size:7
Alignment explanation
Indices: 6662446--6662483 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
6662436 GAGAATTTTA
6662446 TTATATT
1 TTATATT
6662453 TTAT-TT
1 TTATATT
6662459 TTATATT
1 TTATATT
*
6662466 TTAAATT
1 TTATATT
*
6662473 TTATAGT
1 TTATATT
6662480 TTAT
1 TTAT
6662484 CCAATTATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTATATT
Found at i:6669022 original size:21 final size:22
Alignment explanation
Indices: 6668993--6669039 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6668983 CAGAAGGAGT
*
6668993 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6669015 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6669036 GAGT
1 GAGT
6669040 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6673373 original size:18 final size:18
Alignment explanation
Indices: 6673352--6673390 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6673342 GATTGAGAGT
* *
6673352 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
6673370 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
6673388 GAA
1 GAA
6673391 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:6680908 original size:21 final size:23
Alignment explanation
Indices: 6680866--6680908 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
6680856 TTATCATTGT
**
6680866 TATAAAAAATATTTAATTATAAC
1 TATAAAAAATATTTAAAAATAAC
6680889 TATAAAAAA-A-TTAAAAATAA
1 TATAAAAAATATTTAAAAATAA
6680909 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAAAAATATTTAAAAATAAC
Found at i:6681173 original size:21 final size:21
Alignment explanation
Indices: 6681149--6681204 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
6681139 CATTGTTTCT
6681149 AATCTCACTGCTACAGTACCC
1 AATCTCACTGCTACAGTACCC
6681170 AATCTCACTGCTACAGTACCC
1 AATCTCACTGCTACAGTACCC
*
6681191 AATCTCACCGCTAC
1 AATCTCACTGCTAC
6681205 CGTAATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.39, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACTGCTACAGTACCC
Found at i:6693965 original size:39 final size:39
Alignment explanation
Indices: 6693911--6693990 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
6693901 TACAATGTCA
6693911 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
1 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
*
6693950 TTGCTTCTTTTATTTCAGTGTTAAAATAGAGTATCTTCC
1 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
6693989 TT
1 TT
6693991 ATTTGTGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (39 bp):
TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
Found at i:6698272 original size:28 final size:26
Alignment explanation
Indices: 6698219--6698272 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6698209 TTAAGTAAAC
** *
6698219 ATATTATAATATATATGTTAACTTTA
1 ATATTATAATATATATAATAAATTTA
6698245 ATATTATAATATATATAAAATAAATTTA
1 ATATTATAATATATAT--AATAAATTTA
6698273 CACATGTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.70
28 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
ATATTATAATATATATAATAAATTTA
Found at i:6700935 original size:19 final size:19
Alignment explanation
Indices: 6700887--6700935 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
6700877 ATGCAATTCA
* *
6700887 AAAT-ATCATAAAAATTAT
1 AAATAATCATTAAAACTAT
* *
6700905 AAAAAATTATTAAAACTAT
1 AAATAATCATTAAAACTAT
6700924 AAATAATCATTA
1 AAATAATCATTA
6700936 TTAATAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAATCATTAAAACTAT
Found at i:6700943 original size:25 final size:25
Alignment explanation
Indices: 6700910--6700959 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6700900 ATTATAAAAA
* *
6700910 ATTATTAAAACTATAAATAATCATT
1 ATTAATAAAACTATAAATAACCATT
*
6700935 ATTAATAAAATTATAAATAACCATT
1 ATTAATAAAACTATAAATAACCATT
6700960 TTTCTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTAATAAAACTATAAATAACCATT
Found at i:6703088 original size:43 final size:43
Alignment explanation
Indices: 6702972--6703123 Score: 116
Period size: 43 Copynumber: 3.5 Consensus size: 43
6702962 TATGTAATAT
*
6702972 CATGTAAGACCACGTCTGGGAC-GTTGGCATCGATT-TGA-GATTTA
1 CATGTAAGACCACGTCTGGGACAG-AGGCATCG-TTAT-ATGA-TTA
** * * * * **
6703016 TGTGTAAGACCATGTTTGAGATATTGGCATCG-TATATGATTTA
1 CATGTAAGACCACGTCTGGGACAGAGGCATCGTTATATGA-TTA
* *
6703059 CGTGTAAGACC-CTGTCTGGGACAGAGGCATCGTTATTTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGAGGCATCGTTATATGATTA
6703102 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCACGTCTGGGAC
6703124 GCTGATATTG
Statistics
Matches: 86, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.02
43 53 0.62
44 31 0.36
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAGAGGCATCGTTATATGATTA
Found at i:6706040 original size:7 final size:7
Alignment explanation
Indices: 6706028--6706052 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6706018 ATTTATATAA
6706028 ATGAAAT
1 ATGAAAT
6706035 ATGAAAT
1 ATGAAAT
6706042 ATGAAAT
1 ATGAAAT
6706049 ATGA
1 ATGA
6706053 TGATTGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
ATGAAAT
Found at i:6709895 original size:71 final size:71
Alignment explanation
Indices: 6709779--6709923 Score: 274
Period size: 71 Copynumber: 2.0 Consensus size: 71
6709769 GACATACACA
6709779 AATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTAA
1 AATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTAA
6709844 CCTGTT
66 CCTGTT
6709850 AATTGAGATG-CTCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTA
1 AATTGAGATGAC-CAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTA
6709914 ACCTGTT
65 ACCTGTT
6709921 AAT
1 AAT
6709924 GAGGATTTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 1 0.01
71 72 0.99
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (71 bp):
AATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAATTAA
CCTGTT
Found at i:6723773 original size:37 final size:37
Alignment explanation
Indices: 6723709--6723803 Score: 147
Period size: 37 Copynumber: 2.6 Consensus size: 37
6723699 AGTACACAAG
* *
6723709 TAATCCAACCGA-AACACGCCAACTGCTCATAAGAGT
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
6723745 TAATCCACCCGATAACACGTCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
6723782 TAATCCAACCGATAACACGCCA
1 TAATCCAACCGATAACACGCCA
6723804 CGACAGTAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 11 0.21
37 41 0.79
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.17
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
Found at i:6726243 original size:16 final size:16
Alignment explanation
Indices: 6726222--6726253 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6726212 TTATGTGTTT
*
6726222 AAATAATATAATATAA
1 AAATAACATAATATAA
6726238 AAATAACATAATATAA
1 AAATAACATAATATAA
6726254 TATACTATAA
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:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAACATAATATAA
Found at i:6732464 original size:25 final size:26
Alignment explanation
Indices: 6732413--6732476 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
6732403 GGACTCTCTG
* *
6732413 AAGCTAGTGTAAGCAGCATCGAACT-
1 AAGCTAGTGTTAGCAACATCGAACTA
* * *
6732438 AAGCTAGTGTTAGCAACCTTGATCTA
1 AAGCTAGTGTTAGCAACATCGAACTA
6732464 AAGCTAGTGTTAG
1 AAGCTAGTGTTAG
6732477 TAGCCCGGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (26 bp):
AAGCTAGTGTTAGCAACATCGAACTA
Found at i:6746955 original size:17 final size:18
Alignment explanation
Indices: 6746928--6746963 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
6746918 GTTGTTGATA
6746928 TATTATCTTATTTTATTT
1 TATTATCTTATTTTATTT
6746946 TATT-TCTTATTTTATTT
1 TATTATCTTATTTTATTT
6746963 T
1 T
6746964 CTATCTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTATCTTATTTTATTT
Found at i:6748185 original size:18 final size:19
Alignment explanation
Indices: 6748162--6748199 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6748152 TAGACTATTT
*
6748162 TTAATTAATGGTT-TTTTC
1 TTAATTAATGATTATTTTC
6748180 TTAATTAATGATTATTTTC
1 TTAATTAATGATTATTTTC
6748199 T
1 T
6748200 GGGAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (19 bp):
TTAATTAATGATTATTTTC
Found at i:6763157 original size:109 final size:108
Alignment explanation
Indices: 6762787--6763323 Score: 868
Period size: 109 Copynumber: 4.9 Consensus size: 108
6762777 AAAATTCAAG
* * *
6762787 AGGATATTTAGCAATTTGG-CTAAACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCTATTTGGTC-GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
6762851 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
* *
6762895 AGGATATTAAG-TCATTTGGTCGAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
6762959 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
* *
6763003 AGGATATTAAG-TCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
6763067 ATTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTT-AAA
65 ATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAA-TTTTTGAAA
6763112 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
* *
6763177 TTTTCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTT-AAA
66 TTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAA-TTTTTGAAA
*
6763221 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
6763286 TTTCCAAATGCAAAATATTGCCTTATTTTGAAATATTT
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAA-ATTT
6763324 CCCTTTTTTA
Statistics
Matches: 408, Mismatches: 15, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
108 199 0.49
109 203 0.50
110 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (108 bp):
AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
Found at i:6763187 original size:217 final size:217
Alignment explanation
Indices: 6762787--6763323 Score: 861
Period size: 217 Copynumber: 2.5 Consensus size: 217
6762777 AAAATTCAAG
* * * *
6762787 AGGATATTTAGCAATTTGG-CTAAACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTAAGCTATTTGGTC-GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
6762851 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTC
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTC
*
6762916 GAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGC
130 GAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGC
6762981 CTTA-TTTTGAAAA-TTTTTGAAA
195 CTTATTTTTGAAAAGTTTTT-AAA
*
6763003 AGGATATTAAG-TCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTAAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
6763067 ATTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTT-AAAAGGATATTTAG-CTATTTG
65 ATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTG
* *
6763130 GTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTTCAAACGCAAAACAT
127 GTCGAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACAT
6763195 TGCCTTATTTTTGAAAAGTTTTTAAA
192 TGCCTTATTTTTGAAAAGTTTTTAAA
* *
6763221 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
1 AGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
6763286 TTTCCAAATGCAAAATATTGCCTTATTTTGAAATATTT
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAA-ATTT
6763324 CCCTTTTTTA
Statistics
Matches: 299, Mismatches: 13, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
216 84 0.28
217 107 0.36
218 102 0.34
219 6 0.02
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (217 bp):
AGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
AACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTTGAAAAGTTTTTAAA
Found at i:6763627 original size:16 final size:16
Alignment explanation
Indices: 6763608--6763674 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 16
6763598 AAATATGAAA
6763608 ATATATAAATTATAAG
1 ATATATAAATTATAAG
*
6763624 ATATA-AAAATATAAG
1 ATATATAAATTATAAG
* * *
6763639 -TATTTACATATATATG
1 ATATATAAAT-TATAAG
* *
6763655 -TATATAGATTATAAA
1 ATATATAAATTATAAG
6763670 ATATA
1 ATATA
6763675 AAGATATATA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
14 3 0.08
15 15 0.38
16 21 0.54
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATATAAATTATAAG
Found at i:6763632 original size:24 final size:24
Alignment explanation
Indices: 6763600--6763693 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 24
6763590 AATTACGTAA
*
6763600 ATATGAAAATATATAAATTATAAG
1 ATATAAAAATATATAAATTATAAG
* *
6763624 ATATAAAAATATA-AGTATT-T-AC
1 ATATAAAAATATATA-AATTATAAG
* ** * *
6763646 ATATATATGTATATAGATTATAAA
1 ATATAAAAATATATAAATTATAAG
* *
6763670 ATATAAAGATATATAAAATATAAG
1 ATATAAAAATATATAAATTATAAG
6763694 TATGTACGTT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
22 14 0.27
23 4 0.08
24 34 0.65
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.35
Consensus pattern (24 bp):
ATATAAAAATATATAAATTATAAG
Found at i:6763684 original size:17 final size:16
Alignment explanation
Indices: 6763655--6763692 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
6763645 CATATATATG
*
6763655 TATATAGATTATAAAA
1 TATAAAGATTATAAAA
6763671 TATAAAGATATATAAAA
1 TATAAAGAT-TATAAAA
6763688 TATAA
1 TATAA
6763693 GTATGTACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
TATAAAGATTATAAAA
Found at i:6763894 original size:3 final size:3
Alignment explanation
Indices: 6763886--6763930 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
6763876 TATAAAAACG
*
6763886 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6763931 GGACTAAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6765155 original size:20 final size:21
Alignment explanation
Indices: 6765118--6765157 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6765108 ATTTGACATA
* *
6765118 TAAAAAATTAATTAATATTTT
1 TAAAAAATAAAATAATATTTT
6765139 TAAAAAATAAAAT-ATATTT
1 TAAAAAATAAAATAATATTT
6765158 AGCATAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAAATAAAATAATATTTT
Found at i:6769209 original size:28 final size:28
Alignment explanation
Indices: 6769167--6769224 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
6769157 TTTTGAAGAA
* *
6769167 AAAAATATGTCTTGTAAAATGCGCTTTC
1 AAAAATATGTATTGTAAAACGCGCTTTC
6769195 AAAAATATGTATTGTAAAACGCGCTTTC
1 AAAAATATGTATTGTAAAACGCGCTTTC
6769223 AA
1 AA
6769225 TCAATAGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (28 bp):
AAAAATATGTATTGTAAAACGCGCTTTC
Found at i:6771824 original size:3 final size:3
Alignment explanation
Indices: 6771816--6771848 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6771806 TTTTTAATCC
6771816 ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6771849 ATTCTAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:6771839 original size:11 final size:11
Alignment explanation
Indices: 6771816--6771848 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
6771806 TTTTTAATCC
6771816 ATTATTATTATT
1 ATTATT-TTATT
6771828 ATTATTTTATT
1 ATTATTTTATT
6771839 ATTATTTTAT
1 ATTATTTTAT
6771849 ATTCTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:6771923 original size:12 final size:12
Alignment explanation
Indices: 6771906--6771948 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
6771896 TTAAAATAAA
*
6771906 TTAATACTTATC
1 TTAATACTTATT
6771918 TTAATACATTATT
1 TTAATAC-TTATT
6771931 TCTAATA-TTATT
1 T-TAATACTTATT
6771943 TTAATA
1 TTAATA
6771949 TTTAGCTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.18
12 13 0.46
13 5 0.18
14 5 0.18
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAATACTTATT
Found at i:6773374 original size:25 final size:26
Alignment explanation
Indices: 6773323--6773374 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
6773313 TGCAAAGTAA
* *
6773323 ACATATTTGATATAAATTATATATAT
1 ACATATGTGATATAAAATATATATAT
6773349 ACATATGTG-TATAAAATAGTAT-TAT
1 ACATATGTGATATAAAATA-TATATAT
6773374 A
1 A
6773375 AGAGCATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (26 bp):
ACATATGTGATATAAAATATATATAT
Found at i:6779169 original size:24 final size:23
Alignment explanation
Indices: 6779109--6779172 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 23
6779099 ATGTATGCAT
*
6779109 TATAAAGTATATAAAAATATATG
1 TATAAAGTATATAAAAATATAAG
6779132 TATACAAGGATATATAAATAA-ATAAG
1 TATA-AA-G-TATATAAA-AATATAAG
6779158 ATATAAAGTATATAA
1 -TATAAAGTATATAA
6779173 GTATGTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.11
24 9 0.26
25 2 0.06
26 14 0.40
27 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
TATAAAGTATATAAAAATATAAG
Found at i:6781067 original size:44 final size:44
Alignment explanation
Indices: 6780873--6781339 Score: 246
Period size: 44 Copynumber: 10.8 Consensus size: 44
6780863 AGACTGGATG
* * * *
6780873 CGATCTGCTCTACTATTGTTTAGAGAGATAAGATCTACAATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * * * * * * ****
6780917 CAACCTACTCCACTGCTTCTCAGGGAGATAGGAT-TGGTTTCTTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC-TT
* * ** *
6780961 TG-TCTGCTCCGCTACTGCTTAGGGAGATAAGA-CT-TGA--TG
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
6781000 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * *****
6781044 CGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
** * * * **
6781087 AAATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTT
* * * * *
6781131 CGATCTACTCCACTA--ACTTAGGGAGATAGGATCCACCATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * *
6781173 TGA-CTTGCTCCACTACTGCTTAGGGAGATAGGATGTATC-ATCTT
1 CGATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTA-CAATCTT
* * * ****
6781217 CGAACTACTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGT-TT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTT
** * * * **
6781260 AAATCAT-CTTCACTACTGTTTAGGGAGATAAGAATC-GCCGTCTT
1 CGATC-TGCTCCACTACTGCTTAGGGAGATAAG-ATCTACAATCTT
*
6781304 CGATCTGCTCTACTACTGCTTAGGGAGATAAGATCT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
6781340 GTCATCTTCA
Statistics
Matches: 317, Mismatches: 83, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
39 2 0.01
40 29 0.09
41 3 0.01
42 32 0.10
43 94 0.30
44 154 0.49
45 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
Found at i:6781094 original size:127 final size:126
Alignment explanation
Indices: 6780854--6781205 Score: 384
Period size: 127 Copynumber: 2.8 Consensus size: 126
6780844 CTGTAACTTC
* * * * *
6780854 AGGGAGATAAGACTGGATGCGATCTGCTCTACTATTGTTTAGAGAGATAAGATCTACAATCTTCA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTA-TGCTTAGGGAGATAAGATCTACAATCTTCG
* * * * * ** *** *
6780919 ACCTACTCCACTGCTTCTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCGCTACTGCTT
65 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
6780981 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCG
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTA-TGCTTAGGGAGATAAGATCTACAATCTTCG
*
6781046 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTT
65 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * * * *
6781108 AGGAAGATAAGA-TTCGCCGTCTTCGATCTACTCCACTA-ACTTAGGGAGATAGGATCCACCATC
1 AGGGAGATAAGACTT----G-ATGCGATCTGCTCCACTATGCTTAGGGAGATAAGATCTACAATC
* *
6781171 TTTGACTTGCTCCACTACTGCTTAGGGAGATAGGA
61 TTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA
6781206 TGTATCATCT
Statistics
Matches: 192, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
126 2 0.01
127 120 0.62
129 54 0.28
130 1 0.01
131 15 0.08
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (126 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCCACTATGCTTAGGGAGATAAGATCTACAATCTTCGA
CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
Found at i:6781116 original size:87 final size:88
Alignment explanation
Indices: 6780963--6781333 Score: 334
Period size: 87 Copynumber: 4.3 Consensus size: 88
6780953 GTTTCTTTTG
* * * *
6780963 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGAT-GC---GATC-TGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGAC-TGGTGGCTTAAATCATGCTCCACTACTGCTTAG
*
6781023 GGAGATAAGATCTACAATCTTCGA
65 GGAGATAAGATCTACCATCTTCGA
* *
6781047 CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATC-TGCTTCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCATGCTCCACTACTGCTTAGG
* * *
6781111 AAGATAAGAT-TCGCCGTCTTCGA
66 GAGATAAGATCT-ACCATCTTCGA
* * ****** ** *
6781134 TCTACTCCACTA--ACTTAGGGAGATAGGATCCACCATCTTTGA-CTTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCATGCTCCACTACTGCTTAG
* * *
6781196 GGAGATAGGATGTATCATCTTCGA
65 GGAGATAAGATCTACCATCTTCGA
* * * * *
6781220 ACTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCAT-CTTCACTACTGTTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCATGCTCCACTACTGCTTAGG
* *
6781284 GAGATAAGAATC-GCCGTCTTCGA
66 GAGATAAG-ATCTACCATCTTCGA
*
6781307 TCTGCTCTACTACTGCTTAGGGAGATA
1 TCTGCTCCACTACTGCTTAGGGAGATA
6781334 AGATCTGTCA
Statistics
Matches: 226, Mismatches: 49, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
83 3 0.01
84 30 0.13
85 16 0.07
86 51 0.23
87 107 0.47
88 19 0.08
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (88 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCATGCTCCACTACTGCTTAGG
GAGATAAGATCTACCATCTTCGA
Found at i:6781193 original size:173 final size:174
Alignment explanation
Indices: 6781005--6781338 Score: 512
Period size: 173 Copynumber: 1.9 Consensus size: 174
6780995 TGATGCGATC
* *
6781005 TGCTCCACTACTGCTTAGGGAGATAAGATCTA-CAATCTTCGACCTGCTCCACTACTGCTTAGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTATC-ATCTTCGAACTACTCCACTACTGCTTAGGG
*
6781069 AGATAGGACTGGTGGCTTAAATC-TGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
65 AGATAGGACTGGTGGCTTAAATCAT-CTTCACTACTGCTTAGGAAGATAAGAATCGCCGTCTTCG
*
6781133 ATCTACTCCACTA-ACTTAGGGAGATAGGATCCACCATCTTTGACT
129 ATCTACTCCACTACACTTAGGGAGATAAGATCCACCATCTTTGACT
* *
6781178 TGCTCCACTACTGCTTAGGGAGATAGGATGTATCATCTTCGAACTACTCCACTACTGCTTAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTATCATCTTCGAACTACTCCACTACTGCTTAGGGA
* * *
6781243 GATAGGACTGGTGGTTTAAATCATCTTCACTACTGTTTAGGGAGATAAGAATCGCCGTCTTCGAT
66 GATAGGACTGGTGGCTTAAATCATCTTCACTACTGCTTAGGAAGATAAGAATCGCCGTCTTCGAT
* * *
6781308 CTGCTCTACTACTGCTTAGGGAGATAAGATC
131 CTACTCCACTAC-ACTTAGGGAGATAAGATC
6781339 TGTCATCTTC
Statistics
Matches: 145, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
173 127 0.88
174 2 0.01
175 16 0.11
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (174 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTATCATCTTCGAACTACTCCACTACTGCTTAGGGA
GATAGGACTGGTGGCTTAAATCATCTTCACTACTGCTTAGGAAGATAAGAATCGCCGTCTTCGAT
CTACTCCACTACACTTAGGGAGATAAGATCCACCATCTTTGACT
Found at i:6781348 original size:44 final size:44
Alignment explanation
Indices: 6780963--6781353 Score: 281
Period size: 44 Copynumber: 9.1 Consensus size: 44
6780953 GTTTCTTTTG
* * *
6780963 TCTGCTCCGCTACTGCTTAGGGAGATAAGA-CT-TGA--TGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
*
6781003 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTC-ATCTTCGA
* * ** **
6781047 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGT-GGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCATCTTCGA
* * * *
6781090 TCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCATCTTCGA
* * * *** *
6781134 TCTACTCCACTA--ACTTAGGGAGATAGGATCCACCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
* * *
6781176 -CTTGCTCCACTACTGCTTAGGGAGATAGGATGTATCATCTTCGA
1 TC-TGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
* * * ** **
6781220 ACTACTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGT-TTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCATCTTCGA
* * * *
6781263 TCAT-CTTCACTACTGTTTAGGGAGATAAGAATC-GCCGTCTTCGA
1 TC-TGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTCATCTTCGA
* *
6781307 TCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTCATCTTCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
6781351 TCT
1 TCT
6781354 ATTCTCTGGG
Statistics
Matches: 275, Mismatches: 56, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
40 29 0.11
41 3 0.01
42 32 0.12
43 68 0.25
44 141 0.51
45 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
Found at i:6782275 original size:108 final size:108
Alignment explanation
Indices: 6782102--6782323 Score: 275
Period size: 108 Copynumber: 2.1 Consensus size: 108
6782092 GAGAAATGGT
* * * *
6782102 TGAAAAAGATTATCAAAATGGAGAAGATGGAATTTAATTGAGAATAAGGCTCAAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
* * *
6782167 TAATCAACATAGA-AAATTTAGCTAAGATTCAAAATGAATAAGA
66 TAATAAAAATA-ACAAATTTAGCTAAGATACAAAATGAATAAGA
* * * * * * *
6782210 TTAAAAGGATTATCACAATGGATAAGATGAAATTTTACTGATAACAAAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
* * *
6782275 TAGTAAAAATAACAAATTTTGCTAAGATACAAAATGAATTAGA
66 TAATAAAAATAACAAATTTAGCTAAGATACAAAATGAATAAGA
6782318 TGAAAA
1 TGAAAA
6782324 CAGGTGCCCC
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
107 1 0.01
108 94 0.99
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
TAATAAAAATAACAAATTTAGCTAAGATACAAAATGAATAAGA
Found at i:6793772 original size:24 final size:23
Alignment explanation
Indices: 6793712--6793775 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 23
6793702 ATGTATGCAT
*
6793712 TATAAAGTATATAAAAATATATG
1 TATAAAGTATATAAAAATATAAG
6793735 TATACAAGGATATATAAATAA-ATAAG
1 TATA-AA-G-TATATAAA-AATATAAG
6793761 ATATAAAGTATATAA
1 -TATAAAGTATATAA
6793776 GTATGTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.11
24 9 0.26
25 2 0.06
26 14 0.40
27 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
TATAAAGTATATAAAAATATAAG
Found at i:6811242 original size:2 final size:2
Alignment explanation
Indices: 6811235--6811261 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6811225 AACTCTTGAG
6811235 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6811262 GAGAAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6811861 original size:19 final size:19
Alignment explanation
Indices: 6811825--6811863 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6811815 GGTCTTTAGG
*
6811825 TGAAAGCAATTTGTGTTTT
1 TGAAAGCAATTTCTGTTTT
6811844 TGAAAG-AATTTCTGGTTTT
1 TGAAAGCAATTTCT-GTTTT
6811863 T
1 T
6811864 CTTTCTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (19 bp):
TGAAAGCAATTTCTGTTTT
Found at i:6811862 original size:18 final size:19
Alignment explanation
Indices: 6811825--6811862 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6811815 GGTCTTTAGG
* *
6811825 TGAAAGCAATTTGTGTTTT
1 TGAAAGCAATTTCTGGTTT
6811844 TGAAAG-AATTTCTGGTTT
1 TGAAAGCAATTTCTGGTTT
6811862 T
1 T
6811863 TCTTTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (19 bp):
TGAAAGCAATTTCTGGTTT
Found at i:6814858 original size:31 final size:32
Alignment explanation
Indices: 6814822--6814886 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
6814812 CTTAGATAAT
6814822 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
6814853 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
6814885 TT
1 TT
6814887 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:6821038 original size:31 final size:32
Alignment explanation
Indices: 6821003--6821067 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
6820993 ATTAGATAAT
6821003 TTTAAAGAG-TTTTAATAGGATTCAATTACTC
1 TTTAAAGAGTTTTTAATAGGATTCAATTACTC
*
6821034 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTAATAGGATTCAATTACTC
6821066 TT
1 TT
6821068 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (32 bp):
TTTAAAGAGTTTTTAATAGGATTCAATTACTC
Found at i:6823866 original size:18 final size:18
Alignment explanation
Indices: 6823843--6823877 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6823833 TTGAAATGAT
6823843 AAAATAAATATATTATTA
1 AAAATAAATATATTATTA
* *
6823861 AAAATAATTTTATTATT
1 AAAATAAATATATTATT
6823878 TGTGTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATAAATATATTATTA
Found at i:6824678 original size:18 final size:18
Alignment explanation
Indices: 6824657--6824697 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6824647 TCAAGGGCAA
*
6824657 GAAGATGAAGATAATAGT
1 GAAGACGAAGATAATAGT
*
6824675 GAAGACGAAGATGATAGT
1 GAAGACGAAGATAATAGT
6824693 GAAGA
1 GAAGA
6824698 AGAGTTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.32, T:0.17
Consensus pattern (18 bp):
GAAGACGAAGATAATAGT
Found at i:6824679 original size:21 final size:20
Alignment explanation
Indices: 6824655--6824700 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
6824645 GTTCAAGGGC
*
6824655 AAGAAGATGAAGATAATAGT
1 AAGAAGACGAAGATAATAGT
*
6824675 --GAAGACGAAGATGATAGT
1 AAGAAGACGAAGATAATAGT
6824693 GAAGAAGA
1 -AAGAAGA
6824701 GTTCAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 16 0.76
21 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.30, T:0.15
Consensus pattern (20 bp):
AAGAAGACGAAGATAATAGT
Found at i:6830018 original size:23 final size:23
Alignment explanation
Indices: 6829962--6830006 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6829952 TTCTTCTATG
*
6829962 CAAGA-AAGATTAAAGGGTCTTT
1 CAAGAGAATATTAAAGGGTCTTT
6829984 CAAGAGAATATTAAAGGGTCTTT
1 CAAGAGAATATTAAAGGGTCTTT
6830007 TTAGGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (23 bp):
CAAGAGAATATTAAAGGGTCTTT
Found at i:6839889 original size:18 final size:17
Alignment explanation
Indices: 6839868--6839917 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
6839858 GACTCAACAG
6839868 CTTCTTCTTCTTCTCCTT
1 CTTCTTCTTCTTCTCC-T
6839886 CTTCTTCTTCTTCCTCCT
1 CTTCTTCTTCTT-CTCCT
* *
6839904 CCTCATCTTCTTCT
1 CTTCTTCTTCTTCT
6839918 AACTCATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 23 0.79
19 4 0.14
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (17 bp):
CTTCTTCTTCTTCTCCT
Found at i:6839930 original size:3 final size:3
Alignment explanation
Indices: 6839868--6839917 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
6839858 GACTCAACAG
* * * * *
6839868 CTT CTT CTT CTT CTC CTT CTT CTT CTT CTT CCT CCT CCT CAT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
6839916 CT
1 CT
6839918 AACTCATCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (3 bp):
CTT
Found at i:6846913 original size:25 final size:25
Alignment explanation
Indices: 6846885--6846965 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
6846875 TAAACTCCTC
6846885 CGAGCTAAATATCGATAAGCTCATA
1 CGAGCTAAATATCGATAAGCTCATA
* *
6846910 CGAGCTGAATATCGGTAAGCTC-TCA
1 CGAGCTAAATATCGATAAGCTCAT-A
* * *
6846935 CAAGCTACAA-ATTGATAAGATCATA
1 CGAGCTA-AATATCGATAAGCTCATA
*
6846960 CTAGCT
1 CGAGCT
6846966 GTCGTGAGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.02
25 41 0.91
26 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (25 bp):
CGAGCTAAATATCGATAAGCTCATA
Found at i:6849099 original size:16 final size:16
Alignment explanation
Indices: 6849066--6849111 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6849056 AAAAACACAC
*
6849066 TTGTTTTAAATATAAG
1 TTGTTTTAAACATAAG
6849082 TTGTTTTAAACA-ACAG
1 TTGTTTTAAACATA-AG
*
6849098 TTGTTCTAAACATA
1 TTGTTTTAAACATA
6849112 GTTATTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (16 bp):
TTGTTTTAAACATAAG
Found at i:6849729 original size:31 final size:31
Alignment explanation
Indices: 6849686--6849745 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
6849676 TTAACGAAGA
6849686 GTGACCACAATAGAAATGATCTAAAACATGG
1 GTGACCACAATAGAAATGATCTAAAACATGG
*
6849717 GTGACC-CGAATAGAAATTATCTAAAACAT
1 GTGACCAC-AATAGAAATGATCTAAAACAT
6849746 TAGTGATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.22
Consensus pattern (31 bp):
GTGACCACAATAGAAATGATCTAAAACATGG
Found at i:6851274 original size:7 final size:7
Alignment explanation
Indices: 6851242--6851288 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
6851232 CCACTCATAT
6851242 TATTTTA
1 TATTTTA
*
6851249 T-TTTAA
1 TATTTTA
* *
6851255 TAATTAA
1 TATTTTA
6851262 TAATTTTA
1 T-ATTTTA
6851270 TATTTTA
1 TATTTTA
6851277 TATTTTA
1 TATTTTA
6851284 TATTT
1 TATTT
6851289 ATTGATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 5 0.15
7 24 0.71
8 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
TATTTTA
Found at i:6858399 original size:9 final size:9
Alignment explanation
Indices: 6858387--6858521 Score: 69
Period size: 9 Copynumber: 14.4 Consensus size: 9
6858377 TTTCTATATA
6858387 TTTTATAAT
1 TTTTATAAT
*
6858396 TTTTATGAT
1 TTTTATAAT
*
6858405 TTTTATAAAA
1 TTTTAT-AAT
*
6858415 TTTTACAATT
1 TTTTATAA-T
6858425 TTTTATAATTT
1 TTTTATAA--T
*
6858436 TTTTCTAA-
1 TTTTATAAT
6858444 TTTT-TAAT
1 TTTTATAAT
*
6858452 TTTTAATATT
1 TTTT-ATAAT
*
6858462 TTTTATTAAAA
1 TTTTA-T-AAT
* *
6858473 TTTAATCAT
1 TTTTATAAT
*
6858482 TTTTATAAA
1 TTTTATAAT
*
6858491 TTTTATTGAT
1 TTTTA-TAAT
*
6858501 TTTT-TATT
1 TTTTATAAT
*
6858509 TTTTATCAT
1 TTTTATAAT
6858518 TTTT
1 TTTT
6858522 TGCCACATGT
Statistics
Matches: 94, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
7 3 0.03
8 14 0.15
9 35 0.37
10 28 0.30
11 14 0.15
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:6858408 original size:18 final size:18
Alignment explanation
Indices: 6858387--6858521 Score: 80
Period size: 18 Copynumber: 7.2 Consensus size: 18
6858377 TTTCTATATA
*
6858387 TTTTATAATTTTTATGAT
1 TTTTATAATTTTTATCAT
*
6858405 TTTTATAAAATTTTA-CAATT
1 TTTTAT-AATTTTTATC-A-T
* *
6858425 TTTTATAATTTTTTTCTAA
1 TTTTATAATTTTTATC-AT
6858444 TTTT-TAATTTTTAAT-ATT
1 TTTTATAATTTTT-ATCA-T
* *
6858462 TTTTATTAAAATTTAATCAT
1 TTTTA-T-AATTTTTATCAT
* *
6858482 TTTTATAAATTTTATTGAT
1 TTTTATAATTTTTA-TCAT
*
6858501 TTTT-TATTTTTTATCAT
1 TTTTATAATTTTTATCAT
6858518 TTTT
1 TTTT
6858522 TGCCACATGT
Statistics
Matches: 91, Mismatches: 15, Indels: 23
0.71 0.12 0.18
Matches are distributed among these distances:
17 8 0.09
18 32 0.35
19 27 0.30
20 18 0.20
21 6 0.07
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTTTATCAT
Found at i:6858427 original size:29 final size:28
Alignment explanation
Indices: 6858349--6858494 Score: 109
Period size: 29 Copynumber: 5.1 Consensus size: 28
6858339 TTCTTACGAC
*
6858349 TTTATAAAATTTTATATTTTTTTCTATATT
1 TTTATAAAATTTTATA-ATTTTT-TATATT
* *
6858379 TCTAT-ATATTTTATAA-TTTTTATGATT
1 TTTATAAAATTTTATAATTTTTTAT-ATT
*
6858406 TTTATAAAATTTTACAATTTTTTATAATT
1 TTTATAAAATTTTATAATTTTTTAT-ATT
* ** *
6858435 TTTTTCTAATTTT-TAATTTTTAATATTT
1 TTTATAAAATTTTATAATTTTTTATA-TT
* * *
6858463 TTTATTAAAATTTAATCATTTTTATAAATT
1 TTTA-TAAAATTTTATAATTTTT-TATATT
6858493 TT
1 TT
6858495 ATTGATTTTT
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
26 3 0.03
27 12 0.13
28 23 0.26
29 35 0.39
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:6858427 original size:57 final size:57
Alignment explanation
Indices: 6858349--6858522 Score: 146
Period size: 57 Copynumber: 3.1 Consensus size: 57
6858339 TTCTTACGAC
* * *
6858349 TTTATAAAATTTTATATTTTTTTCTATATTTCTATAT-ATTTTATAATTTTT-ATGA-TT
1 TTTATAAAATTTTACAATTTTTTATA-ATTTCTATATAATTTT-TAATTTTTAAT-ATTT
* * *
6858406 TTTATAAAATTTTACAATTTTTTATAATTTTTTTCTAATTTTTAATTTTTAATATTT
1 TTTATAAAATTTTACAATTTTTTATAATTTCTATATAATTTTTAATTTTTAATATTT
* * * *
6858463 TTTATTAAAATTTAATC-A-TTTTTATAAATTT-TAT-TGATTTTTTATTTTTTATCATTT
1 TTTA-TAAAATTTTA-CAATTTTTTAT-AATTTCTATATAATTTTTAATTTTTAAT-ATTT
6858520 TTT
1 TTT
6858523 GCCACATGTC
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
56 31 0.31
57 52 0.53
58 15 0.15
59 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (57 bp):
TTTATAAAATTTTACAATTTTTTATAATTTCTATATAATTTTTAATTTTTAATATTT
Found at i:6858438 original size:20 final size:19
Alignment explanation
Indices: 6858387--6858437 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
6858377 TTTCTATATA
**
6858387 TTTTATAATTTTTATGA-T
1 TTTTATAATTTTTACAATT
*
6858405 TTTTATAAAATTTTACAATT
1 TTTTAT-AATTTTTACAATT
6858425 TTTTATAATTTTT
1 TTTTATAATTTTT
6858438 TTCTAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTACAATT
Found at i:6858476 original size:20 final size:21
Alignment explanation
Indices: 6858453--6858508 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
6858443 ATTTTTAATT
6858453 TTTAAT-ATTTTTTATTAAAA
1 TTTAATCATTTTTTATTAAAA
*
6858473 TTTAATCA-TTTTTA-TAAAT
1 TTTAATCATTTTTTATTAAAA
* *
6858492 TTTATTGATTTTTTATT
1 TTTAATCATTTTTTATT
6858509 TTTTATCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 10 0.33
20 18 0.60
21 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTAATCATTTTTTATTAAAA
Found at i:6858751 original size:92 final size:92
Alignment explanation
Indices: 6858584--6858794 Score: 257
Period size: 92 Copynumber: 2.3 Consensus size: 92
6858574 TTAGGGTCGG
** * * * *
6858584 TTCAAGTATTCAATGGAGTGCAAAAAAAAAAGAGCAAGGGTTTAATTACTTTTTTGAAAAAGTTT
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGAGCAAGGGCTTAACTACTTTTTTAAAAAAGTTT
*
6858649 GAGAGCCTTTTTGATGCATTCTAAAAA
66 AAGAGCCTTTTTGATGCATTCTAAAAA
6858676 TTCAAG-ACCCAATTGAGTGCAAAAAAAAAA-AGCAAGGGCTTAACTACTATTTTTTAAAAAAGT
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGAGCAAGGGCTTAACTAC--TTTTTTAAAAAAGT
* * * * *
6858739 TTAAGGGTCTTTTTGATGCATTGTGAAAG
64 TTAAGAGCCTTTTTGATGCATTCTAAAAA
* *
6858768 TTCAAGTACCCAAGTGAATG-AAAAAAA
1 TTCAAGTACCCAATTGAGTGCAAAAAAA
6858795 GTAGGGACTT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
90 15 0.15
91 21 0.21
92 55 0.54
93 11 0.11
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (92 bp):
TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGAGCAAGGGCTTAACTACTTTTTTAAAAAAGTTT
AAGAGCCTTTTTGATGCATTCTAAAAA
Found at i:6861211 original size:29 final size:29
Alignment explanation
Indices: 6861174--6861296 Score: 140
Period size: 29 Copynumber: 4.2 Consensus size: 29
6861164 TTTTTTTAAA
*
6861174 AAAATTGCATTTTGACCCCTCTAATTTTT
1 AAAATTGCATTTTGACCCCTATAATTTTT
* *
6861203 AAAATTGCATTTTGGCCCCTAAAATTTTT
1 AAAATTGCATTTTGACCCCTATAATTTTT
* * * *
6861232 AAAATTTCATTATGACCCTTA-AACTTCTT
1 AAAATTGCATTTTGACCCCTATAA-TTTTT
* *
6861261 GAAATTGCATTTTGACCCCTATACTTTCTT
1 AAAATTGCATTTTGACCCCTATAATTT-TT
6861291 AAAATT
1 AAAATT
6861297 TCACTATGCT
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 66 0.87
30 8 0.11
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (29 bp):
AAAATTGCATTTTGACCCCTATAATTTTT
Found at i:6861661 original size:12 final size:12
Alignment explanation
Indices: 6861644--6861669 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6861634 ACTAGGGTTT
6861644 GAGGAAGAAGAA
1 GAGGAAGAAGAA
6861656 GAGGAAGAAGAA
1 GAGGAAGAAGAA
6861668 GA
1 GA
6861670 AAGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGGAAGAAGAA
Found at i:6861667 original size:15 final size:15
Alignment explanation
Indices: 6861648--6861708 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
6861638 GGGTTTGAGG
* * *
6861648 AAGAAGAAGAGGAAG
1 AAGAAAAAGAGAAAA
*
6861663 AAGAAGAA-AGAAAA
1 AAGAAAAAGAGAAAA
6861677 AAGAAAAAGAGAAAA
1 AAGAAAAAGAGAAAA
6861692 AAGAAAAAGAGAAAA
1 AAGAAAAAGAGAAAA
6861707 AA
1 AA
6861709 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
14 11 0.26
15 31 0.74
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAGAAAA
Found at i:6861689 original size:8 final size:7
Alignment explanation
Indices: 6861663--6861708 Score: 65
Period size: 7 Copynumber: 6.3 Consensus size: 7
6861653 GAAGAGGAAG
*
6861663 AAGAAGA
1 AAGAAAA
6861670 AAGAAAA
1 AAGAAAA
6861677 AAGAAAA
1 AAGAAAA
6861684 AGAGAAAA
1 A-AGAAAA
6861692 AAGAAAA
1 AAGAAAA
6861699 AGAGAAAA
1 A-AGAAAA
6861707 AA
1 AA
6861709 AAATTAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 22 0.61
8 14 0.39
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:6861695 original size:29 final size:28
Alignment explanation
Indices: 6861648--6861711 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
6861638 GGGTTTGAGG
* * *
6861648 AAGAAGAAGAGGAAGAAGAAGAAAGAAAA
1 AAGAAAAAGAGAAAAAAGAA-AAAGAAAA
*
6861677 AAGAAAAAGAGAAAAAAGAAAAAGAGAA
1 AAGAAAAAGAGAAAAAAGAAAAAGAAAA
6861705 AA-AAAAA
1 AAGAAAAA
6861712 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.16
28 9 0.29
29 17 0.55
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (28 bp):
AAGAAAAAGAGAAAAAAGAAAAAGAAAA
Found at i:6861831 original size:8 final size:9
Alignment explanation
Indices: 6861816--6861858 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 9
6861806 AGCCCAATCC
6861816 GAAAAAAAA
1 GAAAAAAAA
6861825 GAAAAAAAA
1 GAAAAAAAA
6861834 GAAAAAAAAA
1 G-AAAAAAAA
*
6861844 GCATAAAAAA
1 G-AAAAAAAA
6861854 GAAAA
1 GAAAA
6861859 CAGCCCATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 13 0.43
10 17 0.57
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:6861842 original size:20 final size:20
Alignment explanation
Indices: 6861817--6861858 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6861807 GCCCAATCCG
6861817 AAAAAAAAG-AAAAAAAAGA
1 AAAAAAAAGCAAAAAAAAGA
*
6861836 AAAAAAAAGCATAAAAAAGA
1 AAAAAAAAGCAAAAAAAAGA
6861856 AAA
1 AAA
6861859 CAGCCCATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (20 bp):
AAAAAAAAGCAAAAAAAAGA
Found at i:6862056 original size:25 final size:25
Alignment explanation
Indices: 6862016--6862088 Score: 55
Period size: 26 Copynumber: 2.9 Consensus size: 25
6862006 TAGCCCAGCA
*
6862016 GAAAAAAAAAAGAAAAGAGAAGAAA-A
1 GAAAAAAGAAAGAAAAGA-AA-AAAGA
6862042 GAAAAAGAGAAA-AAAGAGAAAAAAGA
1 GAAAAA-AGAAAGAAA-AGAAAAAAGA
*
6862068 -AAGAAAAGAAA-AAAGGAAAAA
1 GAA-AAAAGAAAGAAAAGAAAAA
6862089 GGGTCGTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 6 0.15
25 13 0.32
26 15 0.37
27 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
GAAAAAAGAAAGAAAAGAAAAAAGA
Found at i:6862072 original size:33 final size:31
Alignment explanation
Indices: 6862019--6862089 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 31
6862009 CCCAGCAGAA
* *
6862019 AAAAAAAAGAAAAGAGAAGAAAAGAAAAAGAG
1 AAAAAAGAGAAAAAAGAAGAAAAGAAAAA-AG
6862051 AAAAAAGAGAAAAAAGAAAGAAAAGAAAAAAG
1 AAAAAAGAGAAAAAAG-AAGAAAAGAAAAAAG
*
6862083 GAAAAAG
1 AAAAAAG
6862090 GGTCGTGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (31 bp):
AAAAAAGAGAAAAAAGAAGAAAAGAAAAAAG
Found at i:6862081 original size:16 final size:16
Alignment explanation
Indices: 6862023--6862082 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
6862013 GCAGAAAAAA
*
6862023 AAAAGAAAAGAG-AAG
1 AAAAGAAAAAAGAAAG
6862038 AAAAGAAAAAGAGAAA-
1 AAAAGAAAAA-AGAAAG
6862054 AAAGAGAAAAAAGAAAG
1 AAA-AGAAAAAAGAAAG
6862071 AAAAGAAAAAAG
1 AAAAGAAAAAAG
6862083 GAAAAAGGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 9 0.22
16 19 0.47
17 12 0.30
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAG
Done.