Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 21 of 128
Found at i:6277675 original size:11 final size:11
Alignment explanation
Indices: 6277659--6277684 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6277649 CAAAAATTAA
6277659 AAAAATATTTT
1 AAAAATATTTT
6277670 AAAAATATTTT
1 AAAAATATTTT
6277681 AAAA
1 AAAA
6277685 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:6277676 original size:71 final size:71
Alignment explanation
Indices: 6277553--6277764 Score: 313
Period size: 72 Copynumber: 3.0 Consensus size: 71
6277543 AATAAATACC
6277553 AAAAAATTATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAAATTATTTTAAAAATTAAAATAAAAATTAAAAAAA-TATTTTAAAAATATTTTAAAATTAA
6277618 AAAAATT
65 AAAAATT
*
6277625 AAAAAATTATTTTAAAAATTAAAACAAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTAAA
1 AAAAAATTATTTTAAAAATTAAAATAAAAATTAAAAAAATATTTTAAAAATATTTTAAAATT-AA
6277690 AAAAATT
65 AAAAATT
* * * * * *
6277697 AAAAAAGTATTTTAAAAA--AAATTTAAAATTTAAAAAAT-TTAATAAAAGTATTTTAAAATTAA
1 AAAAAATTATTTTAAAAATTAAAATAAAAATTAAAAAAATATT-TTAAAAATATTTTAAAATTAA
6277759 AAAAAT
65 AAAAAT
6277765 AATAAATAAT
Statistics
Matches: 130, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
69 10 0.08
70 33 0.25
71 23 0.18
72 64 0.49
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (71 bp):
AAAAAATTATTTTAAAAATTAAAATAAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTAAA
AAAATT
Found at i:6277700 original size:9 final size:10
Alignment explanation
Indices: 6277610--6277702 Score: 50
Period size: 10 Copynumber: 9.2 Consensus size: 10
6277600 AAAATATTTT
6277610 AAAATT-AAA
1 AAAATTAAAA
6277619 AAAATTAAAA
1 AAAATTAAAA
* **
6277629 AATTATT-TTA
1 AA-AATTAAAA
6277639 AAAATTAAAACA
1 AAAATT-AAA-A
6277651 AAAATTAAAA
1 AAAATTAAAA
*
6277661 AAATATTTTAAA
1 AAA-A-TTAAAA
* **
6277673 AATATT--TT
1 AAAATTAAAA
6277681 AAAATTAAAA
1 AAAATTAAAA
6277691 AAAATTAAAA
1 AAAATTAAAA
6277701 AA
1 AA
6277703 GTATTTTAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 17
0.67 0.14 0.18
Matches are distributed among these distances:
8 5 0.08
9 9 0.15
10 26 0.42
11 8 0.13
12 14 0.23
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:6277715 original size:23 final size:23
Alignment explanation
Indices: 6277685--6277754 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
6277675 TATTTTAAAA
6277685 TTAAAAAAAATTAAAAAAGTATT
1 TTAAAAAAAATTAAAAAAGTATT
*
6277708 TTAAAAAAAATT--TAAA--A-T
1 TTAAAAAAAATTAAAAAAGTATT
*
6277726 TT-AAAAAATTTAATAAAAGTATT
1 TTAAAAAAAATTAA-AAAAGTATT
6277749 TTAAAA
1 TTAAAA
6277755 TTAAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
17 8 0.22
18 3 0.08
19 1 0.03
20 3 0.08
21 3 0.08
22 1 0.03
23 15 0.41
24 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (23 bp):
TTAAAAAAAATTAAAAAAGTATT
Found at i:6277715 original size:41 final size:41
Alignment explanation
Indices: 6277623--6277754 Score: 169
Period size: 40 Copynumber: 3.1 Consensus size: 41
6277613 ATTAAAAAAA
*
6277623 TTAAAAAATTATTTTAAAAATTAAAACAAAAATTAAAAAAATATT
1 TTAAAAAA-TATTTT-AAAATT-AAA-AAAAATTAAAAAAGTATT
6277668 TT-AAAAATATTTTAAAATTAAAAAAAATTAAAAAAGTATT
1 TTAAAAAATATTTTAAAATTAAAAAAAATTAAAAAAGTATT
* * *
6277708 TTAAAAAA-AATTTAAAATTTAAAAAATTTAATAAAAGTATT
1 TTAAAAAATATTTTAAAATTAAAAAAAATTAA-AAAAGTATT
6277749 TTAAAA
1 TTAAAA
6277755 TTAAAAAAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
40 39 0.48
41 23 0.28
42 6 0.07
43 6 0.07
44 5 0.06
45 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.35
Consensus pattern (41 bp):
TTAAAAAATATTTTAAAATTAAAAAAAATTAAAAAAGTATT
Found at i:6277721 original size:11 final size:11
Alignment explanation
Indices: 6277638--6277724 Score: 51
Period size: 11 Copynumber: 8.1 Consensus size: 11
6277628 AAATTATTTT
6277638 AAAAA-TTAAA
1 AAAAATTTAAA
*
6277648 ACAAAAATTAAA
1 A-AAAATTTAAA
*
6277660 AAAATATTTTAA
1 AAAA-ATTTAAA
*
6277672 AAATATTT---
1 AAAAATTTAAA
*
6277680 TAAAA-TTAAA
1 AAAAATTTAAA
6277690 AAAAA-TTAAA
1 AAAAATTTAAA
*
6277700 AAAGTATTTTAAA
1 AAA--AATTTAAA
6277713 AAAAATTTAAA
1 AAAAATTTAAA
6277724 A
1 A
6277725 TTTAAAAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
7 2 0.03
8 3 0.05
10 13 0.22
11 19 0.32
12 15 0.25
13 8 0.13
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:6279961 original size:103 final size:103
Alignment explanation
Indices: 6279774--6279988 Score: 414
Period size: 103 Copynumber: 2.1 Consensus size: 103
6279764 ATAGTTAAAT
6279774 GTAAAAAT-TAATAAAATTTTTAATAGAATAACCAATTTTTTTCTTTAATTTAATATATAAATTT
1 GTAAAAATATAATAAAATTTTTAATAGAATAACCAATTTTTTTCTTTAATTTAATATATAAATTT
6279838 TAATTTATTTATTTTAATAAAAAATAAAATACAATTTA
66 TAATTTATTTATTTTAATAAAAAATAAAATACAATTTA
*
6279876 GTAACAATATAATAAAATTTTTAATAGAATAACCAATTTTTTTCTTTAATTTAATATATAAATTT
1 GTAAAAATATAATAAAATTTTTAATAGAATAACCAATTTTTTTCTTTAATTTAATATATAAATTT
6279941 TAATTTATTTATTTTAATAAAAAATAAAATACAATTTA
66 TAATTTATTTATTTTAATAAAAAATAAAATACAATTTA
6279979 GTAAAAATAT
1 GTAAAAATAT
6279989 GTCCATCCTA
Statistics
Matches: 110, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
102 7 0.06
103 103 0.94
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (103 bp):
GTAAAAATATAATAAAATTTTTAATAGAATAACCAATTTTTTTCTTTAATTTAATATATAAATTT
TAATTTATTTATTTTAATAAAAAATAAAATACAATTTA
Found at i:6281580 original size:28 final size:27
Alignment explanation
Indices: 6281520--6281582 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
6281510 TGAAAAGGTG
6281520 AAATTTAATTTTTATATTATAATTTCA
1 AAATTTAATTTTTATATTATAATTTCA
* * *
6281547 AGAATTTAATTTTTATTTTCTAGATTTTA
1 A-AATTTAATTTTTATATTATA-ATTTCA
6281576 AAATTTA
1 AAATTTA
6281583 GATCTGTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.77
29 6 0.19
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (27 bp):
AAATTTAATTTTTATATTATAATTTCA
Found at i:6282165 original size:114 final size:114
Alignment explanation
Indices: 6282031--6282257 Score: 355
Period size: 114 Copynumber: 2.0 Consensus size: 114
6282021 AAAGCGCTGC
* *
6282031 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCATTTTTGAGGAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCAGGGATTTAGCAGCATTTTTGAGGAA
* *
6282096 GCGCCGCGAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAGCACCGCA
66 GCGCCACGAATGCTCAAGGCTTTAGCGGCATTTTTGAGAAAGCACCGCA
* * *
6282145 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGATTTAGCAGCGTTTTTGATGAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCAGGGATTTAGCAGCATTTTTGAGGAA
* * * *
6282210 GCGCCACTAATGCTCAAGGCTTTAGCGGCGTTTTTGAGGAAGCGCCGC
66 GCGCCACGAATGCTCAAGGCTTTAGCGGCATTTTTGAGAAAGCACCGC
6282258 TAATGCTTAG
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (114 bp):
AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCAGGGATTTAGCAGCATTTTTGAGGAA
GCGCCACGAATGCTCAAGGCTTTAGCGGCATTTTTGAGAAAGCACCGCA
Found at i:6282288 original size:155 final size:155
Alignment explanation
Indices: 6282075--6282412 Score: 568
Period size: 155 Copynumber: 2.2 Consensus size: 155
6282065 CATTCAGGGA
* *
6282075 TTTAGCGGCATTTTTGAGGAAGCGCCGCGAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAGCA
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCGAATGCTCAGGGATTTAGCGGCATTTTTGAGAAAGCA
6282140 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGATTTAGCAGCGTTTTTG
66 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGATTTAGCAGCGTTTTTG
*
6282205 ATGAAGCGCCACTAATGCTCAAGGC
131 AGGAAGCGCCACTAATGCTCAAGGC
* * * *
6282230 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCG
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCGAATGCTCAGGGATTTAGCGGCATTTTTGAGAAAGCA
*
6282295 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGATTTAGCGGCGTTTTTG
66 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGATTTAGCAGCGTTTTTG
*
6282360 AGGAAGCGCCGCTAATGCTCAAGGC
131 AGGAAGCGCCACTAATGCTCAAGGC
** *
6282385 TTTAGCAACGTTTTTGAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGC
6282413 CAAAAAACCT
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
155 171 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (155 bp):
TTTAGCGGCGTTTTTGAGGAAGCGCCGCGAATGCTCAGGGATTTAGCGGCATTTTTGAGAAAGCA
CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGATTTAGCAGCGTTTTTG
AGGAAGCGCCACTAATGCTCAAGGC
Found at i:6282297 original size:41 final size:40
Alignment explanation
Indices: 6282185--6282298 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 40
6282175 TAAGCATTCG
* *
6282185 GGGATTTAGCAGCGTTTTTGATGAAGCGCCACTAATGCTCA
1 GGGATTTAGCGGCGTTTTTGA-GAAGCGCCGCTAATGCTCA
* * *
6282226 AGGCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTA
1 GGGATTTAGCGGCGTTTTTGA-GAAGCGCCGCTAATGCTCA
6282267 GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGC
1 GGGATTTAGCGGCGTTTTTGAG-AAGCGCCGC
6282299 AAAAAAACCT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.02
41 63 0.98
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (40 bp):
GGGATTTAGCGGCGTTTTTGAGAAGCGCCGCTAATGCTCA
Found at i:6282499 original size:113 final size:114
Alignment explanation
Indices: 6282230--6282588 Score: 558
Period size: 113 Copynumber: 3.1 Consensus size: 114
6282220 TGCTCAAGGC
* *
6282230 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCG
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCG
6282295 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGA
66 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGA
* **
6282344 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAAGGCTTTAGCAACGTTTTTGAGAAAGCG
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCG
* *
6282409 CCGCCAAAAAACCTATGCCCAACGACGCCGTTTTCT-AGCATTCGGGGA
66 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGA
* * * * *
6282457 TTTAGCGACATTTTTCAAGAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCG
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCG
* *
6282522 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGGGGA
66 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGC-ATTCGGGGA
* *
6282572 TTTTGTGGCGTTTTTGA
1 TTTAGCGGCGTTTTTGA
6282589 CAAAGTGCCG
Statistics
Matches: 220, Mismatches: 23, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
113 103 0.47
114 97 0.44
115 20 0.09
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCG
CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCATTCGGGGA
Found at i:6282657 original size:73 final size:74
Alignment explanation
Indices: 6282498--6282672 Score: 262
Period size: 74 Copynumber: 2.4 Consensus size: 74
6282488 TGCTCAGGGC
* *
6282498 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCC
6282563 TTTCGGGGA
66 TTTCGGGGA
* * * * *
6282572 TTTTGTGGCGTTTTTGACAAAGTGCCGTAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGA-CC
1 TTTAGCGGCGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCC
6282636 TTTCGGGGA
66 TTTCGGGGA
* *
6282645 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGACAAAGCGCCGC
6282673 TAATGCTCAG
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 32 0.36
74 56 0.64
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (74 bp):
TTTAGCGGCGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCC
TTTCGGGGA
Found at i:6282711 original size:188 final size:185
Alignment explanation
Indices: 6282393--6282756 Score: 532
Period size: 188 Copynumber: 2.0 Consensus size: 185
6282383 GCTTTAGCAA
* * * *
6282393 CGTTTTTGAGAAAGCGCCGCCAAAAAACCTATGCCCAACGACGCCGTTTTCTAGCATTCGGGGAT
1 CGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTACCATTCGGGGAT
*
6282458 TTAGCGACATTTTTCAAGAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
66 TTAGCGACATTTTTCAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
* *
6282523 CGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGGGGATTTTGTGG
131 CGCAAAAAAA-ATAAGCCCAACGACGCCGTTTTCTGA-CCTTTCGGGGATTTTGTGG
* * * *
6282580 CGTTTTTGACAAAGTGCCGTAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGACCTTTCGGGGA
1 CGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCT-ACCATTCGGGGA
* * **
6282645 TTTAGCGGCGTTTTT-AAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATTAAGC
65 TTTAGCGACATTTTTCAAG-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGC
* *
6282709 GCCGCAAAAAAAATAAGTCCAACGACGTCGTTTTCTGACCTTTCGGGG
129 GCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTCTGACCTTTCGGGG
6282757 GCTTTAACGG
Statistics
Matches: 158, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
186 9 0.06
187 72 0.46
188 77 0.49
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (185 bp):
CGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTACCATTCGGGGAT
TTAGCGACATTTTTCAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
CGCAAAAAAAATAAGCCCAACGACGCCGTTTTCTGACCTTTCGGGGATTTTGTGG
Found at i:6282771 original size:187 final size:187
Alignment explanation
Indices: 6282393--6282773 Score: 525
Period size: 187 Copynumber: 2.0 Consensus size: 187
6282383 GCTTTAGCAA
* * * *
6282393 CGTTTTTGAGAAAGCGCCGCCAAAAAACCTATGCCCAACGACGCCGTTTTCTAGCATTCGGGGAT
1 CGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTACCATTCGGGGAT
*
6282458 TTAGCGACATTTTTCAAGAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
66 TTAGCGACATTTTTCAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
* * ***
6282523 CGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGGGGATTTTGTGG
131 CGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCCTTTCGGGGATTTAACGG
* * * *
6282580 CGTTTTTGACAAAGTGCCGTAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGACCTTTCGGGGA
1 CGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCT-ACCATTCGGGGA
* * **
6282645 TTTAGCGGCGTTTTT-AAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATTAAGC
65 TTTAGCGACATTTTTCAAG-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGC
* * *
6282709 GCCGCAAAAAAA-ATAAGTCCAACGACGTCGTTTTCTGA-CCTTTCGGGGGCTTTAACGG
129 GCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCCTTTC-GGGGATTTAACGG
6282767 CGTTTTT
1 CGTTTTT
6282774 AATACAGTGT
Statistics
Matches: 170, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
186 5 0.03
187 88 0.52
188 77 0.45
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (187 bp):
CGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTACCATTCGGGGAT
TTAGCGACATTTTTCAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
CGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCCTTTCGGGGATTTAACGG
Found at i:6282788 original size:114 final size:114
Alignment explanation
Indices: 6282578--6282834 Score: 327
Period size: 114 Copynumber: 2.3 Consensus size: 114
6282568 GGGATTTTGT
* * * *
6282578 GGCGTTTTTGACAAAGTGCCGTAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGACCTTTCGGG
1 GGCGTTTTTGACAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGACCTTTCGGG
* **
6282643 GATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGC
66 GATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGAATTTAGC
** * *
6282692 GGCGTTTTTGATTAAGCGCCGCAAAAAAA-ATAAGTCCAACGACGTCGTTTTCTGACCTTTCGGG
1 GGCGTTTTTGACAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGACCTTTC-GG
* * * * * *
6282756 GGCTTTAACGGCGTTTTTAATACAGTGTCGCTAATGCTCTGGAATTTAGC
65 GGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGAATTTAGC
**
6282806 GGCGTTTTTGGGAAAGCGCCGCAAAAAAA
1 GGCGTTTTTGACAAAGCGCCGCAAAAAAA
6282835 TTATTTGTCT
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
113 28 0.23
114 94 0.77
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (114 bp):
GGCGTTTTTGACAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGACCTTTCGGG
GATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGAATTTAGC
Found at i:6283560 original size:13 final size:13
Alignment explanation
Indices: 6283525--6283567 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
6283515 ATGTTCGTAA
*
6283525 TTTGGATTTGGGGT
1 TTTGG-TTTAGGGT
6283539 TTATGGTTTAGGGT
1 TT-TGGTTTAGGGT
6283553 TTTGGTTTAGGGT
1 TTTGGTTTAGGGT
6283566 TT
1 TT
6283568 AGTTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 13 0.48
14 11 0.41
15 3 0.11
ACGTcount: A:0.09, C:0.00, G:0.37, T:0.53
Consensus pattern (13 bp):
TTTGGTTTAGGGT
Found at i:6283814 original size:72 final size:72
Alignment explanation
Indices: 6283663--6283819 Score: 187
Period size: 72 Copynumber: 2.2 Consensus size: 72
6283653 TGTTTATACA
* *
6283663 TTAGTGGCGTTTTAGTAAAAAATGCCACAAATATGTCATAGTATGCAAAACGATGACGTTTTATT
1 TTAGTGGCG-TTTAGTAAAAAACGCCACAAATATGTCATAGAATGCAAAACGATGACGTTTTATT
*
6283728 TTGTGTTC
65 CTGTGTTC
* * *
6283736 CTAGTGGCGTTTA-TAAAAAACGCCACAAATTTGTTTCATA-AATGGCAAAACGTTG-CGTTTTG
1 TTAGTGGCGTTTAGTAAAAAACGCCACAAATATG--TCATAGAAT-GCAAAACGATGACGTTTT-
6283798 A-TCTGTGTTC
62 ATTCTGTGTTC
6283808 TTAGTGGCGTTT
1 TTAGTGGCGTTT
6283820 TCTACCAAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
71 18 0.25
72 31 0.42
73 24 0.33
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (72 bp):
TTAGTGGCGTTTAGTAAAAAACGCCACAAATATGTCATAGAATGCAAAACGATGACGTTTTATTC
TGTGTTC
Found at i:6287409 original size:87 final size:87
Alignment explanation
Indices: 6287258--6287434 Score: 264
Period size: 87 Copynumber: 2.0 Consensus size: 87
6287248 GACCACCGTT
* * * *
6287258 GAGGTTCAAAGGAAATATGAAGAACTCTAGCTACAACTTAAAGTAGAGGCGGCAGCAAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGC
* *
6287323 AGAGGCTGCAGTGAGAGAAGTA
66 AGACGCTGCAGCGAGAGAAGTA
* * *
6287345 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGC
*
6287410 AGACGCTGCAGCGAGGGAAGTA
66 AGACGCTGCAGCGAGAGAAGTA
6287432 GAG
1 GAG
6287435 CAGAGAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.39, C:0.16, G:0.31, T:0.14
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGC
AGACGCTGCAGCGAGAGAAGTA
Found at i:6287424 original size:21 final size:21
Alignment explanation
Indices: 6287385--6287429 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6287375 CTACAACTTA
* *
6287385 AAGCAGATGCGGCATCGAGAG
1 AAGCAGACGCGGCAGCGAGAG
* *
6287406 AAGCAGACGCTGCAGCGAGGG
1 AAGCAGACGCGGCAGCGAGAG
6287427 AAG
1 AAG
6287430 TAGAGCAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.40, T:0.07
Consensus pattern (21 bp):
AAGCAGACGCGGCAGCGAGAG
Found at i:6287457 original size:87 final size:86
Alignment explanation
Indices: 6287270--6287460 Score: 215
Period size: 87 Copynumber: 2.2 Consensus size: 86
6287260 GGTTCAAAGG
* * * * * *
6287270 AAATATGAAGAACTCTAGCTACAACTTAAAGTAGAGGCGGCAGCAAGGGAAGCAGAGGCTGCAGT
1 AAATACGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGCAGACGCTGCAGC
*
6287335 GAGAGAAGTAGAGGTTCAAAAG
66 GAGAGAAGTAGAGG-TCAAAAA
* * * *
6287357 AAATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCATCGAGAGAAGCAGACGCTGCAGC
1 AAATACGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGCAGACGCTGCAGC
*
6287422 GAGGGAAGTAGA-G-CAGAGAAA
66 GAGAGAAGTAGAGGTCA-A-AAA
*
6287443 AAAGTACGACGAACTCCA
1 AAA-TACGAAGAACTCCA
6287461 ACAGCAGCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
84 2 0.02
85 1 0.01
86 6 0.07
87 80 0.90
ACGTcount: A:0.41, C:0.17, G:0.29, T:0.13
Consensus pattern (86 bp):
AAATACGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGCAGACGCTGCAGC
GAGAGAAGTAGAGGTCAAAAA
Found at i:6287657 original size:13 final size:13
Alignment explanation
Indices: 6287639--6287664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6287629 GAAGAAGCCC
6287639 CGCTAAAGAACAT
1 CGCTAAAGAACAT
6287652 CGCTAAAGAACAT
1 CGCTAAAGAACAT
6287665 GATCTTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CGCTAAAGAACAT
Found at i:6287682 original size:56 final size:57
Alignment explanation
Indices: 6287594--6287707 Score: 158
Period size: 56 Copynumber: 2.0 Consensus size: 57
6287584 TGTAAAAATG
* * *
6287594 TCGCTAAAAGAACATGACCTTTAGTGGCGTTTGCGGAAGAAGCCCCGCTAAAGAACA
1 TCGCTAAAAGAACATGACCTTTAGCGGCGTTTGCGGAAAAAGCCCAGCTAAAGAACA
* * * *
6287651 TCGCT-AAAGAACATGATCTTTAGCGGTGTTTGTGGAAAAAGCGCAGCTAAAGAACA
1 TCGCTAAAAGAACATGACCTTTAGCGGCGTTTGCGGAAAAAGCCCAGCTAAAGAACA
6287707 T
1 T
6287708 GATCTTTAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
56 45 0.90
57 5 0.10
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (57 bp):
TCGCTAAAAGAACATGACCTTTAGCGGCGTTTGCGGAAAAAGCCCAGCTAAAGAACA
Found at i:6287714 original size:43 final size:43
Alignment explanation
Indices: 6287652--6287789 Score: 208
Period size: 43 Copynumber: 3.2 Consensus size: 43
6287642 TAAAGAACAT
6287652 CGCTAAAGAACATGATCTTTAGCGGTGTTTGTGGAAAAAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGTGTTTGTGGAAAAAGCGC
*
6287695 AGCTAAAGAACATGATCTTTAGCCGCGT-TTTGTGGAAAAAGCGC
1 CGCTAAAGAACATGATCTTTAG-CG-GTGTTTGTGGAAAAAGCGC
* *
6287739 CGCTAAAGAACATGATCTTTAGCGGCGTTTGTTGAAAACA-CGC
1 CGCTAAAGAACATGATCTTTAGCGGTGTTTGTGGAAAA-AGCGC
6287782 CGCTAAAG
1 CGCTAAAG
6287790 GCCTGAAAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
42 1 0.01
43 44 0.51
44 40 0.46
45 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
CGCTAAAGAACATGATCTTTAGCGGTGTTTGTGGAAAAAGCGC
Found at i:6287744 original size:44 final size:44
Alignment explanation
Indices: 6287652--6287789 Score: 203
Period size: 44 Copynumber: 3.2 Consensus size: 44
6287642 TAAAGAACAT
6287652 CGCTAAAGAACATGATCTTTAG-CG-GTGTTTGTGGAAAAAGCGC
1 CGCTAAAGAACATGATCTTTAGCCGCGT-TTTGTGGAAAAAGCGC
*
6287695 AGCTAAAGAACATGATCTTTAGCCGCGTTTTGTGGAAAAAGCGC
1 CGCTAAAGAACATGATCTTTAGCCGCGTTTTGTGGAAAAAGCGC
* *
6287739 CGCTAAAGAACATGATCTTTAGCGGCG-TTTGTTGAAAACA-CGC
1 CGCTAAAGAACATGATCTTTAGCCGCGTTTTGTGGAAAA-AGCGC
6287782 CGCTAAAG
1 CGCTAAAG
6287790 GCCTGAAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
43 42 0.48
44 44 0.50
45 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
CGCTAAAGAACATGATCTTTAGCCGCGTTTTGTGGAAAAAGCGC
Found at i:6287816 original size:22 final size:22
Alignment explanation
Indices: 6287771--6287816 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6287761 CGGCGTTTGT
* **
6287771 TGAAAACACGCCGCTAAAGGCC
1 TGAAAAAACGCCGCTAAAAACC
6287793 TGAAAAAACGCCGCTAAAAACC
1 TGAAAAAACGCCGCTAAAAACC
6287815 TG
1 TG
6287817 TTTTGGTGTA
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:0.41, C:0.28, G:0.20, T:0.11
Consensus pattern (22 bp):
TGAAAAAACGCCGCTAAAAACC
Found at i:6300140 original size:30 final size:30
Alignment explanation
Indices: 6300084--6300141 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6300074 TCTGAACTTT
*
6300084 GGGGCAAAAGCATAATTATGTAAAAGTTTA
1 GGGGCAAAAGCATAATTATGCAAAAGTTTA
* * *
6300114 GGGGCAAAATCATAATTTTGCCAAAGTT
1 GGGGCAAAAGCATAATTATGCAAAAGTT
6300142 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAGCATAATTATGCAAAAGTTTA
Found at i:6300371 original size:13 final size:13
Alignment explanation
Indices: 6300353--6300379 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6300343 TTTCCAGAAA
6300353 TTATGAATTTATT
1 TTATGAATTTATT
6300366 TTATGAATTTATT
1 TTATGAATTTATT
6300379 T
1 T
6300380 AATGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6300553 original size:50 final size:50
Alignment explanation
Indices: 6300478--6300769 Score: 356
Period size: 50 Copynumber: 5.9 Consensus size: 50
6300468 CATTTGGGTA
*
6300478 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
6300528 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * *
6300578 GAGAGGTTCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * * *
6300628 GAGAGATCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATAT
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * * * *
6300678 GAGA-ACTCCCATGTAAGACCATACCTGGGATATGGCATTGGTA--GTACAG
1 GAGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGAT
* * * * *
6300727 GAAAAATCCCATGTAAGACCATGTTTGGGACACGGCTTTGGCA
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
6300770 TGTTATTATC
Statistics
Matches: 209, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
49 36 0.17
50 173 0.83
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:6312023 original size:41 final size:41
Alignment explanation
Indices: 6311916--6312066 Score: 178
Period size: 41 Copynumber: 3.6 Consensus size: 41
6311906 CGAAGATTAA
* * * * *
6311916 TTTTGA-TTTTTCAACATCAACATGACGAGATGGAAATTAA
1 TTTTGATTTTTTCAACATCAACATGGCGAGGTGGAGATCAG
6311956 TTTTGATTTATTTTTCAACATCAACATGGCGAGGTGGAGATCAG
1 TTTTGA--T-TTTTTCAACATCAACATGGCGAGGTGGAGATCAG
* * *
6312000 TTTTGATTTTTTCAACATTAACATAGCGAGGGGGAGATCAG
1 TTTTGATTTTTTCAACATCAACATGGCGAGGTGGAGATCAG
* *
6312041 TTCTGATTTTTTCAACACCAACATGG
1 TTTTGATTTTTTCAACATCAACATGG
6312067 TGAGACAGAG
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
40 6 0.06
41 53 0.56
42 1 0.01
44 35 0.37
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (41 bp):
TTTTGATTTTTTCAACATCAACATGGCGAGGTGGAGATCAG
Found at i:6313600 original size:22 final size:22
Alignment explanation
Indices: 6313573--6313626 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6313563 TTCTAGGCCA
* *
6313573 TTTTGGG-CACCTTTCAAACATT
1 TTTTGGGTC-CCTTCCAAAAATT
6313595 TTTTGGGTCCCTTCCAAAAATT
1 TTTTGGGTCCCTTCCAAAAATT
6313617 TTTTGGGTCC
1 TTTTGGGTCC
6313627 AAGCCATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.43
Consensus pattern (22 bp):
TTTTGGGTCCCTTCCAAAAATT
Found at i:6316133 original size:17 final size:17
Alignment explanation
Indices: 6316111--6316152 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
6316101 ACAAAAACTA
6316111 AATTTAATTTCCAATTT
1 AATTTAATTTCCAATTT
6316128 AATTTAATTTCCAATTT
1 AATTTAATTTCCAATTT
6316145 -ATTTAATT
1 AATTTAATT
6316153 AATTATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTAATTTCCAATTT
Found at i:6316267 original size:12 final size:12
Alignment explanation
Indices: 6316250--6316290 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
6316240 GAGTTGTAGG
*
6316250 CACGACAATTGC
1 CACGACTATTGC
6316262 CACGACTATTGC
1 CACGACTATTGC
6316274 CACGACTATTGC
1 CACGACTATTGC
6316286 CACGA
1 CACGA
6316291 TAGAATTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (12 bp):
CACGACTATTGC
Found at i:6324670 original size:8 final size:8
Alignment explanation
Indices: 6324657--6324692 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
6324647 TTTGCTTATA
6324657 AATAAATT
1 AATAAATT
6324665 AATAAA-T
1 AATAAATT
6324672 -A-AAATT
1 AATAAATT
6324678 AATAAATT
1 AATAAATT
6324686 AATAAAT
1 AATAAAT
6324693 GCTCAAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 3 0.12
6 2 0.08
7 2 0.08
8 18 0.72
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAAATT
Found at i:6324678 original size:13 final size:12
Alignment explanation
Indices: 6324654--6324684 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
6324644 ATATTTGCTT
6324654 ATAAATAAATTA
1 ATAAATAAATTA
6324666 ATAAATAAAATTA
1 ATAAAT-AAATTA
6324679 ATAAAT
1 ATAAAT
6324685 TAATAAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAATAAATTA
Found at i:6338192 original size:15 final size:15
Alignment explanation
Indices: 6338180--6338266 Score: 52
Period size: 15 Copynumber: 5.6 Consensus size: 15
6338170 GATCAAAACA
6338180 AAAAAGAAGAAAAAG
1 AAAAAGAAGAAAAAG
*
6338195 AAAAAGAAAAATCAAAG
1 AAAAAGAAGAA--AAAG
** * *
6338212 TTAAA-ATGAAAATG
1 AAAAAGAAGAAAAAG
* *
6338226 AAAAAAAAGAGAGAAG
1 AAAAAGAAGA-AAAAG
6338242 AAAAAAGAA-AAAAAGG
1 -AAAAAGAAGAAAAA-G
6338258 AAAAAGAAG
1 AAAAAGAAG
6338267 GAGAGGCTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 13
0.67 0.17 0.17
Matches are distributed among these distances:
14 6 0.12
15 24 0.46
16 8 0.15
17 14 0.27
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.06
Consensus pattern (15 bp):
AAAAAGAAGAAAAAG
Found at i:6338233 original size:40 final size:40
Alignment explanation
Indices: 6338145--6338246 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
6338135 ATCCGATCTC
* *
6338145 AAAAAAAATGCAAAAGCAAAATCAAGATCAAAACAAAAAAG
1 AAAAAAAA-GAAAAAGAAAAATCAAGATCAAAACAAAAAAG
* * ** *
6338186 AAGAAAAAGAAAAAGAAAAATCAA-AGTTAAAATGAAAATG
1 AAAAAAAAGAAAAAGAAAAATCAAGA-TCAAAACAAAAAAG
*
6338226 AAAAAAAAGAGAGAAGAAAAA
1 AAAAAAAAGA-AAAAGAAAAA
6338247 AGAAAAAAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
39 1 0.02
40 33 0.66
41 16 0.32
ACGTcount: A:0.73, C:0.06, G:0.14, T:0.08
Consensus pattern (40 bp):
AAAAAAAAGAAAAAGAAAAATCAAGATCAAAACAAAAAAG
Found at i:6339068 original size:21 final size:21
Alignment explanation
Indices: 6339043--6339106 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
6339033 GACTTTGAGA
6339043 AAAAAAGAATAAAA-GAAAAAT
1 AAAAAAGAA-AAAAGGAAAAAT
6339064 AAAAAAGAGAAAAATGGAAAAAT
1 AAAAAAGA-AAAAA-GGAAAAAT
*
6339087 AAAAAAG-AAAAAGTAAAAAT
1 AAAAAAGAAAAAAGGAAAAAT
6339107 GGAGAGGCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 7 0.18
21 17 0.44
22 1 0.03
23 14 0.36
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (21 bp):
AAAAAAGAAAAAAGGAAAAAT
Found at i:6339074 original size:23 final size:23
Alignment explanation
Indices: 6339042--6339098 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6339032 GGACTTTGAG
6339042 AAAAAA-AGAATAAA-AGAAAAAT
1 AAAAAAGAGAA-AAATAGAAAAAT
*
6339064 AAAAAAGAGAAAAATGGAAAAAT
1 AAAAAAGAGAAAAATAGAAAAAT
6339087 AAAAAAGA-AAAA
1 AAAAAAGAGAAAA
6339099 GTAAAAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (23 bp):
AAAAAAGAGAAAAATAGAAAAAT
Found at i:6339084 original size:15 final size:14
Alignment explanation
Indices: 6339053--6339106 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
6339043 AAAAAAGAAT
*
6339053 AAAAGAAAAATAAA
1 AAAAGAAAAATAGA
*
6339067 AAAGAGAAAAATGGA
1 AAA-AGAAAAATAGA
*
6339082 AAAATAAAAA-AGA
1 AAAAGAAAAATAGA
6339095 AAAAGTAAAAAT
1 AAAAG-AAAAAT
6339107 GGAGAGGCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 6 0.19
14 14 0.44
15 12 0.38
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (14 bp):
AAAAGAAAAATAGA
Found at i:6340508 original size:44 final size:44
Alignment explanation
Indices: 6340442--6340744 Score: 263
Period size: 44 Copynumber: 6.7 Consensus size: 44
6340432 GGAAATGGTG
* *
6340442 AATCTTATCTCCCTGATG-TTACAGTGGAGTAGATTGAAGCCAAA
1 AATCTTATCTCCCT-AAGATTACAGTGGAGTAGATTGAAGCCAGA
* * *
6340486 AATCTTATCTCCCTAAGATTACAGCGGAGTAGATTGAAGCTAGT
1 AATCTTATCTCCCTAAGATTACAGTGGAGTAGATTGAAGCCAGA
* * * ** ***
6340530 AATCCTATCTCCCTGAGAGTACAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTAAGATTACAGTGGAGTAGATTGAAGCCAGA
* *
6340572 ATTATCTTATCTCTCTGAAG-TTATAGTAGAATAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCT-AAGATTACAGT-G----GA--G--T-AGATTGAAGCCAGA
*
6340628 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTAAGATTACAGTGGAGTAGATTGAAGCCAGA
* * *
6340672 AATCTTATCTCCCTAAGATTACAGCGGAGTAGATTGAAGCTAGT
1 AATCTTATCTCCCTAAGATTACAGTGGAGTAGATTGAAGCCAGA
* *
6340716 AATCCTATCTCCCTGAGATTACAGTGGAG
1 AATCTTATCTCCCTAAGATTACAGTGGAG
6340745 CGGATTAAAA
Statistics
Matches: 208, Mismatches: 34, Indels: 34
0.75 0.12 0.12
Matches are distributed among these distances:
42 1 0.00
43 6 0.03
44 161 0.77
45 3 0.01
47 1 0.00
49 4 0.02
51 1 0.00
53 4 0.02
54 22 0.11
55 3 0.01
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTAAGATTACAGTGGAGTAGATTGAAGCCAGA
Found at i:6340607 original size:88 final size:87
Alignment explanation
Indices: 6340484--6340793 Score: 302
Period size: 88 Copynumber: 3.4 Consensus size: 87
6340474 ATTGAAGCCA
* **
6340484 AAAATCTTATCTCCCT-AAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 AAAATCTTATCTCTCTGAAGATTACAGTAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
6340548 GTACAGTGGAGCGGATTAAAAT
66 TTACAGTGGAGCGGATTAAAAT
* * * * *
6340570 AAATTATCTTATCTCTCTGAAGTTATAGTAGAATAGATCGCATCAGATTGAAGCCAGAAATCTTA
1 AAA--ATCTTATCTCTCTGAAG--AT--TACAGTAGA--G--T-AGATTGAAGCTAGTAATCCTA
* * ***
6340635 TCTCCCTAAGATTACAGTGGAGCAGATTGAAGCC
55 TCTCCCTGAGATTACAGTGGAGCGGATT-AAAAT
* **
6340669 AGAAATCTTATCTCCCT-AAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAG
1 A-AAATCTTATCTCTCTGAAGATTACAGTAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAG
6340733 ATTACAGTGGAGCGGATTAAAAT
65 ATTACAGTGGAGCGGATTAAAAT
*
6340756 AAAGGATATTATCTCTCTGAAG-TTACAGTAGAGTAGAT
1 AAA--ATCTTATCTCTCTGAAGATTACAGTAGAGTAGAT
6340794 CGCATCAGGT
Statistics
Matches: 176, Mismatches: 31, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
86 5 0.03
87 3 0.02
88 81 0.46
89 7 0.04
91 3 0.02
93 10 0.06
95 3 0.02
97 4 0.02
98 55 0.31
99 3 0.02
100 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (87 bp):
AAAATCTTATCTCTCTGAAGATTACAGTAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAAT
Found at i:6340705 original size:98 final size:97
Alignment explanation
Indices: 6340516--6340801 Score: 236
Period size: 98 Copynumber: 3.0 Consensus size: 97
6340506 ACAGCGGAGT
* * * * *
6340516 AGATTGAAGCTAGTAATCCTATCTCCCTGAGAGTACAGTGGAGCGGATTAAAATAAATTATCTTA
1 AGATTGAAGCCAGAAATCCTATCTCCCTAAGAGTACAGTGGAGCAGATTAAAACAAA-TATCTTA
* * *
6340581 TCTCTCTGAAGTTATAGTAGAATAGATCGCATC
65 TCTCCCTGAAGTTACAGCAGAATAGATCGCATC
* * **
6340614 AGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGAA-ATCTT
1 AGATTGAAGCCAGAAATCCTATCTCCCTAAGAGTACAGTGGAGCAGATT-AAAACA-AATATCTT
6340678 ATCTCCCT-AAGATTACAGC-G----GA--G--T-
64 ATCTCCCTGAAG-TTACAGCAGAATAGATCGCATC
* * * * * * * *
6340702 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTA
1 AGATTGAAGCCAGAAATCCTATCTCCCTAAGAGTACAGTGGAGCAGATTAAAACAAA-TATCTTA
* * *
6340767 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
65 TCTCCCTGAAGTTACAGCAGAATAGATCGCATC
6340800 AG
1 AG
6340802 GTCTTATCTC
Statistics
Matches: 149, Mismatches: 23, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
86 2 0.01
87 3 0.02
88 61 0.41
89 5 0.03
91 1 0.01
93 4 0.03
95 1 0.01
97 5 0.03
98 62 0.42
99 3 0.02
100 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (97 bp):
AGATTGAAGCCAGAAATCCTATCTCCCTAAGAGTACAGTGGAGCAGATTAAAACAAATATCTTAT
CTCCCTGAAGTTACAGCAGAATAGATCGCATC
Found at i:6340756 original size:186 final size:186
Alignment explanation
Indices: 6340442--6340801 Score: 623
Period size: 186 Copynumber: 1.9 Consensus size: 186
6340432 GGAAATGGTG
* *
6340442 AATCTTATCTCCCTGATGTTACAGTGGAGTAGATTGAAGCCAAAAATCTTATCTCCCTAAGATTA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAAAAATCTTATCTCCCTAAGATTA
6340507 CAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGAGTACAGTGGAGCGGATTAAAATAA
66 CAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGAGTACAGTGGAGCGGATTAAAATAA
** * *
6340572 ATTATCTTATCTCTCTGAAGTTATAGTAGAATAGATCGCATCAGATTGAAGCCAGA
131 AGGATATTATCTCTCTGAAGTTACAGTAGAATAGATCGCATCAGATTGAAGCCAGA
*
6340628 AATCTTATCTCCCT-AAGATTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTAAGATT
1 AATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGCCAAAAATCTTATCTCCCTAAGATT
*
6340692 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATA
65 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGAGTACAGTGGAGCGGATTAAAATA
*
6340757 AAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
130 AAGGATATTATCTCTCTGAAGTTACAGTAGAATAGATCGCATCAG
6340802 GTCTTATCTC
Statistics
Matches: 164, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
185 2 0.01
186 162 0.99
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (186 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAAAAATCTTATCTCCCTAAGATTA
CAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGAGTACAGTGGAGCGGATTAAAATAA
AGGATATTATCTCTCTGAAGTTACAGTAGAATAGATCGCATCAGATTGAAGCCAGA
Found at i:6340953 original size:50 final size:49
Alignment explanation
Indices: 6340896--6341840 Score: 520
Period size: 50 Copynumber: 18.9 Consensus size: 49
6340886 GTAACATCGA
* *
6340896 TGAATCTTGCTTCCTCGACATTGAAGTTAAAAAGATTAAAGCTACAACAG
1 TGAATCTTACTTCC-CGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * ** ** * *
6340946 TGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACAG
1 TGAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * *
6340996 TGAATCTTGCCTCCCTGACATTGCAGTTAAAATGATTAAAGCTACAACAG
1 TGAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * ** * ** ** * * *
6341046 CGAATCTTACCTCTTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGG
1 TGAATCTTACTTC-CCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * * ** *
6341096 TGAATCTTGCCT-CCGAGCATTGCAGTTAAAAGGATTACAA-CTACAGTAA
1 TGAATCTTACTTCCCGA-CATTGCAGTTAAAAAGATTA-AAGCTACAACAG
** * ** * ** * * *
6341145 CAAATCTTAC-CCCCAGGA-GGTGTAGTGGAACAGATTAAAGCCACAACGG
1 TGAATCTTACTTCCC--GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * * **
6341194 TGAATCTTGCCTCCCTGACATTGCAGTTAAAAAGATTAAAGCTATAGTAG
1 TGAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * * ** ** * * *
6341244 CGAATCATACTTCCCTGGCGGTGCAGTGGAATAGATTAAAGCCACATCAG
1 TGAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * *
6341294 TGAATCTTGCTTCCCCGACATTGTAGTTAAAAATATTAAAGCTACAACAG
1 TGAATCTTACTT-CCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
** ** ** * * * *
6341344 CAAATCTTACTTCCCTGACGGTGCAGTGGAACAGATTAACGCCACAACGG
1 TGAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* ** *
6341394 TGAACCTCGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAG
1 TGAATCTTACTT-CCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * ** * * * *
6341444 TGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGG
1 TGAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
*
6341494 TGAATCTTGCTTCCCCGACATTGCAGTT-AAAAGATTAAAGCTACAACAG
1 TGAATCTTACTT-CCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * * * * * *
6341543 CGAATCTTACTTCCCAGACGGTT-CAGTGGAACAA-ATTAAAGCCACATCGG
1 TGAATCTTACTTCCC-GAC-ATTGCAGT-TAAAAAGATTAAAGCTACAACAG
* * *
6341593 TGAATCTTGCTTCCTTGACGTTGCAGTTAAAAAGATTAAAGCTACAACAG
1 TGAATCTTACTTCC-CGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * *** ** * * * *
6341643 CGAATCTTACTTCCCAGGCGGCGCAGTGGAACAGATTAAAGCCACATCGG
1 TGAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * * *
6341693 TCAATCTTGCTTCCCTGACATTGCCGTTAAAATGATTAAAGCTACAACAG
1 TGAATCTTACTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * * ** * ** * *
6341743 CGAATATTATTTCCCG-GGTGGTGCAATGGAACAGATTAAAGCTGCAACAG
1 TGAATCTTACTTCCCGACAT--TGCAGTTAAAAAGATTAAAGCTACAACAG
* * *
6341793 CGAATCTTACCTTCCCGACATTGCAGTTAAACAGATTAAGAGTTACAA
1 TGAATCTTA-CTTCCCGACATTGCAGTTAAAAAGATTAA-AGCTACAA
6341841 ATCCTATCTC
Statistics
Matches: 644, Mismatches: 223, Indels: 55
0.70 0.24 0.06
Matches are distributed among these distances:
48 7 0.01
49 101 0.16
50 509 0.79
51 26 0.04
52 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (49 bp):
TGAATCTTACTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
Found at i:6341039 original size:100 final size:100
Alignment explanation
Indices: 6340856--6341840 Score: 1176
Period size: 100 Copynumber: 9.9 Consensus size: 100
6340846 AGATCTTATT
* * * ** * * * *
6340856 TTCCTTGGCAGTGCAGTGGAATAGATTAAAGTAACATCGATGAATCTTG-CTTCCTCGACATTGA
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT-GACATTGC
* *
6340920 AGTTAAAAAGATTAAAGCTACAACAGTGGATCTTAC
65 AGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
*
6340956 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCCTCCCTGACATTGCA
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
*
6341021 GTTAAAATGATTAAAGCTACAACAGCGAATCTTAC
66 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
* *
6341056 CT-CTTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCT-CC-GAGCATTG
1 TTCCCT-GGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA-CATTG
* ** * *
6341118 CAGTTAAAAGGATTACAA-CTACAGTAACAAATCTTAC
64 CAGTTAAAAAGATTA-AAGCTACAACAGCGAATCTTAC
* * * *
6341155 -CCCCAGGAGGTGTAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
* ** *
6341219 GTTAAAAAGATTAAAGCTATAGTAGCGAATCATAC
66 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
* * * * * *
6341254 TTCCCTGGCGGTGCAGTGGAATAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGTA
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
* *
6341319 GTTAAAAATATTAAAGCTACAACAGCAAATCTTAC
66 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
* * * * * **
6341354 TTCCCTGACGGTGCAGTGGAACAGATTAACGCCACAACGGTGAACCTCGCTTCCCCAACATTGCA
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
*
6341419 GTTAAAAAGATTAAAGCTACAACAGTGAATCTTAC
66 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
* * * * *
6341454 TTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCA
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
6341519 GTT-AAAAGATTAAAGCTACAACAGCGAATCTTAC
66 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
* * * * * * * *
6341553 TTCCCAGACGGTTCAGTGGAACAAATTAAAGCCACATCGGTGAATCTTGCTTCCTTGACGTTGCA
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
6341618 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
66 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
* * * * * *
6341653 TTCCCAGGCGGCGCAGTGGAACAGATTAAAGCCACATCGGTCAATCTTGCTTCCCTGACATTGCC
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
* * *
6341718 GTTAAAATGATTAAAGCTACAACAGCGAATATTAT
66 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
* * * ** * * *
6341753 TTCCCGGGTGGTGCAATGGAACAGATTAAAGCTGCAACAGCGAATCTTACCTTCCC-GACATTGC
1 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCC-TCCCTGACATTGC
* *
6341817 AGTTAAACAGATTAAGAGTTACAA
65 AGTTAAAAAGATTAA-AGCTACAA
6341841 ATCCTATCTC
Statistics
Matches: 771, Mismatches: 102, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
98 48 0.06
99 166 0.22
100 541 0.70
101 16 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
Found at i:6341601 original size:299 final size:300
Alignment explanation
Indices: 6340862--6341840 Score: 1236
Period size: 299 Copynumber: 3.3 Consensus size: 300
6340852 TATTTTCCTT
* ** * * * *
6340862 GGCAGTGCAGTGGAATAGATTAAAGTAACATCGATGAATCTTGCTTCCTCGACATTGAAGTTAAA
1 GGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
* *
6340927 AAGATTAAAGCTACAACAGTGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACA
66 AAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACA
* *
6340992 ACAGTGAATCTTGCCTCCCTGACATTGCAGTT-AAAATGATTAAAGCTACAACAGCGAATCTTAC
131 TCAGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAT-ATTAAAGCTACAACAGCGAATCTTAC
* * * * *
6341056 CT-CTTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCT-CCGAGCATTGC
195 TTCCCT-GGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAACATTGC
* ** * * *
6341119 AGTTAAAAGGATTACAA-CTACAGTAACAAATCTTAC-CCCCA
259 AGTTAAAAAGATTA-AAGCTACAACAGCGAATCTTACTTCCCA
* * *
6341160 GG-AGGTGTAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAA
1 GGCA-GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAA
* ** * *
6341224 AAAGATTAAAGCTATAGTAGCGAATCATACTTCCCTGGCGGTGCAGTGGAATAGATTAAAGCCAC
65 AAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCAC
* * *
6341289 ATCAGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAATATTAAAGCTACAACAGCAAATCTTAC
130 ATCAGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAATATTAAAGCTACAACAGCGAATCTTAC
* * * *
6341354 TTCCCTGACGGTGCAGTGGAACAGATTAACGCCACAACGGTGAACCTCGCTTCCCCAACATTGCA
195 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAACATTGCA
*
6341419 GTTAAAAAGATTAAAGCTACAACAGTGAATCTTACTTCCCA
260 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCA
*
6341460 GGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTT-AA
1 GGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
* * * *
6341524 AAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGACGGTTCAGTGGAACAAATTAAAGCCACA
66 AAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACA
* * * *
6341589 TCGGTGAATCTTGCTTCCTTGACGTTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACT
131 TCAGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAATATTAAAGCTACAACAGCGAATCTTACT
* * * * ** *
6341654 TCCCAGGCGGCGCAGTGGAACAGATTAAAGCCACATCGGTCAATCTTGCTTCCCTGACATTGCCG
196 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAACATTGCAG
* * * *
6341719 TTAAAATGATTAAAGCTACAACAGCGAATATTATTTCCCG
261 TTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCA
** * ** * * *
6341759 GGTGGTGCAATGGAACAGATTAAAGCTGCAACAGCGAATCTTACCTT-CCCGACATTGCAGTTAA
1 GGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTT-GCTTCCCCGACATTGCAGTTAA
* *
6341823 ACAGATTAAGAGTTACAA
65 AAAGATTAA-AGCTACAA
6341841 ATCCTATCTC
Statistics
Matches: 586, Mismatches: 85, Indels: 17
0.85 0.12 0.02
Matches are distributed among these distances:
297 1 0.00
298 208 0.35
299 297 0.51
300 72 0.12
301 8 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (300 bp):
GGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
AAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACA
TCAGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAATATTAAAGCTACAACAGCGAATCTTACT
TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAACATTGCAG
TTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCA
Found at i:6342991 original size:46 final size:46
Alignment explanation
Indices: 6342885--6343731 Score: 1376
Period size: 46 Copynumber: 18.5 Consensus size: 46
6342875 CATATGACCT
* *
6342885 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
* * * *
6342928 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
* *
6342974 CTTATCACTTTATCACTTGATCAGATAAGT---G-T--AG---CCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343011 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343057 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343103 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343149 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343195 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343241 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343287 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343333 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343379 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343425 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343471 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343517 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
6343563 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
** ** *
6343609 CTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCA
1 CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
* * ** *
6343655 CTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCA
1 CTTATCAC--T----TTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
* *
6343707 CCTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTGTCTCTTGATCAGA
6343732 AGTACTCAAA
Statistics
Matches: 772, Mismatches: 14, Indels: 33
0.94 0.02 0.04
Matches are distributed among these distances:
37 31 0.04
40 3 0.00
41 1 0.00
42 1 0.00
43 11 0.01
44 4 0.01
45 21 0.03
46 656 0.85
48 1 0.00
50 1 0.00
52 42 0.05
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCTCTTGATCAGATAAGTGGAGCTAAAGCTACCA
Found at i:6343012 original size:37 final size:37
Alignment explanation
Indices: 6342971--6343041 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
6342961 GCTGAAGCTA
6342971 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
* *
6343008 CCACTTATCACTTTGTCTCTTGATCAGATAAGTG
1 CCACTTATCACTTTATCACTTGATCAGATAAGTG
6343042 GAGCTAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (37 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
Found at i:6343674 original size:52 final size:52
Alignment explanation
Indices: 6343618--6343717 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
6343608 ACTTATCACT
* *
6343618 TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACCTATCACTTTCCAC
*
6343670 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACCTATCACTTT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACCTATCACTTT
6343718 GTCACTTGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (52 bp):
TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACCTATCACTTTCCAC
Found at i:6346439 original size:3 final size:3
Alignment explanation
Indices: 6346431--6346463 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6346421 ATTTTAATTT
6346431 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6346464 TTATTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6346468 original size:3 final size:3
Alignment explanation
Indices: 6346462--6346494 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6346452 ATAATAATAA
6346462 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6346495 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6348304 original size:5 final size:5
Alignment explanation
Indices: 6348296--6348322 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6348286 AAAGGAAAGA
6348296 AAATC AAATC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AA
6348323 GCAGATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:6349319 original size:20 final size:20
Alignment explanation
Indices: 6349276--6349325 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
6349266 TAGTAATTCT
6349276 TTTATTA-TTTTTTAATGTA
1 TTTATTATTTTTTTAATGTA
* * *
6349295 ATTATTATTTTTTTCATTTA
1 TTTATTATTTTTTTAATGTA
6349315 TTTATT-TTTTT
1 TTTATTATTTTT
6349326 CCTTTTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTATTATTTTTTTAATGTA
Found at i:6361103 original size:44 final size:43
Alignment explanation
Indices: 6360973--6361217 Score: 182
Period size: 44 Copynumber: 5.7 Consensus size: 43
6360963 CCGATAATCC
* * * **
6360973 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* ** * * * *
6361017 TATCTCTCTGAAGTTGCAG-AAAGCAGA-T-CGCATCTAG-CT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
6361056 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* *
6361100 TATC-CTCCTGAAGTTGCAGTGGGGGCAGACTGAAGATGGCAAGTCT
1 TATCTC-CCTGAAGTTGCAGT-GGAGCAGACT-AAGA-AGCAAGTCT
* * * *
6361146 TATCTCCCTGAAGTTGTAGTGGAGCAGA-TTA-AAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCT
6361190 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
6361218 TTTAANNNNN
Statistics
Matches: 163, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
39 20 0.12
40 6 0.04
41 4 0.02
42 6 0.04
43 12 0.07
44 69 0.42
45 17 0.10
46 28 0.17
47 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
Found at i:6361439 original size:44 final size:44
Alignment explanation
Indices: 6361330--6361712 Score: 254
Period size: 44 Copynumber: 8.8 Consensus size: 44
6361320 TAAGTAAGCA
* * * *
6361330 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA-
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAG-TCG-AT
** ** *
6361375 AACCTTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAGTCGAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * *
6361419 AGTCCTATCTCCCTGAAGTTGCAGTGGTGCAGATTAAAATC-AC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * ***
6361462 AGATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCGCA-TC--T
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * *
6361503 AGTCTTATCTCCCTCAAGTTGTAGTGGAGCAGAAT-AAGTAAGCA-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-CG-AT
* *
6361547 AGTCTTATC-CTCCTGAAGTTGCAGTAGG-GCAGACTAAAGATGGCA-
1 AGTCTTATCTC-CCTGAAGTTGCAGT-GGAGCAGATTAAAG-TCG-AT
** *
6361592 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTCGAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * * *
6361636 AGTCCTATCTCCCTGAAGTTGCAGTGGTGCAGATTAAAATC-AC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
* * *
6361679 AGATCTTATCTCTCTGAAGTTACAG-AGAGCAGAT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
6361713 CGCATCTAGT
Statistics
Matches: 264, Mismatches: 57, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
40 19 0.07
41 10 0.04
42 2 0.01
43 24 0.09
44 139 0.53
45 67 0.25
46 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
Found at i:6361657 original size:89 final size:88
Alignment explanation
Indices: 6361506--6361699 Score: 207
Period size: 89 Copynumber: 2.2 Consensus size: 88
6361496 CGCATCTAGT
* * *
6361506 CTTATCTCCCTCAAGTTGTAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAATAAGTAAGCAAGTCCTATCCTCCTGAAGTTGCAG
**
6361571 TAGG-GCAGACTAAAGATGGCAAAC
66 T-GGTGCAGACTAAA-ATCACAAAC
** *
6361595 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGT-CG-ATAGTCCTAT-CTCCCTGAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAAT-AAGTAAGCA-AGTCCTATCCT-CCTGAAGTTG
* * *
6361657 CAGTGGTGCAGATTAAAATCACAGAT
63 CAGTGGTGCAGACTAAAATCACAAAC
*
6361683 CTTATCTCTCTGAAGTT
1 CTTATCTCCCTGAAGTT
6361700 ACAGAGAGCA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
88 26 0.29
89 59 0.66
90 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGAATAAGTAAGCAAGTCCTATCCTCCTGAAGTTGCAG
TGGTGCAGACTAAAATCACAAAC
Found at i:6361682 original size:217 final size:217
Alignment explanation
Indices: 6361307--6361733 Score: 809
Period size: 217 Copynumber: 2.0 Consensus size: 217
6361297 NNNNNNNNNN
* *
6361307 TAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATG
1 TAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAGGGCAGACTAAAGATG
**
6361372 GCAAACCTTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAGTCGATAGTCCTATCTCCCTGAAG
66 GCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTCGATAGTCCTATCTCCCTGAAG
6361437 TTGCAGTGGTGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATC
131 TTGCAGTGGTGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATC
*
6361502 TAGTCTTATCTCCCTCAAGTTG
196 TAGTCTTATATCCCTCAAGTTG
6361524 TAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAGGGCAGACTAAAGATG
1 TAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAGGGCAGACTAAAGATG
6361589 GCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTCGATAGTCCTATCTCCCTGAAG
66 GCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTCGATAGTCCTATCTCCCTGAAG
6361654 TTGCAGTGGTGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATC
131 TTGCAGTGGTGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATC
6361719 TAGTCTTATATCCCT
196 TAGTCTTATATCCCT
6361734 GACATTGCAG
Statistics
Matches: 205, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
217 205 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
TAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAGGGCAGACTAAAGATG
GCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTCGATAGTCCTATCTCCCTGAAG
TTGCAGTGGTGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATC
TAGTCTTATATCCCTCAAGTTG
Found at i:6362111 original size:5 final size:5
Alignment explanation
Indices: 6362103--6362134 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
6362093 AAAGGAAAGA
6362103 AAATC AAATC AAATC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AAATC AA
6362135 GCAGATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:6363141 original size:20 final size:20
Alignment explanation
Indices: 6363092--6363147 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
6363082 TTCAATTTAG
6363092 TAATTT-TTTATTA-TTTTT
1 TAATTTATTTATTATTTTTT
* *
6363110 TAATGTAATTATTATTTTTT
1 TAATTTATTTATTATTTTTT
*
6363130 TCATTTATTTATT-TTTTT
1 TAATTTATTTATTATTTTT
6363148 CCTTTTTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TAATTTATTTATTATTTTTT
Found at i:6363566 original size:19 final size:20
Alignment explanation
Indices: 6363525--6363566 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
6363515 ATTTCTATGC
* *
6363525 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
6363545 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
6363564 CAT
1 CAT
6363567 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:6366291 original size:27 final size:26
Alignment explanation
Indices: 6366252--6366399 Score: 127
Period size: 27 Copynumber: 5.5 Consensus size: 26
6366242 AACACGTGAA
*
6366252 GAAAGGAACGCCTTTGTGGCGCAATAT
1 GAAAGGAAAGCCTTTGTGGCG-AATAT
*
6366279 GAAAGGAAAGCCTTTGTGGAGAATTAT
1 GAAAGGAAAGCCTTTGTGGCGAA-TAT
* *
6366306 GAAAGGAACA-CCTTTATGGTGCAATAT
1 GAAAGGAA-AGCCTTTGTGGCG-AATAT
* * * *
6366333 GAAAGTAATGTCTTTGTGGCGAAATAC
1 GAAAGGAAAGCCTTTGTGGCG-AATAT
* *
6366360 AAAAGGAATGCCTTTGTGGCGAATCAT
1 GAAAGGAAAGCCTTTGTGGCGAAT-AT
* *
6366387 GAAGGGATAGCCT
1 GAAAGGAAAGCCT
6366400 CTATGGTGAA
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.05
27 89 0.92
28 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.25
Consensus pattern (26 bp):
GAAAGGAAAGCCTTTGTGGCGAATAT
Found at i:6366365 original size:54 final size:54
Alignment explanation
Indices: 6366253--6366399 Score: 143
Period size: 54 Copynumber: 2.7 Consensus size: 54
6366243 ACACGTGAAG
* * * **
6366253 AAAGGAACGCCTTTGTGGCGCAATATGAAAGGAAAGCCTTTGTGGAGAATTATG
1 AAAGGAACACCTTTATGGCGCAATATGAAAGGAAAGCCTTTGTGGAGAAATACA
* * * * *
6366307 AAAGGAACACCTTTATGGTGCAATATGAAAGTAATGTCTTTGTGGCGAAATACA
1 AAAGGAACACCTTTATGGCGCAATATGAAAGGAAAGCCTTTGTGGAGAAATACA
** * * *
6366361 AAAGGAATGCCTTTGTGGCG-AATCATGAAGGGATAGCCT
1 AAAGGAACACCTTTATGGCGCAAT-ATGAAAGGAAAGCCT
6366400 CTATGGTGAA
Statistics
Matches: 73, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
53 3 0.04
54 70 0.96
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (54 bp):
AAAGGAACACCTTTATGGCGCAATATGAAAGGAAAGCCTTTGTGGAGAAATACA
Found at i:6372606 original size:29 final size:29
Alignment explanation
Indices: 6372564--6372625 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
6372554 ACATGTCCTT
6372564 AGTCTATTCGAAAATGAGCAAACCTACCA
1 AGTCTATTCGAAAATGAGCAAACCTACCA
*
6372593 AGTCTATTCGAAAATGAGCAAACCTATCA
1 AGTCTATTCGAAAATGAGCAAACCTACCA
6372622 AGTC
1 AGTC
6372626 CAATTGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (29 bp):
AGTCTATTCGAAAATGAGCAAACCTACCA
Found at i:6381668 original size:20 final size:20
Alignment explanation
Indices: 6381645--6381686 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6381635 GTGACTATGT
6381645 TGCTTTGATTTGATCAATGA
1 TGCTTTGATTTGATCAATGA
6381665 TGCTTTGATTTGATCAATGA
1 TGCTTTGATTTGATCAATGA
6381685 TG
1 TG
6381687 TTTTAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (20 bp):
TGCTTTGATTTGATCAATGA
Found at i:6393158 original size:7 final size:7
Alignment explanation
Indices: 6393146--6393172 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6393136 TAAAGAAATC
6393146 GAGAATT
1 GAGAATT
6393153 GAGAATT
1 GAGAATT
6393160 GAGAATT
1 GAGAATT
6393167 GAGAAT
1 GAGAAT
6393173 AACAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (7 bp):
GAGAATT
Found at i:6401338 original size:25 final size:25
Alignment explanation
Indices: 6401284--6401338 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
6401274 GGCTAGACTG
**
6401284 AACCGGTCAAGTCGTCATTGACCTG
1 AACCGGTCAAGTCGTCATTGACCCA
* **
6401309 GACCGGTCGGGTCGTCATTGACCCA
1 AACCGGTCAAGTCGTCATTGACCCA
6401334 AACCG
1 AACCG
6401339 AACCAGCAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (25 bp):
AACCGGTCAAGTCGTCATTGACCCA
Found at i:6403824 original size:19 final size:19
Alignment explanation
Indices: 6403800--6403876 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 19
6403790 CTCTCGCTGG
*
6403800 TTCTTTGTTCCTCTACTGC
1 TTCTTTGATCCTCTACTGC
*
6403819 TTCTTTGATCCTCTGCTGGTGC
1 TTCTTTGATCCTCTAC---TGC
*
6403841 TGGTTCTTTGTTCCTCTACTGC
1 ---TTCTTTGATCCTCTACTGC
6403863 TTCTTTGATCCTCT
1 TTCTTTGATCCTCT
6403877 GCTGGTGCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 27 0.57
22 6 0.13
25 14 0.30
ACGTcount: A:0.05, C:0.29, G:0.16, T:0.51
Consensus pattern (19 bp):
TTCTTTGATCCTCTACTGC
Found at i:6403847 original size:25 final size:25
Alignment explanation
Indices: 6403819--6403935 Score: 165
Period size: 25 Copynumber: 4.9 Consensus size: 25
6403809 CCTCTACTGC
*
6403819 TTCTTTGATCCTCTGCTGGTGCTGG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
*
6403844 TTCTTTGTTCCTCTAC---TGC---
1 TTCTTTGTTCCTCTGCTGGTGCTGG
*
6403863 TTCTTTGATCCTCTGCTGGTGCTGG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
6403888 TTCTTTGTTCCTCTGCTGGTGCTGG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
6403913 TTCTTTGTTCCTCTGCTGGTGCT
1 TTCTTTGTTCCTCTGCTGGTGCT
6403936 TTGTTCCTCT
Statistics
Matches: 81, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
19 14 0.17
22 6 0.07
25 61 0.75
ACGTcount: A:0.03, C:0.26, G:0.24, T:0.48
Consensus pattern (25 bp):
TTCTTTGTTCCTCTGCTGGTGCTGG
Found at i:6403851 original size:44 final size:44
Alignment explanation
Indices: 6403795--6403901 Score: 214
Period size: 44 Copynumber: 2.4 Consensus size: 44
6403785 CTCTTCTCTC
6403795 GCTGGTTCTTTGTTCCTCTACTGCTTCTTTGATCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTACTGCTTCTTTGATCCTCTGCTGGT
6403839 GCTGGTTCTTTGTTCCTCTACTGCTTCTTTGATCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTACTGCTTCTTTGATCCTCTGCTGGT
6403883 GCTGGTTCTTTGTTCCTCT
1 GCTGGTTCTTTGTTCCTCT
6403902 GCTGGTGCTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.04, C:0.27, G:0.21, T:0.49
Consensus pattern (44 bp):
GCTGGTTCTTTGTTCCTCTACTGCTTCTTTGATCCTCTGCTGGT
Found at i:6403901 original size:69 final size:69
Alignment explanation
Indices: 6403819--6403952 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 69
6403809 CCTCTACTGC
*
6403819 TTCTTTGATCCTCTGCTGGTGCTGGTTCTTTGTTCCTCTACTGCTTCTTTGATCCTCTGCTGGTG
1 TTCTTTGATCCTCTGCTGGTGCTGGTTCTTTGTTCCTCTACTGCTGCTTTGATCCTCTGCTGGTG
6403884 CTGG
66 CTGG
* * * *
6403888 TTCTTTGTTCCTCTGCTGGTGCTGGTTCTTTGTTCCTCTGCTGGTGCTTTGTTCCTCTGCTGGTG
1 TTCTTTGATCCTCTGCTGGTGCTGGTTCTTTGTTCCTCTACTGCTGCTTTGATCCTCTGCTGGTG
6403953 AGTTTATCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.02, C:0.25, G:0.25, T:0.48
Consensus pattern (69 bp):
TTCTTTGATCCTCTGCTGGTGCTGGTTCTTTGTTCCTCTACTGCTGCTTTGATCCTCTGCTGGTG
CTGG
Found at i:6403952 original size:19 final size:19
Alignment explanation
Indices: 6403907--6403952 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
6403897 CCTCTGCTGG
*
6403907 TGCTGGTTCTTTGTTCCTC
1 TGCTGGTGCTTTGTTCCTC
6403926 TGCTGGTGCTTTGTTCCTC
1 TGCTGGTGCTTTGTTCCTC
6403945 TGCTGGTG
1 TGCTGGTG
6403953 AGTTTATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.00, C:0.24, G:0.28, T:0.48
Consensus pattern (19 bp):
TGCTGGTGCTTTGTTCCTC
Found at i:6411501 original size:13 final size:13
Alignment explanation
Indices: 6411483--6411541 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
6411473 CTCAAAATTT
*
6411483 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
6411496 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* * *
6411509 TCCATAGCACTTT
1 TCAAAAGCACTTC
* *
6411522 TTAAAAGCACTTT
1 TCAAAAGCACTTC
6411535 TCAAAAG
1 TCAAAAG
6411542 TAATGAAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.32
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:6414862 original size:17 final size:16
Alignment explanation
Indices: 6414825--6414855 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6414815 GATTGAATCA
*
6414825 AATTTTATTAATTTTG
1 AATTTTAATAATTTTG
6414841 AATTTTAATAATTTT
1 AATTTTAATAATTTT
6414856 TTAATTTGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
AATTTTAATAATTTTG
Found at i:6422916 original size:23 final size:22
Alignment explanation
Indices: 6422873--6422916 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
6422863 TTCTAAATTG
6422873 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
6422896 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
6422917 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:6423011 original size:45 final size:45
Alignment explanation
Indices: 6422961--6423049 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
6422951 AAACGATACT
* *
6422961 CGGTGGATTCAGCACATAACAACCACCTTATTAATAAATGATGTC
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATAAATGATGTC
*
6423006 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATAAATGATGT
6423050 TTGGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAACAACCACCTTACTAATAAATGATGTC
Found at i:6423124 original size:51 final size:48
Alignment explanation
Indices: 6423061--6423246 Score: 157
Period size: 51 Copynumber: 3.7 Consensus size: 48
6423051 TGGTTCACAT
*
6423061 AGTAGC-CTGCACATAGTACTACACATGTGACCATTACCATTCGATACA
1 AGTAGCACTGCACATAGTACTACACACGTGACCA-TACCATTCGATACA
* * *
6423109 AGTAGCATTCTGCACATAGTACTACACACGTGATCGAAACTA-TCTGATACGCA
1 AGTAGCA--CTGCACATAGTACTACACACGTGA-CCATACCATTC-GATA--CA
* * * *
6423162 TAGTAGC-CTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACA
1 -AGTAGCACTGCACATAGTACTACACACGTGACCATACCATT-CGATACA
6423210 TGTAGTAGC-CTGCACATAGTACTACACACGTGACCAT
1 ---AGTAGCACTGCACATAGTACTACACACGTGACCAT
6423247 CACTTTCACT
Statistics
Matches: 112, Mismatches: 13, Indels: 23
0.76 0.09 0.16
Matches are distributed among these distances:
48 8 0.07
49 2 0.02
50 38 0.34
51 54 0.48
52 2 0.02
53 2 0.02
54 6 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (48 bp):
AGTAGCACTGCACATAGTACTACACACGTGACCATACCATTCGATACA
Found at i:6423266 original size:101 final size:99
Alignment explanation
Indices: 6423057--6423242 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 99
6423047 TGTTTGGTTC
* **
6423057 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACAAGTAGCATTCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATTCGATACAAGTAGCAGCCTGC
*
6423122 ACATAGTACTACACACGTGATCGAAACTATCTGAT
65 ACATAGTACTACACACGTGATCCAAACTATCTGAT
* * * *
6423157 ACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACATGTAGTAGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATT-CGATACAAGTAGCAGCCT
6423221 GCACATAGTACTACACACGTGA
63 GCACATAGTACTACACACGTGA
6423243 CCATCACTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 7 0.09
101 35 0.46
102 34 0.45
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATTCGATACAAGTAGCAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATCTGAT
Found at i:6441300 original size:22 final size:22
Alignment explanation
Indices: 6441238--6441292 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
6441228 AAGGTTTAGC
6441238 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6441260 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6441282 ATGCACTGGTA
1 ATGCACTGGTA
6441293 GCGTTACACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (22 bp):
ATGCACTGGTAACCTTACATGT
Found at i:6443079 original size:19 final size:19
Alignment explanation
Indices: 6443044--6443081 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6443034 ATAATAATAT
*
6443044 TAAAATAACATTTTCAAAC
1 TAAAATAACATTCTCAAAC
6443063 TAAAATAGA-ATTCTCAAAC
1 TAAAATA-ACATTCTCAAAC
6443082 AACTCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (19 bp):
TAAAATAACATTCTCAAAC
Found at i:6451707 original size:22 final size:22
Alignment explanation
Indices: 6451513--6451699 Score: 374
Period size: 22 Copynumber: 8.5 Consensus size: 22
6451503 AAGGTTTAGC
6451513 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6451535 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6451557 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6451579 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6451601 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6451623 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6451645 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6451667 ATGCACTGGTAACCTTACATGT
1 ATGCACTGGTAACCTTACATGT
6451689 ATGCACTGGTA
1 ATGCACTGGTA
6451700 GCGTTACACG
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 165 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (22 bp):
ATGCACTGGTAACCTTACATGT
Found at i:6453486 original size:19 final size:19
Alignment explanation
Indices: 6453451--6453488 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6453441 ATAATAATAT
*
6453451 TAAAATAACATTTTCAAAC
1 TAAAATAACATTCTCAAAC
6453470 TAAAATAGA-ATTCTCAAAC
1 TAAAATA-ACATTCTCAAAC
6453489 AACTCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (19 bp):
TAAAATAACATTCTCAAAC
Found at i:6456356 original size:7 final size:7
Alignment explanation
Indices: 6456344--6456386 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
6456334 TATAAAATAG
6456344 TTTTAAA
1 TTTTAAA
6456351 TTTTAAA
1 TTTTAAA
6456358 TTTTAAA
1 TTTTAAA
6456365 TTTT---
1 TTTTAAA
*
6456369 TTTTAAT
1 TTTTAAA
6456376 TTTTAAA
1 TTTTAAA
6456383 TTTT
1 TTTT
6456387 TTTTAACATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
4 4 0.12
7 28 0.88
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTTAAA
Found at i:6456372 original size:18 final size:18
Alignment explanation
Indices: 6456351--6456392 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
6456341 TAGTTTTAAA
6456351 TTTTAAATTTTAAATTTT
1 TTTTAAATTTTAAATTTT
*
6456369 TTTTAATTTTTAAATTTT
1 TTTTAAATTTTAAATTTT
6456387 TTTTAA
1 TTTTAA
6456393 CATAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTAAATTTTAAATTTT
Found at i:6457099 original size:2 final size:2
Alignment explanation
Indices: 6457092--6457120 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6457082 TCAATTAACT
6457092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6457121 TAGAATATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6462631 original size:13 final size:13
Alignment explanation
Indices: 6462610--6462665 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 13
6462600 AGTTTACATT
*
6462610 GTGTTCCCTGCTC
1 GTGTCCCCTGCTC
6462623 GTGTCCCCTGC-C
1 GTGTCCCCTGCTC
*
6462635 TGTGTCCCCTACTC
1 -GTGTCCCCTGCTC
*
6462649 GTGTCCCCTGCCC
1 GTGTCCCCTGCTC
6462662 GTGT
1 GTGT
6462666 GACTAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 1 0.03
13 35 0.95
14 1 0.03
ACGTcount: A:0.02, C:0.43, G:0.23, T:0.32
Consensus pattern (13 bp):
GTGTCCCCTGCTC
Found at i:6462649 original size:26 final size:26
Alignment explanation
Indices: 6462609--6462665 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
6462599 AAGTTTACAT
* *
6462609 TGTGTTCCCTGCTCGTGTCCCCTGCC
1 TGTGTCCCCTACTCGTGTCCCCTGCC
6462635 TGTGTCCCCTACTCGTGTCCCCTGCC
1 TGTGTCCCCTACTCGTGTCCCCTGCC
*
6462661 CGTGT
1 TGTGT
6462666 GACTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.02, C:0.42, G:0.23, T:0.33
Consensus pattern (26 bp):
TGTGTCCCCTACTCGTGTCCCCTGCC
Found at i:6464181 original size:25 final size:25
Alignment explanation
Indices: 6464117--6464207 Score: 67
Period size: 25 Copynumber: 3.6 Consensus size: 25
6464107 ATGTAAACAT
** * *
6464117 AAGACACAATTTAATTTTTCTAAAAC
1 AAGAC-CAATTTAAAGTGTCTAAACC
*
6464143 ATAGACACAA-TTAAAGTGTCTGAACC
1 A-AGAC-CAATTTAAAGTGTCTAAACC
* ** *
6464169 AAGACTAATTTAATTTGTCTAAACT
1 AAGACCAATTTAAAGTGTCTAAACC
6464194 AAGACCAATTTAAA
1 AAGACCAATTTAAA
6464208 TCACATAATA
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
24 2 0.04
25 28 0.55
26 13 0.25
27 8 0.16
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (25 bp):
AAGACCAATTTAAAGTGTCTAAACC
Found at i:6465923 original size:21 final size:21
Alignment explanation
Indices: 6465879--6465924 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6465869 TATACAGGTG
* * *
6465879 TGTGAAGAAGTCACATTGGCA
1 TGTGAAGAAGTCAAACTAGCA
*
6465900 TGTGAAGAAGTCAAACTAGTA
1 TGTGAAGAAGTCAAACTAGCA
6465921 TGTG
1 TGTG
6465925 TAGTAGCCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (21 bp):
TGTGAAGAAGTCAAACTAGCA
Found at i:6472458 original size:17 final size:17
Alignment explanation
Indices: 6472436--6472469 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6472426 CCAAGGCTTG
6472436 TAAAGAAGCTATTTGGT
1 TAAAGAAGCTATTTGGT
* *
6472453 TAAAGAGGTTATTTGGT
1 TAAAGAAGCTATTTGGT
6472470 GAACTCAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.38
Consensus pattern (17 bp):
TAAAGAAGCTATTTGGT
Found at i:6472940 original size:24 final size:25
Alignment explanation
Indices: 6472888--6472940 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
6472878 TTTAGTATAT
* *
6472888 ATTAGTATAATATATTTAGCATTTG
1 ATTAGCATAATATATTTAACATTTG
6472913 -TTAGCATAATATATTTAACA-TTG
1 ATTAGCATAATATATTTAACATTTG
6472936 ATTAG
1 ATTAG
6472941 AATTAGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (25 bp):
ATTAGCATAATATATTTAACATTTG
Found at i:6473178 original size:27 final size:29
Alignment explanation
Indices: 6473145--6473205 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
6473135 GCCACTTAAT
6473145 ATATAATATAGATTTTACAT-T-TATATA
1 ATATAATATAGATTTTACATATCTATATA
**
6473172 ATATAATATATTTTTTACATATCCTATATA
1 ATATAATATAGATTTTACATAT-CTATATA
6473202 ATAT
1 ATAT
6473206 CTATACTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 18 0.62
28 1 0.03
30 10 0.34
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.49
Consensus pattern (29 bp):
ATATAATATAGATTTTACATATCTATATA
Found at i:6478332 original size:203 final size:203
Alignment explanation
Indices: 6477983--6478385 Score: 725
Period size: 203 Copynumber: 2.0 Consensus size: 203
6477973 TAAGTATATC
*
6477983 AAAAAGTCTAACAAAATAAACCAAAAATCGAAAAACAAGTCCAAAAGTACCAACAGTCTAAAAAG
1 AAAAAGTCTAACAAAATAAACCAAAAACCGAAAAACAAGTCCAAAAGTACCAACAGTCTAAAAAG
*
6478048 TCCATATTAAACAATAAGACTTTTAAAAACCATCTTATTACTGAGAATCCAACTCGAGCTTCCAC
66 TCCATATTAAACAATAAGACTGTTAAAAACCATCTTATTACTGAGAATCCAACTCGAGCTTCCAC
* ** *
6478113 ACACCGTCCGATCCTAAGTTTGCTGATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAGC
131 ACACCGTCCAATCCTAAGTTAACTGATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAAC
6478178 TCAGTAAT
196 TCAGTAAT
*
6478186 AAAAAGTCTAACAAAATAAACCAAAAACCGAAAAACAAGTCCAAAAGTACCAACAGTTTAAAAAG
1 AAAAAGTCTAACAAAATAAACCAAAAACCGAAAAACAAGTCCAAAAGTACCAACAGTCTAAAAAG
* *
6478251 TCCATATTAAACAATAAGACTGTTATAAACCATTTTATTACTGAGAATCCAACTCGAGCTTCCAC
66 TCCATATTAAACAATAAGACTGTTAAAAACCATCTTATTACTGAGAATCCAACTCGAGCTTCCAC
6478316 ACACCGTCCAATCCTAAGTTAACTGATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAAC
131 ACACCGTCCAATCCTAAGTTAACTGATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAAC
6478381 TCAGT
196 TCAGT
6478386 GTGCAACTCT
Statistics
Matches: 191, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
203 191 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (203 bp):
AAAAAGTCTAACAAAATAAACCAAAAACCGAAAAACAAGTCCAAAAGTACCAACAGTCTAAAAAG
TCCATATTAAACAATAAGACTGTTAAAAACCATCTTATTACTGAGAATCCAACTCGAGCTTCCAC
ACACCGTCCAATCCTAAGTTAACTGATTACCTGAGAAGAAAAATAATTAGGTGGGCTTACAAAAC
TCAGTAAT
Found at i:6478955 original size:6 final size:6
Alignment explanation
Indices: 6478944--6478987 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
6478934 GTTATACATA
* *
6478944 CAATAT CAATAT CAATAT CAATAT CAATAT CATTAA CAATAT CA
1 CAATAT CAATAT CAATAT CAATAT CAATAT CAATAT CAATAT CA
6478988 CAGATTTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
CAATAT
Found at i:6481208 original size:217 final size:217
Alignment explanation
Indices: 6480833--6481266 Score: 832
Period size: 217 Copynumber: 2.0 Consensus size: 217
6480823 CCACACAAGG
* *
6480833 GTCTCTCATATAAAGGTGCGCATTGAGTCTTCGTATCATTTAATTTCCTTTCCTGGCTTAGTCAA
1 GTCTCTCATATAAAGGTGCACATTGAGTCTCCGTATCATTTAATTTCCTTTCCTGGCTTAGTCAA
* *
6480898 CCGAACCTCCTTCAAAGCCACATAGATAAAATGCATATGCAATCCCGTATATGGCCATTCGAACC
66 CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATATGCAATCCCGTATATGGCCATCCGAACC
6480963 TTTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
131 TTTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
6481028 ACACAACATATAATATGTCGAT
196 ACACAACATATAATATGTCGAT
6481050 GTCTCTCATATAAAGGTGCACATTGAGTCTCCGTATCATTTAATTTCCTTTCCTGGCTTAGTCAA
1 GTCTCTCATATAAAGGTGCACATTGAGTCTCCGTATCATTTAATTTCCTTTCCTGGCTTAGTCAA
6481115 CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATATGCAATCCCGTATATGGCCATCCGAACC
66 CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATATGCAATCCCGTATATGGCCATCCGAACC
6481180 TTTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
131 TTTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
6481245 ACACAACATATAATATGTCGAT
196 ACACAACATATAATATGTCGAT
6481267 TATACCATTG
Statistics
Matches: 213, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
217 213 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (217 bp):
GTCTCTCATATAAAGGTGCACATTGAGTCTCCGTATCATTTAATTTCCTTTCCTGGCTTAGTCAA
CCGAACCTCCTTCAAAGCCACATAAATAAAATGCATATGCAATCCCGTATATGGCCATCCGAACC
TTTGCAAAGCCACATAAATATCATGCATAACATATACAACAATTCTCCAACAAATACTGTCTATC
ACACAACATATAATATGTCGAT
Found at i:6486222 original size:21 final size:23
Alignment explanation
Indices: 6486198--6486242 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6486188 AAACAAAAAC
*
6486198 AAAAG-TCAGAAAAGAAA-AAGA
1 AAAAGATCAAAAAAGAAAGAAGA
6486219 AAAAGCATCAAAAAAGAAAGAAGA
1 AAAAG-ATCAAAAAAGAAAGAAGA
6486243 TAAGGGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (23 bp):
AAAAGATCAAAAAAGAAAGAAGA
Found at i:6486579 original size:18 final size:19
Alignment explanation
Indices: 6486538--6486579 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
6486528 TAACTGTGAA
*
6486538 GAAAAAAAAGAAATAAAAT
1 GAAAAAAAAGAAATAAAAG
* *
6486557 TAAAAATAA-AAATAAAAG
1 GAAAAAAAAGAAATAAAAG
6486575 GAAAA
1 GAAAA
6486580 TATGTGAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (19 bp):
GAAAAAAAAGAAATAAAAG
Found at i:6494137 original size:88 final size:91
Alignment explanation
Indices: 6493944--6494143 Score: 221
Period size: 93 Copynumber: 2.2 Consensus size: 91
6493934 ATATTGCAGG
** * * **
6493944 TTAAACTGGCAGATCAGATAATATTACGCAGCAAAGCTGAAGTATATTTAGTACAGTGGATTGCG
1 TTAAACTACCAGATCAGATAATAATACGCAACAAAGCTGAAGTATATGCAGTACAGT-GATT-CG
6494009 GTAAACTGCTGTACAAATAAGTTGTAGT
64 GTAAACTGCTGTACAAATAAGTTGTAGT
6494037 TTAAACTACCAGATCAGATAATAATACGCAACAAAGCTGACA-TATATGCAGTACAGT-A-T-GG
1 TTAAACTACCAGATCAGATAATAATACGCAACAAAGCTGA-AGTATATGCAGTACAGTGATTCGG
* * * * *
6494098 TAAACTGTTGTAC-CATTATTTTTCAGT
65 TAAACTGCTGTACAAATAAGTTGT-AGT
*
6494125 TTAAACTTCCAGATCAGAT
1 TTAAACTACCAGATCAGAT
6494144 CAGATCAGAT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
87 6 0.06
88 35 0.38
90 1 0.01
91 1 0.01
93 49 0.53
94 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (91 bp):
TTAAACTACCAGATCAGATAATAATACGCAACAAAGCTGAAGTATATGCAGTACAGTGATTCGGT
AAACTGCTGTACAAATAAGTTGTAGT
Found at i:6494169 original size:5 final size:5
Alignment explanation
Indices: 6494134--6494168 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
6494124 TTTAAACTTC
*
6494134 CAGAT CAGAT CAGAT CAGAT CAGAT CAGAT TAGAT
1 CAGAT CAGAT CAGAT CAGAT CAGAT CAGAT CAGAT
6494169 TCAGTTTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (5 bp):
CAGAT
Found at i:6496197 original size:22 final size:21
Alignment explanation
Indices: 6496172--6496214 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
6496162 TACAATCCAA
*
6496172 AACCGAATAATAGTAATAAAAT
1 AACCGAAAAATA-TAATAAAAT
* *
6496194 AACCTAAAAATATAATTAAAT
1 AACCGAAAAATATAATAAAAT
6496215 TAAAATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (21 bp):
AACCGAAAAATATAATAAAAT
Found at i:6506542 original size:22 final size:21
Alignment explanation
Indices: 6506517--6506557 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6506507 CTGTTAGTTC
*
6506517 TAAAATCATTTTTAGAGACTTG
1 TAAAATCATATTTAG-GACTTG
*
6506539 TAAACTCATATTTAGGACT
1 TAAAATCATATTTAGGACT
6506558 GTATGCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (21 bp):
TAAAATCATATTTAGGACTTG
Found at i:6514499 original size:2 final size:2
Alignment explanation
Indices: 6514492--6514520 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6514482 CAACTTTATT
6514492 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6514521 CACCTTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6517654 original size:17 final size:18
Alignment explanation
Indices: 6517629--6517662 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6517619 TTCTTTTCTT
6517629 TTTAGTTTTACTTTTATC
1 TTTAGTTTTACTTTTATC
*
6517647 TTTA-TTTTATTTTTAT
1 TTTAGTTTTACTTTTAT
6517663 TTTTTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTAGTTTTACTTTTATC
Found at i:6522489 original size:29 final size:29
Alignment explanation
Indices: 6522456--6522519 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
6522446 AAATAATTTG
* *
6522456 ATCTTTATCCAACCAATTTCAAATCTTCA
1 ATCTTTATCCAACCAACTTCAAATATTCA
**
6522485 ATCTTTATCCAGTCAACTTCAAATATTCA
1 ATCTTTATCCAACCAACTTCAAATATTCA
6522514 ATCTTT
1 ATCTTT
6522520 CAATCTACCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.41
Consensus pattern (29 bp):
ATCTTTATCCAACCAACTTCAAATATTCA
Found at i:6523346 original size:14 final size:14
Alignment explanation
Indices: 6523311--6523339 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6523301 ATAACAAAAT
6523311 GAGTAAATGCTAGG
1 GAGTAAATGCTAGG
6523325 GAGTAAATGCTAGG
1 GAGTAAATGCTAGG
6523339 G
1 G
6523340 GCTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.38, T:0.21
Consensus pattern (14 bp):
GAGTAAATGCTAGG
Found at i:6523473 original size:20 final size:19
Alignment explanation
Indices: 6523421--6523485 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
6523411 TAAAACAATG
6523421 TTAATTCACTTAAAATTATTT
1 TTAATT-AC-TAAAATTATTT
* *
6523442 TTTACTACTAAAAATTATTT
1 TTAATTACT-AAAATTATTT
6523462 TTCAATTA-TAAAA-TATTT
1 TT-AATTACTAAAATTATTT
6523480 TTAATT
1 TTAATT
6523486 TGTTTGTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.11
18 7 0.18
19 5 0.13
20 15 0.39
21 7 0.18
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATTACTAAAATTATTT
Found at i:6532079 original size:30 final size:30
Alignment explanation
Indices: 6532038--6532102 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
6532028 CAATTGGCCT
* * *
6532038 ACTTTTGAAGGTTCGGGGCTAAGACACGAA
1 ACTTGTGAAGGTTCAGGGATAAGACACGAA
6532068 ACTTGTGAAGGTTCAGGGATAAGACACGAA
1 ACTTGTGAAGGTTCAGGGATAAGACACGAA
*
6532098 TCTTG
1 ACTTG
6532103 GGCCAAACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (30 bp):
ACTTGTGAAGGTTCAGGGATAAGACACGAA
Found at i:6533327 original size:18 final size:19
Alignment explanation
Indices: 6533304--6533339 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6533294 TTTAAGTTCT
6533304 AAAT-AAAAATTTGACATA
1 AAATAAAAAATTTGACATA
6533322 AAATAAAAAATTTGACAT
1 AAATAAAAAATTTGACAT
6533340 TCATTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATAAAAAATTTGACATA
Found at i:6535656 original size:32 final size:32
Alignment explanation
Indices: 6535620--6535690 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
6535610 TGTTCTAATT
**
6535620 TTTTTTACATAATTAAATAATTTTATTTTTTA
1 TTTTTTACATAATTAAATAATTTTATTTTAAA
** *
6535652 TTTTTTAGTTAATTAAATATTTTTATTTTAAA
1 TTTTTTACATAATTAAATAATTTTATTTTAAA
6535684 TTTTTTA
1 TTTTTTA
6535691 TTTACCTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (32 bp):
TTTTTTACATAATTAAATAATTTTATTTTAAA
Found at i:6535694 original size:13 final size:15
Alignment explanation
Indices: 6535632--6535693 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 15
6535622 TTTTACATAA
*
6535632 TTAAATAATTTTATT
1 TTAAATATTTTTATT
**
6535647 TTTTAT-TTTTTAGTT
1 TTAAATATTTTTA-TT
6535662 AATTAAATATTTTTATT
1 --TTAAATATTTTTATT
6535679 TTAAAT-TTTTTATT
1 TTAAATATTTTTATT
6535693 T
1 T
6535694 ACCTTGTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
14 14 0.37
15 12 0.32
17 6 0.16
18 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTAAATATTTTTATT
Found at i:6559835 original size:122 final size:121
Alignment explanation
Indices: 6559605--6559828 Score: 263
Period size: 122 Copynumber: 1.8 Consensus size: 121
6559595 CCGATATCCT
* * * * ** *
6559605 CAGAGTTCTACCGTTACCTTGAAGACTTCTACCGCAACAAGTCAAAACAATAGCCAAGGTTCATC
1 CAGAGTTCTACCGATACCTTGAAGACTTCTACCGAAACAAGTCAAAACAACAACCAAAATTCAGC
* *
6559670 CTTTCCTGCATTTCTATTAAAACTCTGATGGCTTCTACTGATACGAGTTGAAACCAC
66 CTTT-CTGCACTTCTACTAAAACTCTGATGGCTTCTACTGATACGAGTTGAAACCAC
* * *
6559727 CAGAGTTCTATCGATACCTTGAGGACTTCTACCGAAACAAGTCAAGACAACAACCAAAATTCAGC
1 CAGAGTTCTACCGATACCTTGAAGACTTCTACCGAAACAAGTCAAAACAACAACCAAAATTCAGC
* * *
6559792 ATCTTT-TGCACTTGTACTGATACTCTGATTGG-TTCTA
66 --CTTTCTGCACTTCTACTAAAACTCTGA-TGGCTTCTA
6559829 TCGATACCAA
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
122 77 0.92
123 3 0.04
124 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (121 bp):
CAGAGTTCTACCGATACCTTGAAGACTTCTACCGAAACAAGTCAAAACAACAACCAAAATTCAGC
CTTTCTGCACTTCTACTAAAACTCTGATGGCTTCTACTGATACGAGTTGAAACCAC
Found at i:6561948 original size:27 final size:28
Alignment explanation
Indices: 6561914--6561985 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
6561904 CTAGTTTTGG
* *
6561914 GGATTTCTTGATGCTTTTCTTATTTT-T
1 GGATTTCTTGAAGCTTTTCCTATTTTAT
*
6561941 GGATTTCTTGAAACTTTTCCTATTTTAT
1 GGATTTCTTGAAGCTTTTCCTATTTTAT
**
6561969 GTTTTTCTTGAAGCTTT
1 GGATTTCTTGAAGCTTT
6561986 CTCTATTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.15, C:0.12, G:0.14, T:0.58
Consensus pattern (28 bp):
GGATTTCTTGAAGCTTTTCCTATTTTAT
Found at i:6561991 original size:28 final size:26
Alignment explanation
Indices: 6561914--6562013 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 26
6561904 CTAGTTTTGG
*
6561914 GGATTTCTTGATGCTTTTCTTATTTTT
1 GGATTTCTTGAAGCTTTTC-TATTTTT
*
6561941 GGATTTCTTGAAACTTTTCCTATTTTAT
1 GGATTTCTTGAAGCTTTT-CTATTTT-T
**
6561969 GTTTTTCTTGAAGCTTTCTCTATTGTTT
1 GGATTTCTTGAAGCTTT-TCTATT-TTT
*
6561997 AGG-TATCTTGAAG-TTTT
1 -GGATTTCTTGAAGCTTTT
6562014 ATCAACAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.02
27 25 0.41
28 31 0.51
29 4 0.07
ACGTcount: A:0.16, C:0.12, G:0.15, T:0.57
Consensus pattern (26 bp):
GGATTTCTTGAAGCTTTTCTATTTTT
Found at i:6562236 original size:36 final size:35
Alignment explanation
Indices: 6562196--6562274 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 35
6562186 CATATTTTGT
* *
6562196 ACCTCAAATTCTATAGTC-CAGATTCCATATCCACA
1 ACCTCAAATTCTATAGTCAC-GACTCCATAGCCACA
* *
6562231 CACCTCAGATTCTGTAGTCACGACTCCATAGCCACA
1 -ACCTCAAATTCTATAGTCACGACTCCATAGCCACA
*
6562267 AGCTCAAA
1 ACCTCAAA
6562275 CTCTGTTGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 6 0.17
36 29 0.81
37 1 0.03
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.24
Consensus pattern (35 bp):
ACCTCAAATTCTATAGTCACGACTCCATAGCCACA
Found at i:6566273 original size:1 final size:1
Alignment explanation
Indices: 6566269--6566295 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
6566259 GGTTTTTACC
6566269 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
6566296 CCCCTTTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6572891 original size:20 final size:21
Alignment explanation
Indices: 6572863--6572901 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6572853 CAAAACGAGC
*
6572863 AAACAAGCT-CATTGAGCTGG
1 AAACAAGCTGAATTGAGCTGG
*
6572883 AAACGAGCTGAATTGAGCT
1 AAACAAGCTGAATTGAGCT
6572902 CAACGAGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (21 bp):
AAACAAGCTGAATTGAGCTGG
Found at i:6576914 original size:25 final size:25
Alignment explanation
Indices: 6576877--6576926 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6576867 TTGTAAATAA
6576877 GAAAAATATCTTTAGA-AATTTTCT
1 GAAAAATATCTTTAGAGAATTTTCT
*
6576901 GAAATAATTTCTTTAGAGAATTTTCT
1 GAAA-AATATCTTTAGAGAATTTTCT
6576927 CTCTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTCT
Found at i:6582271 original size:20 final size:20
Alignment explanation
Indices: 6582237--6582276 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6582227 CATGATAATG
*
6582237 TCAATGCAAAGTTTTTAGAA
1 TCAATGCAAAGTTTTCAGAA
6582257 TCAATGCAGAA-TTTTCAGAA
1 TCAATGCA-AAGTTTTCAGAA
6582277 AACGTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
TCAATGCAAAGTTTTCAGAA
Found at i:6600095 original size:43 final size:43
Alignment explanation
Indices: 6599908--6600181 Score: 259
Period size: 42 Copynumber: 6.4 Consensus size: 43
6599898 TAACATTTAT
* * *** * *
6599908 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCAC-AACCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCACAC
* * * * *
6599950 AAACGCCGCTAAAGGTCAAGTTCATTAGCGGCG-TTTCCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCACAC
* ** * *
6599992 AAATGCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCACAC
* * * *
6600034 AAATGCCGCTAAATGTCATGTTCTTTAGCGACGCTTTTTACAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCACAC
* * *
6600077 AAACGCCTCTAAAGGTCATGTTCTTTAGCGGTGCTTTTCCCGA-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCAC-AC
* * *
6600120 AAATGCCCCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCACAC
*
6600163 AAACGCCGCTAAATGTCAT
1 AAACGCCGCTAAAGGTCAT
6600182 AACTTTTAGC
Statistics
Matches: 190, Mismatches: 37, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
42 96 0.51
43 93 0.49
44 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCACAC
Found at i:6600190 original size:43 final size:43
Alignment explanation
Indices: 6599908--6600216 Score: 254
Period size: 43 Copynumber: 7.3 Consensus size: 43
6599898 TAACATTTAT
* * ** * *
6599908 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCAC--AACCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCC-CAC
* * * *
6599950 AAACGCCGCTAAAGGTCAAGTTCATTAGCGGCG--TTTCCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCC-CAC
* ** *
6599992 AAATGCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
* * * **
6600034 AAATGCCGCTAAATGTCATGTTCTTTAGCGACGCTTTTTACAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
* *
6600077 AAACGCCTCTAAAGGTCATGTTCTTTAGCGGTGCTTTTCCCGA-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCC-AC
* * *
6600120 AAATGCCCCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
* ** * * *
6600163 AAACGCCGCTAAATGTCAT-AACTTTTAGCGGCACTTTTTCCAA
1 AAACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGCTTTTCCCAC
*
6600206 AAATGCCGCTA
1 AAACGCCGCTA
6600217 TTGTTTGGCG
Statistics
Matches: 219, Mismatches: 42, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
42 94 0.43
43 124 0.57
44 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
Done.