Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 29 of 195
Found at i:6561430 original size:83 final size:83
Alignment explanation
Indices: 6561092--6561430 Score: 479
Period size: 83 Copynumber: 4.1 Consensus size: 83
6561082 TTTTACCAAA
*
6561092 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-GAAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
6561156 ACGACTTTTG-AAAATAAATT
64 ACGAC-TTTGAAAAATAAATT
* * * *
6561176 GCTCTTCTAAACAGAGGCATAATGACTTTTGG-AAAGTAAATTGCTCCTCTAAATAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACAACGAC-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
6561240 CGACTTTGGAAAATAAATT
65 CGACTTTGAAAAATAAATT
* * *
6561259 GCTCCTCTAAACAAAGGCACCACGACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
6561323 GACTTTGAGAAAGTAAATT
66 GACTTTGA-AAAATAAATT
* *
6561342 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
6561407 GACTTTGAAAAATCAATT
66 GACTTTGAAAAATAAATT
*
6561425 ACTCCT
1 GCTCCT
6561431 TGACGATCAT
Statistics
Matches: 229, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
81 1 0.00
82 46 0.20
83 113 0.49
84 65 0.28
85 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAAATAAATT
Found at i:6562473 original size:27 final size:27
Alignment explanation
Indices: 6562443--6562502 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 27
6562433 TGAGTCCTCA
6562443 TTTTTCAATCACTTTTTCA-TTTTTTATTT
1 TTTTTC-ATCA-TTTTTCATTTTTTTA-TT
6562472 TTTTTCATCATTTTTCATTTTTTTATT
1 TTTTTCATCATTTTTCATTTTTTTATT
6562499 TTTT
1 TTTT
6562503 CTCTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 13 0.43
28 11 0.37
29 6 0.20
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTTCATCATTTTTCATTTTTTTATT
Found at i:6562474 original size:28 final size:28
Alignment explanation
Indices: 6562443--6562502 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
6562433 TGAGTCCTCA
6562443 TTTTTCAATCACTTTTTCA-TTTTTTATTT
1 TTTTTC-ATCA-TTTTTCATTTTTTTATTT
6562472 TTTTTCATCATTTTTCATTTTTTTATTT
1 TTTTTCATCATTTTTCATTTTTTTATTT
6562500 TTT
1 TTT
6562503 CTCTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 7 0.23
28 17 0.57
29 6 0.20
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTTCATCATTTTTCATTTTTTTATTT
Found at i:6562513 original size:28 final size:28
Alignment explanation
Indices: 6562450--6562523 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
6562440 TCATTTTTCA
*
6562450 ATCACTTTTTCA-TTTTTTATTTTTTTTC
1 ATCA-TTTTTCATTTTTTTATTTTTTCTC
6562478 ATCATTTTTCATTTTTTTATTTTTTCTC
1 ATCATTTTTCATTTTTTTATTTTTTCTC
* ** *
6562506 TTTTTTTTTTATTTTTTT
1 ATCATTTTTCATTTTTTT
6562524 TAAGCATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (28 bp):
ATCATTTTTCATTTTTTTATTTTTTCTC
Found at i:6565634 original size:12 final size:12
Alignment explanation
Indices: 6565603--6565634 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6565593 TTCTGTTGAA
*
6565603 CTGGCTTACATT
1 CTGGCTTTCATT
6565615 CTGGCTTTCATT
1 CTGGCTTTCATT
6565627 CTGGCTTT
1 CTGGCTTT
6565635 AGGGGCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.25, G:0.19, T:0.47
Consensus pattern (12 bp):
CTGGCTTTCATT
Found at i:6571015 original size:59 final size:57
Alignment explanation
Indices: 6570886--6571177 Score: 363
Period size: 57 Copynumber: 5.0 Consensus size: 57
6570876 TCTTGTGTAG
*
6570886 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTTTAA
** ** *
6570943 GGAAAATTGATACTTTCAACTTTTTTTCAAAAACCCTTTTTTTAAAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAA-TATTTTTTGAAAATTTA-TTTTTAA
* *
6571002 GGAAAATTAATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTTTAA
* * *
6571059 GAAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTGAAAA-TTT-ATTTTTAA
* *
6571118 GAAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATATTTTTTGGAAATTTTGATTTTTA
1 GGAAAATTGATACTTTCAACTTTTTCCC--AAAA-ATATTTTTT-GAAAATTT-ATTTTTA
6571178 TTTAAAGAAA
Statistics
Matches: 205, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
56 7 0.03
57 71 0.35
58 30 0.15
59 71 0.35
60 4 0.02
61 19 0.09
62 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTTTAA
Found at i:6571091 original size:116 final size:115
Alignment explanation
Indices: 6570886--6571177 Score: 392
Period size: 116 Copynumber: 2.5 Consensus size: 115
6570876 TCTTGTGTAG
* * *
6570886 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTTTAAGAAAAATT
** * *
6570951 GATACTTTCAACTTTTTTTCAAAAACCCTTTTTTTAAAA-TTTATTTTTTAA
66 GATACTTTCAACTTTTCCTCAAAAA-CATTTTTTTAAAATTTTA-TTTTCAA
*
6571002 GGAAAATTAATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTTTAAGAAAAATT
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTTTAAGAAAAATT
*
6571067 GATACTTTCAACTTTTCC-CTAAAAATATTTTTTTAAAATTTTGATTTTCAA
66 GATACTTTCAACTTTTCCTC-AAAAACATTTTTTTAAAATTTT-ATTTTCAA
*
6571118 GAAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATATTTTTTGGAAATTTTGATTTTTA
1 GGAAAATTGATACTTTCAACTTTTTCCC--AAAA-ATATTTTTTGGAAA-TTT-ATTTTTA
6571178 TTTAAAGAAA
Statistics
Matches: 157, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
115 19 0.12
116 109 0.69
117 5 0.03
118 14 0.09
119 3 0.02
120 7 0.04
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTTTAAGAAAAATT
GATACTTTCAACTTTTCCTCAAAAACATTTTTTTAAAATTTTATTTTCAA
Found at i:6571209 original size:8 final size:8
Alignment explanation
Indices: 6571196--6571250 Score: 67
Period size: 8 Copynumber: 6.5 Consensus size: 8
6571186 AAATCGAATA
6571196 AAAAAAAT
1 AAAAAAAT
6571204 AAAAAAAT
1 AAAAAAAT
6571212 AAAAAAAT
1 AAAAAAAT
6571220 AAAGAAAAGT
1 AAA-AAAA-T
6571230 AAAACAAA-
1 AAAA-AAAT
6571238 AATAAAAAT
1 AA-AAAAAT
6571247 AAAA
1 AAAA
6571251 TAAAGATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
8 26 0.62
9 9 0.21
10 7 0.17
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:6571209 original size:11 final size:11
Alignment explanation
Indices: 6571195--6571254 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
6571185 AAAATCGAAT
6571195 AAAAAAAATAA
1 AAAAAAAATAA
*
6571206 AAAAATAAAAAA
1 AAAAA-AAATAA
6571218 ATAAAGAAAAGTAA
1 A-AAA-AAAA-TAA
*
6571232 AACAAAAATAA
1 AAAAAAAATAA
*
6571243 AAATAAAATAA
1 AAAAAAAATAA
6571254 A
1 A
6571255 GATAAAAAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 18 0.45
12 10 0.25
13 8 0.20
14 4 0.10
ACGTcount: A:0.83, C:0.02, G:0.03, T:0.12
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:6571214 original size:17 final size:18
Alignment explanation
Indices: 6571192--6571267 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 18
6571182 AAGAAAATCG
6571192 AATAAAA-AAAATAAAAA
1 AATAAAACAAAATAAAAA
6571209 AAT-AAA-AAAATAAAGAA
1 AATAAAACAAAATAAA-AA
*
6571226 AAGTAAAACAAAA-ATAAA
1 AA-TAAAACAAAATAAAAA
*
6571244 AATAAAATAAAGATAAAAA
1 AATAAAACAAA-ATAAAAA
6571263 GAATA
1 -AATA
6571268 TTAAATAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
16 11 0.22
17 15 0.31
18 6 0.12
19 9 0.18
20 8 0.16
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.13
Consensus pattern (18 bp):
AATAAAACAAAATAAAAA
Found at i:6571215 original size:6 final size:6
Alignment explanation
Indices: 6571192--6571262 Score: 53
Period size: 6 Copynumber: 12.3 Consensus size: 6
6571182 AAGAAAATCG
* * *
6571192 AATAAA AA-AAA TAA-AAA AATAAA AA-AATA AAGAAA AGT-AA AACAAA
1 AATAAA AATAAA -AATAAA AATAAA AATAA-A AATAAA AATAAA AATAAA
*
6571238 AATAAA AAT-AA AATAAA GATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
6571263 GAATATTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
5 15 0.29
6 35 0.67
7 2 0.04
ACGTcount: A:0.82, C:0.01, G:0.04, T:0.13
Consensus pattern (6 bp):
AATAAA
Found at i:6571688 original size:20 final size:20
Alignment explanation
Indices: 6571650--6571688 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6571640 GATTGAAGAT
* *
6571650 TCACCGGATTTTGGATTTTG
1 TCACCGGAATCTGGATTTTG
*
6571670 TCACCGGAATCTGGGTTTT
1 TCACCGGAATCTGGATTTT
6571689 TTCGTCGGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (20 bp):
TCACCGGAATCTGGATTTTG
Found at i:6571726 original size:11 final size:11
Alignment explanation
Indices: 6571693--6571729 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
6571683 GGTTTTTTCG
6571693 TCGGAAGTTCA
1 TCGGAAGTTCA
*
6571704 CCGGAAGTTCA
1 TCGGAAGTTCA
*
6571715 TCGGAAGATCA
1 TCGGAAGTTCA
6571726 TCGG
1 TCGG
6571730 TTTCTGGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (11 bp):
TCGGAAGTTCA
Found at i:6572308 original size:24 final size:24
Alignment explanation
Indices: 6572274--6572339 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
6572264 TATATTACAA
6572274 AAAAATAATAATAAATAAAT-TAT
1 AAAAATAATAATAAATAAATATAT
* *
6572297 AATAAATAATAAATATATAACTATAT
1 AA-AAATAAT-AATAAATAAATATAT
6572323 AAAAATACAT-ATAAATA
1 AAAAATA-ATAATAAATA
6572340 TTAACAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.06
24 13 0.36
25 14 0.39
26 7 0.19
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAAATAATAATAAATAAATATAT
Found at i:6572402 original size:24 final size:25
Alignment explanation
Indices: 6572370--6572419 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
6572360 AAATATACAT
* *
6572370 ATAATAATA-AATAATAATAAAATAC
1 ATAATAATACAA-AAAAAAAAAATAC
6572395 ATAA-AATACAAAAAAAAAAAATAC
1 ATAATAATACAAAAAAAAAAAATAC
6572419 A
1 A
6572420 AAGTAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (25 bp):
ATAATAATACAAAAAAAAAAAATAC
Found at i:6585127 original size:16 final size:15
Alignment explanation
Indices: 6585087--6585128 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6585077 AGTGTAATGA
*
6585087 AAAAATTAT-TATTT
1 AAAAATTATAAATTT
6585101 AAAAATTATAAATTT
1 AAAAATTATAAATTT
*
6585116 TAAAATTAATAAA
1 AAAAATT-ATAAA
6585129 AAGAAGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 9 0.38
15 10 0.42
16 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAATTATAAATTT
Found at i:6585543 original size:18 final size:17
Alignment explanation
Indices: 6585510--6585543 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6585500 TTTTTATTAA
6585510 TTTTAAAATTTATAATT
1 TTTTAAAATTTATAATT
*
6585527 TTTTAATAATTTTTAAT
1 TTTTAA-AATTTATAAT
6585544 ACATTAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATTTATAATT
Found at i:6603458 original size:24 final size:24
Alignment explanation
Indices: 6603431--6603480 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
6603421 AACCAATCAT
6603431 GAATTTCTTGACATGACATGACAA
1 GAATTTCTTGACATGACATGACAA
6603455 GAATTTCTTGACATGACATGACAA
1 GAATTTCTTGACATGACATGACAA
6603479 GA
1 GA
6603481 CAAGCATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (24 bp):
GAATTTCTTGACATGACATGACAA
Found at i:6606030 original size:21 final size:21
Alignment explanation
Indices: 6606004--6606046 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6605994 TCATGCTCTA
6606004 CAGTTTTGCCCTCTTTTGTGT
1 CAGTTTTGCCCTCTTTTGTGT
*
6606025 CAGTTTTGCGCTCTTTTGTGT
1 CAGTTTTGCCCTCTTTTGTGT
6606046 C
1 C
6606047 CTTGGATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.23, G:0.21, T:0.51
Consensus pattern (21 bp):
CAGTTTTGCCCTCTTTTGTGT
Found at i:6606717 original size:15 final size:15
Alignment explanation
Indices: 6606697--6606729 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6606687 AAAATAGTTG
6606697 ATCCATAAACTTGGC
1 ATCCATAAACTTGGC
6606712 ATCCATAAACTTGGC
1 ATCCATAAACTTGGC
6606727 ATC
1 ATC
6606730 AATGTGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (15 bp):
ATCCATAAACTTGGC
Found at i:6607540 original size:135 final size:136
Alignment explanation
Indices: 6607297--6607566 Score: 375
Period size: 135 Copynumber: 2.0 Consensus size: 136
6607287 CTTATTTGCT
* *
6607297 TTTGTAAATATGCTAGAAAAAATATCAAATAAGGTGTTTGTTCAAAAGAAACGCCTAATTTGAAT
1 TTTGTAAATATGCTAGAAAAAACATCAAATAAGGTGTTTGTTCAAAAAAAACGCCTAATTTGAAT
* **
6607362 TTGTCAACATTTTGGAAGATTGTCTATCAAATAAGGTGTTTGTAAAAAGGAAACGCCTTATATGA
66 TTGTCAAAATTTTGGAAGATCATCTATCAAATAAGGTGTTTGTAAAAAGGAAACGCCTTATATGA
6607427 ATGGGC
131 ATGGGC
* * * * **
6607433 TTTGTAAATATG-TTGAAAAAAACATCAAATAAGGTGTTTGTT-AAAAAAAATGTCTTATTTGCT
1 TTTGTAAATATGCTAG-AAAAAACATCAAATAAGGTGTTTGTTCAAAAAAAACGCCTAATTTGAA
* * *
6607496 TTTGT-AAAATTTCTGGAAGATCATCTATCAAATAAGTTGTTTGTAAAAAGGAAATGCCTTATTT
65 TTTGTCAAAATTT-TGGAAGATCATCTATCAAATAAGGTGTTTGTAAAAAGGAAACGCCTTATAT
6607560 GAATGGG
129 GAATGGG
6607567 TCAGATAAGG
Statistics
Matches: 118, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
134 6 0.05
135 75 0.64
136 37 0.31
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (136 bp):
TTTGTAAATATGCTAGAAAAAACATCAAATAAGGTGTTTGTTCAAAAAAAACGCCTAATTTGAAT
TTGTCAAAATTTTGGAAGATCATCTATCAAATAAGGTGTTTGTAAAAAGGAAACGCCTTATATGA
ATGGGC
Found at i:6607654 original size:110 final size:110
Alignment explanation
Indices: 6607486--6607736 Score: 353
Period size: 110 Copynumber: 2.3 Consensus size: 110
6607476 AAAAAAATGT
* **
6607486 CTTATTTGCTTTTGTAAA-ATTTCTGGAAGATCATCTATCAAATAAGTTGTTTGTAAAAAGGAAA
1 CTTATTTGCTTTTGTAAAGA-TTCTAGAAGATCATCTATCAAATAAGGCGTTTGTAAAAAGGAAA
* * **
6607550 TGCCTTATTTGAATGGGTCAGATAAGGCGTTTGA-TCAAAGAAACCC
65 TGCCTTATTTGAATGGGTCAAACAAGAAGTTT-ATTCAAAGAAACCC
*
6607596 CTTATTTGCTTTTGTAAAGATTCTAGAAGATCATCTATCAACTAAGGCGTTTGTAAAAAGGAAAT
1 CTTATTTGCTTTTGTAAAGATTCTAGAAGATCATCTATCAAATAAGGCGTTTGTAAAAAGGAAAT
*
6607661 GCCTTATTTGAATGGGTCAAACAAGAAGTTTATTCAAAGAAACGC
66 GCCTTATTTGAATGGGTCAAACAAGAAGTTTATTCAAAGAAACCC
*
6607706 CTTATTTGATGCTTTTTTAAAGATTCTAGAA
1 CTTA-TT--TGCTTTTGTAAAGATTCTAGAA
6607737 AAAGCGTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
109 1 0.01
110 101 0.80
111 3 0.02
113 21 0.17
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (110 bp):
CTTATTTGCTTTTGTAAAGATTCTAGAAGATCATCTATCAAATAAGGCGTTTGTAAAAAGGAAAT
GCCTTATTTGAATGGGTCAAACAAGAAGTTTATTCAAAGAAACCC
Found at i:6613162 original size:21 final size:22
Alignment explanation
Indices: 6613129--6613169 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6613119 CTTCTATTGT
6613129 TTGTGATGAAGCTTC-AAAAGC
1 TTGTGATGAAGCTTCTAAAAGC
**
6613150 TTGTGATTTAGCTTCTAAAA
1 TTGTGATGAAGCTTCTAAAA
6613170 TGGCTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (22 bp):
TTGTGATGAAGCTTCTAAAAGC
Found at i:6617106 original size:33 final size:33
Alignment explanation
Indices: 6617062--6617127 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
6617052 CTTGTTGGCT
* * *
6617062 TTCCTTTTGAAATGTGACAAACATCTTATTAAA
1 TTCCTTCTGAAAGGTGACAAACATCTCATTAAA
* *
6617095 TTCCTTCTGAAAGGTGATAGACATCTCATTAAA
1 TTCCTTCTGAAAGGTGACAAACATCTCATTAAA
6617128 ATAAAAACCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
TTCCTTCTGAAAGGTGACAAACATCTCATTAAA
Found at i:6618007 original size:93 final size:93
Alignment explanation
Indices: 6617844--6618024 Score: 254
Period size: 93 Copynumber: 1.9 Consensus size: 93
6617834 TTGCAACCAA
* *
6617844 AGTTAGAGGGTCACAAGCTTTCATTCTAGGTCTAATATCATCTTTTAATCCACTCACAAAGCTAA
1 AGTTAGAAGGTCACAAGCTTTCATTCTAGGTCTAATATCATATTTTAATCCACTCACAAAGCTAA
6617909 AAATAAAATAAGCTTCATCTAAACAAGG
66 AAATAAAATAAGCTTCATCTAAACAAGG
* * * ** * **
6617937 AGTTAGAAGGTTACAAGCTTTCATTCTAGGTTTATTATCATATTTTAATTTACTTACAAAGCTGG
1 AGTTAGAAGGTCACAAGCTTTCATTCTAGGTCTAATATCATATTTTAATCCACTCACAAAGCTAA
* *
6618002 CAATAAAATAAGCTTTATCTAAA
66 AAATAAAATAAGCTTCATCTAAA
6618025 TAAAGATTGT
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (93 bp):
AGTTAGAAGGTCACAAGCTTTCATTCTAGGTCTAATATCATATTTTAATCCACTCACAAAGCTAA
AAATAAAATAAGCTTCATCTAAACAAGG
Found at i:6628509 original size:21 final size:21
Alignment explanation
Indices: 6628477--6628523 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
6628467 TGGCACAGTT
*
6628477 GAAAAATAGAAAGA-TAGAAAG
1 GAAAAATAGAAAAAGT-GAAAG
6628498 GAAAAGAT-GAAAAAGTGAAAG
1 GAAAA-ATAGAAAAAGTGAAAG
6628519 GAAAA
1 GAAAA
6628524 TGGATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (21 bp):
GAAAAATAGAAAAAGTGAAAG
Found at i:6632804 original size:9 final size:9
Alignment explanation
Indices: 6632790--6632829 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
6632780 CTCAACTTGC
6632790 TTTTTTTCT
1 TTTTTTTCT
6632799 TTTTTTT-T
1 TTTTTTTCT
*
6632807 TTTTTTTGT
1 TTTTTTTCT
6632816 TTTTTTATCT
1 TTTTTT-TCT
6632826 TTTT
1 TTTT
6632830 AAAAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.29
9 14 0.50
10 6 0.21
ACGTcount: A:0.03, C:0.05, G:0.03, T:0.90
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:6633643 original size:23 final size:23
Alignment explanation
Indices: 6633617--6633674 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
6633607 TGATGAGTTT
6633617 TTTCTCCTTTTTTAATTTTTTAC
1 TTTCTCCTTTTTTAATTTTTTAC
* *
6633640 TTTC-ACTTTTTTAATTTTTTTC
1 TTTCTCCTTTTTTAATTTTTTAC
6633662 TTT-TCCATTTTTT
1 TTTCTCC-TTTTTT
6633675 CTCTTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTCTCCTTTTTTAATTTTTTAC
Found at i:6637486 original size:8 final size:8
Alignment explanation
Indices: 6637473--6637578 Score: 50
Period size: 8 Copynumber: 12.4 Consensus size: 8
6637463 AAGAAAATTT
6637473 TTTAAAAA
1 TTTAAAAA
*
6637481 TTTAAAAT
1 TTTAAAAA
6637489 TTTAAAAAAA
1 TTT--AAAAA
*
6637499 TTTAAAAT
1 TTTAAAAA
* *
6637507 TTTGAATAT
1 TTT-AAAAA
6637516 TTTAAAAAAA
1 TTT--AAAAA
* *
6637526 CTAAAAAA
1 TTTAAAAA
**
6637534 TAAAAAAA
1 TTTAAAAA
6637542 TTTTAAAAA
1 -TTTAAAAA
* *
6637551 CTTAAAAT
1 TTTAAAAA
6637559 TTTAAAAGA
1 TTTAAAA-A
*
6637568 ATTAAAAA
1 TTTAAAAA
6637576 TTT
1 TTT
6637579 TAATAATAAA
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
8 43 0.59
9 19 0.26
10 11 0.15
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (8 bp):
TTTAAAAA
Found at i:6637489 original size:18 final size:18
Alignment explanation
Indices: 6637466--6637509 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6637456 GTATTAAAAG
**
6637466 AAAATTTTTTAAAAATTT
1 AAAATTTTAAAAAAATTT
6637484 AAAATTTTAAAAAAATTT
1 AAAATTTTAAAAAAATTT
6637502 AAAATTTT
1 AAAATTTT
6637510 GAATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTTTAAAAAAATTT
Found at i:6637538 original size:43 final size:43
Alignment explanation
Indices: 6637491--6637575 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
6637481 TTTAAAATTT
** *
6637491 TAAAAAAA-TTTAAAATTTTGAATATTTTAAAAAAACTAAAAAA
1 TAAAAAAATTTTAAAAACTT-AAAATTTTAAAAAAACTAAAAAA
* *
6637534 TAAAAAAATTTTAAAAACTTAAAATTTTAAAAGAATTAAAAA
1 TAAAAAAATTTTAAAAACTTAAAATTTTAAAAAAACTAAAAA
6637576 TTTTAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 27 0.75
44 9 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (43 bp):
TAAAAAAATTTTAAAAACTTAAAATTTTAAAAAAACTAAAAAA
Found at i:6637753 original size:23 final size:23
Alignment explanation
Indices: 6637724--6637775 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
6637714 TAGTAAAATT
* *
6637724 TTTTTTAATTATGAAAATTTTCA
1 TTTTTTAAATATGAAAATTTTAA
* *
6637747 TTTTTTAAATATTACAATTTTAA
1 TTTTTTAAATATGAAAATTTTAA
6637770 TTTTTT
1 TTTTTT
6637776 GGAATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTTTAAATATGAAAATTTTAA
Found at i:6637783 original size:10 final size:10
Alignment explanation
Indices: 6637768--6637841 Score: 55
Period size: 10 Copynumber: 7.6 Consensus size: 10
6637758 TTACAATTTT
*
6637768 AATTTTTTGG
1 AATTTTTTAG
6637778 AATTTTTTAG
1 AATTTTTTAG
* *
6637788 AA-TTTTGAA
1 AATTTTTTAG
6637797 AATTTTTT--
1 AATTTTTTAG
*
6637805 AAGTTTTTAG
1 AATTTTTTAG
*
6637815 AATTTTTTGAA
1 AATTTTTT-AG
**
6637826 AATTTTAAAG
1 AATTTTTTAG
6637836 AATTTT
1 AATTTT
6637842 CTAAATAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 7 0.14
9 7 0.14
10 29 0.58
11 7 0.14
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:6637800 original size:19 final size:18
Alignment explanation
Indices: 6637778--6637847 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
6637768 AATTTTTTGG
*
6637778 AATTTTTTAGAATTTTGAA
1 AATTTTTTA-AATTTTAAA
* * *
6637797 AATTTTTTAAGTTTTTAG
1 AATTTTTTAAATTTTAAA
6637815 AATTTTTTGAAAATTTTAAA
1 AATTTTTT--AAATTTTAAA
*
6637835 GAATTTTCTAAAT
1 -AATTTTTTAAAT
6637848 AAAATTTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 14 0.34
19 13 0.32
20 7 0.17
21 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (18 bp):
AATTTTTTAAATTTTAAA
Found at i:6637812 original size:37 final size:39
Alignment explanation
Indices: 6637764--6637841 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 39
6637754 AATATTACAA
* * * *
6637764 TTTTAATTTTTTGGAATTTTTT-AGAATTTTGAA-AATT
1 TTTTAAGTTTTTAGAATTTTTTGAAAATTTTAAAGAATT
6637801 TTTTAAGTTTTTAGAATTTTTTGAAAATTTTAAAGAATT
1 TTTTAAGTTTTTAGAATTTTTTGAAAATTTTAAAGAATT
6637840 TT
1 TT
6637842 CTAAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 20 0.57
38 9 0.26
39 6 0.17
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (39 bp):
TTTTAAGTTTTTAGAATTTTTTGAAAATTTTAAAGAATT
Found at i:6637921 original size:19 final size:19
Alignment explanation
Indices: 6637880--6637923 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6637870 AAAATTTAGA
*
6637880 TTTTTTAATTTTTGAAAAT
1 TTTTTTAATTTTTGAAAAC
* **
6637899 TTTTTTAGTTTTTGTGAAC
1 TTTTTTAATTTTTGAAAAC
6637918 TTTTTT
1 TTTTTT
6637924 TTAATTTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (19 bp):
TTTTTTAATTTTTGAAAAC
Found at i:6637931 original size:19 final size:19
Alignment explanation
Indices: 6637880--6637931 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
6637870 AAAATTTAGA
*
6637880 TTTTTTAATTTTTGAAAAT
1 TTTTTTAATTTGTGAAAAT
* **
6637899 TTTTTTAGTTTTTGTGAACTT
1 TTTTTTA--ATTTGTGAAAAT
6637920 TTTTTTAATTTG
1 TTTTTTAATTTG
6637932 AAGAAATTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 11 0.42
21 15 0.58
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (19 bp):
TTTTTTAATTTGTGAAAAT
Found at i:6643737 original size:15 final size:17
Alignment explanation
Indices: 6643709--6643746 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
6643699 CATCGAGCAC
6643709 TTTCTTCATGTAATC-T
1 TTTCTTCATGTAATCAT
*
6643725 TTTCTTC-TTTAATCAT
1 TTTCTTCATGTAATCAT
6643741 TTTCTT
1 TTTCTT
6643747 TTCAGGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.16, C:0.18, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTCTTCATGTAATCAT
Found at i:6645028 original size:6 final size:6
Alignment explanation
Indices: 6644985--6645075 Score: 50
Period size: 6 Copynumber: 15.5 Consensus size: 6
6644975 CGTCTCGACC
* * *
6644985 TTATAT ATATA- TTAT-T TTTTAT TATTTAT TTA-ATT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT T-TATAT TTATA-T TTATAT TTATAT
* * *
6645032 GTAT-T TATAATAT TTATAT TTCT-T TAAT-T TTATAT TTATAT TTA
1 TTATAT T-T-ATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTA
6645076 AAAAATATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
5 15 0.23
6 39 0.59
7 10 0.15
8 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:6645031 original size:35 final size:39
Alignment explanation
Indices: 6644985--6645073 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 39
6644975 CGTCTCGACC
*
6644985 TTATATATATATTATTT-T-T-TAT-TATTTATTTAATT
1 TTATATTTATATTATTTATATATATATATTTATTTAATT
* *
6645020 TTATATTTATATGTATTTATAATATTTATATTTCTTTAATT
1 TTATATTTATAT-TATTTAT-ATATATATATTTATTTAATT
6645061 TTATATTTATATT
1 TTATATTTATATT
6645074 TAAAAAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
35 11 0.24
36 5 0.11
37 1 0.02
39 1 0.02
40 3 0.07
41 24 0.53
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (39 bp):
TTATATTTATATTATTTATATATATATATTTATTTAATT
Found at i:6645096 original size:20 final size:22
Alignment explanation
Indices: 6645057--6645112 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
6645047 ATATTTCTTT
6645057 AATT-TTATATTTATATTTAAAA
1 AATTATTAT-TTTATATTTAAAA
6645079 AA-TATTATTTTATA-TTAAAA
1 AATTATTATTTTATATTTAAAA
*
6645099 AATTAATATTTTAT
1 AATTATTATTTTAT
6645113 TAATTTCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 8 0.26
21 17 0.55
22 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTATTATTTTATATTTAAAA
Found at i:6645113 original size:19 final size:19
Alignment explanation
Indices: 6645063--6645115 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
6645053 CTTTAATTTT
6645063 ATATTTATATTTAAAAAATA
1 ATATTTATA-TTAAAAAATA
*
6645083 TTATTTTATATTAAAAAATTA
1 ATA-TTTATATTAAAAAA-TA
6645104 ATATTT-TATTAA
1 ATATTTATATTAA
6645116 TTTCAAGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 13 0.45
21 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTATATTAAAAAATA
Found at i:6649296 original size:88 final size:86
Alignment explanation
Indices: 6649192--6649369 Score: 320
Period size: 88 Copynumber: 2.0 Consensus size: 86
6649182 TCCCTGACAT
6649192 ATATGATAAAACCCATGCAAATAAGTTGGCATTGGTTTTTAGTAGCTGAATTAGTTGTTTCTTAT
1 ATATGATAAAACCCATGCAAATAAGTTGGCATTGGTTTTTAGTAGCTGAATTAGTTG-TT-TTAT
*
6649257 TGTTTAGCTTGGCCCCAATTTGC
64 TATTTAGCTTGGCCCCAATTTGC
6649280 ATATGATAAAACCCATGCAAATAAGTTGGCATTGGTTTTTAGTAGCTGAATTAGTTGTTTTATTA
1 ATATGATAAAACCCATGCAAATAAGTTGGCATTGGTTTTTAGTAGCTGAATTAGTTGTTTTATTA
*
6649345 TTTAGCTTGGCCCTAATTTGC
66 TTTAGCTTGGCCCCAATTTGC
6649366 ATAT
1 ATAT
6649370 ATTTTCTAGG
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
86 29 0.33
87 2 0.02
88 57 0.65
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (86 bp):
ATATGATAAAACCCATGCAAATAAGTTGGCATTGGTTTTTAGTAGCTGAATTAGTTGTTTTATTA
TTTAGCTTGGCCCCAATTTGC
Found at i:6662071 original size:21 final size:21
Alignment explanation
Indices: 6662040--6662086 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6662030 TTTTTAAATT
6662040 GAAAAAAAATAAGAAAAT-TAA
1 GAAAAAAAATAA-AAAATGTAA
* *
6662061 TAAAAATAATAAAAAATGTAA
1 GAAAAAAAATAAAAAATGTAA
6662082 GAAAA
1 GAAAA
6662087 TTTTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (21 bp):
GAAAAAAAATAAAAAATGTAA
Found at i:6668612 original size:11 final size:11
Alignment explanation
Indices: 6668598--6668622 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6668588 AAAGATGAAG
6668598 AAAAATGGAGA
1 AAAAATGGAGA
6668609 AAAAATGGAGA
1 AAAAATGGAGA
6668620 AAA
1 AAA
6668623 CAACCAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (11 bp):
AAAAATGGAGA
Found at i:6668837 original size:21 final size:21
Alignment explanation
Indices: 6668797--6668843 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6668787 GGCATAATTG
*
6668797 AAATTTTATTTTTGATTTTTT
1 AAATTTTATTTTTGAATTTTT
*
6668818 TAATTTT-TTTTTGGAATTTTT
1 AAATTTTATTTTT-GAATTTTT
6668839 AAATT
1 AAATT
6668844 GCATGAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (21 bp):
AAATTTTATTTTTGAATTTTT
Found at i:6672337 original size:2 final size:2
Alignment explanation
Indices: 6672325--6672359 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6672315 AAACTATGTT
*
6672325 TA TA GA 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 TA TA TA T
6672360 TTAGAAGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6678732 original size:84 final size:84
Alignment explanation
Indices: 6678644--6678932 Score: 276
Period size: 84 Copynumber: 3.4 Consensus size: 84
6678634 ATGTTTTTCA
* ** ***
6678644 AGTTGAATCTATTTTAGAGTCAAGATATGTAAGTTCTCTCGGTGTAATCTTTAAGT-CTTTCGAG
1 AGTTGAATCTATTTTAGAGTCAAGATATATAAGACCTCAAAGTGTAATCTTTAAGTCCTTT-GAG
6678708 TAAGATTTGTAAGTCTTACG
65 TAAGATTTGTAAGTCTTACG
* * * *
6678728 AGTTGAATCTATTTTAGAGTTAAGATTTATAAGACCTCAAAGTGTAATTTTTAAGTCCTTTGGGT
1 AGTTGAATCTATTTTAGAGTCAAGATATATAAGACCTCAAAGTGTAATCTTTAAGTCCTTTGAGT
*
6678793 AAGATTTGTAAGTCTTTCG
66 AAGATTTGTAAGTCTTACG
* * * ** * ** * * *
6678812 AGCTGAATCTATTTTAAAGT-AGAGATTTATAAGATATCCAAGCATAATTTTTAAGTCCTCTGGG
1 AGTTGAATCTATTTTAGAGTCA-AGATATATAAGACCTCAAAGTGTAATCTTTAAGTCCTTTGAG
* * **
6678876 TAAGATTCGTAAGTTTTTTG
65 TAAGATTTGTAAGTCTTACG
* * * *
6678896 AGTTGAATCTATTTTAAAGTTAAGATTTGTAAGACCT
1 AGTTGAATCTATTTTAGAGTCAAGATATATAAGACCT
6678933 AGCAAGATTC
Statistics
Matches: 176, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
83 1 0.01
84 170 0.97
85 5 0.03
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (84 bp):
AGTTGAATCTATTTTAGAGTCAAGATATATAAGACCTCAAAGTGTAATCTTTAAGTCCTTTGAGT
AAGATTTGTAAGTCTTACG
Found at i:6679076 original size:84 final size:84
Alignment explanation
Indices: 6678933--6679157 Score: 260
Period size: 84 Copynumber: 2.7 Consensus size: 84
6678923 TGTAAGACCT
* * * * **
6678933 AGCAAGATTCATAAGTCTTCTGAGCTGAATCTATTTTAAAGTCAAGATTTATGCA-ACTTCTGAG
1 AGCAAGATTCATAAGTCTTCTGAGCTGAATCTATTTTAGAGTCAAAATTTGT-AAGACTTCCAAG
* * *
6678997 CATAATCTCTAAGT-TTTTCG
65 CATAATCTCTAAGTCCTCT-A
* *
6679017 AGCAAGATTCATAAATCTTAC-GAGCTGAATCTAATTTAGAGTCAAAATTTGTAAGACTTCCAAG
1 AGCAAGATTCATAAGTCTT-CTGAGCTGAATCTATTTTAGAGTCAAAATTTGTAAGACTTCCAAG
6679081 CATAATCTCTAAGTCCTCTA
65 CATAATCTCTAAGTCCTCTA
* * *
6679101 AGTAAGATTCATAAGTTTTCTGAGTTGAATCTATTTTAGAGTCGAAAA-TTGTAAGAC
1 AGCAAGATTCATAAGTCTTCTGAGCTGAATCTATTTTAGAGTC-AAAATTTGTAAGAC
6679158 CTTTGAATGT
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
83 2 0.02
84 111 0.93
85 7 0.06
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (84 bp):
AGCAAGATTCATAAGTCTTCTGAGCTGAATCTATTTTAGAGTCAAAATTTGTAAGACTTCCAAGC
ATAATCTCTAAGTCCTCTA
Found at i:6684931 original size:24 final size:24
Alignment explanation
Indices: 6684904--6684955 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
6684894 GGAGGGATTG
*
6684904 GGTGTGGTGGGACGTTGGGGGGAA
1 GGTGTGGTGGGACGTTGGGGGAAA
*
6684928 GGTGTGGTGGGATGTTGGGGGAAA
1 GGTGTGGTGGGACGTTGGGGGAAA
6684952 GGTG
1 GGTG
6684956 GAGATGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.02, G:0.62, T:0.23
Consensus pattern (24 bp):
GGTGTGGTGGGACGTTGGGGGAAA
Found at i:6685516 original size:25 final size:26
Alignment explanation
Indices: 6685488--6685536 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
6685478 AAAAAATAAA
*
6685488 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
6685513 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
6685537 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:6689349 original size:18 final size:18
Alignment explanation
Indices: 6689326--6689450 Score: 78
Period size: 18 Copynumber: 6.9 Consensus size: 18
6689316 ATGGTTATTA
6689326 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
* *
6689344 TCCACCTCCTCAAATATATCT
1 TCCA---CCTCAAATGTATCC
*
6689365 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
6689384 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* * *
6689401 TCCACCACAAATGGATCA
1 TCCACCTCAAATGTATCC
*
6689419 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
* *
6689434 TCCATCTCAAAAGTATC
1 TCCACCTCAAATGTATC
6689451 AAGAACAAAG
Statistics
Matches: 80, Mismatches: 19, Indels: 16
0.70 0.17 0.14
Matches are distributed among these distances:
15 11 0.14
17 1 0.01
18 51 0.64
19 1 0.01
21 16 0.20
ACGTcount: A:0.33, C:0.34, G:0.06, T:0.27
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:6689356 original size:21 final size:21
Alignment explanation
Indices: 6689330--6689372 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6689320 TTATTATCCA
*
6689330 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
*
6689351 CCTCAAATATATCTTCCACCT
1 CCTCAAATATATCCTCCACCT
6689372 C
1 C
6689373 AAATGTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.42, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:6695192 original size:13 final size:14
Alignment explanation
Indices: 6695165--6695197 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6695155 ACAAATAAAA
*
6695165 TTTATATTTATTAT
1 TTTATATATATTAT
6695179 TTTATATATA-TAT
1 TTTATATATATTAT
6695192 TTTATA
1 TTTATA
6695198 ACTCATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATATATATTAT
Found at i:6696406 original size:94 final size:94
Alignment explanation
Indices: 6696224--6696407 Score: 293
Period size: 93 Copynumber: 2.0 Consensus size: 94
6696214 TGAAAAAAAA
6696224 AAATTATGGTCACACATATTTCTTTATCTTTTTTTTTTTAAATACATATTTCTTAGATCTTTATA
1 AAATTATGGTCACACATATTTCTTTATCTTTTTTTTTTTAAATACATATTTCTTAGATCTTTATA
*
6696289 GACTTCTAATACTCCAATCTTTTTTTTTT
66 GACTTCGAATACTCCAATCTTTTTTTTTT
* * *
6696318 AAATTATGGTCAGACGTATTTCTTTATC-TTTTTTTTTTAAATACATATTTTTTA-AGT-TTCTA
1 AAATTATGGTCACACATATTTCTTTATCTTTTTTTTTTTAAATACATATTTCTTAGA-TCTT-TA
6696380 TAGACTTCGAATACTCCAATCTTTTTTT
64 TAGACTTCGAATACTCCAATCTTTTTTT
6696408 CAATTGCCAT
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
92 3 0.04
93 55 0.65
94 26 0.31
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (94 bp):
AAATTATGGTCACACATATTTCTTTATCTTTTTTTTTTTAAATACATATTTCTTAGATCTTTATA
GACTTCGAATACTCCAATCTTTTTTTTTT
Found at i:6706491 original size:5 final size:5
Alignment explanation
Indices: 6706472--6706503 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
6706462 TAAATCGCTA
6706472 AAAAT -AAAT -AAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
6706504 ACAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:6714424 original size:23 final size:23
Alignment explanation
Indices: 6714392--6714436 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6714382 ATATATCTCA
*
6714392 TTTTTATTTTTAATTA-ATTTTT
1 TTTTTATTTTTAAATATATTTTT
6714414 TTTTTATTTTTTAAATATATTTT
1 TTTTTA-TTTTTAAATATATTTT
6714437 AAGAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 9 0.45
24 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTATTTTTAAATATATTTTT
Found at i:6714436 original size:22 final size:22
Alignment explanation
Indices: 6714392--6714436 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
6714382 ATATATCTCA
* *
6714392 TTTTTATTTTTAATTAATTTTT
1 TTTTTATTTTTAAATAATATTT
6714414 TTTTTATTTTTTAAAT-ATATTT
1 TTTTTA-TTTTTAAATAATATTT
6714436 T
1 T
6714437 AAGAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTTAAATAATATTT
Found at i:6714606 original size:13 final size:13
Alignment explanation
Indices: 6714590--6714614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6714580 ACAATTCAAT
6714590 AAAAATTAAAATA
1 AAAAATTAAAATA
6714603 AAAAATTAAAAT
1 AAAAATTAAAAT
6714615 TGAAATCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTAAAATA
Found at i:6714844 original size:13 final size:13
Alignment explanation
Indices: 6714826--6714856 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6714816 TCTATCAATA
*
6714826 TTTTAATTTTGAT
1 TTTTAATTTTAAT
6714839 TTTTAATTTTAAT
1 TTTTAATTTTAAT
6714852 TTTTA
1 TTTTA
6714857 TTGCATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:6725317 original size:15 final size:16
Alignment explanation
Indices: 6725282--6725317 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6725272 ATTAAAATTT
6725282 AAATATCATATTTATC
1 AAATATCATATTTATC
*
6725298 AAATATCATTTTTA-C
1 AAATATCATATTTATC
6725313 AAATA
1 AAATA
6725318 AGTGTGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATCATATTTATC
Found at i:6729384 original size:18 final size:17
Alignment explanation
Indices: 6729367--6729418 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
6729357 AACTTTTTAA
6729367 AAAAATA-AAAAAAATT
1 AAAAATATAAAAAAATT
* *
6729383 AAAATTCTAAAAAAATCT
1 AAAAATATAAAAAAAT-T
6729401 AAAAATATGAAAAAAATT
1 AAAAATAT-AAAAAAATT
6729419 TTAACAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 8 0.28
19 8 0.28
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAATATAAAAAAATT
Found at i:6729440 original size:9 final size:9
Alignment explanation
Indices: 6729412--6729581 Score: 56
Period size: 10 Copynumber: 17.6 Consensus size: 9
6729402 AAAATATGAA
6729412 AAAAATTTT
1 AAAAATTTT
*
6729421 AACAATTTTTT
1 AA-AA-ATTTT
6729432 AAAAATTTT
1 AAAAATTTT
*
6729441 ATAAATTTT
1 AAAAATTTT
* *
6729450 GAGAATTTCT
1 AAAAATTT-T
*
6729460 AAAAGCTTTT
1 AAAA-ATTTT
**
6729470 AAAAACTTCA
1 AAAAA-TTTT
* *
6729480 AAAGAAATTA
1 AAA-AATTTT
*
6729490 AAAAACTTAT
1 AAAAA-TTTT
**
6729500 AAAAATTCA
1 AAAAATTTT
*
6729509 AAATAATTCTA
1 AAA-AATT-TT
6729520 AAAAATTTT
1 AAAAATTTT
*
6729529 AAAATACTTAGT
1 AAAA-A-TT-TT
6729541 AAAAATTTT
1 AAAAATTTT
*
6729550 AAACATATTCT
1 AAA-A-ATTTT
6729561 AAAAATTTT
1 AAAAATTTT
*
6729570 -TAAA-TTT
1 AAAAATTTT
6729577 AAAAA
1 AAAAA
6729582 AATTATTTAA
Statistics
Matches: 119, Mismatches: 27, Indels: 31
0.67 0.15 0.18
Matches are distributed among these distances:
7 3 0.03
8 6 0.05
9 39 0.33
10 41 0.34
11 25 0.21
12 5 0.04
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:6729522 original size:29 final size:31
Alignment explanation
Indices: 6729451--6729537 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 31
6729441 ATAAATTTTG
* *
6729451 AGAATTTCTAAAAGCTTTTAAAAACTTCAAA
1 AGAAATTCTAAAAACTTTTAAAAACTTCAAA
* *
6729482 AGAAATT-AAAAAACTTATAAAAA-TTCAAA
1 AGAAATTCTAAAAACTTTTAAAAACTTCAAA
* *
6729511 A-TAATTCTAAAAAATTTTAAAATACTT
1 AGAAATTCTAAAAACTTTTAAAA-ACTT
6729538 AGTAAAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 4 0.09
29 19 0.42
30 14 0.31
31 8 0.18
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.32
Consensus pattern (31 bp):
AGAAATTCTAAAAACTTTTAAAAACTTCAAA
Found at i:6729544 original size:21 final size:20
Alignment explanation
Indices: 6729456--6729574 Score: 84
Period size: 21 Copynumber: 5.9 Consensus size: 20
6729446 TTTTGAGAAT
*
6729456 TTCTAAAAGCTTTTAAAA-AC
1 TTCTAAAA-ATTTTAAAATAC
** *
6729476 TTC-AAAAGAAATTAAAAAAC
1 TTCTAAAA-ATTTTAAAATAC
* * *
6729496 TTATAAAAA-TTCAAAATAA
1 TTCTAAAAATTTTAAAATAC
6729515 TTCTAAAAAATTTTAAAATAC
1 TTCT-AAAAATTTTAAAATAC
*
6729536 TTAGTAAAAATTTTAAACATA-
1 TT-CTAAAAATTTTAAA-ATAC
*
6729557 TTCTAAAAATTTTTAAAT
1 TTCTAAAAATTTTAAAAT
6729575 TTAAAAAAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
19 22 0.28
20 25 0.32
21 28 0.35
22 4 0.05
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (20 bp):
TTCTAAAAATTTTAAAATAC
Found at i:6729825 original size:16 final size:16
Alignment explanation
Indices: 6729806--6729840 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6729796 AAAAAATGAA
6729806 AAAATTTA-AAACAATT
1 AAAATTTATAAA-AATT
6729822 AAAATTTATAAAAATT
1 AAAATTTATAAAAATT
6729838 AAA
1 AAA
6729841 TTTTCTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTTATAAAAATT
Found at i:6730042 original size:38 final size:38
Alignment explanation
Indices: 6729969--6730042 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
6729959 AATTAGAAAA
* * *
6729969 TTCAAAAAAATTAAAAATTTAATAAATATCCAAAAAGT
1 TTCAAAAAAATTAAAAATTCAAAAAATATACAAAAAGT
*
6730007 TTCAAAAAAATTAAAAATTCAAAAAATATATAAAAA
1 TTCAAAAAAATTAAAAATTCAAAAAATATACAAAAA
6730043 TTGAAATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.27
Consensus pattern (38 bp):
TTCAAAAAAATTAAAAATTCAAAAAATATACAAAAAGT
Found at i:6730167 original size:12 final size:11
Alignment explanation
Indices: 6730140--6730165 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6730130 TATTTTTCTA
6730140 TTTTAGTTTTT
1 TTTTAGTTTTT
6730151 TTTTAGTTTTT
1 TTTTAGTTTTT
6730162 TTTT
1 TTTT
6730166 TAATTTCAAC
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:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTAGTTTTT
Found at i:6730285 original size:10 final size:10
Alignment explanation
Indices: 6730272--6730313 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
6730262 TCATTAATTC
6730272 TTTTT-GAAT
1 TTTTTAGAAT
*
6730281 TTTTTAAAAT
1 TTTTTAGAAT
*
6730291 TTTCTAGAAT
1 TTTTTAGAAT
*
6730301 TTTTTAAAAT
1 TTTTTAGAAT
6730311 TTT
1 TTT
6730314 AAAAAGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 5 0.19
10 22 0.81
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:6730293 original size:9 final size:9
Alignment explanation
Indices: 6730281--6730413 Score: 94
Period size: 9 Copynumber: 14.6 Consensus size: 9
6730271 CTTTTTGAAT
6730281 TTTTTAAAA
1 TTTTTAAAA
*
6730290 TTTTCTAGAAT
1 TTTT-TA-AAA
6730301 TTTTTAAAA
1 TTTTTAAAA
*
6730310 TTTTAAAAA
1 TTTTTAAAA
* **
6730319 GTTTTAGATT
1 TTTTTA-AAA
6730329 TTTTTATAAA
1 TTTTTA-AAA
6730339 -TTTT-AAA
1 TTTTTAAAA
6730346 TTTTTATAAA
1 TTTTTA-AAA
*
6730356 ATTTTAAAA
1 TTTTTAAAA
6730365 TTTTTAAAA
1 TTTTTAAAA
6730374 TTTTTAAAA
1 TTTTTAAAA
* * *
6730383 -TCTTATAG
1 TTTTTAAAA
*
6730391 TTTTTAGAA
1 TTTTTAAAA
6730400 TTTTCT-AAA
1 TTTT-TAAAA
6730409 TTTTT
1 TTTTT
6730414 TCTTAATTTT
Statistics
Matches: 96, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
7 3 0.03
8 10 0.10
9 57 0.59
10 20 0.21
11 6 0.06
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:6730323 original size:20 final size:20
Alignment explanation
Indices: 6730278--6730323 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6730268 ATTCTTTTTG
* *
6730278 AATTTTTTAAAATTTTCTAG
1 AATTTTTTAAAATTTTCAAA
6730298 AATTTTTTAAAATTTT-AAA
1 AATTTTTTAAAATTTTCAAA
*
6730317 AAGTTTT
1 AATTTTT
6730324 AGATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
AATTTTTTAAAATTTTCAAA
Found at i:6730534 original size:11 final size:10
Alignment explanation
Indices: 6730520--6730577 Score: 66
Period size: 9 Copynumber: 5.8 Consensus size: 10
6730510 TTTTTTTAAA
6730520 AATTATTTTAG
1 AATT-TTTTAG
6730531 AA-TTTTTAG
1 AATTTTTTAG
*
6730540 AATTGTTTTAA
1 AATT-TTTTAG
6730551 AATTTTTT-G
1 AATTTTTTAG
*
6730560 AATTTTTTAA
1 AATTTTTTAG
6730570 AATTTTTT
1 AATTTTTT
6730578 CTTAATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 16 0.39
10 14 0.34
11 11 0.27
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:6730566 original size:51 final size:51
Alignment explanation
Indices: 6730459--6730571 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
6730449 AAACATTTAG
* * **
6730459 ATTTTTT-AAAATTTTTATTTGAATTTTTAAATTCTTTTTTAATTTTGGAA
1 ATTTTTTAAAAATTATTATTAGAATTTTTAAATTCTTTTAAAATTTTGGAA
* *
6730509 ATTTTTTTAAAAATTATT-TTAGAATTTTTAGAATTGTTTTAAAATTTTTTG-A
1 A-TTTTTTAAAAATTATTATTAGAATTTTTA-AATTCTTTTAAAA-TTTTGGAA
6730561 ATTTTTTAAAA
1 ATTTTTTAAAA
6730572 TTTTTTCTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
50 1 0.02
51 27 0.51
52 20 0.38
53 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (51 bp):
ATTTTTTAAAAATTATTATTAGAATTTTTAAATTCTTTTAAAATTTTGGAA
Found at i:6730577 original size:20 final size:20
Alignment explanation
Indices: 6730459--6730587 Score: 88
Period size: 20 Copynumber: 6.3 Consensus size: 20
6730449 AAACATTTAG
6730459 ATTTTTTAAAATTTTTATTTGA
1 ATTTTTTAAAA-TTTT-TTTGA
*
6730481 A-TTTTT-AAATTCTTTTTTA
1 ATTTTTTAAAATT-TTTTTGA
** *
6730500 A-TTTTGGAAATTTTTTTAAAA
1 ATTTTTTAAAATTTTTTT--GA
* *
6730521 ATTATTTTAGAA-TTTTTAGA
1 ATT-TTTTAAAATTTTTTTGA
6730541 ATTGTTTTAAAA-TTTTTTGA
1 ATT-TTTTAAAATTTTTTTGA
*
6730561 ATTTTTTAAAATTTTTTCTTA
1 ATTTTTTAAAATTTTTT-TGA
6730582 ATTTTT
1 ATTTTT
6730588 CTTTTAAAGA
Statistics
Matches: 87, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
19 24 0.28
20 36 0.41
21 15 0.17
22 7 0.08
23 5 0.06
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTTTTTAAAATTTTTTTGA
Found at i:6731559 original size:21 final size:22
Alignment explanation
Indices: 6731533--6731577 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6731523 TAATTAAAAT
6731533 TTTACA-TA-AATAATATAATTA
1 TTTACATTACAATAATAT-ATTA
6731554 TTTACATTACAATAATATATTA
1 TTTACATTACAATAATATATTA
6731576 TT
1 TT
6731578 ATGGTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 8 0.36
23 8 0.36
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTACATTACAATAATATATTA
Found at i:6732671 original size:3 final size:3
Alignment explanation
Indices: 6732659--6732750 Score: 66
Period size: 3 Copynumber: 32.0 Consensus size: 3
6732649 AAAAGAAAGA
* * * * *
6732659 AAT AAA AAT AAT AAA AAT AAT GAT GAT AAT AAT -AT AAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
6732706 AAA AAT -AT AAT AAT AAT -AT ACT AAT -AT GAT AAT AAC AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6732751 GAAACATAGT
Statistics
Matches: 69, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
2 8 0.12
3 61 0.88
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6732703 original size:11 final size:11
Alignment explanation
Indices: 6732660--6732740 Score: 64
Period size: 11 Copynumber: 7.6 Consensus size: 11
6732650 AAAGAAAGAA
*
6732660 ATAAAAATAAT
1 ATAATAATAAT
6732671 A-AA-AATAAT
1 ATAATAATAAT
*
6732680 GATGATAATAAT
1 -ATAATAATAAT
*
6732692 ATAATAA-GA-
1 ATAATAATAAT
*
6732701 ATAATAAAAAT
1 ATAATAATAAT
6732712 ATAATAATAAT
1 ATAATAATAAT
*
6732723 ATACTAAT-AT
1 ATAATAATAAT
6732733 GATAATAA
1 -ATAATAA
6732741 CAAAAATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
9 13 0.23
10 7 0.12
11 31 0.54
12 6 0.11
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:6734749 original size:27 final size:27
Alignment explanation
Indices: 6734712--6734774 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
6734702 TGCAACGATG
6734712 AATACATATGTTAGTGATGCTAAATTAA
1 AATACA-ATGTTAGTGATGCTAAATTAA
* *
6734740 AATGCAATGTTAGTGATGCTAGATTAA
1 AATACAATGTTAGTGATGCTAAATTAA
6734767 AATACAAT
1 AATACAAT
6734775 ACAATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (27 bp):
AATACAATGTTAGTGATGCTAAATTAA
Found at i:6737440 original size:234 final size:233
Alignment explanation
Indices: 6737021--6737753 Score: 721
Period size: 234 Copynumber: 3.1 Consensus size: 233
6737011 AATTAACTAA
* * * * * * * * * **
6737021 TTAAAATTTTACATTGGCAACTTAATTATTTACATTACAATAGTTTCTT-TAATGATTGTT-TCT
1 TTAAAATTTTACGTTGCCAACATAATTATTTATATTATAATAATATATTATTACAATTGTTCT-T
* * * * *
6737084 ACCTCTAATTATGTTTAGAATTGTTATAACTTTTTCTTAGTGTATTA-CAACACTTTTTACCCAT
65 ACTTCTCATTACGTTTAGAATTGTTATAACTTTTTCTTAGTGTATTATGAA-A-TTCTTACCCAT
* * * * ** * *
6737148 TTAAAGCCAAATTATATTAATTTTATGTTTTTCTCACTTTTTAACATTGCCTATTTATTTTTCAA
128 TTTAAGCCAAATGATATTAATTTTACGTTTTTCTCACTTGTTAACATTAACAATTTATTTTTTAA
* *
6737213 TTTTTAACTATTTCTT-TTATATATTTAAAAATAATAATTAG
193 TTTTTAGCTATTT-TTCTTATATATTTAAAAACAATAATTAG
* ***
6737254 TTAAAATTTTACGTTGCCAACATAATTATTTAT-TTCATAATAATATCTTATTATGGTTGTTCTT
1 TTAAAATTTTACGTTGCCAACATAATTATTTATATT-ATAATAATATATTATTACAATTGTTCTT
* * *
6737318 ACGTTCT-ATTACGTTTAGAATTGTCATAACTTTTTCTTAGTATATTATGAAATTCTTACTCATT
65 AC-TTCTCATTACGTTTAGAATTGTTATAACTTTTTCTTAGTGTATTATGAAATTCTTACCCATT
* * * * * **
6737382 TTATGCCAAATGATATTGATTATACGTTTCTTCTCACTTGTTCACGTTTTCAATTTATTTTTTAA
129 TTAAGCCAAATGATATTAATTTTACGTTT-TTCTCACTTGTTAACATTAACAATTTATTTTTTAA
* **
6737447 TTTATAGCTATTTTTCTTATATATACAAAAACAATAATTAG
193 TTTTTAGCTATTTTTCTTATATATTTAAAAACAATAATTAG
** * *
6737488 TTAAAATTTTATATTGCCATCATAATTATTTATATTATAATAATATATTTTTACAATTGTTCTTA
1 TTAAAATTTTACGTTGCCAACATAATTATTTATATTATAATAATATATTATTACAATTGTTCTTA
* * * * **
6737553 CTTTTCATTACATTTAGAAATGTTATAA-TTCTTTCTTAGTGTATTATGACACACATTACCCATT
66 CTTCTCATTACGTTTAGAATTGTTATAACTT-TTTCTTAGTGTATTATGAAATTC-TTACCCATT
* * * *
6737617 TTACA-CCAAATGATACTAATTTTAC--ATTTCTCACTTGTTTACATTAACAATTTGTTATTTTA
129 TTA-AGCCAAATGATATTAATTTTACGTTTTTCTCACTTGTTAACATTAACAATTTATT-TTTTA
* *
6737679 ATTTTTAGCTATTTTTCTTATATATTTACAGGAACAATAATTAA
192 ATTTTTAGCTATTTTTCTTATATATTTA-A-AAACAATAATTAG
* * *
6737723 TTAAAATTTTACGATGTCAACATTATTATTT
1 TTAAAATTTTACGTTGCCAACATAATTATTT
6737754 GCTTTACTAT
Statistics
Matches: 413, Mismatches: 72, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
232 26 0.06
233 110 0.27
234 205 0.50
235 72 0.17
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.49
Consensus pattern (233 bp):
TTAAAATTTTACGTTGCCAACATAATTATTTATATTATAATAATATATTATTACAATTGTTCTTA
CTTCTCATTACGTTTAGAATTGTTATAACTTTTTCTTAGTGTATTATGAAATTCTTACCCATTTT
AAGCCAAATGATATTAATTTTACGTTTTTCTCACTTGTTAACATTAACAATTTATTTTTTAATTT
TTAGCTATTTTTCTTATATATTTAAAAACAATAATTAG
Found at i:6751954 original size:3 final size:3
Alignment explanation
Indices: 6751936--6751983 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
6751926 TATTTTTAAT
*
6751936 TTA TTA GTTAA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6751983 T
1 T
6751984 AACAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 36 0.88
4 4 0.10
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6752179 original size:23 final size:22
Alignment explanation
Indices: 6752151--6752200 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
6752141 ATTTTTATTA
6752151 ATTTTTGTATTATCATT-AAGTTT
1 ATTTTTGTATT-T-ATTAAAGTTT
* *
6752174 ATTTTTTTATTTTTTAAAGTTT
1 ATTTTTGTATTTATTAAAGTTT
6752196 ATTTT
1 ATTTT
6752201 AAAAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 12 0.50
23 10 0.42
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (22 bp):
ATTTTTGTATTTATTAAAGTTT
Found at i:6753356 original size:21 final size:22
Alignment explanation
Indices: 6753332--6753384 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 22
6753322 CTGTTCTGTT
* *
6753332 TATTTT-TTTTTTTGTTTTTGG
1 TATTTTGTATTTTGGTTTTTGG
6753353 TATTTTGTATTTTGGTTTTT--
1 TATTTTGTATTTTGGTTTTTGG
6753373 T-TTTTGTATTTT
1 TATTTTGTATTTT
6753385 ATATTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
20 1 0.03
21 6 0.21
22 11 0.38
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (22 bp):
TATTTTGTATTTTGGTTTTTGG
Found at i:6753396 original size:26 final size:28
Alignment explanation
Indices: 6753332--6753396 Score: 89
Period size: 26 Copynumber: 2.4 Consensus size: 28
6753322 CTGTTCTGTT
* *
6753332 TATTTTTTTTTTTGTTTTTGGTATTTTG
1 TATTTTTGTTTTTGTTTTTGGTATTTTA
*
6753360 TATTTTGGTTTTT-TTTTT-GTATTTTA
1 TATTTTTGTTTTTGTTTTTGGTATTTTA
6753386 TATTTTTGTTT
1 TATTTTTGTTT
6753397 AATTTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 17 0.52
27 5 0.15
28 11 0.33
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.78
Consensus pattern (28 bp):
TATTTTTGTTTTTGTTTTTGGTATTTTA
Found at i:6753402 original size:26 final size:27
Alignment explanation
Indices: 6753346--6753403 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
6753336 TTTTTTTTTG
* *
6753346 TTTTTGGTATTTTGTATTTTGGTTT-T
1 TTTTTGGTATTTTATATTTTGGTTTAA
* *
6753372 TTTTTTGTATTTTATATTTTTGTTTAA
1 TTTTTGGTATTTTATATTTTGGTTTAA
6753399 TTTTT
1 TTTTT
6753404 ATTATTGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (27 bp):
TTTTTGGTATTTTATATTTTGGTTTAA
Found at i:6753772 original size:47 final size:48
Alignment explanation
Indices: 6753647--6753845 Score: 220
Period size: 50 Copynumber: 4.1 Consensus size: 48
6753637 AAAATTTAAA
* * * * *
6753647 ATCTGAAAAAGACTCCTCTCAGCATATGCTCAACAACTTTAAAAATTTT
1 ATCTGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCTC
* * *
6753696 ATCTTGAAAAGGGCTCCTCTTAACAGAGGCTCAACAACTTTAAAATCTC
1 ATC-TGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTC
* *
6753745 ATCTGAAAAAG-CTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTAAA
1 ATCTGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATCT--C
* ** * *
6753794 ATCTGAAATAGACTCCTCTCAGTAAAGGTTCAACAACTTTAAAATCTC
1 ATCTGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTC
6753842 ATCT
1 ATCT
6753846 TATAAAGGGC
Statistics
Matches: 127, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
47 33 0.26
48 11 0.09
49 22 0.17
50 61 0.48
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (48 bp):
ATCTGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTC
Found at i:6753775 original size:97 final size:97
Alignment explanation
Indices: 6753647--6753845 Score: 251
Period size: 97 Copynumber: 2.0 Consensus size: 97
6753637 AAAATTTAAA
* * * * *
6753647 ATCTGAAAAAGACTCCTCTCAGCATATGCTCAACAACTTTAAAAATTT-TATCTTGAAA-AGGGC
1 ATCTGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTT-AAAATTTAAATC-TGAAATA-GAC
* *
6753710 TCCTCTTAACAGAGGCTCAACAACTTTAAAATCTC
63 TCCTCTCAACAAAGGCTCAACAACTTTAAAATCTC
6753745 ATCTGAAAAAG-CTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTAAAATCTGAAATAGACTC
1 ATCTGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATTT-AAATCTGAAATAGACTC
** *
6753809 CTCTCAGTAAAGGTTCAACAACTTTAAAATCTC
65 CTCTCAACAAAGGCTCAACAACTTTAAAATCTC
6753842 ATCT
1 ATCT
6753846 TATAAAGGGC
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
96 7 0.08
97 66 0.75
98 15 0.17
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (97 bp):
ATCTGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTAAATCTGAAATAGACTCC
TCTCAACAAAGGCTCAACAACTTTAAAATCTC
Found at i:6754045 original size:214 final size:213
Alignment explanation
Indices: 6753674--6754078 Score: 564
Period size: 214 Copynumber: 1.9 Consensus size: 213
6753664 CTCAGCATAT
* * * *
6753674 GCTCAACAACTTTAAAAATTTTATCTTGAAAAGGGCTCCTCTTAACAGAGGCTCAACAACTTTAA
1 GCTCAACAACTTTAAAAATATCATCTTGAAAAGGGCTCCTCTCAACAGAAGCTCAACAACTTTAA
* * *
6753739 AATCTCATCTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTAAAATCTGAAATA
66 AATCTCATCTGAAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCT-AAATCTGAAAAA
* *
6753804 GACTCCTCTCAGTAAAGGTTCAACAACTTTAAAATCTCATCTT-ATAAAGGGCTCCTATCAATAA
130 GACTCATCTCAGTAAAGGTTCAACAACTTTAAAATCTCATCTTGA-AAAGAGCTCCTATCAATAA
6753868 AGGCCCATCTCAGAGCAAAG
194 AGGCCCATCTCAGAGCAAAG
* *
6753888 GCTCAACAACTTTAAAAATATCATCTTGAAAAGGGCTCCTCTCAGCAGAAGCTCAACGACTTTAA
1 GCTCAACAACTTTAAAAATATCATCTTGAAAAGGGCTCCTCTCAACAGAAGCTCAACAACTTTAA
* * * * *
6753953 ATATCTCATCTTGAAAATGGCTTATCTCAGCAGAGGCTCAATAACTTTAAAATCT-CATCTGAAA
66 A-ATCTCATC-TGAAAA-AGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCTAAATCTGAAA
* * * *
6754017 AAG-CTCATCTCATTAGAGGTTTAACAACTTTAAAATCTCATCTTGAAAAGAGCTCCTCTCAA
128 AAGACTCATCTCAGTAAAGGTTCAACAACTTTAAAATCTCATCTTGAAAAGAGCTCCTATCAA
6754079 CAGAGGCTCA
Statistics
Matches: 167, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
214 111 0.66
215 19 0.11
216 6 0.04
217 31 0.19
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (213 bp):
GCTCAACAACTTTAAAAATATCATCTTGAAAAGGGCTCCTCTCAACAGAAGCTCAACAACTTTAA
AATCTCATCTGAAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCTAAATCTGAAAAAG
ACTCATCTCAGTAAAGGTTCAACAACTTTAAAATCTCATCTTGAAAAGAGCTCCTATCAATAAAG
GCCCATCTCAGAGCAAAG
Found at i:6754077 original size:96 final size:99
Alignment explanation
Indices: 6753886--6754251 Score: 460
Period size: 97 Copynumber: 3.8 Consensus size: 99
6753876 CTCAGAGCAA
* * * *
6753886 AGGCTCAACAACTTTAAAAATATCATCTTGAAAAGGGCTCCTCTCAGCAGAAGCTCAACGACTTT
1 AGGCTCAACAACTTTAAAAATTTCATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTT
* * *
6753951 AAATATCTCATCTTGAAAATG-GCTTATCTCAGCAG
65 AAAAATCTCATCTTGAAAA-GAGCTCATCTCAACAG
* * * ** * *
6753986 AGGCTCAATAACTTT-AAAATCTCATC-TGAAAAAGCTCATCTCATTAGAGGTTTAACAACTTT-
1 AGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
*
6754048 AAAATCTCATCTTGAAAAGAGCTCCTCTCAACAG
66 AAAATCTCATCTTGAAAAGAGCTCATCTCAACAG
* * * *
6754082 AGGCTCAACAAC-TTAAAATTTTTATCTTAAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTA
1 AGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
* *
6754146 AAAATCTCATCTT-AAAAAAGCTCATATCAACAG
66 AAAATCTCATCTTGAAAAGAGCTCATCTCAACAG
*
6754179 AGGCTCAACAACTTTAAAAATTTCATCTTG-AAAAGCT-CTATCAGCAGAGGCTCAACAACTTTA
1 AGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
6754242 AAAATCTCAT
66 AAAATCTCAT
6754252 ATGTTATTCA
Statistics
Matches: 230, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
95 3 0.01
96 81 0.35
97 89 0.39
98 33 0.14
99 10 0.04
100 14 0.06
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (99 bp):
AGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
AAAATCTCATCTTGAAAAGAGCTCATCTCAACAG
Found at i:6754092 original size:49 final size:50
Alignment explanation
Indices: 6753881--6754251 Score: 422
Period size: 49 Copynumber: 7.6 Consensus size: 50
6753871 CCCATCTCAG
* * *
6753881 AGCAAAGGCTCAACAACTTTAAAAATATCATCTTGAAAAGGGCTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGAGCTCCTCTC
* * * **
6753931 AGCAGAAGCTCAACGACTTTAAATATCTCATCTTGAAAATG-GCTTATCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAA-GAGCTCCTCTC
* *
6753981 AGCAGAGGCTCAATAACTTT-AAAATCTCATC-TGAAAA-AGCTCATCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGAGCTCCTCTC
** * *
6754028 ATTAGAGGTTTAACAACTTT-AAAATCTCATCTTGAAAAGAGCTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGAGCTCCTCTC
* * * * *
6754077 AACAGAGGCTCAACAAC-TTAAAATTTTTATCTT-AAAAAAGCTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGAGCTCCTCTC
* * * *
6754125 AGTAGAGGCTCAACAACTTTAAAAATCTCATCTT-AAAAAAGCTCATATC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGAGCTCCTCTC
* * *
6754174 AACAGAGGCTCAACAACTTTAAAAATTTCATCTTG-AAA-AGCT-CTATC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGAGCTCCTCTC
6754221 AGCAGAGGCTCAACAACTTTAAAAATCTCAT
1 AGCAGAGGCTCAACAACTTTAAAAATCTCAT
6754252 ATGTTATTCA
Statistics
Matches: 275, Mismatches: 39, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
47 67 0.24
48 47 0.17
49 102 0.37
50 58 0.21
51 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (50 bp):
AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGAGCTCCTCTC
Found at i:6765724 original size:18 final size:18
Alignment explanation
Indices: 6765701--6765735 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6765691 TTTCTCATTT
6765701 TTTATTACCTATTTTTAA
1 TTTATTACCTATTTTTAA
**
6765719 TTTATTAGTTATTTTTA
1 TTTATTACCTATTTTTA
6765736 TTATTATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTATTACCTATTTTTAA
Found at i:6765741 original size:3 final size:3
Alignment explanation
Indices: 6765720--6765757 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
6765710 TATTTTTAAT
*
6765720 TTA TTA GTTA TTT TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6765758 AACAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6765974 original size:22 final size:23
Alignment explanation
Indices: 6765932--6765981 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
6765922 ATTTTTATTA
6765932 ATTTTTGTATTATCATTAAGTTT
1 ATTTTTGTATTATCATTAAGTTT
*
6765955 ATTTTTGTATT-T-TTTAAAGTTT
1 ATTTTTGTATTATCATT-AAGTTT
6765977 ATTTT
1 ATTTT
6765982 AAAAATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 11 0.44
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (23 bp):
ATTTTTGTATTATCATTAAGTTT
Found at i:6767063 original size:1 final size:1
Alignment explanation
Indices: 6767059--6767093 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
6767049 CCATCCCCCA
* *
6767059 TTTTTTTTTTGTTTTGTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6767094 GATATTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:6767073 original size:7 final size:7
Alignment explanation
Indices: 6767060--6767120 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
6767050 CATCCCCCAT
*
6767060 TTTTTTT
1 TTTTTTG
6767067 TTGTTTTG
1 TT-TTTTG
6767075 TTTTTT-
1 TTTTTTG
*
6767081 TTTTTTT
1 TTTTTTG
6767088 TTTTTTG
1 TTTTTTG
*
6767095 ATATTTTG
1 -TTTTTTG
*
6767103 TATTTTG
1 TTTTTTG
*
6767110 ATTTTTG
1 TTTTTTG
6767117 TTTT
1 TTTT
6767121 GTATTTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
6 6 0.13
7 27 0.60
8 12 0.27
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.84
Consensus pattern (7 bp):
TTTTTTG
Found at i:6767083 original size:19 final size:19
Alignment explanation
Indices: 6767059--6767173 Score: 61
Period size: 20 Copynumber: 5.6 Consensus size: 19
6767049 CCATCCCCCA
6767059 TTTTTTTTTTGTTTTGTTTT
1 TTTTTTTTTTGTTTTG-TTT
* *
6767079 TTTTTTTTTTTTTTTGATAT
1 TTTTTTTTTTGTTTTG-TTT
* *
6767099 TTTGTATTTTGATTTTTGTTT
1 TTTTTTTTTTG--TTTTGTTT
* *
6767120 TGTATTTTATAT-TTTTGTTT
1 T-T-TTTTTTTTGTTTTGTTT
* *
6767140 AATTTTTATTATTGTATTTATTT
1 --TTTTT-TTTTTGT-TTTGTTT
6767163 TTTTTTTTTTG
1 TTTTTTTTTTG
6767174 CCGGACAAAT
Statistics
Matches: 70, Mismatches: 16, Indels: 18
0.67 0.15 0.17
Matches are distributed among these distances:
20 41 0.59
21 11 0.16
22 8 0.11
23 10 0.14
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTGTTTTGTTT
Found at i:6770001 original size:17 final size:17
Alignment explanation
Indices: 6769981--6770019 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
6769971 GTAATTGAAA
*
6769981 AGTATTGGTAATGCAAT
1 AGTAATGGTAATGCAAT
*
6769998 AGTAATGGTAATGCAGT
1 AGTAATGGTAATGCAAT
6770015 AGTAA
1 AGTAA
6770020 AGTATATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (17 bp):
AGTAATGGTAATGCAAT
Found at i:6770327 original size:2 final size:2
Alignment explanation
Indices: 6770322--6770346 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6770312 TCTCTATTAA
6770322 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6770347 AAACCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6775820 original size:18 final size:19
Alignment explanation
Indices: 6775797--6775832 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6775787 TGAAAGGATT
6775797 AATTATAACATT-TTTTTC
1 AATTATAACATTCTTTTTC
6775815 AATTATAACATTCTTTTT
1 AATTATAACATTCTTTTT
6775833 ATAAAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTATAACATTCTTTTTC
Found at i:6784822 original size:6 final size:6
Alignment explanation
Indices: 6784808--6784859 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
6784798 AAAGAATCTG
* * * * *
6784808 AAAATA AAAAGA AAAAAA AAAACA AAAACA AAAA-C AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
6784855 AAAAG
1 AAAAG
6784860 TCAATCTTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 4 0.10
6 36 0.90
ACGTcount: A:0.85, C:0.06, G:0.08, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:6784928 original size:26 final size:24
Alignment explanation
Indices: 6784892--6784947 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
6784882 AAAGACAAAG
* *
6784892 AAAGAAAAATAA-AAAGTTGTGAA
1 AAAGAAAAGTAATAAAGTGGTGAA
6784915 AAAGAAAAGTAATAAAGTGGTGAA
1 AAAGAAAAGTAATAAAGTGGTGAA
*
6784939 AAAGCAAAG
1 AAAGAAAAG
6784948 AAAATAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.62, C:0.02, G:0.21, T:0.14
Consensus pattern (24 bp):
AAAGAAAAGTAATAAAGTGGTGAA
Found at i:6791010 original size:27 final size:27
Alignment explanation
Indices: 6790979--6791035 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
6790969 AGTTTCAAAT
6790979 TTTCTAAGCTTGTGTGTTTGTACGGAA
1 TTTCTAAGCTTGTGTGTTTGTACGGAA
* * **
6791006 TTTCTATGTTTGTGTGTTTGTTGGGAA
1 TTTCTAAGCTTGTGTGTTTGTACGGAA
6791033 TTT
1 TTT
6791036 TTGTTTTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.14, C:0.07, G:0.26, T:0.53
Consensus pattern (27 bp):
TTTCTAAGCTTGTGTGTTTGTACGGAA
Found at i:6792661 original size:24 final size:25
Alignment explanation
Indices: 6792630--6792676 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6792620 TATTTAATAT
*
6792630 TATTTG-TTAAGAGATGATAATTTA
1 TATTTGTTTAAGAGATAATAATTTA
*
6792654 TATTTGTTTATGAGATAATAATT
1 TATTTGTTTAAGAGATAATAATT
6792677 ATGTATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (25 bp):
TATTTGTTTAAGAGATAATAATTTA
Found at i:6793402 original size:49 final size:49
Alignment explanation
Indices: 6793313--6793412 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 49
6793303 TTATATTGTA
* **
6793313 AATCAAAATATATTAAATAAAATAATTTTAAAATTTAAATTGGAGTTTT
1 AATCAAAATATATTAAATAAAATAATTTTAAAATTCAAATTCAAGTTTT
6793362 AATCAAAATATATTAAATAAAATAATTTT-AAATTCCAAATTCAAGTTTT
1 AATCAAAATATATTAAATAAAATAATTTTAAAATT-CAAATTCAAGTTTT
6793411 AA
1 AA
6793413 AACATAACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 5 0.11
49 42 0.89
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (49 bp):
AATCAAAATATATTAAATAAAATAATTTTAAAATTCAAATTCAAGTTTT
Found at i:6814685 original size:22 final size:21
Alignment explanation
Indices: 6814634--6814691 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
6814624 ATAAAAATAA
6814634 AATAAAAACATAAAATATGTT
1 AATAAAAACATAAAATATGTT
* * *
6814655 AACATAAACGTATAAATAT-TAT
1 AATAAAAACATA-AAATATGT-T
6814677 AATAAAAACA-AAAAT
1 AATAAAAACATAAAAT
6814692 TATCAAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 4 0.14
21 11 0.38
22 14 0.48
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (21 bp):
AATAAAAACATAAAATATGTT
Found at i:6821086 original size:42 final size:42
Alignment explanation
Indices: 6821032--6821322 Score: 275
Period size: 42 Copynumber: 6.9 Consensus size: 42
6821022 GATTTTCTAT
* * *
6821032 TATTGTTTTTAATTGCTCAAATTTATAGTTAATGTTTTCTGT
1 TATTGTTCTTAATTGCTCAAATTTATAGTTAAGGTTTTCTGC
* *
6821074 TATTGTCCTTAATTGCTCAAATTTATATTTAAGGTTTTCTGC
1 TATTGTTCTTAATTGCTCAAATTTATAGTTAAGGTTTTCTGC
* * * * *
6821116 TATTGTTCTTAATTACTCGAAA-TAATAATTAGGGTTTTCTAC
1 TATTGTTCTTAATTGCTC-AAATTTATAGTTAAGGTTTTCTGC
** * * *
6821158 TATTGTTCTTAATTGCTCGAAA-CAATAGTTAGGGTTTCCTGT
1 TATTGTTCTTAATTGCTC-AAATTTATAGTTAAGGTTTTCTGC
* * *
6821200 TATTATTCTTAAATTGGTCAAAATTATAGTT-AGAGTTTTCTGC
1 TATTGTTCTT-AATTGCTCAAATTTATAGTTAAG-GTTTTCTGC
* * * * *
6821243 TATTATTTTTAATTACTCAAAATTT-TAGTTAGGGTTTTATGC
1 TATTGTTCTTAATTGCTC-AAATTTATAGTTAAGGTTTTCTGC
* *
6821285 TATTGTTCTTAATTACTTAAATTTATAGTTAAAGGTTT
1 TATTGTTCTTAATTGCTCAAATTTATAGTT-AAGGTTT
6821323 CTACTGTTTA
Statistics
Matches: 207, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
41 6 0.03
42 157 0.76
43 44 0.21
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.49
Consensus pattern (42 bp):
TATTGTTCTTAATTGCTCAAATTTATAGTTAAGGTTTTCTGC
Found at i:6821276 original size:127 final size:126
Alignment explanation
Indices: 6821024--6821323 Score: 334
Period size: 127 Copynumber: 2.4 Consensus size: 126
6821014 TGATCTATGA
* * ** * * *
6821024 TTTTCTATTATTGTTTTTAATTGCTCAAATTTATAGTTAATGTTTTCTGTTATTGTCCTTAATTG
1 TTTTCTACTATTGTTCTTAATTGCTCAAATCAATAGTTAAGGTTTCCTGTTATTATCCTTAATTG
* * * *
6821089 CTCAAATTTATATTTAAGGTTTTCTGCTATTGTTCTTAATTACTCGAAATAATAATTAGGG
66 CTCAAAATTATAGTTAAGGTTTTCTGCTATTATTCTTAATTACTCAAAATAATAATTAGGG
* *
6821150 TTTTCTACTATTGTTCTTAATTGCTCGAAA-CAATAGTTAGGGTTTCCTGTTATTATTCTTAAAT
1 TTTTCTACTATTGTTCTTAATTGCTC-AAATCAATAGTTAAGGTTTCCTGTTATTATCCTT-AAT
* * ** *
6821214 TGGTCAAAATTATAGTT-AGAGTTTTCTGCTATTATTTTTAATTACTCAAAATTTTAGTTAGGG
64 TGCTCAAAATTATAGTTAAG-GTTTTCTGCTATTATTCTTAATTACTCAAAATAATAATTAGGG
* * * * **
6821277 TTTTATGCTATTGTTCTTAATTACTTAAATTTATAGTTAAAGGTTTC
1 TTTTCTACTATTGTTCTTAATTGCTCAAATCAATAGTT-AAGGTTTC
6821324 TACTGTTTAG
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
126 52 0.36
127 85 0.59
128 7 0.05
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (126 bp):
TTTTCTACTATTGTTCTTAATTGCTCAAATCAATAGTTAAGGTTTCCTGTTATTATCCTTAATTG
CTCAAAATTATAGTTAAGGTTTTCTGCTATTATTCTTAATTACTCAAAATAATAATTAGGG
Found at i:6821877 original size:32 final size:32
Alignment explanation
Indices: 6821836--6821899 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
6821826 AAGACCTTAG
*
6821836 TTATAACAAAGTAAAA-ACTTATAATATAAATT
1 TTATAACAAAGTAAAAGA-TTATAATAGAAATT
6821868 TTATAACAAAGTAAAAGATTATAATAGAAATT
1 TTATAACAAAGTAAAAGATTATAATAGAAATT
6821900 AGATAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (32 bp):
TTATAACAAAGTAAAAGATTATAATAGAAATT
Found at i:6830550 original size:15 final size:15
Alignment explanation
Indices: 6830530--6830559 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6830520 TGAAAAAAAT
6830530 GTAGAGCCAAGCTCA
1 GTAGAGCCAAGCTCA
*
6830545 GTAGAGTCAAGCTCA
1 GTAGAGCCAAGCTCA
6830560 AATTTGTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (15 bp):
GTAGAGCCAAGCTCA
Found at i:6832813 original size:22 final size:22
Alignment explanation
Indices: 6832788--6832829 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6832778 GTTTAGTGAT
*
6832788 AGTTAAATTATAAAAAAAAATA
1 AGTTAAATGATAAAAAAAAATA
*
6832810 AGTTCAATGATAAAAAAAAA
1 AGTTAAATGATAAAAAAAAA
6832830 CTAAAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
AGTTAAATGATAAAAAAAAATA
Found at i:6835484 original size:24 final size:24
Alignment explanation
Indices: 6835454--6835505 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
6835444 AATGTTACAT
6835454 AATTAAAATTTTTTATTACATATA
1 AATTAAAATTTTTTATTACATATA
*
6835478 AATTAAATTTTTTTATTACATATA
1 AATTAAAATTTTTTATTACATATA
6835502 AATT
1 AATT
6835506 TTAATCTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTAAAATTTTTTATTACATATA
Found at i:6836038 original size:28 final size:27
Alignment explanation
Indices: 6836007--6836061 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
6835997 GTGTCTATTA
6836007 CAAAATTTACTTTGATAGATGTCTTTCT
1 CAAAATTTACTTT-ATAGATGTCTTTCT
* *
6836035 CAAAATTTACTTTTTTGATGTCTTTCT
1 CAAAATTTACTTTATAGATGTCTTTCT
6836062 TCGACTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (27 bp):
CAAAATTTACTTTATAGATGTCTTTCT
Found at i:6839756 original size:16 final size:16
Alignment explanation
Indices: 6839722--6839757 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6839712 ACTTATACTA
*
6839722 TTTTTTTATTTTTTAT
1 TTTTTTTATTTTTCAT
*
6839738 TTTTTTTATTTTTCCT
1 TTTTTTTATTTTTCAT
6839754 TTTT
1 TTTT
6839758 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTATTTTTCAT
Found at i:6840379 original size:61 final size:59
Alignment explanation
Indices: 6840153--6840379 Score: 165
Period size: 61 Copynumber: 3.7 Consensus size: 59
6840143 ACTTCTTTTT
* *
6840153 TTATAATTAATTAAAATTATTATAATTCTCTTCTTAA-CATAATTATTAAAATATCTCT-TA
1 TTATAATTAATCAAAATTATTATAA-T-TCTTC-TAACCATAATTATGAAAATATCTCTCTA
* ** **
6840213 TTATAATTGATCAAAATTATTAT-ATTGCCGCTACAACCATAATTATGAAAATGCCATC-CTA
1 TTATAATTAATCAAAATTATTATAATT-CTTCT--AACCATAATTATGAAAATATC-TCTCTA
* * ** * * * * *
6840274 CTATCATTAGCCAAAATTACTACAATGCCTTTCTTACCACAATTATGAAAATATCTCTCATA
1 TTATAATTAATCAAAATTATTATAAT-TC-TTCTAACCATAATTATGAAAATATCTCTC-TA
* *
6840336 TTATCATTAATCAAAATTATTATAATATCTTCTAATCATAATTA
1 TTATAATTAATCAAAATTATTATAAT-TCTTCTAACCATAATTA
6840380 AAAGAATGTA
Statistics
Matches: 125, Mismatches: 31, Indels: 21
0.71 0.18 0.12
Matches are distributed among these distances:
57 2 0.02
58 3 0.02
59 3 0.02
60 38 0.30
61 50 0.40
62 27 0.22
63 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (59 bp):
TTATAATTAATCAAAATTATTATAATTCTTCTAACCATAATTATGAAAATATCTCTCTA
Found at i:6840776 original size:25 final size:27
Alignment explanation
Indices: 6840725--6840776 Score: 90
Period size: 25 Copynumber: 2.0 Consensus size: 27
6840715 CTTTCTATAA
6840725 TTAACTAAAATTATTATAATACCCTTC
1 TTAACTAAAATTATTATAATACCCTTC
6840752 TTAAC-AAAATTATTA-AATACCCTTC
1 TTAACTAAAATTATTATAATACCCTTC
6840777 ATATCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 10 0.40
26 10 0.40
27 5 0.20
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (27 bp):
TTAACTAAAATTATTATAATACCCTTC
Found at i:6840787 original size:25 final size:26
Alignment explanation
Indices: 6840726--6840788 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
6840716 TTTCTATAAT
*
6840726 TAACTAAAATTATTATAATACCCTTCT
1 TAAC-AAAATTATTATAATACCCTTCA
6840753 TAACAAAATTATTA-AATACCCTTCA
1 TAACAAAATTATTATAATACCCTTCA
* *
6840778 TATCATAATTA
1 TAACAAAATTA
6840789 ATCAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 19 0.58
26 10 0.30
27 4 0.12
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.38
Consensus pattern (26 bp):
TAACAAAATTATTATAATACCCTTCA
Found at i:6841885 original size:43 final size:43
Alignment explanation
Indices: 6841833--6841932 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
6841823 ATTTCTTCAA
* * *
6841833 TGTGGTTTAATGAAAAATATTTTGCTCTTAAATCCTCTTACTT
1 TGTGGTTTAATGAAAAATATTTTCCTCTTAAATCCTCTAACGT
* ** * * **
6841876 TGTGGTTTAATGGAATTTTTTTTCCTCTTGAATTTTCTAACGT
1 TGTGGTTTAATGAAAAATATTTTCCTCTTAAATCCTCTAACGT
6841919 TGTGGTTTAATGAA
1 TGTGGTTTAATGAA
6841933 TCAAAATGTT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (43 bp):
TGTGGTTTAATGAAAAATATTTTCCTCTTAAATCCTCTAACGT
Found at i:6842808 original size:34 final size:33
Alignment explanation
Indices: 6842735--6842808 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
6842725 ACCTCTCTTA
*
6842735 ACAAAATTACTAAAATACCCATTACCATAATTT
1 ACAAAATTACTAAAATACCCATAACCATAATTT
* * *
6842768 ATCAAAATTACTATAATGTCCCTATAATCATAA-TT
1 A-CAAAATTACTAAAAT-ACCC-ATAACCATAATTT
6842803 ACAAAA
1 ACAAAA
6842809 ATGCGCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
33 1 0.03
34 19 0.56
35 6 0.18
36 8 0.24
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.31
Consensus pattern (33 bp):
ACAAAATTACTAAAATACCCATAACCATAATTT
Found at i:6843358 original size:19 final size:20
Alignment explanation
Indices: 6843336--6843375 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6843326 TTTGTGATTT
6843336 TTTTATTAATTTAT-TTTAG
1 TTTTATTAATTTATCTTTAG
* *
6843355 TTTTCTTGATTTATCTTTAG
1 TTTTATTAATTTATCTTTAG
6843375 T
1 T
6843376 CTTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTATTAATTTATCTTTAG
Found at i:6843576 original size:12 final size:12
Alignment explanation
Indices: 6843543--6843582 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6843533 AATATAGCAC
6843543 AAAAACACATAGG
1 AAAAACACATA-G
*
6843556 AAAAGACACACAG
1 AAAA-ACACATAG
6843569 AAAAACACATAG
1 AAAAACACATAG
6843581 AA
1 AA
6843583 GCAAATCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 9 0.38
13 9 0.38
14 6 0.25
ACGTcount: A:0.65, C:0.17, G:0.12, T:0.05
Consensus pattern (12 bp):
AAAAACACATAG
Found at i:6844287 original size:13 final size:13
Alignment explanation
Indices: 6844269--6844295 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6844259 TTAAATTTAA
6844269 AAAAATATAAAAT
1 AAAAATATAAAAT
6844282 AAAAATATAAAAT
1 AAAAATATAAAAT
6844295 A
1 A
6844296 TTTTTTGAGA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATATAAAAT
Done.