Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 346 of 410
Found at i:106823641 original size:90 final size:89
Alignment explanation
Indices: 106823547--106824141 Score: 848
Period size: 90 Copynumber: 6.6 Consensus size: 89
106823537 TTTGTATCTG
106823547 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTAT-TGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
106823612 ATCTATTTGTAGTTTGTTGGGTGTT
65 ATCTATTTGTAGTTTGTTGGGTGTT
* * * * *
106823637 TAAATTCAATTTAGTCTGTATTATATATAGTTTGAATTTAAAATTTTCATGCATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTAT-TGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
106823702 ATCTATTTGTAGTTTGTTGGGTGTT
65 ATCTATTTGTAGTTTGTTGGGTGTT
* * *
106823727 TAATTTTAATTTAGTCCATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTAT-TGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* * *
106823792 ATCTGTTTGTAGTTTATTGAGTGTT
65 ATCTATTTGTAGTTTGTTGGGTGTT
* * * * *
106823817 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGCATTAATTTCACCCT
1 TAAATTTAATTTAGTCCGTATTATTGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
*
106823882 TCTATTTGTAGTTTGTTAGGTGTT
66 TCTATTTGTAGTTTGTTGGGTGTT
* * * * *
106823906 TAAATTTAATTTACTCCGTATTATTTTTGTTTGAATTTAAAATTTGCGTGCATTAATTTTACCCA
1 TAAATTTAATTTAGTCCGTATTATTGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
* *
106823971 TTTGTTTGTAGTTTGTTGGGTGTT
66 TCTATTTGTAGTTTGTTGGGTGTT
* * *
106823995 TAAATTTAATTTAGTCTGTATTATTTGTAGTTTGGATTTAAAATTTTCGTGTATTAATTTTACTC
1 TAAATTTAATTTAGTCCGTATTA-TTGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* *
106824060 ATCTCTTTGTAGTTTGTTGAGTGTT
65 ATCTATTTGTAGTTTGTTGGGTGTT
* * * * *
106824085 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATTGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
106824142 ATTCTAAAAT
Statistics
Matches: 452, Mismatches: 52, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
89 186 0.41
90 266 0.59
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (89 bp):
TAAATTTAATTTAGTCCGTATTATTGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
TCTATTTGTAGTTTGTTGGGTGTT
Found at i:106824026 original size:268 final size:269
Alignment explanation
Indices: 106823547--106824141 Score: 931
Period size: 268 Copynumber: 2.2 Consensus size: 269
106823537 TTTGTATCTG
* * *
106823547 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTAT-TTTTGTTTGAATTTAAAATTTTCGTGTATTAATTTCACCC
* * *
106823612 ATCTATTTGTAGTTTGTTGGGTGTTTAAATTCAATTTAGTCTGTATTATATATAGTTTGAATTTA
65 ATCTATTTGTAGTTTGTTAGGTGTTTAAATTCAATTTACTCCGTATTATATATAGTTTGAATTTA
* *
106823677 AAATTTTCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTTTAATTTTAATTTAGT
130 AAATTTGCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGT
*
106823742 CCATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCCATCTGTTTGTAGTTT
195 CCATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCCATCTCTTTGTAGTTT
106823807 ATTGAGTGTT
260 ATTGAGTGTT
* *
106823817 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGCATTAATTTCACCCT
1 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGTATTAATTTCACCCA
* * *
106823882 TCTATTTGTAGTTTGTTAGGTGTTTAAATTTAATTTACTCCGTATTAT-TTTTGTTTGAATTTAA
66 TCTATTTGTAGTTTGTTAGGTGTTTAAATTCAATTTACTCCGTATTATATATAGTTTGAATTTAA
* * *
106823946 AATTTGCGTGCATTAATTTTACCCATTTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTC
131 AATTTGCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTC
** * * * * *
106824011 TGTATTATTTGTAGTTTGGATTTAAAATTTTCGTGTATTAATTTTACTCATCTCTTTGTAGTTTG
196 CATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCCATCTCTTTGTAGTTTA
106824076 TTGAGTGTT
261 TTGAGTGTT
* * *
106824085 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGTATTAAT
106824142 ATTCTAAAAT
Statistics
Matches: 297, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
268 193 0.65
269 80 0.27
270 24 0.08
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (269 bp):
TAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAAAATTTTCGTGTATTAATTTCACCCA
TCTATTTGTAGTTTGTTAGGTGTTTAAATTCAATTTACTCCGTATTATATATAGTTTGAATTTAA
AATTTGCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTC
CATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCCATCTCTTTGTAGTTTA
TTGAGTGTT
Found at i:106824036 original size:179 final size:178
Alignment explanation
Indices: 106823547--106824141 Score: 879
Period size: 179 Copynumber: 3.3 Consensus size: 178
106823537 TTTGTATCTG
106823547 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* * *
106823612 ATCTATTTGTAGTTTGTTGGGTGTTTAAATTCAATTTAGTCTGTATTATATATAGTTTGAATTTA
66 ATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTAT-TTTAGTTTGAATTTA
*
106823677 AAATTTTCATGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGGTGTT
130 AAATTTTCGTGCATTAATTTTACCCATCTATTTGTAGTTTGTT-GGTGTT
* * *
106823727 TAATTTTAATTTAGTCCATATTATATGTAGTTTGAATTTAAAATTTTCCTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* * * *
106823792 ATCTGTTTGTAGTTTATTGAGTGTTTAAATTTAATTTAGTCCGTATTATTTTTGTTTGAATTTAA
66 ATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATTTTAGTTTGAATTTAA
* *
106823857 AATTTTCGTGCATTAATTTCACCCTTCTATTTGTAGTTTGTTAGGTGTT
131 AATTTTCGTGCATTAATTTTACCCATCTATTTGTAGTTTGTT-GGTGTT
* * * * *
106823906 TAAATTTAATTTACTCCGTATTAT-TTTTGTTTGAATTTAAAATTTGCGTGCATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
* *
106823970 ATTTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATTTGTAGTTTGGATTTA
66 ATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATTT-TAGTTTGAATTTA
* * *
106824035 AAATTTTCGTGTATTAATTTTACTCATCTCTTTGTAGTTTGTTGAGTGTT
130 AAATTTTCGTGCATTAATTTTACCCATCTATTTGTAGTTTGTTG-GTGTT
* * * * *
106824085 TAAATTTAATTTAGTCCGTATTAT-TTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
106824142 ATTCTAAAAT
Statistics
Matches: 374, Mismatches: 39, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
178 83 0.22
179 185 0.49
180 106 0.28
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (178 bp):
TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
ATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATTATTTTAGTTTGAATTTAA
AATTTTCGTGCATTAATTTTACCCATCTATTTGTAGTTTGTTGGTGTT
Found at i:106827382 original size:25 final size:24
Alignment explanation
Indices: 106827354--106827431 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
106827344 TCTTATGAGG
* *
106827354 TTACCGATACTTAGCTCGTAAGAGC
1 TTACCGTTATTTAGCTCG-AAGAGC
106827379 TTACCGTTATTTAGCTCGAAGGAGC
1 TTACCGTTATTTAGCTCGAA-GAGC
*
106827404 TTA-CGTTATTTAGCTCGGAGGAGC
1 TTACCGTTATTTAGCTC-GAAGAGC
106827428 TTAC
1 TTAC
106827432 TATTTACAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 22 0.47
25 25 0.53
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (24 bp):
TTACCGTTATTTAGCTCGAAGAGC
Found at i:106827415 original size:24 final size:24
Alignment explanation
Indices: 106827364--106827431 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
106827354 TTACCGATAC
106827364 TTAGCTCGTAA-GAGCTTACCGTTAT
1 TTAGCTCG-AAGGAGCTTA-CGTTAT
106827389 TTAGCTCGAAGGAGCTTACGTTAT
1 TTAGCTCGAAGGAGCTTACGTTAT
*
106827413 TTAGCTCGGAGGAGCTTAC
1 TTAGCTCGAAGGAGCTTAC
106827432 TATTTACAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 26 0.63
25 15 0.37
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (24 bp):
TTAGCTCGAAGGAGCTTACGTTAT
Found at i:106831579 original size:40 final size:40
Alignment explanation
Indices: 106831530--106831681 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
106831520 ACAACCACAA
* * *** *
106831530 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
106831570 GCACCATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
106831610 GCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
106831650 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
106831682 CATTCAAATG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:106839567 original size:40 final size:40
Alignment explanation
Indices: 106839501--106839649 Score: 137
Period size: 39 Copynumber: 3.8 Consensus size: 40
106839491 ACAACCACAA
* * *** *
106839501 GCACAATTGCCTTC-GGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
106839540 GCACCATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* * *
106839580 GCACGA-TGCCTTCGGGTCTTAGCCCGGACATAATC-ACTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
106839619 GTA-AA-TGCCTTCGGGACTTAGCCCGCGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCG-GATAT
106839650 CATTCAAATG
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
38 20 0.22
39 48 0.52
40 25 0.27
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:106842581 original size:13 final size:13
Alignment explanation
Indices: 106842563--106842587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106842553 GGCTTATTAT
106842563 AAAAAAACAAAAA
1 AAAAAAACAAAAA
106842576 AAAAAAACAAAA
1 AAAAAAACAAAA
106842588 GTGAAAGATG
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAA
Found at i:106842979 original size:27 final size:27
Alignment explanation
Indices: 106842939--106842991 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
106842929 ATATAAAAGA
* * *
106842939 TAATAATAGTTTCGATTGAACGCTCGC
1 TAATAATAGATTCGATCGAACCCTCGC
*
106842966 TAATAATGGATTCGATCGAACCCTCG
1 TAATAATAGATTCGATCGAACCCTCG
106842992 TGAGTATATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (27 bp):
TAATAATAGATTCGATCGAACCCTCGC
Found at i:106844408 original size:2 final size:2
Alignment explanation
Indices: 106844401--106844437 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
106844391 AATACTTCAG
106844401 TA TA TA TA 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 TA T
106844438 TTATTGATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106849832 original size:18 final size:18
Alignment explanation
Indices: 106849811--106849850 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
106849801 ATATAATTTT
*
106849811 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
106849829 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
106849847 AAAA
1 AAAA
106849851 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:106849969 original size:30 final size:30
Alignment explanation
Indices: 106849933--106849995 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
106849923 ATTTAACAAG
106849933 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
106849963 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
106849993 CAA
1 CAA
106849996 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:106850050 original size:22 final size:22
Alignment explanation
Indices: 106850025--106850067 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
106850015 TATCCAAACA
106850025 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
106850047 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
106850068 AGTAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:106852244 original size:16 final size:16
Alignment explanation
Indices: 106852220--106852270 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
106852210 GGTTCACTGA
*
106852220 AATGGAATAGGGTTGT
1 AATGGAATAGAGTTGT
* *
106852236 AATGTAATAGAGATGT
1 AATGGAATAGAGTTGT
106852252 AATGGAATAGAGTTGT
1 AATGGAATAGAGTTGT
106852268 AAT
1 AAT
106852271 CAATAATTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.31
Consensus pattern (16 bp):
AATGGAATAGAGTTGT
Found at i:106854707 original size:25 final size:25
Alignment explanation
Indices: 106854648--106854734 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
106854638 GTACATGTAT
*
106854648 GCTCATACGAGCT--ATAAATGGGAA
1 GCTCATGCGAGCTGAAT-AATGGGAA
* *
106854672 GCTCCTCCGAGCTGAATAATGGGAA
1 GCTCATGCGAGCTGAATAATGGGAA
* * **
106854697 GCTCATGCGAGTTGAGT-ATCAAGAA
1 GCTCATGCGAGCTGAATAAT-GGGAA
106854722 GCTCATGCGAGCT
1 GCTCATGCGAGCT
106854735 ATGGTGTGTC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
24 13 0.25
25 36 0.71
26 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAATGGGAA
Found at i:106858460 original size:41 final size:41
Alignment explanation
Indices: 106858348--106858463 Score: 119
Period size: 41 Copynumber: 2.8 Consensus size: 41
106858338 ATAGTGATAT
* * ***
106858348 TCAGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCCGGTGAATAAAA
* *
106858389 TCGGGCTTT-ATGCCTAGCAGG-CTTAATGCCGGTGAATAAAA
1 TCAGGCTTTGA-GCCTAGCAGGCCTT-GTGCCGGTGAATAAAA
* *
106858430 TCAGACTTTGAGTCTAGCAGGCCTTGTGCCGGTG
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCCGGTG
106858464 TACGATTCAG
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
40 4 0.07
41 52 0.87
42 4 0.07
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
TCAGGCTTTGAGCCTAGCAGGCCTTGTGCCGGTGAATAAAA
Found at i:106862335 original size:12 final size:13
Alignment explanation
Indices: 106862317--106862348 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
106862307 TCGATATCTC
106862317 AATTTCAATTCAT
1 AATTTCAATTCAT
106862330 -ATTTCAATTCAT
1 AATTTCAATTCAT
106862342 AATTTCA
1 AATTTCA
106862349 CTTTCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:106866768 original size:2 final size:2
Alignment explanation
Indices: 106866757--106866788 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
106866747 TTGTTTCTTT
106866757 TA TA -A 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 T
106866789 TAGTTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:106866940 original size:31 final size:28
Alignment explanation
Indices: 106866899--106866966 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
106866889 TGTTTACCTC
*
106866899 ATAAAAATCTTATAATTTAATTAATTATCAA
1 ATAAAAATCTT-TAATTTAA-TAATAAT-AA
* *
106866930 ATAAACATCTTTTATTTAATAATAATAA
1 ATAAAAATCTTTAATTTAATAATAATAA
106866958 ATAATAAAT
1 ATAA-AAAT
106866967 ATCTATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.19
29 9 0.28
30 7 0.22
31 10 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (28 bp):
ATAAAAATCTTTAATTTAATAATAATAA
Found at i:106867266 original size:3 final size:3
Alignment explanation
Indices: 106867260--106867328 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
106867250 AATAAGATTA
106867260 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
106867307 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
106867329 CAACAAAATT
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:106867968 original size:13 final size:13
Alignment explanation
Indices: 106867948--106867987 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
106867938 GACTTTCTCG
106867948 TCAATCTCTCA-CT
1 TCAATCTCT-AGCT
*
106867961 TGAATCTCTAGCT
1 TCAATCTCTAGCT
106867974 TCAATCTCTAGCT
1 TCAATCTCTAGCT
106867987 T
1 T
106867988 TATATGCCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 1 0.04
13 23 0.96
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (13 bp):
TCAATCTCTAGCT
Found at i:106870329 original size:25 final size:25
Alignment explanation
Indices: 106870301--106870358 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
106870291 AATGGGAGCC
106870301 CATGCGAGCTGAGTATCGAGAAGCT
1 CATGCGAGCTGAGTATCGAGAAGCT
*
106870326 CATGCGAGCTGAGTATCGGGAAGCT
1 CATGCGAGCTGAGTATCGAGAAGCT
106870351 CATGCGAG
1 CATGCGAG
106870359 TTGTGGCGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.19
Consensus pattern (25 bp):
CATGCGAGCTGAGTATCGAGAAGCT
Found at i:106872967 original size:13 final size:13
Alignment explanation
Indices: 106872951--106872975 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106872941 TATTCTGATG
106872951 GTTTTCTTCGATT
1 GTTTTCTTCGATT
106872964 GTTTTCTTCGAT
1 GTTTTCTTCGAT
106872976 CTTCTCTGCT
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:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (13 bp):
GTTTTCTTCGATT
Found at i:106874587 original size:39 final size:39
Alignment explanation
Indices: 106874516--106874659 Score: 184
Period size: 39 Copynumber: 3.7 Consensus size: 39
106874506 ACCAGCTCGA
* * * * *
106874516 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
*
106874555 AGCCTGCGGACCTTAAGTTCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
106874594 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
106874633 AGCCTGCGGACGC-TAAGTTCGGATATA
1 AGCCTGCGGAC-CTTAAGTCCGGATATA
106874660 CATCATTGAA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 3 0.03
39 90 0.96
40 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:106882968 original size:22 final size:21
Alignment explanation
Indices: 106882918--106882969 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
106882908 AAGTGCTGAG
106882918 TAATAGGCACCGAAGTGTAAA
1 TAATAGGCACCGAAGTGTAAA
*
106882939 TCAGTAGGCACC-ATAGTGTAAA
1 T-AATAGGCACCGA-AGTGTAAA
106882961 CTAATAGGC
1 -TAATAGGC
106882970 CTCGTAACGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.08
22 23 0.88
23 1 0.04
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TAATAGGCACCGAAGTGTAAA
Found at i:106887735 original size:14 final size:14
Alignment explanation
Indices: 106887716--106887743 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
106887706 AAAGGACAAA
106887716 AAAATTATTTTCTT
1 AAAATTATTTTCTT
106887730 AAAATTATTTTCTT
1 AAAATTATTTTCTT
106887744 GTTGTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
AAAATTATTTTCTT
Found at i:106887853 original size:30 final size:30
Alignment explanation
Indices: 106887819--106887880 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
106887809 ACTTATTTTA
106887819 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
106887849 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
106887879 TT
1 TT
106887881 TCTATGTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:106887970 original size:18 final size:18
Alignment explanation
Indices: 106887949--106887988 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
106887939 GAAATATTTA
*
106887949 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
106887967 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
106887985 TTTT
1 TTTT
106887989 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:106888020 original size:12 final size:12
Alignment explanation
Indices: 106887990--106888022 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
106887980 TATATTTTTT
106887990 AAAATT-ATATA
1 AAAATTAATATA
106888001 AAAA-TAATATA
1 AAAATTAATATA
106888012 AAAATTAATAT
1 AAAATTAATAT
106888023 GGGCAGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:106888981 original size:16 final size:16
Alignment explanation
Indices: 106888960--106889010 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
106888950 TGAATTATTG
106888960 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
106888976 ATTACATCTCTATTAC
1 ATTACAACTCTATTCC
*
106888992 ATTACAACCCTATTCC
1 ATTACAACTCTATTCC
106889008 ATT
1 ATT
106889011 TCAGTGAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:106891271 original size:30 final size:30
Alignment explanation
Indices: 106891235--106891296 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
106891225 ATTTATTTTA
106891235 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
106891265 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
106891295 TT
1 TT
106891297 TTGTTAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:106896800 original size:2 final size:2
Alignment explanation
Indices: 106896793--106896825 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
106896783 TCATCAATAA
106896793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106896826 CTGAAGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:106898275 original size:27 final size:27
Alignment explanation
Indices: 106898235--106898287 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
106898225 GATATACTCA
* * *
106898235 CGAGGGTTCGATCGAATCCATTATTAG
1 CGAGCGTTCAATCGAAACCATTATTAG
*
106898262 CGAGCGTTCAATCGAAACTATTATTA
1 CGAGCGTTCAATCGAAACCATTATTA
106898288 TCTTTTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
CGAGCGTTCAATCGAAACCATTATTAG
Found at i:106898657 original size:13 final size:13
Alignment explanation
Indices: 106898639--106898663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106898629 CATCTTTCAC
106898639 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
106898652 TTTTGTTTTTTT
1 TTTTGTTTTTTT
106898664 ATAATAAGCC
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTGTTTTTTTT
Found at i:106899261 original size:18 final size:19
Alignment explanation
Indices: 106899238--106899280 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
106899228 TAAATATGAC
106899238 ATATTTAAGACATGT-ATT
1 ATATTTAAGACATGTAATT
* * *
106899256 ATATTTTATACATTTAATT
1 ATATTTAAGACATGTAATT
106899275 ATATTT
1 ATATTT
106899281 TATAACATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATATTTAAGACATGTAATT
Found at i:106899294 original size:19 final size:18
Alignment explanation
Indices: 106899247--106899294 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
106899237 CATATTTAAG
*
106899247 ACATGTATTATATTTTAT
1 ACATATATTATATTTTAT
*
106899265 ACATTTAATTATATTTTAT
1 ACATAT-ATTATATTTTAT
106899284 AACATATATTA
1 -ACATATATTA
106899295 CAGTTGACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (18 bp):
ACATATATTATATTTTAT
Found at i:106903865 original size:24 final size:25
Alignment explanation
Indices: 106903779--106903865 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
106903769 GACACACCAT
** *
106903779 AGCTCGCATGAGCTTCTTGA-TACTC
1 AGCTCGCATGAGCTTC-CCATTATTC
*
106903804 AACTCGCATGAGCTTCCCATTATTC
1 AGCTCGCATGAGCTTCCCATTATTC
* *
106903829 AGCTCGGAGGAGCTTCCCATT-TAT-
1 AGCTCGCATGAGCTTCCCATTAT-TC
*
106903853 AGCTCGTATGAGC
1 AGCTCGCATGAGC
106903866 ATACATGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
24 13 0.25
25 38 0.75
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCCATTATTC
Found at i:106906261 original size:16 final size:16
Alignment explanation
Indices: 106906240--106906290 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
106906230 TGAATTATTG
106906240 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
106906256 ATTACATCTCTATTAC
1 ATTACAACTCTATTCC
*
106906272 ATTACAACCCTATTCC
1 ATTACAACTCTATTCC
106906288 ATT
1 ATT
106906291 TCAGTGAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:106908550 original size:30 final size:30
Alignment explanation
Indices: 106908514--106908576 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
106908504 ATTTATTTTA
106908514 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
106908544 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
106908574 TTG
1 TTG
106908577 CTTGTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:106908680 original size:18 final size:18
Alignment explanation
Indices: 106908659--106908698 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
106908649 GAAATATTTA
*
106908659 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
106908677 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
106908695 TTTT
1 TTTT
106908699 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:106914069 original size:2 final size:2
Alignment explanation
Indices: 106914062--106914098 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
106914052 TCATCAATAA
106914062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106914099 CTGAAGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:106915548 original size:27 final size:27
Alignment explanation
Indices: 106915508--106915560 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
106915498 GATATACTCA
* * *
106915508 CGAGGGTTCGATCGAATCCATTATTAG
1 CGAGCGTTCAATCGAAACCATTATTAG
*
106915535 CGAGCGTTCAATCGAAACTATTATTA
1 CGAGCGTTCAATCGAAACCATTATTA
106915561 TCTTTTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
CGAGCGTTCAATCGAAACCATTATTAG
Found at i:106915930 original size:13 final size:13
Alignment explanation
Indices: 106915912--106915936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106915902 CATCTTTCAC
106915912 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
106915925 TTTTGTTTTTTT
1 TTTTGTTTTTTT
106915937 ATAATAAGCC
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTGTTTTTTTT
Found at i:106916534 original size:18 final size:19
Alignment explanation
Indices: 106916511--106916553 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
106916501 TAAATATGAC
106916511 ATATTTAAGACATGT-ATT
1 ATATTTAAGACATGTAATT
* * *
106916529 ATATTTTATACATTTAATT
1 ATATTTAAGACATGTAATT
106916548 ATATTT
1 ATATTT
106916554 TATAACATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATATTTAAGACATGTAATT
Found at i:106916567 original size:19 final size:18
Alignment explanation
Indices: 106916520--106916567 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
106916510 CATATTTAAG
*
106916520 ACATGTATTATATTTTAT
1 ACATATATTATATTTTAT
*
106916538 ACATTTAATTATATTTTAT
1 ACATAT-ATTATATTTTAT
106916557 AACATATATTA
1 -ACATATATTA
106916568 CAGTTGACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (18 bp):
ACATATATTATATTTTAT
Found at i:106924754 original size:56 final size:56
Alignment explanation
Indices: 106924659--106924764 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 56
106924649 GTATAAGGTT
* * * *
106924659 GATATTGTGACACCCTAGTGTCTATGTCGCGACAATGAAGGCAGTATGCTCAGGCC
1 GATATTGCGACACCCTAGTGTCTACGTCACGACAATGAAGACAGTATGCTCAGGCC
* * *
106924715 GATATTGCGACACCCTAGTGTCTGCGTCACTACATTGAAGACAGTATGCT
1 GATATTGCGACACCCTAGTGTCTACGTCACGACAATGAAGACAGTATGCT
106924765 TAGCTTCATG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (56 bp):
GATATTGCGACACCCTAGTGTCTACGTCACGACAATGAAGACAGTATGCTCAGGCC
Found at i:106933340 original size:10 final size:9
Alignment explanation
Indices: 106933313--106933357 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
106933303 TACCTTAACC
*
106933313 TTTCTTTAT
1 TTTCTTTCT
106933322 TTTCTTTCT
1 TTTCTTTCT
106933331 TTTACTTTCT
1 TTT-CTTTCT
*
106933341 TTTGCTTTCC
1 TTT-CTTTCT
106933351 TTTCTTT
1 TTTCTTT
106933358 TTATAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:106934543 original size:23 final size:23
Alignment explanation
Indices: 106934493--106934544 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
106934483 AATTTTAAAA
* *
106934493 TTAGAATTATTTAGTAATAATAT
1 TTAGGATTATTTAGTAACAATAT
*
106934516 TTAGGATTATTTAGTGACAATAT
1 TTAGGATTATTTAGTAACAATAT
106934539 TTAGGA
1 TTAGGA
106934545 AAAATCTAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.44
Consensus pattern (23 bp):
TTAGGATTATTTAGTAACAATAT
Found at i:106942006 original size:2 final size:2
Alignment explanation
Indices: 106941999--106942033 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
106941989 GAAAAAGAAA
106941999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106942034 AGAGAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:106942146 original size:16 final size:16
Alignment explanation
Indices: 106942133--106942186 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
106942123 AGTGTAATGA
106942133 AATAGAGTTGTAATAC
1 AATAGAGTTGTAATAC
** *
106942149 AATAGAACTGTAATAG
1 AATAGAGTTGTAATAC
*
106942165 AATAGAGTTGTAATAG
1 AATAGAGTTGTAATAC
106942181 AATAGA
1 AATAGA
106942187 ACTGTAATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (16 bp):
AATAGAGTTGTAATAC
Found at i:106942161 original size:32 final size:32
Alignment explanation
Indices: 106942125--106942196 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 32
106942115 TTTGATTTAG
106942125 TGTAAT-GAAATAGAGTTGTAATACAATAGAAC
1 TGTAATAG-AATAGAGTTGTAATACAATAGAAC
*
106942157 TGTAATAGAATAGAGTTGTAATAGAATAGAAC
1 TGTAATAGAATAGAGTTGTAATACAATAGAAC
106942189 TGTAATAG
1 TGTAATAG
106942197 CAAGTCAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 37 0.97
33 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (32 bp):
TGTAATAGAATAGAGTTGTAATACAATAGAAC
Found at i:106942192 original size:16 final size:16
Alignment explanation
Indices: 106942141--106942196 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
106942131 GAAATAGAGT
*
106942141 TGTAATACAATAGAAC
1 TGTAATAGAATAGAAC
**
106942157 TGTAATAGAATAGAGT
1 TGTAATAGAATAGAAC
106942173 TGTAATAGAATAGAAC
1 TGTAATAGAATAGAAC
106942189 TGTAATAG
1 TGTAATAG
106942197 CAAGTCAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGAAC
Found at i:106942666 original size:13 final size:13
Alignment explanation
Indices: 106942644--106942676 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
106942634 TATGTTACTT
106942644 AAAGAATAATTTA
1 AAAGAATAATTTA
*
106942657 AAAGAGTAATTTA
1 AAAGAATAATTTA
106942670 AAA-AATA
1 AAAGAATA
106942677 GCTTGTCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 3 0.17
13 15 0.83
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (13 bp):
AAAGAATAATTTA
Found at i:106944200 original size:13 final size:13
Alignment explanation
Indices: 106944182--106944207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106944172 GTGAAGAACC
106944182 AAGCAGAGCACAA
1 AAGCAGAGCACAA
106944195 AAGCAGAGCACAA
1 AAGCAGAGCACAA
106944208 GAATTAATCT
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:0.54, C:0.23, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGCAGAGCACAA
Found at i:106956626 original size:20 final size:20
Alignment explanation
Indices: 106956601--106956666 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
106956591 GACCTGTATA
106956601 AAAAATTAAATATTTTTAAT
1 AAAAATTAAATATTTTTAAT
* * * *
106956621 AAAAATAAAAAATATTTATTT
1 AAAAATTAAATATTTTTA-AT
* *
106956642 CAAAA-TATATATTTTTAAT
1 AAAAATTAAATATTTTTAAT
106956661 ATAAAA
1 A-AAAA
106956667 AAAGAATCGT
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 1 0.03
20 27 0.82
21 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTAAATATTTTTAAT
Found at i:106957856 original size:371 final size:371
Alignment explanation
Indices: 106956809--106957920 Score: 2210
Period size: 371 Copynumber: 3.0 Consensus size: 371
106956799 TGGTCATCAA
106956809 TTTCTTCATTGTATTAGTCGGTCGTTATGTACTAATAAATTTTTTTATTAGTGAATAATAGTATC
1 TTTCTTCATTGTATTAGTCGGTCGTTATGTACTAATAAATTTTTTTATTAGTGAATAATAGTATC
106956874 AGTGTATTCTTTTTTATTTTTTATTGTGAAAAGTGATTTTTAAGAGAAATTTTTCTTTAAAAAAA
66 AGTGTATTCTTTTTTATTTTTTATTGTGAAAAGTGATTTTTAAGAGAAATTTTTCTTTAAAAAAA
106956939 AAAACTAGAGGATGTTATTAAGGGGCTGAATGTTGATTTATCTTTTACTCAAAATCCATTAACTT
131 AAAACTAGAGGATGTTATTAAGGGGCTGAATGTTGATTTATCTTTTACTCAAAATCCATTAACTT
106957004 ATTTTCTGCTTCAAAAATTCTTTTGTGGACTTAAATTTGTTGTCCTCTTTTAGATTTTGCTTGGT
196 ATTTTCTGCTTCAAAAATTCTTTTGTGGACTTAAATTTGTTGTCCTCTTTTAGATTTTGCTTGGT
106957069 AAAGTGAAAATAAAATTGGAAATATGAAAAATTCAAGAGATGGAAAATAGAAAAAAAATATAA-T
261 AAAGTGAAAATAAAATTGGAAATATGAAAAATTCAAGAGATGGAAAATAGAAAAAAAATATAATT
106957133 TTTTTTCATAAATGTGTTTGGCAAGAAAAACGAAAAAATATTTTTT
326 TTTTTTCATAAATGTGTTTGGCAAGAAAAACGAAAAAATATTTTTT
106957179 TTTCTTCATTGTATTAGTCGGTCGTTATGTACTAATAAA-TTTTTTATTAGTGAATAATAGTATC
1 TTTCTTCATTGTATTAGTCGGTCGTTATGTACTAATAAATTTTTTTATTAGTGAATAATAGTATC
106957243 AGTGTATTCTTTTTTATTTTTTATTGTGAAAAGTGATTTTTAAGAGAAATTTTTCTTTAAAAAAA
66 AGTGTATTCTTTTTTATTTTTTATTGTGAAAAGTGATTTTTAAGAGAAATTTTTCTTTAAAAAAA
106957308 AAAACTAGAGGATGTTATTAAGGGGCTGAATGTTGATTTATCTTTTACTCAAAATCCATTAACTT
131 AAAACTAGAGGATGTTATTAAGGGGCTGAATGTTGATTTATCTTTTACTCAAAATCCATTAACTT
106957373 ATTTTCTGCTTCAAAAATTCTTTTGTGGACTTAAATTTGTTGTCCTCTTTTAGATTTTGCTTGGT
196 ATTTTCTGCTTCAAAAATTCTTTTGTGGACTTAAATTTGTTGTCCTCTTTTAGATTTTGCTTGGT
106957438 AAAGTGAAAATAAAATTGGAAATATGAAAAATTCAAGAGATGGAAAATAGAAAAAAAATATAATT
261 AAAGTGAAAATAAAATTGGAAATATGAAAAATTCAAGAGATGGAAAATAGAAAAAAAATATAATT
106957503 TTTTTTCATAAATGTGTTTGGCAAGAAAAACGAAAAAATATTTTTT
326 TTTTTTCATAAATGTGTTTGGCAAGAAAAACGAAAAAATATTTTTT
106957549 TTTCTTCATTGTATTAGTCGGTCGTTATGTACTAATAAATTTTTTTATTAGTGAATAATAGTATC
1 TTTCTTCATTGTATTAGTCGGTCGTTATGTACTAATAAATTTTTTTATTAGTGAATAATAGTATC
106957614 AGTGTATTCTTTTTTATTTTTTATTGTGAAAAGTGATTTTTAAGAGAAATTTTTCTTTAAAAAAA
66 AGTGTATTCTTTTTTATTTTTTATTGTGAAAAGTGATTTTTAAGAGAAATTTTTCTTTAAAAAAA
106957679 AAAACTAGAGGATGTTATTAAGGGGCTGAATGTTGATTTATCTTTTACTCAAAATCCATTAACTT
131 AAAACTAGAGGATGTTATTAAGGGGCTGAATGTTGATTTATCTTTTACTCAAAATCCATTAACTT
106957744 ATTTTCTGCTTCAAAAATTCTTTTGTGGACTTAAATTTGTTGTCCTCTTTTAGATTTTGCTTGGT
196 ATTTTCTGCTTCAAAAATTCTTTTGTGGACTTAAATTTGTTGTCCTCTTTTAGATTTTGCTTGGT
106957809 AAAGTGAAAATAAAATTGGAAATATGAAAAATTCAAGAGATGGAAAATAGAAAAAAAATATAATT
261 AAAGTGAAAATAAAATTGGAAATATGAAAAATTCAAGAGATGGAAAATAGAAAAAAAATATAATT
106957874 TTTTTTCATAAATGTGTTTGGCAAGAAAAACGAAAAAATATTTTTT
326 TTTTTTCATAAATGTGTTTGGCAAGAAAAACGAAAAAATATTTTTT
106957920 T
1 T
106957921 CCCCTTTATT
Statistics
Matches: 740, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
369 283 0.38
370 125 0.17
371 332 0.45
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.42
Consensus pattern (371 bp):
TTTCTTCATTGTATTAGTCGGTCGTTATGTACTAATAAATTTTTTTATTAGTGAATAATAGTATC
AGTGTATTCTTTTTTATTTTTTATTGTGAAAAGTGATTTTTAAGAGAAATTTTTCTTTAAAAAAA
AAAACTAGAGGATGTTATTAAGGGGCTGAATGTTGATTTATCTTTTACTCAAAATCCATTAACTT
ATTTTCTGCTTCAAAAATTCTTTTGTGGACTTAAATTTGTTGTCCTCTTTTAGATTTTGCTTGGT
AAAGTGAAAATAAAATTGGAAATATGAAAAATTCAAGAGATGGAAAATAGAAAAAAAATATAATT
TTTTTTCATAAATGTGTTTGGCAAGAAAAACGAAAAAATATTTTTT
Found at i:106958441 original size:26 final size:27
Alignment explanation
Indices: 106958409--106958462 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
106958399 AAATTGATTA
106958409 AAATATTTA-TAATATAATATTTTATC
1 AAATATTTATTAATATAATATTTTATC
* * *
106958435 AAATATTTATTATTTTACTATTTTATC
1 AAATATTTATTAATATAATATTTTATC
106958462 A
1 A
106958463 TTTTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (27 bp):
AAATATTTATTAATATAATATTTTATC
Found at i:106958742 original size:21 final size:21
Alignment explanation
Indices: 106958717--106958771 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
106958707 ACCATTGTTT
* *
106958717 CTAATCTCACTGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
106958738 TTAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
106958759 CTAATCTCACCGC
1 CTAATCTCACCGC
106958772 CACCACTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:106959877 original size:21 final size:21
Alignment explanation
Indices: 106959851--106959891 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
106959841 TAACAGAATT
106959851 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
106959872 GCTGATGTGGCAAGTTAACT
1 GCTGATGTGGCAAGTTAACT
106959892 TGCCACGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:106960895 original size:12 final size:13
Alignment explanation
Indices: 106960877--106960906 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
106960867 CCTAAAATAA
106960877 ATTATATTTATAT
1 ATTATATTTATAT
106960890 -TTATATTTATAT
1 ATTATATTTATAT
106960902 ATTAT
1 ATTAT
106960907 GCGTGAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTATATTTATAT
Found at i:106965324 original size:47 final size:47
Alignment explanation
Indices: 106965215--106965317 Score: 181
Period size: 47 Copynumber: 2.2 Consensus size: 47
106965205 GTCACAGTAA
106965215 TGCAGATAAATTGTCACTTAATAATATTGTGAGCAAGCCACCACTTT
1 TGCAGATAAATTGTCACTTAATAATATTGTGAGCAAGCCACCACTTT
106965262 TGCAGATAAATTGTCACTTAATAATATTGTG-GACAAGCCACCACTTT
1 TGCAGATAAATTGTCACTTAATAATATTGTGAG-CAAGCCACCACTTT
*
106965309 TGTAGATAA
1 TGCAGATAA
106965318 TCTGTCATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
46 1 0.02
47 53 0.98
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (47 bp):
TGCAGATAAATTGTCACTTAATAATATTGTGAGCAAGCCACCACTTT
Found at i:106975287 original size:12 final size:13
Alignment explanation
Indices: 106975270--106975298 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
106975260 TATTTTATAT
106975270 TAAATAAAT-AAA
1 TAAATAAATAAAA
106975282 TAAATAAATAAAA
1 TAAATAAATAAAA
106975295 TAAA
1 TAAA
106975299 GACAAGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:106975504 original size:15 final size:15
Alignment explanation
Indices: 106975484--106975521 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
106975474 GAGAGCAGGG
*
106975484 GGAAGAAAGAAGGAA
1 GGAAGAAAGAAAGAA
*
106975499 GGAAGAAAAAAAGAA
1 GGAAGAAAGAAAGAA
106975514 GGAA-AAAG
1 GGAAGAAAG
106975522 GGAAAAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
GGAAGAAAGAAAGAA
Found at i:106978746 original size:20 final size:20
Alignment explanation
Indices: 106978709--106978746 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
106978699 TGATGGGGAG
*
106978709 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
106978729 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
106978747 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:106980697 original size:46 final size:46
Alignment explanation
Indices: 106980645--106980964 Score: 462
Period size: 46 Copynumber: 7.0 Consensus size: 46
106980635 AGTGTGCTCT
*
106980645 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
106980691 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
106980737 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
106980783 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
106980829 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ***
106980875 GTGTTATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
106980921 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
106980965 TCATGTCAAA
Statistics
Matches: 251, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 250 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:106994121 original size:3 final size:3
Alignment explanation
Indices: 106994113--106994214 Score: 65
Period size: 3 Copynumber: 36.0 Consensus size: 3
106994103 CCTAGGCAGT
* *
106994113 AGA AGA AGA AG- AGA A-A AAA AGA ACA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
* * * * * *
106994154 AGA AAA AGA AG- AGG AGG AGA AAA AGA AGA AGA AGA AG- AGG AGA AGG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
106994200 AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA
106994215 TAAAATGGAA
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
2 13 0.17
3 65 0.83
ACGTcount: A:0.65, C:0.02, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:106994156 original size:16 final size:16
Alignment explanation
Indices: 106994115--106994188 Score: 71
Period size: 16 Copynumber: 4.6 Consensus size: 16
106994105 TAGGCAGTAG
106994115 AAGAAGAAGAGAAAAA
1 AAGAAGAAGAGAAAAA
*
106994131 AAGAACAAGAGAAGAAA
1 AAGAAGAAGAGAA-AAA
* *
106994148 CAG-AGAAGA-AAAAG
1 AAGAAGAAGAGAAAAA
* *
106994162 AAGAGGAGGAGAAAAA
1 AAGAAGAAGAGAAAAA
106994178 GAAGAAGAAGA
1 -AAGAAGAAGA
106994189 AGAGGAGAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
14 4 0.09
15 6 0.14
16 21 0.48
17 13 0.30
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (16 bp):
AAGAAGAAGAGAAAAA
Found at i:106994183 original size:29 final size:29
Alignment explanation
Indices: 106994113--106994219 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 29
106994103 CCTAGGCAGT
* * * * *
106994113 AGAAGAAGAAGAGAAAAAAAGAACAAGAGA
1 AGAAAAAGAAGA-AGAAAAAGAAGAGGAGG
*
106994143 AGAAACAG-AGAAGAAAAAGAAGAGGAGG
1 AGAAAAAGAAGAAGAAAAAGAAGAGGAGG
* * *
106994171 AGAAAAAGAAGAAGAAGAAGAGGAGAAGG
1 AGAAAAAGAAGAAGAAAAAGAAGAGGAGG
* *
106994200 AGAAGAAGAATAAGATAAAA
1 AGAAAAAGAAGAAGA-AAAA
106994220 TGGAAGGAGA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
28 20 0.32
29 33 0.53
30 9 0.15
ACGTcount: A:0.65, C:0.02, G:0.31, T:0.02
Consensus pattern (29 bp):
AGAAAAAGAAGAAGAAAAAGAAGAGGAGG
Found at i:106994185 original size:23 final size:23
Alignment explanation
Indices: 106994114--106994214 Score: 82
Period size: 23 Copynumber: 4.5 Consensus size: 23
106994104 CTAGGCAGTA
*
106994114 GAAGAAGAAGA-GAAAAAAAGAA
1 GAAGAAGAAGAGGAGAAAAAGAA
* * * *
106994136 CAAG-AGAAGA-AACAGAGAAGAA
1 GAAGAAGAAGAGGAGA-AAAAGAA
* *
106994158 AAAGAAGAGGAGGAGAAAAAGAA
1 GAAGAAGAAGAGGAGAAAAAGAA
**
106994181 GAAGAAGAAGAGGAGAAGGAGAA
1 GAAGAAGAAGAGGAGAAAAAGAA
*
106994204 GAAGAATAAGA
1 GAAGAAGAAGA
106994215 TAAAATGGAA
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
21 8 0.13
22 12 0.19
23 40 0.65
24 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.01
Consensus pattern (23 bp):
GAAGAAGAAGAGGAGAAAAAGAA
Found at i:106996663 original size:11 final size:11
Alignment explanation
Indices: 106996649--106996719 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
106996639 CTCTAATATA
106996649 AATATTAAAAT
1 AATATTAAAAT
*
106996660 AATATTAAGAT
1 AATATTAAAAT
106996671 AATCATATAAAA-
1 AAT-AT-TAAAAT
* *
106996683 AATTTTAATAT
1 AATATTAAAAT
* **
106996694 AAAATTATTA-
1 AATATTAAAAT
106996704 AATATTAAAAT
1 AATATTAAAAT
106996715 AATAT
1 AATAT
106996720 AATATATGTT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
10 11 0.24
11 26 0.57
12 5 0.11
13 4 0.09
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:107027186 original size:17 final size:18
Alignment explanation
Indices: 107027138--107027187 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
107027128 AGAGAGCATG
107027138 TTTTTGGTGATTTTTTGA
1 TTTTTGGTGATTTTTTGA
* *
107027156 GTTTT-GT-CTATTTTT-A
1 TTTTTGGTGAT-TTTTTGA
107027172 TTTTTGGTGATTTTTT
1 TTTTTGGTGATTTTTT
107027188 TACAAAGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
16 6 0.24
17 14 0.56
18 5 0.20
ACGTcount: A:0.10, C:0.02, G:0.18, T:0.70
Consensus pattern (18 bp):
TTTTTGGTGATTTTTTGA
Found at i:107027187 original size:18 final size:18
Alignment explanation
Indices: 107027138--107027189 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
107027128 AGAGAGCATG
*
107027138 TTTTTGGTGATTTTTTGA
1 TTTTTGGTGATTTTTTTA
* * *
107027156 GTTTT-GT-CTATTTTTA
1 TTTTTGGTGATTTTTTTA
107027172 TTTTTGGTGATTTTTTTA
1 TTTTTGGTGATTTTTTTA
107027190 CAAAGCTAAC
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.12, C:0.02, G:0.17, T:0.69
Consensus pattern (18 bp):
TTTTTGGTGATTTTTTTA
Found at i:107033146 original size:43 final size:43
Alignment explanation
Indices: 107033098--107033183 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
107033088 TATGTGATTG
*
107033098 ATATTGAAATGGTAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
* *
107033141 ATATTGAAATGGCAAAGATGAGCAATGATTATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
107033184 TGAAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.49, C:0.02, G:0.26, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:107033309 original size:2 final size:2
Alignment explanation
Indices: 107033302--107033353 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
107033292 AATGCCATTG
107033302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107033344 AT AT AT AT AT
1 AT AT AT AT AT
107033354 TTGAATATGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107034094 original size:17 final size:17
Alignment explanation
Indices: 107034072--107034105 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
107034062 CACATGGGCG
*
107034072 TGTGTCATACACAGGCA
1 TGTGTCACACACAGGCA
*
107034089 TGTGTCACACACGGGCA
1 TGTGTCACACACAGGCA
107034106 GTACACATGG
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:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (17 bp):
TGTGTCACACACAGGCA
Found at i:107034295 original size:42 final size:43
Alignment explanation
Indices: 107034248--107034334 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
107034238 CACAGGCGTA
* * *
107034248 TGTCTCAACCGTGTGAGGCACACGGC-TGGCCACATGGGTGTG
1 TGTCTCAACCGTGTGAGACACACGGCTTAGCCACACGGGTGTG
***
107034290 TGTCTCGGTCGTGTGAGACACACGGCTTAGCCACACGGGTGTG
1 TGTCTCAACCGTGTGAGACACACGGCTTAGCCACACGGGTGTG
107034333 TG
1 TG
107034335 ATCCCTACAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
42 22 0.58
43 16 0.42
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.23
Consensus pattern (43 bp):
TGTCTCAACCGTGTGAGACACACGGCTTAGCCACACGGGTGTG
Found at i:107036385 original size:30 final size:29
Alignment explanation
Indices: 107036348--107036417 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
107036338 ATTAATAATA
*
107036348 ATAAAATTATATCTTGATCTTCT-AAAAA-T
1 ATAAAATTATAT-TTAATCTT-TAAAAAATT
107036377 ATAAAAATT-TAATTTAATCTTTAAAAAATT
1 AT-AAAATTAT-ATTTAATCTTTAAAAAATT
107036407 ATAAAATTATA
1 ATAAAATTATA
107036418 GACTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
28 1 0.03
29 22 0.63
30 12 0.34
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (29 bp):
ATAAAATTATATTTAATCTTTAAAAAATT
Found at i:107036433 original size:72 final size:72
Alignment explanation
Indices: 107036356--107036502 Score: 294
Period size: 72 Copynumber: 2.0 Consensus size: 72
107036346 TAATAAAATT
107036356 ATATCTTGATCTTCTAAAAATATAAAAATTTAATTTAATCTTTAAAAAATTATAAAATTATAGAC
1 ATATCTTGATCTTCTAAAAATATAAAAATTTAATTTAATCTTTAAAAAATTATAAAATTATAGAC
107036421 TATTAAA
66 TATTAAA
107036428 ATATCTTGATCTTCTAAAAATATAAAAATTTAATTTAATCTTTAAAAAATTATAAAATTATAGAC
1 ATATCTTGATCTTCTAAAAATATAAAAATTTAATTTAATCTTTAAAAAATTATAAAATTATAGAC
107036493 TATTAAA
66 TATTAAA
107036500 ATA
1 ATA
107036503 ATAAAATTAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (72 bp):
ATATCTTGATCTTCTAAAAATATAAAAATTTAATTTAATCTTTAAAAAATTATAAAATTATAGAC
TATTAAA
Found at i:107038951 original size:21 final size:21
Alignment explanation
Indices: 107038930--107038970 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
107038920 TGTTTTGTAA
*
107038930 TAAATATTTATATTATTTTAAT
1 TAAATATTTA-ATAATTTTAAT
*
107038952 TTAATATTTAATAATTTTA
1 TAAATATTTAATAATTTTA
107038971 TATATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAAATATTTAATAATTTTAAT
Found at i:107043034 original size:18 final size:18
Alignment explanation
Indices: 107043007--107043042 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
107042997 CAAAAAAAAA
107043007 TAAAAATAA-TAACAAGG
1 TAAAAATAATTAACAAGG
107043024 TAAACAATAATTAACAAGG
1 TAAA-AATAATTAACAAGG
107043043 AGGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.61, C:0.08, G:0.11, T:0.19
Consensus pattern (18 bp):
TAAAAATAATTAACAAGG
Found at i:107043482 original size:11 final size:11
Alignment explanation
Indices: 107043468--107043505 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
107043458 ATTTTTTTTG
107043468 TTATTTTGTTA
1 TTATTTTGTTA
*
107043479 TTATATTGTTA
1 TTATTTTGTTA
*
107043490 CTATTTTGTTA
1 TTATTTTGTTA
107043501 TTATT
1 TTATT
107043506 ATTTGAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (11 bp):
TTATTTTGTTA
Found at i:107043516 original size:22 final size:22
Alignment explanation
Indices: 107043469--107043516 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
107043459 TTTTTTTTGT
* *
107043469 TATTTTGTTATTATATTGTTAC
1 TATTTTGTTATTATATTGTGAA
107043491 TATTTTGTTATTATTATT-TGAA
1 TATTTTGTTATTA-TATTGTGAA
107043513 TATT
1 TATT
107043517 GTATAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (22 bp):
TATTTTGTTATTATATTGTGAA
Found at i:107044210 original size:6 final size:6
Alignment explanation
Indices: 107044199--107044285 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
107044189 CTTTTGTACA
* * * *
107044199 TCTTTT TCTTTT TC-TTT CCTTTT TCATTTCCC TCATTT TC-TTT CCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TC-TTT--T TCTTTT TCTTTT TCTTTT
*
107044248 TC-TTT TC-TTT TCTTCTCT TCCTTT TCTTTT TCTTTT TC
1 TCTTTT TCTTTT TCTT-T-T TCTTTT TCTTTT TCTTTT TC
107044286 CTACCCGTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 18 0.28
6 33 0.52
7 5 0.08
8 6 0.09
9 2 0.03
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:107044266 original size:26 final size:27
Alignment explanation
Indices: 107044202--107044283 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 27
107044192 TTGTACATCT
* *
107044202 TTTTCTTTTTCTTTCCTTTTTCATTTC
1 TTTTCATTTTCTTTCCTTTTTCTTTTC
**
107044229 -CCTCATTTTCTTTCCTTTTTCTTTTC
1 TTTTCATTTTCTTTCCTTTTTCTTTTC
*
107044255 TTTTC-TTCTC-TTCC-TTTTCTTTTTC
1 TTTTCATTTTCTTTCCTTTTTC-TTTTC
107044280 TTTT
1 TTTT
107044284 TCCTACCCGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 5 0.11
25 13 0.28
26 26 0.57
27 2 0.04
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTCATTTTCTTTCCTTTTTCTTTTC
Found at i:107044268 original size:25 final size:24
Alignment explanation
Indices: 107044236--107044283 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
107044226 TTCCCTCATT
107044236 TTCTTTCCTTTT-TCTTTTCTTTTC
1 TTCTTTCCTTTTCT-TTTTCTTTTC
107044260 TTCTCTTCCTTTTCTTTTTCTTTT
1 TTCT-TTCCTTTTCTTTTTCTTTT
107044284 TCCTACCCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 17 0.77
26 1 0.05
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTCCTTTTCTTTTTCTTTTC
Found at i:107045377 original size:178 final size:177
Alignment explanation
Indices: 107045071--107045411 Score: 488
Period size: 178 Copynumber: 1.9 Consensus size: 177
107045061 ACTTTGTTGG
* * *
107045071 AAAGATGTCTTCTTTGACAAACCCCTTATGGTGGAAGAAGATGTTAAATCCTAGGTTTCGAGTTA
1 AAAGATGTCTTCTTTGACAAACCCCTTATGGTGGAAAAAAATGTTAAATCCCAGGTTTCGAGTTA
* * * *
107045136 GAAATTTGATGGGTTTAGGAGAGTTCCTTGAAAATCTAGTCTGATCAAAGAGAAGAGGGGAAGGA
66 GAAATTCGATGGGTTTAGGAGAGATCCTTGAAAATCTAGTCTGATCAAAGAGAAAAAGGGAAGGA
*
107045201 GAAGATCATTTTGGAAGGCAGCAGTAAGCCGAAAGGCATCGGTAGAAC
131 GAAGATCA-TTCGGAAGGCAGCAGTAAGCCGAAAGGCATCGGTAGAAC
* * *
107045249 AAAGATGTCTTCTTTGGCAAACCCCTTATGGTGGAAAAAAATGTTGAATCCCAGGTTTCGGGTTA
1 AAAGATGTCTTCTTTGACAAACCCCTTATGGTGGAAAAAAATGTTAAATCCCAGGTTTCGAGTTA
* *
107045314 GGAATTCGATGGGTTT-GGAGGAGATCCTT-AGAAATCTAGTCTGATCAAAGGGAAAAAGGGAAG
66 GAAATTCGATGGGTTTAGGA-GAGATCCTTGA-AAATCTAGTCTGATCAAAGAGAAAAAGGGAAG
* * * *
107045377 GAGAGGATCATTCGGAAGGGAGTAGTAAGTCGAAA
129 GAGAAGATCATTCGGAAGGCAGCAGTAAGCCGAAA
107045412 AGTCACCAAC
Statistics
Matches: 144, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
177 25 0.17
178 119 0.83
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (177 bp):
AAAGATGTCTTCTTTGACAAACCCCTTATGGTGGAAAAAAATGTTAAATCCCAGGTTTCGAGTTA
GAAATTCGATGGGTTTAGGAGAGATCCTTGAAAATCTAGTCTGATCAAAGAGAAAAAGGGAAGGA
GAAGATCATTCGGAAGGCAGCAGTAAGCCGAAAGGCATCGGTAGAAC
Found at i:107060012 original size:5 final size:5
Alignment explanation
Indices: 107060002--107060050 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
107059992 ATAGAAGATA
* *
107060002 TTATT TTATT TTGTT TTATT AT-TT TTATT TT-TAT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTAT-T TTATT TTATT TTATT
107060051 ATTTTAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 32 0.86
6 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:107060033 original size:15 final size:14
Alignment explanation
Indices: 107060010--107060055 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
107060000 TATTATTTTA
*
107060010 TTTTGTTTTATTAT
1 TTTTATTTTATTAT
107060024 TTTTATTTTTATT-T
1 TTTTA-TTTTATTAT
107060038 ATTTTATTTTATTAT
1 -TTTTATTTTATTAT
107060053 TTT
1 TTT
107060056 AGGATTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTATTTTATTAT
Found at i:107060056 original size:13 final size:13
Alignment explanation
Indices: 107060007--107060056 Score: 64
Period size: 13 Copynumber: 3.6 Consensus size: 13
107059997 AGATATTATT
*
107060007 TTATTTTGTTTTA
1 TTATTTTATTTTA
107060020 TTATTTTTATTTTTA
1 TTA-TTTTA-TTTTA
107060035 TTTATTTTATTTTA
1 -TTATTTTATTTTA
107060049 TTATTTTA
1 TTATTTTA
107060057 GGATTAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 11 0.33
14 9 0.27
15 10 0.30
16 3 0.09
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:107062635 original size:18 final size:18
Alignment explanation
Indices: 107062609--107062653 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
107062599 CCCGTACCTG
*
107062609 ACACAAGTCGCGGCCACA
1 ACACAAGTCGCGCCCACA
* *
107062627 ACACTAGTCTCGCCCACA
1 ACACAAGTCGCGCCCACA
*
107062645 ACATAAGTC
1 ACACAAGTC
107062654 AAGATAATGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.38, G:0.16, T:0.13
Consensus pattern (18 bp):
ACACAAGTCGCGCCCACA
Found at i:107067005 original size:18 final size:18
Alignment explanation
Indices: 107066984--107067018 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
107066974 AAATAAACCA
*
107066984 ACAACACCCAATACCCAC
1 ACAAAACCCAATACCCAC
107067002 ACAAAACCCAATACCCA
1 ACAAAACCCAATACCCA
107067019 AGGTTGGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.46, G:0.00, T:0.06
Consensus pattern (18 bp):
ACAAAACCCAATACCCAC
Found at i:107070387 original size:5 final size:5
Alignment explanation
Indices: 107070377--107070425 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
107070367 ATAGAAGATA
* *
107070377 TTATT TTATT TTGTT TTATT AT-TT TTA-T TTATTT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTA-TT TTATT TTATT TTATT
107070426 ATTTTCGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 7 0.19
5 26 0.70
6 4 0.11
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:107071650 original size:14 final size:14
Alignment explanation
Indices: 107071611--107071646 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
107071601 TTTAAGTAAA
107071611 TATTAT-TTATTAT
1 TATTATATTATTAT
107071624 TATTATATTATTAT
1 TATTATATTATTAT
107071638 T-TTATATTA
1 TATTATATTA
107071647 ATTAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:107071838 original size:22 final size:22
Alignment explanation
Indices: 107071801--107071857 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
107071791 AATAAATAAT
107071801 AAATG-AAAA-AGAAACAAAAG-
1 AAATGAAAAAGAGAAAC-AAAGC
107071821 AAATGAAAAAGAGAAACAAAGC
1 AAATGAAAAAGAGAAACAAAGC
* *
107071843 AAACGAAACAGAGAA
1 AAATGAAAAAGAGAA
107071858 GAACAGGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 5 0.16
21 8 0.25
22 19 0.59
ACGTcount: A:0.70, C:0.09, G:0.18, T:0.04
Consensus pattern (22 bp):
AAATGAAAAAGAGAAACAAAGC
Found at i:107073025 original size:18 final size:18
Alignment explanation
Indices: 107073002--107073045 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
107072992 TAAATAAAGG
107073002 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGC
* *
107073020 TACTGAATATTTGACTGT
1 TACTGAATAATTGACTGC
107073038 TACTGAAT
1 TACTGAAT
107073046 TACTAATTAT
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:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:107077174 original size:25 final size:24
Alignment explanation
Indices: 107077132--107077182 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
107077122 TATCGTACTA
* * * *
107077132 ATATTTTTATTTTTTATAGTAATTT
1 ATATTTTTAATATATATA-TAAATT
107077157 ATATTTTTAATATATATATAAATT
1 ATATTTTTAATATATATATAAATT
107077181 AT
1 AT
107077183 GCAATTCTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTTTTAATATATATATAAATT
Found at i:107079174 original size:18 final size:18
Alignment explanation
Indices: 107079153--107079187 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
107079143 AAGAAAGCAA
* *
107079153 ATAAATAAATGAAAGAAT
1 ATAAACAAATAAAAGAAT
107079171 ATAAACAAATAAAAGAA
1 ATAAACAAATAAAAGAA
107079188 GGGGAAAGGG
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:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (18 bp):
ATAAACAAATAAAAGAAT
Found at i:107083168 original size:220 final size:221
Alignment explanation
Indices: 107082785--107083229 Score: 874
Period size: 220 Copynumber: 2.0 Consensus size: 221
107082775 GAGTGGACAA
107082785 AAGGAAATGTGGTTGAGAATCAGAAACAGATTCATTACCGAGAAAAACATGACGATAATTCATAA
1 AAGGAAATGTGGTTGAGAATCAGAAACAGATTCATTACCGAGAAAAACATGACGATAATTCATAA
107082850 AACCGGATATCATTTCAGTCCATGGAAACTTATAATTTCATTTGCATATTCTGATATGGAAAATT
66 AACCGGATATCATTTCAGTCCATGGAAACTTATAATTTCATTTGCATATTCTGATATGGAAAATT
*
107082915 TATTAAAATCTAACATTGTTTATGATATTTTCTGTTCTTTTCTTGTTTCCTACATTTTCCTAGCA
131 TATTAAAATCTAACATTGTTTAAGATATTTTCTGTTCTTTTCTTGTTTCCTACATTTTCCTAGCA
107082980 AACAAACAAACCCTTTCCCGTTAATC
196 AACAAACAAACCCTTTCCCGTTAATC
107083006 AAGGAAATGTGGTTGAGAATCAGAAACAGATTCATTACCGAGAAAAACATGACGATAATTCATAA
1 AAGGAAATGTGGTTGAGAATCAGAAACAGATTCATTACCGAGAAAAACATGACGATAATTCATAA
107083071 AACCGGATATCA-TTCAGTCCATGGAAACTTATAATTTCATTTGCATATTCTGATATGGAAAATT
66 AACCGGATATCATTTCAGTCCATGGAAACTTATAATTTCATTTGCATATTCTGATATGGAAAATT
107083135 TATTAAAATCTAACATTGTTTAAGATATTTTCTGTTCTTTTCTTGTTTCCTACATTTTCCTAGCA
131 TATTAAAATCTAACATTGTTTAAGATATTTTCTGTTCTTTTCTTGTTTCCTACATTTTCCTAGCA
107083200 AACAAACAAACCCTTTCCCGTTAATC
196 AACAAACAAACCCTTTCCCGTTAATC
107083226 AAGG
1 AAGG
107083230 TATCTCATTT
Statistics
Matches: 223, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
220 146 0.65
221 77 0.35
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (221 bp):
AAGGAAATGTGGTTGAGAATCAGAAACAGATTCATTACCGAGAAAAACATGACGATAATTCATAA
AACCGGATATCATTTCAGTCCATGGAAACTTATAATTTCATTTGCATATTCTGATATGGAAAATT
TATTAAAATCTAACATTGTTTAAGATATTTTCTGTTCTTTTCTTGTTTCCTACATTTTCCTAGCA
AACAAACAAACCCTTTCCCGTTAATC
Found at i:107086467 original size:50 final size:51
Alignment explanation
Indices: 107086390--107086518 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
107086380 GACCATGGCA
107086390 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
107086441 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
107086491 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
107086519 TTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:107086532 original size:31 final size:31
Alignment explanation
Indices: 107086494--107086642 Score: 212
Period size: 31 Copynumber: 4.8 Consensus size: 31
107086484 ACAAATGACA
* *
107086494 AGTGAAAAGTGGTAGCTTCAGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
107086525 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
107086556 AATGAAAAGTGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
107086587 AGTGAAAAGTGGTAG-TACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCT-TCGGCTACCTGATC
*
107086618 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
107086643 AAGAGACAAG
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.02
31 102 0.96
32 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:107086737 original size:47 final size:46
Alignment explanation
Indices: 107086667--107086831 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
107086657 AAGTGATTTT
* *
107086667 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
107086713 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
107086760 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
107086802 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
107086832 ATTATGTAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.29
46 27 0.25
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:107086819 original size:42 final size:42
Alignment explanation
Indices: 107086761--107086875 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
107086751 TATGTGATTC
*
107086761 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATG-AATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGAT-TATGAAAGAT
107086803 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTAAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATG-AAAGAT
* ** **
107086845 GTATAAGACCATAATTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
107086876 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 4 0.06
41 2 0.03
42 57 0.89
43 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATGAAAGAT
Found at i:107089467 original size:42 final size:42
Alignment explanation
Indices: 107089408--107089527 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
107089398 TTCGCAACAT
107089408 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
107089450 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
* * *
107089492 CTCCTCCATTTTTTTCATCTTTGCCTCATACTGTTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTG
107089528 CAGTTGTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.12, C:0.26, G:0.12, T:0.50
Consensus pattern (42 bp):
CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
Found at i:107091166 original size:26 final size:27
Alignment explanation
Indices: 107091137--107091189 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
107091127 TTGGTGTGAC
107091137 ATTTTGAAATAAAAAAATT-ATATTAA
1 ATTTTGAAATAAAAAAATTAATATTAA
107091163 ATTTTGAAATAAAAAAATTAATATTAA
1 ATTTTGAAATAAAAAAATTAATATTAA
107091190 CTTAGTAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (27 bp):
ATTTTGAAATAAAAAAATTAATATTAA
Found at i:107091441 original size:96 final size:95
Alignment explanation
Indices: 107091318--107091509 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 95
107091308 TTTCTAAAAA
*
107091318 TAGAAATATAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
1 TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
107091383 AATTTCTCTCGGTCTTTTACTATGGGCAGTT
66 AATTTCTCTCGGTCTTTTACTATGGGC-GTT
107091414 TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
1 TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
107091479 AATTTCTCTCGGTCTTTTACTATGGGCGTT
66 AATTTCTCTCGGTCTTTTACTATGGGCGTT
107091509 T
1 T
107091510 TAACCTAATC
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 4 0.04
96 91 0.96
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (95 bp):
TAGAAATACAGAGAATAAATTCCAAATTTACGAATAGTACTAGAACTTATGACATATTTTAACCT
AATTTCTCTCGGTCTTTTACTATGGGCGTT
Found at i:107097712 original size:33 final size:33
Alignment explanation
Indices: 107097670--107097793 Score: 203
Period size: 33 Copynumber: 3.8 Consensus size: 33
107097660 TTTCTTCTTG
*
107097670 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
107097703 ACATTCCAGCTCTTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
**
107097736 ACATTCCAGCTCCCATCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
107097769 ACATTCTAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
107097794 TGAAACAGAG
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.31, C:0.41, G:0.09, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:107102788 original size:30 final size:30
Alignment explanation
Indices: 107102752--107102813 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
107102742 TTATGTCAAG
107102752 TTAAATGGATATGTTGAGGGGTTCTGGCAT
1 TTAAATGGATATGTTGAGGGGTTCTGGCAT
*
107102782 TTAAATGGATATGTTGAGGGGTTCTGGTAT
1 TTAAATGGATATGTTGAGGGGTTCTGGCAT
107102812 TT
1 TT
107102814 TAACATAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.05, G:0.32, T:0.40
Consensus pattern (30 bp):
TTAAATGGATATGTTGAGGGGTTCTGGCAT
Found at i:107106180 original size:9 final size:9
Alignment explanation
Indices: 107106166--107106224 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
107106156 ATAAGTATAA
107106166 AATTAACCG
1 AATTAACCG
*
107106175 AATTAATCG
1 AATTAACCG
107106184 AATTAACCG
1 AATTAACCG
*
107106193 AATTACCCG
1 AATTAACCG
* *
107106202 AATTACCCA
1 AATTAACCG
107106211 AATTAACCG
1 AATTAACCG
107106220 AATTA
1 AATTA
107106225 TTTGTATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:107110208 original size:17 final size:19
Alignment explanation
Indices: 107110166--107110209 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
107110156 ATGAAATTTT
*
107110166 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
107110185 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
107110203 AA-TATTA
1 AATTATTA
107110210 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:107111074 original size:43 final size:43
Alignment explanation
Indices: 107111013--107111100 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
107111003 CTGAACGCGC
107111013 GTGGGAAGGACAGTACGGGATTGAAACGCTACCAGCTGCAGGA
1 GTGGGAAGGACAGTACGGGATTGAAACGCTACCAGCTGCAGGA
*
107111056 GTGGGAAGGACCGTACGGGATTGAAACGCTACCAGCTGCAGGA
1 GTGGGAAGGACAGTACGGGATTGAAACGCTACCAGCTGCAGGA
107111099 GT
1 GT
107111101 AGTCGGCTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.38, T:0.15
Consensus pattern (43 bp):
GTGGGAAGGACAGTACGGGATTGAAACGCTACCAGCTGCAGGA
Found at i:107112673 original size:25 final size:25
Alignment explanation
Indices: 107112645--107112692 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
107112635 TTATAATATG
* * *
107112645 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
107112670 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
107112693 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:107112776 original size:11 final size:11
Alignment explanation
Indices: 107112740--107112795 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
107112730 CATGGTATGT
107112740 ATGATATGCAC
1 ATGATATGCAC
* *
107112751 ATGACATG--T
1 ATGATATGCAC
107112760 ATGATATGCAC
1 ATGATATGCAC
*
107112771 ATGATATG--T
1 ATGATATGCAC
107112780 ATGATATGCAC
1 ATGATATGCAC
107112791 ATGAT
1 ATGAT
107112796 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:107112795 original size:20 final size:20
Alignment explanation
Indices: 107112729--107112795 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
107112719 ATTTTGATAA
*
107112729 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
107112749 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
107112769 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
107112789 ACATGAT
1 ACATGAT
107112796 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:107112909 original size:23 final size:24
Alignment explanation
Indices: 107112844--107112926 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 24
107112834 GGAGGAAGTG
107112844 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
107112868 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
107112893 TAAAAGGGCTT-TACCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
107112916 TAAAAGAGGCT
1 TAAAAG-GGCT
107112927 AGGCCTCCGG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
23 17 0.31
24 14 0.26
25 23 0.43
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:107113169 original size:31 final size:31
Alignment explanation
Indices: 107113134--107113197 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
107113124 CGTTTACAGT
* *
107113134 AAAGGCTTCGGCCCAGTAATGTGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
**
107113165 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
107113196 AA
1 AA
107113198 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:107117215 original size:20 final size:20
Alignment explanation
Indices: 107117190--107117238 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
107117180 TTATAATTTT
107117190 GTATCGATATCGTATCACGA
1 GTATCGATATCGTATCACGA
107117210 GTATCGATATCGTATCACGA
1 GTATCGATATCGTATCACGA
*
107117230 GTATTGATA
1 GTATCGATA
107117239 CTTGTGGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATCGATATCGTATCACGA
Found at i:107117928 original size:20 final size:21
Alignment explanation
Indices: 107117903--107117949 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
107117893 GCATAGGAGA
107117903 GCCAAAGGAAC-GAG-AAACGG
1 GCCAAA-GAACAGAGAAAACGG
*
107117923 GCCAAA-AACAGAGAAAATGG
1 GCCAAAGAACAGAGAAAACGG
107117943 GCCAAAG
1 GCCAAAG
107117950 TACGAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 3 0.13
20 17 0.74
ACGTcount: A:0.49, C:0.19, G:0.30, T:0.02
Consensus pattern (21 bp):
GCCAAAGAACAGAGAAAACGG
Found at i:107118430 original size:14 final size:14
Alignment explanation
Indices: 107118411--107118449 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
107118401 ATATTTGACT
107118411 TGTTCTTAATTATG
1 TGTTCTTAATTATG
107118425 TGTTCTTAATTATG
1 TGTTCTTAATTATG
107118439 TGTTCTTAATT
1 TGTTCTTAATT
107118450 CTTGTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:107130202 original size:21 final size:20
Alignment explanation
Indices: 107130174--107130214 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
107130164 AGGTATAATG
107130174 GCCAAGCTTA-ATCATATTCA
1 GCCAAGCTTATAT-ATATTCA
107130194 GCCATAGCTTATATATATTCA
1 GCCA-AGCTTATATATATTCA
107130215 CAAATTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 13 0.68
22 2 0.11
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
GCCAAGCTTATATATATTCA
Found at i:107131690 original size:84 final size:84
Alignment explanation
Indices: 107131498--107131706 Score: 213
Period size: 84 Copynumber: 2.5 Consensus size: 84
107131488 TGCACTACTT
* * * * **
107131498 ATGCTAGTATATTTACTTTGGCTT-ATTTGATGATGCACTTACGTGCCAGTATGTTTGCTTTGGT
1 ATGCTAGTATATTTGCTTTGG-TTCATTTGATGATGCACTTACATGCCAATATATTTGCTTCAGT
* * * *
107131562 TTATCTAATAATGCATTTAC
65 TCATCCAATAATGCACTTAA
* * * * *** *
107131582 GTACCAGTATAATTGCTCCAGTTCATTTGATAATGCACTTACATGCCAATATATTTGCTTCAGTT
1 ATGCTAGTATATTTGCTTTGGTTCATTTGATGATGCACTTACATGCCAATATATTTGCTTCAGTT
*
107131647 CATCCAATTATGCACTTAA
66 CATCCAATAATGCACTTAA
* *
107131666 ATGCTAGTATATTTGTTTTGGTTCATCTGATGATGCACTTA
1 ATGCTAGTATATTTGCTTTGGTTCATTTGATGATGCACTTA
107131707 TGTACTAGTA
Statistics
Matches: 95, Mismatches: 29, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
83 2 0.02
84 93 0.98
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (84 bp):
ATGCTAGTATATTTGCTTTGGTTCATTTGATGATGCACTTACATGCCAATATATTTGCTTCAGTT
CATCCAATAATGCACTTAA
Done.