Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold24
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: 3006277
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.30
Warning! 383161 characters in sequence are not A, C, G, or T
File 5 of 19
Found at i:551939 original size:13 final size:13
Alignment explanation
Indices: 551921--551945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
551911 CATAAAATGT
551921 TGTATCGATACAA
1 TGTATCGATACAA
551934 TGTATCGATACA
1 TGTATCGATACA
551946 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:552026 original size:13 final size:13
Alignment explanation
Indices: 552008--552032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
551998 ATTACTCAAA
552008 TGTATCGATACAT
1 TGTATCGATACAT
552021 TGTATCGATACA
1 TGTATCGATACA
552033 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:552134 original size:52 final size:52
Alignment explanation
Indices: 552041--552164 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
552031 CACTGATCTT
*
552041 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
552092 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
552144 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
552165 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:561336 original size:21 final size:20
Alignment explanation
Indices: 561299--561337 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
561289 ATATATTAAA
**
561299 ATTTAAAATATTTAAATATT
1 ATTTAAAATATAAAAATATT
561319 ATTTAAATATATAAAAATA
1 ATTTAAA-ATATAAAAATA
561338 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTAAAATATAAAAATATT
Found at i:561341 original size:19 final size:19
Alignment explanation
Indices: 561298--561342 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
561288 TATATATTAA
* *
561298 AATTTAAAATATTTAAATAT
1 AATTT-AAATATATAAAAAT
*
561318 TATTTAAATATATAAAAAT
1 AATTTAAATATATAAAAAT
561337 AATTTA
1 AATTTA
561343 TTAATACATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTAAATATATAAAAAT
Found at i:561464 original size:21 final size:21
Alignment explanation
Indices: 561431--561494 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
561421 TATAAATTTT
561431 ACTATTAAT-TTTAATCTCATC
1 ACTA-TAATATTTAATCTCATC
561452 ACTATAATATTTAATCTCATC
1 ACTATAATATTTAATCTCATC
* *
561473 ATTATAATAATTAATCTCATC
1 ACTATAATATTTAATCTCATC
561494 A
1 A
561495 TTATTATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.10
21 36 0.90
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (21 bp):
ACTATAATATTTAATCTCATC
Found at i:561482 original size:24 final size:23
Alignment explanation
Indices: 561436--561513 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 23
561426 ATTTTACTAT
*
561436 TAAT-TTTAATCTCATCA--CTA
1 TAATATTTAATCTCATCATTATA
561456 TAATATTTAATCTCATCA-T-TA
1 TAATATTTAATCTCATCATTATA
*
561477 TAATAATTAATCTCATCATTATTA
1 TAATATTTAATCTCATCATTA-TA
* *
561501 TTATTTTTAATCT
1 TAATATTTAATCT
561514 TGTTGAAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.08
21 32 0.65
22 1 0.02
24 12 0.24
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATATTTAATCTCATCATTATA
Found at i:561495 original size:21 final size:21
Alignment explanation
Indices: 561441--561498 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
561431 ACTATTAATT
* *
561441 TTAATCTCATCACTATAATAT
1 TTAATCTCATCATTATAATAA
561462 TTAATCTCATCATTATAATAA
1 TTAATCTCATCATTATAATAA
561483 TTAATCTCATCATTAT
1 TTAATCTCATCATTAT
561499 TATTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAATCTCATCATTATAATAA
Found at i:565068 original size:4 final size:4
Alignment explanation
Indices: 565059--565097 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
565049 ATTAATATTT
565059 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
565098 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:565102 original size:2 final size:2
Alignment explanation
Indices: 565095--565124 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
565085 ACATACATAC
565095 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
565125 GCCAAATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:572549 original size:24 final size:25
Alignment explanation
Indices: 572503--572560 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
572493 AAATAATAAA
572503 AAATTAAAAAAATATTTTTATTATT
1 AAATTAAAAAAATATTTTTATTATT
* *
572528 AAATTTAAATAAT-TTTTTATTATT
1 AAATTAAAAAAATATTTTTATTATT
572552 AAA-TAAAAA
1 AAATTAAAAA
572561 TTCATGTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.14
24 14 0.48
25 11 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTAAAAAAATATTTTTATTATT
Found at i:587998 original size:7 final size:8
Alignment explanation
Indices: 587981--588010 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
587971 TATTATGAAT
587981 AAAAATAA
1 AAAAATAA
587989 AAAAATAA
1 AAAAATAA
*
587997 AAAAACAA
1 AAAAATAA
588005 AAAAAT
1 AAAAAT
588011 CGAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:589108 original size:43 final size:43
Alignment explanation
Indices: 589040--589988 Score: 1107
Period size: 43 Copynumber: 22.3 Consensus size: 43
589030 CATTAAACTT
*
589040 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
** * * *
589082 CTAAAGATTTTCCTATCTCTTAGTCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589125 CTGGAGACTTTTCTATCCCTTAGTCTACTTGTCGGCTTTGA-C
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
589167 ATCGGAGACTTTCCT-TTCCTTAGTCTGCTTGTTGGCTTTGACC
1 CT-GGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
589210 TTGGAGATTTTTCT-TCCCTTAGTCTGCCTGTCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589252 CTGGATATTTTTCT-TCCCTTAGTCTGCC-GTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589293 TTGGAGACTTTCCTATCCCTTAGTCTGCGTGTCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
589336 CTAGAGACTTTCCTATCCCTTAGTCTGTCTATCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589379 CTAGAGACTTT-CTTTCCCTTAGTCTGCCTGTCGGTTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589421 TTGGAGACTTTCCTATCCCTTAGTCTGCTTGTTGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
589464 TTGAAGACTTTCCT-TCCCTTAGTTTGCCTATCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* *
589506 TTGGAGACTTTCCTATCCCTTAGTCTGCCTGTTGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
*
589549 CTGGAGACTTTCCTATCCCTTAGTCTGCTTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589592 CTAGAGACTTTCCT-TCCCTTAGTTTGCTTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
** *
589634 CTAAAGACTTTCCT-TCCCTTAGTCTGCCTGTTGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
** * * * * *
589676 CTATAAACTTTCTTATTCCTTAGTCTGCCAGTTGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589719 CTAGAGACTTTCCT-TCCCTTAGTCTGCTTGTCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589761 CTAGACACTTTCCTATCCCTTAGTCTGCCTGTCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * ** *
589804 CTGGAGACTTTCCT-TCTCTTAGTTTGCCTGTCAACTTTAACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589846 CTAGAGACTTTCCT-TGCCCTTAGTCTG-CTGGTCAGTTTTGACC
1 CTGGAGACTTTCCTAT-CCCTTAGTCTGCCT-GTCGGCTTTGACC
* * *
589889 CTGGAGACTTTCGTATCCCTTAATCTGCCTGTCGGCTTTGACT
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
589932 CTAGAGACTTTCCTATCCCTTAGTCTACCTGTCGACTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
589975 CTGGAGACTTTCCT
1 CTGGAGACTTTCCT
589989 CAGTCTGCCT
Statistics
Matches: 785, Mismatches: 109, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
41 22 0.03
42 332 0.42
43 428 0.55
44 3 0.00
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (43 bp):
CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
Found at i:589132 original size:85 final size:85
Alignment explanation
Indices: 589040--589988 Score: 1147
Period size: 85 Copynumber: 11.2 Consensus size: 85
589030 CATTAAACTT
* * * *
589040 CTGGAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTAAAGATTTTCCTATCTCTTAG
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
*
589105 TCTGCCTATCGGCTTTGACC
66 TCTGCCTGTCGGCTTTGACC
* * * * * *
589125 CTGGAGACTTTTCTATCCCTTAGTCTACTTGTCGGCTTTGA-CATCGGAGACTTTCCT-TTCCTT
1 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCT-AGAGACTTTCCTATCCCTT
* *
589188 AGTCTGCTTGTTGGCTTTGACC
64 AGTCTGCCTGTCGGCTTTGACC
* * * * * * * *
589210 TTGGAGATTTTTCTTCCCTTAGTCTGCCTGTCAGCTTTGACCCTGGATATTTTTCT-TCCCTTAG
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
589274 TCTGCC-GTCGGCTTTGACC
66 TCTGCCTGTCGGCTTTGACC
* * *
589293 TTGGAGACTTTCCTATCCCTTAGTCTGCGTGTCAGCTTTGACCCTAGAGACTTTCCTATCCCTTA
1 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTA
* * *
589358 GTCTGTCTATCAGCTTTGACC
65 GTCTGCCTGTCGGCTTTGACC
* * * * *
589379 CTAGAGACTTTCTTTCCCTTAGTCTGCCTGTCGGTTTTGACCTTGGAGACTTTCCTATCCCTTAG
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
* *
589444 TCTGCTTGTTGGCTTTGACC
66 TCTGCCTGTCGGCTTTGACC
* * * * * * *
589464 TTGAAGACTTTCCTTCCCTTAGTTTGCCTATCAGCTTTGACCTTGGAGACTTTCCTATCCCTTAG
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
*
589529 TCTGCCTGTTGGCTTTGACC
66 TCTGCCTGTCGGCTTTGACC
*
589549 CTGGAGACTTTCCTATCCCTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTCCT-TCCCTTA
1 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTA
* *
589613 GTTTGCTTGTCGGCTTTGACC
65 GTCTGCCTGTCGGCTTTGACC
** * * * * *
589634 CTAAAGACTTTCCTTCCCTTAGTCTGCCTGTTGGCTTTGACCCTATAAACTTTCTTATTCCTTAG
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
* *
589699 TCTGCCAGTTGGCTTTGACC
66 TCTGCCTGTCGGCTTTGACC
* * * *
589719 CTAGAGACTTTCCTTCCCTTAGTCTGCTTGTCAGCTTTGACCCTAGACACTTTCCTATCCCTTAG
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
*
589784 TCTGCCTGTCAGCTTTGACC
66 TCTGCCTGTCGGCTTTGACC
* * ** *
589804 CTGGAGACTTTCCTTCTCTTAGTTTGCCTGTCAACTTTAACCCTAGAGACTTTCCT-TGCCCTTA
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTAT-CCCTTA
* *
589868 GTCTG-CTGGTCAGTTTTGACC
65 GTCTGCCT-GTCGGCTTTGACC
* * *
589889 CTGGAGACTTTCGTATCCCTTAATCTGCCTGTCGGCTTTGACTCTAGAGACTTTCCTATCCCTTA
1 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTA
* *
589954 GTCTACCTGTCGACTTTGACC
65 GTCTGCCTGTCGGCTTTGACC
589975 CTGGAGACTTTCCT
1 CTGGAGACTTTCCT
589989 CAGTCTGCCT
Statistics
Matches: 739, Mismatches: 112, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
83 24 0.03
84 121 0.16
85 433 0.59
86 158 0.21
87 3 0.00
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (85 bp):
CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTTAG
TCTGCCTGTCGGCTTTGACC
Found at i:590061 original size:79 final size:79
Alignment explanation
Indices: 589959--590133 Score: 305
Period size: 79 Copynumber: 2.2 Consensus size: 79
589949 CCTTAGTCTA
* *
589959 CCTGTCGACTTTGACCCTGGAGACTTTCCTCAGTCTGCCTGTTGGCTTTAACCCTGAAGACTGCC
1 CCTGTCGACTTTGACCCTAGAGACTTTCCTCAGTCTGCCTATTGGCTTTAACCCTGAAGACTGCC
590024 TCATCTAAAGTTTG
66 TCATCTAAAGTTTG
* * *
590038 TCTGTCGACTTTGACCCTAGAGACTTTTCTCAGTCTGCCTATTGGCTTTAACCCTGAAGACTGCT
1 CCTGTCGACTTTGACCCTAGAGACTTTCCTCAGTCTGCCTATTGGCTTTAACCCTGAAGACTGCC
590103 TCATCTAAAGTTTG
66 TCATCTAAAGTTTG
590117 CCTGTCGACTTTGACCC
1 CCTGTCGACTTTGACCC
590134 GGGAGAATCT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 90 1.00
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (79 bp):
CCTGTCGACTTTGACCCTAGAGACTTTCCTCAGTCTGCCTATTGGCTTTAACCCTGAAGACTGCC
TCATCTAAAGTTTG
Found at i:590062 original size:42 final size:41
Alignment explanation
Indices: 589959--590133 Score: 125
Period size: 37 Copynumber: 4.4 Consensus size: 41
589949 CCTTAGTCTA
* * * *
589959 CCTGTCGACTTTGACCCTGGAGACT-TTC--CT-CAGTCTG
1 CCTGTCGACTTTGACCCTGAAGACTGCTCATCTAAAGTTTG
* * *
589996 CCTGTTGGCTTTAACCCTGAAGACTGCCTCATCTAAAGTTTG
1 CCTGTCGACTTTGACCCTGAAGACTG-CTCATCTAAAGTTTG
* * * *
590038 TCTGTCGACTTTGACCCT-AGAGACT--T-TTCT-CAGTCTG
1 CCTGTCGACTTTGACCCTGA-AGACTGCTCATCTAAAGTTTG
* * * *
590075 CCTATTGGCTTTAACCCTGAAGACTGCTTCATCTAAAGTTTG
1 CCTGTCGACTTTGACCCTGAAGACTGC-TCATCTAAAGTTTG
590117 CCTGTCGACTTTGACCC
1 CCTGTCGACTTTGACCC
590134 GGGAGAATCT
Statistics
Matches: 100, Mismatches: 26, Indels: 19
0.69 0.18 0.13
Matches are distributed among these distances:
37 44 0.44
38 4 0.04
39 3 0.03
40 1 0.01
41 6 0.06
42 42 0.42
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (41 bp):
CCTGTCGACTTTGACCCTGAAGACTGCTCATCTAAAGTTTG
Found at i:590744 original size:31 final size:31
Alignment explanation
Indices: 590703--590768 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
590693 TGCATGCAAG
*
590703 GCAATATAGCATGCAATCATGGGAAACACAT
1 GCAATATAGCATGCAATCATGGGAAACACAA
* * *
590734 GCAATGTAGCATGCAATTATGGGGAACACAA
1 GCAATATAGCATGCAATCATGGGAAACACAA
590765 GCAA
1 GCAA
590769 GTGGAACTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (31 bp):
GCAATATAGCATGCAATCATGGGAAACACAA
Found at i:591649 original size:3 final size:3
Alignment explanation
Indices: 591641--591673 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
591631 CAAAGCAAAG
591641 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
591674 ATAAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:595212 original size:125 final size:124
Alignment explanation
Indices: 594956--595263 Score: 387
Period size: 125 Copynumber: 2.5 Consensus size: 124
594946 CACTTGATAT
* *
594956 TTAAAAAAATTTATATTAATTAAATTAAAATATTAATTA-T-T-TTTTT-AAAATAAAAAATTTA
1 TTAAAAAAATTTACATTAA-CAAATTAAAATATTAATTATTATGTTTTTAAAAATAAAAAATTT-
* * * * *
595017 AATAAAAAATAAAAAAGGTTTATTATTATTTTTTAATAAAATTAAAAATAATTTTTTATTAAG
64 -AT-AAAAATAAAAAAGATTTATTATTATTTTTTAATAAAATAAAAAATAATATTTAATTAAC
* *
595080 TTTAAAAAACTTACATTAACAAATTAAAATATTAATTATTATGTTTTTACAAAAATAAAAAATTT
1 TTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGTTTTT--AAAAATAAAAAATTT
595145 -T-AAAATAAAAAAGATTT-TTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAAC
64 ATAAAAATAAAAAAGATTTATTATTAT--TTTTTAATAAAATAAAAAATAATATTTAATTAAC
* *
595205 TTAAAAAAATTTACATTAACAAATTAAACTCTTAATTATTATGTTTTTTAAAAATAAAA
1 TTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATG-TTTTTAAAAATAAAA
595264 TTATTTATTA
Statistics
Matches: 162, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
123 25 0.15
124 42 0.26
125 70 0.43
126 11 0.07
129 14 0.09
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (124 bp):
TTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGTTTTTAAAAATAAAAAATTTAT
AAAAATAAAAAAGATTTATTATTATTTTTTAATAAAATAAAAAATAATATTTAATTAAC
Found at i:595305 original size:24 final size:24
Alignment explanation
Indices: 595278--595353 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
595268 TTATTATTAT
*
595278 TATTTTTAATAAATGAAAAAATAA
1 TATTTTTAATAAATTAAAAAATAA
*
595302 TA--TTTAATTAAATTTAAAAA-AA
1 TATTTTTAA-TAAATTAAAAAATAA
*
595324 T-TTATATTAACAAATTAAAAAATAA
1 TATT-T-TTAATAAATTAAAAAATAA
595349 TATTT
1 TATTT
595354 ACAGAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
22 8 0.20
23 10 0.24
24 13 0.32
25 8 0.20
26 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (24 bp):
TATTTTTAATAAATTAAAAAATAA
Found at i:595308 original size:22 final size:22
Alignment explanation
Indices: 595282--595367 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
595272 TATTATTATT
*
595282 TTTAATAAATGAAAAAATAATA
1 TTTAATAAATTAAAAAATAATA
*
595304 TTTAATTAAATTTAAAAAA-ATTTA
1 TTTAA-TAAA-TTAAAAAATA-ATA
*
595328 TATTAACAAATTAAAAAATAATA
1 T-TTAATAAATTAAAAAATAATA
*
595351 TTTACA-GAATTAAAAAA
1 TTTA-ATAAATTAAAAAA
595368 ATTATTATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
22 18 0.34
23 17 0.32
24 14 0.26
25 4 0.08
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAATAAATTAAAAAATAATA
Found at i:595367 original size:109 final size:108
Alignment explanation
Indices: 595158--595367 Score: 257
Period size: 109 Copynumber: 1.9 Consensus size: 108
595148 AATAAAAAAG
595158 ATTTTTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAACTTAAAAAAATTTACATTA
1 ATTTTTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAACTTAAAAAAATTTACATTA
*** * ** *
595223 ACAAATTAAACTCTTAATTATTATGTTTTTTAAAAATAAAATT
66 ACAAATTAAACAAATAATTATTAAGTAATTAAAAAATAAAATT
* * *
595266 ATTTATTATTATTATTTTTAAT-AAATGAAAAAATAATATTTAATTAAATTTAAAAAAATTTATA
1 ATTT-TTATTATAATTTTTAATAAAAT-AAAAAATAATATTTAATT-AACTTAAAAAAATTTACA
595330 TTAACAAATTAAA-AAATAA-TATTTACAG-AATTAAAAAA
63 TTAACAAATTAAACAAATAATTA-TTA-AGTAATTAAAAAA
595368 ATTATTATTA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
108 10 0.11
109 47 0.54
110 30 0.34
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (108 bp):
ATTTTTATTATAATTTTTAATAAAATAAAAAATAATATTTAATTAACTTAAAAAAATTTACATTA
ACAAATTAAACAAATAATTATTAAGTAATTAAAAAATAAAATT
Found at i:596953 original size:13 final size:13
Alignment explanation
Indices: 596935--596965 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
596925 ACATTTCTTC
596935 ATGTATCGATACA
1 ATGTATCGATACA
596948 ATGTATCGATACA
1 ATGTATCGATACA
*
596961 TTGTA
1 ATGTA
596966 CCATGTATCG
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:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:596953 original size:33 final size:33
Alignment explanation
Indices: 596915--596981 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
596905 GTTACAAGCT
596915 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
596948 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
596981 A
1 A
596982 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:597055 original size:19 final size:19
Alignment explanation
Indices: 597010--597066 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
597000 CTACCAGTTT
**
597010 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
597031 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
597050 CATGTATCGATACAATG
1 CATGTATCGATACAATG
597067 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:597069 original size:13 final size:13
Alignment explanation
Indices: 597051--597077 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
597041 TACAATGAAC
597051 ATGTATCGATACA
1 ATGTATCGATACA
597064 ATGTATCGATACA
1 ATGTATCGATACA
597077 A
1 A
597078 AGCAACATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:597090 original size:33 final size:32
Alignment explanation
Indices: 597032--597096 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
597022 CAATTTGTCC
*
597032 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
597064 ATGTATCGATACAAAGCAACATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
597097 TCTGGGTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:599581 original size:27 final size:27
Alignment explanation
Indices: 599543--599611 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
599533 TACAAGGAAT
599543 GTTGTATCGATACATCTGGGTTTTCCA
1 GTTGTATCGATACATCTGGGTTTTCCA
599570 GTTGTATCGATACATCTGGGTTTTCCA
1 GTTGTATCGATACATCTGGGTTTTCCA
599597 GTTGTATCGATACAT
1 GTTGTATCGATACAT
599612 GGCGCTATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (27 bp):
GTTGTATCGATACATCTGGGTTTTCCA
Found at i:605836 original size:21 final size:20
Alignment explanation
Indices: 605810--605861 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
605800 CAGTTTCATA
**
605810 TATCGATACAATTTGTCCATG
1 TATCGATACAA-TTGAACATG
605831 TATCGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
605850 TATCGATACAAT
1 TATCGATACAAT
605862 GTATTGATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 17 0.61
21 11 0.39
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:605865 original size:13 final size:13
Alignment explanation
Indices: 605847--605906 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
605837 TACAATGAAC
605847 ATGTATCGATACA
1 ATGTATCGATACA
*
605860 ATGTATTGATACA
1 ATGTATCGATACA
*
605873 AAGTA--G---C-
1 ATGTATCGATACA
605880 ATGTATCGATACA
1 ATGTATCGATACA
605893 ATGTATCGATACA
1 ATGTATCGATACA
605906 A
1 A
605907 AGCAGCATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
7 4 0.11
8 1 0.03
9 1 0.03
11 1 0.03
12 1 0.03
13 30 0.79
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:605888 original size:33 final size:32
Alignment explanation
Indices: 605828--605925 Score: 151
Period size: 33 Copynumber: 3.0 Consensus size: 32
605818 CAATTTGTCC
* *
605828 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAGCATGTATCGATACA
*
605860 ATGTATTGATACAAAGTAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AGCATGTATCGATACA
605893 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AGCATGTATCGATACA
605926 TCTGGGTGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 14 0.23
33 46 0.77
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAAGAGCATGTATCGATACA
Found at i:609951 original size:15 final size:15
Alignment explanation
Indices: 609931--609973 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
609921 TACTTGATAT
*
609931 ATAATATATATTTTA
1 ATAATAAATATTTTA
*
609946 ATAATAGACTATTTTA
1 ATAATA-AATATTTTA
609962 ATAATAAATATT
1 ATAATAAATATT
609974 AAATAGAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
ATAATAAATATTTTA
Found at i:614244 original size:16 final size:16
Alignment explanation
Indices: 614188--614243 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
614178 ACGTAGGTTG
614188 AATTATTTTAAATTTA
1 AATTATTTTAAATTTA
614204 AATTATTTTAAATTTA
1 AATTATTTTAAATTTA
* *
614220 AATTTTTTTAAGTTTA
1 AATTATTTTAAATTTA
614236 AATT-TTTT
1 AATTATTTT
614244 TTCATGTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 4 0.11
16 34 0.89
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
AATTATTTTAAATTTA
Found at i:614932 original size:19 final size:19
Alignment explanation
Indices: 614895--614943 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
614885 AATGAAGATG
*
614895 ACATAATTAATTTTTATAT
1 ACATAATTAATTTTGATAT
614914 ACATAA-TAATTTTAGATAT
1 ACATAATTAATTTT-GATAT
*
614933 GAAATAATTAA
1 -ACATAATTAA
614944 ATAATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 10 0.40
20 5 0.20
21 3 0.12
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (19 bp):
ACATAATTAATTTTGATAT
Found at i:615566 original size:21 final size:18
Alignment explanation
Indices: 615518--615567 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
615508 ATTGATTTAG
615518 TTTAGTTTAAAATAATATT
1 TTTA-TTTAAAATAATATT
*
615537 TTTAATTAAAATAATATATAT
1 TTTATTTAAAAT-A-ATAT-T
615558 TTTATTTAAA
1 TTTATTTAAA
615568 TTTAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 7 0.27
19 5 0.19
20 4 0.15
21 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTATTTAAAATAATATT
Found at i:616107 original size:15 final size:16
Alignment explanation
Indices: 616087--616119 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
616077 TTTTTGATAT
*
616087 ATAATATA-TATTTTA
1 ATAATATACCATTTTA
616102 ATAATATACCATTTTA
1 ATAATATACCATTTTA
616118 AT
1 AT
616120 GTTAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATACCATTTTA
Found at i:633693 original size:20 final size:19
Alignment explanation
Indices: 633670--633717 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
633660 AATTTATTTT
633670 TTTAAAATTTATT-TTAGTAA
1 TTTAAAATTT-TTATTA-TAA
*
633690 TTTAATAATTTTTATTATAT
1 TTTAA-AATTTTTATTATAA
633710 TTTAAAAT
1 TTTAAAAT
633718 ATAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 14 0.56
21 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTAAAATTTTTATTATAA
Found at i:633792 original size:30 final size:29
Alignment explanation
Indices: 633728--633793 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
633718 ATAAAAAATT
* *
633728 TAATATATTTTTTAATATTTAGATTATAA
1 TAATATATTTTTTAATATATAAATTATAA
*
633757 T-ATATATTTTTTTATATGATAAATT-TACA
1 TAATATATTTTTTAATAT-ATAAATTATA-A
633786 TAATATAT
1 TAATATAT
633794 AAATATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 17 0.55
29 8 0.26
30 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
TAATATATTTTTTAATATATAAATTATAA
Found at i:634915 original size:21 final size:21
Alignment explanation
Indices: 634891--634935 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
634881 TGTTTTACCA
634891 GTTCAATTTTAGGCTAGTTAT
1 GTTCAATTTTAGGCTAGTTAT
**
634912 GTTCAATTTTAGTTTAGTTAT
1 GTTCAATTTTAGGCTAGTTAT
634933 GTT
1 GTT
634936 ATTATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.07, G:0.18, T:0.53
Consensus pattern (21 bp):
GTTCAATTTTAGGCTAGTTAT
Found at i:634981 original size:14 final size:15
Alignment explanation
Indices: 634955--634987 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
634945 ATTTTTTTTT
634955 AGTTTTAGAGATTTG
1 AGTTTTAGAGATTTG
634970 AGTTTT-GAGATTTG
1 AGTTTTAGAGATTTG
634984 AGTT
1 AGTT
634988 ATATTTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
AGTTTTAGAGATTTG
Found at i:636630 original size:20 final size:20
Alignment explanation
Indices: 636605--636676 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
636595 TACCTAGATG
636605 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
636625 TATCGATACATGTATGAATT
1 TATCGATACATTTTTCAATA
* *
636645 TATCGATATATTTTTCAATG
1 TATCGATACATTTTTCAATA
636665 TATCGATACATT
1 TATCGATACATT
636677 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:650690 original size:9 final size:9
Alignment explanation
Indices: 650659--650711 Score: 63
Period size: 9 Copynumber: 5.6 Consensus size: 9
650649 CTTTACACCC
650659 AAAAAACAA
1 AAAAAACAA
650668 AACAAAAC-A
1 AA-AAAACAA
650677 AAAAAACAA
1 AAAAAACAA
650686 AAAAAACAA
1 AAAAAACAA
650695 GAAAAATAGCAA
1 -AAAAA-A-CAA
650707 AAAAA
1 AAAAA
650712 TAGAAGGGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.13
9 15 0.38
10 10 0.26
11 6 0.15
12 3 0.08
ACGTcount: A:0.83, C:0.11, G:0.04, T:0.02
Consensus pattern (9 bp):
AAAAAACAA
Found at i:652057 original size:28 final size:28
Alignment explanation
Indices: 651927--653358 Score: 1784
Period size: 28 Copynumber: 50.6 Consensus size: 28
651917 GAATGTTCAT
** *
651927 CCCTTTCAAAGCCCATGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
651955 CCTTTTTCAAAGCCCACGAGTCAGTGGCA
1 CC-CTTTCAAAGCCCACAAGTCAGTGGCA
651984 CCCATTTCAAAGCCCACAAGTCAGTGGCA
1 CCC-TTTCAAAGCCCACAAGTCAGTGGCA
* * * *
652013 CTCTTTTCAATGCCCACAAGTTAATGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
652042 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652070 TCCTTTCAAAGCCCACAAGTCAGTGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652098 CTCTTTCAAAGCCCACAAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652126 CCTTTTC-AAGCCCTA-AAGTCAGTGGCA
1 CCCTTTCAAAGCCC-ACAAGTCAGTGGCA
*
652153 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
652181 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652209 CCCTTTTAGAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
652237 CCCTTGCGAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652265 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
652293 CCCTTTCAAAGCCCACACAAGTCAGTGGCA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCA
*
652323 CTCCTTTTAAAGCCCACGCAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * *
652354 CCTTTTCGAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652382 CTCTTTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652410 CCCTTTC-AAGCCCACGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
652437 CCCTTTC-AAGCCCATGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652464 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652492 CTCTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652520 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
652548 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652576 CCCTTTC-AAGCCCACGAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652603 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652630 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652658 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
652686 CCTTTTC-AAGCCCAAAAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652713 CTCTTTCAAAGCCCACAAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652741 CCCTTTCAAATCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652769 CCCTTTCAGAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652797 CCCTTTCGAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
652825 CCCCTGCGAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652853 CTCTTTCAAAGCCCACAAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
652881 CCCTTTCAAAGCCCACACAAGTCAGTGGCA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCA
*
652911 CTCCTTTTAAAGCCCACGCAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* ** *
652942 CCTTTTCAAAGCCCATGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
652970 CTCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
652998 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
653025 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* ** *
653052 CCTTTTCAAAGCCCATGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
653080 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
653108 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
*
653138 CCCTTTTAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
653168 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
653196 CCTTTTTCAAAGCCCACGAGTCAGTGGCA
1 CC-CTTTCAAAGCCCACAAGTCAGTGGCA
*
653225 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
653253 TCCTTTCAAAGCTCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
** *
653281 TTCTTTCAAAGCCCACGCGAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * **
653311 CTCTTTTAAAGCCCACGCAAGTCAATAACA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
*
653341 CTCTTTTCAAAGCCCACA
1 C-CCTTTCAAAGCCCACA
653359 CGTGTCAGTG
Statistics
Matches: 1241, Mismatches: 137, Indels: 51
0.87 0.10 0.04
Matches are distributed among these distances:
27 195 0.16
28 728 0.59
29 110 0.09
30 151 0.12
31 57 0.05
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:653993 original size:20 final size:20
Alignment explanation
Indices: 653968--654039 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
653958 TACCCAGATG
653968 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
653988 TATCGATACATGTATGAATT
1 TATCGATACATTTTTCAATA
* * *
654008 TATCGATATATTCTTCAATG
1 TATCGATACATTTTTCAATA
654028 TATCGATACATT
1 TATCGATACATT
654040 ATGTCTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:662528 original size:8 final size:8
Alignment explanation
Indices: 662515--662558 Score: 56
Period size: 7 Copynumber: 5.6 Consensus size: 8
662505 AAAAAGAATT
662515 TTTTATTA
1 TTTTATTA
662523 TTTTATTA
1 TTTTATTA
662531 TTTT-TTA
1 TTTTATTA
662538 TTTT-TTA
1 TTTTATTA
*
662545 TTTTTTTAA
1 TTTTATT-A
662554 TTTTA
1 TTTTA
662559 ATTTCGTACC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 14 0.42
8 14 0.42
9 5 0.15
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTATTA
Found at i:662551 original size:15 final size:15
Alignment explanation
Indices: 662513--662562 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
662503 TGAAAAAGAA
662513 TTTTTTATTATTTTATT
1 TTTTTTATT-TTTTA-T
662530 ATTTTTTATTTTTTAT
1 -TTTTTTATTTTTTAT
* *
662546 TTTTTTAATTTTAAT
1 TTTTTTATTTTTTAT
662561 TT
1 TT
662563 CGTACCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 15 0.50
16 1 0.03
17 5 0.17
18 9 0.30
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:663964 original size:138 final size:138
Alignment explanation
Indices: 663791--664118 Score: 611
Period size: 138 Copynumber: 2.4 Consensus size: 138
663781 ATTGGTTCCT
* *
663791 CACATTGCTTTGCTTTCTTTCTATTTGCTTATGTTCCTCATGATTGCATGCTTCATGATTTTCTC
1 CACATTGCTTTGCTTTCTTTCCATTTGCTTGTGTTCCTCATGATTGCATGCTTCATGATTTTCTC
663856 CATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCATGATTTGCATCTCCCATCACTTT
66 CATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCATGATTTGCATCTCCCATCACTTT
663921 TTCATTTG
131 TTCATTTG
*
663929 CACATTACTTTGCTTTCTTTCCATTTGCTTGTGTTCCTCATGATTGCATGCTTCATGATTTTCTC
1 CACATTGCTTTGCTTTCTTTCCATTTGCTTGTGTTCCTCATGATTGCATGCTTCATGATTTTCTC
*
663994 CATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCATGATTTGCATCTCCCATCGCTTT
66 CATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCATGATTTGCATCTCCCATCACTTT
664059 TTCATTTG
131 TTCATTTG
*
664067 CACGTTGCTTTGCTTTCTTTCCATTTGCTTGTGTTCCTCATGATTGCATGCT
1 CACATTGCTTTGCTTTCTTTCCATTTGCTTGTGTTCCTCATGATTGCATGCT
664119 ACATTGCATT
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 184 1.00
ACGTcount: A:0.14, C:0.24, G:0.13, T:0.48
Consensus pattern (138 bp):
CACATTGCTTTGCTTTCTTTCCATTTGCTTGTGTTCCTCATGATTGCATGCTTCATGATTTTCTC
CATGTGGCCTCCAATTCATTTTGTTTGCCATATGTTTCTTCATGATTTGCATCTCCCATCACTTT
TTCATTTG
Found at i:664040 original size:67 final size:68
Alignment explanation
Indices: 663820--664045 Score: 200
Period size: 67 Copynumber: 3.3 Consensus size: 68
663810 TCTATTTGCT
663820 TATG-TTCCTCATGA-TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTG
1 TATGTTTCCTCATGATTTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTG
663883 CCA
66 CCA
* * * * * * *** *
663886 TATGTTTCTTCATGATTTGCAT-CTCCCATCACTTTT-T-CAT-TTGCACAT-TACTTTGCTTTC
1 TATGTTTCCTCATGATTTGCATGCT-TCATGA-TTTTCTCCATGTGGC-C-TCCAATTCATTTTG
663946 TTT-CCA
62 TTTGCCA
*
663952 TTTGCTTGTGTTCCTCATGA-TTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTT
1 --T--ATGT-TTCCTCATGATTTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTT
664016 GTTTGCCA
61 GTTTGCCA
*
664024 TATGTTTCTTCATGATTTGCAT
1 TATGTTTCCTCATGATTTGCAT
664046 CTCCCATCGC
Statistics
Matches: 119, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
66 10 0.08
67 33 0.28
68 22 0.18
69 8 0.07
70 16 0.13
71 24 0.20
72 6 0.05
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.47
Consensus pattern (68 bp):
TATGTTTCCTCATGATTTGCATGCTTCATGATTTTCTCCATGTGGCCTCCAATTCATTTTGTTTG
CCA
Found at i:664600 original size:51 final size:50
Alignment explanation
Indices: 664454--664620 Score: 205
Period size: 48 Copynumber: 3.4 Consensus size: 50
664444 AGGTGTCTAC
* * *
664454 ATAGGGTTGGAGTATCCCCGATGGTG-AAAAGTGATATTTTGAAAATAAAA
1 ATAGGGTTGGAGTATCCCC-ATGATGAAAAATTGATATTTTGGAAATAAAA
* * * *
664504 ACAGGGTTGGAGTATTCCC-TTA-GAAAAATTGATATTTTAGAAATAAAA
1 ATAGGGTTGGAGTATCCCCATGATGAAAAATTGATATTTTGGAAATAAAA
* * *
664552 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAATAAAA
1 ATAGGGTTGGAGTATCCCCATGATGAAAAA-TTGATATTTTGGAAATAAAA
664603 ATAGGGTTGGAGTATCCC
1 ATAGGGTTGGAGTATCCC
664621 TTCAGAAATA
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
47 1 0.01
48 38 0.39
49 1 0.01
50 23 0.23
51 35 0.36
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (50 bp):
ATAGGGTTGGAGTATCCCCATGATGAAAAATTGATATTTTGGAAATAAAA
Found at i:664789 original size:78 final size:79
Alignment explanation
Indices: 664552--664817 Score: 333
Period size: 79 Copynumber: 3.4 Consensus size: 79
664542 AGAAATAAAA
* *
664552 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTA
* *
664617 TCCCTTCAGAAATA
66 TCCCTTCAGAATTG
* * **
664631 ACGAGGTTGGAGTATCCCCGCGATGAAAAATTTAATA-TTTTGAAAATAAAAATGGGGTTGGAGT
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTTG-AAATAAAAATGGGGTTGGAGT
664695 ATCCCCTT--GAATTTG
65 AT-CCCTTCAGAA-TTG
* * * *
664710 ATGGGGTTGGAGTATCTCCGAGATG-AAAATTTAATATTTTTGAAATAAAAATGGGGTTGAAATA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTA
*
664774 TCCTTTCAGAATTG
66 TCCCTTCAGAATTG
* *
664788 ATAGGGTTAGAGTATCCCCTAAGATGAAAA
1 ATGGGGTTGGAGTATCCCC-AAGATGAAAA
664818 TTTTGATGCT
Statistics
Matches: 160, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
77 4 0.03
78 58 0.36
79 90 0.56
80 8 0.05
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (79 bp):
ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTTGAAATAAAAATGGGGTTGGAGTA
TCCCTTCAGAATTG
Found at i:670678 original size:79 final size:78
Alignment explanation
Indices: 670564--670994 Score: 363
Period size: 79 Copynumber: 5.4 Consensus size: 78
670554 CAAAAGCATC
* * *
670564 AAATTTTTCATCTCGGGGATACTCAAACCCTGTTATTTCTGAAGGTATACTCCAATCCCGTTTTT
1 AAATTTTTCATCTCGGGGATACTCTAACCC-GTTATTTCTGAAGGGATACTCCAACCCCGTTTTT
670629 ATTTCCAAAATATT
65 ATTTCCAAAATATT
* * * *
670643 AAAATTTTCATCTCGGGGATACACTAACTCCGTTATTTTTG-AGGGAATACTCCAATCCCGTTTT
1 AAATTTTTCATCTCGGGGATACTCTAAC-CCGTTATTTCTGAAGGG-ATACTCCAACCCCGTTTT
*
670707 TATTTTCAAAATA-T
64 TATTTCCAAAATATT
** * * * * * *
670721 CGATTTTTCAGCATCGAGGATATTCCAACCCTGTTATTTCCG-AGGGATACTCCAACCCTGTTTT
1 AAATTTTTCATC-TCGGGGATACTCTAACCC-GTTATTTCTGAAGGGATACTCCAACCCCGTTTT
*
670785 TATTTTCAAAATATT
64 TATTTCCAAAATATT
* * * *
670800 AAATTTTTCATCAC-GGCATACTCTAACCTCATCATTT-TCGAAGGGATACTCCAACCCCGTTTT
1 AAATTTTTCATCTCGGGGATACTCTAACC-CGTTATTTCT-GAAGGGATACTCCAACCCCG--TT
*
670863 TTTATTTGTACTTTCAAAACATT
62 TTTA-TT-T-C---CAAAATATT
* * * * * *
670886 AAATTTTTCATCGCGGAGATACT-TCAACCCCGTTATTTTTGAAGAGATACTCCAGCCCCATTTT
1 AAATTTTTCATCTCGGGGATACTCT-AA-CCCGTTATTTCTGAAGGGATACTCCAACCCCGTTTT
*
670950 TACTTCCAAAATA-T
64 TATTTCCAAAATATT
* * *
670964 CAATTTTTCACCATCGGGGATACTCCAACCC
1 AAATTTTTCATC-TCGGGGATACTCTAACCC
670995 CTGCCATTTT
Statistics
Matches: 283, Mismatches: 47, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
77 16 0.06
78 76 0.27
79 115 0.41
80 8 0.03
81 2 0.01
82 2 0.01
83 1 0.00
84 1 0.00
85 6 0.02
86 22 0.08
87 31 0.11
88 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (78 bp):
AAATTTTTCATCTCGGGGATACTCTAACCCGTTATTTCTGAAGGGATACTCCAACCCCGTTTTTA
TTTCCAAAATATT
Found at i:670845 original size:157 final size:156
Alignment explanation
Indices: 670566--670863 Score: 388
Period size: 157 Copynumber: 1.9 Consensus size: 156
670556 AAAGCATCAA
* * * *
670566 ATTTTTCATCTCGGGGATACTCAAACCCTGTTATTTCTGAAGGTATACTCCAATCCCGTTTTTAT
1 ATTTTTCAGCTCGAGGATACTCAAACCCTGTTATTTCCGAAGGGATACTCCAATCCCGTTTTTAT
* * * * *
670631 TTCCAAAATATTAAAATTTTCATCTCGGGGATACACTAACTCCGTTATTTTTGAGGGAATACTCC
66 TTCCAAAATATTAAAATTTTCATCACGGGCATACACTAACTCCATCATTTTCGAGGG-ATACTCC
*
670696 AATCCCGTTTTTATTTTCAAAATATCG
130 AACCCCGTTTTTATTTTCAAAATATCG
* *
670723 ATTTTTCAGCATCGAGGATATTCCAACCCTGTTATTTCCG-AGGGATACTCCAA-CCCTGTTTTT
1 ATTTTTCAGC-TCGAGGATACTCAAACCCTGTTATTTCCGAAGGGATACTCCAATCCC-GTTTTT
* * *
670786 ATTTTCAAAATATTAAATTTTTCATCAC-GGCATACTCTAAC-CTCATCATTTTCGAAGGGATAC
64 ATTTCCAAAATATTAAAATTTTCATCACGGGCATACACTAACTC-CATCATTTTCG-AGGGATAC
670849 TCCAACCCCGTTTTT
127 TCCAACCCCGTTTTT
670864 TTATTTGTAC
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
155 1 0.01
156 40 0.33
157 56 0.46
158 25 0.20
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (156 bp):
ATTTTTCAGCTCGAGGATACTCAAACCCTGTTATTTCCGAAGGGATACTCCAATCCCGTTTTTAT
TTCCAAAATATTAAAATTTTCATCACGGGCATACACTAACTCCATCATTTTCGAGGGATACTCCA
ACCCCGTTTTTATTTTCAAAATATCG
Found at i:670950 original size:86 final size:86
Alignment explanation
Indices: 670788--670950 Score: 204
Period size: 87 Copynumber: 1.9 Consensus size: 86
670778 CTGTTTTTAT
* * *
670788 TTTCAAAATATTAAATTTTTCATCACGGCATACTCTAACCTCATCATTTTCGAAGGGATACTCCA
1 TTTCAAAACATTAAATTTTTCATCACGGCATACTCTAACCCCATCATTTTCGAAGAGATACTCCA
*
670853 ACCCCGTTTTTTTATTTGTAC
66 ACCCCGATTTTTTATTTGTAC
* * * * *
670874 TTTCAAAACATTAAATTTTTCATCGCGGAGATACT-TCAACCCCGTTATTTTTGAAGAGATACTC
1 TTTCAAAACATTAAATTTTTCATCACGG-CATACTCT-AACCCCATCATTTTCGAAGAGATACTC
*
670938 CAGCCCC-ATTTTT
64 CAACCCCGATTTTT
670951 ACTTCCAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 32 0.49
87 33 0.51
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (86 bp):
TTTCAAAACATTAAATTTTTCATCACGGCATACTCTAACCCCATCATTTTCGAAGAGATACTCCA
ACCCCGATTTTTTATTTGTAC
Found at i:675487 original size:51 final size:51
Alignment explanation
Indices: 675432--675542 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
675422 ACGGGGCTAA
* * * *
675432 AGTATCCCCGATTATGGAAAATCGGTATTTT-GAAAATAAAATCAGAGTTGG
1 AGTATCCCCAATTATGAAAAATCAGTATTTTAG-AAATAAAATCAGAGTTAG
* * *
675483 AGTATCCCCAATTATGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTAG
1 AGTATCCCCAATTATGAAAAATCAGTATTTTAGAAATAAAATCAGAGTTAG
675534 AGTATCCCC
1 AGTATCCCC
675543 TCGGAAATAG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
51 51 0.98
52 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (51 bp):
AGTATCCCCAATTATGAAAAATCAGTATTTTAGAAATAAAATCAGAGTTAG
Found at i:675631 original size:109 final size:107
Alignment explanation
Indices: 675478--675896 Score: 430
Period size: 108 Copynumber: 3.9 Consensus size: 107
675468 TAAAATCAGA
* * * * * *
675478 GTTGGAGTATCCCCAATTATGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCC
1 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* * * ** *
675543 TCGGAAATAGCGAGATTGGAGTATCCCTAATGACATAATGGG
66 TCGGAAATAACGAGGTTAGAGTATCCCCGATGACATAACGGG
* * *
675585 GTTGGAGTACCCCCCGATTATGAAAAAATCAATATTTTGGATATAAAGCCGGGGTTGGAGTATCC
1 GTTGGAGTA-CCCCCGATTATG-AAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
* * * *
675650 CCTCGAAAATAATGGGGCTAGAGTATCCCCGATGACATAACGGG
64 CCTCGGAAATAACGAGGTTAGAGTATCCCCGATGACATAACGGG
* * * * ** * *
675694 GTTGGAGCACTCTCGATTATAAAAAAATCAATATTTTAGTTATAAAGCCGGGGTTGGAGTATCCA
1 GTTGGAGTACCCCCGATTAT-GAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* * * *
675759 CTCAGAAATAAC-AGGGTTGGAGTATCCCCGATGAAATAACGAG
65 CTCGGAAATAACGA-GGTTAGAGTATCCCCGATGACATAACGGG
* ** * *
675802 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT-GAAAATAAAACAGGGG-TGGAGTATCCC
1 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAG-AAATAAAACCGGGGTTGGAGTATCCC
* *
675865 TTCGGAAATAACGGGGTTAGAGTATCCCCGAT
65 CTCGGAAATAACGAGGTTAGAGTATCCCCGAT
675897 TATGAAAAAT
Statistics
Matches: 255, Mismatches: 51, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
106 38 0.15
107 31 0.12
108 109 0.43
109 77 0.30
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (107 bp):
GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCGGAAATAACGAGGTTAGAGTATCCCCGATGACATAACGGG
Found at i:675784 original size:28 final size:27
Alignment explanation
Indices: 675744--675818 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 27
675734 TATAAAGCCG
675744 GGGTTGGAGTATCCACTC-A-GAAATAAC
1 GGGTTGGAGTATCC-C-CGATGAAATAAC
675771 AGGGTTGGAGTATCCCCGATGAAATAAC
1 -GGGTTGGAGTATCCCCGATGAAATAAC
675799 GAGGTTGGAGTATCCCCGAT
1 G-GGTTGGAGTATCCCCGAT
675819 TATGAAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
26 1 0.02
27 3 0.07
28 40 0.91
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGATGAAATAAC
Found at i:675859 original size:78 final size:77
Alignment explanation
Indices: 675768--675944 Score: 284
Period size: 78 Copynumber: 2.3 Consensus size: 77
675758 ACTCAGAAAT
*
675768 AACAGGGTTGGAGTATCCC-CGATGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGA
1 AACAGGGTTGGAGTATCCCTCG--GAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTGA
675832 TGTTTTGAAAATAA
64 TGTTTTGAAAATAA
* *
675846 AACAGGGGTGGAGTATCCCTTCGGAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGAT
1 AACAGGGTTGGAGTATCCC-TCGGAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTGAT
675911 GTTTTGAAAATAA
65 GTTTTGAAAATAA
675924 AACTAGGGTTGGAGTATCCCT
1 AAC-AGGGTTGGAGTATCCCT
675945 GATTGTGGAA
Statistics
Matches: 92, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
78 75 0.82
79 15 0.16
80 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (77 bp):
AACAGGGTTGGAGTATCCCTCGGAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTGATG
TTTTGAAAATAA
Found at i:675943 original size:51 final size:51
Alignment explanation
Indices: 675878--675997 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
675868 GGAAATAACG
* *
675878 GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTT-GAAAATAAAACTA
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAG-AAATAAAACCA
* * * * *
675929 GGGTTGGAGTATCCCTGATTGTGGAAAATTGATGTTTTAGGAATAAAACCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCA
675980 GGGTTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
675998 GATGAAAGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCA
Found at i:681169 original size:13 final size:13
Alignment explanation
Indices: 681151--681175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
681141 CATTTTATAG
681151 TGTATCGATACAA
1 TGTATCGATACAA
681164 TGTATCGATACA
1 TGTATCGATACA
681176 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:681172 original size:33 final size:34
Alignment explanation
Indices: 681130--681196 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
681120 ATTTGCCTGC
* * *
681130 ATGTATCGATACATTTTA-TAGTGTATCGATACA
1 ATGTATCGATACATTTGAGTAATATATCGATACA
681163 ATGTATCGATACATTTGAGTAATATATCGATACA
1 ATGTATCGATACATTTGAGTAATATATCGATACA
681197 TTTTTTAGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 17 0.57
34 13 0.43
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (34 bp):
ATGTATCGATACATTTGAGTAATATATCGATACA
Found at i:681280 original size:20 final size:20
Alignment explanation
Indices: 681251--681315 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
681241 TCGATACATT
*
681251 GTATCAATACAACACTTTAC
1 GTATCGATACAACACTTTAC
681271 GTATCGAT---ACA--TT--
1 GTATCGATACAACACTTTAC
681284 GTATCGATACAACACTTTAC
1 GTATCGATACAACACTTTAC
681304 GTATCGATACAA
1 GTATCGATACAA
681316 ATCGTTGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 8 0.22
15 2 0.05
16 3 0.08
17 3 0.08
18 2 0.05
20 19 0.51
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (20 bp):
GTATCGATACAACACTTTAC
Found at i:681280 original size:33 final size:33
Alignment explanation
Indices: 681213--681314 Score: 170
Period size: 33 Copynumber: 3.1 Consensus size: 33
681203 AGCAGTAGCT
* *
681213 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAACACTTTACGTATCGA
*
681245 TACATTGTATCAATACAACACTTTACGTATCGA
1 TACATTGTATCGATACAACACTTTACGTATCGA
681278 TACATTGTATCGATACAACACTTTACGTATCGA
1 TACATTGTATCGATACAACACTTTACGTATCGA
681311 TACA
1 TACA
681315 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 19 0.29
33 46 0.71
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (33 bp):
TACATTGTATCGATACAACACTTTACGTATCGA
Found at i:681913 original size:23 final size:21
Alignment explanation
Indices: 681863--681924 Score: 90
Period size: 20 Copynumber: 2.9 Consensus size: 21
681853 AAAATGCCTG
681863 AATGTATCGATACATTGT-AA
1 AATGTATCGATACATTGTAAA
681883 AATGTATCGATACATTGTAAA
1 AATGTATCGATACATTGTAAA
*
681904 GCAATGTATCGATACAATGTA
1 --AATGTATCGATACATTGTA
681925 TCGATACAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
20 18 0.47
21 2 0.05
23 18 0.47
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATTGTAAA
Found at i:681923 original size:13 final size:13
Alignment explanation
Indices: 681905--681935 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
681895 CATTGTAAAG
681905 CAATGTATCGATA
1 CAATGTATCGATA
681918 CAATGTATCGATA
1 CAATGTATCGATA
681931 CAATG
1 CAATG
681936 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:681945 original size:33 final size:33
Alignment explanation
Indices: 681883--682017 Score: 127
Period size: 33 Copynumber: 4.1 Consensus size: 33
681873 TACATTGTAA
*
681883 AATGTATCGATACATTGTAAAGCAATGTATCGATAC
1 AATGTATCGATACAATG---AGCAATGTATCGATAC
681919 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
* * * **
681952 -A--TCTGGGTA-AACCCAG-AATGTATCGATAC
1 AATGTATCGATACAA-TGAGCAATGTATCGATAC
* *
681981 AACGTATCGATGCAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
682014 AATG
1 AATG
682018 AACAATGTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
29 15 0.19
30 8 0.10
32 7 0.09
33 34 0.43
36 16 0.20
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:682009 original size:20 final size:20
Alignment explanation
Indices: 681979--682035 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
681969 ATGTATCGAT
* *
681979 ACAACGTATCGATGCAATGA
1 ACAATGTATCGATACAATGA
*
681999 GCAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
682019 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
682036 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:682805 original size:43 final size:42
Alignment explanation
Indices: 682744--682861 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
682734 AAAAAGAGTA
* * * * *
682744 CGTCCTACTTTTTTAGGACAAAGGAAAAATGGAAAACAAATTG
1 CGTCCTACTCTTTGAGGACAAAAGAAAAA-GAAAAACAAAGTG
* * *
682787 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGAAAAATAACGTG
1 CGTCCTACTCTTTGAGGACAAAAGAAAAAGAAAAACAAAGTG
* *
682829 CATCCTACTCTTTGAGGACAAAAGGGAAAAGAA
1 CGTCCTACTCTTTGAGGACAAAA-GAAAAAGAA
682862 GGGAATGAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.21
Consensus pattern (42 bp):
CGTCCTACTCTTTGAGGACAAAAGAAAAAGAAAAACAAAGTG
Found at i:683005 original size:61 final size:61
Alignment explanation
Indices: 682905--683235 Score: 399
Period size: 61 Copynumber: 5.4 Consensus size: 61
682895 AAGAGAGAAG
* * * *
682905 GAAAAGGCGTCCTGCAT-TTTGAGGACTAAAAATTACCACCAACTCGTGTGGGCTTTGAAAA
1 GAAAAGGCGTCCTGC-TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA
* * *
682966 GAAAAGGCGTCCTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAA
* * *
683028 -AGAAA-GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGC-TTAAAAA
1 GA-AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA
*
683087 GGAGAAGGCGTCCTGCTCTTTGAGGACT-AAAGAGTGCCACCAACTTGTGTGGGCTTTGCAAAA
1 -GAAAAGGCGTCCTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTTG-AAAA
* * *
683150 -AGAAA-GCATCCTGCTCTTTGAGGACTGAAAAGTACCACCAACTTATGTGGGCTTT-AAAA
1 GA-AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA
*
683209 GGAGAAGGCGTCCTGCTCTTTGAGGAC
1 -GAAAAGGCGTCCTGCTCTTTGAGGAC
683236 AAAAAGGTGA
Statistics
Matches: 233, Mismatches: 23, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
59 8 0.03
60 10 0.04
61 197 0.85
62 14 0.06
63 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (61 bp):
GAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA
Found at i:683076 original size:122 final size:122
Alignment explanation
Indices: 682914--683235 Score: 508
Period size: 122 Copynumber: 2.6 Consensus size: 122
682904 GGAAAAGGCG
* *
682914 TCCTGCAT-TTTGAGGACT-AAAAATTACCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCGT
1 TCCTGC-TCTTTGAGGACTGAAAAA-TACCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGT
* *
682976 CCTGCTCTTTAAGGACTGGAAG-GTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
63 CCTGCTCTTTGAGGACT-AAAGAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
* *
683036 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAATACCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
683101 GCTCTTTGAGGACTAAAGAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
66 GCTCTTTGAGGACTAAAGAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
* *
683158 TCCTGCTCTTTGAGGACTGAAAAGTACCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAATACCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
683223 GCTCTTTGAGGAC
66 GCTCTTTGAGGAC
683236 AAAAAGGTGA
Statistics
Matches: 186, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
121 8 0.04
122 173 0.93
123 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (122 bp):
TCCTGCTCTTTGAGGACTGAAAAATACCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
GCTCTTTGAGGACTAAAGAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
Found at i:683129 original size:183 final size:182
Alignment explanation
Indices: 682902--683235 Score: 469
Period size: 183 Copynumber: 1.8 Consensus size: 182
682892 CAAAAGAGAG
*
682902 AAGGAAAAGGCGTCCTGCATTTTGAGGACTAAAAATTACCACCAACTCGTGTGGGCTTTG--AAA
1 AAGGAAAAGGCGTCCTGCATTTTGAGGACTAAAAAGTACCACCAACTCGTGTGGGCTTTGCAAAA
* * * * *
682965 AGAAAAGGCGTCCTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-A
66 AG-AAA-GCATCCTGCTCTTTAAGGACTGAAAAGTACCACCAACTTATGTGGGCTTT--AAAAGA
683029 GAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAAA
127 GAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAAA
* * * *
683085 AAGGAGAAGGCGTCCTGC-TCTTTGAGGACTAAAGAGTGCCACCAACTTGTGTGGGCTTTGCAAA
1 AAGGAAAAGGCGTCCTGCAT-TTTGAGGACTAAAAAGTACCACCAACTCGTGTGGGCTTTGCAAA
*
683149 AAGAAAGCATCCTGCTCTTTGAGGACTGAAAAGTACCACCAACTTATGTGGGCTTTAAAAGGAGA
65 AAGAAAGCATCCTGCTCTTTAAGGACTGAAAAGTACCACCAACTTATGTGGGCTTTAAAA-GAGA
* *
683214 AGGCGTCCTGCTCTTTGAGGAC
129 AAGCATCCTGCTCTTTGAGGAC
683236 AAAAAGGTGA
Statistics
Matches: 133, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
181 4 0.03
182 1 0.01
183 120 0.90
184 3 0.02
185 5 0.04
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (182 bp):
AAGGAAAAGGCGTCCTGCATTTTGAGGACTAAAAAGTACCACCAACTCGTGTGGGCTTTGCAAAA
AGAAAGCATCCTGCTCTTTAAGGACTGAAAAGTACCACCAACTTATGTGGGCTTTAAAAGAGAAA
GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAAA
Found at i:683498 original size:116 final size:116
Alignment explanation
Indices: 683258--683601 Score: 487
Period size: 116 Copynumber: 2.9 Consensus size: 116
683248 TGAGAGAGCG
* *
683258 TCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGG-TTT-----TAAAAGGCATCA
* * * *
683322 TGCTCTTTGAGGATTGAAG-GTGCTACCAGCTTGTGTGGGCTTTAAAAGAAAAAGCG
60 TGCTCTTTGAGGACTGAAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
* *
683378 TCCTGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGCATCATGCTCT
683443 TTGAGGACTGAAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
66 TTGAGGACTGAAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
* * * *
683494 TCCTGCTCTTTGAGGACTAGAAAAGTGCCATCAACTTATGTGGGCTTTAAAAGGCGTCATGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGCATCATGCTCT
*
683559 TTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
66 TTGAGGACTGAAG-AGTGCCACCAACTTGTGTGGGCTTTAAAAG
683602 GCGTCCTGCT
Statistics
Matches: 206, Mismatches: 15, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
115 30 0.15
116 132 0.64
120 22 0.11
121 22 0.11
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGCATCATGCTCT
TTGAGGACTGAAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
Found at i:683536 original size:61 final size:60
Alignment explanation
Indices: 683258--683601 Score: 442
Period size: 61 Copynumber: 5.9 Consensus size: 60
683248 TGAGAGAGCG
*
683258 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA-GCA
* * * * * *
683319 TCATGCTCTTTGAGGA-TTGAAGGTGCTACCAGCTTGTGTGGGCTTTAAAAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
* *
683378 TCCTGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAG-----GCA
1 TCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
683434 TCCTGCTCTTTGAGGACT-GAAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTAGAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
* * *
683494 TCCTGCTCTTTGAGGACTAGAAAAGTGCCATCAACTTATGTGGGCTTTAAAAG-----GCG
1 TCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
* *
683550 TCATGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
683602 GCGTCCTGCT
Statistics
Matches: 249, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
54 2 0.01
55 59 0.24
56 40 0.16
59 16 0.06
60 58 0.23
61 72 0.29
62 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
Found at i:683623 original size:55 final size:55
Alignment explanation
Indices: 683255--683623 Score: 400
Period size: 55 Copynumber: 6.4 Consensus size: 55
683245 AAATGAGAGA
*
683255 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * * * * *
683316 GCATCATGCTCTTTGAGGA-TTGAAGGTGCTACCAGCTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
683370 AAAAAGCGTCCTGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAG
1 -----GCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
683431 GCATCCTGCTCTTTGAGGACT-GAAGAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
683486 AAAAAGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCATCAACTTATGTGGGCTTTAAAAG
1 -----GCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
683547 GCGTCATGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
683602 GCGTCCTGCTCTCTGAAGACTA
1 GCGTCCTGCTCTTTGAGGACTA
683624 AAGGGGGAAA
Statistics
Matches: 265, Mismatches: 28, Indels: 36
0.81 0.09 0.11
Matches are distributed among these distances:
54 7 0.03
55 78 0.29
56 40 0.15
59 16 0.06
60 48 0.18
61 74 0.28
62 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:684723 original size:1 final size:1
Alignment explanation
Indices: 684712--684796 Score: 71
Period size: 1 Copynumber: 85.0 Consensus size: 1
684702 CTTTTCTCTC
* * * * * * * * *
684712 TTTTTTCTTTTTTTATTTTTTTGTTGTTTTTTTTGTTTGTTTTTTTTTTGTTTTTTTGTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
684777 TGTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
684797 AAAAAGGTGG
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.01, C:0.02, G:0.09, T:0.87
Consensus pattern (1 bp):
T
Found at i:684771 original size:32 final size:30
Alignment explanation
Indices: 684710--684796 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 30
684700 TTCTTTTCTC
*
684710 TCTTT-TTTCTTTTTTTATTTTTTTGTTGTTT
1 TCTTTGTTT-TTTTTTT-TTTTTTTTTTGTTT
*
684741 TTTTTGTTTGTTTTTTTTTTGTTTTTTTGTTT
1 TCTTTGTTT-TTTTTTTTTT-TTTTTTTGTTT
*
684773 TCTTTGTTTTTTTTGTTTTTTTTT
1 TCTTTGTTTTTTTTTTTTTTTTTT
684797 AAAAAGGTGG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
30 5 0.10
31 16 0.33
32 28 0.57
ACGTcount: A:0.01, C:0.03, G:0.09, T:0.86
Consensus pattern (30 bp):
TCTTTGTTTTTTTTTTTTTTTTTTTTGTTT
Found at i:684780 original size:41 final size:42
Alignment explanation
Indices: 684712--684796 Score: 120
Period size: 41 Copynumber: 2.0 Consensus size: 42
684702 CTTTTCTCTC
* *
684712 TTTTTTCTTTTTTTATTTTTTTGTTGTTTTTTTTGTTTGTTTT
1 TTTTTTCTTTTTTTAGTTTTCTGTTGTTTTTTTTGTTT-TTTT
*
684755 TTTTTTGTTTTTTT-GTTTTCT-TTGTTTTTTTTGTTTTTTT
1 TTTTTTCTTTTTTTAGTTTTCTGTTGTTTTTTTTGTTTTTTT
684795 TT
1 TT
684797 AAAAAGGTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
40 6 0.15
41 15 0.38
42 5 0.13
43 13 0.33
ACGTcount: A:0.01, C:0.02, G:0.09, T:0.87
Consensus pattern (42 bp):
TTTTTTCTTTTTTTAGTTTTCTGTTGTTTTTTTTGTTTTTTT
Found at i:684793 original size:28 final size:26
Alignment explanation
Indices: 684712--684796 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 26
684702 CTTTTCTCTC
684712 TTTTTTCTTT-TTTTATTTTTTTGTTGTT
1 TTTTTTCTTTGTTTT-TTTTTTT-TT-TT
*
684740 TTTTTTGTTTGTTTTTTTTTTGTTTTT
1 TTTTTTCTTTGTTTTTTTTTT-TTTTT
*
684767 TTGTTTTCTTTGTTTTTTTTGTTTTTT
1 TT-TTTTCTTTGTTTTTTTTTTTTTTT
684794 TTT
1 TTT
684797 AAAAAGGTGG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 11 0.22
28 34 0.67
29 5 0.10
ACGTcount: A:0.01, C:0.02, G:0.09, T:0.87
Consensus pattern (26 bp):
TTTTTTCTTTGTTTTTTTTTTTTTTT
Found at i:697311 original size:51 final size:50
Alignment explanation
Indices: 697169--697315 Score: 134
Period size: 51 Copynumber: 2.9 Consensus size: 50
697159 TCTCCCGACC
* * * * *
697169 AAAAATTTAATATTTTGGAGATAACAA-TGGGGCTAGAGTATCTCCGATTATG
1 AAAAA-TTAGTATTTT-GAAATAA-AATTGGGGTTAGAGTATCCCCGATGATG
** * * * * *
697221 AAAAATCGGTATTTTGAAAATAAAATCGGAGTCAAAGTATCCCCGATGGTG
1 AAAAATTAGTATTTTG-AAATAAAATTGGGGTTAGAGTATCCCCGATGATG
697272 AAAAATTAGTATTTTAGAAATAAAATTGGGGTTAGAGTATCCCC
1 AAAAATTAGTATTTT-GAAATAAAATTGGGGTTAGAGTATCCCC
697316 TCGGAAATAG
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
50 3 0.04
51 65 0.88
52 6 0.08
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (50 bp):
AAAAATTAGTATTTTGAAATAAAATTGGGGTTAGAGTATCCCCGATGATG
Found at i:697527 original size:107 final size:107
Alignment explanation
Indices: 697272--697669 Score: 428
Period size: 107 Copynumber: 3.7 Consensus size: 107
697262 CCCGATGGTG
* * ** * *
697272 AAAAATTAGTATTTTAGAAATAAAATTGGGGTTAGAGTATCCCCTCGGAAATAGCGAGATTGGAG
1 AAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGGAAATAACGAGGTTGGAG
** * *
697337 TATCCCTAATGACATAATGGGGTTGGAGTACCCCCCGATTATGA
66 TATCCCCGATGACATAA-CGGGTTGGAGTACCCCTCGATTAT-A
* * *
697381 AAAAATCAATATTTTGGATATAAAGCCGGGGTT-GAAGTATCCCCTCGGAAATAACGAGGTTGGA
1 AAAAATCAATATTTTAGAAATAAAACCGGGGTTAG-AGTATCCCCTCGGAAATAACGAGGTTGGA
* *
697445 GTATCCCCGATGACATAACAGGTTGGAGCA-CCCTCGATTATAA
65 GTATCCCCGATGACATAACGGGTTGGAGTACCCCTCGATTAT-A
* * * *
697488 AAAAATCAATATTTTAGATATAAAGCCGGGGTTAGAGTATCCACTCGGAAATAA-TAGGGTTGGA
1 AAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGGAAATAACGA-GGTTGGA
* * *
697552 GTATCCCCGATGAAATAACGGGGTTGGAGTATCCCT-GATTATG
65 GTATCCCCGATGACATAAC-GGGTTGGAGTACCCCTCGATTATA
** * ** * * *
697595 AAAAATTGATGTTTT-GAAAATAAAACCTTGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGA
1 AAAAATCAATATTTTAG-AAATAAAACCGGGGTTAGAGTATCCCCTCGGAAATAACGAGGTTGGA
697659 GTATCCCCGAT
65 GTATCCCCGAT
697670 TATGAAAATT
Statistics
Matches: 247, Mismatches: 35, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
106 2 0.01
107 146 0.59
108 26 0.11
109 73 0.30
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (107 bp):
AAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGGAAATAACGAGGTTGGAG
TATCCCCGATGACATAACGGGTTGGAGTACCCCTCGATTATA
Found at i:697556 original size:28 final size:27
Alignment explanation
Indices: 697516--697586 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
697506 TATAAAGCCG
* *
697516 GGGTTAGAGTATCCACTCG-GAAATAATA
1 GGGTTGGAGTATCC-C-CGAGAAATAACA
*
697544 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGA-GAAATAACA
697572 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
697587 TGATTATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 35 0.92
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGAAATAACA
Found at i:697676 original size:79 final size:79
Alignment explanation
Indices: 697542--697717 Score: 275
Period size: 79 Copynumber: 2.2 Consensus size: 79
697532 TCGGAAATAA
* *
697542 TAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGT
1 TAGGGTTGGAGTATCCCCCATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
697607 TTTGAAAATAAAACC
66 TTTGAAAATAAAA-C
* *
697622 T-TGGTTGGAGTATCCCCTCA-GAAATAACGGGGTTGGAGTATCCCCGATTATGAAAATTTGATG
1 TAGGGTTGGAGTATCCCC-CATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
697685 TTTTGAAAATAAAAC
65 TTTTGAAAATAAAAC
*
697700 TAGGGCTGGAGTATCCCC
1 TAGGGTTGGAGTATCCCC
697718 GATTGTGGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
78 2 0.02
79 84 0.95
80 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (79 bp):
TAGGGTTGGAGTATCCCCCATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
TTTGAAAATAAAAC
Found at i:697716 original size:51 final size:51
Alignment explanation
Indices: 697655--697770 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
697645 ATAACGGGGT
* *
697655 TGGAGTATCCCCGATTAT-GAAAATTTGATGTTTT-GAAAATAAAACTAGGGC
1 TGGAGTATCCCCGATTATGGAAAA-TTAATGTTTTAG-AAATAAAACCAGGGC
* * * *
697706 TGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAGGAATAAAACCGGGGT
1 TGGAGTATCCCCGATTATGGAAAATTAATGTTTTAGAAATAAAACCAGGGC
697757 TGGAGTATCCCCGA
1 TGGAGTATCCCCGA
697771 GATGAAAGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
51 51 0.89
52 6 0.11
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
TGGAGTATCCCCGATTATGGAAAATTAATGTTTTAGAAATAAAACCAGGGC
Found at i:699443 original size:25 final size:25
Alignment explanation
Indices: 699409--699458 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
699399 GTTTTCTCCC
*
699409 TCTCTTTGCTATTATTTAGCTAGAA
1 TCTCTTTGCTATTATTTAGCAAGAA
699434 TCTCTTTGCTATTATTTAGCAAGAA
1 TCTCTTTGCTATTATTTAGCAAGAA
699459 AAGGATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (25 bp):
TCTCTTTGCTATTATTTAGCAAGAA
Found at i:700151 original size:20 final size:18
Alignment explanation
Indices: 700102--700208 Score: 71
Period size: 20 Copynumber: 5.8 Consensus size: 18
700092 AAAATGCCTG
*
700102 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG--A
* *
700122 AATATTTCGATACAATGA
1 AATGTATCGATACAATGA
700140 GTAATGTATCGATAC-----
1 --AATGTATCGATACAATGA
700155 AATGTATCGATACAATGA
1 AATGTATCGATACAATGA
*
700173 GCAATATATCGATACAATGCAA
1 --AATGTATCGATACAATG--A
700195 AATGTATCGATACA
1 AATGTATCGATACA
700209 TCTGGGTAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
13 13 0.19
18 1 0.01
20 54 0.78
22 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (18 bp):
AATGTATCGATACAATGA
Found at i:700165 original size:53 final size:53
Alignment explanation
Indices: 700102--700208 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
700092 AAAATGCCTG
* * *
700102 AATGTATCGATACATTGTA-AAATATTTCGATACAATG-AGTAATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATATATCGATACAATGCA-AAATGTATCGATAC
*
700155 AATGTATCGATACAATGAGCAATATATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATATATCGATACAATGCAAAATGTATCGATAC
700208 A
1 A
700209 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 46 0.96
54 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATATATCGATACAATGCAAAATGTATCGATAC
Found at i:700170 original size:33 final size:33
Alignment explanation
Indices: 700128--700191 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
700118 GTAAAATATT
* *
700128 TCGATACAATGAGTAATGTATCGATACAATGTA
1 TCGATACAATGAGCAATATATCGATACAATGTA
700161 TCGATACAATGAGCAATATATCGATACAATG
1 TCGATACAATGAGCAATATATCGATACAATG
700192 CAAAATGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (33 bp):
TCGATACAATGAGCAATATATCGATACAATGTA
Found at i:700190 original size:13 final size:13
Alignment explanation
Indices: 700142--700171 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
700132 TACAATGAGT
700142 AATGTATCGATAC
1 AATGTATCGATAC
700155 AATGTATCGATAC
1 AATGTATCGATAC
700168 AATG
1 AATG
700172 AGCAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:708302 original size:17 final size:16
Alignment explanation
Indices: 708282--708350 Score: 56
Period size: 15 Copynumber: 4.3 Consensus size: 16
708272 ATTTATTAAA
708282 TAAATATAAATATAATT
1 TAAATATAAATAT-ATT
708299 TAAATTATTAAATATATT
1 TAAA-TA-TAAATATATT
*
708317 AAAATCAT-AA-ATATT
1 TAAAT-ATAAATATATT
*
708332 TAAATA-ATATATA-T
1 TAAATATAAATATATT
708346 TAAAT
1 TAAAT
708351 TTGTTATGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.18
15 12 0.27
16 2 0.05
17 6 0.14
18 9 0.20
19 7 0.16
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATATAAATATATT
Found at i:708311 original size:8 final size:9
Alignment explanation
Indices: 708275--708337 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 9
708265 TTTTTATATT
708275 TATTAAATA
1 TATTAAATA
*
708284 AATATAAATA
1 TAT-TAAATA
708294 TAATTTAAAT-
1 T-A-TTAAATA
708304 TATTAAATA
1 TATTAAATA
708313 TATTAAA-A
1 TATTAAATA
708321 TCA-TAAATA
1 T-ATTAAATA
708330 T-TTAAATA
1 TATTAAATA
708338 ATATATATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
8 18 0.40
9 13 0.29
10 7 0.16
11 6 0.13
12 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
TATTAAATA
Found at i:708778 original size:13 final size:13
Alignment explanation
Indices: 708760--708803 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
708750 ATTATTTATC
*
708760 ATTTTAAAATATA
1 ATTTTAAAATAAA
708773 ATTTTAAAATAAA
1 ATTTTAAAATAAA
708786 ATTATTTAATAATAAA
1 A-T-TTTAA-AATAAA
708802 AT
1 AT
708804 AGTTTCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
15 6 0.22
16 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTTTAAAATAAA
Found at i:709345 original size:15 final size:16
Alignment explanation
Indices: 709324--709359 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
709314 TAAAAAATAG
709324 AAATTTTTTAA-AAAA
1 AAATTTTTTAATAAAA
*
709339 TAATTTTTTAATAAAA
1 AAATTTTTTAATAAAA
709355 AAATT
1 AAATT
709360 GAAACTTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTTTTTAATAAAA
Found at i:712155 original size:21 final size:22
Alignment explanation
Indices: 712129--712170 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
712119 TACCTTGAAA
712129 GCTTAAAGAAAC-TTT-GAAAAT
1 GCTTAAA-AAACATTTAGAAAAT
712150 GCTTAAAAAACATTTAGAAAA
1 GCTTAAAAAACATTTAGAAAA
712171 AATCAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (22 bp):
GCTTAAAAAACATTTAGAAAAT
Found at i:718438 original size:77 final size:77
Alignment explanation
Indices: 718304--718451 Score: 206
Period size: 77 Copynumber: 1.9 Consensus size: 77
718294 ATGCATTAGA
* * * *
718304 GATAGGTTTGTCATTTCATATCATATCGAGTCCATTAGAGTTATAAATATATTTTCATGTCAAAG
1 GATAGGTTTGTCATTTCATATCATATCGAGTCCATTAGAGTTACAAAGATATATTCATATCAAAG
718369 GTATACTTTAAG
66 GTATACTTTAAG
* * * ** *
718381 GATAGGTTTGTTATTTCATATCATATTGAGTCCATTAGGGTTACCGAGATATATTCATATCGAAG
1 GATAGGTTTGTCATTTCATATCATATCGAGTCCATTAGAGTTACAAAGATATATTCATATCAAAG
718446 GTATAC
66 GTATAC
718452 CGTAGGGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (77 bp):
GATAGGTTTGTCATTTCATATCATATCGAGTCCATTAGAGTTACAAAGATATATTCATATCAAAG
GTATACTTTAAG
Found at i:722174 original size:23 final size:23
Alignment explanation
Indices: 722140--722216 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
722130 CTTTAAATGG
*
722140 ATAAAAAATAATATGAATATAAT
1 ATAAAAATTAATATGAATATAAT
* *
722163 ATACAAATTAAT-TAAAATATAAT
1 ATAAAAATTAATAT-GAATATAAT
* * *
722186 ACATAAATGAATATG-ATATGAAT
1 ATAAAAATTAATATGAATAT-AAT
722209 ATAAAAAT
1 ATAAAAAT
722217 ATAAAAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
22 5 0.12
23 36 0.86
24 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (23 bp):
ATAAAAATTAATATGAATATAAT
Found at i:723378 original size:16 final size:15
Alignment explanation
Indices: 723353--723389 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
723343 ATTTTTTAAT
723353 AATAAATAAATATTA
1 AATAAATAAATATTA
*
723368 AATATAATAAATATTT
1 AATA-AATAAATATTA
723384 AATAAA
1 AATAAA
723390 AATATATACA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATAAATATTA
Found at i:723389 original size:20 final size:20
Alignment explanation
Indices: 723350--723408 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
723340 TTTATTTTTT
** *
723350 AATAATAAATAAATATTAAA
1 AATAATAAATATTTAATAAA
*
723370 TATAATAAATATTTAATAAA
1 AATAATAAATATTTAATAAA
*
723390 AATATATACATAATTTAAT
1 AATA-ATAAAT-ATTTAAT
723409 TACAATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 19 0.61
21 5 0.16
22 7 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAATAAATATTTAATAAA
Found at i:723395 original size:22 final size:22
Alignment explanation
Indices: 723367--723408 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
723357 AATAAATATT
723367 AAATATAATAAAT-ATTTAATAA
1 AAATAT-ATAAATAATTTAATAA
*
723389 AAATATATACATAATTTAAT
1 AAATATATAAATAATTTAAT
723409 TACAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATATATAAATAATTTAATAA
Found at i:723724 original size:13 final size:14
Alignment explanation
Indices: 723708--723736 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
723698 ATTTATTTTT
723708 TATTTT-TTAAATA
1 TATTTTATTAAATA
723721 TATTTTATTAAATA
1 TATTTTATTAAATA
723735 TA
1 TA
723737 AATTATCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTTATTAAATA
Found at i:725156 original size:23 final size:24
Alignment explanation
Indices: 725113--725157 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
725103 TTATAGGTTT
* *
725113 TTGATTTTTGGGTTTAGGAGCTTG
1 TTGATTTTAGGGTTGAGGAGCTTG
725137 TTGATTTTAGGGTTGA-GAGCT
1 TTGATTTTAGGGTTGAGGAGCT
725158 AAATTTTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.16, C:0.04, G:0.33, T:0.47
Consensus pattern (24 bp):
TTGATTTTAGGGTTGAGGAGCTTG
Found at i:726833 original size:24 final size:25
Alignment explanation
Indices: 726780--726837 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
726770 TGGGTGGCTA
726780 GTCAACAAAAGCCACCATTTCTGTTT
1 GTCAACAAAAGCCACCA-TTCTGTTT
*
726806 GTCAACAAAAGCCACCA-TGTGTTT
1 GTCAACAAAAGCCACCATTCTGTTT
726830 GTCAACAA
1 GTCAACAA
726838 TGGTGGTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (25 bp):
GTCAACAAAAGCCACCATTCTGTTT
Found at i:726866 original size:27 final size:27
Alignment explanation
Indices: 726827--726892 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
726817 CCACCATGTG
*
726827 TTTGTCAACAATGGTGGTTACTTTGTA
1 TTTGTCAAAAATGGTGGTTACTTTGTA
* * *
726854 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGGTTACTTTGTA
726881 TTTGTCAAAAAT
1 TTTGTCAAAAAT
726893 TATGGCTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTACTTTGTA
Found at i:726922 original size:24 final size:24
Alignment explanation
Indices: 726854--726923 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
726844 TTACTTTGTA
* *
726854 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAATTGGTGG---CTTGTTG
*
726881 TTTGTCAAAAATT-ATGGCTTGTTG
1 TTTGTC-AAAATTGGTGGCTTGTTG
726905 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAATTGGTGGCT
726924 AATTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
27 9 0.24
28 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAATTGGTGGCTTGTTG
Found at i:729509 original size:21 final size:22
Alignment explanation
Indices: 729480--729525 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
729470 TGTTCAGACA
* *
729480 AGTAGTACTCCACAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
729502 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
729523 AGT
1 AGT
729526 TTCAACAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:731440 original size:24 final size:25
Alignment explanation
Indices: 731389--731446 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 25
731379 TGGGTGGCTA
731389 GTCAACAAAAGCCACCATTTGTGTTT
1 GTCAACAAAAGCCACCA-TTGTGTTT
731415 GTCAACAAAAGCCACCA-TGTGTTT
1 GTCAACAAAAGCCACCATTGTGTTT
731439 GTCAACAA
1 GTCAACAA
731447 TGGTGGTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 15 0.47
26 17 0.53
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
GTCAACAAAAGCCACCATTGTGTTT
Found at i:731475 original size:27 final size:27
Alignment explanation
Indices: 731436--731501 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
731426 CCACCATGTG
*
731436 TTTGTCAACAATGGTGGTTACTTTGTA
1 TTTGTCAAAAATGGTGGTTACTTTGTA
* * *
731463 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGGTTACTTTGTA
731490 TTTGTCAAAAAT
1 TTTGTCAAAAAT
731502 TATGGCTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTACTTTGTA
Found at i:731531 original size:24 final size:24
Alignment explanation
Indices: 731463--731532 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
731453 TTACTTTGTA
* *
731463 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAATTGGTGG---CTTGTTG
*
731490 TTTGTCAAAAATT-ATGGCTTGTTG
1 TTTGTC-AAAATTGGTGGCTTGTTG
731514 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAATTGGTGGCT
731533 AATTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
27 9 0.24
28 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAATTGGTGGCTTGTTG
Found at i:732546 original size:18 final size:19
Alignment explanation
Indices: 732511--732546 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
732501 TTTTTGTCAT
732511 ATAATTTTGAGATAATTAA
1 ATAATTTTGAGATAATTAA
*
732530 ATAATTTT-AGATTATTA
1 ATAATTTTGAGATAATTA
732547 TTTAGTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (19 bp):
ATAATTTTGAGATAATTAA
Found at i:734394 original size:3 final size:3
Alignment explanation
Indices: 734388--734418 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
734378 AATAAAACAC
734388 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
734419 TCGAGGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:735305 original size:18 final size:17
Alignment explanation
Indices: 735284--735320 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
735274 AAAATTTAAT
735284 TAAAATATAAAAAATAAA
1 TAAAAT-TAAAAAATAAA
*
735302 TAAAATTTAAAAATAAA
1 TAAAATTAAAAAATAAA
735319 TA
1 TA
735321 TAAAAGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAATTAAAAAATAAA
Found at i:736479 original size:21 final size:22
Alignment explanation
Indices: 736455--736501 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
736445 TTCAATTTAA
*
736455 ATTTTAAATT-TATTAAATATT-
1 ATTTTAAATTAAATTAAAT-TTG
736476 A-TTTAAATTAAATTAAATTTG
1 ATTTTAAATTAAATTAAATTTG
736497 ATTTT
1 ATTTT
736502 TTTTGGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 10 0.45
21 9 0.41
22 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAATTAAATTTG
Found at i:737656 original size:44 final size:44
Alignment explanation
Indices: 737568--737689 Score: 199
Period size: 44 Copynumber: 2.8 Consensus size: 44
737558 TTAAAATTTT
*
737568 GGTGGCTATGCCAATCCAACGAAAAAATAAATAAATATGCAATTG
1 GGTGGCTATGCCAATCC-ACGGAAAAATAAATAAATATGCAATTG
*
737613 GGTGGCTATGCCAATCCACGGAAAAATAAATAAATATGTAATTG
1 GGTGGCTATGCCAATCCACGGAAAAATAAATAAATATGCAATTG
* *
737657 GGTGACTATGCCAATTCACGGAAAAATAAATAA
1 GGTGGCTATGCCAATCCACGGAAAAATAAATAA
737690 TAAAAACACC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 56 0.77
45 17 0.23
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (44 bp):
GGTGGCTATGCCAATCCACGGAAAAATAAATAAATATGCAATTG
Found at i:743599 original size:25 final size:25
Alignment explanation
Indices: 743524--743599 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
743514 TTTTTTTATT
* *
743524 TAATTA-AATATATTTTATTATAAATT
1 TAATTATAATATATTTT-TAATAAA-A
* ** *
743550 TAATTATAAAATATTTACAAAAAAA
1 TAATTATAATATATTTTTAATAAAA
*
743575 TAATTTTAATATATTTTTAATAAAA
1 TAATTATAATATATTTTTAATAAAA
743600 AATAAAATTC
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
25 20 0.53
26 10 0.26
27 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATTATAATATATTTTTAATAAAA
Found at i:745119 original size:21 final size:21
Alignment explanation
Indices: 745090--745137 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
745080 TATTTTATAT
*
745090 TTAATATTTATGTTTAACATA-A
1 TTAA-ATTT-TGTTTAAAATACA
*
745112 TTAAATTTTTTTTAAAATACA
1 TTAAATTTTGTTTAAAATACA
745133 TTAAA
1 TTAAA
745138 ATAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 10 0.43
22 4 0.17
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAAATTTTGTTTAAAATACA
Found at i:745175 original size:21 final size:20
Alignment explanation
Indices: 745136--745176 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
745126 AAATACATTA
**
745136 AAATAATATTTATTTATATT
1 AAATAATATTTATAAATATT
745156 AAATATATATTTATAAATATT
1 AAATA-ATATTTATAAATATT
745177 TATATCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATAATATTTATAAATATT
Found at i:752321 original size:25 final size:25
Alignment explanation
Indices: 752289--752339 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
752279 AAAAAAAATC
752289 TCATATTTTTATTTATTAATAATTA
1 TCATATTTTTATTTATTAATAATTA
752314 TCATATTTTTATTTATTAATAATTA
1 TCATATTTTTATTTATTAATAATTA
752339 T
1 T
752340 AATGTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TCATATTTTTATTTATTAATAATTA
Found at i:752823 original size:2 final size:2
Alignment explanation
Indices: 752811--752856 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
752801 TTATCCTCTA
*
752811 AT AT GT 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
752853 AT AT
1 AT AT
752857 TAAATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:753402 original size:2 final size:2
Alignment explanation
Indices: 753395--753430 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
753385 ACTTAAATAA
753395 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
753431 CATACTTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:753910 original size:2 final size:2
Alignment explanation
Indices: 753905--753944 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
753895 ATTATATACA
*
753905 AT AT AT AT AT AT GT 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
753945 CAACTCGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:754599 original size:2 final size:2
Alignment explanation
Indices: 754592--754620 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
754582 ACAAAACATA
754592 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 A
754621 GAGTACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:757436 original size:16 final size:17
Alignment explanation
Indices: 757395--757438 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
757385 TTTGGCAACC
**
757395 AGAAAATAACTTCCAGA
1 AGAAAATATTTTCCAGA
757412 AGTAAAATATTTTCCAG-
1 AG-AAAATATTTTCCAGA
757429 AGAAAATATT
1 AGAAAATATT
757439 CTCCTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 4 0.17
18 12 0.50
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.27
Consensus pattern (17 bp):
AGAAAATATTTTCCAGA
Done.