Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold27
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: 2789374
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 115785 characters in sequence are not A, C, G, or T
File 4 of 16
Found at i:565422 original size:19 final size:19
Alignment explanation
Indices: 565398--565438 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
565388 CCGACAAGCC
565398 TTTTATAATGCATACCATG
1 TTTTATAATGCATACCATG
565417 TTTTATAATGCATACCATG
1 TTTTATAATGCATACCATG
565436 TTT
1 TTT
565439 GTAAGGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTTATAATGCATACCATG
Found at i:570278 original size:23 final size:22
Alignment explanation
Indices: 570235--570278 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
570225 TATAGTACAA
570235 TTTTATTATTTATTTGCTTAATG
1 TTTTATTATTTATTT-CTTAATG
570258 TTTTATTTGATTTATTT-TTAA
1 TTTTA-TT-ATTTATTTCTTAA
570279 ATAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.47
24 2 0.11
25 8 0.42
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (22 bp):
TTTTATTATTTATTTCTTAATG
Found at i:573894 original size:29 final size:30
Alignment explanation
Indices: 573852--573908 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
573842 TAAATATATA
573852 TATATTAATAAATT-TGA-ACATTCATGAGT
1 TATATTAATAAATTAT-ATACATTCATGAGT
* *
573881 TATATTCATCAATTATATACATTCATGA
1 TATATTAATAAATTATATACATTCATGA
573909 ATCTAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (30 bp):
TATATTAATAAATTATATACATTCATGAGT
Found at i:579274 original size:18 final size:16
Alignment explanation
Indices: 579237--579275 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
579227 AGATTCATTT
*
579237 TTTTATATTTATATTG
1 TTTTATATTTATATTA
579253 TTTTATATTTATACTTTA
1 TTTTATATTTATA--TTA
579271 TTTTA
1 TTTTA
579276 AAAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 13 0.65
18 7 0.35
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTATATTTATATTA
Found at i:579871 original size:2 final size:2
Alignment explanation
Indices: 579864--579899 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
579854 TGCCGGTGGA
579864 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
579900 TTGAGGAAAA
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:581139 original size:23 final size:23
Alignment explanation
Indices: 581113--581157 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
581103 CTTCTATTCT
*
581113 ACAAAAATTACTTATCTAATTAC
1 ACAAAAATCACTTATCTAATTAC
** *
581136 ACAACTATCACTTATTTAATTA
1 ACAAAAATCACTTATCTAATTA
581158 TTTATTGGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (23 bp):
ACAAAAATCACTTATCTAATTAC
Found at i:581686 original size:16 final size:16
Alignment explanation
Indices: 581665--581695 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
581655 TTGATTCGAT
581665 TCAATTGGATGTTTGA
1 TCAATTGGATGTTTGA
*
581681 TCAATTTGATGTTTG
1 TCAATTGGATGTTTG
581696 CCTATTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (16 bp):
TCAATTGGATGTTTGA
Found at i:600776 original size:13 final size:13
Alignment explanation
Indices: 600758--600793 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
600748 ACCCAAATGT
600758 ATCGATACATTGA
1 ATCGATACATTGA
*
600771 ATCGATACATTGT
1 ATCGATACATTGA
600784 ATCGATACAT
1 ATCGATACAT
600794 GTTCATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
ATCGATACATTGA
Found at i:600823 original size:20 final size:19
Alignment explanation
Indices: 600777--600833 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
600767 TTGAATCGAT
*
600777 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
600796 TCATTGTATCGATAGATGG
1 ACATTGTATCGATACATGG
*
600815 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
600834 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:600901 original size:13 final size:13
Alignment explanation
Indices: 600883--600907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
600873 CATGGCACAT
600883 TGTATCAATACAA
1 TGTATCAATACAA
600896 TGTATCAATACA
1 TGTATCAATACA
600908 TGATGAATTG
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:602560 original size:16 final size:16
Alignment explanation
Indices: 602539--602571 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
602529 CTCTAAAATG
602539 ACCTTAGATTATGCAA
1 ACCTTAGATTATGCAA
602555 ACCTTAGATTATGCAA
1 ACCTTAGATTATGCAA
602571 A
1 A
602572 TGATTCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (16 bp):
ACCTTAGATTATGCAA
Found at i:602808 original size:29 final size:30
Alignment explanation
Indices: 602776--602899 Score: 91
Period size: 29 Copynumber: 4.3 Consensus size: 30
602766 CTAAAATAAT
* * *
602776 CCTAAAATACATGAAATTACATAGAA-GTC
1 CCTAAAATATATGAAATTACATACAATGAC
*
602805 CCTAAAATATA-GCAAATTA-TTACAATGAC
1 CCTAAAATATATG-AAATTACATACAATGAC
*
602834 CCTAAAATATATGAAATTGCATA-AATGGA-
1 CCTAAAATATATGAAATTACATACAAT-GAC
* * * *
602863 CCTAAAACATGA-CAAATTAC-TAAAATGGC
1 CCTAAAATAT-ATGAAATTACATACAATGAC
602892 CCTAAAAT
1 CCTAAAAT
602900 GCATAAAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
28 8 0.11
29 62 0.82
30 6 0.08
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (30 bp):
CCTAAAATATATGAAATTACATACAATGAC
Found at i:602908 original size:29 final size:29
Alignment explanation
Indices: 602876--602967 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
602866 AAAACATGAC
602876 AAATTACTAAAATGGCCCTAAAATGCATA
1 AAATTACTAAAATGGCCCTAAAATGCATA
* * *
602905 AAATTGC-ATAAATGGTCCT-AAAT-CGTGA
1 AAATTACTA-AAATGGCCCTAAAATGCAT-A
* ** *
602933 CAAATTACTAAAATGACTTTAAAATGCATG
1 -AAATTACTAAAATGGCCCTAAAATGCATA
602963 AAATT
1 AAATT
602968 CCATTAATGG
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
27 2 0.04
28 6 0.13
29 32 0.68
30 5 0.11
31 2 0.04
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (29 bp):
AAATTACTAAAATGGCCCTAAAATGCATA
Found at i:602995 original size:58 final size:58
Alignment explanation
Indices: 602720--603252 Score: 338
Period size: 58 Copynumber: 9.2 Consensus size: 58
602710 AGAATATTGC
* * * * * *
602720 TAAAATGCATGGAATTGCATAATTGTTCCTAAAACATAGA-AAATGACTAAAATAATCC-
1 TAAAATGCATGAAATTACATAAATGGTCCTAAAACAT-GACAAATTACTAAAATGA-CCT
* * * * *
602778 TAAAATACATGAAATTACATAGAA--GTCCCTAAAATAT-AGCAAATTATTACAATGACCC
1 TAAAATGCATGAAATTACATA-AATGGT-CCTAAAACATGA-CAAATTACTAAAATGACCT
** * * * *
602836 TAAAATATATGAAATTGCATAAATGGACCTAAAACATGACAAATTACTAAAATGGCCC
1 TAAAATGCATGAAATTACATAAATGGTCCTAAAACATGACAAATTACTAAAATGACCT
* * * * *
602894 TAAAATGCATAAAATTGCATAAATGGTCCTAAATCGTGACAAATTACTAAAATGACTT
1 TAAAATGCATGAAATTACATAAATGGTCCTAAAACATGACAAATTACTAAAATGACCT
* * * * * * **
602952 TAAAATGCATGAAATTCCATTAATGGTCTTAAAACATGGCAAATTATTATAATGTTGC-
1 TAAAATGCATGAAATTACATAAATGGTCCTAAAACATGACAAATTACTAAAATG-ACCT
* * ** * * * * *
603010 AAAAATGCATGAAATTACA-CAAT-AACTTAAATCATAAAAAATTACTAAAATGACTT
1 TAAAATGCATGAAATTACATAAATGGTCCTAAAACATGACAAATTACTAAAATGACCT
* * * * ** *
603066 TAAAATGCATGAAATAACGTAAATGGTTCGAAAACATGGTAAATTACTATAATGACCT
1 TAAAATGCATGAAATTACATAAATGGTCCTAAAACATGACAAATTACTAAAATGACCT
* * * **
603124 TAAAATGCATGGGAATGT--ATAAATGGTCCTAAATCATGAAAAATTAACTAAAATGACAA
1 TAAAATGCAT-GAAAT-TACATAAATGGTCCTAAAACATGACAAATT-ACTAAAATGACCT
* * ** * *
603183 TAAAGTGCATGAAATGACATGAAA--GTCCATAAGTCATGGA-AAATGACTAAAATG-CCAC
1 TAAAATGCATGAAATTACAT-AAATGGTCC-TAAAACAT-GACAAATTACTAAAATGACC-T
603241 TAAAATGCATGA
1 TAAAATGCATGA
603253 GATGGCAAAA
Statistics
Matches: 368, Mismatches: 86, Indels: 42
0.74 0.17 0.08
Matches are distributed among these distances:
56 38 0.10
57 12 0.03
58 274 0.74
59 39 0.11
60 5 0.01
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (58 bp):
TAAAATGCATGAAATTACATAAATGGTCCTAAAACATGACAAATTACTAAAATGACCT
Found at i:603080 original size:29 final size:29
Alignment explanation
Indices: 602934--603080 Score: 71
Period size: 29 Copynumber: 5.1 Consensus size: 29
602924 AAATCGTGAC
602934 AAATTACTAAAATGACTTTAAAATGCATG
1 AAATTACTAAAATGACTTTAAAATGCATG
* * *
602963 AAATT-CCATTAATG-GTCTTAAAA--CATGG
1 AAATTACTA-AAATGACT-TTAAAATGCAT-G
* * *
602991 CAAATTATTATAATG--TTGCAAAAATGCATG
1 -AAATTACTAAAATGACTT--TAAAATGCATG
* * *
603021 AAATTAC-ACAATAAC-TT-AAAT-CATAAA
1 AAATTACTAAAATGACTTTAAAATGCAT--G
603048 AAATTACTAAAATGACTTTAAAATGCATG
1 AAATTACTAAAATGACTTTAAAATGCATG
603077 AAAT
1 AAAT
603081 AACGTAAATG
Statistics
Matches: 87, Mismatches: 14, Indels: 34
0.64 0.10 0.25
Matches are distributed among these distances:
25 3 0.03
26 4 0.05
27 11 0.13
28 15 0.17
29 42 0.48
30 6 0.07
31 6 0.07
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (29 bp):
AAATTACTAAAATGACTTTAAAATGCATG
Found at i:603129 original size:114 final size:116
Alignment explanation
Indices: 602844--603202 Score: 291
Period size: 114 Copynumber: 3.1 Consensus size: 116
602834 CCTAAAATAT
** * * * ** * *
602844 ATGAAATTGCATAAATGGACCT-AAAACATGACAAATTACTAAAATGGCCCTAAAATGCAT-AAA
1 ATGAAATAACATAAATGG-TCTGAAAACATGGCAAATTACTATAATGTACCAAAAATGCATGGAA
* * ** * * *
602907 ATTGCATAAATGGTCCTAAATCGTGACAAATTACTAAAATGACTTTAAAATGC
65 A-TGTACAAATGAACCTAAATCATAAAAAATTACTAAAATGACTTTAAAATGC
** * * * **
602960 ATGAAATTCCATTAATGGTCTTAAAACATGGCAAATTATTATAATGTTGCAAAAATGCAT-GAAA
1 ATGAAATAACATAAATGGTCTGAAAACATGGCAAATTACTATAATGTACCAAAAATGCATGGAAA
*
603024 T-TACACAAT-AACTTAAATCATAAAAAATTACTAAAATGACTTTAAAATGC
66 TGTACA-AATGAACCTAAATCATAAAAAATTACTAAAATGACTTTAAAATGC
* * * *
603074 ATGAAATAACGTAAATGGT-TCGAAAACATGGTAAATTACTATAATG-ACCTTAAAATGCATGGG
1 ATGAAATAACATAAATGGTCT-GAAAACATGGCAAATTACTATAATGTACC-AAAAATGCATGGA
* ** * ** *
603137 AATGTATAAATGGTCCTAAATCATGAAAAATTAACTAAAATGACAATAAAGTGC
64 AATGTACAAATGAACCTAAATCATAAAAAATT-ACTAAAATGACTTTAAAATGC
*
603191 ATGAAATGACAT
1 ATGAAATAACAT
603203 GAAAGTCCAT
Statistics
Matches: 195, Mismatches: 40, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
113 2 0.01
114 83 0.43
115 13 0.07
116 69 0.35
117 28 0.14
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (116 bp):
ATGAAATAACATAAATGGTCTGAAAACATGGCAAATTACTATAATGTACCAAAAATGCATGGAAA
TGTACAAATGAACCTAAATCATAAAAAATTACTAAAATGACTTTAAAATGC
Found at i:604189 original size:11 final size:10
Alignment explanation
Indices: 604165--604204 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
604155 AGAAATTCCA
604165 TTTTTTTCTT
1 TTTTTTTCTT
*
604175 TTTCTTTCTT
1 TTTTTTTCTT
604185 TTTTCTTTCTT
1 TTTT-TTTCTT
604196 TTTTTTTCT
1 TTTTTTTCT
604205 CTCTTTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:604195 original size:21 final size:20
Alignment explanation
Indices: 604165--604204 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
604155 AGAAATTCCA
604165 TTTTTTTCTTTTTCTTTCTT
1 TTTTTTTCTTTTTCTTTCTT
*
604185 TTTTCTTTCTTTTTTTTTCT
1 TTTT-TTTCTTTTTCTTTCT
604205 CTCTTTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTTCTTTTTCTTTCTT
Found at i:604222 original size:25 final size:24
Alignment explanation
Indices: 604167--604223 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
604157 AAATTCCATT
* * *
604167 TTTTTCTTTTTCTTTCTTTTTTCTT
1 TTTTT-TTTTTCTCTCTTTTTGCTC
604192 TCTTTTTTTTTCTCTCTTTTTGGCTC
1 T-TTTTTTTTTCTCTCTTTTT-GCTC
604218 TTTTTT
1 TTTTTT
604224 AGTTTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTTTTTTCTCTCTTTTTGCTC
Found at i:607680 original size:113 final size:111
Alignment explanation
Indices: 607556--607824 Score: 380
Period size: 113 Copynumber: 2.4 Consensus size: 111
607546 TAAAAATTAG
* * *
607556 CCCAACATAAATAAATAAAATAGGCCCCAAATAAATTAATTAACTATGCATGTAGGCCTATCTAA
1 CCCAATATAAATAAATAAAATAGGCCCCAAATAAATTAATTAAATATGCACGTAGGCCTATCT-A
* *
607621 TATATAT-TTTTTTTGTAAGGCTTGGCCTTAAATTAAATAATTTATAAA
65 T-TATATGTTCTTTTATAAGGCTTGGCCTTAAATTAAATAATTTAT-AA
* * * *
607669 CCCAATATAAATAAATAAAATAGGCCTCAAATAAATTAAGTAAATATGTACGTGGGCCTATCTAT
1 CCCAATATAAATAAATAAAATAGGCCCCAAATAAATTAATTAAATATGCACGTAGGCCTATCTAT
* *
607734 TATATGTTCTTTTATAAGGTTTGGCCTTAAATTAAGTAATTTATAA
66 TATATGTTCTTTTATAAGGCTTGGCCTTAAATTAAATAATTTATAA
* *
607780 CCCAATATAATTAAATAAAATA-GACCCAAATAAATTAATTAAATA
1 CCCAATATAAATAAATAAAATAGGCCCCAAATAAATTAATTAAATA
607825 AGTATATAGG
Statistics
Matches: 140, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
110 20 0.14
111 28 0.20
112 36 0.26
113 56 0.40
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (111 bp):
CCCAATATAAATAAATAAAATAGGCCCCAAATAAATTAATTAAATATGCACGTAGGCCTATCTAT
TATATGTTCTTTTATAAGGCTTGGCCTTAAATTAAATAATTTATAA
Found at i:607909 original size:114 final size:112
Alignment explanation
Indices: 607787--608002 Score: 283
Period size: 114 Copynumber: 1.9 Consensus size: 112
607777 TAACCCAATA
* * *
607787 TAATTAAATAAAATAGACCCAAATAAATTAATTAAATAAGTATATAGGACCTATTTTATCTAATA
1 TAATTAAATAAAATAGACCCAAATAAATTAATTAAATAAGCAT-TAGGACATATTTTATATAAT-
*
607852 T-ATATTTATTATGAGACTTAACATTAAATT-AATAATTTATGAGATTATT
64 TCATA-TT-TTATAAGACTTAACATTAAATTAAATAATTTATGAGATTATT
** ** *
607901 TAATTAAATAACTTAGGTCCAAATAAATTAATTAAATAAGCATTGGGACATATTTTATATAATTC
1 TAATTAAATAAAATAGACCCAAATAAATTAATTAAATAAGCATTAGGACATATTTTATATAATTC
* *
607966 ATATTTTATAAGACTTAGCCTTAAATTAAATAATTTA
66 ATATTTTATAAGACTTAACATTAAATTAAATAATTTA
608003 CGACCTTACC
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
111 19 0.21
112 12 0.13
113 20 0.22
114 38 0.43
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (112 bp):
TAATTAAATAAAATAGACCCAAATAAATTAATTAAATAAGCATTAGGACATATTTTATATAATTC
ATATTTTATAAGACTTAACATTAAATTAAATAATTTATGAGATTATT
Found at i:609324 original size:36 final size:36
Alignment explanation
Indices: 609220--609334 Score: 158
Period size: 36 Copynumber: 3.2 Consensus size: 36
609210 TGAAACATAA
* **
609220 TCAAGAGAGGCTTTGAAAGTTTTTAATGAAATAACT
1 TCAAGAGAGGCTTTGGAAGTTTTTAATGAAATGTCT
* *
609256 CCAAGAGAGGCTTTGGAACTTTTTAATGAAATGTCT
1 TCAAGAGAGGCTTTGGAAGTTTTTAATGAAATGTCT
* *
609292 TCAAGATAAGCTTTGGAAGTTTTTAATGAAATGTCT
1 TCAAGAGAGGCTTTGGAAGTTTTTAATGAAATGTCT
*
609328 TTAAGAG
1 TCAAGAG
609335 GCATTTGACA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.35
Consensus pattern (36 bp):
TCAAGAGAGGCTTTGGAAGTTTTTAATGAAATGTCT
Found at i:610555 original size:13 final size:13
Alignment explanation
Indices: 610537--610566 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
610527 ATACATTATT
610537 CATTGTATAGATA
1 CATTGTATAGATA
*
610550 CATTGTATCGATA
1 CATTGTATAGATA
610563 CATT
1 CATT
610567 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATAGATA
Found at i:610607 original size:20 final size:19
Alignment explanation
Indices: 610582--610655 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
610572 TTTACCCAGA
610582 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
610602 TGTATCGATACATTACTCAT
1 TGTATCGATACATT-TTCAT
* * *
610622 TATAACGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
610642 TGTATCGATACATT
1 TGTATCGATACATT
610656 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:612931 original size:51 final size:51
Alignment explanation
Indices: 612840--613020 Score: 177
Period size: 51 Copynumber: 3.5 Consensus size: 51
612830 TAAATTTCTA
* * ** *
612840 AATTTTTCAT-CTCGGGGATACTCCAA-TCCCAGTTCCATTTCCAAAACATT
1 AATTTTTCATAATCGGGGATACTCCAACTCCGA-TTTTATTTCCAAAACATC
* * *
612890 AATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATC
1 AATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
* ** ** * * *
612941 GGATTTAGCGCAATCGGGGATACTCCAACTCTGATTTTATTTCCCAAACACC
1 -AATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
*
612993 AATTTTTCATAATTGGGGATACTCCAAC
1 AATTTTTCATAATCGGGGATACTCCAAC
613021 CCCGTTATTT
Statistics
Matches: 104, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
50 9 0.09
51 50 0.48
52 45 0.43
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
AATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
Found at i:613040 original size:28 final size:27
Alignment explanation
Indices: 613007--613077 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 27
612997 TTTCATAATT
613007 GGGGATACTCCAACCCCGTTA-TTTCA
1 GGGGATACTCCAACCCCGTTATTTTCA
613033 TCGGGGATACTCCAACCCCGTTATTTTCGA
1 --GGGGATACTCCAACCCCGTTATTTTC-A
613063 GGGGATACTCCAACC
1 GGGGATACTCCAACC
613078 TCGGCTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTTCA
Found at i:613144 original size:108 final size:108
Alignment explanation
Indices: 612995--613235 Score: 308
Period size: 108 Copynumber: 2.2 Consensus size: 108
612985 CAAACACCAA
* *
612995 TTTTTCATAATTGGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTT-
1 TTTTTCATAATCGGGGATACTCCAACCCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTC
* *
613059 TCGAGGGGATACTCCAACCTCGGCTTTATGTCTAAAATATTGAT
66 T-GAGGGGATACTCCAACCCCGACTTTATGTCTAAAATATTGAT
* * * *
613103 TTTTTCATAATCGAGGG-TACTTCGACCCCGTTATGTCATCGGGGATACTCCAATCCCTTTATTT
1 TTTTTCATAATCG-GGGATACTCCAACCCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTT
* * ** *
613167 CTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATA-CCAA
65 CTGAGGGGATACTCCAACCCCGACTTTATGTCTAAAATATTGAT
* *
613210 TTTTTCACAATTGGGGATACTCCAAC
1 TTTTTCATAATCGGGGATACTCCAAC
613236 TCTGATTTTA
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
106 3 0.03
107 19 0.17
108 87 0.77
109 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (108 bp):
TTTTTCATAATCGGGGATACTCCAACCCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTC
TGAGGGGATACTCCAACCCCGACTTTATGTCTAAAATATTGAT
Found at i:613227 original size:51 final size:51
Alignment explanation
Indices: 613171--613290 Score: 195
Period size: 51 Copynumber: 2.4 Consensus size: 51
613161 TTATTTCTGA
* *
613171 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATT
* *
613222 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATT
*
613273 GAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
613291 TTATTATCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATT
Found at i:613385 original size:158 final size:157
Alignment explanation
Indices: 613223--613528 Score: 440
Period size: 158 Copynumber: 1.9 Consensus size: 157
613213 TTCACAATTG
*
613223 GGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTTTCACAATT-GAGGATACTCCAAC
1 GGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTTCACAATTAG-GGATACTCCAAC
*
613287 CCCGTTATTATC-ACGGGGATACTCCAACCCCGGTCTTA-TTTCTA-AAGCATCGATTTTCCATA
65 CCCGTTATT-TCGA-GGGGATACTCCAACCCCGATCTTATTTTC-AGAA-CATCGATTTTCCATA
613349 ATCGGGGATACTCCAACCCCGTTATTTTTGAA
126 ATCGGGGATACTCCAACCCCGTTATTTTTGAA
* * *
613381 GGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTTTATAATTAGGGATACTCCAACC
1 GGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTTCACAATTAGGGATACTCCAACC
* * * *
613446 CTGTTATTTCGAGGGGATACTCTATCCCCGATTTTATTTTCAGAACATCGATTTTCCATAATCGG
66 CCGTTATTTCGAGGGGATACTCCAACCCCGATCTTATTTTCAGAACATCGATTTTCCATAATCGG
* *
613511 GGATACTCTACCCCCGTT
131 GGATACTCCAACCCCGTT
613529 GTTATCTCCA
Statistics
Matches: 133, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
157 59 0.44
158 73 0.55
159 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (157 bp):
GGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTTCACAATTAGGGATACTCCAACC
CCGTTATTTCGAGGGGATACTCCAACCCCGATCTTATTTTCAGAACATCGATTTTCCATAATCGG
GGATACTCCAACCCCGTTATTTTTGAA
Found at i:613507 original size:78 final size:78
Alignment explanation
Indices: 613222--613528 Score: 321
Period size: 79 Copynumber: 3.9 Consensus size: 78
613212 TTTCACAATT
* * * * * * *
613222 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTTTCACAATTGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCATAATCGGGGATACTCCAAC
613287 CCCGTTATTATC-A
66 CCCGTTATT-TCGA
* * * * *
613300 CGGGGATACTCCAACCCCGGTCTTA-TTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCA
1 -GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCATAATCGGGGATACTCCA
*
613364 ACCCCGTTATTTTTGA
64 ACCCCGTTA-TTTCGA
* * ** **
613380 AGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTTTATAATTAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCATAATCGGGGATACTCCAAC
*
613445 CCTGTTATTTCGA
66 CCCGTTATTTCGA
* * * * * * *
613458 GGGGATACTCTATCCCCGATTTTATTTTCAGAACATCGATTTTCCATAATCGGGGATACTCTACC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCATAATCGGGGATACTCCAAC
613523 CCCGTT
66 CCCGTT
613529 GTTATCTCCA
Statistics
Matches: 184, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
78 65 0.35
79 112 0.61
80 7 0.04
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCATAATCGGGGATACTCCAAC
CCCGTTATTTCGA
Found at i:625861 original size:1 final size:1
Alignment explanation
Indices: 625857--625931 Score: 78
Period size: 1 Copynumber: 75.0 Consensus size: 1
625847 ATTCTTTTTC
* * * * * * *
625857 AAAAAAACAAAAAAAACAAAAAAAAAACACAAAAAAAACAAAAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
625922 AAAGAAAAAA
1 AAAAAAAAAA
625932 GAGAGAAAAG
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.89, C:0.09, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:625879 original size:11 final size:11
Alignment explanation
Indices: 625857--625924 Score: 97
Period size: 11 Copynumber: 6.4 Consensus size: 11
625847 ATTCTTTTTC
625857 AAAAAAAC--A
1 AAAAAAACAAA
625866 AAAAAAACAAA
1 AAAAAAACAAA
*
625877 AAAAAAACACA
1 AAAAAAACAAA
625888 AAAAAAACAAA
1 AAAAAAACAAA
625899 AAAAAAACAAA
1 AAAAAAACAAA
625910 AAAACAAA-AAA
1 AAAA-AAACAAA
625921 AAAA
1 AAAA
625925 GAAAAAAGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
9 8 0.15
11 43 0.80
12 3 0.06
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:625888 original size:22 final size:21
Alignment explanation
Indices: 625857--625924 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
625847 ATTCTTTTTC
625857 AAAAAAACAAAAAAAACAAAA
1 AAAAAAACAAAAAAAACAAAA
625878 AAAAAACACAAAAAAAAC-AAA
1 AAAAAA-ACAAAAAAAACAAAA
625899 AAAAAAAC-AAAAAAACAAAA
1 AAAAAAACAAAAAAAACAAAA
625919 AAAAAA
1 AAAAAA
625925 GAAAAAAGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.18
20 11 0.24
21 15 0.33
22 11 0.24
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (21 bp):
AAAAAAACAAAAAAAACAAAA
Found at i:625940 original size:22 final size:20
Alignment explanation
Indices: 625857--625931 Score: 116
Period size: 19 Copynumber: 3.7 Consensus size: 20
625847 ATTCTTTTTC
625857 AAAAAAACAAAAAAAACAAAA
1 AAAAAAACAAAAAAAAC-AAA
625878 AAAAAACACAAAAAAAACAAA
1 AAAAAA-ACAAAAAAAACAAA
625899 AAAAAAAC-AAAAAAACAAA
1 AAAAAAACAAAAAAAACAAA
*
625918 AAAAAAAGAAAAAA
1 AAAAAAACAAAAAA
625932 GAGAGAAAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.35
20 7 0.14
21 15 0.29
22 11 0.22
ACGTcount: A:0.89, C:0.09, G:0.01, T:0.00
Consensus pattern (20 bp):
AAAAAAACAAAAAAAACAAA
Found at i:626514 original size:39 final size:39
Alignment explanation
Indices: 626455--626530 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
626445 ATCTAAACTT
*
626455 TCTCCTTTCACTTTCTAGTCCTTAAAGAGCAGGACGCTC
1 TCTCCTTTCACCTTCTAGTCCTTAAAGAGCAGGACGCTC
*
626494 TCTCCTTTCACCCTTC-AGTCCTTAAAGAGTAGGACGC
1 TCTCCTTTCA-CCTTCTAGTCCTTAAAGAGCAGGACGC
626531 CTTTCAAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 30 0.88
40 4 0.12
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.32
Consensus pattern (39 bp):
TCTCCTTTCACCTTCTAGTCCTTAAAGAGCAGGACGCTC
Found at i:626594 original size:55 final size:54
Alignment explanation
Indices: 626507--626757 Score: 227
Period size: 55 Copynumber: 4.5 Consensus size: 54
626497 CCTTTCACCC
* * * *
626507 TTCAGTCCTTAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 TTCAGTCCTCAAAGAGCAGAACGCTTTTCAAAGCCCACACAAGTTGGTGGCA-CT
* * *
626562 TTCAGTCCTCAAAAAGCAGAACGCTTTTCAAAGCCAACACAAGTTGGTGGCATT
1 TTCAGTCCTCAAAGAGCAGAACGCTTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
626616 TTCCAGTCCTCAAAGAGCATG-ATGCCTCTT-AAAGCCCACACAAGTTGGTGGCACT
1 TT-CAGTCCTCAAAGAGCA-GAACG-CTTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * * * *
626671 TCCCAGTCCTTAAAGAGCAGGATGCCTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACT
1 T-TCAGTCCTCAAAGAGCA-GA--AC-GCT--TTTCAAAGCCCACACAAGTTGGTGGCACT
* *
626732 TCCTAGTCCTCAAAGAGCAGGACGCT
1 TTC-AGTCCTCAAAGAGCAGAACGCT
626758 CTCTCCTTTC
Statistics
Matches: 160, Mismatches: 24, Indels: 22
0.78 0.12 0.11
Matches are distributed among these distances:
54 3 0.02
55 103 0.64
56 5 0.03
57 2 0.01
58 3 0.02
60 5 0.03
61 39 0.24
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (54 bp):
TTCAGTCCTCAAAGAGCAGAACGCTTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:626889 original size:27 final size:27
Alignment explanation
Indices: 626859--626944 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
626849 CGCCTTTTCC
626859 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * * *
626886 TTTTCTAGTCCTCAAAGAGTAGGAT-GCC
1 TTTTAAAGCCCACACA-AGTTGG-TGGCA
*
626914 TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
626941 TTTT
1 TTTT
626945 CCAGTCCTTA
Statistics
Matches: 40, Mismatches: 16, Indels: 6
0.65 0.26 0.10
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 17 0.43
29 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:626903 original size:156 final size:155
Alignment explanation
Indices: 626620--626909 Score: 463
Period size: 156 Copynumber: 1.9 Consensus size: 155
626610 GGCATTTTCC
* *
626620 AGTCCTCAAAGAGCATGATGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTTAAA
1 AGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
* * *
626685 GAGCAGGATGCCTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGC
66 GAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGC
626750 AGGACGCTCTCTCCTTTCGCCCTTT
131 AGGACGCTCTCTCCTTTCGCCCTTT
* * *
626775 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCAC-TTCCCAGTCCTCAA
* * *
626840 AGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAG
65 AGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
*
626905 TAGGA
130 CAGGA
626910 TGCCTTTCAA
Statistics
Matches: 122, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
155 48 0.39
156 74 0.61
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (155 bp):
AGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
GAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGC
AGGACGCTCTCTCCTTTCGCCCTTT
Found at i:626951 original size:272 final size:265
Alignment explanation
Indices: 626463--627022 Score: 815
Period size: 272 Copynumber: 2.1 Consensus size: 265
626453 TTTCTCCTTT
* * * *
626463 CACTTTCTAGTCCTTAAAGAGCAGGACGCTCTCTCCTTTCACCCTTCAGTCCTTAAAGAGTAGGA
1 CACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTCAGTCCTCAAAGAGCAGGA
626528 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGAACGCTTTTCAA
66 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGAACGCTTTTCAA
*
626593 AGCCAACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCATGATGCCTCTTAAAGCCCACACA
131 AGCCAACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACA
626658 AGTTGGTGGCACTTCCCAGTCCTTAAAGAGCAGGATGCCTTCTCCTTTTAAAG-CTCACAC-AAG
196 AGTTGGTGGCACTTCCCAGTCCTTAAAGAGCAGGATGCCTTCTCCTTTTAAAGAC-CACACGAA-
626721 TTGGTGG
259 TTGGTGG
* *
626728 CACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAGGA
1 CACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTCAGTCCTCAAAGAGCAGGA
* * * *
626793 TGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCA-AGACGCCTTTT
66 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAAAGCAGA-ACG-CTTTT
* * *
626857 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGGATGCCT-TTCAAA
128 -C----AAAGCCAACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTCTT-AAA
* * *
626921 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGATGCTTTCTCCTTTTAAAGACC
187 GCCCACACAAGTTGGTGGCACTTCCCAGTCCTTAAAGAGCAGGATGCCTTCTCCTTTTAAAGACC
*
626986 ACTCGAATTGGTGG
252 ACACGAATTGGTGG
627000 CACCTTCC-AGTCCTCAAAGAGCA
1 CA-CTTCCTAGTCCTCAAAGAGCA
627023 AGATGCTTTC
Statistics
Matches: 265, Mismatches: 18, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
265 94 0.35
266 17 0.06
267 5 0.02
268 1 0.00
271 2 0.01
272 138 0.52
273 8 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (265 bp):
CACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTCAGTCCTCAAAGAGCAGGA
CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGAACGCTTTTCAA
AGCCAACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACA
AGTTGGTGGCACTTCCCAGTCCTTAAAGAGCAGGATGCCTTCTCCTTTTAAAGACCACACGAATT
GGTGG
Found at i:626960 original size:211 final size:208
Alignment explanation
Indices: 626559--626977 Score: 535
Period size: 211 Copynumber: 2.0 Consensus size: 208
626549 GTTGGTGGCA
626559 CCTTTCAGTCCTCAAAAAGCAGAACGCTTTTCAAAGCCAACACAAGTTGGTGGCATTTTCCAGTC
1 CCTTTCAGTCCTCAAAAAGCAGAACGCTTTTCAAAGCCAACACAAGTTGGTGGCATTTTCCAGTC
* * *
626624 CTCAAAGAGCATGATGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTTAAAGAGC
66 CTCAAAGAGCAAGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
*
626689 AGGATGCCTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
131 AGGATGCCTTCTCC---TAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
626754 CGCTCTCTCCTTTCGC
193 CGCTCTCTCCTTTCGC
* * * * *
626770 CCTTT-AGTCCTCAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAG
1 CCTTTCAGTCCTCAAAAAGCAGAACG-CTTTTCAAAGCCAACACAAGTTGGTGGCA-TTTTCCAG
* * *
626833 TCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCT
64 TCCTCAAAGAGCAAGACGCC---T-C--TTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
* * *
626898 CAAAGAGTAGGATGCCTT-T-C-AAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTTAAAGA
123 CAAAGAGCAGGATGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGA
* *
626959 GCAGGATGCTTTCTCCTTT
187 GCAGGACGCTCTCTCCTTT
626978 TAAAGACCAC
Statistics
Matches: 182, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
210 39 0.21
211 85 0.47
212 4 0.02
214 1 0.01
215 2 0.01
216 1 0.01
217 50 0.27
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (208 bp):
CCTTTCAGTCCTCAAAAAGCAGAACGCTTTTCAAAGCCAACACAAGTTGGTGGCATTTTCCAGTC
CTCAAAGAGCAAGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
AGGATGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGC
TCTCTCCTTTCGC
Found at i:627009 original size:61 final size:60
Alignment explanation
Indices: 626795--627161 Score: 397
Period size: 61 Copynumber: 6.1 Consensus size: 60
626785 GAGCAGGATG
626795 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAAGACG-CTTTT
* * * *
626857 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAG-TAG--G--ATG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAAGACGCTTTT
* * * * * *
626912 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGATGCTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAAGACGCTTT-T
* * * * *
626973 CCTTTTAAAGACCACTCGAA-TTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGATGC-TTT
1 CCTTTTAAAGCCCACAC-AAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAAGACGCTTTT
* * * * *
627032 CTCTTTGCAAAGCCCACACAAGTTGGCGGCACCTTCTAGTCTTCAAAGAGCATGACGCTTTT
1 C-CTTT-TAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAAGACGCTTTT
* * * *
627094 TCTTTTCAAAGCCCATACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAAGACG-CTTTT
627156 CCTTTT
1 CCTTTT
627162 CTCCTCTATC
Statistics
Matches: 256, Mismatches: 36, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
55 46 0.18
56 1 0.00
58 2 0.01
59 2 0.01
60 11 0.04
61 150 0.59
62 44 0.17
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAAGACGCTTTT
Found at i:627175 original size:38 final size:38
Alignment explanation
Indices: 627127--627269 Score: 142
Period size: 38 Copynumber: 3.6 Consensus size: 38
627117 GGTGGCACTT
*
627127 TTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCTCC
1 TTTA-TCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCC
* * * *
627166 TCTATCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCTCT
1 TTTATCCTCAAAGAGCAGGACGC----C-TTT--TCCTTTTCTCC
* *
627211 TTTATCTTCAAAGAGCAGGACGTCTTTTCCTTTTCTCC
1 TTTATCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCC
*
627249 TTTGTCCTCAAAGAGCAGGAC
1 TTTATCCTCAAAGAGCAGGAC
627270 ACACTTCATT
Statistics
Matches: 84, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
38 45 0.54
39 3 0.04
40 3 0.04
41 1 0.01
42 1 0.01
43 3 0.04
45 28 0.33
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (38 bp):
TTTATCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCC
Found at i:627222 original size:45 final size:45
Alignment explanation
Indices: 627157--627356 Score: 172
Period size: 45 Copynumber: 4.7 Consensus size: 45
627147 ACGCCTTTTC
* *
627157 CTTTTCTCCTCTATCCTCAAAGAGCAGGACACATTTCATTTCCTT
1 CTTTTCTCTTTTATCCTCAAAGAGCAGGACACATTTCATTTCCTT
* * *
627202 CTTTTCTCTTTTATCTTCAAAGAGCAGG--AC--GTC-TTT--TC
1 CTTTTCTCTTTTATCCTCAAAGAGCAGGACACATTTCATTTCCTT
* * * *
627240 CTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTT
1 CTTTTCTCTTTTATCCTCAAAGAGCAGGACACATTTCATTTCCTT
* * * *
627285 CTTTTC-CTTTTTGTTCTCAAAGAGCAGGACGCACTTT-ATTTTCTT
1 CTTTTCTC-TTTTATCCTCAAAGAGCAGGACACA-TTTCATTTCCTT
*
627330 C--TT-TCTTTTGTCCTCAAAGAGCAGGAC
1 CTTTTCTCTTTTATCCTCAAAGAGCAGGAC
627357 GTATTTCGTT
Statistics
Matches: 127, Mismatches: 18, Indels: 23
0.76 0.11 0.14
Matches are distributed among these distances:
38 26 0.20
40 5 0.04
41 2 0.02
42 23 0.18
43 7 0.06
44 1 0.01
45 61 0.48
46 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (45 bp):
CTTTTCTCTTTTATCCTCAAAGAGCAGGACACATTTCATTTCCTT
Found at i:627278 original size:83 final size:82
Alignment explanation
Indices: 627126--627356 Score: 268
Period size: 83 Copynumber: 2.7 Consensus size: 82
627116 TGGTGGCACT
* * * * * *
627126 TTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCTCCTCTATCCTCAAAGAGCAGGACACAT
1 TTTTA-TCTTCAAAGAGCAGGACGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACAC
*
627191 TTCATTTCCTTCTTTTCTC
65 TTCATTCCCTTCTTTTC-C
*
627210 TTTTATCTTCAAAGAGCAGGACGTCTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACT
1 TTTTATCTTCAAAGAGCAGGACGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACT
627275 TCATTCCCTTCTTTTCC
66 TCATTCCCTTCTTTTCC
* * *
627292 TTTT-TGTTCTCAAAGAGCAGGACGCACTTTAT-TTTCTTCTTTCTTTTGTCCTCAAAGAGCAGG
1 TTTTAT-CT-TCAAAGAGCAGGACG-ACTTT-TCCTT-TTC--TCCTTTGTCCTCAAAGAGCAGG
627355 AC
59 AC
627357 GTATTTCGTT
Statistics
Matches: 129, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
81 1 0.01
82 6 0.05
83 84 0.65
84 11 0.09
85 4 0.03
87 23 0.18
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (82 bp):
TTTTATCTTCAAAGAGCAGGACGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACT
TCATTCCCTTCTTTTCC
Found at i:627449 original size:41 final size:39
Alignment explanation
Indices: 627404--627505 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 39
627394 CAGGACGTAC
* *
627404 TCTTTTTCACTTTGTCCTCAAGAAGCAGGACACT-TTCCTTT
1 TCTTTTTC-CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-AT
* *
627445 TCTTTTTTCCTTTGTCCTCAAGGAGCAAGACCTATTTCAT
1 TC-TTTTTCCTTTGTCCTCAAGAAGCAAGACCTATTCCAT
627485 TCTCTTTTCCTTTGTCCTCAA
1 TCT-TTTTCCTTTGTCCTCAA
627506 AAAGTGGGAC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
39 1 0.02
40 22 0.41
41 25 0.46
42 6 0.11
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.44
Consensus pattern (39 bp):
TCTTTTTCCTTTGTCCTCAAGAAGCAAGACCTATTCCAT
Found at i:627501 original size:40 final size:41
Alignment explanation
Indices: 627407--627505 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 41
627397 GACGTACTCT
* * *
627407 TTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTT
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTC
* *
627449 TTTTCCTTTGTCCTCAAGGAGCAAGAC-CTATTTC-ATTCTC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTC
627489 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
627506 AAAGTGGGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 23 0.45
41 23 0.45
42 5 0.10
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.43
Consensus pattern (41 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTC
Found at i:628082 original size:13 final size:13
Alignment explanation
Indices: 628066--628095 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
628056 ATACATTGTT
*
628066 CATTGTATCGATA
1 CATTATATCGATA
628079 CATTATATCGATA
1 CATTATATCGATA
628092 CATT
1 CATT
628096 CTAAGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTATATCGATA
Found at i:628136 original size:20 final size:19
Alignment explanation
Indices: 628111--628217 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 19
628101 TTTACCTAGA
628111 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
628131 TGTATCGATACATTAATCAT
1 TGTATCGATACATT-TTCAT
628151 TGTATCGAT--A----CAT
1 TGTATCGATACATTTTCAT
*
628164 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
628184 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
*
628204 TGTATCCATACATT
1 TGTATCGATACATT
628218 CAGGCATTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
13 12 0.16
15 1 0.01
18 1 0.01
19 1 0.01
20 58 0.78
21 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:628170 original size:33 final size:33
Alignment explanation
Indices: 628128--628197 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
628118 ATACATTTTG
628128 CATTGTATCGATACATTAATCATTGTATCGATA
1 CATTGTATCGATACATTAATCATTGTATCGATA
**
628161 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTAATCATTGTATCGATA
628194 CATT
1 CATT
628198 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATTAATCATTGTATCGATA
Found at i:628197 original size:13 final size:13
Alignment explanation
Indices: 628148--628178 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
628138 ATACATTAAT
628148 CATTGTATCGATA
1 CATTGTATCGATA
628161 CATTGTATCGATA
1 CATTGTATCGATA
628174 CATTG
1 CATTG
628179 CTCATTGTAT
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:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:628208 original size:53 final size:53
Alignment explanation
Indices: 628111--628217 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
628101 TTTACCTAGA
* * *
628111 TGTATCGATACATTTTGCATTGTATCGATACATTAATCATTGTATCGATACAT
1 TGTATCGATACATTCTGCATTGTATCGATACATTAATCAATGTATCCATACAT
*
628164 TGTATCGATACATTGCT-CATTGTATCGATACATT-TTACAATGTATCCATACAT
1 TGTATCGATACATT-CTGCATTGTATCGATACATTAAT-CAATGTATCCATACAT
628217 T
1 T
628218 CAGGCATTTT
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:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (53 bp):
TGTATCGATACATTCTGCATTGTATCGATACATTAATCAATGTATCCATACAT
Found at i:630593 original size:51 final size:51
Alignment explanation
Indices: 630502--630681 Score: 175
Period size: 51 Copynumber: 3.5 Consensus size: 51
630492 TAAATTTCTA
* * * ** *
630502 AATTTTTCAT-TTCGGGGATACTCTAA-TCCTGGTTCCATTTCCAAAACATT
1 AATTTTTCATAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACATC
* * * *
630552 AATTTTTCTTAATCGGGGATACTCCAACTCTGATTTTATTTCTAAAGCATC
1 AATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
* * ** * *
630603 GATTTATCGCAATCGCGGATACTCCAACTCCGATTTTATTTCCAAAACACC
1 AATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
* *
630654 AATTTTTCATAGTTGGGGATACTCCAAC
1 AATTTTTCATAATCGGGGATACTCCAAC
630682 CCTGTCATTT
Statistics
Matches: 102, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
50 9 0.09
51 91 0.89
52 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (51 bp):
AATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
Found at i:630879 original size:50 final size:51
Alignment explanation
Indices: 630804--630913 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 51
630794 TATTTCCGAA
* * * * *
630804 GGGATACTCTAACCCCAATTTTATTTCTAAAATACCAAATTTTCATAATC-
1 GGGATACTCCAACACCAATTTTATTTCCAAAACACCAAATTTTCACAATCG
* * *
630854 GGGATACTCCAACACCGATTTTATTTCCAAAACACTAATTTTTCACAATCG
1 GGGATACTCCAACACCAATTTTATTTCCAAAACACCAAATTTTCACAATCG
630905 GGGATACTC
1 GGGATACTC
630914 TAACCCCGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 42 0.82
51 9 0.18
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACACCAATTTTATTTCCAAAACACCAAATTTTCACAATCG
Found at i:631159 original size:79 final size:79
Alignment explanation
Indices: 630854--631160 Score: 289
Period size: 79 Copynumber: 3.9 Consensus size: 79
630844 TTTCATAATC
* * ** * *
630854 GGGATACTCCAACACCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCTAACC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCCACAATCGGGGATACTCCAACC
* *
630919 CCGTTATTATC-ACG
66 CTGTTATT-TCTAAG
* * * * ** *
630933 GGGATACTTCAACTCC-AGCTTTA-TTTCTAAAGCATAGATTTTCCACAATCGAGGATACTCCAA
1 GGGATACTCCAACCCCGA-TTTTATTTTC-AAAACACCGATTTTCCACAATCGGGGATACTCCAA
* * *
630996 CCCCGTTATTTTTGAG
64 CCCTGTTATTTCTAAG
* * * * *
631012 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGAGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCCACAATCGGGGATACTCCAACC
631077 CTGTTATTTCTAAG
66 CTGTTATTTCTAAG
** * * * *
631091 GGTCTACTCTATCCCCGATTTTATTTTCAGAACATCGATTTTCCACAATCGGGGATACTCC-ACT
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCCACAATCGGGGATACTCCAAC-
631155 CCTGTT
65 CCTGTT
631161 GTTATCTCCA
Statistics
Matches: 182, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
78 7 0.04
79 170 0.93
80 5 0.03
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCCACAATCGGGGATACTCCAACC
CTGTTATTTCTAAG
Found at i:633604 original size:590 final size:588
Alignment explanation
Indices: 632486--634073 Score: 2626
Period size: 590 Copynumber: 2.7 Consensus size: 588
632476 CTGTAAGGTC
*
632486 AAGAATTGATTCAAAAACAATTCAAAGATGAAAAAGAGTAGCAAAAAGAGAAAGCTTGACATAAG
1 AAGAATTGATTCAAAAACAATTCAAAGATGAAAAAGAGTAGGAAAAAGAGAAAGCTTGACATAAG
* * *
632551 TGTTTATAGAGGCTCGATCCAAACACGATACTTATGTCCTCTCTCCTCGACACTGTCTTATCGAC
66 TGTTTATAGAGGTTCGATCCAAACACGATACTTATGTCCTCTCTCCTCGACACTGCCTTATCGAG
* * *
632616 TGTATACCACAATTCACTACTCAAATTGTTTACCTTTGCCTGAAAGGTATAACCTTACAACACTT
131 TGTATA-CACAATTCACTACTCGAATTGTTTACTTTTGGC--AAAGGTATAACCTTACAACACTT
* * *
632681 ATCTTTTCAAGGCTAAGAAAAGAGCCTCTCAATCTCTCCAAGAATTATACCCTAAATTCTTAAGA
193 ATCTTTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCCCAAATTCTTAAGA
*
632746 GATTGTACACCAAGGTTGAATACAACCCTTTATAACTCAAAGAGATTTTACAAATGAGAAATGCC
258 GATTGTACACCAAGGTTGAATACAACCCTTTACAACTCAAAGAGATTTTACAAATGAGAAATGCC
*
632811 TCTAAGTAAGCTGGTGTTTGTGAAAGTATAAGCACAAAGGAATACAAATGAGCTTTCAAAGAATA
323 TCTAAGTAGGCTGGTGTTTGTGAAAGTATAAGCACAAAGGAATACAAATGAGCTTTCAAAGAATA
*
632876 ACAACAATGAATATAAAATGTTATCATAGCTATTGGTAGTGGAATGATGATGTTACTAGCCGTTG
388 ACAACAATGAATATAAAATGTTATCATAGCTATTAGTAGTGGAATGATGATGTTACTAGCCGTTG
* * * *
632941 TTGACTTGTTTCAAGCTTGTTTCTACAAAAATATATTCCTATGTATCGATACATTTTATAATGTA
453 TTGACTTGTTTCAAGCTTGTTTCTACAAAAATATACTACTATGTATCGATACATTTCATAATGCA
* * *
633006 TCTGTAAGCTCAAGGATTGAATGGACCGAGAAGGGGGTGAATTGATTTTTATC-GAAAATGAAGG
518 TCTGTAAGCTCAAGGATTGAATGAACCGAGAAGGAGGTGAATTGATTTTTATCAAAAAATGAAGG
633070 TTTTGA
583 TTTTGA
* *
633076 AAGAATTGATTCAAAAACAATTCAAAGATGAAAAAGAGTAGGGAAAAGAGAAAGCCTGACATAAG
1 AAGAATTGATTCAAAAACAATTCAAAGATGAAAAAGAGTAGGAAAAAGAGAAAGCTTGACATAAG
* * * * * *
633141 TGTTTATAGAGGTTCGATCCAAACATGGTACTTATGTCCTATCTCCTTGATACTACCTTATCGAG
66 TGTTTATAGAGGTTCGATCCAAACACGATACTTATGTCCTCTCTCCTCGACACTGCCTTATCGAG
** *
633206 TGTATATCACAATTCACTGTTCGAATTATTTATCTTTTAGGCAAAGGTATAACCTTACAACACTT
131 TGTATA-CACAATTCACTACTCGAATTGTTTA-CTTTT-GGCAAAGGTATAACCTTACAACACTT
633271 ATCTTTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCCCAAATTCTTAAGA
193 ATCTTTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCCCAAATTCTTAAGA
* *
633336 GATTGTACACCAAGGTTGAATACAACCCTTTACAACTCAAAAAGATTTTACAAATGAGAAATGCT
258 GATTGTACACCAAGGTTGAATACAACCCTTTACAACTCAAAGAGATTTTACAAATGAGAAATGCC
* *
633401 TCTAAGTAGGCTGGTGTTTGTGAAAGTATAAGCACAAAAGAATATAAATGAGCTTTCAAAGAATA
323 TCTAAGTAGGCTGGTGTTTGTGAAAGTATAAGCACAAAGGAATACAAATGAGCTTTCAAAGAATA
*
633466 ACAACAATTAATATAAAATGTTATCATAGCTATTAGTAGTGGAATGATGATGTTACTAGCCGTTG
388 ACAACAATGAATATAAAATGTTATCATAGCTATTAGTAGTGGAATGATGATGTTACTAGCCGTTG
633531 TTGACTTGTTTCAAGCTTGTTTCTACAAAAATATACTACTATGTATCGATAC-TCTTCATAATGC
453 TTGACTTGTTTCAAGCTTGTTTCTACAAAAATATACTACTATGTATCGATACAT-TTCATAATGC
* *
633595 ATCTGTAAGCTCAAGGATTGAATGAACTGAGAAGGAGGTGAATTGGTTTTTATCAAAAAATGAAG
517 ATCTGTAAGCTCAAGGATTGAATGAACCGAGAAGGAGGTGAATTGATTTTTATCAAAAAATGAAG
633660 GTTTTGA
582 GTTTTGA
* *
633667 AAGAATTGATTCAAAACCAATTCAAAGATGAAAAAGAGTAGGAAAAAAAGAAAGCTTGACATAAG
1 AAGAATTGATTCAAAAACAATTCAAAGATGAAAAAGAGTAGGAAAAAGAGAAAGCTTGACATAAG
* * * *
633732 TGCTTATAGAGGTTCGATCGAAACACGATACTTATGTCTTCTCTCCTCGACACTGCCTTATCAAG
66 TGTTTATAGAGGTTCGATCCAAACACGATACTTATGTCCTCTCTCCTCGACACTGCCTTATCGAG
*
633797 TGTATACTACAATTCACTACTCGAATTGTTTACCTTTT-CCTGAAAGGTATAACCTTACAACACT
131 TGTATAC-ACAATTCACTACTCGAATTGTTTA-CTTTTGGC--AAAGGTATAACCTTACAACACT
*
633861 TATCTTTTCAAGGCTAAGATAAGAACCACTCAATCTCTCCAAGAATTATACCCC-AATTCTTAAG
192 TATCTTTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCCCAAATTCTTAAG
633925 AGATTGTACACCAAGGTTGAATACAACCCTTTACAACTCAAAGAGATTTTACAAATGAGAAATGC
257 AGATTGTACACCAAGGTTGAATACAACCCTTTACAACTCAAAGAGATTTTACAAATGAGAAATGC
*
633990 CTCTAAGTAGGCTAGTGTTTGTGAAAGTATAAGCACAAAGGAATACAAATGAGCTTTCAAAGAAT
322 CTCTAAGTAGGCTGGTGTTTGTGAAAGTATAAGCACAAAGGAATACAAATGAGCTTTCAAAGAAT
634055 AACAACAATGAATATAAAA
387 AACAACAATGAATATAAAA
634074 GCTCTTAGAA
Statistics
Matches: 926, Mismatches: 65, Indels: 14
0.92 0.06 0.01
Matches are distributed among these distances:
589 2 0.00
590 679 0.73
591 243 0.26
592 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (588 bp):
AAGAATTGATTCAAAAACAATTCAAAGATGAAAAAGAGTAGGAAAAAGAGAAAGCTTGACATAAG
TGTTTATAGAGGTTCGATCCAAACACGATACTTATGTCCTCTCTCCTCGACACTGCCTTATCGAG
TGTATACACAATTCACTACTCGAATTGTTTACTTTTGGCAAAGGTATAACCTTACAACACTTATC
TTTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCCAAGAATTATACCCCAAATTCTTAAGAGAT
TGTACACCAAGGTTGAATACAACCCTTTACAACTCAAAGAGATTTTACAAATGAGAAATGCCTCT
AAGTAGGCTGGTGTTTGTGAAAGTATAAGCACAAAGGAATACAAATGAGCTTTCAAAGAATAACA
ACAATGAATATAAAATGTTATCATAGCTATTAGTAGTGGAATGATGATGTTACTAGCCGTTGTTG
ACTTGTTTCAAGCTTGTTTCTACAAAAATATACTACTATGTATCGATACATTTCATAATGCATCT
GTAAGCTCAAGGATTGAATGAACCGAGAAGGAGGTGAATTGATTTTTATCAAAAAATGAAGGTTT
TGA
Found at i:634732 original size:50 final size:50
Alignment explanation
Indices: 634657--634790 Score: 187
Period size: 50 Copynumber: 2.7 Consensus size: 50
634647 TTCACAATTG
* * *
634657 GTATCGATACATTCTTCATTGTATCGATACATTTTGGGTTTTACTCAGAT
1 GTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGAT
634707 GTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGAT
1 GTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGAT
* ** * * *
634757 GCATCGATATGTTTCTCAATGTATTGATACATTC
1 GTATCGATACATTTTTCATTGTATCGATACATTC
634791 AGGCATTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.43
Consensus pattern (50 bp):
GTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGAT
Found at i:637215 original size:79 final size:79
Alignment explanation
Indices: 637107--637726 Score: 602
Period size: 79 Copynumber: 7.9 Consensus size: 79
637097 ATGTTTTTAT
* * * *
637107 TTTC-GAGGGGATACTCTAA-CCTCGGTTTTATTTTCAAAACATTGATTTTTCACAATCGGAGAT
1 TTTCTGAGGGGATACTCCAACCCT-GATTTTATTTTCAAAACATCGATTTTTCACAATCGGGGAT
637170 ACTCCAACCCCGTTA
65 ACTCCAACCCCGTTA
* * * * * *
637185 TTTCTGAGGAGATATTCCAACCCTGATTTTATTTCCAAAACA-CTAATTTTTCACAATTGAGGAT
1 TTTCTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACATC-GATTTTTCACAATCGGGGAT
637249 ACTCCAACCCCGTTA
65 ACTCCAACCCCGTTA
* * * *
637264 TTTCCGAGGGGATACTCCAA-CCTCGATTTTA-TTTCCAAACATTGATTTTTCACAATTGGGGAT
1 TTTCTGAGGGGATACTCCAACCCT-GATTTTATTTTCAAAACATCGATTTTTCACAATCGGGGAT
* *
637327 ACTCTAATCCCGTTA
65 ACTCCAACCCCGTTA
* * * *
637342 TTTCTGAGGGGATACTCCAACCC-CAGTTTTATTTCCAAAACATCAATTTTTCGCAATCGGGGAT
1 TTTCTGAGGGGATACTCCAACCCTGA-TTTTATTTTCAAAACATCGATTTTTCACAATCGGGGAT
* * *
637406 ACTACAACCTCGTTG
65 ACTCCAACCCCGTTA
* * *
637421 TTTCCGAGGGGATACTCCAATCCC-GATTTTA-TTTCTAAAATATCGATTTTCCACAATCGGGGA
1 TTTCTGAGGGGATACTCCAA-CCCTGATTTTATTTTC-AAAACATCGATTTTTCACAATCGGGGA
*
637484 TACTCCAACCCCTTTA
64 TACTCCAACCCCGTTA
* * * * * *
637500 TTT-TCGAGGGGATACTCCAA-CCTCGGTTTTATTTCCAAAACATCGATTTTCCATAATTGGAGA
1 TTTCT-GAGGGGATACTCCAACCCT-GATTTTATTTTCAAAACATCGATTTTTCACAATCGGGGA
* * *
637563 TATTCTAACCTCGTTA
64 TACTCCAACCCCGTTA
* * *
637579 TTTCTGAGGAGATACTCCAA-CCTGATTTTA-TTTCTAAA-ATACTGATATTTCACAATCGGGGA
1 TTTCTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACAT-C-GATTTTTCACAATCGGGGA
* **
637641 TA-TGCTAACCCTATTA
64 TACT-CCAACCCCGTTA
* * * * * * *
637657 TTTTTTAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACCATCAGGGATA
1 TTTCTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACATCGATTTTTCACAATCGGGGATA
637722 CTCCA
66 CTCCA
637727 GCCCTGATTT
Statistics
Matches: 442, Mismatches: 78, Indels: 43
0.79 0.14 0.08
Matches are distributed among these distances:
76 2 0.00
77 11 0.02
78 121 0.27
79 287 0.65
80 20 0.05
81 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
TTTCTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACATCGATTTTTCACAATCGGGGATA
CTCCAACCCCGTTA
Found at i:637361 original size:157 final size:156
Alignment explanation
Indices: 637103--637726 Score: 708
Period size: 157 Copynumber: 4.0 Consensus size: 156
637093 GTTCATGTTT
* * * * *
637103 TTATTTTCGAGGGGATACTCTAACCTCGGTTTTATTT-TCAAAACATTGATTTTTCACAATCGGA
1 TTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCT-AAAATA-TGATTTTTCACAATCGGG
* *
637167 GATACTCCAACCCCGTTATTTCTGAGGAGATATTCCAACCCTGATTTTATTTCCAAAACA-CTAA
64 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACATC-AA
*
637231 TTTTTCACAATTGAGGATACTCCAACCCCG
128 TTTTTCACAATTG-GGATACTCCAACCTCG
* *
637261 TTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCCAAACAT-TGATTTTTCACAATTGGGG
1 TTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCTAAA-ATATGATTTTTCACAATCGGGG
* * *
637325 ATACTCTAATCCCGTTATTTCTGAGGGGATACTCCAACCC-CAGTTTTATTTCCAAAACATCAAT
65 ATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGA-TTTTATTTCCAAAACATCAAT
* * *
637389 TTTTCGCAATCGGGGATACTACAACCTCG
129 TTTTCACAAT-TGGGATACTCCAACCTCG
* *
637418 TTGTTTCCGAGGGGATACTCCAATCC-CGATTTTATTTCTAAAATATCGATTTTCCACAATCGGG
1 TTATTTCCGAGGGGATACTCCAA-CCTCGATTTTATTTCTAAAATAT-GATTTTTCACAATCGGG
* * *
637482 GATACTCCAACCCCTTTATTT-TCGAGGGGATACTCCAA-CCTCGGTTTTATTTCCAAAACATCG
64 GATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCT-GATTTTATTTCCAAAACATCA
* * * *
637545 ATTTTCCATAATTGGAGATATTCTAACCTCG
127 ATTTTTCACAATTGG-GATACTCCAACCTCG
* * *
637576 TTATTTCTGAGGAGATACTCCAACCT-GATTTTATTTCTAAAATACTGATATTTCACAATCGGGG
1 TTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCTAAAATA-TGATTTTTCACAATCGGGG
* ** * * * * *
637640 ATA-TGCTAACCCTATTATTTTTTAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAT
65 ATACT-CCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACATCAAT
* *
637704 TTTTCACCATCAGGGATACTCCA
129 TTTTCACAAT-TGGGATACTCCA
637727 GCCCTGATTT
Statistics
Matches: 395, Mismatches: 53, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
156 4 0.01
157 236 0.60
158 154 0.39
159 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (156 bp):
TTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCTAAAATATGATTTTTCACAATCGGGGA
TACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACATCAATTT
TTCACAATTGGGATACTCCAACCTCG
Found at i:637524 original size:236 final size:234
Alignment explanation
Indices: 637107--637726 Score: 732
Period size: 236 Copynumber: 2.6 Consensus size: 234
637097 ATGTTTTTAT
* * * * *
637107 TTTC-GAGGGGATACTCTAACCTCGGTTTTATTTTCAAAACATTGATTTTTCACAATCGGAGATA
1 TTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATA
* * * *
637171 CTCCAACCCCGTTATTTCTGAGGAGATATTCCAACCCTGATTTTATTTCCAAAACACTAATTTTT
66 CTACAA-CCCGTTATTTCTGAGGGGATACTCCAACCC-GATTTTATTTCTAAAACAC-AATTTTT
* *
637236 CACAATTGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCC-
128 CACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCCA
* * *
637300 AAACATTGATTTTTCACAATTGGGGATACTCTAATCC-CGTTA
193 AAACATCGATTTTCCACAATTGGAGATACTCTAA-CCTCGTTA
* * *
637342 TTTCTGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTTCGCAATCGGGGATA
1 TTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATA
* * * * *
637407 CTACAACCTCGTTGTTTCCGAGGGGATACTCCAATCCCGATTTTATTTCTAAAATATCGATTTTC
66 CTACAACC-CGTTATTTCTGAGGGGATACTCCAA-CCCGATTTTATTTCTAAAACA-CAATTTTT
* * *
637472 CACAATCGGGGATACTCCAACCCCTTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCCA
128 CACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCCA
* *
637537 AAACATCGATTTTCCATAATTGGAGATATTCTAACCTCGTTA
193 AAACATCGATTTTCCACAATTGGAGATACTCTAACCTCGTTA
* * * * *
637579 TTTCTGAGGAGATACTCCAACCTGA-TTTTATTTCTAAAATA-CTGATATTTCACAATCGGGGAT
1 TTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATC-GATTTTTCACAATCGGGGAT
* * * *
637642 A-TGCTAACCCTATTATTTTTTAGGGGATACTCCAACCCCGATTTTATTT-TCAAAACACCAATT
65 ACTAC-AACCC-GTTATTTCTGAGGGGATACTCCAA-CCCGATTTTATTTCT-AAAACA-CAATT
* *
637705 TTTCACCATCAGGGATACTCCA
125 TTTCACAATCGGGGATACTCCA
637727 GCCCTGATTT
Statistics
Matches: 327, Mismatches: 48, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
235 11 0.03
236 256 0.78
237 60 0.18
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (234 bp):
TTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATA
CTACAACCCGTTATTTCTGAGGGGATACTCCAACCCGATTTTATTTCTAAAACACAATTTTTCAC
AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAA
CATCGATTTTCCACAATTGGAGATACTCTAACCTCGTTA
Found at i:637919 original size:80 final size:79
Alignment explanation
Indices: 637733--637920 Score: 200
Period size: 80 Copynumber: 2.4 Consensus size: 79
637723 TCCAGCCCTG
* * * * * *
637733 ATTTTATCTCCAGAACATT-GATTTTCCATAATCGAGGATACTCCAACCTCGTTATTTCTGAGGG
1 ATTTTATCTCCAAAACATTAAATTTT-CACAATCGAGGATACTCCAACCCCGTTATTTCCGAAGG
* *
637797 GATACTCCAACCTCG
65 AATACTCCAACCTCA
* * ** * *
637812 ATTTTTTTTCCTAAAACACCAATTTTTCACAATTGAGGATACTCCAACCCCGTTATTTCCGAAGG
1 ATTTTATCTCC-AAAACATTAAATTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAAGG
637877 AATACTCCAATCC-CA
65 AATACTCCAA-CCTCA
637892 ATTTTATCTCCAAAACATTAAAATTTTCA
1 ATTTTATCTCCAAAACATT-AAATTTTCA
637921 TTAGGGGATG
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
79 15 0.17
80 65 0.76
81 6 0.07
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (79 bp):
ATTTTATCTCCAAAACATTAAATTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAAGGA
ATACTCCAACCTCA
Found at i:642271 original size:13 final size:13
Alignment explanation
Indices: 642253--642293 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
642243 ATACAAAGAT
642253 CAATGTATCGATA
1 CAATGTATCGATA
642266 CAATGTATCGATA
1 CAATGTATCGATA
642279 CAATGTATCGATA
1 CAATGTATCGATA
642292 CA
1 CA
642294 TTTGAGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:642375 original size:13 final size:13
Alignment explanation
Indices: 642357--642381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
642347 AAAAAAAATA
642357 TGTATCGATACAT
1 TGTATCGATACAT
642370 TGTATCGATACA
1 TGTATCGATACA
642382 ACACTTTATG
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:649925 original size:13 final size:13
Alignment explanation
Indices: 649907--649937 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
649897 ACATTTCTTC
649907 ATGTATCGATACA
1 ATGTATCGATACA
649920 ATGTATCGATACA
1 ATGTATCGATACA
*
649933 TTGTA
1 ATGTA
649938 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:649932 original size:33 final size:33
Alignment explanation
Indices: 649887--649953 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
649877 GTTGCAGGCT
649887 ATGTATCAATACATT-T-CTTCATGTATCGATACA
1 ATGTATCAATACATTGTAC--CATGTATCGATACA
*
649920 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCAATACATTGTACCATGTATCGATACA
649953 A
1 A
649954 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCAATACATTGTACCATGTATCGATACA
Found at i:650001 original size:13 final size:13
Alignment explanation
Indices: 649983--650009 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
649973 TACCAGTTTC
649983 ATGTATCGATATA
1 ATGTATCGATATA
649996 ATGTATCGATATA
1 ATGTATCGATATA
650009 A
1 A
650010 AGCTGCATGT
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:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:658670 original size:13 final size:13
Alignment explanation
Indices: 658652--658682 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
658642 ACATTTCTTC
658652 ATGTATCGATACA
1 ATGTATCGATACA
658665 ATGTATCGATACA
1 ATGTATCGATACA
*
658678 TTGTA
1 ATGTA
658683 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:658674 original size:33 final size:33
Alignment explanation
Indices: 658632--658698 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
658622 GTTGCAGGCT
658632 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
658665 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
658698 A
1 A
658699 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:668476 original size:27 final size:27
Alignment explanation
Indices: 668446--668847 Score: 468
Period size: 27 Copynumber: 14.7 Consensus size: 27
668436 GTGCTATTCC
*
668446 TTTTAAGTCCACAACTCTGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
* *
668473 TTTTAAGTCCACAACTCTGTGGCACAT
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
668500 TTTTAAGTCCACAGCTCCGTGGCAACCT
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* * * *
668528 TTTAAAGTCCACAACTCCATGACCCCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
* *
668555 TTTAAAGTCCACAACTCCGTCGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
*
668583 TTTAAAGTCCACAACTCCGTGGCAACC-
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* *
668610 TTTTAAGTCCACAGCTCCGTGACAACC-
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* * *
668637 TTTAAAGTCCACAGCTCCGTGACAACCT
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* * *
668665 TTTAAAGTCCACAACTCTGTGGTACCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
668692 TTTTAAAGTCCACAACTCCGTCGCAACC-
1 TTTT-AAGTCCACAACTCCGTGGC-ACCT
*
668720 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
* *
668747 TTTAAAGTCCACAACTCCATGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
* * *
668774 TTTAAAGTCCACAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
668801 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
668828 ATTTAAGTCCACAACTCCGT
1 TTTTAAGTCCACAACTCCGT
668848 CCACAACTTC
Statistics
Matches: 332, Mismatches: 36, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.01
27 237 0.71
28 88 0.27
29 4 0.01
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.27
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCT
Found at i:668563 original size:55 final size:56
Alignment explanation
Indices: 668444--669690 Score: 1015
Period size: 55 Copynumber: 22.3 Consensus size: 56
668434 TCGTGCTATT
* * *
668444 CCTTTT-AAGTCCACAACTCTGTGGC-ACCTTTTTAAGTCCACAACTCTGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * *
668497 CATTTTTAAGTCCACAGCTCCGTGGCAACCTTTTAAAGTCCACAACTCCATGAC-C
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
668552 CCTTTTAAAGTCCACAACTCCGTCGCACCCTTTTAAAGTCCACAACTCCGTGGCAA
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * *
668608 CCTTTT-AAGTCCACAGCTCCGTGACAACC-TTTAAAGTCCACAGCTCCGTGACAA
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
668662 CCTTTTAAAGTCCACAACTCTGTGG-TACCTTTTTAAAGTCCACAACTCCGTCGCAA
1 CCTTTTAAAGTCCACAACTCCGTGGCAACC-TTTTAAAGTCCACAACTCCGTGGCAC
* *
668718 CCTTTT-AAGTCCACAACTCCGTGGC-ACCCTTTAAAGTCCACAACTCCATGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* *
668771 CCTTTTAAAGTCCACAACTCCGTGGTACCCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * * * *
668826 CCATTTAAGTCCACAACTCCGTCCACAACTTCATGGCACCCTTTTAAAGTCCACAACTTCATTGT
1 CC-TTT---T--A-AA----GTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGC
668891 A-
55 AC
* * * * * * *
668892 CCTTTTAAAGTCCATAACTTCATTG-TACCCTTTAAAGTCCACAACTCCGTGACAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
668947 TCTTTTAAAATCCACAACTCCGTGGC-A-C---T-CA-TCCACAACTCCATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
668996 CCTTGT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCGACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
669051 CCTTTT-AAGTCCACAACTTCGTGACACCCTTTCAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * * *
669106 CCTTTT-AAGTCCACAAGTCAGTGGCAA-CTCCTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCT-TTTAAAG-TC-CACAACTCCGTGGC-AC
* * * * * *
669164 CTCTTTTAAAGCCCACAACTCTGCGGCAACCTCTTTTAAAGCCCACAACTCCGCGGCAT
1 C-CTTTTAAAGTCCACAACTCCGTGGCAA-C-CTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
669223 CCTTTTAAAGCCCATAACTCCGTGGCATCCTTTTAAAGTCGACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* ** * * *
669279 CCTTTT-AAGTCCACAAGC-CAGTGGCAACCCCTTAAAGCGCACACAAGTCGGTGGCAAC
1 CCTTTTAAAGTCCACAA-CTCCGTGGCAACCTTTTAAAG-TC-CACAACTCCGTGGC-AC
* * * * *
669337 CTCTTTTAAAGCCCACAACTCTGCGGCATCCTTTTAAAGTCCACAACTCC--GGCAT
1 C-CTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * *
669392 CCTTTTAAAGCCCACAATTCTGTGGCATCCTTTTAAAGTCGACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
669448 CCTTTT-AAGTCCATAACTCCGTGACACCCTTTTAAAGTCCACAACTCCATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* ** ** * * *
669503 CCTTTT-AAGTCCACAAGTCAATGGCAACCCCTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAG-TC-CACAACTCCGTGGC-AC
* * * * * * * *
669561 CTCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC
1 C-CTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * * * * * *
669618 CCTTTCAAAGACCACAAGTCAGTGGCACCCTTTCAAAGACCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
669674 CGTTTCAAAGCCCACAA
1 CCTTTTAAAGTCCACAA
669691 GTTAGTGGCA
Statistics
Matches: 980, Mismatches: 159, Indels: 107
0.79 0.13 0.09
Matches are distributed among these distances:
48 18 0.02
49 20 0.02
50 2 0.00
51 1 0.00
53 12 0.01
54 178 0.18
55 352 0.36
56 149 0.15
57 38 0.04
58 52 0.05
59 24 0.02
60 77 0.08
61 3 0.00
62 9 0.01
63 2 0.00
65 3 0.00
66 24 0.02
67 16 0.02
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.25
Consensus pattern (56 bp):
CCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCAC
Found at i:668863 original size:39 final size:40
Alignment explanation
Indices: 668807--668883 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
668797 ACCCTTTTAA
*
668807 GTCCACAACTCCGTGGCACCCATTT-AAGTCCACAACTCC
1 GTCCACAACTCCATGGCACCCATTTAAAGTCCACAACTCC
* *
668846 GTCCACAACTTCATGGCACCCTTTTAAAGTCCACAACT
1 GTCCACAACTCCATGGCACCCATTTAAAGTCCACAACT
668884 TCATTGTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 22 0.65
40 12 0.35
ACGTcount: A:0.27, C:0.38, G:0.12, T:0.23
Consensus pattern (40 bp):
GTCCACAACTCCATGGCACCCATTTAAAGTCCACAACTCC
Found at i:668886 original size:28 final size:28
Alignment explanation
Indices: 668846--669700 Score: 489
Period size: 28 Copynumber: 30.6 Consensus size: 28
668836 CCACAACTCC
*
668846 GTCCACAACTTCATGGCACCCTTTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* * *
668874 GTCCACAACTTCATTGTA-CCTTTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* * * *
668901 GTCCATAACTTCATTGTACCC-TTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* * *
668928 GTCCACAACTCCGTGACACTCTTTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* * *
668956 ATCCACAACTCCGTGGCA--C---T-CA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* * *
668978 -TCCACAACTCCATGGCACCCTTGT-AA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* *
669004 GTCCACAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* *
669032 GTCGACAACTCCGTGGCACCCTTTT-AA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* *
669059 GTCCACAACTTCGTGACACCCTTTCAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
*
669087 GTCCACAACTCCGTGGCACCCTTTT-AA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
*
669114 GTCCACAA-GTCAGTGGCAACTCC--TTAAA
1 GTCCACAACTTC-GTGGC-AC-CCTTTTAAA
* **
669142 GCCCACACAAGTCGGTGGCAACCTCTTTTAAA
1 GTCCACA-ACTTC-GTGGC-ACC-CTTTTAAA
* *
669174 GCCCACAAC-TCTGCGGCAACCTCTTTTAAA
1 GTCCACAACTTC-GTGGC-ACC-CTTTTAAA
* * * *
669204 GCCCACAACTCCGCGGCATCCTTTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* * * *
669232 GCCCATAACTCCGTGGCATCCTTTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* *
669260 GTCGACAACTCCGTGGCACCCTTTT-AA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
*
669287 GTCCACAAGC--CAGTGGCAACCC-CTTAAA
1 GTCCACAA-CTTC-GTGGC-ACCCTTTTAAA
**
669315 G-CGCACACAAGTCGGTGGCAACCTCTTTTAAA
1 GTC-CACA-ACTTC-GTGGC-ACC-CTTTTAAA
* * *
669347 GCCCACAAC-TCTGCGGCATCCTTTTAAA
1 GTCCACAACTTC-GTGGCACCCTTTTAAA
* *
669375 GTCCACAAC-TC-CGGCATCCTTTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* *
669401 GCCCACAA-TTCTGTGGCATCCTTTTAAA
1 GTCCACAACTTC-GTGGCACCCTTTTAAA
* *
669429 GTCGACAACTCCGTGGCACCCTTTT-AA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* * *
669456 GTCCATAACTCCGTGACACCCTTTTAAA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* *
669484 GTCCACAACTCCATGGCACCCTTTT-AA
1 GTCCACAACTTCGTGGCACCCTTTTAAA
* * *
669511 GTCCACAA-GTCAATGGCAACCC-CTTAAA
1 GTCCACAACTTC-GTGGC-ACCCTTTTAAA
* **
669539 GCCCACACAAGTCGGTGGCAACCTCTTTTAAA
1 GTCCACA-ACTTC-GTGGC-ACC-CTTTTAAA
* * * *
669571 GCCCACAA-GTCAGTGGCATCCTTTCAAA
1 GTCCACAACTTC-GTGGCACCCTTTTAAA
* * *
669599 GCCCACAA-GTCAGTGGCACCCTTTCAAA
1 GTCCACAACTTC-GTGGCACCCTTTTAAA
* * *
669627 GACCACAA-GTCAGTGGCACCCTTTCAAA
1 GTCCACAACTTC-GTGGCACCCTTTTAAA
* * * *
669655 GACCACAA-GTCAGTGGCACCGTTTCAAA
1 GTCCACAACTTC-GTGGCACCCTTTTAAA
* * *
669683 GCCCACAAGTTAGTGGCA
1 GTCCACAACTTCGTGGCA
669701 TCATTTCAAA
Statistics
Matches: 703, Mismatches: 80, Indels: 88
0.81 0.09 0.10
Matches are distributed among these distances:
21 16 0.02
22 1 0.00
23 2 0.00
26 30 0.04
27 165 0.23
28 353 0.50
29 15 0.02
30 80 0.11
31 6 0.01
32 34 0.05
33 1 0.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (28 bp):
GTCCACAACTTCGTGGCACCCTTTTAAA
Found at i:668903 original size:27 final size:27
Alignment explanation
Indices: 668846--668937 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
668836 CCACAACTCC
* *
668846 GTCCACAACTTCATGGCACCCTTTTAAA
1 GTCCACAACTTCATTGTA-CCTTTTAAA
668874 GTCCACAACTTCATTGTACCTTTTAAA
1 GTCCACAACTTCATTGTACCTTTTAAA
* *
668901 GTCCATAACTTCATTGTACCCTTTAAA
1 GTCCACAACTTCATTGTACCTTTTAAA
668928 GTCCACAACT
1 GTCCACAACT
668938 CCGTGACACT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
27 43 0.73
28 16 0.27
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (27 bp):
GTCCACAACTTCATTGTACCTTTTAAA
Found at i:668930 original size:94 final size:93
Alignment explanation
Indices: 668753--668941 Score: 256
Period size: 94 Copynumber: 2.0 Consensus size: 93
668743 ACCCTTTAAA
*
668753 GTCCACAACTCCATGGCACCTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTC
1 GTCCACAACTCCATGGCACCTTTTAAAGTCCACAACTCCATGGTACCCTTTTAAGTCCACAACTC
*
668818 CGTGGCACCCATTTAAGTCCACAACTCC
66 CATGGCACCCATTTAAGTCCACAACTCC
* * * *
668846 GTCCACAACTTCATGGCACCCTTTTAAAGTCCACAACTTCATTGTA-CCTTTTAAAGTCCATAAC
1 GTCCACAACTCCATGGCA-CCTTTTAAAGTCCACAACTCCATGGTACCCTTTT-AAGTCCACAAC
* * *
668910 TTCATTGTACCC-TTTAAAGTCCACAACTCC
64 TCCATGGCACCCATTT-AAGTCCACAACTCC
668940 GT
1 GT
668942 GACACTCTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 26 0.31
94 58 0.69
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (93 bp):
GTCCACAACTCCATGGCACCTTTTAAAGTCCACAACTCCATGGTACCCTTTTAAGTCCACAACTC
CATGGCACCCATTTAAGTCCACAACTCC
Found at i:668980 original size:21 final size:21
Alignment explanation
Indices: 668956--668995 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
668946 CTCTTTTAAA
*
668956 ATCCACAACTCCGTGGCACTC
1 ATCCACAACTCCATGGCACTC
668977 ATCCACAACTCCATGGCAC
1 ATCCACAACTCCATGGCAC
668996 CCTTGTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.42, G:0.12, T:0.17
Consensus pattern (21 bp):
ATCCACAACTCCATGGCACTC
Found at i:669092 original size:131 final size:131
Alignment explanation
Indices: 668847--669105 Score: 349
Period size: 131 Copynumber: 2.0 Consensus size: 131
668837 CACAACTCCG
* * * * * * *
668847 TCCACAACTTCATGGCACCCTTTTAAAGTCCACAACTTCATTGTACCTTTTAAAGTCCATAACTT
1 TCCACAACTCCATGGCACCCTTGTAAAGTCCACAACTCCATGGCACCTTTTAAAGTCCACAACTC
* * * *
668912 CATTGTACCCTTTAAAGTCCACAACTCCGTGACACTCTTTTAAAATCCACAACTCCGTGGCACTC
66 CATGGCACCCTTTAAAGTCCACAACTCCGTGACACCCTTTCAAAATCCACAACTCCGTGGCACTC
668977 A
131 A
* *
668978 TCCACAACTCCATGGCACCCTTGT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCGACAACT
1 TCCACAACTCCATGGCACCCTTGTAAAGTCCACAACTCCATGGCA-CCTTTTAAAGTCCACAACT
* * * *
669042 CCGTGGCACCCTTTTAAGTCCACAACTTCGTGACACCCTTTCAAAGTCCACAACTCCGTGGCAC
65 CCATGGCACCCTTTAAAGTCCACAACTCCGTGACACCCTTTCAAAATCCACAACTCCGTGGCAC
669106 CCTTTTAAGT
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
130 16 0.15
131 94 0.85
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (131 bp):
TCCACAACTCCATGGCACCCTTGTAAAGTCCACAACTCCATGGCACCTTTTAAAGTCCACAACTC
CATGGCACCCTTTAAAGTCCACAACTCCGTGACACCCTTTCAAAATCCACAACTCCGTGGCACTC
A
Found at i:669153 original size:30 final size:32
Alignment explanation
Indices: 669117--669353 Score: 111
Period size: 30 Copynumber: 8.1 Consensus size: 32
669107 CTTTTAAGTC
669117 CACAAGTCAGTGGCAA-CTC-CTTAAAGCCCA
1 CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
* *
669147 CACAAGTCGGTGGCAACCTCTTTTAAAG-CC-
1 CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
* * * *
669177 CACAACTCTGCGGCAACCTCTTTTAAAG-CC-
1 CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
* * * *
669207 CACAACTCCGCGGCATCCT-T-TTAAAG-CC-
1 CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
* * * * *
669235 CATAACTCCGTGGCATCCT-T-TTAAAG-TC-
1 CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
* * * * *
669263 GACAACTCCGTGGC-ACC-CT-TTTAAG-TC-
1 CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
* *
669290 CACAAGCCAGTGGCAACC-C-CTTAAAGCGCA
1 CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
* *
669320 CACAAGTCGGTGGCAACCTCTTTTAAAGCCCA
1 CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
669352 CA
1 CA
669354 ACTCTGCGGC
Statistics
Matches: 174, Mismatches: 24, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.11
28 54 0.31
29 2 0.01
30 75 0.43
31 6 0.03
32 17 0.10
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.22
Consensus pattern (32 bp):
CACAAGTCAGTGGCAACCTCTCTTAAAGCCCA
Found at i:669314 original size:173 final size:171
Alignment explanation
Indices: 668520--669460 Score: 725
Period size: 173 Copynumber: 5.6 Consensus size: 171
668510 ACAGCTCCGT
* ** * * * * *
668520 GGCAACCTTTTAAAGTCCACAACTCCATGAC-CCCTTTTAAAGTCCACAACTCCGTCGCACCCTT
1 GGCACCCTTTTAAAGTCCACAACTCCGCGGCATCCTTTTAAAGCCCACAACTCCGTGGCATCCTT
* * * * * *
668584 TTAAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCAC-AGCTCCGTGACAA-CCTTTAAAG-TC
66 TTAAAGTCGACAACTCCGTGGCACCCTTTTAAGTCCACAAGC-CAGTGGCAACCCCTTAAAGCCC
* * * *
668646 -CAC-AGCTCCGTGACAA-C-CTTTTAAAGTCCACAACTCTGT
130 ACACAAG-TCGGTGGCAACCTCTTTTAAAGCCCACAACTCTGC
* * * * *
668685 GGTACCTTTTTAAAGTCCACAACTCCGTC-GCAACCTTTT-AAGTCCACAACTCCGTGGCA-CCC
1 GGCACCCTTTTAAAGTCCACAACTCCG-CGGCATCCTTTTAAAGCCCACAACTCCGTGGCATCCT
* * * * * *
668747 TTTAAAGTCCACAACTCCATGGCA-CCTTTTAAAGTCCACAA-CTCCGTGG-TACCCTTTTAAG-
65 TTTAAAGTCGACAACTCCGTGGCACCCTTTT-AAGTCCACAAGC-CAGTGGCAACCCCTTAAAGC
* * * *
668808 TC-CACAACTCCGTGGC-ACC-CATTTAAGTCCACAACTCCGTCCACAACT-T-C
128 CCACACAAGTCGGTGGCAACCTC-TTT---T--A-AA----GCCCACAACTCTGC
* *** * * * * * * *
668858 ATGGCACCCTTTTAAAGTCCACAACTTCATTGTA-CCTTTTAAAGTCCATAACTTCATTGTA-CC
1 --GGCACCCTTTTAAAGTCCACAACTCCGCGGCATCCTTTTAAAGCCCACAACTCCGTGGCATCC
* * * * * * *
668921 CTTTAAAGTCCACAACTCCGTGACACTCTTTTAAAATCCACAA-CTCCGTGGC-A---C-T-CA-
64 TTTTAAAGTCGACAACTCCGTGGCACCCTTTT-AAGTCCACAAGC-CAGTGGCAACCCCTTAAAG
* * ** * * * *
668978 -TC-CACAACTCCATGGC-ACC-CTTGT-AAGTCCACAACTCCGT
127 CCCACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAACTCTGC
* * * * * * * *
669018 GGCATCCTTTTAAAGTCGACAACTCCGTGGCACCCTTTT-AAGTCCACAACTTCGTGACACCCTT
1 GGCACCCTTTTAAAGTCCACAACTCCGCGGCATCCTTTTAAAGCCCACAACTCCGTGGCATCCTT
* * * *
669082 TCAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAGTCAGTGGCAACTCCTTAAAGCCCA
66 TTAAAGTCGACAACTCCGTGGCACCCTTTTAAGTCCACAAGCCAGTGGCAACCCCTTAAAGCCCA
669147 CACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAACTCTGC
131 CACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAACTCTGC
* *
669188 GGCAACCTCTTTTAAAGCCCACAACTCCGCGGCATCCTTTTAAAGCCCATAACTCCGTGGCATCC
1 GGC-ACC-CTTTTAAAGTCCACAACTCCGCGGCATCCTTTTAAAGCCCACAACTCCGTGGCATCC
*
669253 TTTTAAAGTCGACAACTCCGTGGCACCCTTTTAAGTCCACAAGCCAGTGGCAACCCCTTAAAGCG
64 TTTTAAAGTCGACAACTCCGTGGCACCCTTTTAAGTCCACAAGCCAGTGGCAACCCCTTAAAGCC
669318 CACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAACTCTGC
129 CACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAACTCTGC
* * *
669361 GGCATCCTTTTAAAGTCCACAACT-C-CGGCATCCTTTTAAAGCCCACAATTCTGTGGCATCCTT
1 GGCACCCTTTTAAAGTCCACAACTCCGCGGCATCCTTTTAAAGCCCACAACTCCGTGGCATCCTT
669424 TTAAAGTCGACAACTCCGTGGCACCCTTTTAAGTCCA
66 TTAAAGTCGACAACTCCGTGGCACCCTTTTAAGTCCA
669461 TAACTCCGTG
Statistics
Matches: 648, Mismatches: 84, Indels: 84
0.79 0.10 0.10
Matches are distributed among these distances:
158 66 0.10
159 37 0.06
162 3 0.00
163 9 0.01
164 63 0.10
165 48 0.07
166 8 0.01
167 11 0.02
168 4 0.01
169 78 0.12
170 37 0.06
171 22 0.03
172 32 0.05
173 124 0.19
174 7 0.01
175 75 0.12
176 24 0.04
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.26
Consensus pattern (171 bp):
GGCACCCTTTTAAAGTCCACAACTCCGCGGCATCCTTTTAAAGCCCACAACTCCGTGGCATCCTT
TTAAAGTCGACAACTCCGTGGCACCCTTTTAAGTCCACAAGCCAGTGGCAACCCCTTAAAGCCCA
CACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAACTCTGC
Found at i:669642 original size:56 final size:56
Alignment explanation
Indices: 668990--670193 Score: 716
Period size: 56 Copynumber: 21.1 Consensus size: 56
668980 CACAACTCCA
* * * * * * * *
668990 TGGCACCCTTGT--AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCGACAACTCCG
1 TGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * * *
669045 TGGCACCCTTT-TAAGTCCACAACTTC-GTGACACCCTTTCAAAGTCCACAACTCCG
1 TGGCACCCTTTCAAAGCCCACAA-GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
669100 TGGCACCCTTT-TAAGTCCACAAGTCAGTGGCAACTCC-TT-AAAGCCCACACAAGTCGG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTCAG
* * * * * * * *
669157 TGGCAACCTCTTTTAAAGCCCACAACTCTGCGGCAACCTCTTTTAAAGCCCACAACTCCG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAGTGGC-ATC-CTTTCAAAGCCCACAAGTCAG
* * * * * * * * * * *
669217 CGGCATCCTTTTAAAGCCCATAACTCCGTGGCATCCTTTTAAAGTCGACAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
669273 TGGCACCCTTT-TAAGTCCACAAGCCAGTGGCAACCCCTT-AAAGCGCACACAAGTCGG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ATCCTTTCAAAGC-C-CACAAGTCAG
* * * * * * *
669330 TGGCAACCTCTTTTAAAGCCCACAACTCTGCGGCATCCTTTTAAAGTCCACAACTC--
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * * * * *
669386 CGGCATCCTTTTAAAGCCCACAATTCTGTGGCATCCTTTTAAAGTCGACAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * * * * *
669442 TGGCACCCTTT-TAAGTCCATAACTCCGTGACACCCTTTTAAAGTCCACAACTCCA-
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT-CAG
* * * * * *
669497 TGGCACCCTTT-TAAGTCCACAAGTCAATGGCAACCCCTT-AAAGCCCACACAAGTCGG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ATCCTTTCAAAG-CC-CACAAGTCAG
*
669554 TGGCAACCTCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
669612 TGGCACCCTTTCAAAGACCACAAGTCAGTGGCACCCTTTCAAAGACCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
669668 TGGCACCGTTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCATAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * ** * * *
669724 TGGCATCTTTTCAAAGCTTACAAGTCGGTGGCATCTTTTCAAAGCCCACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*** * * ** *
669780 TGGCATTTTTTCCAAGCCTACAAGTCAGTGGCATATTTTCCAAGCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
669836 TAGCACCTTTTTATAGCCCACAAGTCAGTGGCA-CCTTTTCAATGCCC-CGAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAG
** * * * *
669891 TGGCATTCTTTCAAAGCCCACAAATCGGTAGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
669947 TGGCACCCTTTCAAAGCCCATAAGTTAGTGGCATCTTTTCAAAGCCTACAAGTCAA
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
**
670003 TGGCACCCTTTCAAAGCCCACAAGTCAATCCATAAGTTAGTGGCATATTTTCAAAAGCCCACAAG
1 TGGCACCCTTTCAAAGCCCACAAG----T-C-------AGTGGCATCCTTTCAA-AGCCCACAAG
*
670068 TTAG
53 TCAG
* * * * *
670072 TGGCATCTTCTTTTTCAAAGCCAACAAGTTAGTGGCA-CCTTTTCAAAGTCTACAAGTCAG
1 TGGCA-C--C-CTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAG
* ** * * * * * *
670132 TGGCATCCTTTTTAAGTCGACAACTCCGTGGCATCCTTTTAAAGCCCATAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
670188 TGGCAC
1 TGGCAC
670194 ATTTCTCTGA
Statistics
Matches: 925, Mismatches: 171, Indels: 105
0.77 0.14 0.09
Matches are distributed among these distances:
54 47 0.05
55 199 0.22
56 402 0.43
57 43 0.05
58 51 0.06
59 28 0.03
60 85 0.09
61 17 0.02
62 4 0.00
68 15 0.02
69 17 0.02
70 1 0.00
72 1 0.00
73 15 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (56 bp):
TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
Found at i:670031 original size:28 final size:28
Alignment explanation
Indices: 668990--670029 Score: 699
Period size: 28 Copynumber: 37.0 Consensus size: 28
668980 CACAACTCCA
* * *
668990 TGGCACCCTTGT--AAGTCCACAACTCCG
1 TGGCACCCTT-TCAAAGCCCACAAGTCAG
* * * * * *
669017 TGGCATCCTTTTAAAGTCGACAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * *
669045 TGGCACCCTTT-TAAGTCCACAACTTC-G
1 TGGCACCCTTTCAAAGCCCACAA-GTCAG
* * * *
669072 TGACACCCTTTCAAAGTCCACAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* *
669100 TGGCACCCTTT-TAAGTCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*
669127 TGGCAACTCC-TT-AAAGCCCACACAAGTCGG
1 TGGC-AC-CCTTTCAAAG-CC-CACAAGTCAG
* * *
669157 TGGCAACCTCTTTTAAAGCCCACAACTCTG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAG
* * * *
669187 CGGCAACCTCTTTTAAAGCCCACAACTCCG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAG
* * * * * *
669217 CGGCATCCTTTTAAAGCCCATAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * * * *
669245 TGGCATCCTTTTAAAGTCGACAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * *
669273 TGGCACCCTTT-TAAGTCCACAAGCCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* *
669300 TGGCAACCCCTT-AAAGCGCACACAAGTCGG
1 TGGC-ACCCTTTCAAAGC-C-CACAAGTCAG
* * *
669330 TGGCAACCTCTTTTAAAGCCCACAACTCTG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAG
* * * * *
669360 CGGCATCCTTTTAAAGTCCACAACTC--
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * * *
669386 CGGCATCCTTTTAAAGCCCACAATTCTG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * * * *
669414 TGGCATCCTTTTAAAGTCGACAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * * *
669442 TGGCACCCTTT-TAAGTCCATAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * *
669469 TGACACCCTTTTAAAGTCCACAACTCCA-
1 TGGCACCCTTTCAAAGCCCACAAGT-CAG
* * *
669497 TGGCACCCTTT-TAAGTCCACAAGTCAA
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* *
669524 TGGCAACCCCTT-AAAGCCCACACAAGTCGG
1 TGGC-ACCCTTTCAAAG-CC-CACAAGTCAG
*
669554 TGGCAACCTCTTTTAAAGCCCACAAGTCAG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAG
*
669584 TGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*
669612 TGGCACCCTTTCAAAGACCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*
669640 TGGCACCCTTTCAAAGACCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* *
669668 TGGCACCGTTTCAAAGCCCACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * *
669696 TGGCATCATTTCAAAGCCCATAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * ** *
669724 TGGCATCTTTTCAAAGCTTACAAGTCGG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * *
669752 TGGCATCTTTTCAAAGCCCACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*** * *
669780 TGGCATTTTTTCCAAGCCTACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*** *
669808 TGGCATATTTTCCAAGCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * *
669836 TAGCACCTTTTTATAGCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * *
669864 TGGCACCTTTTCAATGCCC-CGAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
** * *
669891 TGGCATTCTTTCAAAGCCCACAAATCGG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*
669919 TAGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* *
669947 TGGCACCCTTTCAAAGCCCATAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * *
669975 TGGCATCTTTTCAAAGCCTACAAGTCAA
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
670003 TGGCACCCTTTCAAAGCCCACAAGTCA
1 TGGCACCCTTTCAAAGCCCACAAGTCA
670030 ATCCATAAGT
Statistics
Matches: 856, Mismatches: 129, Indels: 55
0.82 0.12 0.05
Matches are distributed among these distances:
26 27 0.03
27 123 0.14
28 554 0.65
29 13 0.02
30 113 0.13
31 13 0.02
32 13 0.02
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.24
Consensus pattern (28 bp):
TGGCACCCTTTCAAAGCCCACAAGTCAG
Found at i:670141 original size:29 final size:29
Alignment explanation
Indices: 670036--670192 Score: 133
Period size: 28 Copynumber: 5.4 Consensus size: 29
670026 GTCAATCCAT
* *
670036 AAGTTAGTGGCAT-ATTTTCAAAAGCCCAC
1 AAGTCAGTGGCATCCTTTTC-AAAGCCCAC
* *
670065 AAGTTAGTGGCATCTTCTTTTTCAAAGCCAAC
1 AAGTCAGTGGCATC--C-TTTTCAAAGCCCAC
* * *
670097 AAGTTAGTGGCA-CCTTTTCAAAGTCTAC
1 AAGTCAGTGGCATCCTTTTCAAAGCCCAC
* * *
670125 AAGTCAGTGGCATCCTTTT-TAAGTCGAC
1 AAGTCAGTGGCATCCTTTTCAAAGCCCAC
* * *
670153 AACTCCGTGGCATCCTTTT-AAAGCCCAT
1 AAGTCAGTGGCATCCTTTTCAAAGCCCAC
670181 AAGTCAGTGGCA
1 AAGTCAGTGGCA
670193 CATTTCTCTG
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
28 62 0.57
29 20 0.19
31 1 0.01
32 20 0.19
33 5 0.05
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (29 bp):
AAGTCAGTGGCATCCTTTTCAAAGCCCAC
Found at i:670269 original size:32 final size:31
Alignment explanation
Indices: 670207--670280 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 31
670197 TCTCTGAAGC
* * *
670207 CCACACAAGTCGGTGGCAACCCTTTCCAAAG
1 CCACACAAGTCGATAGCAACCCCTTCCAAAG
670238 TCCACACAAGTCGATAGCAACCCCCTT-CAAAG
1 -CCACACAAGTCGATAGCAA-CCCCTTCCAAAG
670270 CCGACACAAGT
1 CC-ACACAAGT
670281 TTGTGGGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 2 0.05
32 30 0.81
33 5 0.14
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.15
Consensus pattern (31 bp):
CCACACAAGTCGATAGCAACCCCTTCCAAAG
Found at i:676667 original size:15 final size:15
Alignment explanation
Indices: 676649--676685 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
676639 AAAAAAAAAG
*
676649 AAACAAAAAACCATA
1 AAACAAAAAACAATA
676664 AAACAAAAAACAATA
1 AAACAAAAAACAATA
676679 AAA-AAAA
1 AAACAAAA
676686 GAAAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.05
Consensus pattern (15 bp):
AAACAAAAAACAATA
Found at i:676705 original size:17 final size:17
Alignment explanation
Indices: 676670--676707 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
676660 CATAAAACAA
676670 AAAACAATAAAAAAAAG
1 AAAACAATAAAAAAAAG
* *
676687 AAAATAATAAAAAAGAG
1 AAAACAATAAAAAAAAG
676704 AAAA
1 AAAA
676708 AAAAAGAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAACAATAAAAAAAAG
Found at i:677778 original size:61 final size:61
Alignment explanation
Indices: 677683--678130 Score: 537
Period size: 61 Copynumber: 7.4 Consensus size: 61
677673 AACCTTTTAT
* * ** *
677683 CCTTTCAGTCCTCAAGGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTA
1 CCTTTCAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
677744 CCTTTCATTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
677805 TTTTTCAGTCCTTAAAGAGCAGGACATATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
677866 CCTTCCAGTCCTCAAAGAGTAGGAC-GC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
677925 CC-TTCTAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCTACACAA-TTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * **
677985 GTTTTCAGTCCTCAAAGAGCAAGACATCTTTTCCTTTCAAAGCCCACACAAGTTGGCAGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** * **
678046 CCTTTTAGCCCTCAAAGAGCAGGACA-CTTTCTCCTTGCAAAGCCTATGCAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACATCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
678107 CCTTTTAGTCCCCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
678131 TGCACTTTAT
Statistics
Matches: 333, Mismatches: 48, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
58 2 0.01
59 51 0.15
60 56 0.17
61 224 0.67
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:678125 original size:241 final size:242
Alignment explanation
Indices: 677689--678130 Score: 593
Period size: 241 Copynumber: 1.8 Consensus size: 242
677679 TTATCCTTTC
* * * * *
677689 AGTCCTCAAGGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTTTCATTC
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * ** * * *
677754 CTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCATTTTTCAGTCCTTA
66 CTCAAAGAGCAAGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGCAGCACTTTTCAGCCCTCA
* ** *
677819 AAGAGCAGGACATATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGA
131 AAGAGCAGGACATATTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAGA
*
677884 GTAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
196 GCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * **
677931 AGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCTACACAA-TTGGTGGCAGTTTTCAGTC
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
677995 CTCAAAGAGCAAGACATCTTTTCCTTTCAAAGCCCACACAAGTTGGCAGCACCTTTT-AGCCCTC
66 CTCAAAGAGCAAGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGCAGCA-CTTTTCAGCCCTC
* ** **
678059 AAAGAGCAGGACACT-TTCTCCTTGCAAAGCCTATGCAAGTTGGTGGCACCTTTTAGTCCCCAAA
130 AAAGAGCAGGACA-TATTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAA
678123 GAGCAGGA
194 GAGCAGGA
678131 TGCACTTTAT
Statistics
Matches: 170, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
241 125 0.74
242 45 0.26
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (242 bp):
AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAAGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGCAGCACTTTTCAGCCCTCA
AAGAGCAGGACATATTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAGA
GCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:678164 original size:41 final size:42
Alignment explanation
Indices: 678114--678210 Score: 169
Period size: 41 Copynumber: 2.3 Consensus size: 42
678104 GCACCTTTTA
*
678114 GTCCCCAAAGAGCAGGATGCACTTTATTTCCTTTTC-CCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
*
678155 GTCCTCAAAGAGCAGGATGTACTTTATTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
678197 GTCCTCAAAGAGCA
1 GTCCTCAAAGAGCA
678211 ATACACATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
41 34 0.64
42 19 0.36
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCCTTT
Found at i:678226 original size:42 final size:41
Alignment explanation
Indices: 678114--678251 Score: 154
Period size: 41 Copynumber: 3.3 Consensus size: 41
678104 GCACCTTTTA
*
678114 GTCCCCAAAGAGCAGGATGCACTTTATTTCCTTTTC-CCTTT
1 GTCCTCAAAGAGCA-GATGCACTTTATTTCCTTTTCTCCTTT
*
678155 GTCCTCAAAGAGCAGGATGTACTTTATTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCA-GATGCACTTTATTTCCTTTTCTCCTTT
* * * *
678197 GTCCTCAAAGAGCA-ATACACATTTAATTTCTTTCTTTTCTTTT
1 GTCCTCAAAGAGCAGATGCAC-TTT-ATTTCCTT-TTCTCCTTT
*
678240 GTCCTCGAAGAG
1 GTCCTCAAAGAG
678252 TAAGACGTAC
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 4 0.05
41 37 0.44
42 26 0.31
43 18 0.21
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGATGCACTTTATTTCCTTTTCTCCTTT
Found at i:689042 original size:13 final size:13
Alignment explanation
Indices: 689024--689049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
689014 TACACAAAGT
689024 ATGTATCGATACA
1 ATGTATCGATACA
689037 ATGTATCGATACA
1 ATGTATCGATACA
689050 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:689047 original size:32 final size:33
Alignment explanation
Indices: 689006--689069 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
688996 TAGCGAAACT
**
689006 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
689038 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
689070 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:690414 original size:52 final size:52
Alignment explanation
Indices: 690336--690464 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
690326 CGAAATATGA
*
690336 AAATTTGCCTGCATGTATCAATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
690388 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
690440 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
690465 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:690475 original size:52 final size:51
Alignment explanation
Indices: 690336--690484 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
690326 CGAAATATGA
*
690336 AAATTTGCCTGCATGTATCAATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
690388 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
690440 AAATTTGCCTACATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
690485 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:690491 original size:13 final size:13
Alignment explanation
Indices: 690473--690497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
690463 CAAAGATCAG
690473 TGTATCGATACAA
1 TGTATCGATACAA
690486 TGTATCGATACA
1 TGTATCGATACA
690498 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:695851 original size:13 final size:13
Alignment explanation
Indices: 695833--695857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
695823 CATTTTATGG
695833 TGTATCGATACAA
1 TGTATCGATACAA
695846 TGTATCGATACA
1 TGTATCGATACA
695858 TACTATGTGT
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:695873 original size:32 final size:33
Alignment explanation
Indices: 695810--695877 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
695800 CGTTACAAGC
**
695810 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
695843 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
695875 CAA
1 CAA
695878 GTTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:696450 original size:60 final size:59
Alignment explanation
Indices: 696337--696603 Score: 198
Period size: 60 Copynumber: 4.5 Consensus size: 59
696327 TCTATGAAAT
* * * * * * * * *
696337 GACAACACTAAAAACCTACAA-AATTACTTGGGCAAAATCAAGACTCAACGAAATAGCTTG
1 GACAAAACCAAAAACCTA-AACAATGACTT-GGTAAAACCAAAACTCAAAGAAATAGCCTA
* * * * * *
696397 GACAAAACCAAAAACCTAAACAATGACTTGGTTTAAACCAATACTGAATGAAATGGTCTA
1 GACAAAACCAAAAACCTAAACAATGACTTGG-TAAAACCAAAACTCAAAGAAATAGCCTA
* * * * * * *
696457 GACTAAACCAGAAACCTGAACAACGATTTGGCCAAAACAAAAACTCAACA-AAATAGCCTA
1 GACAAAACCAAAAACCTAAACAATGACTTGG-TAAAACCAAAACTCAA-AGAAATAGCCTA
* * * * *
696517 GATAAAACTAAAAACCTAAACAATGACTTCGGTGAAACCAAAACTTAAAGAAATGGCCTA
1 GACAAAACCAAAAACCTAAACAATGACTT-GGTAAAACCAAAACTCAAAGAAATAGCCTA
* *
696577 AACAAAACCAGAAACCTAAA-AATGACT
1 GACAAAACCAAAAACCTAAACAATGACT
696604 ATATTTGAAC
Statistics
Matches: 159, Mismatches: 43, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
59 12 0.08
60 145 0.91
61 2 0.01
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.17
Consensus pattern (59 bp):
GACAAAACCAAAAACCTAAACAATGACTTGGTAAAACCAAAACTCAAAGAAATAGCCTA
Found at i:697182 original size:88 final size:88
Alignment explanation
Indices: 697019--697184 Score: 208
Period size: 88 Copynumber: 1.9 Consensus size: 88
697009 TGTAGATGCA
* * ** **
697019 CATGAAATGATGTAAATACAAGCACCAATAAAGTGGCATATGCATATGAAATTATACAAATACTG
1 CATGAAATGATGTAAATACAAGCACCAATAAAGAGGCAAATGCATATGAAACGATACAAATACCA
*
697084 ATGTCATCTAATGTGCAGATATG
66 AAGTCATCTAATGTGCAGATATG
* * * * *
697107 CATGAAATGATGTAAATACAAGCATCAATAGAGAGGCAAATGTATATGAAACGATGCAAATGCCA
1 CATGAAATGATGTAAATACAAGCACCAATAAAGAGGCAAATGCATATGAAACGATACAAATACCA
697172 AAGT-AGTCTAATG
66 AAGTCA-TCTAATG
697185 GTGTAAATGC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
87 1 0.02
88 64 0.98
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (88 bp):
CATGAAATGATGTAAATACAAGCACCAATAAAGAGGCAAATGCATATGAAACGATACAAATACCA
AAGTCATCTAATGTGCAGATATG
Found at i:697276 original size:17 final size:17
Alignment explanation
Indices: 697254--697294 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
697244 TTCTTCCCAT
697254 TTTTTTTGCTT-TTTTTC
1 TTTTTTTG-TTCTTTTTC
697271 TTTTTTT-TTCTTTTTC
1 TTTTTTTGTTCTTTTTC
*
697287 CTTTTTTG
1 TTTTTTTG
697295 ATTACTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.10
16 12 0.57
17 7 0.33
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (17 bp):
TTTTTTTGTTCTTTTTC
Found at i:697292 original size:18 final size:18
Alignment explanation
Indices: 697253--697293 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
697243 ATTCTTCCCA
*
697253 TTTTTTTTGCTTTTTTTC
1 TTTTTTTTGCTTTTTCTC
*
697271 TTTTTTTTTCTTTTTC-C
1 TTTTTTTTGCTTTTTCTC
697288 TTTTTT
1 TTTTTT
697294 GATTACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (18 bp):
TTTTTTTTGCTTTTTCTC
Found at i:698351 original size:32 final size:33
Alignment explanation
Indices: 698267--698358 Score: 100
Period size: 32 Copynumber: 2.8 Consensus size: 33
698257 AATTGATTAC
* *
698267 CTTT-AAGGCTAAGGTATAACCT-TACACCCTAT
1 CTTTCAAGGCTAAGATAGAACCTCTACA-CCTAT
*
698299 CTTTTACAGAGGTTAAGATAGAACCTCTACA-CTAT
1 C-TTT-CA-AGGCTAAGATAGAACCTCTACACCTAT
698334 CTTTCAAGGCTAAGATAGAACCTCT
1 CTTTCAAGGCTAAGATAGAACCTCT
698359 CAATCACTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
32 19 0.37
33 5 0.10
34 3 0.06
35 6 0.12
36 14 0.27
37 4 0.08
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (33 bp):
CTTTCAAGGCTAAGATAGAACCTCTACACCTAT
Found at i:698855 original size:24 final size:24
Alignment explanation
Indices: 698823--698892 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
698813 ATATTGTATC
* *
698823 GATACATGAACAGTAATGAATAGT
1 GATACATGAACAGTGATGAACAGT
698847 GATACATGAACAGTGATGAACAGT
1 GATACATGAACAGTGATGAACAGT
*
698871 TATACATGAACAGTGATGAACA
1 GATACATGAACAGTGATGAACA
698893 ATAATGTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.23
Consensus pattern (24 bp):
GATACATGAACAGTGATGAACAGT
Found at i:698861 original size:14 final size:14
Alignment explanation
Indices: 698823--698887 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 14
698813 ATATTGTATC
698823 GATACATGAACA--
1 GATACATGAACAGT
*
698835 G-TA-ATGAATAGT
1 GATACATGAACAGT
698847 GATACATGAACAGT
1 GATACATGAACAGT
698861 G----ATGAACAGT
1 GATACATGAACAGT
*
698871 TATACATGAACAGT
1 GATACATGAACAGT
698885 GAT
1 GAT
698888 GAACAATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
10 15 0.37
11 2 0.05
12 2 0.05
13 2 0.05
14 20 0.49
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.25
Consensus pattern (14 bp):
GATACATGAACAGT
Found at i:700714 original size:13 final size:13
Alignment explanation
Indices: 700676--700716 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
700666 ATACCAAAAC
**
700676 AATGTATCGATGC
1 AATGTATCGATAT
*
700689 AATGTAACGATAT
1 AATGTATCGATAT
700702 AATGTATCGATAT
1 AATGTATCGATAT
700715 AA
1 AA
700717 ATTTGATTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:702293 original size:21 final size:21
Alignment explanation
Indices: 702252--702310 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
702242 TACTTGCAAC
* *
702252 TCATTTCTTTTCTCCTT-TAAT
1 TCATTTATTTTCT-TTTCTAAT
702273 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTTTTCTAAT
* * *
702294 TTACTTAATTTCTTTTC
1 TCATTTATTTTCTTTTC
702311 AAGAATATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (21 bp):
TCATTTATTTTCTTTTCTAAT
Found at i:702296 original size:26 final size:26
Alignment explanation
Indices: 702255--702310 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
702245 TTGCAACTCA
** *
702255 TTTCTTTTCTCCTTTAATTCATTTAT
1 TTTCTTTTCTAATTTAATTAATTTAT
* *
702281 TTTCTTTTCTAATTTACTTAATTTCT
1 TTTCTTTTCTAATTTAATTAATTTAT
702307 TTTC
1 TTTC
702311 AAGAATATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTCTTTTCTAATTTAATTAATTTAT
Found at i:703331 original size:13 final size:13
Alignment explanation
Indices: 703313--703338 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
703303 AATTTTTTGG
703313 TGTATCGATACAT
1 TGTATCGATACAT
703326 TGTATCGATACAT
1 TGTATCGATACAT
703339 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:705735 original size:21 final size:21
Alignment explanation
Indices: 705711--705757 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
705701 TTTGATGCTG
705711 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
705731 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
705752 ATTTTG
1 ATTTTG
705758 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:705896 original size:13 final size:13
Alignment explanation
Indices: 705878--705903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
705868 ATAATCACCC
705878 TGTATCGATACAA
1 TGTATCGATACAA
705891 TGTATCGATACAA
1 TGTATCGATACAA
705904 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:705914 original size:20 final size:20
Alignment explanation
Indices: 705889--705967 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
705879 GTATCGATAC
705889 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
705909 AATGTATCGATACATAGAATTTTCA
1 AATGTATCGATACAAAGAA-----A
* *
705934 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
705954 CATGTATCGATACA
1 AATGTATCGATACA
705968 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:708002 original size:15 final size:15
Alignment explanation
Indices: 707982--708012 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
707972 ATTTCGTTTG
*
707982 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
707997 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
708012 G
1 G
708013 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:709847 original size:21 final size:21
Alignment explanation
Indices: 709818--709862 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
709808 AAGTTTTCAT
*
709818 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
709838 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
709860 TTT
1 TTT
709863 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:720628 original size:21 final size:20
Alignment explanation
Indices: 720602--720675 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
720592 AGAGTGGTTT
720602 TGTATCGATACATTGTAATCA
1 TGTATCGATACATTGTAAT-A
* * *
720623 TGTATCAATACATT-CATTTA
1 TGTATCGATACATTGTA-ATA
720643 TGTATCGATACATTCGCTAAT-
1 TGTATCGATACATT-G-TAATA
720664 TGTATCGATACA
1 TGTATCGATACA
720676 AATCATAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 15 0.35
21 26 0.60
22 1 0.02
23 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTGTAATA
Found at i:722491 original size:20 final size:20
Alignment explanation
Indices: 722466--722521 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
722456 AAATTACCTA
722466 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
722486 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
* *
722506 AATATATCAATACATT
1 AATGTATCGATACATT
722522 TGGGTCAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:727004 original size:20 final size:20
Alignment explanation
Indices: 726979--727032 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
726969 GTTTGGGACA
*
726979 ATGTATCAATACAAT-TCTTC
1 ATGTATCAATACAATGT-GTC
*
726999 ATGTATCGATACAATGTGTC
1 ATGTATCAATACAATGTGTC
727019 ATGTATCAATACAA
1 ATGTATCAATACAA
727033 ATAGTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCAATACAATGTGTC
Found at i:727105 original size:19 final size:18
Alignment explanation
Indices: 727060--727117 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
727050 ACTGCCAGTT
*
727060 TCATGTATCGATACATTTG
1 TCATGTATCGATACA-ATG
727079 TGCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
727098 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
727117 T
1 T
727118 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.56
20 15 0.42
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:727119 original size:13 final size:13
Alignment explanation
Indices: 727101--727127 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
727091 TACAATGATC
727101 ATGTATCGATACA
1 ATGTATCGATACA
727114 ATGTATCGATACA
1 ATGTATCGATACA
727127 A
1 A
727128 AGCATAATGT
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:727143 original size:33 final size:32
Alignment explanation
Indices: 727082--727146 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
727072 ACATTTGTGC
* *
727082 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
727114 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
727147 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:728280 original size:13 final size:13
Alignment explanation
Indices: 728262--728287 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
728252 TACAGCAAGT
728262 ATGTATCGATACA
1 ATGTATCGATACA
728275 ATGTATCGATACA
1 ATGTATCGATACA
728288 CAAAATTGTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:728301 original size:31 final size:32
Alignment explanation
Indices: 728244--728305 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
728234 TAGCCAAACT
*
728244 TGTATCGATACAGCAAGTATGTATCGATACAA
1 TGTATCGATACAGCAAATATGTATCGATACAA
728276 TGTATCGATACA-CAAA-ATTGTATCGATACA
1 TGTATCGATACAGCAAATA-TGTATCGATACA
728306 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 1 0.04
31 15 0.54
32 12 0.43
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAGCAAATATGTATCGATACAA
Found at i:730532 original size:21 final size:21
Alignment explanation
Indices: 730499--730543 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
730489 TTGCAAGTTG
*
730499 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
730521 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
730541 AAA
1 AAA
730544 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:734464 original size:20 final size:20
Alignment explanation
Indices: 734385--734464 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
734375 AATGTCCAAA
*
734385 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
734405 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
734430 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
734450 TTGTATCGATACATT
1 ATGTATCGATACATT
734465 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Done.