Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 203 of 204
Found at i:59809560 original size:9 final size:9
Alignment explanation
Indices: 59809546--59809577 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
59809536 TTTAAACTTG
*
59809546 TATTATTAT
1 TATTATTTT
59809555 TATTATTTT
1 TATTATTTT
59809564 TATTATTTT
1 TATTATTTT
59809573 TATTA
1 TATTA
59809578 CCTCTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTATTTT
Found at i:59816419 original size:23 final size:22
Alignment explanation
Indices: 59816372--59816419 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
59816362 ATTCATCCAC
* * *
59816372 ATATTTTTATTTTTTATTTTTA
1 ATATTTTCATTTTTTATCTTGA
59816394 ATATTTTCATTATTTTATCTTGA
1 ATATTTTCATT-TTTTATCTTGA
59816417 ATA
1 ATA
59816420 AATTATTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
ATATTTTCATTTTTTATCTTGA
Found at i:59824215 original size:2 final size:2
Alignment explanation
Indices: 59824208--59824234 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59824198 GAAAAGTGCC
59824208 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
59824235 AAGGAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59837371 original size:22 final size:22
Alignment explanation
Indices: 59837338--59837404 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
59837328 TGCACTAATG
*
59837338 AACAGAGAGCACTAAAGTGCTA
1 AACAAAGAGCACTAAAGTGCTA
* *
59837360 TACAAAGAGCAC-ATATGTGCTA
1 AACAAAGAGCACTA-AAGTGCTA
* * *
59837382 AACAGAGAGCACTGACGTGCTA
1 AACAAAGAGCACTAAAGTGCTA
59837404 A
1 A
59837405 TAATTAGATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAAAGAGCACTAAAGTGCTA
Found at i:59837424 original size:25 final size:25
Alignment explanation
Indices: 59837385--59837466 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
59837375 TGTGCTAAAC
**
59837385 AGAGAGCACTGACGTGCTAATAATT
1 AGAGAGCACCAACGTGCTAATAATT
* * *
59837410 AGATAGCACCAACGTGTTAATAATC
1 AGAGAGCACCAACGTGCTAATAATT
*
59837435 AGAGAGCACCAACATGCTAATAATT
1 AGAGAGCACCAACGTGCTAATAATT
59837460 AGAGAGC
1 AGAGAGC
59837467 GTGCTAAAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAGAGCACCAACGTGCTAATAATT
Found at i:59838509 original size:23 final size:23
Alignment explanation
Indices: 59838480--59838528 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
59838470 TTAATAATTA
59838480 TATACATATATTAATTACAAATG
1 TATACATATATTAATTACAAATG
*
59838503 TATACATATATTTATTACAAATG
1 TATACATATATTAATTACAAATG
59838526 TAT
1 TAT
59838529 TTATAATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (23 bp):
TATACATATATTAATTACAAATG
Found at i:59838953 original size:15 final size:15
Alignment explanation
Indices: 59838900--59838956 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
59838890 TTACAACTAC
59838900 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
59838915 AATATAATTATAATTGTA
1 AAAAT-ATT-T-ATTATT
59838933 ATAAATATTTATTATT
1 A-AAATATTTATTATT
59838949 AAAATATT
1 AAAATATT
59838957 AATACTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 11 0.34
16 8 0.25
17 2 0.06
18 8 0.25
19 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:59839015 original size:15 final size:16
Alignment explanation
Indices: 59838995--59839025 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59838985 AAGAACATTA
59838995 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
59839010 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
59839026 AAAATAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:59839725 original size:26 final size:25
Alignment explanation
Indices: 59839695--59839752 Score: 98
Period size: 26 Copynumber: 2.3 Consensus size: 25
59839685 AATTATGTTG
59839695 ATGAGGTCATAATTTCTTTTAACAAA
1 ATGAGGTCATAATTTCTTTTAAC-AA
*
59839721 ATGAGGTCATAATTTCTTTTAACAG
1 ATGAGGTCATAATTTCTTTTAACAA
59839746 ATGAGGT
1 ATGAGGT
59839753 AACTGTTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (25 bp):
ATGAGGTCATAATTTCTTTTAACAA
Found at i:59846044 original size:23 final size:22
Alignment explanation
Indices: 59846002--59846044 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
59845992 CAATTGAACC
*
59846002 AAAATTTTAATATTTTATTTTT
1 AAAATTTTAATATTTAATTTTT
59846024 AAAATTTTTAAT-TATTAATTT
1 AAAA-TTTTAATAT-TTAATTT
59846045 AATCAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAAATTTTAATATTTAATTTTT
Found at i:59847389 original size:10 final size:10
Alignment explanation
Indices: 59847367--59847401 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
59847357 TTGAACCGGG
59847367 TTTTATAATT
1 TTTTATAATT
*
59847377 TTTTA-AATA
1 TTTTATAATT
59847386 TTTTATAATT
1 TTTTATAATT
59847396 TTTTAT
1 TTTTAT
59847402 GAACAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:59853198 original size:31 final size:31
Alignment explanation
Indices: 59853163--59853222 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
59853153 GGGAATTTTT
* * *
59853163 ATTTAAGTTATTAAACTATTTGAAAGTTTGC
1 ATTTAAATCATTAAACTATCTGAAAGTTTGC
**
59853194 ATTTAAATCATTAATTTATCTGAAAGTTT
1 ATTTAAATCATTAAACTATCTGAAAGTTT
59853223 TTAAGTCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTTAAATCATTAAACTATCTGAAAGTTTGC
Found at i:59854087 original size:35 final size:34
Alignment explanation
Indices: 59853996--59854087 Score: 89
Period size: 35 Copynumber: 2.7 Consensus size: 34
59853986 CCCATTTTTT
* *
59853996 AATAAACATTAAAAAT-TTATTTTAAAAATAAAA
1 AATAAAAATAAAAAATATTATTTTAAAAATAAAA
** * *
59854029 AATAAAAATATTTTAAA-AGTATTTTAAAATTAAAA
1 AATAAAAATA--AAAAATATTATTTTAAAAATAAAA
59854064 AATAAAAATAAAAAATATATATTT
1 AATAAAAATAAAAAATAT-TATTT
59854088 ATTCCAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
33 11 0.24
34 1 0.02
35 33 0.73
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (34 bp):
AATAAAAATAAAAAATATTATTTTAAAAATAAAA
Found at i:59855569 original size:20 final size:21
Alignment explanation
Indices: 59855536--59855574 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
59855526 TTATATGTCA
*
59855536 TATATATTTTTAAATTATTTT
1 TATATATTTATAAATTATTTT
59855557 TATA-ATTTATAAATTATT
1 TATATATTTATAAATTATT
59855575 AACTAACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATATTTATAAATTATTTT
Found at i:59863490 original size:105 final size:105
Alignment explanation
Indices: 59863302--59863491 Score: 256
Period size: 105 Copynumber: 1.8 Consensus size: 105
59863292 CCGTCAGCAA
* * *
59863302 AGTTTGCCACACCAGTTCGGATTGTCACCTACACCATCTATTGGTACATTATCTGATACACCTAT
1 AGTTTGCCACACCAATTCGGATTGTCACCTACACCATCTATTGGCACATTATCGGATACACCTAT
*
59863367 GACGAGGCAGAAACGAGATGTATTTGAGAAGAGTATTGAG
66 GACGAGGCAGAAAAGAGATGTATTTGAGAAGAGTATTGAG
* * * * * * *
59863407 AGTTTGCCACAGCAATTTGGGTTGTTACCTACCCCGTCTATTGGCACGTTATCGGATACACCTAT
1 AGTTTGCCACACCAATTCGGATTGTCACCTACACCATCTATTGGCACATTATCGGATACACCTAT
*
59863472 GAC-AGGACGGAAAAGAGATG
66 GACGAGG-CAGAAAAGAGATG
59863492 CTCAAGATGC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 3 0.04
105 69 0.96
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (105 bp):
AGTTTGCCACACCAATTCGGATTGTCACCTACACCATCTATTGGCACATTATCGGATACACCTAT
GACGAGGCAGAAAAGAGATGTATTTGAGAAGAGTATTGAG
Found at i:59878065 original size:21 final size:21
Alignment explanation
Indices: 59878048--59878094 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
59878038 GAGTTTTGAA
59878048 TATTAAAATTAATTTTTTAAT
1 TATTAAAATTAATTTTTTAAT
* * *
59878069 TTTTTAAATTAATTTTTAAAT
1 TATTAAAATTAATTTTTTAAT
59878090 T-TTAA
1 TATTAA
59878095 TATGTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTAAAATTAATTTTTTAAT
Found at i:59881682 original size:24 final size:25
Alignment explanation
Indices: 59881635--59881688 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
59881625 TGATCCCCAT
59881635 ATTTTTTTCGTTTTAAGTAATTTAA
1 ATTTTTTTCGTTTTAAGTAATTTAA
* * **
59881660 TTTTTTTTC-TTTTATGTTCTTTAA
1 ATTTTTTTCGTTTTAAGTAATTTAA
59881684 ATTTT
1 ATTTT
59881689 CCTCTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (25 bp):
ATTTTTTTCGTTTTAAGTAATTTAA
Found at i:59886018 original size:17 final size:18
Alignment explanation
Indices: 59885996--59886029 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59885986 CTCTTCTTCT
59885996 TTTTTAG-TTTTACTTTA
1 TTTTTAGTTTTTACTTTA
59886013 TTTTTAGTTTTTACTTT
1 TTTTTAGTTTTTACTTT
59886030 TAAAAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTAGTTTTTACTTTA
Found at i:59886750 original size:17 final size:19
Alignment explanation
Indices: 59886709--59886752 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
59886699 CAAACTATAA
*
59886709 CTTTT-ATTTTAAACTGGT
1 CTTTTAATTTTAAACTGAT
59886727 CTTTTAATTTTAAACT-AT
1 CTTTTAATTTTAAACTGAT
59886745 -TTTTAATT
1 CTTTTAATT
59886753 ACATCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.59
Consensus pattern (19 bp):
CTTTTAATTTTAAACTGAT
Found at i:59887207 original size:19 final size:19
Alignment explanation
Indices: 59887165--59887207 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
59887155 TTTTTGATAT
* * *
59887165 TTTTATATTTTATAATTAA
1 TTTTAAATTTTAAAAATAA
*
59887184 ATTTAAATTTTAAAAATAA
1 TTTTAAATTTTAAAAATAA
59887203 TTTTA
1 TTTTA
59887208 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAAATTTTAAAAATAA
Found at i:59887862 original size:12 final size:12
Alignment explanation
Indices: 59887845--59887869 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59887835 AATAATTCGT
59887845 ATTTTACTGTTA
1 ATTTTACTGTTA
59887857 ATTTTACTGTTA
1 ATTTTACTGTTA
59887869 A
1 A
59887870 CACAGGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTTACTGTTA
Found at i:59888169 original size:43 final size:43
Alignment explanation
Indices: 59888108--59888195 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
59888098 AGTATATAAA
59888108 TTTCAAAACATTTTAATTGAGTACCAATATTGTACCAATCAAG
1 TTTCAAAACATTTTAATTGAGTACCAATATTGTACCAATCAAG
59888151 TTTCAAAACATTTTAATTGAGTACCAATATTGTACCAATCAAG
1 TTTCAAAACATTTTAATTGAGTACCAATATTGTACCAATCAAG
59888194 TT
1 TT
59888196 ACTCTGTTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (43 bp):
TTTCAAAACATTTTAATTGAGTACCAATATTGTACCAATCAAG
Found at i:59897853 original size:20 final size:20
Alignment explanation
Indices: 59897819--59897860 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59897809 GTCCTTGTAA
59897819 TTTTATTTTCAGATTTT-TT
1 TTTTATTTTCAGATTTTCTT
*
59897838 TTTTACTTTTCGGATTTTCTT
1 TTTTA-TTTTCAGATTTTCTT
59897859 TT
1 TT
59897861 AAAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTTATTTTCAGATTTTCTT
Found at i:59897861 original size:19 final size:19
Alignment explanation
Indices: 59897819--59897861 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
59897809 GTCCTTGTAA
*
59897819 TTTTATTTTCAGATTTTTT
1 TTTTATTTTCAGATTTTTC
*
59897838 TTTTACTTTTCGGA-TTTTC
1 TTTTA-TTTTCAGATTTTTC
59897857 TTTTA
1 TTTTA
59897862 AAAAAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTATTTTCAGATTTTTC
Found at i:59898275 original size:32 final size:32
Alignment explanation
Indices: 59898239--59898308 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
59898229 GCTTAGCCAT
*
59898239 AAGCTTGGATGTTAAATGTTAACATACATATG
1 AAGCTAGGATGTTAAATGTTAACATACATATG
*
59898271 AAGCTAGGATGTTAAATGTTAACTTACATATG
1 AAGCTAGGATGTTAAATGTTAACATACATATG
*
59898303 ATGCTA
1 AAGCTA
59898309 AGCATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (32 bp):
AAGCTAGGATGTTAAATGTTAACATACATATG
Found at i:59903607 original size:115 final size:111
Alignment explanation
Indices: 59903464--59903686 Score: 304
Period size: 115 Copynumber: 2.0 Consensus size: 111
59903454 GCGGTAAATT
* *
59903464 CATGGCTAGATCAAATTGCTGATTAGGATATTTTGCTGGGATTCTTTATATAAAATTTATTTATT
1 CATGGCTAGATCAAATTGCTGATTAGGATATTTTACTGGGATTCCTTATATAAAATTTATTT-TT
* * *
59903529 TATTTATGAATTTTCTGACTCAAGCTCATATATTTTATATAAGGAAGTG
65 T-TTTATAAATTTGCTGACTCAAGCTCATATATTCTATAT-AGGAAGTG
* *
59903578 CATGGCTGGATC-AATATGTTGAATTAGGATATTTTACTGGGATTCCTTATATAAAATTTATTTT
1 CATGGCTAGATCAAAT-TGCTG-ATTAGGATATTTTACTGGGATTCCTTATATAAAATTTATTTT
* * *
59903642 TTTTTGTAAATTTGCTGACTCAAGTTCGTATATTCTATATAGGAA
64 TTTTTATAAATTTGCTGACTCAAGCTCATATATTCTATATAGGAA
59903687 AATAGCGAGT
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
112 5 0.05
113 35 0.36
114 18 0.19
115 39 0.40
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (111 bp):
CATGGCTAGATCAAATTGCTGATTAGGATATTTTACTGGGATTCCTTATATAAAATTTATTTTTT
TTTATAAATTTGCTGACTCAAGCTCATATATTCTATATAGGAAGTG
Found at i:59905089 original size:207 final size:209
Alignment explanation
Indices: 59904629--59905277 Score: 671
Period size: 207 Copynumber: 3.1 Consensus size: 209
59904619 CATTTTTGTG
* * * *
59904629 GATACGAGGACAAACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAAGTTATCTAT
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAAATGATCTAT
* *
59904694 ATCTGTGTCTGACACTCACACTAGAGTCCGAGTCAGAGGTTCACGAACCAC---CAGT-T-ATTT
66 ATCTGTGTCTGACACTCACACTTGAGTCC--G-CAGAGGTTCACGAACCACAATTAGTGTAATTT
* ** *
59904754 TATTGTATATT-GTTGTTCATTACTCACTGTTCATGTTGCTCCAACTTTTCATTTTTCTGGATAT
128 TATTGT-TGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATAT
* *
59904818 ACCTGTGTTTTTAACAAATG
192 ACCTATG--TTTAACAAATC
* *
59904838 GATATGAGGACGTACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTTAAAAAAAATGATCCA
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACC-TTTAAAAAAAATGATCTA
*
59904903 TATCTGTGTTTGACACTCACACTTGAGT-C-CA-AGGTTCACGAACCATCAATTAGTGTAATTTT
65 TATCTGTGTCTGACACTCACACTTGAGTCCGCAGAGGTTCACGAACCA-CAATTAGTGTAATTTT
* * ** * *
59904965 ATTGTTGTTCGTTACTCATTGATTGTCATTGTCCATGTTGCTCTGACTTTTTATTTTTGTGGATA
129 ATTGTTGTTCGTTACTCATT-A--CTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATA
* *
59905030 TA-CTATG-TTGA-ATA-C
191 TACCTATGTTTAACAAATC
*
59905045 GATATGAGGACATACCTCCAAAGATGCTCCAAATGCATAGAAAACC-TTAAAAAGAATATGATCT
1 GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAA-AA-ATGATCT
* *
59905109 ATATCTGTGTCTGACACT--CACTTGAGTCCGAGTCAGAGGTTCATGAACCACCAATTAGTGTAT
64 ATATCTGTGTCTGACACTCACACTTGAGTCC--G-CAGAGGTTCACGAACCA-CAATTAGTGTAA
* * * *
59905172 TTTTATTGTTGTTCG-------TTACTCACTGTTCATGTTGCTCCGATTTTTCATTTTTGTGGAT
125 TTTTATTGTTGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGAT
* * *
59905230 ATACCTGTGTTCAACACATGC
190 ATACCTATGTTTAACAAAT-C
59905251 G-TATGAGGACATACCTCCAAAGATGCT
1 GATATGAGGACATACCTCCAAAGATGCT
59905278 ATTGATGGCA
Statistics
Matches: 376, Mismatches: 40, Indels: 52
0.80 0.09 0.11
Matches are distributed among these distances:
201 37 0.10
202 4 0.01
203 3 0.01
204 18 0.05
205 45 0.12
206 5 0.01
207 67 0.18
208 5 0.01
209 51 0.14
210 61 0.16
211 40 0.11
212 4 0.01
213 36 0.10
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (209 bp):
GATATGAGGACATACCTCCAAAGATGCTCCGAATGCATAGAAAACCTTTAAAAAAAATGATCTAT
ATCTGTGTCTGACACTCACACTTGAGTCCGCAGAGGTTCACGAACCACAATTAGTGTAATTTTAT
TGTTGTTCGTTACTCATTACTCACTGTCCATGTTGCTCCAACTTTTCATTTTTCTGGATATACCT
ATGTTTAACAAATC
Found at i:59908596 original size:3 final size:3
Alignment explanation
Indices: 59908588--59908613 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59908578 ATCCCATTTT
59908588 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
59908614 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:59917140 original size:39 final size:39
Alignment explanation
Indices: 59917097--59917198 Score: 150
Period size: 39 Copynumber: 2.6 Consensus size: 39
59917087 TCCCTTAGAG
*
59917097 AAATTTATGTTATTTGAATCCGGAGTCACTTCCTGAAAA
1 AAATTTATGTTATTTGAATTCGGAGTCACTTCCTGAAAA
* * * *
59917136 AAATTTATGTTATTTAAATTCAGAGTCACTTCCTTAAAG
1 AAATTTATGTTATTTGAATTCGGAGTCACTTCCTGAAAA
*
59917175 AAATTTATGTTATTCGAATTCGGA
1 AAATTTATGTTATTTGAATTCGGA
59917199 TTTATGAGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (39 bp):
AAATTTATGTTATTTGAATTCGGAGTCACTTCCTGAAAA
Found at i:59918438 original size:31 final size:31
Alignment explanation
Indices: 59918400--59918459 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
59918390 CTAATGACTG
* *
59918400 AAAAAGAAAAA-TTCGAATATTTGGGTGACCA
1 AAAAAGAAAAAGTT-AAATAGTTGGGTGACCA
59918431 AAAAAGAAAAAGTTAAATAGTTGGGTGAC
1 AAAAAGAAAAAGTTAAATAGTTGGGTGAC
59918460 TACTAGTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.50, C:0.07, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAAAGAAAAAGTTAAATAGTTGGGTGACCA
Found at i:59919436 original size:2 final size:2
Alignment explanation
Indices: 59919431--59919460 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59919421 ATATCATGTG
59919431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59919461 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59919465 original size:2 final size:2
Alignment explanation
Indices: 59919460--59919491 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
59919450 ATATATATAT
59919460 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
59919492 CATACGCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59921185 original size:3 final size:3
Alignment explanation
Indices: 59921177--59921212 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
59921167 ATACTGTTAG
59921177 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA- AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
59921213 CACTAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:59924704 original size:21 final size:22
Alignment explanation
Indices: 59924664--59924706 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
59924654 TGTTAAAATT
59924664 TATTTTAAGTATTTAATATTTTG
1 TATTTTAAG-ATTTAATATTTTG
*
59924687 TATTTTAA-ATTTATTATTTT
1 TATTTTAAGATTTAATATTTT
59924707 TTATAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
TATTTTAAGATTTAATATTTTG
Found at i:59926862 original size:21 final size:22
Alignment explanation
Indices: 59926837--59926891 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
59926827 CTGCAAATAA
59926837 TTAATTAAA-A-TTA-TCATAT
1 TTAATTAAATATTTATTCATAT
59926856 ATATAATATAAATATTTATTCATAT
1 -T-TAAT-TAAATATTTATTCATAT
59926881 TTAATTAAATA
1 TTAATTAAATA
59926892 AATATATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.03
21 4 0.13
22 10 0.33
23 5 0.17
24 4 0.13
25 6 0.20
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAATTAAATATTTATTCATAT
Found at i:59930111 original size:25 final size:24
Alignment explanation
Indices: 59930066--59930114 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
59930056 TAAAATTAAA
*
59930066 TAAATAAATTTTTATATAAAAAAT
1 TAAATAAATTTTGATATAAAAAAT
59930090 TAAATAAAATTTTGA-ATGAAAAAAT
1 TAAAT-AAATTTTGATAT-AAAAAAT
59930115 ATATAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
TAAATAAATTTTGATATAAAAAAT
Found at i:59930790 original size:18 final size:18
Alignment explanation
Indices: 59930769--59930819 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 18
59930759 CTAAAATATT
59930769 TATAATTGTTTCTAAAAA
1 TATAATTGTTTCTAAAAA
*
59930787 TATAA---TTACT-AAAA
1 TATAATTGTTTCTAAAAA
59930801 TATAATTGTTTCTAGAAAA
1 TATAATTGTTTCTA-AAAA
59930820 AGTCTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
17 4 0.15
18 5 0.19
19 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (18 bp):
TATAATTGTTTCTAAAAA
Found at i:59933689 original size:14 final size:14
Alignment explanation
Indices: 59933670--59933697 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59933660 ATCATAAACC
59933670 CTAAAAGAATTAAT
1 CTAAAAGAATTAAT
59933684 CTAAAAGAATTAAT
1 CTAAAAGAATTAAT
59933698 TTACGTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
CTAAAAGAATTAAT
Found at i:59934050 original size:19 final size:19
Alignment explanation
Indices: 59934018--59934055 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
59934008 TTGAATTCAA
59934018 TTTAAATAATATAAAATATT
1 TTTAAATAATAT-AAATATT
59934038 TTTAAAT-ATATAAATATT
1 TTTAAATAATATAAATATT
59934056 AATATAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTAAATAATATAAATATT
Found at i:59936171 original size:21 final size:21
Alignment explanation
Indices: 59936137--59936200 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
59936127 CTATATAGAC
59936137 TATAAA-A-TAATATAAAATA
1 TATAAATATTAATATAAAATA
*
59936156 TTTAAAT-TTAATTATAAAATA
1 TATAAATATTAA-TATAAAATA
*
59936177 TATAAATATTAATATAAAGTA
1 TATAAATATTAATATAAAATA
59936198 TAT
1 TAT
59936201 TTTTAATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 5 0.13
20 3 0.08
21 26 0.68
22 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAAATATTAATATAAAATA
Found at i:59936199 original size:28 final size:31
Alignment explanation
Indices: 59936137--59936199 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 31
59936127 CTATATAGAC
* *
59936137 TATAAAATAATATAAAATATTTAAATTTAAT
1 TATAAAATAATATAAAATATTTAAATTAAAG
59936168 TATAAAAT-ATAT-AAATA-TT-AATATAAAG
1 TATAAAATAATATAAAATATTTAAAT-TAAAG
59936196 TATA
1 TATA
59936200 TTTTTAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 3 0.10
28 9 0.31
29 5 0.17
30 4 0.14
31 8 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (31 bp):
TATAAAATAATATAAAATATTTAAATTAAAG
Found at i:59938801 original size:3 final size:3
Alignment explanation
Indices: 59938793--59938834 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
59938783 TCATTTAACT
59938793 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59938835 ACAACAACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:59944361 original size:21 final size:20
Alignment explanation
Indices: 59944335--59944407 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
59944325 ACATATATGT
59944335 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
59944356 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
59944378 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
59944398 GTAACAATAT
1 ATAATAATAT
59944408 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:59944379 original size:16 final size:15
Alignment explanation
Indices: 59944350--59944392 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
59944340 AATGATGAAA
59944350 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
59944364 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
59944380 ATAATAATAAATA
1 ATAATAATAAATA
59944393 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:59946480 original size:46 final size:45
Alignment explanation
Indices: 59946373--59946719 Score: 374
Period size: 46 Copynumber: 7.6 Consensus size: 45
59946363 TACATATGAT
*
59946373 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
* *
59946416 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
59946462 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
59946498 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
* * * *
59946544 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-CTAAGCTAC
* *
59946590 CACTTATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC--T---TTGTCACTTGATCAGATAAGTGTAG-CTAAGCTAC
59946641 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
59946693 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
59946720 AGTACTCAAA
Statistics
Matches: 268, Mismatches: 15, Indels: 39
0.83 0.05 0.12
Matches are distributed among these distances:
36 29 0.11
38 3 0.01
40 2 0.01
41 1 0.00
42 3 0.01
43 10 0.04
44 7 0.03
45 22 0.08
46 97 0.36
47 1 0.00
48 1 0.00
50 1 0.00
51 47 0.18
52 44 0.16
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:59946503 original size:36 final size:36
Alignment explanation
Indices: 59946462--59946580 Score: 130
Period size: 36 Copynumber: 3.0 Consensus size: 36
59946452 CTAAGGCTAA
59946462 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
59946498 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
*
59946540 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTATAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
59946580 C
1 C
59946581 CGAAGCTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
36 30 0.43
38 3 0.04
40 3 0.04
42 3 0.04
44 3 0.04
46 28 0.40
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:59946523 original size:82 final size:82
Alignment explanation
Indices: 59946416--59946580 Score: 294
Period size: 82 Copynumber: 2.0 Consensus size: 82
59946406 GCTAGGCTAC
*
59946416 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
59946481 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
* * *
59946498 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
59946563 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
59946580 C
1 C
59946581 CGAAGCTATC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAG
Found at i:59946625 original size:51 final size:51
Alignment explanation
Indices: 59946544--59946705 Score: 252
Period size: 52 Copynumber: 3.1 Consensus size: 51
59946534 CTAAAGCTAC
* *
59946544 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
59946597 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
** *
59946648 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
59946700 CACTTT
1 CACTTT
59946706 ATCACTTGAT
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
51 46 0.45
52 52 0.50
53 5 0.05
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (51 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:59951693 original size:3 final size:3
Alignment explanation
Indices: 59951654--59951763 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
59951644 ATGTATTAGT
* * *
59951654 ATA ATA GTA ATAA ATA AAA AGA A-A ATA A-A ACTA ATA ATA ATTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA A-TA ATA
* **
59951700 ATA GTA ATA ATA ATA ATA ACC ATA ATA ATA ATA AGCTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA
59951746 AT- ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
59951764 GAGCAAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.11
3 66 0.76
4 8 0.09
5 3 0.03
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:59953358 original size:44 final size:43
Alignment explanation
Indices: 59953309--59953802 Score: 209
Period size: 44 Copynumber: 11.6 Consensus size: 43
59953299 ATCTACTCTG
* * *
59953309 CTGTAACT-TCAGAGAGATAAGATCCTTCATTTTAATCCGCTTCA
1 CTGTAA-TATCAGGGAGATAAGAT-CTTCATTTCAATCCGCTCCA
* * * ** * ** *
59953353 CTGTAATCTCAGGGAGATAGGATC-TGA-AACGATCTACTCTA
1 CTGTAATATCAGGGAGATAAGATCTTCATTTCAATCCGCTCCA
* * *
59953394 CTGTAACT-TCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCA
1 CTGTAA-TATCAGGGAGATAAGAT-CTTCATTTCAATCCGCTCCA
* * * *
59953438 CTGTAATATCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCG
1 CTGTAATATCAGGGAGATAAGATCTTC-AT-TTCAATCCGCTCCA
* * ** * ** *
59953482 CTGTAATCTCAGGGAGATAAGATC-TGA-AACGATCTACTCTA
1 CTGTAATATCAGGGAGATAAGATCTTCATTTCAATCCGCTCCA
* * *
59953523 CTGTAACT-TCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCA
1 CTGTAA-TATCAGGGAGATAAGAT-CTTCATTTCAATCCGCTCCA
* * * *
59953567 CTGTAATATCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCG
1 CTGTAATATCAGGGAGATAAGATCTTC-AT-TTCAATCCGCTCCA
* * **
59953611 CTGTAATCTCAGGGAGATAAGATCTGCCATCTTCAATGTGCTCCA
1 CTGTAATATCAGGGAGATAAGATCT-TCAT-TTCAATCCGCTCCA
* ** * ** *
59953656 C--T--T-T--GGGAGATAAGATC-TGA-AACGATCTACTCTA
1 CTGTAATATCAGGGAGATAAGATCTTCATTTCAATCCGCTCCA
* * * *
59953690 CTGTAACT-TCAGAGAGATAAGATCCTTTATTTTAATCCACTCCA
1 CTGTAA-TATCAGGGAGATAAGAT-CTTCATTTCAATCCGCTCCA
* * * * *
59953734 CTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCA
1 CTGTAATATCAGGGAGATAAGATCTTC-A-TTTCAATCCGCTCCA
*
59953778 CTGTAATTTCAGGGAGATAAGATCT
1 CTGTAATATCAGGGAGATAAGATCT
59953803 GAAATTCTTT
Statistics
Matches: 331, Mismatches: 87, Indels: 63
0.69 0.18 0.13
Matches are distributed among these distances:
34 9 0.03
36 2 0.01
38 13 0.04
39 2 0.01
40 1 0.00
41 65 0.20
42 12 0.04
43 14 0.04
44 194 0.59
45 18 0.05
46 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (43 bp):
CTGTAATATCAGGGAGATAAGATCTTCATTTCAATCCGCTCCA
Found at i:59953453 original size:85 final size:85
Alignment explanation
Indices: 59953263--59953460 Score: 324
Period size: 85 Copynumber: 2.3 Consensus size: 85
59953253 CTTCAGTCTA
* * * * *
59953263 CTCCACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCTGCTGTAACTTCAGAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATA
59953328 AGATCCTTCATTTTAATCCG
66 AGATCCTTCATTTTAATCCG
*
59953348 CTTCACTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATA
*
59953413 AGATCCTTCGTTTTAATCCG
66 AGATCCTTCATTTTAATCCG
*
59953433 CTCCACTGTAATATCAGGGAGATAGGAT
1 CTCCACTGTAATCTCAGGGAGATAGGAT
59953461 TACTATCTTC
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 104 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (85 bp):
CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTCATTTTAATCCG
Found at i:59953500 original size:129 final size:129
Alignment explanation
Indices: 59953353--59953636 Score: 559
Period size: 129 Copynumber: 2.2 Consensus size: 129
59953343 ATCCGCTTCA
*
59953353 CTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
59953418 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
66 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
59953482 CTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
59953547 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
66 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
59953611 CTGTAATCTCAGGGAGATAAGATCTG
1 CTGTAATCTCAGGGAGATAAGATCTG
59953637 CCATCTTCAA
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 154 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
CTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
Found at i:59953684 original size:167 final size:167
Alignment explanation
Indices: 59953493--59953803 Score: 559
Period size: 167 Copynumber: 1.9 Consensus size: 167
59953483 TGTAATCTCA
*
59953493 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAA
1 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
* * *
59953558 TCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAG
66 TCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
59953623 GGAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
131 GGAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
*
59953660 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
* *
59953725 TCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATTTCAG
66 TCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
59953790 GGAGATAAGATCTG
131 GGAGATAAGATCTG
59953804 AAATTCTTTG
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
167 137 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (167 bp):
GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
TCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
GGAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
Found at i:59966527 original size:3 final size:3
Alignment explanation
Indices: 59966489--59966597 Score: 84
Period size: 3 Copynumber: 36.7 Consensus size: 3
59966479 ATGTATTAGT
* * * *
59966489 ATA ATA GTA ATAA ATA AAA AGA A-A ATA A-A CTA ATA ATA ATTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* **
59966534 ATA GTA ATA ATA ATA ATA ACC ATA ATA ATA ATA AGCTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA
59966580 AT- ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
59966598 GAGCAAATAA
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
2 9 0.11
3 67 0.79
4 6 0.07
5 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:59968095 original size:36 final size:31
Alignment explanation
Indices: 59968043--59968431 Score: 397
Period size: 30 Copynumber: 12.3 Consensus size: 31
59968033 TTAGCACTTC
*
59968043 GTGGTGGCCTCC-TAGGTGACGGAGGTGGAG
1 GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
59968073 GTGGAGGTGGTTCTCTCTTAGGTGACGGAGGTAGAGGTGGAG
1 GT---GGTGG-TCTC-CTTAGGTGAC----G--GAGGTGGAG
59968115 GTGGTGGTCT-CTTAGGTGACGGAGGTGGAG
1 GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
59968145 GTGGTGGTCTCC-TAGGTGACGGAGGTGGAGGTGGAG
1 GTGGTGGTCTCCTTAGGTGAC------GGAGGTGGAG
59968181 GTGGTGGTCTCCTT-GGTGACGGAGGTGGAG
1 GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
59968211 GTGGTGGTCT-CTTAGGTGACGGAGGTGGAG
1 GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
* * **
59968241 GTGGTGGTGATCCCCGT-GGTGGTGGAGGTGGAG
1 GTGGT-G-G-TCTCCTTAGGTGACGGAGGTGGAG
* * *
59968274 GTGGTGGTGT-CTTTGGTGACGGAGGTGGGG
1 GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
*
59968304 GTGGTGGTC-CCCTAGGTGACGGAGGTGGAG
1 GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
*
59968334 GTGGTGGTGTCCTT-GGTGACGGAGGTGGAG
1 GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
*
59968364 GTGGTGGT-TCCCGT-GGTGACGGAGGTGGAG
1 GTGGTGGTCT-CCTTAGGTGACGGAGGTGGAG
*
59968394 GTGGTGGTC-CCCTAGGTGACGGAGGTGGAG
1 GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
59968424 GTGGTGGT
1 GTGGTGGT
59968432 GATCCACGTG
Statistics
Matches: 309, Mismatches: 19, Indels: 62
0.79 0.05 0.16
Matches are distributed among these distances:
29 9 0.03
30 192 0.62
31 6 0.02
32 3 0.01
33 26 0.08
34 5 0.02
35 1 0.00
36 46 0.15
37 1 0.00
38 3 0.01
39 5 0.02
40 1 0.00
42 11 0.04
ACGTcount: A:0.12, C:0.12, G:0.52, T:0.25
Consensus pattern (31 bp):
GTGGTGGTCTCCTTAGGTGACGGAGGTGGAG
Found at i:59968148 original size:66 final size:64
Alignment explanation
Indices: 59968069--59968459 Score: 441
Period size: 66 Copynumber: 6.2 Consensus size: 64
59968059 TGACGGAGGT
** * * *
59968069 GGAGGTGGAGGTGGTTCTCTCTTAGGTGACGGAGGTAGAGGTGGAGGTGGTGGTCTCTTAGGTGA
1 GGAGGTGGAGGTGGTGGTCTCTTAGGTGACGGAGGTGGAGGTGG-GGTGGTGGTCCCGT-GGTGA
59968134 C
64 C
* *
59968135 GGAGGTGGAGGTGGTGGTCTCCTAGGTGACGGAGGTGGAGGTGGAGGTGGTGGTCTCCTTGGTGA
1 GGAGGTGGAGGTGGTGGTCTCTTAGGTGACGGAGGTGGAGGTGG-GGTGGTGGTC-CCGTGGTGA
59968200 C
64 C
* **
59968201 GGAGGTGGAGGTGGTGGTCTCTTAGGTGACGGAGGTGGAGGT--GGTGGTGATCCCCGTGGTGGT
1 GGAGGTGGAGGTGGTGGTCTCTTAGGTGACGGAGGTGGAGGTGGGGTGGTGGT-CCCGTGGTGAC
* * *
59968264 GGAGGTGGAGGTGGTGGTGTCTTTGGTGACGGAGGT----G-GGGGTGGTGGTCCCCTAGGTGAC
1 GGAGGTGGAGGTGGTGGTCTCTTAGGTGACGGAGGTGGAGGTGGGGTGGTGGTCCCGT-GGTGAC
*
59968324 GGAGGTGGAGGTGGTGGTGTCCTT-GGTGACGGAGGTGGAGGT--GGTGGT--TCCCGTGGTGAC
1 GGAGGTGGAGGTGGTGGTCT-CTTAGGTGACGGAGGTGGAGGTGGGGTGGTGGTCCCGTGGTGAC
* * * *
59968384 GGAGGTGGAGGTGGTGGTCCCCTAGGTGACGGAGGTGGAGGT--GGTGGTGATCCACGTGGTGAT
1 GGAGGTGGAGGTGGTGGTCTCTTAGGTGACGGAGGTGGAGGTGGGGTGGTGGTCC-CGTGGTGAC
*
59968447 GGAGGTGGTGGTG
1 GGAGGTGGAGGTG
59968460 ATCCACGTGG
Statistics
Matches: 288, Mismatches: 22, Indels: 33
0.84 0.06 0.10
Matches are distributed among these distances:
59 7 0.02
60 92 0.32
61 8 0.03
62 3 0.01
63 75 0.26
64 2 0.01
66 98 0.34
67 3 0.01
ACGTcount: A:0.12, C:0.11, G:0.52, T:0.25
Consensus pattern (64 bp):
GGAGGTGGAGGTGGTGGTCTCTTAGGTGACGGAGGTGGAGGTGGGGTGGTGGTCCCGTGGTGAC
Found at i:59968494 original size:24 final size:27
Alignment explanation
Indices: 59968419--59968510 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
59968409 GTGACGGAGG
59968419 TGGAGGTGGTGGTGATCCACGTGGTGA
1 TGGAGGTGGTGGTGATCCACGTGGTGA
59968446 TGGAGGTGGTGGTGATCCACGTGGTGA
1 TGGAGGTGGTGGTGATCCACGTGGTGA
*
59968473 TGGAGGTGGTGGTG-T-C-CTTGGTGA
1 TGGAGGTGGTGGTGATCCACGTGGTGA
*
59968497 TGGAGGTGGAGGTG
1 TGGAGGTGGTGGTG
59968511 GTGGTGGTGG
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
24 20 0.32
25 1 0.02
26 1 0.02
27 41 0.65
ACGTcount: A:0.13, C:0.09, G:0.51, T:0.27
Consensus pattern (27 bp):
TGGAGGTGGTGGTGATCCACGTGGTGA
Found at i:59968516 original size:30 final size:30
Alignment explanation
Indices: 59968106--59968516 Score: 398
Period size: 30 Copynumber: 13.6 Consensus size: 30
59968096 GACGGAGGTA
*
59968106 GAGGTGGAGGTGGTGGTCT-CTTAGGTGACG
1 GAGGTGGAGGTGGTGGTGTCCTT-GGTGACG
* *
59968136 GAGGTGGAGGTGGTGGTCTCCTAGGTGACG
1 GAGGTGGAGGTGGTGGTGTCCTTGGTGACG
59968166 GAGGTGGAGGTGGAGGTGGTGGTCTCCTTGGTGACG
1 GAGGTGGAGGT---GGTGGT-G--TCCTTGGTGACG
*
59968202 GAGGTGGAGGTGGTGGTCT-CTTAGGTGACG
1 GAGGTGGAGGTGGTGGTGTCCTT-GGTGACG
* **
59968232 GAGGTGGAGGTGGTGGTGATCCCCGTGGTGGTG
1 GAGGTGGAGGTGGTGGTG-T--CCTTGGTGACG
*
59968265 GAGGTGGAGGTGGTGGTGTCTTTGGTGACG
1 GAGGTGGAGGTGGTGGTGTCCTTGGTGACG
* ** *
59968295 GAGGTGGGGGTGGTGGTCCCCTAGGTGACG
1 GAGGTGGAGGTGGTGGTGTCCTTGGTGACG
59968325 GAGGTGGAGGTGGTGGTGTCCTTGGTGACG
1 GAGGTGGAGGTGGTGGTGTCCTTGGTGACG
*
59968355 GAGGTGGAGGTGGTGGT-TCCCGTGGTGACG
1 GAGGTGGAGGTGGTGGTGT-CCTTGGTGACG
** *
59968385 GAGGTGGAGGTGGTGGTCCCCTAGGTGACG
1 GAGGTGGAGGTGGTGGTGTCCTTGGTGACG
**
59968415 GAGGTGGAGGTGGTGGTGATCC-ACGTG--G
1 GAGGTGGAGGTGGTGGTG-TCCTTGGTGACG
**
59968443 TGA--TGGAGGTGGTGGTGATCC-ACGTG--G
1 -GAGGTGGAGGTGGTGGTG-TCCTTGGTGACG
*
59968470 TGA--TGGAGGTGGTGGTGTCCTTGGTGATG
1 -GAGGTGGAGGTGGTGGTGTCCTTGGTGACG
59968499 GAGGTGGAGGTGGTGGTG
1 GAGGTGGAGGTGGTGGTG
59968517 GTGGAGATCT
Statistics
Matches: 330, Mismatches: 30, Indels: 42
0.82 0.07 0.10
Matches are distributed among these distances:
26 3 0.01
27 44 0.13
28 3 0.01
29 7 0.02
30 208 0.63
31 5 0.02
32 1 0.00
33 35 0.11
34 2 0.01
36 22 0.07
ACGTcount: A:0.12, C:0.11, G:0.52, T:0.25
Consensus pattern (30 bp):
GAGGTGGAGGTGGTGGTGTCCTTGGTGACG
Found at i:59969437 original size:19 final size:22
Alignment explanation
Indices: 59969410--59969452 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
59969400 CGTTTGTTTC
59969410 AATGAAAAT-AGTTTTT-GAAA
1 AATGAAAATGAGTTTTTGGAAA
*
59969430 AATG-AAATGATTTTTTGGAAA
1 AATGAAAATGAGTTTTTGGAAA
59969451 AA
1 AA
59969453 AAATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (22 bp):
AATGAAAATGAGTTTTTGGAAA
Found at i:59970941 original size:3 final size:3
Alignment explanation
Indices: 59970933--59970974 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
59970923 ATTCATTCAT
59970933 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59970975 GGATTGAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:59972727 original size:5 final size:5
Alignment explanation
Indices: 59972717--59972757 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
59972707 CTGTAGTTAC
59972717 TATTT TATTTT TAATTT TA-TT TATTT TA-TT TATTT TATTT T
1 TATTT TA-TTT T-ATTT TATTT TATTT TATTT TATTT TATTT T
59972758 TTCCTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
4 8 0.25
5 15 0.47
6 8 0.25
7 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:59972744 original size:9 final size:9
Alignment explanation
Indices: 59972730--59972756 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
59972720 TTTATTTTTA
59972730 ATTTTATTT
1 ATTTTATTT
59972739 ATTTTATTT
1 ATTTTATTT
59972748 ATTTTATTT
1 ATTTTATTT
59972757 TTTCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
ATTTTATTT
Found at i:59974085 original size:169 final size:169
Alignment explanation
Indices: 59973861--59974171 Score: 507
Period size: 169 Copynumber: 1.8 Consensus size: 169
59973851 TTTCTAGTCC
* * * * *
59973861 AGTCGATTTTGTTGTCTTTTGAATGCTTGCCGGCTCTTCATATTTGAATAATATCGATTTGTGCT
1 AGTCGATATTGTTATCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
59973926 CACGAAGCTGCGCTTAGAAAAGTAGTAGCTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTA
66 CACGAAGCTGCGCTTAGAAAAGTAGTAGCTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTA
59973991 ATGTC-TACGTTTCCTTTTTTTAAATGATCCGTCACCGCA
131 ATG-CGTACGTTTCCTTTTTTTAAATGATCCGTCACCGCA
59974030 AGTCGATATTGTTATCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
1 AGTCGATATTGTTATCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
* * * * * *
59974095 CACGAAGGTTCGCTTAGAAAATTTGTAGTTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTG
66 CACGAAGCTGCGCTTAGAAAAGTAGTAGCTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTA
59974160 ATGCGTACGTTT
131 ATGCGTACGTTT
59974172 TGATTTCTCT
Statistics
Matches: 130, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
168 1 0.01
169 129 0.99
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (169 bp):
AGTCGATATTGTTATCTTTTGAATGCTTGCCGGCTCTTCAGATTCGAACAATATCGATTTGTGCT
CACGAAGCTGCGCTTAGAAAAGTAGTAGCTTATTTTTAGTTGTAAATTCAGCTTTTGAATTACTA
ATGCGTACGTTTCCTTTTTTTAAATGATCCGTCACCGCA
Found at i:59974330 original size:188 final size:187
Alignment explanation
Indices: 59974000--59974603 Score: 757
Period size: 188 Copynumber: 3.1 Consensus size: 187
59973990 AATGTCTACG
*
59974000 TTTCCTT-TTTTTAAATGATCCGTCACCGCAAGTCGATATTGTTATCTTTTGAATGCTTGCCGGC
1 TTTCCTTCTTTTT-AATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCCGGC
* * *
59974064 TCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGGTTCGCTTAGAAAATTTGTAGTTTATT
65 TCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAAAGTTGTAGTTTATT
* *
59974129 TTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTTTGATTTCTCTGTTTT
130 TTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTCTAATTTCTCTGTTTT
* * *
59974187 TTTCCTTCCTTTTTAATGATCCATCACCGCAAGTCGATATTGTCGTCTTTTGAATGCTTACCGGC
1 TTTCCTT-CTTTTTAATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCCGGC
*
59974252 TCTTCAGATTCGAAGAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAATA-TTGTAGTTTAT
65 TCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAA-AGTTGTAGTTTAT
* * *
59974316 TTTTACTTGTAAATTCAGCTTTTGCATTACTGATGTGTACGTTCTAATTTCTCTATTCTTTTTTG
129 TTTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTCTAA-TT-TC---TC-----TG
59974381 AAATATTT
184 ---T-TTT
*
59974389 TTTCTTTTTTCTTTTTTAATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCC
1 TTTC---CTTC-TTTTTAATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCC
* * *
59974454 GGCTCTTCAGATTCGAACAATACCGATTTGTGCTCACGAAACTGCGCCTCA-AAAAGTTGTAGTT
62 GGCTCTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGCTGCG-CTTAGAAAAGTTGTAGTT
* * *
59974518 TA-TTTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTGCGTTGTAATTTCTCAGTTTAT
126 TATTTTTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTCTAATTTCTCTGTTT-T
** *
59974580 TATTATTTTTTTTTAATGATCCGT
1 T-TTCCTTCTTTTTAATGATCCGT
59974604 TGCCATATTG
Statistics
Matches: 364, Mismatches: 28, Indels: 49
0.83 0.06 0.11
Matches are distributed among these distances:
187 7 0.02
188 163 0.45
189 11 0.03
190 4 0.01
191 3 0.01
192 2 0.01
193 2 0.01
194 1 0.00
198 2 0.01
199 2 0.01
201 1 0.00
202 9 0.02
203 2 0.01
204 44 0.12
205 108 0.30
206 3 0.01
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (187 bp):
TTTCCTTCTTTTTAATGATCCGTCACCGCAAGTCGATATTGTTGTCTTTTGAATGCTTGCCGGCT
CTTCAGATTCGAACAATATCGATTTGTGCTCACGAAGCTGCGCTTAGAAAAGTTGTAGTTTATTT
TTAGTTGTAAATTCAGCTTTTGAATTACTGATGCGTACGTTCTAATTTCTCTGTTTT
Found at i:59979640 original size:4 final size:4
Alignment explanation
Indices: 59979631--59979668 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
59979621 TATTCCTTAG
59979631 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
59979669 TATATACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:59980802 original size:14 final size:13
Alignment explanation
Indices: 59980779--59980813 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
59980769 TATTTAAGAT
*
59980779 AAATTCAAATTTCA
1 AAATTTAAATTT-A
59980793 AAATTTAAATTTA
1 AAATTTAAATTTA
59980806 AAATTTAA
1 AAATTTAA
59980814 CACTCAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTTAAATTTA
Found at i:59995836 original size:24 final size:25
Alignment explanation
Indices: 59995809--59995856 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
59995799 CAGGTAACTC
*
59995809 CGAAGAGCTAT-TATCAGGAAGTTT
1 CGAAGAGCCATATATCAGGAAGTTT
*
59995833 CGAATAGCCATATATCAGGAAGTT
1 CGAAGAGCCATATATCAGGAAGTT
59995857 CAAGCGAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (25 bp):
CGAAGAGCCATATATCAGGAAGTTT
Found at i:59996009 original size:64 final size:63
Alignment explanation
Indices: 59995892--59996014 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 63
59995882 TTAAGAACCT
* * *
59995892 TATATCAGGACGCTCATAAAGAGCTGCGGTATGTCCGCAATATATGCAAGATCAATACCAATCA
1 TATAACAGGACGCTCACAAAGAGCTGCGGTATGTCCGCAACATAT-CAAGATCAATACCAATCA
*
59995956 TATAACAGGACGCTCACAAAGAGCTGCGGTATGTCCGCAACACGTAT-AGGATCAATACC
1 TATAACAGGACGCTCACAAAGAGCTGCGGTATGTCCGCAACA--TATCAAGATCAATACC
59996015 GATGAGGATG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
64 50 0.94
66 3 0.06
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (63 bp):
TATAACAGGACGCTCACAAAGAGCTGCGGTATGTCCGCAACATATCAAGATCAATACCAATCA
Found at i:60000173 original size:36 final size:36
Alignment explanation
Indices: 60000133--60000417 Score: 306
Period size: 36 Copynumber: 7.9 Consensus size: 36
60000123 GCGCCTCCCC
* *
60000133 CACCTCCAATTAACCAACCTTTACCTCCACCTCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTGT
* *
60000169 CACCTCCAATGAACCAACCATT-ACCTCCACCTTTCT
1 CACCTCCAATGAACCAACC-TTCACCTCCACCTCTGT
* *
60000205 CACCTCCAATGAACCAACCTTCACTTCCACC-CTTGC
1 CACCTCCAATGAACCAACCTTCACCTCCACCTC-TGT
* * *
60000241 CACCTCCAATCAACCAACCTTCACCTCCACCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTGT
* * * *
60000277 CACCACCAATGAACGAACCATCACCTCCACCCCTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTGT
* * *
60000313 CACCTCCAATGAACCAACCTTCACCTCCATCTTTCT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTCTGT
* * * *
60000349 CACCACCAATGAATCAACCATCACCTTCACC-CTTGT
1 CACCTCCAATGAACCAACCTTCACCTCCACCTC-TGT
* * * *
60000385 CACCTCCAATGAAACAACATTCACATCGACCTC
1 CACCTCCAATGAACCAACCTTCACCTCCACCTC
60000418 CACCTTCATC
Statistics
Matches: 203, Mismatches: 40, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
35 2 0.01
36 198 0.98
37 3 0.01
ACGTcount: A:0.28, C:0.45, G:0.04, T:0.23
Consensus pattern (36 bp):
CACCTCCAATGAACCAACCTTCACCTCCACCTCTGT
Found at i:60000220 original size:72 final size:72
Alignment explanation
Indices: 60000133--60000408 Score: 376
Period size: 72 Copynumber: 3.8 Consensus size: 72
60000123 GCGCCTCCCC
* * * *
60000133 CACCTCCAATTAACCAACCTTTACCTCCA-CCTCTGTCACCTCCAATGAACCAACCATT-ACCTC
1 CACCACCAATGAACCAACCATCACCTCCACCCT-TGTCACCTCCAATGAACCAACC-TTCACCTC
60000196 CACCTTTCT
64 CACCTTTCT
* * * * *
60000205 CACCTCCAATGAACCAACCTTCACTTCCACCCTTGCCACCTCCAATCAACCAACCTTCACCTCCA
1 CACCACCAATGAACCAACCATCACCTCCACCCTTGTCACCTCCAATGAACCAACCTTCACCTCCA
60000270 CCTTTCT
66 CCTTTCT
* *
60000277 CACCACCAATGAACGAACCATCACCTCCACCCCTGTCACCTCCAATGAACCAACCTTCACCTCCA
1 CACCACCAATGAACCAACCATCACCTCCACCCTTGTCACCTCCAATGAACCAACCTTCACCTCCA
*
60000342 TCTTTCT
66 CCTTTCT
* * * *
60000349 CACCACCAATGAATCAACCATCACCTTCACCCTTGTCACCTCCAATGAAACAACATTCAC
1 CACCACCAATGAACCAACCATCACCTCCACCCTTGTCACCTCCAATGAACCAACCTTCAC
60000409 ATCGACCTCC
Statistics
Matches: 183, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
71 2 0.01
72 178 0.97
73 3 0.02
ACGTcount: A:0.28, C:0.45, G:0.04, T:0.23
Consensus pattern (72 bp):
CACCACCAATGAACCAACCATCACCTCCACCCTTGTCACCTCCAATGAACCAACCTTCACCTCCA
CCTTTCT
Found at i:60000267 original size:108 final size:107
Alignment explanation
Indices: 60000132--60000402 Score: 337
Period size: 108 Copynumber: 2.5 Consensus size: 107
60000122 GGCGCCTCCC
* * *
60000132 CCACCTCCAATTAACCAACCTTTACCTCCACCTCTGTCACCTCCAATGAACCAACCATTACCTCC
1 CCACCTCCAATCAACCAACCTTCACCTCCACCTCTGTCACCTCCAATGAACCAACCATCACCTCC
** *
60000197 ACCTTTCTCACCTCCAATGAACCAACCTTCACTTCCACCCTTG
66 ACCCCTCTCACCTCCAATGAACCAACCTTCACCTCCA-CCTTG
* * * *
60000240 CCACCTCCAATCAACCAACCTTCACCTCCACCTTTCTCACCACCAATGAACGAACCATCACCTCC
1 CCACCTCCAATCAACCAACCTTCACCTCCACCTCTGTCACCTCCAATGAACCAACCATCACCTCC
* * *
60000305 ACCCCTGTCACCTCCAATGAACCAACCTTCACCTCCATCTTT
66 ACCCCTCTCACCTCCAATGAACCAACCTTCACCTCCACCTTG
* * * * * *
60000347 CTCACCACCAATGAATCAACCATCACCTTCACC-CTTGTCACCTCCAATGAAACAAC
1 C-CACCTCCAATCAACCAACCTTCACCTCCACCTC-TGTCACCTCCAATGAACCAAC
60000403 ATTCACATCG
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
107 4 0.03
108 134 0.97
ACGTcount: A:0.28, C:0.45, G:0.04, T:0.23
Consensus pattern (107 bp):
CCACCTCCAATCAACCAACCTTCACCTCCACCTCTGTCACCTCCAATGAACCAACCATCACCTCC
ACCCCTCTCACCTCCAATGAACCAACCTTCACCTCCACCTTG
Found at i:60000480 original size:45 final size:45
Alignment explanation
Indices: 60000413--60000550 Score: 222
Period size: 45 Copynumber: 3.1 Consensus size: 45
60000403 ATTCACATCG
* *
60000413 ACCTCCACCTTCATCTCTATCACCAAGGAGGACACCACCACCACC
1 ACCTCCACCTTCAACTCCATCACCAAGGAGGACACCACCACCACC
*
60000458 GCCTCCACCTTCAACTCCATCACCAAGGAGGACACCACCACCACC
1 ACCTCCACCTTCAACTCCATCACCAAGGAGGACACCACCACCACC
* * *
60000503 ACCTCCACCTTCAGCTCCATTACCAAGGAGGACACCACCACCTCC
1 ACCTCCACCTTCAACTCCATCACCAAGGAGGACACCACCACCACC
60000548 ACC
1 ACC
60000551 ACCAAGGACG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 86 1.00
ACGTcount: A:0.28, C:0.48, G:0.10, T:0.14
Consensus pattern (45 bp):
ACCTCCACCTTCAACTCCATCACCAAGGAGGACACCACCACCACC
Found at i:60001714 original size:21 final size:21
Alignment explanation
Indices: 60001673--60001715 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
60001663 TTTTTTTAAC
* *
60001673 TTTGAATTCTTCTTAAGTTTT
1 TTTGAATACTTCTTAAATTTT
60001694 TTTGAATAC-TCTTATAATTTT
1 TTTGAATACTTCTTA-AATTTT
60001715 T
1 T
60001716 AAATTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTGAATACTTCTTAAATTTT
Found at i:60002109 original size:3 final size:3
Alignment explanation
Indices: 60002103--60002128 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60002093 TGTATGTAAT
60002103 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
60002129 AAGCAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:60012376 original size:32 final size:33
Alignment explanation
Indices: 60012325--60012498 Score: 208
Period size: 32 Copynumber: 5.2 Consensus size: 33
60012315 CAGGTCCAAA
*
60012325 AAGAAATAATACATGAACAGGAGAGATTCCCTGC
1 AAGAAATAAT-CGTGAACAGGAGAGATTCCCTGC
*
60012359 AAGAAATGAT-GTGAACAGGAGAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
*
60012391 AACAAAATAATCCGTGAACAGGAGAGATTCCCTGC
1 AA-GAAATAAT-CGTGAACAGGAGAGATTCCCTGC
* *
60012426 AAGAAATGAT-GTGAACAGGAAAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
* * * *
60012458 AACAGAATAATGCGTGAACAGGAAATATTCCCTGA
1 AAGA-AATAAT-CGTGAACAGGAGAGATTCCCTGC
60012493 AAGAAA
1 AAGAAA
60012499 AGACAAGTGA
Statistics
Matches: 122, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
32 47 0.39
33 11 0.09
34 17 0.14
35 47 0.39
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (33 bp):
AAGAAATAATCGTGAACAGGAGAGATTCCCTGC
Found at i:60012436 original size:67 final size:67
Alignment explanation
Indices: 60012328--60012498 Score: 270
Period size: 67 Copynumber: 2.6 Consensus size: 67
60012318 GTCCAAAAAG
* *
60012328 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
60012393 CA
66 CA
*
60012395 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
60012460 CA
66 CA
* * * * *
60012462 GAATAATGCGTGAACAGGAAATATTCCCTGAAAGAAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAA
60012499 AGACAAGTGA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 96 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (67 bp):
AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
CA
Found at i:60012493 original size:18 final size:18
Alignment explanation
Indices: 60012437--60012493 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
60012427 AGAAATGATG
*
60012437 TGAACAGGAAAGATTCCC
1 TGAACAGGAAATATTCCC
* * *
60012455 TGCAACA-G-AATAATGCG
1 TG-AACAGGAAATATTCCC
60012472 TGAACAGGAAATATTCCC
1 TGAACAGGAAATATTCCC
60012490 TGAA
1 TGAA
60012494 AGAAAAGACA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
16 4 0.14
17 8 0.28
18 13 0.45
19 4 0.14
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (18 bp):
TGAACAGGAAATATTCCC
Found at i:60016266 original size:370 final size:370
Alignment explanation
Indices: 60015580--60016696 Score: 2175
Period size: 370 Copynumber: 3.0 Consensus size: 370
60015570 TACCAGGAAG
60015580 TCTTG-AGGATCTGAGGACCGGATTGATAATGATATATTTTTAAGAAAATAGTTTAAGTTTGAAA
1 TCTTGCAGGATCTGAGGACCGGATTGATAATGATATATTTTTAAGAAAATAGTTTAAGTTTGAAA
60015644 ACTTAATTTTGTAAATGCAATTTGAGAAAATATTATTTAATTTGAAATTTTGGAAACTTAAAATG
66 ACTTAATTTTGTAAATGCAATTTGAGAAAATATTATTTAATTTGAAATTTTGGAAACTTAAAATG
60015709 AAACTTTGTTAATGCGAAAGTTTTGAAAAACTTTGAGAAACTTTTGGGAGAAACAACTCAAATGG
131 AAACTTTGTTAATGCGAAAGTTTTGAAAAACTTTGAGAAACTTTTGGGAGAAACAACTCAAATGG
60015774 GTAAAATCGAGTTCTACCTTCCATTCACAAACTGATAGCCTTTTATAGAGGGCTATTCTCTCCTT
196 GTAAAATCGAGTTCTACCTTCCATTCACAAACTGATAGCCTTTTATAGAGGGCTATTCTCTCCTT
60015839 ACATCATCTAAATCGTTTAATCATTACATTTGAAACTTTTGAAAATAAATTTTCAGAGAATATAT
261 ACATCATCTAAATCGTTTAATCATTACATTTGAAACTTTTGAAAATAAATTTTCAGAGAATATAT
60015904 TCTCTGGTTACAAAATACAAATTACATAACTATTCACTTGTCTTT
326 TCTCTGGTTACAAAATACAAATTACATAACTATTCACTTGTCTTT
*
60015949 TCTTGCAGGATCTGAGGACCGGATTGATAATGATATATTTTTAAGAAAATAGTTTAAGCTTGAAA
1 TCTTGCAGGATCTGAGGACCGGATTGATAATGATATATTTTTAAGAAAATAGTTTAAGTTTGAAA
* *
60016014 ACTTAATTTTGTAAATTCAATTTGAGAAAATATTATTTAATTTGAAATTTTGGAAACTTAAAGTG
66 ACTTAATTTTGTAAATGCAATTTGAGAAAATATTATTTAATTTGAAATTTTGGAAACTTAAAATG
60016079 AAACTTTGTTAATGCGAAAGTTTTGAAAAACTTTGAGAAACTTTTGGGAGAAACAACTCAAATGG
131 AAACTTTGTTAATGCGAAAGTTTTGAAAAACTTTGAGAAACTTTTGGGAGAAACAACTCAAATGG
* *
60016144 GTAAAATCGAGTTCTGCCTTCCATTCACAAACTAATAGCCTTTTATAGAGGGCTATTCTCTCCTT
196 GTAAAATCGAGTTCTACCTTCCATTCACAAACTGATAGCCTTTTATAGAGGGCTATTCTCTCCTT
60016209 ACATCATCTAAATCGTTTAATCATTACATTTGAAACTTTTGAAAATAAATTTTCAGAGAATATAT
261 ACATCATCTAAATCGTTTAATCATTACATTTGAAACTTTTGAAAATAAATTTTCAGAGAATATAT
60016274 TCTCTGGTTACAAAATACAAATTACATAACTATTCACTTGTCTTT
326 TCTCTGGTTACAAAATACAAATTACATAACTATTCACTTGTCTTT
60016319 TCTTGCAGGATCTGAGGACCGGATTGATAATGATATATTTTTAAGAAAATAGTTTAAGTTTGAAA
1 TCTTGCAGGATCTGAGGACCGGATTGATAATGATATATTTTTAAGAAAATAGTTTAAGTTTGAAA
60016384 ACTTAATTTTGTAAATGCAATTTGAGAAAATATTATTTAATTTGAAATTTTGGAAACTTAAAATG
66 ACTTAATTTTGTAAATGCAATTTGAGAAAATATTATTTAATTTGAAATTTTGGAAACTTAAAATG
60016449 AAACTTTGTTAATGCGAAAGTTTTGAAAAACTTTGAGAAACTTTTGGGAGAAACAACTCAAATGG
131 AAACTTTGTTAATGCGAAAGTTTTGAAAAACTTTGAGAAACTTTTGGGAGAAACAACTCAAATGG
60016514 GTAAAATCGAGTTCTACCTTCCATTCACAAACTGATAGCCTTTTATAGAGGGCTATTCTCTCCTT
196 GTAAAATCGAGTTCTACCTTCCATTCACAAACTGATAGCCTTTTATAGAGGGCTATTCTCTCCTT
60016579 ACATCATCTAAATCGTTTAATCATTACATTTGAAACTTTTGAAAATAAATTTTCAGAGAATATAT
261 ACATCATCTAAATCGTTTAATCATTACATTTGAAACTTTTGAAAATAAATTTTCAGAGAATATAT
60016644 TCT-TGGTTACAAAATACAAATTACATAACTATTCACTTGTCTTT
326 TCTCTGGTTACAAAATACAAATTACATAACTATTCACTTGTCTTT
60016688 TCTTGCAGG
1 TCTTGCAGG
60016697 GAATATTTCC
Statistics
Matches: 737, Mismatches: 10, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
369 55 0.07
370 682 0.93
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (370 bp):
TCTTGCAGGATCTGAGGACCGGATTGATAATGATATATTTTTAAGAAAATAGTTTAAGTTTGAAA
ACTTAATTTTGTAAATGCAATTTGAGAAAATATTATTTAATTTGAAATTTTGGAAACTTAAAATG
AAACTTTGTTAATGCGAAAGTTTTGAAAAACTTTGAGAAACTTTTGGGAGAAACAACTCAAATGG
GTAAAATCGAGTTCTACCTTCCATTCACAAACTGATAGCCTTTTATAGAGGGCTATTCTCTCCTT
ACATCATCTAAATCGTTTAATCATTACATTTGAAACTTTTGAAAATAAATTTTCAGAGAATATAT
TCTCTGGTTACAAAATACAAATTACATAACTATTCACTTGTCTTT
Found at i:60016775 original size:32 final size:33
Alignment explanation
Indices: 60016686--60016846 Score: 200
Period size: 32 Copynumber: 4.8 Consensus size: 33
60016676 TCACTTGTCT
* * *
60016686 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCAC-CATCA
* * *
60016720 TTCTGTTGTAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCACCATCA
*
60016753 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCAC-CATCA
*
60016787 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACCATCA
60016820 TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA
60016847 TGTATTATTT
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
32 48 0.43
33 10 0.09
34 6 0.05
35 48 0.43
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACCATCA
Found at i:60016794 original size:67 final size:67
Alignment explanation
Indices: 60016686--60016856 Score: 279
Period size: 67 Copynumber: 2.6 Consensus size: 67
60016676 TCACTTGTCT
* * * * *
60016686 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGTAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
60016751 CA
66 CA
60016753 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
60016818 CA
66 CA
* *
60016820 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
60016857 CTTTTTGGAC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 97 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:60019691 original size:20 final size:22
Alignment explanation
Indices: 60019654--60019697 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
60019644 GAGCAAATTG
60019654 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
60019675 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
60019696 TT
1 TT
60019698 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:60026577 original size:105 final size:105
Alignment explanation
Indices: 60026395--60026605 Score: 422
Period size: 105 Copynumber: 2.0 Consensus size: 105
60026385 TCTAACTCTT
60026395 CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
1 CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
60026460 ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
66 ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
60026500 CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
1 CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
60026565 ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
66 ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
60026605 C
1 C
60026606 TTTCTCACTT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (105 bp):
CAGGAGTCCATGGATGTTTCTCATCCCTCTCTAAAAGAACATGAGCTCGATGGTATACGCTCCCA
ACTGGCCTCCAAGGAATGCTGCTTGAATTTCCTTCCAACA
Found at i:60027719 original size:22 final size:22
Alignment explanation
Indices: 60027693--60027737 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
60027683 TTCAGCAAAG
60027693 TTTCCATCTTCAGTCTGTTTGT
1 TTTCCATCTTCAGTCTGTTTGT
60027715 TTTCCATCTTCAGTCTGTTTGT
1 TTTCCATCTTCAGTCTGTTTGT
60027737 T
1 T
60027738 CTCGCTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.09, C:0.22, G:0.13, T:0.56
Consensus pattern (22 bp):
TTTCCATCTTCAGTCTGTTTGT
Found at i:60031182 original size:231 final size:230
Alignment explanation
Indices: 60030561--60031249 Score: 825
Period size: 231 Copynumber: 3.0 Consensus size: 230
60030551 GGCTCTTGCA
* * * * *
60030561 TTTTACTATGTACAAAGGTTTCAGTCACAGTAGCAACTGCATCAAT-TCCGTCCTTATTCTTCCT
1 TTTTACTATGTTCAAGGGTTTCAGTCACAGTAGCAACTGCAT-TATCT-CATCCTTGTTC-T--T
* * * * *
60030625 CTTGTGTTTATCTTCCCTAA-CCTTTTCTGCTTCCCCATTGTTCCCCAAATTCACCACCTTACTA
61 CTTGTGTTTATCTTTCCTAACCCTTTT-TGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTA
* *
60030689 CTTTCTTTTTCTGCATTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATC
125 CTTTCTTGTTCTGCGTTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATC
60030754 TTTACTTTTCTTATGC---------GCCTT-TGGAGATTCCT
190 TTTACTTTTCTTATGCTTTTTATGAGCCTTCT-GAGATTCCT
* * * *
60030786 TTTTACTATGTTCAAGGGTTCCGGTCACAGTACCAACTGCATTAGTCCCATCCTTG-TC--CTTG
1 TTTTACTATGTTCAAGGGTTTCAGTCACAGTAGCAACTGCATTA-TCTCATCCTTGTTCTTCTTG
** *
60030848 TGTTTATCTTTCCCGACCCTTTTTGCTTCCCCGTTGTTCTCCAAGTTCATCACCTTGCTACTTTC
65 TGTTTATCTTTCCTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACTTTC
* * ** * *
60030913 TTGTTCTGTGTTCTTTTTTCCACCTTTACAACTTTCCATTGAAATCTCTTTAACCT-CATCTTTA
130 TTGTTCTGCGTTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAA-CTACATCTTTA
*
60030977 CTTTTCTTATGCTTTTTATGAGCCTTCTTAGATTCCT
194 CTTTTCTTATGCTTTTTATGAGCCTTCTGAGATTCCT
** * *
60031014 TTTTACTATGTTTGAGGGTTTCAGTCACAGTAGCAACTGCATTGATCTCATCCCTGTTCTTCTTA
1 TTTTACTATGTTCAAGGGTTTCAGTCACAGTAGCAACTGCATT-ATCTCATCCTTGTTCTTCTTG
* * *
60031079 TGTTTGTCTTTCTTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCGCCTTGCTACTTTC
65 TGTTTATCTTTCCTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACTTTC
* * *
60031144 TTGTTCTGCGTTCTCTTTTCCACCCAAACAAGTTTCCATTGGAATCTCTTCAACTGCATCTTTAC
130 TTGTTCTGCGTTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATCTTTAC
* **
60031209 TTGTCTTATGCTTTTTATGAGTGTTCTGAGATTCCT
195 TTTTCTTATGCTTTTTATGAGCCTTCTGAGATTCCT
60031245 TTTTA
1 TTTTA
60031250 TCTGTATCAA
Statistics
Matches: 393, Mismatches: 52, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
219 119 0.30
220 8 0.02
224 3 0.01
225 44 0.11
228 60 0.15
229 4 0.01
230 2 0.01
231 153 0.39
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.44
Consensus pattern (230 bp):
TTTTACTATGTTCAAGGGTTTCAGTCACAGTAGCAACTGCATTATCTCATCCTTGTTCTTCTTGT
GTTTATCTTTCCTAACCCTTTTTGCTTCCCCATTGTTCTCCAAGTTCATCACCTTGCTACTTTCT
TGTTCTGCGTTCTCTTTTCCACCTAAACAAGTTTCCATTGAAATCTCTTCAACTACATCTTTACT
TTTCTTATGCTTTTTATGAGCCTTCTGAGATTCCT
Found at i:60039079 original size:19 final size:17
Alignment explanation
Indices: 60039057--60039103 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
60039047 TGAAATTATA
60039057 ATATAATAATTAAATTTGC
1 ATATAATAATT-AA-TTGC
*
60039076 ATATAAGAATTAATTGC
1 ATATAATAATTAATTGC
*
60039093 ATAAAATAATT
1 ATATAATAATT
60039104 TGTGGCCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 13 0.52
18 2 0.08
19 10 0.40
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (17 bp):
ATATAATAATTAATTGC
Found at i:60047210 original size:15 final size:15
Alignment explanation
Indices: 60047186--60047216 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60047176 CTGTAAACTT
60047186 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
*
60047201 AAAAAGAAAAAAAAG
1 AAAAAAAAAAAAAAG
60047216 A
1 A
60047217 GAGGAGCTAA
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:60056818 original size:22 final size:22
Alignment explanation
Indices: 60056793--60056839 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
60056783 CAAATTTAAA
60056793 TTTAAATATTTA-TACT-TTTATT
1 TTTAAA-ATTTAGT-CTCTTTATT
*
60056815 TTTAGAATTTAGTCTCTTTATT
1 TTTAAAATTTAGTCTCTTTATT
60056837 TTT
1 TTT
60056840 CTGATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTAAAATTTAGTCTCTTTATT
Found at i:60063814 original size:125 final size:125
Alignment explanation
Indices: 60063587--60063826 Score: 358
Period size: 125 Copynumber: 1.9 Consensus size: 125
60063577 TAATTGAGCT
* * *
60063587 CGAGCTTGAGTAGCTCAATTATATCTTGAACCAAGCTCAAGTTTATAATTAAATGTTCGATCAAG
1 CGAGCTTGAGTAGCTCAATTATATCTTGAACCAAACTCAAATTTAAAATTAAATGTTCGATCAAG
* * * *
60063652 CTCAAGCCAAGTGTCTTTTGCAAATATTAACTTGAGTTCAAGTTCGAGCTTGAATATATA
66 CTCAAGCCAAGTATCTTTTGCAAATATTAAATCGAGTTCAAGTTCAAGCTTGAATATATA
* *
60063712 CGAGCTTGAGTAGCTCAATTATATTTTGAACTAAACTCAAATTTAAAATTAAATGTT-GAATCAA
1 CGAGCTTGAGTAGCTCAATTATATCTTGAACCAAACTCAAATTTAAAATTAAATGTTCG-ATCAA
*
60063776 GCTCAAGCCAAGTATCTTTTGCAAAT-TTCAAATCGAGTTCGAGTTCAAGCT
65 GCTCAAGCCAAGTATCTTTTGCAAATATT-AAATCGAGTTCAAGTTCAAGCT
60063827 CGAACTTAGC
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
124 3 0.03
125 100 0.97
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (125 bp):
CGAGCTTGAGTAGCTCAATTATATCTTGAACCAAACTCAAATTTAAAATTAAATGTTCGATCAAG
CTCAAGCCAAGTATCTTTTGCAAATATTAAATCGAGTTCAAGTTCAAGCTTGAATATATA
Found at i:60073859 original size:21 final size:20
Alignment explanation
Indices: 60073835--60073873 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60073825 TTTGGTCTAT
*
60073835 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
60073856 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
60073874 AATATGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:60076550 original size:13 final size:13
Alignment explanation
Indices: 60076532--60076568 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
60076522 TTGAATGTTT
60076532 ATTAAAATATGTA
1 ATTAAAATATGTA
*
60076545 ATTAAAATACGTA
1 ATTAAAATATGTA
60076558 ATTAAAA-ATGT
1 ATTAAAATATGT
60076569 TTCCATGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (13 bp):
ATTAAAATATGTA
Found at i:60077159 original size:9 final size:9
Alignment explanation
Indices: 60077145--60077234 Score: 69
Period size: 9 Copynumber: 10.0 Consensus size: 9
60077135 AAAAAATCAT
60077145 AATTAAGTA
1 AATTAAGTA
*
60077154 AATTAAATA
1 AATTAAGTA
*
60077163 ACTTACA-TA
1 AATTA-AGTA
*
60077172 AATTAAGTT
1 AATTAAGTA
*
60077181 AATTAAATA
1 AATTAAGTA
*
60077190 ACTTACA-TA
1 AATTA-AGTA
60077199 AATTAAGTA
1 AATTAAGTA
*
60077208 AATTAAATA
1 AATTAAGTA
*
60077217 ACTTACA-TA
1 AATTA-AGTA
60077226 AATTAAGTA
1 AATTAAGTA
60077235 TCTTACATAA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
8 3 0.05
9 58 0.91
10 3 0.05
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (9 bp):
AATTAAGTA
Found at i:60077179 original size:27 final size:27
Alignment explanation
Indices: 60077145--60077530 Score: 370
Period size: 27 Copynumber: 14.0 Consensus size: 27
60077135 AAAAAATCAT
60077145 AATTAAGTAAATTAAATAACTTACATA
1 AATTAAGTAAATTAAATAACTTACATA
*
60077172 AATTAAGTTAATTAAATAACTTACATA
1 AATTAAGTAAATTAAATAACTTACATA
60077199 AATTAAGTAAATTAAATAACTTACATA
1 AATTAAGTAAATTAAATAACTTACATA
** *
60077226 AATTAAGTATCTTACATAACTTACATA
1 AATTAAGTAAATTAAATAACTTACATA
* ** *
60077253 AATTAAATATCTTACATAACTTACATA
1 AATTAAGTAAATTAAATAACTTACATA
*
60077280 AATTAAGTAAATTAAATAACTTGCATA
1 AATTAAGTAAATTAAATAACTTACATA
* *
60077307 ACTTACA-TAAATTAAATATCTTACATA
1 AATTA-AGTAAATTAAATAACTTACATA
* *
60077334 ATTTACA-TAAATTAAATATCTTACATA
1 AATTA-AGTAAATTAAATAACTTACATA
*
60077361 ACTTACA-TAAATTAAATATCTTACATAACTTACATA
1 AATTA-AGTAAA-T---TA----A-ATAACTTACATA
*
60077397 AATTAAGTAAATTAAATAACTTGCATA
1 AATTAAGTAAATTAAATAACTTACATA
* * *
60077424 ACTTACGTAAATTAAATATCTTACATA
1 AATTAAGTAAATTAAATAACTTACATA
* *
60077451 ATTTACA-TAAATTAAATATCTTACATA
1 AATTA-AGTAAATTAAATAACTTACATA
* * *
60077478 ACTTACA-TAAATTAAATATCTTGCATA
1 AATTA-AGTAAATTAAATAACTTACATA
* *
60077505 ATTTACA-TAAATTAAATATCTTACAT
1 AATTA-AGTAAATTAAATAACTTACAT
60077531 TACTTACATA
Statistics
Matches: 318, Mismatches: 29, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
27 289 0.91
28 3 0.01
31 2 0.01
32 2 0.01
35 3 0.01
36 19 0.06
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.37
Consensus pattern (27 bp):
AATTAAGTAAATTAAATAACTTACATA
Found at i:60077546 original size:117 final size:117
Alignment explanation
Indices: 60077187--60077519 Score: 585
Period size: 117 Copynumber: 2.8 Consensus size: 117
60077177 AGTTAATTAA
* ** * * *
60077187 ATAACTTACATAAATTAAGTAAATTAAATAACTTACATAAATTAAGTATCTTACATAACTTACAT
1 ATAACTTACATAAATTAAATATCTTACATAATTTACATAAATTAAATATCTTACATAACTTACAT
60077252 AAATTAAATATCTTACATAACTTACATAAATTAAGTAAATTAAATAACTTGC
66 AAATTAAATATCTTACATAACTTACATAAATTAAGTAAATTAAATAACTTGC
60077304 ATAACTTACATAAATTAAATATCTTACATAATTTACATAAATTAAATATCTTACATAACTTACAT
1 ATAACTTACATAAATTAAATATCTTACATAATTTACATAAATTAAATATCTTACATAACTTACAT
60077369 AAATTAAATATCTTACATAACTTACATAAATTAAGTAAATTAAATAACTTGC
66 AAATTAAATATCTTACATAACTTACATAAATTAAGTAAATTAAATAACTTGC
*
60077421 ATAACTTACGTAAATTAAATATCTTACATAATTTACATAAATTAAATATCTTACATAACTTACAT
1 ATAACTTACATAAATTAAATATCTTACATAATTTACATAAATTAAATATCTTACATAACTTACAT
* *
60077486 AAATTAAATATCTTGCATAATTTACATAAATTAA
66 AAATTAAATATCTTACATAACTTACATAAATTAA
60077520 ATATCTTACA
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 207 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (117 bp):
ATAACTTACATAAATTAAATATCTTACATAATTTACATAAATTAAATATCTTACATAACTTACAT
AAATTAAATATCTTACATAACTTACATAAATTAAGTAAATTAAATAACTTGC
Found at i:60077575 original size:7 final size:7
Alignment explanation
Indices: 60077563--60077616 Score: 63
Period size: 7 Copynumber: 7.1 Consensus size: 7
60077553 TACATGGGGC
60077563 ATACATA
1 ATACATA
60077570 ATACATA
1 ATACATA
60077577 ATACATA
1 ATACATA
*
60077584 ATACAGA
1 ATACATA
60077591 ACTTACATA
1 A--TACATA
60077600 ACTTACATA
1 A--TACATA
60077609 ATACATA
1 ATACATA
60077616 A
1 A
60077617 AAATATATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 28 0.65
9 15 0.35
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:60082757 original size:39 final size:40
Alignment explanation
Indices: 60082714--60082801 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
60082704 CGAATTATGG
*
60082714 AATACTGAATATTGTCT-TG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGT-TATGCA-TAATGCAGTGAATTGTGAA
*
60082753 AATACTGAATATTGTTATGCATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
*
60082793 ATTACTGAA
1 AATACTGAA
60082802 GTAAAGAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 21 0.49
40 21 0.49
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (40 bp):
AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
Found at i:60083028 original size:38 final size:39
Alignment explanation
Indices: 60082976--60083058 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
60082966 ATTTGCCGGC
* *
60082976 TTACTGATCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTA
* *
60083014 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTA
1 TTACTGA-TCAGGCACTTTATGTGCCGAATACTGTTACTA
60083053 TTACTG
1 TTACTG
60083059 TTACCGACTC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 12 0.31
39 27 0.69
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (39 bp):
TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTA
Found at i:60083057 original size:39 final size:40
Alignment explanation
Indices: 60082976--60083151 Score: 164
Period size: 45 Copynumber: 4.2 Consensus size: 40
60082966 ATTTGCCGGC
* * *
60082976 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
*
60083014 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTA
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
60083053 TTACTG-TTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATT--C-A---GGCACTTTGTGTGTCGAATACTGTTACTG
*
60083098 TTACT-ATTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGATT-CA-G----GCACTTTGTGTGTCGAATACTGTTACTG
60083143 TTACTGATT
1 TTACTGATT
60083152 ACTGTATACT
Statistics
Matches: 115, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
38 14 0.12
39 27 0.23
40 1 0.01
41 1 0.01
43 1 0.01
44 1 0.01
45 67 0.58
46 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (40 bp):
TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:60083072 original size:45 final size:45
Alignment explanation
Indices: 60083003--60083153 Score: 221
Period size: 45 Copynumber: 3.3 Consensus size: 45
60082993 ATGTGCCGAC
*
60083003 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
60083048 TACTATTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * * *
60083093 TACTGTTACTATTACAGGTTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
60083138 TACTGTTACTGATTAC
1 TACTGTTACTG-TTAC
60083154 TGTATACTGG
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 90 0.96
46 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:60085849 original size:21 final size:21
Alignment explanation
Indices: 60085825--60085873 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
60085815 GGCAGCGAGG
*
60085825 GAAGCAGAGGCTACAGCAAGA
1 GAAGCAGAGGCCACAGCAAGA
* *
60085846 GAAGCAGAGGCCGCAGCGAGA
1 GAAGCAGAGGCCACAGCAAGA
60085867 GAAGCAG
1 GAAGCAG
60085874 CAAGAGAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.39, T:0.02
Consensus pattern (21 bp):
GAAGCAGAGGCCACAGCAAGA
Found at i:60085879 original size:12 final size:12
Alignment explanation
Indices: 60085838--60085897 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
60085828 GCAGAGGCTA
60085838 CAGCAAGAGAAG
1 CAGCAAGAGAAG
**
60085850 CAG--AG-GCCG
1 CAGCAAGAGAAG
*
60085859 CAGCGAGAGAAG
1 CAGCAAGAGAAG
60085871 CAGCAAGAGAAG
1 CAGCAAGAGAAG
*
60085883 CAGCAATAGAAG
1 CAGCAAGAGAAG
60085895 CAG
1 CAG
60085898 AGGTTCAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 5 0.13
10 2 0.05
11 2 0.05
12 30 0.77
ACGTcount: A:0.43, C:0.20, G:0.35, T:0.02
Consensus pattern (12 bp):
CAGCAAGAGAAG
Found at i:60086462 original size:42 final size:42
Alignment explanation
Indices: 60086315--60086708 Score: 387
Period size: 42 Copynumber: 9.4 Consensus size: 42
60086305 GTTTGTGAAA
* ***
60086315 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTGAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTC
* * * *
60086357 TAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTC
* * * *
60086400 AAAGTGCCGCTAAAGAACATGATTTTTAGCGGCGTTTGTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
60086442 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGTGTTTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG---TTTTTTTC
* ** *
60086487 TAAGCGCCACT------C-TTTTCTTTAGCGGTGTTTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG---TTTTTTTC
*
60086525 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
60086567 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTATTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTC
*
60086610 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCG-TTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
60086651 TAAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-TC
*
60086694 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
60086709 TTAGCGACGT
Statistics
Matches: 299, Mismatches: 37, Indels: 31
0.81 0.10 0.08
Matches are distributed among these distances:
38 33 0.11
39 1 0.00
41 36 0.12
42 119 0.40
43 80 0.27
44 1 0.00
45 29 0.10
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:60086470 original size:85 final size:84
Alignment explanation
Indices: 60086315--60086708 Score: 378
Period size: 85 Copynumber: 4.7 Consensus size: 84
60086305 GTTTGTGAAA
* * *** * *
60086315 TAAGCGCCGCTAAAGAACACT-ACTTTTAGCGGCATTTTTGAATAAGCGCCGCTATAGAACATTA
1 TAAGCGCCGCTAAAGAACA-TGATTTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGA
* *
60086379 -CTTTTAGAGGCGTTTTCTTCC
65 TC-TTTAGCGGCGTTTT-TTTC
* * *
60086400 AAAGTGCCGCTAAAGAACATGATTTTTAGCGGCGTTTGTTTCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
* *
60086465 CTTTAGGGGTGTTTTTTTTTTC
66 CTTTAGCGGCG---TTTTTTTC
* * * *
60086487 TAAGCGCCACT------C-T-TTTCTTTAGCGGTGTTTTTTTTTTCTAAGCGCCGCTAAAGAGCA
1 TAAGCGCCGCTAAAGAACATGATT-TTTAGCGGCG---TTTTTTTCTAAGCGCCGCTAAAGAACA
60086544 TGATCTTTAGCGGCGTTTTTTTC
62 TGATCTTTAGCGGCGTTTTTTTC
* * *
60086567 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTATTCTAAGCGCCGCTAAAGAGCATGA
1 TAAGCGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTT-TTCTAAGCGCCGCTAAAGAACATGA
60086632 TCTTTAGCGGCG-TTTTTTC
65 TCTTTAGCGGCGTTTTTTTC
* * * *
60086651 TAAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATGTAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTT-TCTAAGCGCCGCTAAAG
60086709 TTAGCGACGT
Statistics
Matches: 259, Mismatches: 31, Indels: 39
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.01
80 28 0.11
81 1 0.00
83 39 0.15
84 65 0.25
85 97 0.37
86 2 0.01
87 20 0.08
88 5 0.02
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTTTTTC
Found at i:60086560 original size:125 final size:121
Alignment explanation
Indices: 60086381--60086708 Score: 381
Period size: 125 Copynumber: 2.6 Consensus size: 121
60086371 GAACATTACT
* * * * *
60086381 TTTAGAGGCGTTTTCTTCCAAAGTGCCGCTAAAGAACATGATTTTTAGCGGCGTTTGTTTCTAAG
1 TTTAGCGGCGTTTT-TT-CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * **
60086446 CGCCGCTAAAGAACATGATCTTTAGGGGTGTTTTTTTTTTCTAAGCGCCACT-C-TTTTC
64 CGCCGCTAAAGAACATGATCTTTAGGGGCG--TTTTTATTCTAAGCGCCACTACATGATC
* *
60086504 TTTAGCGGTGTTTTTTTTTTCTAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTCTA
1 TTTAGCGGCG----TTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTA
*
60086569 AGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTATTCTAAGCGCCGCTAAAGAGCATGATC
62 AGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTATTCTAAGCGCCACT----A-CATGATC
* *
60086634 TTTAGCGGCGTTTTTTCTAAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATGTAAGC
1 TTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-TCTAAGC
*
60086699 GCCGCAAAAG
65 GCCGCTAAAG
60086709 TTAGCGACGT
Statistics
Matches: 176, Mismatches: 17, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
123 26 0.15
125 71 0.40
126 47 0.27
127 19 0.11
129 1 0.01
130 12 0.07
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (121 bp):
TTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCG
CCGCTAAAGAACATGATCTTTAGGGGCGTTTTTATTCTAAGCGCCACTACATGATC
Found at i:60086784 original size:22 final size:22
Alignment explanation
Indices: 60086759--60086801 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60086749 TAGTGGCGTT
* *
60086759 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
60086781 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
60086802 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:60125942 original size:30 final size:31
Alignment explanation
Indices: 60125908--60126007 Score: 107
Period size: 30 Copynumber: 3.2 Consensus size: 31
60125898 ATTTTTACAA
*
60125908 ATCTTTTAAAAATATCTA-AATATATTATAT
1 ATCTTTTAAAAATATTTAGAATATATTATAT
*
60125938 ATCTTTTAAGCATATATTTAAGAATATATTATAT
1 ATCTTTTAA--AAATATTT-AGAATATATTATAT
* *
60125972 AT-TTTT-CAGATATTTAGGAATATATTATAT
1 ATCTTTTAAAAATATTTA-GAATATATTATAT
60126002 ATCTTT
1 ATCTTT
60126008 CTTATTTCTG
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
29 1 0.02
30 31 0.52
31 3 0.05
32 6 0.10
33 5 0.08
34 14 0.23
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (31 bp):
ATCTTTTAAAAATATTTAGAATATATTATAT
Found at i:60144661 original size:3 final size:3
Alignment explanation
Indices: 60144653--60144683 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
60144643 AAAGCAACTA
60144653 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
60144684 TCCCACTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:60146787 original size:11 final size:11
Alignment explanation
Indices: 60146771--60146796 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60146761 TCCAGGTCAC
60146771 TAAACTATTAG
1 TAAACTATTAG
60146782 TAAACTATTAG
1 TAAACTATTAG
60146793 TAAA
1 TAAA
60146797 TTTACATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (11 bp):
TAAACTATTAG
Found at i:60159464 original size:7 final size:7
Alignment explanation
Indices: 60159454--60159489 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
60159444 ATTTTAGTTA
60159454 AGAATAT
1 AGAATAT
60159461 AGAATAT
1 AGAATAT
60159468 AGAATAT
1 AGAATAT
60159475 AGAATAT
1 AGAATAT
60159482 AGAATAT
1 AGAATAT
60159489 A
1 A
60159490 TGATCGAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (7 bp):
AGAATAT
Found at i:60159760 original size:14 final size:14
Alignment explanation
Indices: 60159743--60159771 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60159733 AAAAAATAAC
60159743 AAAAAATTT-AAAT
1 AAAAAATTTCAAAT
60159756 AAAAAATTTCAAAT
1 AAAAAATTTCAAAT
60159770 AA
1 AA
60159772 TATACTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAATTTCAAAT
Found at i:60165880 original size:39 final size:40
Alignment explanation
Indices: 60165810--60165889 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
60165800 AAGCCTTTCC
*
60165810 TGGCAAGATTGGTAGTTTTTTTATATGGATTCTTGTTTGA
1 TGGCAAGATTGATAGTTTTTTTATATGGATTCTTGTTTGA
60165850 TGGCAAGATTGATAG-TTTTTTATATGGATTCTTGTTTGA
1 TGGCAAGATTGATAGTTTTTTTATATGGATTCTTGTTTGA
60165889 T
1 T
60165890 AGCAGTGGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 25 0.64
40 14 0.36
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (40 bp):
TGGCAAGATTGATAGTTTTTTTATATGGATTCTTGTTTGA
Found at i:60166509 original size:27 final size:25
Alignment explanation
Indices: 60166464--60166514 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
60166454 TCGAACTATT
*
60166464 TTTTTTTATTTGTAATATATATAAA
1 TTTTTTTATTTGTAATATACATAAA
*
60166489 TTTTTTTATTTTTATACTATACATAA
1 TTTTTTTATTTGTA-A-TATACATAA
60166515 TTAAATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 1 0.05
27 8 0.36
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTTTATTTGTAATATACATAAA
Found at i:60176644 original size:30 final size:30
Alignment explanation
Indices: 60176610--60176669 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
60176600 GCCAAGTTGC
60176610 CTGGTAGACCAATTCTTTTGCATCAATAGA
1 CTGGTAGACCAATTCTTTTGCATCAATAGA
*
60176640 CTGGTAGACCAATTCTTTTGCATCACTAGA
1 CTGGTAGACCAATTCTTTTGCATCAATAGA
60176670 TGAGTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (30 bp):
CTGGTAGACCAATTCTTTTGCATCAATAGA
Found at i:60179918 original size:24 final size:22
Alignment explanation
Indices: 60179866--60179920 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
60179856 GCATGACTAT
60179866 TAAAAAAT-TTAATAAATAAAA
1 TAAAAAATATTAATAAATAAAA
*
60179887 -AAATAATATTAATAATATTAAAA
1 TAAAAAATATTAATAA-A-TAAAA
60179910 TAAAAAATATT
1 TAAAAAATATT
60179921 TTAAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 7 0.25
22 1 0.04
23 5 0.18
24 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAAATATTAATAAATAAAA
Found at i:60199238 original size:21 final size:21
Alignment explanation
Indices: 60199212--60199252 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60199202 AGACGAGCAA
* *
60199212 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
60199233 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
60199253 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:60213365 original size:26 final size:27
Alignment explanation
Indices: 60213334--60213384 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
60213324 CAAATGGGTC
60213334 GGGGAATCAGCA-TTAGCAACCCCTCG
1 GGGGAATCAGCACTTAGCAACCCCTCG
60213360 GGGGAATCAGCACTTAGCAACCCCT
1 GGGGAATCAGCACTTAGCAACCCCT
60213385 TTTCACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.27, C:0.31, G:0.25, T:0.16
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTCG
Found at i:60213373 original size:102 final size:102
Alignment explanation
Indices: 60213198--60213562 Score: 504
Period size: 102 Copynumber: 3.6 Consensus size: 102
60213188 AACTGTTGTT
* * * * ** *
60213198 GGTGGATTCCGCACTTAGC-ACCACCAATGAATCGGGGAATCATCACACAGCAACCCCTTGGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* * *
60213262 AATCAGCACTTAGCAACCCCCTTCACATTTCAGATGC
66 AATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
** *
60213299 GGTGGAATCAGCACTTAGCAACCACCAAATGGGTCGGGGAATCAGCA-TTAGCAACCCCTCGGGG
1 GGTGGAATCAGCACTTAGCAACCACC-AATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
60213363 GAATCAGCACTTAGCAACCCCTTTTCACATTTAAAATAC
65 GAATCAGCACTTAGCAACCCC-CTTCACATTTAAAATAC
* *
60213402 GGTGGAATCAGCACTTAGCAACCACCAAT-AGGTAGGGGAATCAACACTTAGCAACCCCTC-GGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGA-ATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
60213465 GAATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
65 GAATCAGCACTTAGCAACCCCCTT-CACATTTAAAATAC
**
60213504 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCT
60213563 TTATATGCAA
Statistics
Matches: 237, Mismatches: 20, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
101 19 0.08
102 148 0.62
103 70 0.30
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (102 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
Found at i:60213465 original size:26 final size:26
Alignment explanation
Indices: 60213436--60213485 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
60213426 CCAATAGGTA
60213436 GGGGAATCAACACTTAGCAACCCCTC
1 GGGGAATCAACACTTAGCAACCCCTC
*
60213462 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAACACTTAGCAACCCC
60213486 CTTCCACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.22, T:0.14
Consensus pattern (26 bp):
GGGGAATCAACACTTAGCAACCCCTC
Found at i:60213930 original size:30 final size:30
Alignment explanation
Indices: 60213896--60213953 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
60213886 CCACCCAACT
*
60213896 TTTTGAAAAATTATAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
60213926 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
60213954 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:60216833 original size:42 final size:40
Alignment explanation
Indices: 60216774--60216912 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 40
60216764 CCCCTTGGGG
60216774 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTT-AGAT-CGGT
* * * *
60216816 GGAATCAGCACTTAGCAA-CCAC--CA-A-ATGGGTCGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAGATCGGT
*
60216850 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCC-TTCACATTT-AGAT-CGGT
60216893 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
60216913 ACCAATAGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
34 18 0.23
35 6 0.08
36 2 0.03
37 1 0.01
38 3 0.04
39 3 0.04
40 1 0.01
41 4 0.05
42 21 0.27
43 20 0.25
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAGATCGGT
Found at i:60216866 original size:76 final size:76
Alignment explanation
Indices: 60216772--60216947 Score: 282
Period size: 76 Copynumber: 2.3 Consensus size: 76
60216762 AACCCCTTGG
* * *
60216772 GGGGAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
* *
60216836 ACCAAATGGGTC
66 ACC-AATAGGTA
60216848 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
60216913 ACCAATAGGTA
66 ACCAATAGGTA
*
60216924 GGGGAATCAACACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
60216948 TCGGGGGAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
76 54 0.58
77 39 0.42
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (76 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
ACCAATAGGTA
Done.