Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 142 of 352
Found at i:46339719 original size:3 final size:3
Alignment explanation
Indices: 46339688--46339752 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
46339678 ATACACGTAC
* * *
46339688 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
46339735 CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA A
46339753 CAAGGATATT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
2 2 0.04
3 41 0.84
4 6 0.12
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:46340237 original size:18 final size:18
Alignment explanation
Indices: 46340214--46340249 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46340204 GAAAGAAAAA
*
46340214 AAAGAAGAGAGAGGGAAG
1 AAAGAAGAGAGAGAGAAG
*
46340232 AAAGAAGGGAGAGAGAAG
1 AAAGAAGAGAGAGAGAAG
46340250 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
AAAGAAGAGAGAGAGAAG
Found at i:46340248 original size:11 final size:11
Alignment explanation
Indices: 46340219--46340264 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
46340209 AAAAAAAAGA
46340219 AGAGAG-AGGG
1 AGAGAGAAGGG
*
46340229 AAGAAAGAAGGG
1 -AGAGAGAAGGG
46340241 AGAGAGAAGGG
1 AGAGAGAAGGG
46340252 AGAGAGAAGGG
1 AGAGAGAAGGG
46340263 AG
1 AG
46340265 GGGGGAAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 28 0.88
12 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:46340362 original size:15 final size:16
Alignment explanation
Indices: 46340342--46340380 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
46340332 ACCGCATTTC
46340342 TTATTTTTTATTT-TT
1 TTATTTTTTATTTCTT
46340357 TTATTTTTTATTTCTT
1 TTATTTTTTATTTCTT
*
46340373 GTATTTTT
1 TTATTTTT
46340381 ATATGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (16 bp):
TTATTTTTTATTTCTT
Found at i:46340363 original size:6 final size:7
Alignment explanation
Indices: 46340337--46340390 Score: 54
Period size: 7 Copynumber: 7.1 Consensus size: 7
46340327 CGGCCACCGC
*
46340337 ATTTCTT
1 ATTTTTT
46340344 ATTTTTT
1 ATTTTTT
46340351 ATTTTTTT
1 A-TTTTTT
46340359 ATTTTTT
1 ATTTTTT
46340366 ATTTCTTGT
1 ATTT-TT-T
46340375 ATTTTTAT
1 ATTTTT-T
*
46340383 ATGTTTT
1 ATTTTTT
46340390 A
1 A
46340391 ATATATGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 19 0.46
8 17 0.41
9 5 0.12
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (7 bp):
ATTTTTT
Found at i:46340381 original size:15 final size:15
Alignment explanation
Indices: 46340337--46340382 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
46340327 CGGCCACCGC
46340337 ATTTCTTAT-TTTTT
1 ATTTCTTATATTTTT
*
46340351 ATTT-TTTTATTTTTT
1 ATTTCTTATA-TTTTT
*
46340366 ATTTCTTGTATTTTT
1 ATTTCTTATATTTTT
46340381 AT
1 AT
46340383 ATGTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.11
14 4 0.15
15 16 0.59
16 4 0.15
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (15 bp):
ATTTCTTATATTTTT
Found at i:46342034 original size:76 final size:74
Alignment explanation
Indices: 46341839--46342411 Score: 636
Period size: 76 Copynumber: 7.8 Consensus size: 74
46341829 CATAAACTAA
* **
46341839 AAATACCTCGGCGTTCCCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAA-GA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGA
46341903 AAATTTGAAAG
66 AAA-TT-AAAG
*
46341914 AAATACTTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAT-G
46341979 AAAATTAAAAG
65 AAAATT-AAAG
* *
46341990 AAATACCTCGGCATGACTCGAGGCTCAACTCACCTCTATATTATGAGTTGATTTTTGAAAAATGG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAT-G
*
46342055 AAATTTAAAAG
65 AAAATT-AAAG
* * * *
46342066 AAATACCTCGGCATGTGATCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAA
*
46342131 CGAAAATTTGAAAG
63 TGAAAA-TT-AAAG
* * * **
46342145 AAATACTTGGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTAAAAAAACA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGA
46342209 TAAATT-AA-
66 -AAATTAAAG
* * *
46342217 AAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT------TG-
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGA
46342275 AAATT-AA-
66 AAATTAAAG
* * *** *
46342282 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAATCA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGA
46342347 TAAATT-AA-
66 -AAATTAAAG
* * * * *
46342355 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTT
46342412 TTTTGAAAAC
Statistics
Matches: 442, Mismatches: 39, Indels: 35
0.86 0.08 0.07
Matches are distributed among these distances:
65 62 0.14
71 1 0.00
72 46 0.10
73 50 0.11
74 16 0.04
75 70 0.16
76 106 0.24
77 27 0.06
78 25 0.06
79 39 0.09
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (74 bp):
AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGA
AAATTAAAG
Found at i:46342167 original size:155 final size:145
Alignment explanation
Indices: 46341839--46342645 Score: 630
Period size: 155 Copynumber: 5.4 Consensus size: 145
46341829 CATAAACTAA
* **
46341839 AAATACCTCGGCGTTCCCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAA-GA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATG-
* * * * *
46341903 AAATTTGAAAGAAATACTTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
65 AAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGCAATATGAGTTGATTT
*
46341968 TTGAAAAATGGAAAATTAAAAG
126 TTGAAAAA-CGAAAATT-AAAG
* *
46341990 AAATACCTCGGCATGACTCGAGGCTCAACTCACCTCTATATTATGAGTTGATTTTTGAAAAATGG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAT-G
* * *
46342055 AAATTTAAAAGAAATACCTCGGCATGTGATCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
65 AAA-TT--AA-AAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCT-GCAATATGAGTTGA
46342120 TTTTTGAAAAACGAAAATTTGAAAG
123 TTTTTGAAAAACGAAAA-TT-AAAG
* * **
46342145 AAATACTTGGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTAAAAAAACAT
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTT-TGAAAA-AT
* * *
46342210 -AAATTAAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT-
64 GAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTG
*
46342273 -----TG-AAATT-AA-
129 AAAAACGAAAATTAAAG
* * *
46342282 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAATCA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA--TTTTTGAAA-AA
*
46342347 T-AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
63 TGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GCAATATGAGTTGA----
46342411 TTTTTG-AAAAC-AGAAATT---G
123 TTTTTGAAAAACGA-AAATTAAAG
* * * ** ** *
46342430 AAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCGA-TATGAGTTGATGATTTTTTTT
1 AAA-TACCTCGGCATGACCCGAGGCTCAACTCACCTCT-G-TATTATGAG-T--TGA----TTTT
* * * * * *
46342494 TTAACAACA-GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTGAACTCACCTCTAGCAATATGA
56 TGAA-AA-ATGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GCAATATGA
* * * *
46342558 GTTGAATTTTGAAACACAAAAATT-GA-
118 GTTGATTTTTGAAAAACGAAAATTAAAG
* * * * * * *
46342584 AAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGAATTTTGAAAA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTC-TGTATTATGAGTTGATTTTTGAAAA
46342646 CAAAAATTAA
Statistics
Matches: 550, Mismatches: 65, Indels: 88
0.78 0.09 0.13
Matches are distributed among these distances:
137 47 0.09
138 50 0.09
139 15 0.03
140 2 0.00
141 3 0.01
142 1 0.00
143 5 0.01
145 2 0.00
146 6 0.01
148 20 0.04
149 56 0.10
150 10 0.02
151 70 0.13
152 29 0.05
153 48 0.09
154 34 0.06
155 92 0.17
156 58 0.11
157 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (145 bp):
AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGA
AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTGAA
AAACGAAAATTAAAG
Found at i:46342314 original size:65 final size:66
Alignment explanation
Indices: 46342158--46342412 Score: 314
Period size: 65 Copynumber: 3.7 Consensus size: 66
46342148 TACTTGGGCA
***
46342158 TGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTAAAAAAACATAAATTAAAAATAC
1 TGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTT-----TTGA-AAATTAAAAATAC
46342223 CTCAGCG
60 CTCAGCG
*
46342230 TAACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAATTAAAAATACCTCAGC
1 TGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAATTAAAAATACCTCAGC
46342294 G
66 G
46342295 TGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAATCATAAATTAAAAATA
1 TGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTG-----A-AAATTAAAAATA
46342360 CCTCAGCG
59 CCTCAGCG
* * *
46342368 TGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
1 TGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTT
46342413 TTTGAAAACA
Statistics
Matches: 166, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
65 57 0.34
66 7 0.04
72 41 0.25
73 50 0.30
74 11 0.07
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (66 bp):
TGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAATTAAAAATACCTCAGC
G
Found at i:46342411 original size:73 final size:74
Alignment explanation
Indices: 46342275--46342657 Score: 398
Period size: 73 Copynumber: 5.1 Consensus size: 74
46342265 TGATTTTTTG
* *
46342275 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTT
1 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
46342339 TGAAATCAT
66 TGAAAACAA
*
46342348 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
1 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
*
46342413 TTTGAAAACAG
64 TTTGAAAACAA
* * * ** ** *
46342424 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCGATATGAGTTGATGATTT
1 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG-T--TGA--T
* *
46342489 TTTTTTTAACAACAG
61 TTTTTTGAA-AACAA
* * * * * * *
46342504 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTGAACTCACCTCTAGCAATATGAGTTGA--ATTT
1 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
46342567 TGAAACACAA
66 TGAAA-ACAA
* * * * *
46342577 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA--ATTT
1 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
46342640 TGAAAACAA
66 TGAAAACAA
46342649 AAATTAAAA
1 AAATTAAAA
46342658 GGCTTAACTC
Statistics
Matches: 271, Mismatches: 31, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
72 13 0.05
73 115 0.42
74 11 0.04
76 59 0.22
77 4 0.01
79 15 0.06
80 54 0.20
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (74 bp):
AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACAA
Found at i:46343673 original size:1 final size:1
Alignment explanation
Indices: 46343669--46343724 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
46343659 CTGATCCCCC
* * * * * *
46343669 TTTTTCTTTTTTCTTTTTTTTTTTGTTTTTTGTTTTTTTGTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46343725 AAGATGCCCT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (1 bp):
T
Found at i:46343704 original size:15 final size:14
Alignment explanation
Indices: 46343669--46343722 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
46343659 CTGATCCCCC
* *
46343669 TTTTTCTTTTT-TC
1 TTTTTTTTTTTGTT
46343682 TTTTTTTTTTTGTT
1 TTTTTTTTTTTGTT
46343696 TTTTGTTTTTTTGTT
1 TTTT-TTTTTTTGTT
46343711 TTTTCTTTTTTT
1 TTTT-TTTTTTT
46343723 TTAAGATGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
13 10 0.28
14 5 0.14
15 21 0.58
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTGTT
Found at i:46351141 original size:82 final size:81
Alignment explanation
Indices: 46351025--46351180 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
46351015 AAATTGTACA
* * * *
46351025 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
46351089 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46351106 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
46351171 TGCGAGTTGA
65 TGCGAATTGA
46351181 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46351148 original size:55 final size:52
Alignment explanation
Indices: 46351024--46351177 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
46351014 TAAATTGTAC
* *
46351024 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
46351077 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
46351132 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
46351178 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:46351182 original size:27 final size:27
Alignment explanation
Indices: 46351025--46351180 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
46351015 AAATTGTACA
*
46351025 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
46351052 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
46351079 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
46351106 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
46351134 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
46351161 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
46351181 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:46351191 original size:27 final size:27
Alignment explanation
Indices: 46351017--46351201 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
46351007 GCGGGATTAA
*
46351017 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
46351044 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
46351071 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
46351098 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
46351126 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
46351153 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
46351180 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
46351202 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:46351192 original size:82 final size:81
Alignment explanation
Indices: 46351017--46351201 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
46351007 GCGGGATTAA
* * * *
46351017 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
46351082 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
46351098 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
46351162 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
46351180 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
46351202 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:46359219 original size:82 final size:81
Alignment explanation
Indices: 46359103--46359258 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
46359093 AAATTGTACA
* * * *
46359103 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
46359167 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46359184 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
46359249 TGCGAGTTGA
65 TGCGAATTGA
46359259 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46359226 original size:55 final size:52
Alignment explanation
Indices: 46359102--46359255 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
46359092 TAAATTGTAC
* *
46359102 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
46359155 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
46359210 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
46359256 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:46359260 original size:27 final size:27
Alignment explanation
Indices: 46359103--46359258 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
46359093 AAATTGTACA
*
46359103 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
46359130 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
46359157 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
46359184 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
46359212 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
46359239 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
46359259 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:46359269 original size:27 final size:27
Alignment explanation
Indices: 46359095--46359279 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
46359085 GCGGGATTAA
*
46359095 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
46359122 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
46359149 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
46359176 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
46359204 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
46359231 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
46359258 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
46359280 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:46359270 original size:82 final size:81
Alignment explanation
Indices: 46359095--46359279 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
46359085 GCGGGATTAA
* * * *
46359095 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
46359160 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
46359176 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
46359240 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
46359258 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
46359280 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:46363512 original size:36 final size:36
Alignment explanation
Indices: 46363472--46363545 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
46363462 GAAGGAGCGC
* *
46363472 ATCAGTCAAAATAGATCCAAAAAGCTGTTGAACTGA
1 ATCAGTCAAAATAGATCCAAAAAGCTGCTAAACTGA
* * *
46363508 ATCAGTCAGAATAGATCTAAAATGCTGCTAAACTGA
1 ATCAGTCAAAATAGATCCAAAAAGCTGCTAAACTGA
46363544 AT
1 AT
46363546 AGAGTTTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (36 bp):
ATCAGTCAAAATAGATCCAAAAAGCTGCTAAACTGA
Found at i:46364738 original size:31 final size:31
Alignment explanation
Indices: 46364701--46364794 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
46364691 GACCACATTG
*
46364701 ATATATCATAAGAAAAGTACAAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
46364732 ATATATCATAAGAAAAGTACCAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
46364763 ATATATCATAAGAAAAGTACCAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
46364794 A
1 A
46364795 AGTTCGGTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (31 bp):
ATATATCATAAGAAAAGTACCAAGAGGTGCT
Found at i:46369764 original size:40 final size:40
Alignment explanation
Indices: 46369690--46369908 Score: 372
Period size: 40 Copynumber: 5.5 Consensus size: 40
46369680 AACCCAAGTA
* *
46369690 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
46369729 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
46369769 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
46369808 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
46369848 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
46369888 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
46369909 GTCATCCGAA
Statistics
Matches: 171, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 51 0.30
40 119 0.70
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:46369821 original size:79 final size:80
Alignment explanation
Indices: 46369690--46369908 Score: 372
Period size: 79 Copynumber: 2.8 Consensus size: 80
46369680 AACCCAAGTA
* *
46369690 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
46369753 GTCAATAGCACAAATG
65 GTCAATAGCACAAATG
*
46369769 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATGCCTTCGGGACTTAGCCCGAATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
46369833 TCACTAGCACAAATG
66 TCAATAGCACAAATG
46369848 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
46369909 GTCATCCGAA
Statistics
Matches: 132, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
79 90 0.68
80 41 0.31
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATG
Found at i:46372140 original size:27 final size:27
Alignment explanation
Indices: 46372099--46372190 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
46372089 CCTTAATCGA
* *
46372099 TAAAATGACTATTTTTCCATTATGAGG
1 TAAAATGACTGTTTTCCCATTATGAGG
* *
46372126 TAAAATGACTGTTTTGCCCA-TATGTGA
1 TAAAATGACTGTTTT-CCCATTATGAGG
46372153 TAAAATGACTGTTTTGCCC-TTATGAGG
1 TAAAATGACTGTTTT-CCCATTATGAGG
*
46372180 TAAAACGACTG
1 TAAAATGACTG
46372191 AAATGCCCCT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 53 0.95
28 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (27 bp):
TAAAATGACTGTTTTCCCATTATGAGG
Found at i:46372216 original size:54 final size:54
Alignment explanation
Indices: 46372097--46372230 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 54
46372087 ACCCTTAATC
* * * *** **
46372097 GATAAAATGACTATTTTTCCATTATGAGGTAAAATGACTGTTTTGCCCATATGT
1 GATAAAATGACTATTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
* * *
46372151 GATAAAATGACTGTTTTGCCCTTATGAGGTAAAACGACTGAAATGCCCCTACAT
1 GATAAAATGACTATTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
* * *
46372205 GGTAAATTGACTATTTTACCCCTATG
1 GATAAAATGACTATTTTACCCTTATG
46372231 TGAGGTTTTT
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (54 bp):
GATAAAATGACTATTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
Found at i:46374186 original size:27 final size:27
Alignment explanation
Indices: 46374156--46374244 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
46374146 CCTTAATCGA
* * *
46374156 TAAAATGATTGTTTGGCTCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
46374183 TAAAATGACTATTTTGCCCCTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
**
46374210 TAAAATGACTGTTTTGCCCTTATGCTG
1 TAAAATGACTGTTTTGCCCTTATGAGG
46374237 TAAAATGA
1 TAAAATGA
46374245 TTGAAATGCC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.38
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:46374240 original size:54 final size:54
Alignment explanation
Indices: 46374156--46374287 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
46374146 CCTTAATCGA
* * * ** **
46374156 TAAAATGATTGTTTGGCTCTTATGAGGTAAAATGACT-ATTTTGCCCCTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGA-AATGCCCCTACATGG
** *
46374210 TAAAATGACTGTTTTGCCCTTATGCTGTAAAATGATTGAAATGCCCCTACATGG
1 TAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGAAATGCCCCTACATGG
* *
46374264 TAAATTGACTGTTTTGCCCCTATG
1 TAAAATGACTGTTTTGCCCTTATG
46374288 TGAGGTATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 64 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (54 bp):
TAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGAAATGCCCCTACATGG
Found at i:46374281 original size:27 final size:27
Alignment explanation
Indices: 46374181--46374286 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
46374171 GCTCTTATGA
* *
46374181 GGTAAAATGACTATTTTGCCCCTATGT
1 GGTAAAATGACTGTTTTGCCCCTATAT
46374208 GGTAAAATGACTGTTTTG-CCCT-TAT
1 GGTAAAATGACTGTTTTGCCCCTATAT
* *** *
46374233 GCTGTAAAATGATTGAAATGCCCCTACAT
1 G--GTAAAATGACTGTTTTGCCCCTATAT
*
46374262 GGTAAATTGACTGTTTTGCCCCTAT
1 GGTAAAATGACTGTTTTGCCCCTAT
46374287 GTGAGGTATT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
25 3 0.05
26 4 0.06
27 48 0.77
28 4 0.06
29 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCCTATAT
Found at i:46385888 original size:48 final size:49
Alignment explanation
Indices: 46385816--46385914 Score: 182
Period size: 48 Copynumber: 2.0 Consensus size: 49
46385806 TCAGAGTTAG
46385816 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
1 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
*
46385865 TTTC-AAATGTTTGATTTGTCAACAAGTAAAGGCTGAACACCAAGTACC
1 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
46385913 TT
1 TT
46385915 CGGGTATACT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 45 0.92
49 4 0.08
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (49 bp):
TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
Found at i:46388267 original size:19 final size:20
Alignment explanation
Indices: 46388245--46388283 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
46388235 GTCATACTTA
46388245 TTAGCCACA-ATT-CATTCAT
1 TTAG-CACATATTCCATTCAT
46388264 TTAGCACATATTCCATTCAT
1 TTAGCACATATTCCATTCAT
46388284 CTCACATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAGCACATATTCCATTCAT
Found at i:46389323 original size:25 final size:25
Alignment explanation
Indices: 46389295--46389348 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
46389285 TTCAATATCC
* * *
46389295 ATAACACTAATTTCTTACTCATGGA
1 ATAACACCAATTCCATACTCATGGA
46389320 ATAACACCAATTCCATACTCATGGA
1 ATAACACCAATTCCATACTCATGGA
46389345 ATAA
1 ATAA
46389349 TCAAAGCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (25 bp):
ATAACACCAATTCCATACTCATGGA
Found at i:46391334 original size:7 final size:7
Alignment explanation
Indices: 46391322--46391349 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
46391312 GCCGAAGCCT
46391322 TTTCATA
1 TTTCATA
46391329 TTTCATA
1 TTTCATA
46391336 TTTCATA
1 TTTCATA
46391343 TTTCATA
1 TTTCATA
46391350 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:46391685 original size:26 final size:24
Alignment explanation
Indices: 46391577--46391684 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
46391567 CTGGAGGCCT
*
46391577 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
46391601 AGCCCTTTTGATAAACTGGGGAAAA
1 AGCCCTTTTGATAAACTGGGG-CAA
*
46391626 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
* *
46391651 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
46391676 AGCCCTTTT
1 AGCCCTTTT
46391685 TGCACTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.10
24 12 0.16
25 43 0.59
26 11 0.15
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:46391755 original size:20 final size:20
Alignment explanation
Indices: 46391732--46391778 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
46391722 TTATGAATAC
46391732 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
46391751 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
46391772 ATCATGT
1 ATCATGT
46391779 ATATCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:46399364 original size:7 final size:7
Alignment explanation
Indices: 46399352--46399379 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
46399342 GCCGAAGCCT
46399352 TTTCATA
1 TTTCATA
46399359 TTTCATA
1 TTTCATA
46399366 TTTCATA
1 TTTCATA
46399373 TTTCATA
1 TTTCATA
46399380 ACACTATGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:46399426 original size:31 final size:31
Alignment explanation
Indices: 46399366--46399429 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
46399356 ATATTTCATA
*
46399366 TTTCATATTTCATAACACTATGCCAAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
** * *
46399397 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
46399428 TT
1 TT
46399430 ATTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCAAAGCCT
Found at i:46399678 original size:24 final size:25
Alignment explanation
Indices: 46399638--46399720 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
46399628 CTGGAGGCCT
*
46399638 AGCCTCTTTTAAT-AACTTAGGC-AA
1 AGCC-CTTTTAATAAACTGAGGCAAA
* *
46399662 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGAGGCAAA
* *
46399687 AGCCCTTGTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGAGGCAAA
46399712 AGCCCTTTT
1 AGCCCTTTT
46399721 CGGTAAACTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 7 0.14
24 11 0.22
25 33 0.65
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGAGGCAAA
Found at i:46399700 original size:25 final size:25
Alignment explanation
Indices: 46399660--46399718 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
46399650 TAACTTAGGC
* *
46399660 AAAGCCCTTTTGATAAACTGGGGCA
1 AAAGCCCTTGTAATAAACTGGGGCA
46399685 AAAGCCCTTGTAATAAACTGGGGCA
1 AAAGCCCTTGTAATAAACTGGGGCA
46399710 AAAGCCCTT
1 AAAGCCCTT
46399719 TTCGGTAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (25 bp):
AAAGCCCTTGTAATAAACTGGGGCA
Found at i:46399816 original size:20 final size:20
Alignment explanation
Indices: 46399793--46399839 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
46399783 TTATGAATAC
46399793 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
46399812 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
46399833 ATCATGT
1 ATCATGT
46399840 ATATCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:46406525 original size:33 final size:34
Alignment explanation
Indices: 46406488--46406554 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
46406478 CATTTCAGTA
46406488 ACAATCT-AGTACCAAT-TAGGGCCTCAGCCCATT
1 ACAATCTCAGTACCAATGT-GGGCCTCAGCCCATT
* * *
46406521 ACAATCTCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAATCTCAGTACCAATGTGGGCCTCAGCCCATT
46406555 TCAGTAACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 7 0.24
34 21 0.72
35 1 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (34 bp):
ACAATCTCAGTACCAATGTGGGCCTCAGCCCATT
Found at i:46409092 original size:12 final size:12
Alignment explanation
Indices: 46409077--46409102 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46409067 TGATAAGTTA
46409077 GTTGAATTGTAC
1 GTTGAATTGTAC
46409089 GTTGAATTGTAC
1 GTTGAATTGTAC
46409101 GT
1 GT
46409103 CAGTGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (12 bp):
GTTGAATTGTAC
Found at i:46413129 original size:48 final size:48
Alignment explanation
Indices: 46413023--46413194 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 48
46413013 GTCATTGTGG
* * * * *
46413023 GCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGA-GATGAGT
* *
46413069 GCCAGTGAAAGACCATGTCTGGGACATGGCATCGG-TATCGAGATGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGATGAGT
* *
46413117 GCTAGTGTAAGA-CATGTCTGGGACATGG-ATTGGCTACTAGATGA-T
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGAGT
* * *
46413162 AGTTAGTGTAAGACCATGTATTGGACATGGCAT
1 -GCTAGTGTAAGACCATGTCTGGGACATGGCAT
46413195 TAACATGAGA
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 32 0.31
47 46 0.44
48 24 0.23
49 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGAGT
Found at i:46413188 original size:94 final size:94
Alignment explanation
Indices: 46413023--46413194 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 94
46413013 GTCATTGTGG
* * *
46413023 GCTAGTGTAAGACGTGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGAAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGAAAGACCATGTA
46413088 TGGGACATGGCATCGGTATCGAGATGAGT
66 TGGGACATGGCATCGGTATCGAGATGAGT
* ** * * ** *
46413117 GCTAGTGTAAGACATGTCTGGGACATGGATTGGCTAC-TAGATGATAGTTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAT-GATGAGAGCCAGTGAAAGACCATGT
*
46413181 ATTGGACATGGCAT
65 ATGGGACATGGCAT
46413195 TAACATGAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
93 1 0.02
94 64 0.98
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGAAAGACCATGTA
TGGGACATGGCATCGGTATCGAGATGAGT
Found at i:46418300 original size:25 final size:25
Alignment explanation
Indices: 46418269--46418332 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
46418259 AATGAAAATC
46418269 AGAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGGTGACAGAATT
*
46418294 AGAATCAAAAGT-AGGTGACAGAATT
1 AGAATCAGAA-TCAGGTGACAGAATT
46418319 AGAATCAGAATCAG
1 AGAATCAGAATCAG
46418333 TATCAGGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGGTGACAGAATT
Found at i:46418346 original size:31 final size:30
Alignment explanation
Indices: 46418265--46418360 Score: 112
Period size: 31 Copynumber: 3.3 Consensus size: 30
46418255 TCAAAATGAA
46418265 AATCAGAATCAGAATCAGGTGACAGAATTAG
1 AATCAGAATCAG-ATCAGGTGACAGAATTAG
46418296 AATCA-AA--AG-T-AGGTGACAGAATTAG
1 AATCAGAATCAGATCAGGTGACAGAATTAG
* * *
46418321 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAG-ATCAGGTGACAGAATTAG
46418352 AATCAGAAT
1 AATCAGAAT
46418361 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
25 20 0.36
26 3 0.05
28 4 0.07
30 3 0.05
31 26 0.46
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (30 bp):
AATCAGAATCAGATCAGGTGACAGAATTAG
Found at i:46418892 original size:27 final size:27
Alignment explanation
Indices: 46418862--46419214 Score: 411
Period size: 27 Copynumber: 13.1 Consensus size: 27
46418852 AACACCCTAG
* * *
46418862 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
46418889 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
46418916 AGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * * *
46418943 GGGT-AAACGATAATTCTATAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* **
46418969 TGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
46418996 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** *
46419023 GGGTAAAACGAAAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * * * * *
46419050 GTGTAAAATGATTATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
**
46419077 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
46419104 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
46419131 GGGTAAAACAGTAATTTTTTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
46419158 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
46419185 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
46419212 GGG
1 GGG
46419215 AAATTTGGTA
Statistics
Matches: 280, Mismatches: 45, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 21 0.08
27 259 0.93
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTGTAAATCGA
Found at i:46421415 original size:6 final size:6
Alignment explanation
Indices: 46421361--46421491 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
46421351 AAGAAACATT
* * * * *
46421361 ATCAGA A-CTAGA ATCAAA ATGAAA ATCAGA ATTAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
46421410 ATCAGA ATCAGA ATTAGA ATCAGA ATCAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
46421459 ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
46421492 GTGAATGTAA
Statistics
Matches: 94, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
5 5 0.05
6 77 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:46421422 original size:31 final size:31
Alignment explanation
Indices: 46421384--46421491 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
46421374 TCAAAATGAA
46421384 AATCAGAATTAGAATCAGGTGACAGAATCAG
1 AATCAGAATTAGAATCAGGTGACAGAATCAG
*
46421415 AATCAGAATTAGAATCAGAATCAGGTGACAGAATTAG
1 AATCAGAA-T----T-AGAATCAGGTGACAGAATCAG
* * * * *
46421452 AATCAGAATCAGTATTAGGTAACAGAATCAA
1 AATCAGAATTAGAATCAGGTGACAGAATCAG
46421483 AATCAGAAT
1 AATCAGAAT
46421492 GTGAATGTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
31 33 0.52
32 1 0.02
36 2 0.03
37 28 0.44
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
AATCAGAATTAGAATCAGGTGACAGAATCAG
Found at i:46421491 original size:37 final size:37
Alignment explanation
Indices: 46421370--46421491 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 37
46421360 TATCAGAACT
* * *
46421370 AGAATCAAAATGAAAATCAGAATTAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
46421407 AGAATCAGAATCAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
46421444 AGAAT-----T-AGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
46421475 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
46421492 GTGAATGTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
36 1 0.01
37 42 0.60
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:46422026 original size:27 final size:27
Alignment explanation
Indices: 46421996--46422404 Score: 398
Period size: 27 Copynumber: 15.2 Consensus size: 27
46421986 AACACCCTAG
* *
46421996 GGGTAAAATGGTAATATTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
*
46422023 GGGTAAAACT-GTAATTTTA-AAATCAA
1 GGGTAAAA-TAGTAATTTTATAAATCGA
* * *
46422049 AGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
* * *
46422076 GGGTAAAA-CGATAATTCTATAAATTGA
1 GGGTAAAATAG-TAATTTTATAAATCGA
* *
46422103 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
46422130 GGGTAAAATAGTAATTTTGA-AAATCGA
1 GGGTAAAATAGTAATTTT-ATAAATCGA
**
46422157 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
*
46422184 GGGTAAAAT-GATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTATAAATCGA
*
46422211 GGGTAAAATAGTAATTTTGA-AAATCAA
1 GGGTAAAATAGTAATTTT-ATAAATCGA
* *
46422238 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTATAAATCGA
* ** *
46422265 GGGTTAAACGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
* *
46422292 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
* ** *
46422319 GGGTGAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
* * * *
46422346 TGGTGAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
*** * * *
46422373 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
46422400 GGGTA
1 GGGTA
46422405 TTTTAGTAAT
Statistics
Matches: 326, Mismatches: 45, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
26 24 0.07
27 299 0.92
28 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTATAAATCGA
Found at i:46422161 original size:81 final size:80
Alignment explanation
Indices: 46421996--46422377 Score: 448
Period size: 81 Copynumber: 4.7 Consensus size: 80
46421986 AACACCCTAG
* * * *
46421996 GGGTAAAATGGTAATATTATAAATCGAGGGTAAAACTGTAATT-T-TAAAATCAAAGGTAAAACA
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAA-TGTAATTCTGT-AAATCGAGGGTAAAACA
*
46422059 GTAATTCT-ATAAATCGA
64 GTAATTTTGA-AAATCGA
* * * *
46422076 GGGTAAAACGATAATTCTATAAATTGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAT-GTAATTCTGTAAATCGAGGGTAAAACAG
46422141 TAATTTTGAAAATCGA
65 TAATTTTGAAAATCGA
* *
46422157 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGATAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG-TAATTCTGTAAATCGAGGGTAAAACAG
*
46422222 TAATTTTGAAAATCAA
65 TAATTTTGAAAATCGA
** * * ** *
46422238 GGGTAAAATAGTAATTTTGTAAATCAAGGGTTAAACGGTAATTCTATAAATCGAGGGTAAAACAG
1 GGGTAAAACGGTAATTTTATAAATCGAGGG-TAAAATGTAATTCTGTAAATCGAGGGTAAAACAG
*
46422303 TAATTTTGTAAATCGA
65 TAATTTTGAAAATCGA
* * * *
46422319 GGGTGAAACGGTAATTTTGTAAATCGATGGTGAAACA-GTAATTTTGTAAATCGAGGGTA
1 GGGTAAAACGGTAATTTTATAAATCGAGGGT-AAA-ATGTAATTCTGTAAATCGAGGGTA
46422378 CTTTGGTAAT
Statistics
Matches: 261, Mismatches: 33, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.00
80 38 0.15
81 215 0.82
82 7 0.03
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (80 bp):
GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGTAATTCTGTAAATCGAGGGTAAAACAGT
AATTTTGAAAATCGA
Found at i:46422413 original size:27 final size:27
Alignment explanation
Indices: 46422355--46422416 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
46422345 ATGGTGAAAC
**
46422355 AGTAATTTTGTAAATCGAGGGTACTTT
1 AGTAATTTTACAAATCGAGGGTACTTT
* * *
46422382 GGTAATTTTACAAGTCGAGGGTATTTT
1 AGTAATTTTACAAATCGAGGGTACTTT
46422409 AGTAATTT
1 AGTAATTT
46422417 GGTAAACTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (27 bp):
AGTAATTTTACAAATCGAGGGTACTTT
Found at i:46424553 original size:6 final size:6
Alignment explanation
Indices: 46424544--46424651 Score: 69
Period size: 6 Copynumber: 17.5 Consensus size: 6
46424534 TTAAAATGAA
* * *
46424544 AATCAG AATCAG AATTAG -GTGACAG AATCAG AATCAG AATTAG AATCAG
1 AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG AATCAG AATCAG
* * * * *
46424593 AATCAG -GTGACAG AATTAG AATCAA AATCAG TATCAGG TAA-CAG AATCAA
1 AATCAG AAT--CAG AATCAG AATCAG AATCAG AATCA-G -AATCAG AATCAG
46424643 AATCAG AAT
1 AATCAG AAT
46424652 GTAAAAGCAA
Statistics
Matches: 77, Mismatches: 16, Indels: 18
0.69 0.14 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AATCAG
Found at i:46424571 original size:37 final size:37
Alignment explanation
Indices: 46424530--46424629 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
46424520 TATCAGAACT
* * *
46424530 AGAATTAAAATGAAAATCAGAATCAGAATTAGGTGAC
1 AGAATTAGAATCAAAATCAGAATCAGAATCAGGTGAC
* * *
46424567 AGAATCAGAATCAGAATTAGAATCAGAATCAGGTGAC
1 AGAATTAGAATCAAAATCAGAATCAGAATCAGGTGAC
*
46424604 AGAATTAGAATCAAAATCAGTATCAG
1 AGAATTAGAATCAAAATCAGAATCAG
46424630 GTAACAGAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (37 bp):
AGAATTAGAATCAAAATCAGAATCAGAATCAGGTGAC
Found at i:46424581 original size:31 final size:31
Alignment explanation
Indices: 46424544--46424651 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
46424534 TTAAAATGAA
*
46424544 AATCAGAATCAGAATTAGGTGACAGAATCAG
1 AATCAGAATCAGAATCAGGTGACAGAATCAG
*
46424575 AATCAGAATTAGAATCAGAATCAGGTGACAGAATTAG
1 AATC------AGAATCAGAATCAGGTGACAGAATCAG
* * * *
46424612 AATCAAAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATCAG
46424643 AATCAGAAT
1 AATCAGAAT
46424652 GTAAAAGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
31 34 0.54
37 29 0.46
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTGACAGAATCAG
Found at i:46424651 original size:37 final size:37
Alignment explanation
Indices: 46424530--46424651 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
46424520 TATCAGAACT
* * * *
46424530 AGAATTAAAATGAAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
46424567 AGAATCAGAATCAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
46424604 AGAAT-----T-AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
46424635 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
46424652 GTAAAAGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 26 0.38
32 1 0.01
36 1 0.01
37 41 0.59
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:46425237 original size:27 final size:27
Alignment explanation
Indices: 46425154--46425613 Score: 572
Period size: 27 Copynumber: 17.2 Consensus size: 27
46425144 AACACCCTAG
** * *
46425154 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
46425181 -GGTAAAACGGTAATTCTG-AAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
46425206 AGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
46425233 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
46425260 GGGTAAAACGGTAATTCTG-AAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * * *
46425286 AGGTAAAATAATAATTCCGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
46425313 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
46425340 GGGTAAAA-TGATAATTCTATAAATCGA
1 GGGTAAAACAG-TAATTCTGTAAATCGA
* *
46425367 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
46425394 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
46425421 GGATAAAAC-GATAATTCTGTAAATTGA
1 GGGTAAAACAG-TAATTCTGTAAATCGA
*
46425448 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* **
46425475 GGGTAAAACAGTAATTTTGTAAATTAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
46425502 GGGTAAAACAGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
46425529 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
46425556 GGATAAAACTGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
46425583 GGGTAACACAGTAATTTTGTAAAT-GA
1 GGGTAAAACAGTAATTCTGTAAATCGA
46425609 GGGTA
1 GGGTA
46425614 CTTTGGTAAT
Statistics
Matches: 382, Mismatches: 44, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
25 7 0.02
26 61 0.16
27 312 0.82
28 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:46427306 original size:23 final size:23
Alignment explanation
Indices: 46427279--46427326 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
46427269 AGCTAAATTA
46427279 CATTCTTAAAAACTTGGCAGTTG
1 CATTCTTAAAAACTTGGCAGTTG
*
46427302 CATTCTTAAAATCTTGGCAGTTG
1 CATTCTTAAAAACTTGGCAGTTG
46427325 CA
1 CA
46427327 GAAGCTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (23 bp):
CATTCTTAAAAACTTGGCAGTTG
Found at i:46427772 original size:6 final size:6
Alignment explanation
Indices: 46427742--46427872 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
46427732 AAGAAACATT
* * *
46427742 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
46427791 ATCAAA ATCAAA ATCAGA ATCAAA ATTAGGTA A-CAGA ATTAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
46427840 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
46427873 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 6 0.06
6 78 0.81
7 8 0.08
8 4 0.04
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:46427797 original size:37 final size:37
Alignment explanation
Indices: 46427751--46427872 Score: 139
Period size: 37 Copynumber: 3.5 Consensus size: 37
46427741 TATCAGAACT
* *
46427751 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
46427788 AGAATCAAAATCAAAATCAGAATCAAAATTAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* *
46427825 AGAAT-----T-AGAATCAGTATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
46427856 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
46427873 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 25 0.36
32 1 0.01
36 1 0.01
37 42 0.61
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:46427837 original size:31 final size:31
Alignment explanation
Indices: 46427796--46427872 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
46427786 ACAGAATCAA
*
46427796 AATCAAAATCAGAATCAAAATTAGGTAACAG
1 AATCAAAATCAGAATCAAAATCAGGTAACAG
* * * **
46427827 AATTAGAATCAGTATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAAAATCAGGTAACAG
46427858 AATCAAAATCAGAAT
1 AATCAAAATCAGAAT
46427873 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.22
Consensus pattern (31 bp):
AATCAAAATCAGAATCAAAATCAGGTAACAG
Found at i:46428408 original size:27 final size:27
Alignment explanation
Indices: 46428378--46428772 Score: 441
Period size: 27 Copynumber: 14.7 Consensus size: 27
46428368 AACACCCAAT
* *
46428378 GGGTAAAATGGTAAATTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
46428405 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *** * *
46428432 AGGTAAAACAATAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* **
46428459 GGCT-AAATGGTAATTTTGTAAATAAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
46428485 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
46428512 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
46428539 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
46428566 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
**
46428593 GGGTAAAATAATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
46428620 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
46428647 GGGTAAAATAGTAATTTTGAAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
46428674 GGGTAAAATAGTAATTTTGAAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
46428701 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
****
46428728 GGGTAAAACAAAAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* **
46428755 GAGTAATTTGGTAATTTT
1 GGGTAAAATGGTAATTTT
46428773 ACAAGTTGAG
Statistics
Matches: 314, Mismatches: 53, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 20 0.06
27 294 0.94
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.31
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:46430943 original size:6 final size:6
Alignment explanation
Indices: 46430913--46431037 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
46430903 AAGAAACATT
* * *
46430913 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGGGG A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA--GA ATCAGA ATCAGA
* * * * *
46430962 AACAGA ATCAGA ATCAAA ATTAG- ATGACAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
46431011 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
46431038 GTGAATGAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 7 0.08
6 70 0.78
7 8 0.09
8 5 0.06
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:46430975 original size:37 final size:37
Alignment explanation
Indices: 46430934--46431015 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
46430924 AATCAAAATG
*
46430934 AGAATCAGAATCAGGGGACAGAATCAGAAACAGAATC
1 AGAATCAGAATCAGAGGACAGAATCAGAAACAGAATC
* * * * *
46430971 AGAATCAAAATTAGATGACAGAATTAGAATCAGAATC
1 AGAATCAGAATCAGAGGACAGAATCAGAAACAGAATC
*
46431008 AGTATCAG
1 AGAATCAG
46431016 GTAACAGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.13, G:0.21, T:0.17
Consensus pattern (37 bp):
AGAATCAGAATCAGAGGACAGAATCAGAAACAGAATC
Found at i:46431023 original size:31 final size:31
Alignment explanation
Indices: 46430958--46431037 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
46430948 GGGACAGAAT
* * *
46430958 CAGAAACAGAATCAGAATCAAAATTAGATGA
1 CAGAATCAGAATCAGAATCAAAATCAGATAA
* ** *
46430989 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAAAATCAGATAA
*
46431020 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
46431038 GTGAATGAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAAAATCAGATAA
Found at i:46431204 original size:27 final size:26
Alignment explanation
Indices: 46431156--46431215 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
46431146 GCGAGGCTAC
*
46431156 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
46431183 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
46431209 TAGATAT
1 CAGATAT
46431216 ATATATGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46431574 original size:27 final size:27
Alignment explanation
Indices: 46431544--46431942 Score: 407
Period size: 27 Copynumber: 14.8 Consensus size: 27
46431534 ACACCCAAGT
* *
46431544 GGTAAAATGGTAATTTTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
46431571 GGTAAAA-AGATAATTTTGTAAATCAAA
1 GGTAAAATAG-TAATTTTGTAAATCGAG
* *
46431598 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
46431625 GGTAAAA-CGATAATTTTGCAAATCGAG
1 GGTAAAATAG-TAATTTTGTAAATCGAG
*
46431652 GGTAAAATAGTAATTTTGTAAATTGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
*
46431679 GGTACAATAGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * * * *
46431706 GGTAAGA-CGATAATTCTATAAATTGAG
1 GGTAAAATAG-TAATTTTGTAAATCGAG
*
46431733 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
46431760 GATAAAACAATAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
*
46431787 GGTAAAAT-GCTAATTCTGTAAATCGAG
1 GGTAAAATAG-TAATTTTGTAAATCGAG
46431814 GGTAAAATAGTAATTTT-TAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
46431840 GGTAAAA-CGATAATTTTGGAAATCGAT
1 GGTAAAATAG-TAATTTTGTAAATCGAG
*
46431867 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
*** * *
46431894 GGTACTTTGGTAATTTTAG-AAGTCGAG
1 GGTAAAATAGTAATTTT-GTAAATCGAG
***
46431921 GGTATTTTAGTAATTTTGTAAA
1 GGTAAAATAGTAATTTTGTAAA
46431943 CTAAAGTATT
Statistics
Matches: 310, Mismatches: 49, Indels: 26
0.81 0.13 0.07
Matches are distributed among these distances:
25 1 0.00
26 27 0.09
27 275 0.89
28 7 0.02
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (27 bp):
GGTAAAATAGTAATTTTGTAAATCGAG
Found at i:46434056 original size:6 final size:6
Alignment explanation
Indices: 46434026--46434131 Score: 65
Period size: 6 Copynumber: 17.3 Consensus size: 6
46434016 AAGAAACATT
* * * *
46434026 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA AACAGA ATCAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
46434074 ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT ATCAAGAA AT-AGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA
46434124 ATCAGA AT
1 ATCAGA AT
46434132 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
5 5 0.07
6 61 0.82
7 5 0.07
8 3 0.04
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:46434298 original size:27 final size:26
Alignment explanation
Indices: 46434250--46434309 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
46434240 GCGAGGCTGC
* *
46434250 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
46434277 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
46434303 CAGATAT
1 CAGATAT
46434310 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:46434666 original size:27 final size:27
Alignment explanation
Indices: 46434636--46434934 Score: 377
Period size: 27 Copynumber: 11.1 Consensus size: 27
46434626 AACACCCAAG
* * *
46434636 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* ** *
46434663 GGGTATAACGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
46434690 AGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
46434717 GGGTAATACT-GTAATTTTGTAAATCGA
1 GGGTAA-AATAGTAATTTTGTAAATCGA
46434744 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
46434771 GGGTAAAATAGTAATTCTATAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
46434798 GGGTAAAATAATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** *
46434825 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
46434852 GGGTAAAATAGTAATTTT-TAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
46434878 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
46434905 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
46434932 GGG
1 GGG
46434935 CACTTTGGTA
Statistics
Matches: 234, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 26 0.11
27 206 0.88
28 2 0.01
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:46435675 original size:25 final size:25
Alignment explanation
Indices: 46435647--46435704 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
46435637 CTTCCTCTAA
46435647 GGCGCCACTTCCTTGTCCCCTAAGT
1 GGCGCCACTTCCTTGTCCCCTAAGT
*
46435672 GGCGTCACTTCCTTGTCCCCTAAGT
1 GGCGCCACTTCCTTGTCCCCTAAGT
46435697 GGCGCCAC
1 GGCGCCAC
46435705 CTTGCCACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.12, C:0.40, G:0.22, T:0.26
Consensus pattern (25 bp):
GGCGCCACTTCCTTGTCCCCTAAGT
Found at i:46437116 original size:6 final size:6
Alignment explanation
Indices: 46437086--46437204 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
46437076 AAGAAACATT
* * *
46437086 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAG- ATGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
46437135 ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
46437186 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
46437205 GTGAAAGCAA
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 6 0.07
6 66 0.79
7 8 0.10
8 4 0.05
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:46437136 original size:13 final size:13
Alignment explanation
Indices: 46437118--46437165 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
46437108 GAATCAGAAT
46437118 CAGAATTAGATGA
1 CAGAATTAGATGA
*
46437131 CAGAATCAGA--A
1 CAGAATTAGATGA
*
46437142 TCAGAATTAGGTGA
1 -CAGAATTAGATGA
46437156 CAGAATTAGA
1 CAGAATTAGA
46437166 ATCAAAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
11 1 0.04
12 8 0.29
13 18 0.64
14 1 0.04
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (13 bp):
CAGAATTAGATGA
Found at i:46437140 original size:25 final size:25
Alignment explanation
Indices: 46437107--46437169 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
46437097 AATCAAAATG
46437107 AGAATCAGAATCAGAATTAGATGAC
1 AGAATCAGAATCAGAATTAGATGAC
*
46437132 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTAGATGAC
*
46437157 AGAATTAGAATCA
1 AGAATCAGAATCA
46437170 AAATCAGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGATGAC
Found at i:46437167 original size:31 final size:31
Alignment explanation
Indices: 46437131--46437204 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
46437121 AATTAGATGA
* *
46437131 CAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAAT
* * *
46437162 TAGAATCAAAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAAT
*
46437193 CAAAATCAGAAT
1 CAGAATCAGAAT
46437205 GTGAAAGCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAAT
Found at i:46437371 original size:27 final size:26
Alignment explanation
Indices: 46437323--46437382 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
46437313 GCGAGGCTGC
*
46437323 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
46437350 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
46437376 CAGATAT
1 CAGATAT
46437383 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46437744 original size:27 final size:27
Alignment explanation
Indices: 46437714--46438064 Score: 395
Period size: 27 Copynumber: 13.0 Consensus size: 27
46437704 CTCTAGGAGC
* *
46437714 AAAATGGTAATTTTATAAATCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* * *
46437741 AAAATGGTAATTCTGTAAATCGAAGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* *
46437768 AAAACAGTAATTCTT-TAAATCAAGGGT
1 AAAATAGTAATT-TTGTAAATCGAGGGT
*
46437795 AAAACT-GTAATTCTGTAAATCGAGGGT
1 AAAA-TAGTAATTTTGTAAATCGAGGGT
*
46437822 AAAATAGAAATTTTGTAAATCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* *
46437849 AAAACAGTAATTTTGTAAATCGAGGGG
1 AAAATAGTAATTTTGTAAATCGAGGGT
** * *
46437876 AAAACGGTAATTCTGTAAATCGAAGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
46437903 AAAAT-GATAATTTTGTAAATCGAGGGT
1 AAAATAG-TAATTTTGTAAATCGAGGGT
* * *
46437930 AAAATAGTAATTCTATAAATTGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
46437957 AAAATAGTAATTTTGTAAATCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
** * *
46437984 AAACGA-TAATTTTGTAAATTGAAGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* * *
46438010 AAAACAGCAATTTTGTAAATTGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* * *
46438037 AAATTTGTAATTTTGTAATTCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
46438064 A
1 A
46438065 CTTTGGTAAT
Statistics
Matches: 274, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
26 25 0.09
27 247 0.90
28 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
AAAATAGTAATTTTGTAAATCGAGGGT
Found at i:46437822 original size:81 final size:81
Alignment explanation
Indices: 46437720--46438064 Score: 437
Period size: 81 Copynumber: 4.3 Consensus size: 81
46437710 GAGCAAAATG
* * *
46437720 GTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAAGGTAAAACAGTAATTCTT-T
1 GTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGAAGGTAAAACAGTAATT-TTGT
*
46437784 AAATCAAGGGTAAAACT
65 AAATCGAGGGTAAAACT
* *
46437801 GTAATTCTGTAAATCGAGGGTAAAATAGA-AATTTTGTAAATCGAGGGTAAAACAGTAATTTTGT
1 GTAATTTTGTAAATCGAGGGTAAAAT-GATAATTTTGTAAATCGAAGGTAAAACAGTAATTTTGT
* *
46437865 AAATCGAGGGGAAAACG
65 AAATCGAGGGTAAAACT
* * * * * *
46437882 GTAATTCTGTAAATCGAAGGTAAAATGATAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGAAGGTAAAACAGTAATTTTGTA
*
46437947 AATTGAGGGTAAAA-T
66 AATCGAGGGTAAAACT
* * *
46437962 AGTAATTTTGTAAATCGAGGGT-AAACGATAATTTTGTAAATTGAAGGTAAAACAGCAATTTTGT
1 -GTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGAAGGTAAAACAGTAATTTTGT
* **
46438026 AAATTGAGGGTAAATTT
65 AAATCGAGGGTAAAACT
*
46438043 GTAATTTTGTAATTCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
46438065 CTTTGGTAAT
Statistics
Matches: 232, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
80 73 0.31
81 158 0.68
82 1 0.00
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.32
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGAAGGTAAAACAGTAATTTTGTA
AATCGAGGGTAAAACT
Found at i:46438844 original size:25 final size:25
Alignment explanation
Indices: 46438816--46438870 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
46438806 GCTTCCTCTA
46438816 TGGCGTCACTTCCTTGTCCCCTAAG
1 TGGCGTCACTTCCTTGTCCCCTAAG
46438841 TGGCGTCACTTCCTTGTCCCCTAAG
1 TGGCGTCACTTCCTTGTCCCCTAAG
46438866 TGGCG
1 TGGCG
46438871 CCACCTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.11, C:0.35, G:0.24, T:0.31
Consensus pattern (25 bp):
TGGCGTCACTTCCTTGTCCCCTAAG
Found at i:46448911 original size:50 final size:50
Alignment explanation
Indices: 46448832--46448962 Score: 228
Period size: 50 Copynumber: 2.6 Consensus size: 50
46448822 AAAACTGTGA
46448832 TCACGTGTGTAGTACTAAGTGCAGGCTACTACA-TGTATTAGATGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA-AGTGTATTAGATGGTGAGG
*
46448882 TCAGGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTATTAGATGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTATTAGATGGTGAGG
*
46448932 TCACGTGTGTAGTACTAAGTGCAAGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
46448963 TGCGTACCAG
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
49 1 0.01
50 76 0.99
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTATTAGATGGTGAGG
Found at i:46451180 original size:35 final size:35
Alignment explanation
Indices: 46451138--46451229 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
46451128 ACCTATAGTT
* * **
46451138 CAAATTCAATATAACATCACATATGGCCGAATATG
1 CAAATTCAATATAACATCACATATGACCAAATACA
* * *
46451173 CACATTCAAGATAACTTCACATATGACCAAATACA
1 CAAATTCAATATAACATCACATATGACCAAATACA
46451208 CAAATTCAATATAA-ACTCACAT
1 CAAATTCAATATAACA-TCACAT
46451230 GTAATCGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.25
Consensus pattern (35 bp):
CAAATTCAATATAACATCACATATGACCAAATACA
Found at i:46459703 original size:24 final size:24
Alignment explanation
Indices: 46459671--46459716 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46459661 CCGAGCTGAT
*
46459671 AAATAGTAAGCTCTATTGAGCTAA
1 AAATAGTAAGCTCTATTAAGCTAA
* *
46459695 AAATGGTAAGCTTTATTAAGCT
1 AAATAGTAAGCTCTATTAAGCT
46459717 GAACAATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (24 bp):
AAATAGTAAGCTCTATTAAGCTAA
Found at i:46466631 original size:108 final size:110
Alignment explanation
Indices: 46466478--46466675 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
46466468 ATCCTTTTGA
* *
46466478 AACTTACCATTGCCATGTCTAGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTAGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
46466541 -TTCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
65 TTTCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
* * ** *
46466586 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTAGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
46466651 TTCCATGCCTTGGCATGGTCTTACA
66 TTCCATGCCTTGGCATGGTCTTACA
46466676 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTAGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TTCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
Found at i:46466685 original size:55 final size:54
Alignment explanation
Indices: 46466431--46466685 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
46466421 ACACGGGTAC
**
46466431 CTTACC-ATTGCCATGTCTTGTTATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
46466480 CTTACC-ATTGCCATGTCTAGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * * *
46466533 CTCACCAATT-CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAA
1 CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCC-TTG-CCT-TAGAAA
* * *
46466588 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
46466641 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
46466686 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 39 0.23
54 17 0.10
55 65 0.39
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:46468365 original size:42 final size:43
Alignment explanation
Indices: 46468306--46468396 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
46468296 TAGGGTTAGT
** *
46468306 TGAGATTAAGTGTAAGACCATATTTGGGATA-TGGCATTGATA
1 TGAGATTAAGTGTAAGACCATACCTGGGATATTGGCATCGATA
** *
46468348 TGAGATTTCGTGTAAGACCATACCTGGGCTATTGGCATCGATA
1 TGAGATTAAGTGTAAGACCATACCTGGGATATTGGCATCGATA
*
46468391 TCAGAT
1 TGAGAT
46468397 CCCATGCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 26 0.63
43 15 0.37
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (43 bp):
TGAGATTAAGTGTAAGACCATACCTGGGATATTGGCATCGATA
Found at i:46470143 original size:27 final size:27
Alignment explanation
Indices: 46469987--46470137 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
46469977 TAAGTTGTAA
*
46469987 AATTACCGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46470014 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46470041 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
***
46470068 AATTACCGAAATACTTTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
46470095 AAATACCGAAATACCACTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46470122 AATTACCGAGATACCC
1 AATTACCGAAATACCC
46470138 TTATAGAGTA
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:46470152 original size:27 final size:26
Alignment explanation
Indices: 46469987--46470154 Score: 153
Period size: 27 Copynumber: 6.2 Consensus size: 26
46469977 TAAGTTGTAA
46469987 AATTACCGAAATACCCCTGTAT-GGTAG
1 AATTACCGAAATA-CCCT-TATAGGTAG
*
46470014 AATTACTGAAATACCCCTGTA-AGGTAG
1 AATTACCGAAATA-CCCT-TATAGGTAG
* *
46470041 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCTTATAGG-TAG
** *
46470068 AATTACCGAAATACTTTTGTAGGGTAG
1 AATTACCGAAATACCCTTATA-GGTAG
*
46470095 AAATACCGAAATACCAC-TATAGGGTAG
1 AATTACCGAAATACC-CTTATA-GGTAG
* *
46470122 AATTACCGAGATACCCTTATAGAGTAA
1 AATTACCGAAATACCCTTATAG-GTAG
46470149 AATTAC
1 AATTAC
46470155 TATTTTTCCC
Statistics
Matches: 120, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.01
26 8 0.07
27 109 0.91
28 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (26 bp):
AATTACCGAAATACCCTTATAGGTAG
Found at i:46470153 original size:81 final size:80
Alignment explanation
Indices: 46469983--46470154 Score: 209
Period size: 81 Copynumber: 2.1 Consensus size: 80
46469973 TGGATAAGTT
* * * * *
46469983 GTAAAATTACCGAAATACCCCTGTATGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACC
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCACTATAAGGTAGAATTACC
*
46470048 GAAATACCCCTGTAG
66 GAAATACCCCTATAG
* *** *
46470063 GATAGAATTACCGAAATACTTTTGTAGGGTAGAAATACCGAAATACCACTATAGGGTAGAATTAC
1 G-TAAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCACTATAAGGTAGAATTAC
* *
46470128 CGAGATACCCTTATAG
65 CGAAATACCCCTATAG
46470144 AGTAAAATTAC
1 -GTAAAATTAC
46470155 TATTTTTCCC
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.01
81 74 0.97
82 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (80 bp):
GTAAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCACTATAAGGTAGAATTACC
GAAATACCCCTATAG
Found at i:46470849 original size:27 final size:26
Alignment explanation
Indices: 46470805--46470856 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46470795 CTCGCTACAA
*
46470805 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
46470832 TCTGGTGACTTCGTCACAATATCTA
1 TCTGGTGACCTCGCCACAATATCTA
46470857 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:46470923 original size:26 final size:27
Alignment explanation
Indices: 46470893--46470952 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
46470883 CACGACATAT
* *
46470893 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGACACA
* *
46470919 ATATCTGTATCTGGTGACTTCGACACA
1 ATATCTGTATCTGGTGACCTAGACACA
46470946 ATATCTG
1 ATATCTG
46470953 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGACACA
Found at i:46470923 original size:69 final size:67
Alignment explanation
Indices: 46470792--46470924 Score: 158
Period size: 69 Copynumber: 2.0 Consensus size: 67
46470782 GCATTCTGGA
* * * * * *
46470792 AGCCTCGCTACAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTA
1 AGCCTCGCTACAATCTGGGGGCCACGACACATATATCTATTCTGGTGACCTAGCCACAATATCTA
46470857 GC
66 GC
* * * *
46470859 AGCCTCGCTGCAATCTGGGGGCTTCACGACATATATATCTGTTCTGGTGGCCTAGCCACAATATC
1 AGCCTCGCTACAATCTGGGGGC--CACGACACATATATCTATTCTGGTGACCTAGCCACAATATC
46470924 T
64 T
46470925 GTATCTGGTG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 20 0.37
69 34 0.63
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (67 bp):
AGCCTCGCTACAATCTGGGGGCCACGACACATATATCTATTCTGGTGACCTAGCCACAATATCTA
GC
Found at i:46477028 original size:27 final size:27
Alignment explanation
Indices: 46476986--46477131 Score: 220
Period size: 27 Copynumber: 5.4 Consensus size: 27
46476976 TGGATAAGTT
46476986 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46477013 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
46477040 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46477067 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
46477094 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46477121 GTAAAATTACC
1 GTAGAATTACC
46477132 ATTTTGCCCC
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:46478623 original size:39 final size:40
Alignment explanation
Indices: 46478578--46478745 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
46478568 CGGGGTTTAG
* * *
46478578 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
46478617 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
46478657 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
46478697 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
46478738 CCGGATAT
1 CCGGATAT
46478746 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:46478728 original size:41 final size:40
Alignment explanation
Indices: 46478601--46478745 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
46478591 CTCGCACAAG
* * * * *
46478601 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
46478641 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
46478681 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
46478722 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
46478746 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:46488981 original size:38 final size:38
Alignment explanation
Indices: 46488802--46489008 Score: 167
Period size: 38 Copynumber: 5.6 Consensus size: 38
46488792 TTGAATGATG
* * * * *
46488802 TCGGGCTAAGTCCGAAGGC--TTGTGCTAAGTGACCATA
1 TCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
46488839 TCCGGCTAAGACCTAAGGCA-TTG-GCGAGATACTAAT
1 TCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* * ** * *
46488875 TCAGACTAAGATCGAAGGCATTTGTGCGAGATACTAAT
1 TCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
46488913 TCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46488951 TCGGGTTAAGTCCCG-AGGCATTTGTGCGAGTTAC-ATA
1 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46488988 CCGGGCTATG-CCGAAGGCATT
1 TCGGGCTAAGCCCGAAGGCATT
46489009 GAACGAGTAG
Statistics
Matches: 141, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
35 3 0.02
36 28 0.20
37 30 0.21
38 76 0.54
39 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
TCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46496967 original size:40 final size:39
Alignment explanation
Indices: 46496910--46497094 Score: 150
Period size: 38 Copynumber: 4.7 Consensus size: 39
46496900 TTGAATGATG
* *
46496910 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AGA-T-ACCAAA
*
46496950 TCCGGACTAAGATCCGAAGGCATTTGTG-AGATACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAGATACCAAA
* * *
46496988 TTCGGACTAAGATCCGAAGGCATTTGTGC-GAGTACTAAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAGA-TACCAAA
* * * *
46497027 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-AGATACCAAA
**
46497066 TCCGGGTTAAG-TCCCGAAGGCATTTGTGC
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC
46497095 GAGTTACTAT
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
38 49 0.39
39 33 0.26
40 36 0.29
41 7 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAGATACCAAA
Found at i:46497000 original size:38 final size:37
Alignment explanation
Indices: 46496952--46497093 Score: 151
Period size: 38 Copynumber: 3.7 Consensus size: 37
46496942 TGACCATATC
46496952 CGGACTAAGATCCGAAGGCATTTGTGAGATACTAAATT
1 CGGACTAAG-TCCGAAGGCATTTGTGAGATACTAAATT
*
46496990 CGGACTAAGATCCGAAGGCATTTGTGCGAGTACT-AATT
1 CGGACTAAG-TCCGAAGGCATTTGTGAGA-TACTAAATT
* * * *
46497028 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 -CGGACTAAGTCCGAAGGCATTTGT--GAGATACTAAATT
**
46497068 CGGGTTAAGTCCCGAAGGCATTTGTG
1 CGGACTAAGT-CCGAAGGCATTTGTG
46497094 CGAGTTACTA
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
38 47 0.52
39 24 0.27
40 19 0.21
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (37 bp):
CGGACTAAGTCCGAAGGCATTTGTGAGATACTAAATT
Found at i:46497063 original size:78 final size:78
Alignment explanation
Indices: 46496910--46497131 Score: 240
Period size: 78 Copynumber: 2.8 Consensus size: 78
46496900 TTGAATGATG
* * * * * *
46496910 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
46496973 TTGTGAGATACTAAA
64 TTGTGAGATACTAAA
* *
46496988 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
46497049 TTGTGCGAGTTACTAAA
64 TTGT--GAGATACTAAA
** *
46497066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
46497131 G
66 G
46497132 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
76 15 0.12
77 14 0.11
78 56 0.46
79 22 0.18
80 15 0.12
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGAGATACTAAA
Found at i:46497095 original size:40 final size:40
Alignment explanation
Indices: 46496910--46497131 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
46496900 TTGAATGATG
* * * *
46496910 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
46496950 TCCGGACTAAGAT-CCGAAGGCATTTGT--GAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
46496988 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
46497027 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46497066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46497107 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46497132 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
38 51 0.32
39 31 0.19
40 70 0.44
41 8 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46497149 original size:80 final size:77
Alignment explanation
Indices: 46496963--46497164 Score: 207
Period size: 78 Copynumber: 2.6 Consensus size: 77
46496953 GGACTAAGAT
* * * *
46496963 CCGAAGGCATTTG--TGAGATACTAAATTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGG-TTAA-ATCCCGAAGGCATTTGTGCGAGTACTA
*
46497025 ATTCCGGGCTAAGC
64 ATACCGGGCTAAGC
** *
46497039 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCC-GGTTAAATCCCGAAGGCATTTGTGCGAG-TACTA
*
46497103 ATAACCGGGCTATGTC
64 AT-ACCGGGCTAAG-C
* *
46497119 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGTTAAATCCCGAAGG
46497165 TACGTGATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
76 13 0.12
77 1 0.01
78 36 0.34
79 31 0.29
80 25 0.24
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGTTAAATCCCGAAGGCATTTGTGCGAGTACTAAT
ACCGGGCTAAGC
Found at i:46497163 original size:79 final size:78
Alignment explanation
Indices: 46497000--46497164 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 78
46496990 CGGACTAAGA
* **
46497000 TCCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
46497065 ATCCGGGTTAAGT
66 ATCCGGGTTAAAT
* *
46497078 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAG-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
*
46497141 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
46497157 TCCGAAGG
1 TCCGAAGG
46497165 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
78 21 0.28
79 29 0.39
80 25 0.33
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAAT
Found at i:46500057 original size:38 final size:38
Alignment explanation
Indices: 46500014--46500222 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
46500004 TTTCAAATTA
* *
46500014 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
46500052 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * *
46500093 GAATCAATATATGTAACCGTGGCATATCCACTTTGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
46500137 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGTACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
46500185 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
46500223 TTTTCCATTC
Statistics
Matches: 137, Mismatches: 17, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
38 61 0.45
39 1 0.01
40 2 0.01
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 26 0.19
48 33 0.24
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:46500168 original size:48 final size:48
Alignment explanation
Indices: 46500059--46500192 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
46500049 GTTACATGTT
* *
46500059 TAACCATGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
46500106 TAACCGTGGCATATCCACTTTGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
46500154 TAATCGTGGTATATCCACTTAGTACCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
46500193 AACCGTGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 29 0.38
48 47 0.62
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:46501818 original size:20 final size:20
Alignment explanation
Indices: 46501780--46501818 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46501770 AACTTCTTCA
* *
46501780 CTTACTCACTTACTTAAATG
1 CTTACTCACTTAATCAAATG
*
46501800 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
46501819 TTATTAATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATG
Found at i:46502135 original size:53 final size:55
Alignment explanation
Indices: 46502073--46502201 Score: 167
Period size: 54 Copynumber: 2.4 Consensus size: 55
46502063 CATGTCTCGA
* * *
46502073 CATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-TGTCATGCCTTAG
1 CATGGTCTTACATGGTATCCTTCCCTTA-GAAACCTCACCAATTGCCATACCTTAG
* * *
46502126 CATGGTCTTACATGGGA-CCTTCCCTTAGAAACCTTACCAATTGCCATACCTTGG
1 CATGGTCTTACATGGTATCCTTCCCTTAGAAACCTCACCAATTGCCATACCTTAG
46502180 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
46502202 AAACCCTAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
51 1 0.02
52 11 0.17
53 23 0.35
54 26 0.40
55 4 0.06
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.33
Consensus pattern (55 bp):
CATGGTCTTACATGGTATCCTTCCCTTAGAAACCTCACCAATTGCCATACCTTAG
Found at i:46502193 original size:54 final size:52
Alignment explanation
Indices: 46502003--46502201 Score: 194
Period size: 49 Copynumber: 3.8 Consensus size: 52
46501993 ACACGGGTAC
* *
46502003 CTTACCATTGCCATGA-CTTGTCATGGTCTTACGTGGTATCCTT--TT-GAAA
1 CTTACCATTGCCAT-ACCTTGGCATGGTCTTACATGGTATCCTTCCTTAGAAA
** * *
46502052 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCATTGCCATACCTTGGCATGGTCTTACATGGTATCCTT-CCTTA-GAAA
* * * * * *
46502105 CTCACCAATGTCATGCCTTAGCATGGTCTTACATGGGA-CCTTCCCTTAGAAA
1 CTTACCATTGCCATACCTTGGCATGGTCTTACATGGTATCCTT-CCTTAGAAA
46502157 CCTTACCAATTGCCATACCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTGCCATACCTTGGCATGGTCTTACATGGTATCCTT
46502202 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
49 38 0.31
51 1 0.01
52 13 0.11
53 37 0.31
54 28 0.23
55 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (52 bp):
CTTACCATTGCCATACCTTGGCATGGTCTTACATGGTATCCTTCCTTAGAAA
Found at i:46503845 original size:46 final size:46
Alignment explanation
Indices: 46503795--46503920 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
46503785 TGGTTGAGCA
* *
46503795 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
46503841 TCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
46503887 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46503921 GGGCGGGTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:46511431 original size:93 final size:93
Alignment explanation
Indices: 46511272--46511442 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
46511262 GGATGGTTGA
* * * * *
46511272 GCATCCGAACTCATTGAGTTAAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTCAGTTAAGTCCAAGCTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
46511337 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * ** *
46511365 GCATCCGAACTCGTTCAGTTGAGTCTGAGCTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTCAGTTAAGTCCAAGCTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
46511430 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
46511443 ACTTAGGGGG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTCAGTTAAGTCCAAGCTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:46520459 original size:42 final size:42
Alignment explanation
Indices: 46520410--46520521 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
46520400 TGAGATTACG
* ****
46520410 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTTG
1 TGTAAGACCATATCTAGGATATGGCATCGATATCAGATCCCA
* * * *
46520452 TTTAAGACCATACCTGGGCTATTGGCATCGATATCAGATCCCA
1 TGTAAGACCATATCTAGGATA-TGGCATCGATATCAGATCCCA
*
46520495 TGTAAGGCCATATCTAGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
46520522 TGGTATAACA
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCGATATCAGATCCCA
Found at i:46525905 original size:18 final size:19
Alignment explanation
Indices: 46525866--46525907 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
46525856 ATCAAAGACC
46525866 AATTTGAGACAAAATAGAA
1 AATTTGAGACAAAATAGAA
* *
46525885 AATTTGGGATAAAAT-GAA
1 AATTTGAGACAAAATAGAA
46525903 AATTT
1 AATTT
46525908 TCAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (19 bp):
AATTTGAGACAAAATAGAA
Found at i:46526830 original size:34 final size:34
Alignment explanation
Indices: 46526791--46526873 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
46526781 CGTTAACCAT
** *
46526791 CCAGCACACCGTATGCTCGTATGAGCCAATCCAC
1 CCAGCACACCAAATGCTCGTAAGAGCCAATCCAC
* * *
46526825 CCAGCACACTAAATGCTCGTAAGAGCTAATCCAT
1 CCAGCACACCAAATGCTCGTAAGAGCCAATCCAC
*
46526859 CTAGCACACCAAATG
1 CCAGCACACCAAATG
46526874 GACTATATCG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.33, C:0.34, G:0.16, T:0.18
Consensus pattern (34 bp):
CCAGCACACCAAATGCTCGTAAGAGCCAATCCAC
Found at i:46531370 original size:53 final size:53
Alignment explanation
Indices: 46531276--46531383 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 53
46531266 TATAATTTTT
46531276 TATTAAAAAATGAATGATTAAATCTGAAGATACCATGTGTCACCATCTAATAGG
1 TATTAAAAAATGAATGATTAAATCTGAAGA-ACCATGTGTCACCATCTAATAGG
46531330 TATTAAAAAAATGAATGATTAAATCTGAAG-ACCATGTGTCACCATCTAATAGG
1 TATT-AAAAAATGAATGATTAAATCTGAAGAACCATGTGTCACCATCTAATAGG
46531383 T
1 T
46531384 CCAGTAATTG
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
53 24 0.45
54 4 0.08
55 25 0.47
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (53 bp):
TATTAAAAAATGAATGATTAAATCTGAAGAACCATGTGTCACCATCTAATAGG
Found at i:46536390 original size:43 final size:43
Alignment explanation
Indices: 46536246--46536402 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
46536236 TGTGTTATCT
* * * **
46536246 TGTAAGACCATGTCTGGAACATTTGCATCGAT-TTGTGATTTATG
1 TGTAAGACCACGTCTGGGACATTCGCATCGATATT-TGA-TTACA
* * * *
46536290 TGTAAGACCATGTCTGGGACATTCACATCG-TATATGATTTCA
1 TGTAAGACCACGTCTGGGACATTCGCATCGATATTTGATTACA
* * *
46536332 TGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTCGCATCGATATTTGATTACA
*
46536375 TGTAAGACCACGTCTGAGACATTCGCAT
1 TGTAAGACCACGTCTGGGACATTCGCAT
46536403 TGTATGAGCT
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.29
43 36 0.40
44 29 0.32
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTCGCATCGATATTTGATTACA
Found at i:46546061 original size:93 final size:93
Alignment explanation
Indices: 46545902--46546073 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
46545892 CGCCCATAAG
* *
46545902 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAACTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCA
46545967 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
46545995 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCA
46546060 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
46546074 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:46546070 original size:46 final size:46
Alignment explanation
Indices: 46545895--46546070 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
46545885 TGTAACCCGC
* *
46545895 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
46545941 CCATAA-CTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGC-GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
46545991 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
46546034 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
46546071 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 61 0.55
47 28 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46550970 original size:46 final size:46
Alignment explanation
Indices: 46550805--46550980 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
46550795 TGTAACCCGC
* * * *
46550805 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
46550851 CCATAACTGAACTCGGACGCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
46550901 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
46550944 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46550981 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
45 2 0.02
46 58 0.54
47 27 0.25
49 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46550973 original size:93 final size:93
Alignment explanation
Indices: 46550814--46550983 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
46550804 CCCATAAGCG
*
46550814 AACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCACCCATAACTGAACTCGGACGCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCACCCATAACTGAACTCGGACGCAACTCAAC
46550879 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
* * * *
46550907 AACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCACCCATAACTGAACTCGGACGCAACTCAA
46550971 CGAGTTCGGATGC
65 CGAGTTCGGATGC
46550984 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCACCCATAACTGAACTCGGACGCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Done.