Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 15 of 444
Found at i:4546165 original size:75 final size:73
Alignment explanation
Indices: 4546038--4546197 Score: 214
Period size: 75 Copynumber: 2.2 Consensus size: 73
4546028 TTGAAAAACG
* *
4546038 GAAATTGAAAATACCTCGGCGTGTGACCTGAGACTCAACTCACTTCTCGCAATATGAGTTAATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGACTCAACTCACCTCTCGCAATATGAGTTAA---
*
4546103 TTTTGATGAACA
62 TTTTGACGAACA
* * * *
4546115 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTT
4546179 GACGAACA
66 GACGAACA
4546187 GAAATTGAAAA
1 GAAATTGAAAA
4546198 ATAGAAATTG
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
72 21 0.28
75 32 0.43
77 22 0.29
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (73 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTT
GACGAACA
Found at i:4546261 original size:88 final size:87
Alignment explanation
Indices: 4546114--4546287 Score: 251
Period size: 88 Copynumber: 2.0 Consensus size: 87
4546104 TTTGATGAAC
* * * *
4546114 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
4546178 TGACGAACAGAAATTGAAAAAT
66 TGACGAACAGAAATTGAAAAAT
*
4546200 AGAAATTGAAAATACCTCAGCACGTGAGCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
1 AGAAATTGAAAATACCTCAG--CGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA--
*
4546265 TTTTTGATGAACAGAAATTGAAA
62 TTTTTGACGAACAGAAATTGAAA
4546288 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
86 19 0.25
88 37 0.48
91 21 0.27
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (87 bp):
AGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
TGACGAACAGAAATTGAAAAAT
Found at i:4546329 original size:75 final size:76
Alignment explanation
Indices: 4546191--4546361 Score: 238
Period size: 75 Copynumber: 2.2 Consensus size: 76
4546181 CGAACAGAAA
* * *
4546191 TTGAAAAATAGAAATTGAAAATACCTCAGCACGTGAGCTGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAACACAGAAATTGAAAATACCTCAG-ACGTGACCTGAGGCTCAACTCACCTCTCACAATAT
*
4546256 GAGTTGATTTTT
65 GAGCTGATTTTT
* * * *
4546268 TTGATGA-ACAGAAATTGAAATTACCTCAG-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGA-AACACAGAAATTGAAAATACCTCAGACGTGACCTGAGGCTCAACTCACCTCTCACAATAT
4546331 GAGCTGATTTTT
65 GAGCTGATTTTT
4546343 TTGAAACACAGAAATTGAA
1 TTGAAACACAGAAATTGAA
4546362 GAACAGAAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
74 1 0.01
75 58 0.69
77 24 0.29
78 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (76 bp):
TTGAAACACAGAAATTGAAAATACCTCAGACGTGACCTGAGGCTCAACTCACCTCTCACAATATG
AGCTGATTTTT
Found at i:4546462 original size:166 final size:163
Alignment explanation
Indices: 4545974--4546528 Score: 704
Period size: 163 Copynumber: 3.3 Consensus size: 163
4545964 AGAAATTAAA
** *
4545974 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAGGCAGAAATTGAAAAACGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTGAAAACAGAAATTGAAAAACAG
* * * *
4546039 AAATTGAAAATACCTCGGCGTGTGACCTGAGACTCAACTCACTTCTCGCAATATGAGTTAATTTT
60 AAATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
4546104 TTTGATGAACAGAAATTGAAATTACCTCAGCGTGTCCTG
125 TTTGATGAACAGAAATTGAAATTACCTCAGCGTGTCCTG
* * *
4546143 AGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAATAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAAACAGAAATT
* * * *
4546207 GAAAATACCTCAGCACGTGAGCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGA
65 GAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGA
4546272 TGAACAGAAATTGAAATTACCTCAGCGTGTCCTG
130 TGAACAGAAATTGAAATTACCTCAGCGTGTCCTG
* *
4546306 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAAACAGAAA
* * * * *
4546371 TAGAAAACACCTCAGAATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTT
63 TTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTT
* * ** *
4546436 -A-AACACAAAAATTGAAAAACACCTCAGCGTGTGACCCG
128 GATGA-ACAGAAATTG-AAATTACCTCAGCGTGT--CCTG
*
4546474 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATT-AAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAA
4546529 GGCTCAACTC
Statistics
Matches: 340, Mismatches: 36, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
162 6 0.02
163 141 0.41
164 1 0.00
165 14 0.04
166 110 0.32
167 3 0.01
168 34 0.10
169 31 0.09
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (163 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTG
AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAT
GAACAGAAATTGAAATTACCTCAGCGTGTCCTG
Found at i:4546538 original size:54 final size:54
Alignment explanation
Indices: 4546474--4547130 Score: 1053
Period size: 54 Copynumber: 12.0 Consensus size: 54
4546464 GTGTGACCCG
*
4546474 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
4546528 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
4546582 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* * *
4546636 AGGTTCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
4546690 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
*
4546746 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
*
4546802 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* * *
4546856 AGGTTCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
4546910 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
* *
4546966 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAATAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
*
4547022 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* * * *
4547076 AGGCTCAACTCACCTTTCGCAATATGAGTTAATTTTTGACAAACAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
4547130 A
1 A
4547131 TTACCTCAGC
Statistics
Matches: 568, Mismatches: 31, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
54 361 0.64
56 207 0.36
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:4546798 original size:274 final size:273
Alignment explanation
Indices: 4546478--4547130 Score: 1094
Period size: 274 Copynumber: 2.4 Consensus size: 273
4546468 GACCCGAGGC
*
4546478 TCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
4546543 CTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATG
66 CTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATG
* * *
4546608 AGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGTAATATGAGTTGA-TTTT
131 AGTTGATTTTTAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
4546672 TAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACA
196 TAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
* *
4546737 TAAATTAAAAGGT
261 GAAAATAAAAGGT
*
4546750 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCAC
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCAC
* * *
4546815 CTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGTAATA
64 CTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATA
4546880 TGAGTTGATTTTTAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
129 TGAGTTGATTTTTAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* * * *
4546945 TTTTGACAAACATAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
193 TTTTAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
4547010 ACAGAAAATAAAAGGT
258 ACAGAAAATAAAAGGT
4547026 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
* * *
4547091 TTCGCAATATGAGTTAATTTTT-GACAAACAAAAATTAAAA
66 CTCGCAATATGAGTTGATTTTTGGA-AAACAGAAATTAAAA
4547131 TTACCTCAGC
Statistics
Matches: 356, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
272 28 0.08
273 1 0.00
274 224 0.63
276 103 0.29
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (273 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
GAAAATAAAAGGT
Found at i:4546852 original size:220 final size:220
Alignment explanation
Indices: 4546474--4547130 Score: 1160
Period size: 220 Copynumber: 3.0 Consensus size: 220
4546464 GTGTGACCCG
* * * *
4546474 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAACAGAAATTAAAAGGCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTAAAAGGTTCAAC
* *
4546537 TCACCTCTCGCAATATGAGTTGA--TTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACCTCTC
66 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTC
4546600 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGTAATATGAGT
131 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGTAATATGAGT
4546665 TGATTTTTAAAAAACAGAAATTAAA
196 TGATTTTTAAAAAACAGAAATTAAA
4546690 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTAAAAGGTTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTAAAAGGTTCAAC
4546755 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTC
66 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTC
4546820 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGTAATATGAGT
131 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGTAATATGAGT
4546885 TGATTTTTAAAAAACAGAAATTAAA
196 TGATTTTTAAAAAACAGAAATTAAA
4546910 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTAAAAGGTTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTAAAAGGTTCAAC
*
4546975 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAATAAAAGGTTCAACTCACCTCTC
66 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTC
* * *
4547040 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTTTCGCAATATGAGT
131 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGTAATATGAGT
* * * *
4547105 TAATTTTTGACAAACAAAAATTAAA
196 TGATTTTTAAAAAACAGAAATTAAA
4547130 A
1 A
4547131 TTACCTCAGC
Statistics
Matches: 423, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
216 32 0.08
218 50 0.12
220 341 0.81
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (220 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTAAAAGGTTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGTAATATGAGT
TGATTTTTAAAAAACAGAAATTAAA
Found at i:4547328 original size:75 final size:75
Alignment explanation
Indices: 4547076--4547361 Score: 375
Period size: 75 Copynumber: 3.8 Consensus size: 75
4547066 AGAAATTAAA
* * * *
4547076 AGGCTCAACTCACCTTTCGCAATATGAGTT-A-ATTTTTGACAAACAAAAATTAAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCA
4547139 GCGTGTCCTG
66 GCGTGTCCTG
* *
4547149 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAA-ATAGAAATCGACAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT---GA-CA-AACAT--AAATTGA-AA
*
4547213 -TACCTCAGCGTGCCCTG
58 TTACCTCAGCGTGTCCTG
4547230 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCA
4547295 GCGTGTCCTG
66 GCGTGTCCTG
* *
4547305 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGA-AAAGCAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAA-CATAAATTGAAA
4547362 AGCAGAAATT
Statistics
Matches: 188, Mismatches: 12, Indels: 24
0.84 0.05 0.11
Matches are distributed among these distances:
73 28 0.15
74 6 0.03
75 78 0.41
76 2 0.01
77 4 0.02
78 4 0.02
79 3 0.02
80 2 0.01
81 59 0.31
82 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCA
GCGTGTCCTG
Found at i:4547361 original size:14 final size:14
Alignment explanation
Indices: 4547342--4547376 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
4547332 GTTAATTTTT
4547342 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
4547356 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
4547370 TTGAAAA
1 TTGAAAA
4547377 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:4547429 original size:89 final size:90
Alignment explanation
Indices: 4547272--4547531 Score: 377
Period size: 89 Copynumber: 2.9 Consensus size: 90
4547262 TTTTTTTGAC
* *
4547272 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
4547337 TTTTTTTGAAAAGCAGAAATTG-A-A
66 -TTTTTTGAAAAACAGAAATTGAAGA
* * ** *
4547361 AAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
4547426 TTTTTTGAAAAACATAAATTGAAGA
66 TTTTTTGAAAAACAGAAATTGAAGA
*
4547451 AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
4547516 -ATTTTG--AAACAGAAAT
66 TTTTTTGAAAAACAGAAAT
4547532 AAAAGCATCA
Statistics
Matches: 152, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
87 9 0.06
88 19 0.12
89 64 0.42
90 60 0.39
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (90 bp):
AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTGAAAAACAGAAATTGAAGA
Found at i:4547455 original size:16 final size:16
Alignment explanation
Indices: 4547434--4547464 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4547424 GATTTTTTGA
*
4547434 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
4547450 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
4547465 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:4554600 original size:18 final size:17
Alignment explanation
Indices: 4554579--4554626 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
4554569 AATATATACG
4554579 TAATATGTATAATAAAAA
1 TAATATGTATAA-AAAAA
*
4554597 TAATAATATATAAAAAAA
1 TAAT-ATGTATAAAAAAA
*
4554615 TATATACGTATA
1 TA-ATATGTATA
4554627 TAACAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
TAATATGTATAAAAAAA
Found at i:4554628 original size:20 final size:20
Alignment explanation
Indices: 4554586--4554641 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
4554576 ACGTAATATG
4554586 TATAATAAAAATA-ATA-ATA
1 TATAA-AAAAATATATACATA
*
4554605 TATAAAAAAATATATACGTA
1 TATAAAAAAATATATACATA
* *
4554625 TATAACAAAACATATAC
1 TATAAAAAAATATATAC
4554642 TACGGTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.22
19 8 0.25
20 17 0.53
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (20 bp):
TATAAAAAAATATATACATA
Found at i:4554881 original size:8 final size:8
Alignment explanation
Indices: 4554858--4554895 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
4554848 ATACGTAAAT
*
4554858 ATATATAT
1 ATATATAC
4554866 ATATATAC
1 ATATATAC
4554874 ATATATAC
1 ATATATAC
*
4554882 ATA-AAAC
1 ATATATAC
4554889 ATATATA
1 ATATATA
4554896 AACATTGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATATAC
Found at i:4555032 original size:3 final size:3
Alignment explanation
Indices: 4555024--4555074 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
4555014 ACAAAAGCAC
4555024 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4555072 ATA
1 ATA
4555075 TATGAAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4558356 original size:20 final size:20
Alignment explanation
Indices: 4558331--4558379 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4558321 TGCATTCCAC
*
4558331 TTAATATTTTTTATATTA-TT
1 TTAATATTTTATAT-TTACTT
*
4558351 TTAATAATTTATATTTACTT
1 TTAATATTTTATATTTACTT
*
4558371 TTAAGATTT
1 TTAATATTT
4558380 ATTTTTAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTAATATTTTATATTTACTT
Found at i:4563350 original size:31 final size:31
Alignment explanation
Indices: 4563314--4563376 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
4563304 AGGTTCTGCC
4563314 TTAATTTTCAATTTTCCCTAAAAAAGAAGAA
1 TTAATTTTCAATTTTCCCTAAAAAAGAAGAA
4563345 TTAATTTTCAATTTTCCCTAAAAAAGAAGAA
1 TTAATTTTCAATTTTCCCTAAAAAAGAAGAA
4563376 T
1 T
4563377 CCTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (31 bp):
TTAATTTTCAATTTTCCCTAAAAAAGAAGAA
Found at i:4567723 original size:30 final size:30
Alignment explanation
Indices: 4567687--4567749 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
4567677 CCTTTTCAAT
4567687 AATACAAGCAAAAATGTTAACATCAAATTC
1 AATACAAGCAAAAATGTTAACATCAAATTC
4567717 AATACAAGCAAAAATGTTAACATCAAATTC
1 AATACAAGCAAAAATGTTAACATCAAATTC
4567747 AAT
1 AAT
4567750 CATTCAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.24
Consensus pattern (30 bp):
AATACAAGCAAAAATGTTAACATCAAATTC
Found at i:4568988 original size:5 final size:5
Alignment explanation
Indices: 4568978--4569010 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
4568968 CAACCTTATT
4568978 AAATA AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
4569011 ACCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:4572112 original size:33 final size:33
Alignment explanation
Indices: 4572066--4572128 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
4572056 AAAAATATTT
** *
4572066 TTTAAAATAAAAAATTATAGAAAACAAAAACTC
1 TTTAAAATAAAAAAAAATAAAAAACAAAAACTC
*
4572099 TTTAAAATTAAAAAAAATAAAAAACAAAAA
1 TTTAAAATAAAAAAAAATAAAAAACAAAAA
4572129 TTCTAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (33 bp):
TTTAAAATAAAAAAAAATAAAAAACAAAAACTC
Found at i:4573208 original size:19 final size:19
Alignment explanation
Indices: 4573184--4573262 Score: 99
Period size: 19 Copynumber: 4.2 Consensus size: 19
4573174 AATCTTTAAA
* *
4573184 GATATGCAATATTAGACAT
1 GATATGCAATCTTAGATAT
4573203 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4573222 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
4573239 GATGTGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
4573260 GAT
1 GAT
4573263 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
21 9 0.17
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4573235 original size:36 final size:37
Alignment explanation
Indices: 4573190--4573262 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
4573180 TAAAGATATG
4573190 CAATATTAGACATGATATGCAATCTT-AGATATGATA
1 CAATATTAGACATGATATGCAATCTTAAGATATGATA
* * *
4573226 CAATCTTAGATATGATGTGCAATCTTGAAGATATGAT
1 CAATATTAGACATGATATGCAATCTT-AAGATATGAT
4573263 CTTGTAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 23 0.72
38 9 0.28
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (37 bp):
CAATATTAGACATGATATGCAATCTTAAGATATGATA
Found at i:4573279 original size:22 final size:21
Alignment explanation
Indices: 4573201--4573262 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 21
4573191 AATATTAGAC
*
4573201 ATGATATGCAATCTT--AGAT
1 ATGATGTGCAATCTTGAAGAT
*
4573220 ATGA--TACAATCTT--AGAT
1 ATGATGTGCAATCTTGAAGAT
4573237 ATGATGTGCAATCTTGAAGAT
1 ATGATGTGCAATCTTGAAGAT
4573258 ATGAT
1 ATGAT
4573263 CTTGTAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 16 0.43
19 12 0.32
21 9 0.24
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (21 bp):
ATGATGTGCAATCTTGAAGAT
Found at i:4573675 original size:16 final size:15
Alignment explanation
Indices: 4573647--4573698 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 15
4573637 TCTATGTATG
4573647 TATATAT-ATTATAT
1 TATATATCATTATAT
4573661 TATATATCATGTATAT
1 TATATATCAT-TATAT
4573677 CGTATATCATCTATTATAT
1 --TATAT-ATC-ATTATAT
4573696 TAT
1 TAT
4573699 TTATGTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.22
15 2 0.06
16 5 0.16
17 3 0.09
18 5 0.16
19 8 0.25
20 2 0.06
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (15 bp):
TATATATCATTATAT
Found at i:4573860 original size:8 final size:9
Alignment explanation
Indices: 4573813--4573868 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
4573803 TTACTCACTT
4573813 TATTTTATA
1 TATTTTATA
*
4573822 TTTTTTATA
1 TATTTTATA
**
4573831 TATACTA-A
1 TATTTTATA
4573839 TTATTTTATA
1 -TATTTTATA
4573849 TATTTT-TA
1 TATTTTATA
*
4573857 TATTGTATA
1 TATTTTATA
4573866 TAT
1 TAT
4573869 CATTTATGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
8 8 0.22
9 28 0.76
10 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TATTTTATA
Found at i:4582637 original size:2 final size:2
Alignment explanation
Indices: 4582630--4582667 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4582620 TCATAGAGCA
*
4582630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4582668 TACATCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4589125 original size:2 final size:2
Alignment explanation
Indices: 4589084--4589110 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4589074 TGTATTATTT
4589084 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4589111 TTTGTTACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4589254 original size:26 final size:28
Alignment explanation
Indices: 4589202--4589254 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
4589192 CAATTTTACT
*
4589202 TGTATATATATGTTTCATAAATTTATTA
1 TGTATATATATGTTTCATAAATGTATTA
4589230 TGTATAT-TAT-TTT-ATATAATGTATT
1 TGTATATATATGTTTCATA-AATGTATT
4589255 GTCATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.13
26 10 0.43
27 3 0.13
28 7 0.30
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (28 bp):
TGTATATATATGTTTCATAAATGTATTA
Found at i:4589680 original size:2 final size:2
Alignment explanation
Indices: 4589673--4589701 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4589663 TAAACCCTTT
4589673 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4589702 GTTTTGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4590578 original size:16 final size:17
Alignment explanation
Indices: 4590557--4590588 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4590547 ACAACTTAGA
4590557 ATTTTAAA-CCATGTCT
1 ATTTTAAACCCATGTCT
4590573 ATTTTAAACCCATGTC
1 ATTTTAAACCCATGTC
4590589 GTATAGCAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTTAAACCCATGTCT
Found at i:4591725 original size:3 final size:3
Alignment explanation
Indices: 4591717--4591955 Score: 250
Period size: 3 Copynumber: 78.7 Consensus size: 3
4591707 TCGAATTTCA
4591717 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4591765 TAT TAT TAT TGT TAT AAT TAT TAT TCCT GAT T-T TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT T-AT
* *
4591811 GTAT TAT TGT TAT TCT TCA- TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 -TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * * * *
4591856 CTAT TAT TATT TAT TAC CAA AAC TAC TAC TAC TAC TAC TAC TAT TAT
1 -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4591903 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4591951 TAT TA
1 TAT TA
4591956 CCACCTTATT
Statistics
Matches: 208, Mismatches: 19, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
2 5 0.02
3 191 0.92
4 11 0.05
5 1 0.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4592031 original size:22 final size:23
Alignment explanation
Indices: 4591994--4592037 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
4591984 CCATCATATT
*
4591994 TTTTATTTTATTATTATTACTAA
1 TTTTATTTTATCATTATTACTAA
4592017 TTTT-TTTTATCATTATTACTA
1 TTTTATTTTATCATTATTACTA
4592038 TAGTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTATTTTATCATTATTACTAA
Found at i:4597119 original size:53 final size:54
Alignment explanation
Indices: 4596987--4597137 Score: 191
Period size: 53 Copynumber: 2.8 Consensus size: 54
4596977 ATAAGTGCGC
* * **
4596987 CCGTTTAAGACCATAGCTGGGCTATGACATCGGTGCAATGTGATAATGTGACTT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTT
4597041 -CGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGA-TT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTT
* * *
4597093 CCGTATAAGACCAT-GTTTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
4597138 ACCGTGTAAG
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
52 3 0.03
53 76 0.88
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (54 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTT
Found at i:4604165 original size:53 final size:53
Alignment explanation
Indices: 4604029--4604174 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
4604019 TGCGCCCATT
* *
4604029 TAAGACTATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
4604082 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
4604135 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
4604175 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:4606312 original size:17 final size:16
Alignment explanation
Indices: 4606293--4606353 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 16
4606283 TCAAATTCAA
*
4606293 AAAAAAAAAAC-ACAC
1 AAAAAAAAAACAAAAC
*
4606308 AAAAAAAAGAAGAAAAC
1 AAAAAAAA-AACAAAAC
4606325 AAAAAAATAAACAAAAAC
1 AAAAAAA-AAAC-AAAAC
4606343 AAAAACAAAAA
1 AAAAA-AAAAA
4606354 AGTAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.21
16 2 0.05
17 12 0.32
18 14 0.37
19 2 0.05
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAACAAAAC
Found at i:4606352 original size:24 final size:24
Alignment explanation
Indices: 4606320--4606365 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4606310 AAAAAAGAAG
*
4606320 AAAACAAAAAAATAAACAAAAACA
1 AAAACAAAAAAATAAAAAAAAACA
*
4606344 AAAACAAAAAAGTAAAAAAAAA
1 AAAACAAAAAAATAAAAAAAAA
4606366 TCGTGCAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.04
Consensus pattern (24 bp):
AAAACAAAAAAATAAAAAAAAACA
Found at i:4606686 original size:35 final size:35
Alignment explanation
Indices: 4606640--4606745 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
4606630 CACTTGCCTC
4606640 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
4606675 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
4606710 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
4606745 T
1 T
4606746 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:4607191 original size:33 final size:33
Alignment explanation
Indices: 4607149--4607223 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
4607139 AGAGGGGAAG
*
4607149 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
4607181 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
4607215 -AAAAAAAAA
1 CAAAAAAAAA
4607224 CAAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 9 0.24
33 21 0.55
34 8 0.21
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (33 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:4607508 original size:11 final size:11
Alignment explanation
Indices: 4607479--4607528 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
4607469 CGACCGGATT
* *
4607479 TCCCTTCCCCC
1 TCCCTTCTCTC
4607490 TCCCTTCTCTC
1 TCCCTTCTCTC
4607501 TCCCTTCTCTC
1 TCCCTTCTCTC
4607512 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
4607523 TTCCTT
1 TCCCTT
4607529 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:4608073 original size:21 final size:21
Alignment explanation
Indices: 4608049--4608101 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
4608039 TCATTTCTAA
4608049 TATGTATATATATATATATAT
1 TATGTATATATATATATATAT
*
4608070 TATGTGTATATATATATATAT
1 TATGTATATATATATATATAT
4608091 TATGTATATAT
1 TATGTATATAT
4608102 GCCATTAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (21 bp):
TATGTATATATATATATATAT
Found at i:4608117 original size:2 final size:2
Alignment explanation
Indices: 4608048--4608101 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
4608038 ATCATTTCTA
* * *
4608048 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4608089 AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT
4608102 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4620419 original size:70 final size:70
Alignment explanation
Indices: 4620332--4620920 Score: 980
Period size: 70 Copynumber: 8.2 Consensus size: 70
4620322 CAAGTGACAG
*
4620332 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
4620397 GTTTC
66 GTTTC
4620402 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
4620467 GTTTC
66 GTTTC
*
4620472 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
4620537 GTTTC
66 GTTTC
*
4620542 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
4620607 AATTTATGTTTC
59 AATTTATGTTTC
*
4620619 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
4620684 GTTTC
66 GTTTC
*
4620689 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
4620754 GTTTC
66 GTTTC
*
4620759 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
4620824 AATTTATGTTTC
59 AATTTATGTTTC
*
4620836 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
4620901 GTTTC
66 GTTTC
4620906 AAAAATCAACTCATA
1 -AAAATCAACTCATA
4620921 GGTGAGTTGA
Statistics
Matches: 492, Mismatches: 12, Indels: 29
0.92 0.02 0.05
Matches are distributed among these distances:
70 336 0.68
71 18 0.04
72 2 0.00
75 2 0.00
76 4 0.01
77 130 0.26
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:4620618 original size:77 final size:77
Alignment explanation
Indices: 4620526--4620898 Score: 603
Period size: 77 Copynumber: 5.0 Consensus size: 77
4620516 GTTGAGGTAA
*
4620526 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
4620591 GGTAATTTCAAT
66 GGTAATTTCAAT
*
4620603 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
4620668 GG-----T-AA-
66 GGTAATTTCAAT
*
4620673 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
4620738 GG-----T-AA-
66 GGTAATTTCAAT
*
4620743 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
4620808 GGTAATTTCAAT
66 GGTAATTTCAAT
*
4620820 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
4620885 GGTAATTTCAAT
66 GGTAATTTCAAT
4620897 TT
1 TT
4620899 ATGTTTCAAA
Statistics
Matches: 281, Mismatches: 8, Indels: 14
0.93 0.03 0.05
Matches are distributed among these distances:
70 133 0.47
71 2 0.01
72 1 0.00
75 1 0.00
76 2 0.01
77 142 0.51
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTAATTTCAAT
Found at i:4620700 original size:217 final size:217
Alignment explanation
Indices: 4620332--4620920 Score: 1093
Period size: 217 Copynumber: 2.7 Consensus size: 217
4620322 CAAGTGACAG
* *
4620332 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
4620390 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
4620455 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
4620520 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
4620542 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
4620607 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
4620672 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
4620737 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
4620759 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
4620824 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
4620889 ATTTCAATTTATGTTTCAAAAATCAACTCATA
131 ATTTCAATTTATGTTTC-AAAATCAACTCATA
4620921 GGTGAGTTGA
Statistics
Matches: 368, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
210 49 0.13
215 1 0.00
216 2 0.01
217 302 0.82
218 14 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
AGGTAATTTCAATTTATGTTTC
Found at i:4620705 original size:147 final size:140
Alignment explanation
Indices: 4620332--4620920 Score: 980
Period size: 147 Copynumber: 4.1 Consensus size: 140
4620322 CAAGTGACAG
*
4620332 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
4620397 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
4620462 TTTATGTTTC
131 TTTATGTTTC
*
4620472 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
4620537 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
4620602 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
4620619 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
4620684 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
4620749 TTTATGTTTC
131 TTTATGTTTC
*
4620759 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
*
4620824 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
4620889 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
4620906 AAAAATCAACTCATA
1 -AAAATCAACTCATA
4620921 GGTGAGTTGA
Statistics
Matches: 423, Mismatches: 11, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
140 183 0.43
141 2 0.00
142 1 0.00
145 2 0.00
146 4 0.01
147 217 0.51
148 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:4620974 original size:147 final size:142
Alignment explanation
Indices: 4620352--4621021 Score: 686
Period size: 147 Copynumber: 4.7 Consensus size: 142
4620342 CACATTGCGA
* *
4620352 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
4620410 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
4620475 ATCAACTCATATT
131 ATCAACTCA-ATT
* * *
4620488 GCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
4620546 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTCAATT
*
4620611 TATGTTTCAAAATCAACTCATATGGCGA
120 TATGTTTCAAAATCAACTCA-AT----T
* *
4620639 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
*
4620697 CTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
4620762 ATCAACTCATATT
131 ATCAACTCA-ATT
* *
4620775 GCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
4620840 TCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
4620905 CAAAAATCAACTC-A-T
127 C-AAAATCAACTCAATT
**** * * *
4620920 -AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTCTACTTTCCAATTCCTGTTTTT
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA------A-TTTCCAATT--TATGTTT
*
4620984 CAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
57 C-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4621022 GTTAATTTCT
Statistics
Matches: 476, Mismatches: 21, Indels: 56
0.86 0.04 0.10
Matches are distributed among these distances:
140 192 0.40
141 2 0.00
142 1 0.00
145 3 0.01
146 9 0.02
147 218 0.46
148 11 0.02
149 6 0.01
150 34 0.07
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (142 bp):
GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
ATCAACTCAATT
Found at i:4621063 original size:54 final size:52
Alignment explanation
Indices: 4620971--4621125 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
4620961 TCTACTTTCC
* *
4620971 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
4621025 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
4621076 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
4621125 A
1 A
4621126 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:4621877 original size:35 final size:35
Alignment explanation
Indices: 4621831--4621899 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
4621821 ACTTGCCTCT
*
4621831 TCCCATTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
*
4621866 TCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
4621900 TCACACACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.16, C:0.49, G:0.13, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:4622353 original size:32 final size:30
Alignment explanation
Indices: 4622306--4622376 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 30
4622296 AGGGGAAGCA
4622306 AAAAAAAAAAATCCAGCAAAAAA-TTCCAGC
1 AAAAAAAAAAATCCAG-AAAAAATTTCCAGC
**
4622336 ACCAAAAAAAATTTCCAGAAAAAATTTCCAGC
1 A--AAAAAAAAAATCCAGAAAAAATTTCCAGC
4622368 AAAAAAAAA
1 AAAAAAAAA
4622377 CCAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 9 0.25
31 6 0.17
32 21 0.58
ACGTcount: A:0.63, C:0.18, G:0.06, T:0.13
Consensus pattern (30 bp):
AAAAAAAAAAATCCAGAAAAAATTTCCAGC
Found at i:4622359 original size:13 final size:14
Alignment explanation
Indices: 4622341--4622373 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
4622331 CCAGCACCAA
4622341 AAAAAATTTCCAG-
1 AAAAAATTTCCAGC
4622354 AAAAAATTTCCAGC
1 AAAAAATTTCCAGC
4622368 AAAAAA
1 AAAAAA
4622374 AAACCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAAATTTCCAGC
Found at i:4622651 original size:11 final size:11
Alignment explanation
Indices: 4622622--4622664 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
4622612 CGACCGAATT
* *
4622622 TCCCTTCCCCC
1 TCCCTTCTCTC
4622633 TCCCTTCTCTC
1 TCCCTTCTCTC
4622644 TCCCTTCTCTC
1 TCCCTTCTCTC
4622655 TTCCC-TCTCT
1 -TCCCTTCTCT
4622665 TCTTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 25 0.86
12 4 0.14
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:4623225 original size:22 final size:23
Alignment explanation
Indices: 4623193--4623244 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
4623183 ATTTCTAATA
4623193 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
4623216 TGTAT-TATATATATATATTATG
1 TGTATATATATATATATATTATG
*
4623238 TATATAT
1 TGTATAT
4623245 GCCATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
TGTATATATATATATATATTATG
Found at i:4623260 original size:2 final size:2
Alignment explanation
Indices: 4623190--4623244 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
4623180 ATCATTTCTA
* * *
4623190 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4623230 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
4623245 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4627700 original size:18 final size:19
Alignment explanation
Indices: 4627667--4627706 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
4627657 GAAAAATACT
*
4627667 TAAATCTAATTAAAAATAA
1 TAAAACTAATTAAAAATAA
*
4627686 TAAAACTAA-TAAAAATCA
1 TAAAACTAATTAAAAATAA
4627704 TAA
1 TAA
4627707 TCACAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAACTAATTAAAAATAA
Found at i:4629856 original size:21 final size:22
Alignment explanation
Indices: 4629830--4629871 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4629820 AATATATGGT
4629830 AAAATTGTAT-TTTAATTTTTC
1 AAAATTGTATATTTAATTTTTC
*
4629851 AAAATTTTATAATTTAATTTT
1 AAAATTGTAT-ATTTAATTTT
4629872 ATAATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AAAATTGTATATTTAATTTTTC
Found at i:4629871 original size:13 final size:14
Alignment explanation
Indices: 4629853--4629884 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
4629843 AATTTTTCAA
4629853 AATTTTATAATT-T
1 AATTTTATAATTCT
4629866 AATTTTATAATTCT
1 AATTTTATAATTCT
4629880 AATTT
1 AATTT
4629885 ATTTTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTATAATTCT
Found at i:4631474 original size:17 final size:17
Alignment explanation
Indices: 4631454--4631514 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
4631444 TTGTTTTCTT
4631454 TTTCTTTTATTTTCATA
1 TTTCTTTTATTTTCATA
*
4631471 TTTCTTTTGTTTT--T-
1 TTTCTTTTATTTTCATA
4631485 TTTCTTTTATTTTCATA
1 TTTCTTTTATTTTCATA
4631502 TTTCTTTTATTTT
1 TTTCTTTTATTTT
4631515 TACTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
14 12 0.31
15 1 0.03
16 1 0.03
17 25 0.64
ACGTcount: A:0.11, C:0.10, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTTTTATTTTCATA
Found at i:4631487 original size:31 final size:31
Alignment explanation
Indices: 4631442--4631528 Score: 122
Period size: 31 Copynumber: 2.7 Consensus size: 31
4631432 TCTGACACCT
4631442 TTTTGTTTTCTTTTTCTTTTATTTTCATATTTC
1 TTTTG-TTT-TTTTTCTTTTATTTTCATATTTC
4631475 TTTTGTTTTTTTTCTTTTATTTTCATATTTC
1 TTTTGTTTTTTTTCTTTTATTTTCATATTTC
* *
4631506 TTTTATTTTTACTT-TTTTATTTT
1 TTTTGTTTTT-TTTCTTTTATTTT
4631529 GTTCCTTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
31 41 0.80
32 5 0.10
33 5 0.10
ACGTcount: A:0.10, C:0.09, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTTGTTTTTTTTCTTTTATTTTCATATTTC
Found at i:4631563 original size:9 final size:9
Alignment explanation
Indices: 4631549--4631621 Score: 67
Period size: 9 Copynumber: 7.9 Consensus size: 9
4631539 AAATTGTATC
4631549 TTTTTATTT
1 TTTTTATTT
4631558 TTTTTACTTT
1 TTTTTA-TTT
*
4631568 TTATTATTT
1 TTTTTATTT
*
4631577 TTTTT-CTT
1 TTTTTATTT
* *
4631585 ATTTCATTT
1 TTTTTATTT
*
4631594 TGTTTATTT
1 TTTTTATTT
4631603 TGTTTTATTT
1 T-TTTTATTT
4631613 TTTATTATT
1 TTT-TTATT
4631622 AACTTTAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
8 5 0.10
9 24 0.48
10 21 0.42
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:4631569 original size:16 final size:17
Alignment explanation
Indices: 4631548--4631579 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4631538 TAAATTGTAT
4631548 CTTTTTATT-TTTTTTA
1 CTTTTTATTATTTTTTA
4631564 CTTTTTATTATTTTTT
1 CTTTTTATTATTTTTT
4631580 TTCTTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (17 bp):
CTTTTTATTATTTTTTA
Found at i:4631576 original size:19 final size:18
Alignment explanation
Indices: 4631549--4631615 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
4631539 AAATTGTATC
4631549 TTTTTATTTTTTTTACTT
1 TTTTTATTTTTTTTACTT
4631567 TTTATTATTTTTTTT-CTT
1 TTT-TTATTTTTTTTACTT
* * * *
4631585 ATTTCATTTTGTTTATTT
1 TTTTTATTTTTTTTACTT
4631603 TGTTTTATTTTTT
1 T-TTTTATTTTTT
4631616 ATTATTAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 9 0.23
18 10 0.26
19 20 0.51
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTATTTTTTTTACTT
Found at i:4631594 original size:36 final size:34
Alignment explanation
Indices: 4631547--4631615 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
4631537 ATAAATTGTA
*
4631547 TCTTTTTATTTTTTTTACTTTT-TATTATTTTTTT
1 TCTTTTTATTTTGTTTA-TTTTGTATTATTTTTTT
*
4631581 TCTTATTTCATTTTGTTTATTTTGTTTTATTTTTT
1 TCTT-TTT-ATTTTGTTTATTTTGTATTATTTTTT
4631616 ATTATTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 7 0.23
36 19 0.63
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.80
Consensus pattern (34 bp):
TCTTTTTATTTTGTTTATTTTGTATTATTTTTTT
Found at i:4631676 original size:22 final size:23
Alignment explanation
Indices: 4631650--4631708 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
4631640 ATGTATATTT
*
4631650 AAAATATTTTA-TAATACTTTTT
1 AAAATATTTTATTAATACTTTTA
* * *
4631672 TAAAT-TTTAATTATTACTTTTA
1 AAAATATTTTATTAATACTTTTA
*
4631694 AAAATATTTTTTTAA
1 AAAATATTTTATTAA
4631709 CTTTAAATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
21 4 0.15
22 17 0.63
23 6 0.22
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (23 bp):
AAAATATTTTATTAATACTTTTA
Found at i:4631758 original size:37 final size:36
Alignment explanation
Indices: 4631710--4631788 Score: 113
Period size: 37 Copynumber: 2.2 Consensus size: 36
4631700 TTTTTTTAAC
* * *
4631710 TTTAAATATGTATTTGTGAAATTAATTTTTTATATAT
1 TTTAAAAATGTATTTGTCAAATTAATTTTTTA-AAAT
*
4631747 TTTAAAAATGTATTTTTCAAATTAATTTTTTAAAAT
1 TTTAAAAATGTATTTGTCAAATTAATTTTTTAAAAT
4631783 TTTAAA
1 TTTAAA
4631789 TATTAACCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
36 9 0.24
37 29 0.76
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (36 bp):
TTTAAAAATGTATTTGTCAAATTAATTTTTTAAAAT
Found at i:4632158 original size:41 final size:39
Alignment explanation
Indices: 4632036--4632160 Score: 98
Period size: 41 Copynumber: 3.2 Consensus size: 39
4632026 TTTACATTTT
* *
4632036 TTAACTATACATTATAAATTTTTTAAAGTTAAT-AATAAA
1 TTAAATATACATTA-AAATTTTTTAAAATTAATAAATAAA
** * **
4632075 --AAATAATA-ATTAAAATTTTAAAAAAATT-CTAAAATATT
1 TTAAAT-ATACATTAAAATTTT-TTAAAATTAAT-AAATAAA
4632113 TTAAATATACATTACAAATTTTTTAAAATTAATAATATAAA
1 TTAAATATACATTA-AAATTTTTTAAAATTAATAA-ATAAA
4632154 TTAAATA
1 TTAAATA
4632161 AACAAAATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
36 8 0.12
37 12 0.19
38 7 0.11
39 3 0.05
40 16 0.25
41 18 0.28
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (39 bp):
TTAAATATACATTAAAATTTTTTAAAATTAATAAATAAA
Found at i:4632198 original size:18 final size:17
Alignment explanation
Indices: 4632143--4632198 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
4632133 TTTTAAAATT
4632143 AATAATATAAATTAAATA
1 AATAATATAAATTAAA-A
* * *
4632161 AACAAAATAAAATAAGAA
1 AATAATATAAATTAA-AA
4632179 AATAATATAAACTTAAAA
1 AATAATATAAA-TTAAAA
4632197 AA
1 AA
4632199 AATTAAGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (17 bp):
AATAATATAAATTAAAA
Found at i:4632350 original size:19 final size:18
Alignment explanation
Indices: 4632322--4632361 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
4632312 TAAACTTTTC
4632322 AAAAATTAAAAA-AAAGTT
1 AAAAATTAAAAAGAAA-TT
4632340 AAAAATGTAAAAAGAAATT
1 AAAAAT-TAAAAAGAAATT
4632359 AAA
1 AAA
4632362 GAAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 11 0.55
20 3 0.15
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
AAAAATTAAAAAGAAATT
Found at i:4632614 original size:10 final size:9
Alignment explanation
Indices: 4632592--4632720 Score: 64
Period size: 9 Copynumber: 13.4 Consensus size: 9
4632582 TTTTAAAGTT
*
4632592 AATAATAAA
1 AATAAAAAA
4632601 AATAAAACAA
1 AATAAAA-AA
4632611 AATAAACAAA
1 AATAAA-AAA
*
4632621 ATGAAATAAAAA
1 A--ATA-AAAAA
4632633 AATAAAAAA
1 AATAAAAAA
*
4632642 AGT-AAAAA
1 AATAAAAAA
4632650 AATAAAAAA
1 AATAAAAAA
* **
4632659 GATAAAATTT
1 AATAAAA-AA
*
4632669 ATTAAGGAACAA
1 AATAA--AA-AA
4632681 AATAAAAAA
1 AATAAAAAA
*
4632690 AGTAAAAAA
1 AATAAAAAA
**
4632699 AA-ATATGAA
1 AATA-AAAAA
4632708 AATAAAAAA
1 AATAAAAAA
4632717 AATA
1 AATA
4632721 TGAAAATAAA
Statistics
Matches: 89, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
8 8 0.09
9 47 0.53
10 19 0.21
11 1 0.01
12 12 0.13
13 2 0.02
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (9 bp):
AATAAAAAA
Found at i:4632637 original size:8 final size:8
Alignment explanation
Indices: 4632624--4632665 Score: 66
Period size: 8 Copynumber: 5.0 Consensus size: 8
4632614 AAACAAAATG
4632624 AAATAAAA
1 AAATAAAA
4632632 AAATAAAA
1 AAATAAAA
4632640 AAAGTAAAA
1 AAA-TAAAA
4632649 AAATAAAA
1 AAATAAAA
4632657 AAGATAAAA
1 AA-ATAAAA
4632666 TTTATTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 18 0.56
9 14 0.44
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:4632656 original size:14 final size:13
Alignment explanation
Indices: 4632604--4632717 Score: 63
Period size: 13 Copynumber: 8.3 Consensus size: 13
4632594 TAATAAAAAT
*
4632604 AAAACAAAATAAA
1 AAAATAAAATAAA
*
4632617 CAAAATGAAATAAA
1 -AAAATAAAATAAA
4632631 AAAATAAAA-AAA
1 AAAATAAAATAAA
*
4632643 GTAAA-AAAATAAA
1 -AAAATAAAATAAA
4632656 AAAGATAAAATTTATTAA
1 AAA-ATAAAA--TA--AA
** *
4632674 GGAACAAAATAAA
1 AAAATAAAATAAA
4632687 AAAAGTAAAA-AAA
1 AAAA-TAAAATAAA
*
4632700 AATATGAAAATAAA
1 AAAAT-AAAATAAA
4632714 AAAA
1 AAAA
4632718 ATATGAAAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
12 10 0.13
13 29 0.38
14 25 0.33
15 2 0.03
16 2 0.03
17 5 0.07
18 3 0.04
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:4632664 original size:17 final size:16
Alignment explanation
Indices: 4632624--4632665 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 16
4632614 AAACAAAATG
4632624 AAATAAAAAAATAAAA
1 AAATAAAAAAATAAAA
4632640 AAAGTAAAAAAATAAAA
1 AAA-TAAAAAAATAAAA
4632657 AAGATAAAA
1 AA-ATAAAA
4632666 TTTATTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.83
18 1 0.04
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (16 bp):
AAATAAAAAAATAAAA
Found at i:4632736 original size:18 final size:17
Alignment explanation
Indices: 4632694--4632749 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
4632684 AAAAAAAGTA
4632694 AAAAAAAATATGAAAAT
1 AAAAAAAATATGAAAAT
4632711 AAAAAAAATATGAAAAT
1 AAAAAAAATATGAAAAT
*
4632728 AAAAGAAAA-A-GAAAAC
1 AAAA-AAAATATGAAAAT
4632744 AAAAAA
1 AAAAAA
4632750 GTGTCAGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
15 2 0.05
16 9 0.24
17 22 0.59
18 4 0.11
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (17 bp):
AAAAAAAATATGAAAAT
Found at i:4635639 original size:46 final size:46
Alignment explanation
Indices: 4635570--4635661 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
4635560 TGTGAATAAT
4635570 ATGAACTTCGAGAACTGGAAAACGGGTTATTTCAATCAATCACAAA
1 ATGAACTTCGAGAACTGGAAAACGGGTTATTTCAATCAATCACAAA
*
4635616 ATGAACTTCGAGAACTGGCAAACGGGTTATTTCAATCAATCACAAA
1 ATGAACTTCGAGAACTGGAAAACGGGTTATTTCAATCAATCACAAA
4635662 GTGGTGGTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (46 bp):
ATGAACTTCGAGAACTGGAAAACGGGTTATTTCAATCAATCACAAA
Found at i:4636132 original size:27 final size:27
Alignment explanation
Indices: 4636102--4636233 Score: 221
Period size: 27 Copynumber: 4.9 Consensus size: 27
4636092 TTGTGCCTAC
4636102 CTGACAGGCACGACTAGTTGAGCCTGT
1 CTGACAGGCACGACTAGTTGAGCCTGT
4636129 CTGACAGGCACGACTAGTTGAGCCTGT
1 CTGACAGGCACGACTAGTTGAGCCTGT
4636156 CTGACAGGCACGACTAGTTGAGCCTGT
1 CTGACAGGCACGACTAGTTGAGCCTGT
*
4636183 CTGACAGGCACGACTAGTTGTGCCT-T
1 CTGACAGGCACGACTAGTTGAGCCTGT
**
4636209 CTTGGTAGGCACGACTAGTTGAGCC
1 C-TGACAGGCACGACTAGTTGAGCC
4636234 CACATGCTTA
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 2 0.02
27 98 0.98
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (27 bp):
CTGACAGGCACGACTAGTTGAGCCTGT
Found at i:4639772 original size:33 final size:32
Alignment explanation
Indices: 4639719--4639830 Score: 109
Period size: 33 Copynumber: 3.4 Consensus size: 32
4639709 TTGAGCCGAG
* *
4639719 AGGAGTAGAATATGGAGGTGGATATGGGCCGGA
1 AGGAGTAGAGTACGGAGGTGGATA-GGGCCGGA
* * *
4639752 AGGAGTAGAGTACGGCGGTGGATACGGCTC-TA
1 AGGAGTAGAGTACGGAGGTGGATAGGGC-CGGA
* **
4639784 GAGGAGTTGAGTACATAGGTGGATACGGGCCGGA
1 -AGGAGTAGAGTACGGAGGTGGATA-GGGCCGGA
4639818 AGGAGTAGAGTAC
1 AGGAGTAGAGTAC
4639831 TAGATGAATA
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
32 4 0.06
33 55 0.87
34 4 0.06
ACGTcount: A:0.29, C:0.11, G:0.43, T:0.18
Consensus pattern (32 bp):
AGGAGTAGAGTACGGAGGTGGATAGGGCCGGA
Found at i:4641875 original size:22 final size:22
Alignment explanation
Indices: 4641841--4641904 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
4641831 TCAACATTTT
*
4641841 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
4641863 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
*
4641884 AATTACATTATATAAAAATTA
1 AA-TA-AATATATAAAAATTA
4641905 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 10 0.29
24 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:4641901 original size:16 final size:15
Alignment explanation
Indices: 4641878--4641919 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
4641868 ATATATAATA
4641878 ATATAAAATTACATT
1 ATATAAAATTACATT
4641893 ATATAAAAATTACATT
1 ATAT-AAAATTACATT
4641909 A-A-AAAATTACA
1 ATATAAAATTACA
4641920 AAACACTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.35
15 5 0.19
16 12 0.46
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAATTACATT
Found at i:4642227 original size:54 final size:54
Alignment explanation
Indices: 4642055--4642227 Score: 120
Period size: 54 Copynumber: 3.1 Consensus size: 54
4642045 CACTAACAAT
4642055 ATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTTAAA
1 ATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATA-TTTTTTTAAA
* ** * * * * * * * **
4642110 TATATTA-CTAAAAAAATCACAATACACTAATACAATAAACCACTAAACACTAATAATTT---
1 -ATATAACCT---AATCTTA-AAT-TACTAATAAAAT-AGCTA-TAAA-AATATTTTTTTAAA
4642169 ATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAA
1 ATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAA
4642223 ATATA
1 ATATA
4642228 TTACTAAAAA
Statistics
Matches: 81, Mismatches: 24, Indels: 26
0.62 0.18 0.20
Matches are distributed among these distances:
51 7 0.09
52 4 0.05
53 3 0.04
54 15 0.19
55 5 0.06
56 9 0.11
58 9 0.11
59 5 0.06
60 10 0.12
61 3 0.04
62 8 0.10
63 3 0.04
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.35
Consensus pattern (54 bp):
ATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAA
Found at i:4642410 original size:112 final size:112
Alignment explanation
Indices: 4642031--4642631 Score: 1028
Period size: 112 Copynumber: 5.3 Consensus size: 112
4642021 ATTAATACAC
4642031 ACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
1 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
* * *
4642094 AAATATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAAT
66 AAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT
*
4642141 ACAATAAACCACTAAACACTAATAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTAT
1 AC--TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTAT
4642206 AAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT
64 AAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT
4642255 ACTAAACCACT-AACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
1 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
4642319 AAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT
66 AAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT
4642366 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
1 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
*
4642431 AATTATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT
66 AAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT
* *
4642478 ACTAAACCGCTAAACACTAACAATTTATATAACCTAATCTTATATTACTAATAAAATAGCTATAA
1 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
* * *
4642543 AATTATTTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAAT
66 AAATATTTTTTT-AAAATATATTACTAAAAAAATTACAATACGCTAAT
* *
4642591 ACACTAAACTACTAAACACTAACAATTTATATAACCAAATC
1 --ACTAAACCACTAAACACTAACAATTTATATAACCTAATC
4642632 AACTATAACT
Statistics
Matches: 470, Mismatches: 13, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
110 2 0.00
111 110 0.23
112 203 0.43
113 33 0.07
114 86 0.18
115 36 0.08
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (112 bp):
ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
AAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT
Found at i:4642431 original size:223 final size:224
Alignment explanation
Indices: 4642031--4642631 Score: 1046
Period size: 223 Copynumber: 2.7 Consensus size: 224
4642021 ATTAATACAC
4642031 ACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
1 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
*
4642094 AAATATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACAATAAACCACTAAACA
66 AAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATAC--TAAACCACTAAACA
*
4642159 CTAATAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAAA
129 CTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAAA
4642224 TATATTACTAAAAAAATTACAATACGCTAAT
194 TATATTACTAAAAAAATTACAATACGCTAAT
4642255 ACTAAACCACT-AACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
1 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
* *
4642319 AAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAAACCACTAAACACT
66 AAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACTAAACCACTAAACACT
*
4642384 AACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAATTATTTTTTTAAAATA
131 AACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAAATA
4642449 TATTACTAAAAAAATTACAATACGCTAAT
196 TATTACTAAAAAAATTACAATACGCTAAT
* *
4642478 ACTAAACCGCTAAACACTAACAATTTATATAACCTAATCTTATATTACTAATAAAATAGCTATAA
1 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
* *
4642543 AATTATTTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTACTAAAC
66 AAATATTTTTTT-AAAATATATTACTAAAAAAATCACAATACACTAAT--ACTAAACCACTAAAC
*
4642608 ACTAACAATTTATATAACCAAATC
128 ACTAACAATTTATATAACCTAATC
4642632 AACTATAACT
Statistics
Matches: 359, Mismatches: 12, Indels: 9
0.94 0.03 0.02
Matches are distributed among these distances:
223 129 0.36
224 74 0.21
225 119 0.33
227 37 0.10
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (224 bp):
ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
AAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACTAAACCACTAAACACT
AACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAAATA
TATTACTAAAAAAATTACAATACGCTAAT
Found at i:4642931 original size:22 final size:22
Alignment explanation
Indices: 4642903--4642944 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4642893 CCTTTTTTTT
4642903 TTCTTCTTCTCCTTCACCTTCC
1 TTCTTCTTCTCCTTCACCTTCC
*
4642925 TTCTTCTTCTCCTTCTCCTT
1 TTCTTCTTCTCCTTCACCTT
4642945 TCTCTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (22 bp):
TTCTTCTTCTCCTTCACCTTCC
Found at i:4644441 original size:14 final size:14
Alignment explanation
Indices: 4644422--4644448 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4644412 TTTCTATAAA
4644422 ATTTTAAAACGTTG
1 ATTTTAAAACGTTG
4644436 ATTTTAAAACGTT
1 ATTTTAAAACGTT
4644449 TTGCGTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (14 bp):
ATTTTAAAACGTTG
Found at i:4645333 original size:42 final size:42
Alignment explanation
Indices: 4645273--4645364 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
4645263 TGGCCCATAG
**
4645273 ACCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 ACCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* * *
4645315 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 ACCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
4645357 ACCCATTT
1 ACCCATTT
4645365 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (42 bp):
ACCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:4645536 original size:23 final size:23
Alignment explanation
Indices: 4645506--4645671 Score: 251
Period size: 23 Copynumber: 7.1 Consensus size: 23
4645496 CCTTGCCTCT
*
4645506 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
4645529 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
4645552 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
4645576 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
4645599 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
4645623 TTTAATAACTGGGGCATAAACCC
1 TTTAATAACTGGGGCATAAGCCC
4645646 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
4645669 TTT
1 TTT
4645672 TGCACTTCCT
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 87 0.68
24 41 0.32
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:4645564 original size:47 final size:47
Alignment explanation
Indices: 4645504--4645671 Score: 266
Period size: 47 Copynumber: 3.6 Consensus size: 47
4645494 GGCCTTGCCT
* *
4645504 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* * *
4645551 CTTTTGATCACTGGGGCATAAGCCCTTTAATAATTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
4645598 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAACC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
4645645 C-TTTAATAACTGGGGCATAAGCCCTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTT
4645672 TGCACTTCCT
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 25 0.22
47 87 0.78
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:4645672 original size:70 final size:71
Alignment explanation
Indices: 4645506--4645673 Score: 259
Period size: 70 Copynumber: 2.4 Consensus size: 71
4645496 CCTTGCCTCT
* * * * *
4645506 TTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
*
4645570 AAGCCC
66 AAACCC
*
4645576 TTTAATAATTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
4645640 AAACCC
66 AAACCC
4645646 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
4645674 CACTTCCTCC
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
70 68 0.76
71 21 0.24
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (71 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
AAACCC
Found at i:4645746 original size:20 final size:20
Alignment explanation
Indices: 4645718--4645768 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4645708 GCATTTATGA
*
4645718 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
4645738 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
4645758 ACATATCATGT
1 ACATATCATGT
4645769 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:4645833 original size:25 final size:25
Alignment explanation
Indices: 4645805--4645852 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4645795 ATATATAAAC
* *
4645805 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
4645830 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
4645853 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:4647051 original size:27 final size:27
Alignment explanation
Indices: 4647016--4647093 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
4647006 GGGCATATTC
4647016 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACCATATAGGGGTATTACG
* * *
4647043 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATATAGGGG-TATTACG
* * *
4647070 GTCTTTTTACCTTTTAGGGGTATT
1 GTCATTTTACCATATAGGGGTATT
4647094 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATATAGGGGTATTACG
Found at i:4647164 original size:27 final size:27
Alignment explanation
Indices: 4647134--4647185 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4647124 GTAAATCAAC
*
4647134 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTACTTCTA-TAATTTTGT
*
4647161 AAACCAATGGTACTTCTATAATTTT
1 AAACCAAAGGTACTTCTATAATTTT
4647186 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (27 bp):
AAACCAAAGGTACTTCTATAATTTTGT
Found at i:4647237 original size:27 final size:26
Alignment explanation
Indices: 4647197--4647321 Score: 85
Period size: 27 Copynumber: 4.7 Consensus size: 26
4647187 AGAAAGTCAA
*
4647197 GGGTATTTCT-GTAACTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTATAAATCAG
*
4647224 GGGTATTTTGGTAATTTTATAAAT-TG
1 GGGTATTTTGGTAA-TTTATAAATCAG
* * * * *
4647250 AGGGCATTTCGGTAATTTCACAAACCAA
1 -GGGTATTTTGGTAATTT-ATAAATCAG
*
4647278 GGGTATTTTGGTAATTT-TACAAACTAG
1 GGGTATTTTGGTAATTTATA-AATC-AG
*
4647305 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
4647322 TGCAAATCGA
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
25 1 0.01
26 8 0.10
27 68 0.88
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTATAAATCAG
Found at i:4647335 original size:27 final size:27
Alignment explanation
Indices: 4647224--4647336 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
4647214 TGTAAATCAG
* *
4647224 GGGTATTTTGGTAATTTTATAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * * * *
4647251 GGGCATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
4647278 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
4647304 GGGGTATTTTAGTAATTTTGCAAATCGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
4647332 GGGTA
1 GGGTA
4647337 AAACAGTAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
26 2 0.03
27 66 0.94
28 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:4647335 original size:54 final size:52
Alignment explanation
Indices: 4647196--4647336 Score: 131
Period size: 54 Copynumber: 2.6 Consensus size: 52
4647186 TAGAAAGTCA
* * * *
4647196 AGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAATTG
1 AGGGTATTT-TGTAATTTTGCAAATCA-GGGTATTTTGGTAATTTTACAAATAG
* * ** *
4647250 AGGGCATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTT-TGTAATTTTGCAAATC-AGGGTATTTTGGTAATTTTACAAA-TAG
4647305 -GGGTATTTTAGTAATTTTGCAAATCGAGGGTA
1 AGGGTATTTT-GTAATTTTGCAAATC-AGGGTA
4647337 AAACAGTAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
54 66 0.96
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (52 bp):
AGGGTATTTTGTAATTTTGCAAATCAGGGTATTTTGGTAATTTTACAAATAG
Found at i:4647344 original size:27 final size:27
Alignment explanation
Indices: 4647315--4647767 Score: 470
Period size: 27 Copynumber: 16.8 Consensus size: 27
4647305 GGGTATTTTA
* * *
4647315 GTAATTTTGCAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCGAGGGTAAAACG
* * **
4647342 GTAATTCTGTAAATCAAGGGTAAAAAA
1 GTAATTATGTAAATCGAGGGTAAAACG
* * * *
4647369 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCGAGGGTAAAACG
4647396 GTAATTCA-GTAAATCGAGGGTAAAACG
1 GTAATT-ATGTAAATCGAGGGTAAAACG
* *
4647423 GTAATTCTGTAAATCGGGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* *
4647450 ATAATTATGTAAATCAAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* *
4647477 GTAATTATGTAAAT-TAGGGGTAAAATG
1 GTAATTATGTAAATCGA-GGGTAAAACG
* * * *
4647504 GTAATTCTATAAGTCAAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* *
4647531 ATAATTATGTAAATCAAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* * *
4647558 GTAATTATATAAATTGGGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* * *
4647585 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
4647612 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTATGTAAATCGA-GGGTAAAACG
*
4647639 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTATGTAAATCGA-GGGTAAAACG
* * *
4647666 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
4647693 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTATGTAAATCGA-GGGTAAAACG
*
4647720 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTATGTAAATCGA-GGGTAAAACG
*
4647747 GTAATTTTGTAAATCG-GGGTA
1 GTAATTATGTAAATCGAGGGTA
4647768 CTTTGGTAAT
Statistics
Matches: 361, Mismatches: 55, Indels: 21
0.83 0.13 0.05
Matches are distributed among these distances:
26 8 0.02
27 351 0.97
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCGAGGGTAAAACG
Found at i:4647802 original size:27 final size:26
Alignment explanation
Indices: 4647764--4647862 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 26
4647754 TGTAAATCGG
4647764 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAA-TCGAA
* *
4647791 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTAC-AATCGAA
* * * *
4647818 GGTATTTCAGTATTTTTACAAACTAA
1 GGTATTTCGGTAATTTTACAATCGAA
4647844 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
4647863 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.12
27 50 0.85
28 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAATCGAA
Found at i:4647802 original size:53 final size:54
Alignment explanation
Indices: 4647745--4647867 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 54
4647735 AGGGGTAAAA
* *
4647745 CGGTAATTTTGTAAATCG-GGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTT
1 CGGTAATTTTGTAAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTT
* ** * *
4647798 CGGTAAATTTACAAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTT
1 CGGTAATTTTGTAAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTT
4647852 CGGTAATTTTAGTAAA
1 CGGTAATTTT-GTAAA
4647868 CTAAAGTATT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
53 21 0.38
54 32 0.57
55 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
CGGTAATTTTGTAAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTT
Found at i:4647876 original size:27 final size:27
Alignment explanation
Indices: 4647773--4647877 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
4647763 GGGTACTTTG
* * *
4647773 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
4647800 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
4647827 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
4647854 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
4647878 CTAAACAAGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:4648922 original size:86 final size:87
Alignment explanation
Indices: 4648777--4648947 Score: 308
Period size: 86 Copynumber: 2.0 Consensus size: 87
4648767 CCTTTCATTG
*
4648777 CACAATTAAATACCTATATAAAACCTCCTTACAAACCCACACTCGAGGCCCAATACTTCTAGGCC
1 CACAATTAAATACCTATATAAAACCTCCTTACAAACCCACACTCAAGGCCCAATACTTCTAGGCC
4648842 CAAATTCA-GGTGTTACAATGA
66 CAAATTCAGGGTGTTACAATGA
*
4648863 CACAATTAAATACCTATATAAAACCTCCTTACGAACCCACACTCAAGGCCCAATACTTCTAGGCC
1 CACAATTAAATACCTATATAAAACCTCCTTACAAACCCACACTCAAGGCCCAATACTTCTAGGCC
*
4648928 CAAATTTAGGGTGTTACAAT
66 CAAATTCAGGGTGTTACAAT
4648948 TCTACTCCCC
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 70 0.86
87 11 0.14
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (87 bp):
CACAATTAAATACCTATATAAAACCTCCTTACAAACCCACACTCAAGGCCCAATACTTCTAGGCC
CAAATTCAGGGTGTTACAATGA
Found at i:4650889 original size:42 final size:42
Alignment explanation
Indices: 4650829--4650920 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
4650819 TGGCCCATAG
**
4650829 ACCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 ACCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* * *
4650871 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 ACCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
4650913 ACCCATTT
1 ACCCATTT
4650921 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (42 bp):
ACCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:4651092 original size:23 final size:23
Alignment explanation
Indices: 4651062--4651226 Score: 269
Period size: 23 Copynumber: 7.1 Consensus size: 23
4651052 CCTTGCCTCT
*
4651062 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
4651085 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
4651107 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
4651131 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
4651154 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
4651178 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
4651201 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
4651224 TTT
1 TTT
4651227 TGCACTTCCT
Statistics
Matches: 132, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
22 11 0.08
23 87 0.66
24 34 0.26
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:4651166 original size:47 final size:47
Alignment explanation
Indices: 4651060--4651226 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
4651050 GGCCTTGCCT
*
4651060 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACT-GGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
4651106 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
4651153 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
4651200 C-TTTAATAACTGGGGCATAAGCCCTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTT
4651227 TGCACTTCCT
Statistics
Matches: 115, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
46 57 0.50
47 58 0.50
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:4651200 original size:70 final size:70
Alignment explanation
Indices: 4651062--4651228 Score: 275
Period size: 70 Copynumber: 2.4 Consensus size: 70
4651052 CCTTGCCTCT
* * * *
4651062 TTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGCATAAGCCCTTTTGATCACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATA
4651126 AGCCC
66 AGCCC
4651131 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTTTAATAACTGGGGCAT
4651195 AAGCCC
65 AAGCCC
4651201 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
4651229 CACTTCCTCC
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
69 22 0.24
70 58 0.63
71 12 0.13
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATA
AGCCC
Found at i:4651301 original size:20 final size:20
Alignment explanation
Indices: 4651273--4651323 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4651263 GCATTTATGA
*
4651273 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
4651293 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
4651313 ACATATCATGT
1 ACATATCATGT
4651324 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:4651388 original size:25 final size:25
Alignment explanation
Indices: 4651360--4651407 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4651350 ATATATAAAC
* *
4651360 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
4651385 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
4651408 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:4652602 original size:27 final size:27
Alignment explanation
Indices: 4652567--4652644 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
4652557 GGGCATATTC
4652567 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACCATATAGGGGTATTACG
* * *
4652594 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATATAGGGG-TATTACG
* * *
4652621 GTCTTTTTACCTTTTAGGGGTATT
1 GTCATTTTACCATATAGGGGTATT
4652645 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATATAGGGGTATTACG
Found at i:4652715 original size:27 final size:27
Alignment explanation
Indices: 4652685--4652736 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4652675 GTAAATCAAC
*
4652685 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTACTTCTA-TAATTTTGT
*
4652712 AAACCAATGGTACTTCTATAATTTT
1 AAACCAAAGGTACTTCTATAATTTT
4652737 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (27 bp):
AAACCAAAGGTACTTCTATAATTTTGT
Found at i:4652886 original size:27 final size:27
Alignment explanation
Indices: 4652693--4652941 Score: 137
Period size: 27 Copynumber: 9.1 Consensus size: 27
4652683 ACAAACCAAA
* * * *
4652693 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
4652720 GGTACTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTA-TTTTAGTAA-TTTTATAAA-TCAAG
* * *
4652749 GGTATTTCT-GTAACTTTGTAAATCAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* **
4652776 GGTATTTTGGTAATTTTATAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * *
4652803 GGTATTTCGGTAATTTCACAAA-CTAAG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * *
4652830 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* *
4652857 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** *
4652884 GGTAAAACAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** *
4652911 GGTAAAACAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
4652938 GGTA
1 GGTA
4652942 AAACAGTAAT
Statistics
Matches: 178, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.01
27 147 0.83
28 19 0.11
29 11 0.06
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:4652912 original size:81 final size:81
Alignment explanation
Indices: 4652744--4652914 Score: 181
Period size: 81 Copynumber: 2.1 Consensus size: 81
4652734 TTTTAGAAAG
* * * **
4652744 TCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAATTGAGGGTATT
1 TCAAGGGTATTTCTGTAACTTTGTAAAACAGGGGTATTTTAGTAATTTTATAAATCGAGGGTAAA
* *
4652809 TCGGTAATTTCACAAA
66 ACAGTAATTTCACAAA
*
4652825 -CTAAGGGTATTT-TGGTAA-TTT-TACAAACTAGGGGTATTTTAGTAATTTTGTAAATCGAGGG
1 TC-AAGGGTATTTCT-GTAACTTTGTA-AAAC-AGGGGTATTTTAGTAATTTTATAAATCGAGGG
*
4652886 TAAAACAGTAA-TTCTATAAA
62 TAAAACAGTAATTTC-ACAAA
4652906 TCAAGGGTA
1 TCAAGGGTA
4652915 AAACAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
79 2 0.03
80 11 0.15
81 61 0.81
82 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
TCAAGGGTATTTCTGTAACTTTGTAAAACAGGGGTATTTTAGTAATTTTATAAATCGAGGGTAAA
ACAGTAATTTCACAAA
Found at i:4652942 original size:27 final size:27
Alignment explanation
Indices: 4652866--4653295 Score: 440
Period size: 27 Copynumber: 15.8 Consensus size: 27
4652856 GGGTATTTTA
* *
4652866 GTAATTTTGTAAATC-GAGGGTAAAACA
1 GTAATTATGTAAATCAG-GGGTAAAACG
* * * *
4652893 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAGGGGTAAAACG
* * * *
4652920 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAGGGGTAAAACG
4652947 GTAATT-TAGTAAATC-GAGGGTAAAACG
1 GTAATTAT-GTAAATCAG-GGGTAAAACG
* * *
4652974 GTAATTCTGTAAATCGGGGGTAAAATG
1 GTAATTATGTAAATCAGGGGTAAAACG
* * *
4653001 ATAATTATGTAAATTAGGGGTAAAATG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
4653028 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
4653055 ATAATTCTGTAAGTCGATCAGGGGTAAAACG
1 GTAATTATGTAA----ATCAGGGGTAAAACG
**
4653086 GTAATTATGTAAATTGGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* * *
4653113 GTAATTCTGTAATTC-GAGGGTAAAATG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
4653140 ATAATTATGTAAATCA-GGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
4653166 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* * *
4653193 GTAATTCTGTAAGTC-GAGGGTAAAATG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
4653220 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
4653247 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
4653274 GTAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCAGGGGTA
4653296 CTTTGGTAAT
Statistics
Matches: 346, Mismatches: 43, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
26 26 0.08
27 293 0.85
28 3 0.01
31 24 0.07
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTATGTAAATCAGGGGTAAAACG
Found at i:4653306 original size:81 final size:81
Alignment explanation
Indices: 4652866--4653295 Score: 544
Period size: 81 Copynumber: 5.3 Consensus size: 81
4652856 GGGTATTTTA
* * * * * * *
4652866 GTAATTTTGTAAATCGAGGGTAAAA-CAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAATGA-TAATTCTGTAAATCAGGGGTAAAACGGTAATTATGT
* * *
4652930 AAATCAAGGGTAAAACA
65 AAATTAGGGGTAAAACG
* * * * *
4652947 GTAATT-TAGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGGGGGTAAAATGATAATTATGT
1 GTAATTCT-GTAAATCGAGGGTAAAATGATAATTCTGTAAATCAGGGGTAAAACGGTAATTATGT
*
4653011 AAATTAGGGGTAAAATG
65 AAATTAGGGGTAAAACG
* * *
4653028 GTAATTATGTAAAT-TAGGGGTAAAACGATAATTCTGTAAGTCGATCAGGGGTAAAACGGTAATT
1 GTAATTCTGTAAATCGA-GGGTAAAATGATAATTCTGTAA----ATCAGGGGTAAAACGGTAATT
*
4653092 ATGTAAATTGGGGGTAAAACG
61 ATGTAAATTAGGGGTAAAACG
* *
4653113 GTAATTCTGTAATTCGAGGGTAAAATGATAATTATGTAAATCA-GGGTAAAACGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCAGGGGTAAAACGGTAATTATGTA
4653177 AATTAGGGGTAAAACG
66 AATTAGGGGTAAAACG
* *
4653193 GTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCAGGGGTAAAACGGTAATTATGTA
4653258 AATTAGGGGTAAAACG
66 AATTAGGGGTAAAACG
*
4653274 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
4653296 CTTTGGTAAT
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
80 80 0.26
81 158 0.51
82 1 0.00
85 69 0.22
86 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCAGGGGTAAAACGGTAATTATGTA
AATTAGGGGTAAAACG
Found at i:4653322 original size:27 final size:27
Alignment explanation
Indices: 4653292--4653390 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
4653282 GTAAATCGGG
*
4653292 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
4653319 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
4653346 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
4653372 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
4653391 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:4653330 original size:54 final size:53
Alignment explanation
Indices: 4653284--4653388 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
4653274 GTAATTCTGT
* * *
4653284 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
4653338 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
4653389 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:4653404 original size:27 final size:27
Alignment explanation
Indices: 4653301--4653405 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
4653291 GGGTACTTTG
* * *
4653301 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
4653328 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
4653355 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
4653382 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
4653406 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:4653661 original size:5 final size:5
Alignment explanation
Indices: 4653651--4653676 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4653641 TGAGCATTCG
4653651 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
4653677 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:4654710 original size:9 final size:9
Alignment explanation
Indices: 4654696--4654732 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4654686 TATAGTTTGA
4654696 TATTCGAAT
1 TATTCGAAT
4654705 TATTCGAAT
1 TATTCGAAT
*
4654714 TATTCGAGT
1 TATTCGAAT
4654723 TATTCGAAT
1 TATTCGAAT
4654732 T
1 T
4654733 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4654803 original size:9 final size:9
Alignment explanation
Indices: 4654784--4654816 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
4654774 ATTTGAGTTG
4654784 ACTCGAATA
1 ACTCGAATA
4654793 ACTC-AATTA
1 ACTCGAA-TA
4654802 ACTCGAATA
1 ACTCGAATA
4654811 ACTCGA
1 ACTCGA
4654817 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:4655708 original size:87 final size:87
Alignment explanation
Indices: 4655562--4655731 Score: 313
Period size: 87 Copynumber: 2.0 Consensus size: 87
4655552 CCTTTCATTG
*
4655562 CACAATTAAATACCTATATAAAACCTCCTTACAAACCCACACTCGAGGCCCAATACTTCTAGGCC
1 CACAATTAAATACCTATATAAAACCTCCTTACAAACCCACACTCAAGGCCCAATACTTCTAGGCC
4655627 CAAATTCAGGGTGTTACAATGA
66 CAAATTCAGGGTGTTACAATGA
*
4655649 CACAATTAAATACCTATATAAAACCTCCTTACGAACCCACACTCAAGGCCCAATACTTCTAGGCC
1 CACAATTAAATACCTATATAAAACCTCCTTACAAACCCACACTCAAGGCCCAATACTTCTAGGCC
*
4655714 CAAATTTAGGGTGTTACA
66 CAAATTCAGGGTGTTACA
4655732 TACCAAATAA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.24
Consensus pattern (87 bp):
CACAATTAAATACCTATATAAAACCTCCTTACAAACCCACACTCAAGGCCCAATACTTCTAGGCC
CAAATTCAGGGTGTTACAATGA
Found at i:4658470 original size:18 final size:18
Alignment explanation
Indices: 4658444--4658489 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
4658434 AAAGTGGCGA
4658444 ATTGACTAAGCCCGACAT
1 ATTGACTAAGCCCGACAT
* *
4658462 ATTGTCTAAGCCCGGCAT
1 ATTGACTAAGCCCGACAT
*
4658480 ATTAACTAAG
1 ATTGACTAAG
4658490 GCTAGTGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (18 bp):
ATTGACTAAGCCCGACAT
Found at i:4666212 original size:5 final size:5
Alignment explanation
Indices: 4666202--4666234 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
4666192 TTTGTGTGTT
4666202 TTTTA TTTTA -TTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4666235 TTCACAGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:4666217 original size:9 final size:9
Alignment explanation
Indices: 4666203--4666233 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
4666193 TTGTGTGTTT
4666203 TTTATTTTA
1 TTTATTTTA
4666212 TTTATTTTA
1 TTTATTTTA
4666221 TTTTATTTTA
1 -TTTATTTTA
4666231 TTT
1 TTT
4666234 TTTCACAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Done.