Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 103 of 235
Found at i:35544755 original size:243 final size:245
Alignment explanation
Indices: 35543938--35544769 Score: 698
Period size: 255 Copynumber: 3.4 Consensus size: 245
35543928 AACAGACATT
* * *
35543938 AAAAATAGAAATTGAAAATAGCTCA-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCACGCA--TGAGCCAAGGCTCAACTCACCTCTCACAATATGA
** * * ** * *
35544002 GTTGA--TTTTTTG--AAACTTAACTT-GAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CT
64 GTTGATTTTTTTTGAAAAACAGAAATTGGAAAA-CGGAAATTGAAAATACCTCGACATGTGACCC
* * * * *
35544061 GAAGGTTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATAGAAATT-AAAAGACTC
128 G-AGGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-A-T-
* * * * ** *
35544123 AACTCAACTCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
189 ACCTC-A---GCG-TGTACCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* * * * **
35544188 AAAAAAAAAACAGAAATTGAAAATAGCTTA-GCACGTAAGCCAAGGCTCAACTCACTTCTTGCAA
1 -----AAAAACAGAAATTGAAAATACCTCACGCA--TGAGCCAAGGCTCAACTCACCTCTCACAA
* * * **
35544252 TATGAGTTGA---TTTTTG-AAAACA-TAATCTGAAAAACAGATTTTGAAAATACCTCGACATGT
59 TATGAGTTGATTTTTTTTGAAAAACAGAAAT-TGGAAAACGGAAATTGAAAATACCTCGACATGT
* ** * *
35544312 GACCCGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAA
123 GACCCGAGGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAA
* *
35544377 ATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
187 ATACCTCAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * * *
35544437 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCA-CGCATGAGCCAAGGCTCAACTCACCTCTCACAATATGAG
** * * *
35544502 TTGATTTTTTTTGAAAGGCAGAAATTGGAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGA
65 TTGATTTTTTTTGAAAAACAGAAATTGGAAAACGGAAATTGAAAATACCTCGACATGTGACCCGA
* * * * *
35544567 GGCTCAACTCGCCTCTTACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTCA
130 GGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCA
* *
35544630 GCGTGT-CCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTG
195 GCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** **
35544680 AAAAATAGAAATTGAAAATACCTCA-GCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGAG
1 AAAAACAGAAATTGAAAATACCTCACGCATGAGC-CAAGGCTCAACTCACCTCTCACAATATGAG
35544743 TTGATTTTTTTTTGAAAAACAGAAATT
65 TTGA-TTTTTTTTGAAAAACAGAAATT
35544770 AAAAATACCT
Statistics
Matches: 494, Mismatches: 65, Indels: 49
0.81 0.11 0.08
Matches are distributed among these distances:
240 1 0.00
241 33 0.07
242 20 0.04
243 63 0.13
244 59 0.12
245 15 0.03
246 2 0.00
247 16 0.03
248 70 0.14
249 12 0.02
250 31 0.06
251 1 0.00
252 3 0.01
254 8 0.02
255 126 0.26
256 10 0.02
257 19 0.04
258 1 0.00
259 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (245 bp):
AAAAACAGAAATTGAAAATACCTCACGCATGAGCCAAGGCTCAACTCACCTCTCACAATATGAGT
TGATTTTTTTTGAAAAACAGAAATTGGAAAACGGAAATTGAAAATACCTCGACATGTGACCCGAG
GCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAG
CGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:35544854 original size:149 final size:147
Alignment explanation
Indices: 35544529--35544878 Score: 432
Period size: 149 Copynumber: 2.3 Consensus size: 147
35544519 GCAGAAATTG
* * * *** *
35544529 GAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTTACAATACGAG
1 GAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATACGAG
* * * * * *
35544594 TTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
64 TTGATTTTTTTGAAAACAGAAATTAAAAATACCTCAGCATGTCCTAAGGCTCAACTAACCTCTCG
* *
35544659 TAATATGAGTTGATTTTTTT
129 CAATATGAGTTGA-TATTTT
* * *
35544679 GAAAAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGT
1 G-AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGAGT
* **
35544744 TGATTTTTTTTTGAAAAACAGAAATTAAAAATACCTCAGCATGTCTTAAGGCTCAACTAATTTCT
65 TGA--TTTTTTTG-AAAACAGAAATTAAAAATACCTCAGCATGTCCTAAGGCTCAACTAACCTCT
35544809 CGCAATATGAGTTGA-ATTTT
127 CGCAATATGAGTTGATATTTT
*
35544829 GAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
35544879 TGAACAGAAA
Statistics
Matches: 172, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
149 76 0.44
150 6 0.03
151 34 0.20
152 56 0.33
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (147 bp):
GAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGAGTT
GATTTTTTTGAAAACAGAAATTAAAAATACCTCAGCATGTCCTAAGGCTCAACTAACCTCTCGCA
ATATGAGTTGATATTTT
Found at i:35544898 original size:49 final size:49
Alignment explanation
Indices: 35544832--35544927 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
35544822 GAATTTTGAA
*
35544832 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
35544881 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
35544928 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:35544917 original size:121 final size:121
Alignment explanation
Indices: 35544760--35544999 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
35544750 TTTTTTGAAA
*
35544760 AACAGAAATTAAAAATACCTCAGCATGTCTTAAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTAAAAATACCTCAACATGTCTTAAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
*
35544825 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* * * * *
35544881 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTAAAAATACCTCAACATGTCTTAAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
35544946 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
35545000 CTCGCAATAT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (121 bp):
AACAGAAATTAAAAATACCTCAACATGTCTTAAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:35544961 original size:72 final size:72
Alignment explanation
Indices: 35544881--35545178 Score: 429
Period size: 72 Copynumber: 4.0 Consensus size: 72
35544871 ACTCATTTTG
35544881 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
35544946 TTTTGAA
66 TTTTGAA
35544953 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
35545018 TTTTGAA
66 TTTTGAA
35545025 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
35545090 TTTTTTTTTTGAA
66 ------TTTTGAA
* * * * ** *
35545103 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
35545167 TG-ATTTTGAA
62 TGAATTTTGAA
35545177 AA
1 AA
35545179 AGTAGAAATT
Statistics
Matches: 209, Mismatches: 7, Indels: 19
0.89 0.03 0.08
Matches are distributed among these distances:
72 137 0.66
73 1 0.00
74 8 0.04
78 8 0.04
79 20 0.10
80 1 0.00
81 33 0.16
82 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:35545022 original size:193 final size:195
Alignment explanation
Indices: 35544686--35545071 Score: 623
Period size: 193 Copynumber: 2.0 Consensus size: 195
35544676 TTTGAAAAAT
*
35544686 AGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGA---T
* *
35544751 TTTTTGAAAAACAGAAATTAAAAATACCTCAGCATGTCTTAAGGCTCAACTAATTTCTCGCAATA
63 ATTTTGAAAAACAGAAATTAAAAATACCTCAACATGTCTTAAGGCTCAACTAATTTCTCGCAATA
*
35544816 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
128 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
35544881 AAC
193 AAC
* * *
35544884 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT
1 AGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATATT
* * * * *
35544948 TTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAAACAGAAATTAAAAATACCTCAACATGTCTTAAGGCTCAACTAATTTCTCGCAATATGA
35545012 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
131 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
35545072 CTCGCAATAT
Statistics
Matches: 176, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
193 114 0.65
194 5 0.03
198 57 0.32
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (195 bp):
AGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATATT
TTGAAAAACAGAAATTAAAAATACCTCAACATGTCTTAAGGCTCAACTAATTTCTCGCAATATGA
GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTGAAC
Found at i:35545230 original size:54 final size:54
Alignment explanation
Indices: 35545143--35545285 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
35545133 AACCGAGGCT
* *
35545143 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTC
1 CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAACTAAAAGGTC
* *
35545197 CAACCCACCTCTCGCAATATGCGCTGATTTTGAAAAAGTAGAAACTAAAAGGTT
1 CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAACTAAAAGGTC
* *
35545251 CAACCCACTTCTCGCAATATGAGTTGATTCTTGAA
1 CAACCCACCTCTCGCAATATGAGCTGATT-TTGAA
35545286 CAACATAAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 76 0.94
55 5 0.06
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (54 bp):
CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAACTAAAAGGTC
Found at i:35545308 original size:13 final size:13
Alignment explanation
Indices: 35545281--35545314 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
35545271 GAGTTGATTC
*
35545281 TTGAACAACATAAA
1 TTGAA-AACAGAAA
35545295 TTGAAAACAGAAA
1 TTGAAAACAGAAA
35545308 TTGAAAA
1 TTGAAAA
35545315 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:35545436 original size:54 final size:53
Alignment explanation
Indices: 35545336--35545440 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 53
35545326 GACCTGAGGC
* *
35545336 TCAACTCACCTCTCGCAATATGAGCTGGTTTTGAAAAAGTAGAAATTAAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTAAAAGGT
* * *
35545390 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTAAAA
35545441 ACAGAAATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 35 0.80
55 5 0.11
56 4 0.09
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (53 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTAAAAGGT
Found at i:35545576 original size:54 final size:54
Alignment explanation
Indices: 35545477--35545581 Score: 142
Period size: 54 Copynumber: 1.9 Consensus size: 54
35545467 ACCTGAGGCT
*
35545477 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGTG
1 CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGTG
* *
35545531 CAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 CAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
35545582 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (54 bp):
CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGTG
Found at i:35545716 original size:54 final size:54
Alignment explanation
Indices: 35545617--35545721 Score: 142
Period size: 54 Copynumber: 1.9 Consensus size: 54
35545607 ACCTGAGGCT
*
35545617 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGTG
1 CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGTG
* *
35545671 CAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 CAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
35545722 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (54 bp):
CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGTG
Found at i:35545793 original size:140 final size:140
Alignment explanation
Indices: 35545197--35545776 Score: 1052
Period size: 140 Copynumber: 4.1 Consensus size: 140
35545187 TTAAAAGGTC
* * * * *
35545197 CAACCCACCTCTCGCAATATGCGCTGATTTTGAAAAAGTAGAAACTAAAAGGTTCAACCCACTTC
1 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTGCAACCCACCTC
*
35545262 TCGCAATATGAGTTGATTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
66 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
35545327 ACCTGAGGCT
131 ACCTGAGGCT
* * *
35545337 CAACTCACCTCTCGCAATATGAGCTGGTTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTC
1 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTGCAACCCACCTC
* * *
35545402 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTAAAAACAGAAATTGAAAATACCTTAGTGTG
66 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
35545467 ACCTGAGGCT
131 ACCTGAGGCT
35545477 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTGCAACCCACCTC
1 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTGCAACCCACCTC
35545542 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
66 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
35545607 ACCTGAGGCT
131 ACCTGAGGCT
35545617 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTGCAACCCACCTC
1 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTGCAACCCACCTC
35545682 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
66 TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
35545747 ACCTGAGGCT
131 ACCTGAGGCT
35545757 CAACTCACCTCTCGCAATAT
1 CAACTCACCTCTCGCAATAT
35545777 TAGTTGAAAT
Statistics
Matches: 426, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 426 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (140 bp):
CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTGCAACCCACCTC
TCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTG
ACCTGAGGCT
Found at i:35545835 original size:72 final size:72
Alignment explanation
Indices: 35545718--35545877 Score: 241
Period size: 72 Copynumber: 2.2 Consensus size: 72
35545708 ACGTAAATTG
* * * *
35545718 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATTAGTTG
1 AAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
35545783 AAATTAA
66 AAATTAA
*
35545790 AAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
1 AAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
** *
35545855 ATTTTGA
66 AAATTAA
35545862 AAAACAAAAATT-AAAA
1 AAAACAAAAATTGAAAA
35545878 GGCTTAACTC
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 4 0.05
72 76 0.95
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (72 bp):
AAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
AAATTAA
Found at i:35545970 original size:121 final size:124
Alignment explanation
Indices: 35545752--35545997 Score: 383
Period size: 121 Copynumber: 2.0 Consensus size: 124
35545742 GCGTGACCTG
* *
35545752 AGGCTCAACTCACCTCTCGCAATATTAGTTGAAATTAAAAAACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAAACAAAAACTGAAAATACCTCAGCG
35545817 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-AAAAATTAAA
* * * *
35545877 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATT-TAAAACATAAACT-AAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAAACAAAAACTGAAAATACCTCAGCG
* *
35545938 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
35545997 A
1 A
35545998 ATACCTCAAC
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
120 11 0.10
121 61 0.54
122 10 0.09
123 4 0.04
124 1 0.01
125 26 0.23
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAAACAAAAACTGAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
Found at i:35546025 original size:71 final size:69
Alignment explanation
Indices: 35545877--35546050 Score: 208
Period size: 71 Copynumber: 2.5 Consensus size: 69
35545867 AAAAATTAAA
* * * * * * *
35545877 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAATACCTCAGCGTGC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAATACCTCAACGTGC
35545941 CCCG
66 CCCG
*
35545945 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAAAAAAACT-AAAATACCTCAACGT
* **
35546010 GTCTTG
64 GCCCCG
35546016 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
35546051 CCCTTGAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
68 26 0.29
69 5 0.05
70 10 0.11
71 50 0.55
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (69 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAATACCTCAACGTGC
CCCG
Found at i:35561493 original size:15 final size:15
Alignment explanation
Indices: 35561473--35561538 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
35561463 GATTGTAAAC
35561473 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
35561488 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
35561507 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
35561522 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
35561535 ATTT
1 ATTT
35561539 TCAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:35561588 original size:16 final size:16
Alignment explanation
Indices: 35561557--35561593 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
35561547 ATGTGAATAA
35561557 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
35561573 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
35561589 TATTA
1 TATTA
35561594 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:35561645 original size:22 final size:22
Alignment explanation
Indices: 35561605--35561660 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
35561595 AATAAAATTG
*
35561605 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
35561625 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
35561647 TATTAATAATTTAT
1 AAATAATAAATTAT
35561661 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:35567433 original size:93 final size:93
Alignment explanation
Indices: 35567328--35567778 Score: 794
Period size: 93 Copynumber: 4.8 Consensus size: 93
35567318 GCCCATAAGT
* * * ** **
35567328 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
35567393 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
35567421 AAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
35567486 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
35567514 GAACTCAGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
35567579 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
35567607 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
35567672 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
35567700 GAACTCAGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
35567765 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
35567779 CAAATATCCT
Statistics
Matches: 344, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 344 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35567439 original size:47 final size:47
Alignment explanation
Indices: 35567382--35567722 Score: 286
Period size: 47 Copynumber: 7.3 Consensus size: 47
35567372 GTGAACTCAA
*
35567382 ACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCTCAAACTCGG
1 ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGG
* * *
35567429 ACTCAACTCAACGAGTTC-GA--AC-A-TTCACATC-CATAAGTGAACTCGG
1 ACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTC-TCA---AACTCGG
* *
35567475 ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCAG
1 ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGG
* * *
35567522 ACTCAACTCAACGAGTTC-GA--AC-A-TTCACATC-CATAAGTGAACTCGG
1 ACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTC-TCA---AACTCGG
*
35567568 ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGG
1 ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGG
* * *
35567615 ACTCAACTCAACGAGTTC-GA--AC-A-TTCACATC-CATAAGTGAACTCGG
1 ACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTC-TCA---AACTCGG
* *
35567661 ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCAG
1 ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGG
35567708 ACTCAACTCAACGAG
1 ACTCAACTCAACGAG
35567723 TTCGAACATT
Statistics
Matches: 234, Mismatches: 27, Indels: 66
0.72 0.08 0.20
Matches are distributed among these distances:
42 9 0.04
43 22 0.09
44 3 0.01
46 77 0.33
47 90 0.38
49 3 0.01
50 21 0.09
51 9 0.04
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (47 bp):
ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGG
Found at i:35567793 original size:46 final size:46
Alignment explanation
Indices: 35567325--35567793 Score: 274
Period size: 46 Copynumber: 10.1 Consensus size: 46
35567315 CCCGCCCATA
* * ***
35567325 AGTGAACTCGGACTCAACTCAACGAGCTC-GA-GCGTTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACACATCC-T
** * * *
35567370 AAGTGAACTCAAACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--CACATC-CT
* * *
35567420 CA---AACTCGGACTCAACTCAACGAGTTC-GA-ACATTCACATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACACATCC-T
* *
35567463 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--CACATC-CT
* * * * *
35567513 --CGAACTCAGACTCAACTCAACGAGTTC-GA-ACATTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACACATCC-T
* *
35567556 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--CACATC-CT
* * * *
35567606 --CGAACTCGGACTCAACTCAACGAGTTC-GA-ACATTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACACATCC-T
* *
35567649 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--CACATC-CT
* * * * *
35567699 --CGAACTCAGACTCAACTCAACGAGTTC-GA-ACATTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACACATCC-T
* * *
35567742 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACACATCCT
35567789 AGTGA
1 AGTGA
35567794 CATGTCACTT
Statistics
Matches: 323, Mismatches: 62, Indels: 76
0.70 0.13 0.16
Matches are distributed among these distances:
42 4 0.01
43 25 0.08
45 8 0.02
46 137 0.42
47 105 0.33
48 15 0.05
50 25 0.08
51 4 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACACATCCT
Found at i:35569405 original size:53 final size:53
Alignment explanation
Indices: 35569317--35569420 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 53
35569307 CCACGACACT
* * * *
35569317 AAAGAAGGCCATACTATGTAAGATCATAACTGGTGGGTTATGGTATCATATGG
1 AAAGAAGACCATACTATGTAAGACCATAACCGGTGGGTTATGGCATCATATGG
* * * *
35569370 AAAGAAGACCATATTGTGTAAGACCCTAACCGGTGGGTTCTGGCATCATAT
1 AAAGAAGACCATACTATGTAAGACCATAACCGGTGGGTTATGGCATCATAT
35569421 AAGGAAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (53 bp):
AAAGAAGACCATACTATGTAAGACCATAACCGGTGGGTTATGGCATCATATGG
Found at i:35569638 original size:61 final size:61
Alignment explanation
Indices: 35569541--35569672 Score: 192
Period size: 61 Copynumber: 2.2 Consensus size: 61
35569531 CCAAGAGAAT
* ** *
35569541 GAAAGCCGTTGTGGTGAGTACTGAATGTAAAGGATAGCCTTTATGGCACAACTTTGGACAG
1 GAAAGCCTTTGTGGTGAGTACCAAATGTAAAGGATAGCCTTTATGGCACAACTTTGGACAA
* * * *
35569602 GAAAGCCTTTGTGGTGAGTACCAAATTTAAATGATAGCCTTTGTGGCACAACTTTGGATAA
1 GAAAGCCTTTGTGGTGAGTACCAAATGTAAAGGATAGCCTTTATGGCACAACTTTGGACAA
35569663 GAAAGCCTTT
1 GAAAGCCTTT
35569673 ATGGCACAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (61 bp):
GAAAGCCTTTGTGGTGAGTACCAAATGTAAAGGATAGCCTTTATGGCACAACTTTGGACAA
Found at i:35569705 original size:28 final size:29
Alignment explanation
Indices: 35569637--35569705 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
35569627 TTTAAATGAT
35569637 AGCCTTTGTGGCACAACTTTGGATAAGAA
1 AGCCTTTGTGGCACAACTTTGGATAAGAA
*
35569666 AGCCTTTATGGCACAACTTTGGAT-AGAA
1 AGCCTTTGTGGCACAACTTTGGATAAGAA
35569694 AGCCTTTGTGGC
1 AGCCTTTGTGGC
35569706 TAGTACTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (29 bp):
AGCCTTTGTGGCACAACTTTGGATAAGAA
Found at i:35569732 original size:89 final size:90
Alignment explanation
Indices: 35569576--35569763 Score: 238
Period size: 89 Copynumber: 2.1 Consensus size: 90
35569566 TGTAAAGGAT
* ** * *
35569576 AGCCTTTATGGCACAACTTTGGACAGGAAAGCCTTTGTGGTGAGTACCAAATTTAAATGATAGCC
1 AGCCTTTATGGCACAACTTTGGACAGGAAAGCCTTTGTGGTGAGTACCAAATGTAAAAAACAACC
* *
35569641 TTTGTGGCACAACTT-TGGATAAGAA
66 TTTGTGGCACAA-TTCTAGACAAGAA
* **
35569666 AGCCTTTATGGCACAACTTTGGATA-GAAAGCCTTTGTGGCT-AGTACTGAATGTAAAAAACAAC
1 AGCCTTTATGGCACAACTTTGGACAGGAAAGCCTTTGTGG-TGAGTACCAAATGTAAAAAACAAC
*
35569729 CTTTGTGGCACAATTCTAGACAGGAA
65 CTTTGTGGCACAATTCTAGACAAGAA
35569755 AGCCTTTAT
1 AGCCTTTAT
35569764 AGCGAGTACT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
88 2 0.02
89 58 0.68
90 25 0.29
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (90 bp):
AGCCTTTATGGCACAACTTTGGACAGGAAAGCCTTTGTGGTGAGTACCAAATGTAAAAAACAACC
TTTGTGGCACAATTCTAGACAAGAA
Found at i:35569740 original size:60 final size:61
Alignment explanation
Indices: 35569668--35569782 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
35569658 GATAAGAAAG
* * * * *
35569668 CCTTTATGGCACAACTT-TGGATA-GAAAGCCTTTGTGGCTAGTACTGAATGTAAAAAACAA
1 CCTTTATGGCACAA-TTCTAGACAGGAAAGCCTTTATAGCGAGTACTGAATGTAAAAAACAA
*
35569728 CCTTTGTGGCACAATTCTAGACAGGAAAGCCTTTATAGCGAGTACTGAATGTAAA
1 CCTTTATGGCACAATTCTAGACAGGAAAGCCTTTATAGCGAGTACTGAATGTAAA
35569783 GGAAAGTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 2 0.04
60 17 0.36
61 28 0.60
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (61 bp):
CCTTTATGGCACAATTCTAGACAGGAAAGCCTTTATAGCGAGTACTGAATGTAAAAAACAA
Found at i:35570493 original size:5 final size:5
Alignment explanation
Indices: 35570468--35570625 Score: 194
Period size: 5 Copynumber: 31.2 Consensus size: 5
35570458 AAGATTTTTT
* * * * * *
35570468 TTATA TT-TA GTATA TTAT- TATATTA TTATA TTATT TTATA ATAAA GATATT
1 TTATA TTATA TTATA TTATA T-TA-TA TTATA TTATA TTATA TTATA -TTATA
* *
35570519 TTATG TTTTA ATTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA -TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
35570570 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
35570620 TTATA T
1 TTATA T
35570626 AAACTAAAGA
Statistics
Matches: 134, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
4 4 0.03
5 119 0.89
6 10 0.07
7 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:35571911 original size:15 final size:15
Alignment explanation
Indices: 35571891--35571947 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
35571881 CGATGAATTT
35571891 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
35571906 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
35571921 ATTGAATTTATATTG
1 ATTGAATTTATATTG
35571936 ATTGAA-TTATAT
1 ATTGAATTTATAT
35571948 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:35572349 original size:23 final size:23
Alignment explanation
Indices: 35572319--35572405 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
35572309 GCTTTATCGA
* *
35572319 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
35572342 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
35572363 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
35572385 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
35572406 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:35576970 original size:8 final size:8
Alignment explanation
Indices: 35576957--35576981 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
35576947 TTTTTTATGT
35576957 TTATTATA
1 TTATTATA
35576965 TTATTATA
1 TTATTATA
35576973 TTATTATA
1 TTATTATA
35576981 T
1 T
35576982 AATAAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:35577014 original size:5 final size:5
Alignment explanation
Indices: 35577004--35577039 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
35576994 TTATGTTTTA
35577004 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
35577040 AAACTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:35578330 original size:15 final size:15
Alignment explanation
Indices: 35578310--35578366 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
35578300 CGATGAATTT
35578310 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
35578325 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
35578340 ATTGAATTTATATTG
1 ATTGAATTTATATTG
35578355 ATTGAA-TTATAT
1 ATTGAATTTATAT
35578367 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:35578768 original size:23 final size:23
Alignment explanation
Indices: 35578738--35578824 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
35578728 GCTTTATCGA
* *
35578738 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
35578761 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
35578782 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
35578804 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
35578825 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:35587228 original size:47 final size:45
Alignment explanation
Indices: 35587118--35587285 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 45
35587108 ACTTGTGTGA
* *
35587118 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGTGA-GAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGAGACTAG
* * *
35587165 CCTA-TATAAGACCATGTTTGGGACATGGCATCGGCATTGAGACTAG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACTAG
* * * * *
35587211 TGCTAGTGTAAGACATGTCTGGGACATGCTTCGACCTCGAGACATAA
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC-TAG
*
35587258 GCCAGTGTAAGACATGTCTGGGACATGC
1 GCTAGTGTAAGACATGTCTGGGACATGC
35587286 TGTGACAGCC
Statistics
Matches: 101, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
45 7 0.07
46 47 0.47
47 34 0.34
48 13 0.13
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACTAG
Found at i:35589001 original size:27 final size:27
Alignment explanation
Indices: 35588970--35589147 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
35588960 TAAATTGTAC
*
35588970 AGCACTAAGTGTGCGATTTAACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35588997 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35589023 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35589051 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35589079 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35589106 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35589133 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35589148 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35589087 original size:82 final size:81
Alignment explanation
Indices: 35588971--35589126 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
35588961 AAATTGTACA
* *
35588971 GCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35589035 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
35589052 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35589117 TGCGAGTTGA
65 TGCGAATTGA
35589127 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35589138 original size:82 final size:81
Alignment explanation
Indices: 35588967--35589147 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
35588957 GATTAAATTG
* *
35588967 TACAGCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35589032 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
35589048 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35589112 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35589130 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35589148 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35595118 original size:10 final size:11
Alignment explanation
Indices: 35595099--35595123 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35595089 TGAAATCCCA
35595099 TTTTCTTTTTT
1 TTTTCTTTTTT
35595110 TTTTCTTTTTT
1 TTTTCTTTTTT
35595121 TTT
1 TTT
35595124 GTCACACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:35595792 original size:41 final size:41
Alignment explanation
Indices: 35595548--35595793 Score: 316
Period size: 41 Copynumber: 6.0 Consensus size: 41
35595538 GTAAAACACA
* * *
35595548 GAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAA-ACA
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* * *
35595588 GAGCAATAGCGGCGTTTTTTGGTAAAACGCCGCTAAAA-ACA
1 GAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAGTCG
* * *
35595629 GAGCAATAGCGGCGTTTTTTTGTTAAAACGCCGCTAGAAGTCG
1 GAGCAATAGCGGCG--CTTTTGGTAAAACGCCGCTAAAAGTCG
* *
35595672 GGGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* * *
35595713 GGGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTTG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
*
35595754 GAGCACTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
35595794 ATATAACCCC
Statistics
Matches: 188, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
40 14 0.07
41 139 0.74
42 22 0.12
43 13 0.07
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
Found at i:35595874 original size:37 final size:37
Alignment explanation
Indices: 35595832--35595903 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
35595822 AAAAATCATG
* * *
35595832 AACACTAATCTATAACTCCTAAAATACTAAACCCCTA
1 AACACTAAACCATAACTCCTAAAACACTAAACCCCTA
* *
35595869 AACACTAAACCATAACTTCTAAAACCCTAAACCCC
1 AACACTAAACCATAACTCCTAAAACACTAAACCCC
35595904 AAAAAACGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (37 bp):
AACACTAAACCATAACTCCTAAAACACTAAACCCCTA
Found at i:35596026 original size:7 final size:7
Alignment explanation
Indices: 35596014--35596077 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
35596004 TTTATTTTTT
*
35596014 GGTTTAC
1 GGTTTAA
35596021 GGTTTAA
1 GGTTTAA
**
35596028 TATTTAA
1 GGTTTAA
35596035 GGTTTAA
1 GGTTTAA
* *
35596042 GGTCTAT
1 GGTTTAA
*
35596049 GGTTTAG
1 GGTTTAA
*
35596056 GGTTTTAT
1 GG-TTTAA
35596064 GGTTTAA
1 GGTTTAA
35596071 GGTTTAA
1 GGTTTAA
35596078 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:35596066 original size:15 final size:15
Alignment explanation
Indices: 35596030--35596080 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
35596020 CGGTTTAATA
*
35596030 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
35596044 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
35596059 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
35596074 TTAATGG
1 TTTATGG
35596081 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:35596684 original size:8 final size:8
Alignment explanation
Indices: 35596671--35596722 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
35596661 AAATAAACTC
35596671 AAAATTTA
1 AAAATTTA
35596679 AAAATTT-
1 AAAATTTA
*
35596686 AAAAGTT-
1 AAAATTTA
35596693 AAAATTTA
1 AAAATTTA
35596701 AAAA---A
1 AAAATTTA
*
35596706 AAAACTTA
1 AAAATTTA
35596714 AAAATTTA
1 AAAATTTA
35596722 A
1 A
35596723 TATTTAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.14
7 12 0.32
8 20 0.54
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AAAATTTA
Found at i:35604742 original size:21 final size:21
Alignment explanation
Indices: 35604716--35604757 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
35604706 AAGAAATGCA
*
35604716 TTCCTGCGCGTACTGGCTAAG
1 TTCCTGCGCGTACCGGCTAAG
35604737 TTCCTGCGCGTACCGGCTAAG
1 TTCCTGCGCGTACCGGCTAAG
35604758 CCTTACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (21 bp):
TTCCTGCGCGTACCGGCTAAG
Found at i:35606958 original size:40 final size:40
Alignment explanation
Indices: 35606912--35607136 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
35606902 CTTGCGCAAG
* * *
35606912 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
35606952 GCCTTCGGGACTTAGCCCGAATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
35606992 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
35607032 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
35607072 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
35607113 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
35607137 CATTCGAATA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 28 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:35612173 original size:43 final size:43
Alignment explanation
Indices: 35612108--35612248 Score: 210
Period size: 43 Copynumber: 3.3 Consensus size: 43
35612098 ATATCATTAT
* * * * *
35612108 TTTAGCAGCGTTTGTGAGAAAAGTGGCGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
*
35612151 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
* *
35612194 TTTAGCGGCGTTTTTGAAAATAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
35612237 TTTAGCGGCGTT
1 TTTAGCGGCGTT
35612249 GCATATAGCG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
Found at i:35616603 original size:11 final size:11
Alignment explanation
Indices: 35616587--35616617 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
35616577 GTCAGAAAGA
35616587 AAAATTATTTT
1 AAAATTATTTT
35616598 AAAATTATTTT
1 AAAATTATTTT
35616609 AAAATTATT
1 AAAATTATT
35616618 GTATGGTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:35617898 original size:26 final size:26
Alignment explanation
Indices: 35617869--35617926 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
35617859 CCCGTTATAT
*
35617869 GGCTCTTCATAAGCTTCTTGATTAAA
1 GGCTCTTCATAAGCTTCCTGATTAAA
** * *
35617895 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCATAAGCTTCCTGATTAAA
35617921 GGCTCT
1 GGCTCT
35617927 CTGGAGCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
GGCTCTTCATAAGCTTCCTGATTAAA
Found at i:35618007 original size:24 final size:24
Alignment explanation
Indices: 35617940--35618007 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
35617930 GAGCTTTCTA
*
35617940 ATAATGGCTCGTTTGAA-CTTCCCG
1 ATAATGGCTC-TTCGAAGCTTCCCG
* *
35617964 ATATATGGCT-ATCTGGAGCTTCCCG
1 ATA-ATGGCTCTTC-GAAGCTTCCCG
*
35617989 TTAATGGCTCTTCGAAGCT
1 ATAATGGCTCTTCGAAGCT
35618008 ACCTATTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
23 1 0.03
24 16 0.47
25 17 0.50
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (24 bp):
ATAATGGCTCTTCGAAGCTTCCCG
Found at i:35622035 original size:5 final size:5
Alignment explanation
Indices: 35622025--35622055 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
35622015 TTAAGTATAT
35622025 TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA T
35622056 TATATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:35622061 original size:15 final size:16
Alignment explanation
Indices: 35622022--35622062 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
35622012 TAATTAAGTA
35622022 TATTATTATATTATAT
1 TATTATTATATTATAT
35622038 TA-TATTATATTATAT
1 TATTATTATATTATAT
35622053 TATTA-TATAT
1 TATTATTATAT
35622063 AAAAGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:35623242 original size:45 final size:45
Alignment explanation
Indices: 35623137--35623235 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
35623127 CGACTACTGT
* * *
35623137 TACTGTTACCATTACTGTTACCGATTCGACACTTTGTGTGTTGAA
1 TACTGTTACAATTACTATTACAGATTCGACACTTTGTGTGTTGAA
*
35623182 TATTGTTACAATTACTATTACAGATTC-AGCACTTTGTGTGTTGAA
1 TACTGTTACAATTACTATTACAGATTCGA-CACTTTGTGTGTTGAA
35623227 TACTGTTAC
1 TACTGTTAC
35623236 TGTTACTGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (45 bp):
TACTGTTACAATTACTATTACAGATTCGACACTTTGTGTGTTGAA
Found at i:35623258 original size:18 final size:18
Alignment explanation
Indices: 35623227--35623261 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35623217 GTGTGTTGAA
* *
35623227 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
35623245 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
35623262 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:35624242 original size:4 final size:4
Alignment explanation
Indices: 35624235--35624267 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
35624225 AAAAAATATA
35624235 AAAT AAAT -AAT AAAT -AAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
35624268 AATTGGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:35624246 original size:7 final size:7
Alignment explanation
Indices: 35624236--35624270 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
35624226 AAAAATATAA
35624236 AATAAAT
1 AATAAAT
35624243 AATAAAT
1 AATAAAT
35624250 AATAAAT
1 AATAAAT
35624257 AAATAAAT
1 -AATAAAT
35624265 AA-AAAT
1 AATAAAT
35624271 TGGAGTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 4 0.15
7 16 0.59
8 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:35624464 original size:257 final size:257
Alignment explanation
Indices: 35623990--35624648 Score: 1257
Period size: 257 Copynumber: 2.6 Consensus size: 257
35623980 GTCAAAATTT
*
35623990 ATAA-AAATAAAATAAAAAAAAAATTGGAGTACTTAAACGAGTCCCGTTTCACTTAAATGTATGA
1 ATAATAAAT-AAAT-AAATAAAAATTGGAGTACTTAAACGAGTCCCGTTTCACTTAAATGTATGA
35624054 TTTAGATTTGAATAGTTCAATATAGGGATTTAGTAATTAAATTATGCTATGAATATTATTTTATT
64 TTTAGATTTGAATAGTTCAATATAGGGATTTAGTAATTAAATTATGCTATGAATATTATTTTATT
35624119 TGTGAATTATTCATAAATTGGTTGAATTGGTTATGTTTGAAATGAATATGGTTTAATTGCAGGGG
129 TGTGAATTATTCATAAATTGGTTGAATTGGTTATGTTTGAAATGAATATGGTTTAATTGCAGGGG
35624184 TTTTATGTAAAAATAAGCAGAAATGCTATCGAAATTTATAAAAAAAATATAAAATAAATAATAA
194 TTTTATGTAAAAATAAGCAGAAATGCTATCGAAATTTATAAAAAAAATATAAAATAAATAATAA
35624248 ATAATAAATAAATAAATAAAAATTGGAGTACTTAAACGAGTCCCGTTTCACTTAAATGTATGATT
1 ATAATAAATAAATAAATAAAAATTGGAGTACTTAAACGAGTCCCGTTTCACTTAAATGTATGATT
35624313 TAGATTTGAATAGTTCAATATAGGGATTTAGTAATTAAATTATGCTATGAATATTATTTTATTTG
66 TAGATTTGAATAGTTCAATATAGGGATTTAGTAATTAAATTATGCTATGAATATTATTTTATTTG
35624378 TGAATTATTCATAAATTGGTTGAATTGGTTATGTTTGAAATGAATATGGTTTAATTGCAGGGGTT
131 TGAATTATTCATAAATTGGTTGAATTGGTTATGTTTGAAATGAATATGGTTTAATTGCAGGGGTT
35624443 TTATGTAAAAATAAGCAGAAATGCTATCGAAATTTATAAAAAAAATATAAAATAAATAATAA
196 TTATGTAAAAATAAGCAGAAATGCTATCGAAATTTATAAAAAAAATATAAAATAAATAATAA
35624505 ATAATAAATAAATAAATAAAAATTGGAGTACTTAAACGAGTCCCGTTTCACTTAAATGTATGATT
1 ATAATAAATAAATAAATAAAAATTGGAGTACTTAAACGAGTCCCGTTTCACTTAAATGTATGATT
* * *
35624570 TAGATTTGAATAGTTCAATATAGGGATTTAGTAATTCAATTATACTATGAATGTTATTTTATTTG
66 TAGATTTGAATAGTTCAATATAGGGATTTAGTAATTAAATTATGCTATGAATATTATTTTATTTG
35624635 TGAATTATTCATAA
131 TGAATTATTCATAA
35624649 GTTGTCTGAT
Statistics
Matches: 396, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
257 384 0.97
258 8 0.02
259 4 0.01
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (257 bp):
ATAATAAATAAATAAATAAAAATTGGAGTACTTAAACGAGTCCCGTTTCACTTAAATGTATGATT
TAGATTTGAATAGTTCAATATAGGGATTTAGTAATTAAATTATGCTATGAATATTATTTTATTTG
TGAATTATTCATAAATTGGTTGAATTGGTTATGTTTGAAATGAATATGGTTTAATTGCAGGGGTT
TTATGTAAAAATAAGCAGAAATGCTATCGAAATTTATAAAAAAAATATAAAATAAATAATAA
Found at i:35624499 original size:4 final size:4
Alignment explanation
Indices: 35624492--35624524 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
35624482 AAAAAATATA
35624492 AAAT AAAT -AAT AAAT -AAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
35624525 AATTGGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:35624503 original size:7 final size:7
Alignment explanation
Indices: 35624493--35624527 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
35624483 AAAAATATAA
35624493 AATAAAT
1 AATAAAT
35624500 AATAAAT
1 AATAAAT
35624507 AATAAAT
1 AATAAAT
35624514 AAATAAAT
1 -AATAAAT
35624522 AA-AAAT
1 AATAAAT
35624528 TGGAGTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 4 0.15
7 16 0.59
8 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:35628409 original size:26 final size:26
Alignment explanation
Indices: 35628380--35628437 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
35628370 CCCGTTATAT
*
35628380 GGCTCTTCGTGAACTTCCTTATTAAA
1 GGCTCTTCGTGAACTTCCTAATTAAA
* * *
35628406 GGCTCTTTGTGAGCTTCCTAATTAAC
1 GGCTCTTCGTGAACTTCCTAATTAAA
35628432 GGCTCT
1 GGCTCT
35628438 CCAGAGCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTGAACTTCCTAATTAAA
Found at i:35628507 original size:24 final size:24
Alignment explanation
Indices: 35628480--35628526 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
35628470 TTCCGATATG
*
35628480 TGGCTATTCGGAGCTTCCTGTTAA
1 TGGCTATTCGGAGCTACCTGTTAA
*
35628504 TGGCTCTTCGGAGCTACCTGTTA
1 TGGCTATTCGGAGCTACCTGTTA
35628527 TTGACTTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (24 bp):
TGGCTATTCGGAGCTACCTGTTAA
Found at i:35629153 original size:52 final size:52
Alignment explanation
Indices: 35629085--35629185 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
35629075 ACTTGGTCGA
*
35629085 AGTCACATCACACTATCCTTTAGACTTTTCGGTATATAAAGCAAACTAAATG
1 AGTCACATCACACTATCCCTTAGACTTTTCGGTATATAAAGCAAACTAAATG
35629137 AGTCACATCACACTATCCCTTAGACTTTTCGGTATATAAAGCAAACTAA
1 AGTCACATCACACTATCCCTTAGACTTTTCGGTATATAAAGCAAACTAA
35629186 CTTTTGGTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (52 bp):
AGTCACATCACACTATCCCTTAGACTTTTCGGTATATAAAGCAAACTAAATG
Found at i:35629601 original size:29 final size:29
Alignment explanation
Indices: 35629556--35629611 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
35629546 ATGCCCTCAG
* * *
35629556 CCCGTGTGCAACCCTGACTTTAACCTTAT
1 CCCGTGTACAACACTGACTTAAACCTTAT
35629585 CCCGTGTACAACACTGACTTAAACCTT
1 CCCGTGTACAACACTGACTTAAACCTT
35629612 TAGGTGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.29
Consensus pattern (29 bp):
CCCGTGTACAACACTGACTTAAACCTTAT
Found at i:35634537 original size:31 final size:29
Alignment explanation
Indices: 35634489--35634571 Score: 71
Period size: 31 Copynumber: 2.8 Consensus size: 29
35634479 ATATCAAAAT
* *
35634489 TATACATGATC-TATGATTTAATGTATAATTG
1 TATACATGAACAT-TGATTTAATG--CAATTG
* *
35634520 TATACATGAACATTGATTTTATGCAATTT
1 TATACATGAACATTGATTTAATGCAATTG
35634549 TATACATGAA-ATTTTGATTTAAT
1 TATACATGAACA--TTGATTTAAT
35634572 CTACTTATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 1 0.02
29 14 0.32
30 9 0.20
31 19 0.43
32 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (29 bp):
TATACATGAACATTGATTTAATGCAATTG
Found at i:35635500 original size:21 final size:21
Alignment explanation
Indices: 35635435--35635500 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
35635425 AGCTGTTGCT
35635435 ACCATTATCAATATGGTATCG
1 ACCATTATCAATATGGTATCG
* ** *
35635456 ACCACTAT-GTTAT-GTACTCA
1 ACCATTATCAATATGGTA-TCG
35635476 ACCATTATCAATATGGTATCG
1 ACCATTATCAATATGGTATCG
35635497 ACCA
1 ACCA
35635501 CTATGTTACG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 16 0.47
22 3 0.09
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (21 bp):
ACCATTATCAATATGGTATCG
Found at i:35636791 original size:28 final size:28
Alignment explanation
Indices: 35636751--35636808 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
35636741 ATGTATTGAC
35636751 ATAGTTCGCATGTCAATACAGCTCACAG
1 ATAGTTCGCATGTCAATACAGCTCACAG
*
35636779 ATAGTTCGCATGTCAATACAGCTCATAG
1 ATAGTTCGCATGTCAATACAGCTCACAG
35636807 AT
1 AT
35636809 TTACACAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (28 bp):
ATAGTTCGCATGTCAATACAGCTCACAG
Found at i:35636881 original size:26 final size:26
Alignment explanation
Indices: 35636829--35636881 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
35636819 TGCATATTAT
*
35636829 TACTTTATAGGCTAGCTCACACTTAGA
1 TACTTTATAGGC-AGCTCACACATAGA
*
35636856 TACTTTATAGAG-AGCTCGCACATAGA
1 TACTTTATAG-GCAGCTCACACATAGA
35636882 CACCATACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 10 0.43
28 1 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (26 bp):
TACTTTATAGGCAGCTCACACATAGA
Found at i:35637066 original size:17 final size:17
Alignment explanation
Indices: 35637046--35637108 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 17
35637036 ACATAAATCG
*
35637046 CATATAAACATAGCTCA
1 CATATAAACACAGCTCA
* * *
35637063 CATATAGAGACAGCTCG
1 CATATAAACACAGCTCA
* * *
35637080 CATATAAACGCAACTCG
1 CATATAAACACAGCTCA
35637097 CATATAAACACA
1 CATATAAACACA
35637109 CACACACACA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.44, C:0.25, G:0.11, T:0.19
Consensus pattern (17 bp):
CATATAAACACAGCTCA
Found at i:35637111 original size:2 final size:2
Alignment explanation
Indices: 35637104--35637132 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35637094 TCGCATATAA
35637104 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
35637133 TATATATGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:35640405 original size:15 final size:16
Alignment explanation
Indices: 35640385--35640414 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35640375 GAAAATTGCC
35640385 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
35640400 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
35640415 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:35645535 original size:21 final size:21
Alignment explanation
Indices: 35645509--35645550 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
35645499 AAGATATGAA
35645509 ACACCGCTACACATAAATCCC
1 ACACCGCTACACATAAATCCC
35645530 ACACCGCTACACATAAATCCC
1 ACACCGCTACACATAAATCCC
35645551 CCACTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.43, G:0.05, T:0.14
Consensus pattern (21 bp):
ACACCGCTACACATAAATCCC
Found at i:35650231 original size:13 final size:13
Alignment explanation
Indices: 35650215--35650262 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
35650205 TATATTATAA
*
35650215 AAATATAAAAACT
1 AAATATAAAAATT
*
35650228 AAATCATATCAAATT
1 AAAT-ATA-AAAATT
35650243 AAAATATAAAAATT
1 -AAATATAAAAATT
35650257 AAATAT
1 AAATAT
35650263 TATAGTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.34
14 8 0.28
15 7 0.24
16 4 0.14
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATATAAAAATT
Found at i:35654790 original size:94 final size:94
Alignment explanation
Indices: 35654692--35654865 Score: 231
Period size: 94 Copynumber: 1.9 Consensus size: 94
35654682 CATCGAGGCC
* * * * * * * *
35654692 GATGCATGTCCCAGACATGTCTTATACTGGCACTTACCTCTACGCCGATGCCATGTCCCAGACGT
1 GATGCATGTCCCAAACACGTCTTAGACTAGCACTCACCTCAACGCCGATGCCATGCCCCAGACAT
35654757 GGTCTTATACGGGCTATCATGATGCGGCT
66 GGTCTTATACGGGCTATCATGATGCGGCT
* * * *
35654786 GATGCATGTCCCAAACACGTCTTAGACTAGCCCTCGCCTCAATGTCGATGCCATGCCCCAGACAT
1 GATGCATGTCCCAAACACGTCTTAGACTAGCACTCACCTCAACGCCGATGCCATGCCCCAGACAT
*
35654851 GGTCTTATACTGGCT
66 GGTCTTATACGGGCT
35654866 CTCACATAAC
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 67 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (94 bp):
GATGCATGTCCCAAACACGTCTTAGACTAGCACTCACCTCAACGCCGATGCCATGCCCCAGACAT
GGTCTTATACGGGCTATCATGATGCGGCT
Found at i:35665544 original size:18 final size:18
Alignment explanation
Indices: 35665521--35665559 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
35665511 ATGGCATCAT
35665521 TTTAGTGATTAAACACTC
1 TTTAGTGATTAAACACTC
35665539 TTTAGTGATTAAACACTC
1 TTTAGTGATTAAACACTC
35665557 TTT
1 TTT
35665560 CTTAAGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (18 bp):
TTTAGTGATTAAACACTC
Found at i:35667404 original size:46 final size:44
Alignment explanation
Indices: 35667312--35667432 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 44
35667302 GTGTTGAAAC
*
35667312 CATGTCCTAGACATGGTCTTACACTGACACATCTCGTAGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTGGCACATCTCGTAGCCGATG
*
35667357 CATGTCCTAGACATGTCTTACACTGGCTTACATCTCG-AGGTCGATG
1 CATGTCCTAGACATGTCTTACACTGGC--ACATCTCGTA-GCCGATG
*
35667403 CATGTCCCAGACATGTCTTACACTGGCACA
1 CATGTCCTAGACATGTCTTACACTGGCACA
35667433 CAAATAACCC
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
44 15 0.21
45 15 0.21
46 40 0.57
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
CATGTCCTAGACATGTCTTACACTGGCACATCTCGTAGCCGATG
Found at i:35678424 original size:19 final size:19
Alignment explanation
Indices: 35678400--35678439 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
35678390 ATTAATTTTG
35678400 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
35678419 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
35678438 AT
1 AT
35678440 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:35681514 original size:72 final size:72
Alignment explanation
Indices: 35681397--35681541 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
35681387 AAGACATGTC
35681397 TAGAACATGCATCAGCCACAGTATAAGAGCCAGTGTAAGACATGTCTGAGACATGCATCGGCCCC
1 TAGAACATGCATCAGCCACAGTATAAGAGCCAGTGTAAGACATGTCTGAGACATGCATCGGCCCC
35681462 GAGATAT
66 GAGATAT
35681469 TAGAACATGCATCAGCCACAGTATAAGAGCCAGTGTAAGACATGTCTGAGACATGCATCGGCCCC
1 TAGAACATGCATCAGCCACAGTATAAGAGCCAGTGTAAGACATGTCTGAGACATGCATCGGCCCC
35681534 GAGATAT
66 GAGATAT
35681541 T
1 T
35681542 TAAGCCAGTG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (72 bp):
TAGAACATGCATCAGCCACAGTATAAGAGCCAGTGTAAGACATGTCTGAGACATGCATCGGCCCC
GAGATAT
Found at i:35681552 original size:48 final size:48
Alignment explanation
Indices: 35681473--35681619 Score: 162
Period size: 48 Copynumber: 3.1 Consensus size: 48
35681463 AGATATTAGA
*
35681473 ACATGCATCAG-C-CAC-AGTATA-AGAGCCAGTGTAAGACATGTCTGAG
1 ACATGCATCAGCCTCACGAG-ATACA-AGCCAGTGTAAGACATGTCTGGG
* *
35681519 ACATGCATCGGCC-C-CGAGATATTTAAGCCAGTGTAAGACATGTCTGGG
1 ACATGCATCAGCCTCACGAGATA--CAAGCCAGTGTAAGACATGTCTGGG
* * *
35681567 ACATGCATCAGCCTCACGAGATACAAGCTAGTGTAAGACCTGCCTGGG
1 ACATGCATCAGCCTCACGAGATACAAGCCAGTGTAAGACATGTCTGGG
35681615 ACATG
1 ACATG
35681620 GCGTCAGCTT
Statistics
Matches: 87, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
46 14 0.16
47 4 0.05
48 60 0.69
49 2 0.02
50 7 0.08
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (48 bp):
ACATGCATCAGCCTCACGAGATACAAGCCAGTGTAAGACATGTCTGGG
Found at i:35689075 original size:48 final size:46
Alignment explanation
Indices: 35688955--35689076 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 46
35688945 TTTGTGTACT
* *
35688955 AGTGTAAGACATGTTTGGGACATGCATCAACCACAGTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAACCACAGTATGAGAGCC
** * * *
35689001 AGCATAAGACACGTCTGGGACATGCATCAACCCCAAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAACCAC-AG-TA-TGAGAGCC
*
35689049 AGTGTAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
35689077 GGCATTAAGG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 29 0.47
47 2 0.03
48 29 0.47
49 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCACAGTATGAGAGCC
Found at i:35689658 original size:25 final size:25
Alignment explanation
Indices: 35689629--35689678 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
35689619 GGATCATCAA
*
35689629 ACGTCGGAGGCATCGATCACACTAT
1 ACGTCAGAGGCATCGATCACACTAT
35689654 ACGTCAGAGGCATCGATCACACTAT
1 ACGTCAGAGGCATCGATCACACTAT
35689679 CATCCGAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (25 bp):
ACGTCAGAGGCATCGATCACACTAT
Found at i:35694510 original size:32 final size:32
Alignment explanation
Indices: 35694461--35694523 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
35694451 TATATGTTTA
35694461 TGAAAATATGATATTCTGATTC-GAAATATGTC
1 TGAAAATATGATATTCTG-TTCAGAAATATGTC
* *
35694493 TGAAAATATGGCT-TTCTGTTCAGATATATGT
1 TGAAAATAT-GATATTCTGTTCAGAAATATGT
35694524 TTATGGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 3 0.11
32 22 0.81
33 2 0.07
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (32 bp):
TGAAAATATGATATTCTGTTCAGAAATATGTC
Found at i:35695485 original size:11 final size:11
Alignment explanation
Indices: 35695469--35695493 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35695459 TTATTTGTAT
35695469 ATAAAAATTAA
1 ATAAAAATTAA
35695480 ATAAAAATTAA
1 ATAAAAATTAA
35695491 ATA
1 ATA
35695494 TGATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAAATTAA
Found at i:35696974 original size:23 final size:24
Alignment explanation
Indices: 35696946--35696991 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
35696936 TAATTTCTAC
35696946 ATTTTAATTTGATAAT-ATATTAT
1 ATTTTAATTTGATAATCATATTAT
* *
35696969 ATTTTATTTTTATAATCATATTA
1 ATTTTAATTTGATAATCATATTA
35696992 GTTAGTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
ATTTTAATTTGATAATCATATTAT
Found at i:35700716 original size:59 final size:59
Alignment explanation
Indices: 35700624--35700741 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
35700614 GTTTTGCAGA
*
35700624 TTAATGCTTAGTATGTTCAAATGGAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
1 TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
* *
35700683 TTAATGCTTTGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTGAGCAT
1 TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
35700742 GTTACTACCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (59 bp):
TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
Found at i:35710977 original size:22 final size:22
Alignment explanation
Indices: 35710952--35710999 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
35710942 TAATTAAATT
*
35710952 AAGTTAAAATAATAATAA-TAGA
1 AAGTTAAAA-AATAAAAATTAGA
*
35710974 AAGTTAAAACATAAAAATTAGA
1 AAGTTAAAAAATAAAAATTAGA
35710996 AAGT
1 AAGT
35711000 CATCATCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.25
Consensus pattern (22 bp):
AAGTTAAAAAATAAAAATTAGA
Found at i:35715113 original size:15 final size:15
Alignment explanation
Indices: 35715089--35715118 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35715079 ACTAATGTAT
35715089 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
35715104 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
35715119 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:35715772 original size:20 final size:20
Alignment explanation
Indices: 35715749--35715786 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35715739 CACATCCAAA
* *
35715749 TACAAAATTTTTAAAATCTT
1 TACAAAATATTGAAAATCTT
35715769 TACAAAATATTGAAAATC
1 TACAAAATATTGAAAATC
35715787 GCGAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (20 bp):
TACAAAATATTGAAAATCTT
Found at i:35722036 original size:6 final size:6
Alignment explanation
Indices: 35722025--35722067 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
35722015 AAAGCAACAT
* *
35722025 AATAAA AATAAA AGTAAAA AATAGA AATAAAA AATAAA AATAA
1 AATAAA AATAAA AAT-AAA AATAAA AAT-AAA AATAAA AATAA
35722068 CATAAGTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:35722065 original size:13 final size:13
Alignment explanation
Indices: 35722028--35722067 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
35722018 GCAACATAAT
*
35722028 AAAAATAAAAGTA
1 AAAAATAAAAATA
*
35722041 AAAAATAGAAATA
1 AAAAATAAAAATA
35722054 AAAAATAAAAATA
1 AAAAATAAAAATA
35722067 A
1 A
35722068 CATAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:35723627 original size:3 final size:3
Alignment explanation
Indices: 35723603--35723647 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
35723593 AATCACTAAT
* *
35723603 TAA TAA TGAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35723648 ACTAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:35730191 original size:22 final size:23
Alignment explanation
Indices: 35730148--35730197 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
35730138 AAATAAAAGA
*
35730148 AAAATTAGTAATTGAAATAAAAAC
1 AAAATTAG-AATTGAAACAAAAAC
* *
35730172 AAAATTA-AATTGCAACAAAAAT
1 AAAATTAGAATTGAAACAAAAAC
35730194 AAAA
1 AAAA
35730198 ATGGCTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (23 bp):
AAAATTAGAATTGAAACAAAAAC
Found at i:35731969 original size:17 final size:18
Alignment explanation
Indices: 35731949--35731982 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35731939 AAGTGAATTG
35731949 AAATTG-AGAAATTAAAT
1 AAATTGTAGAAATTAAAT
35731966 AAATTGTAGAAATTAAA
1 AAATTGTAGAAATTAAA
35731983 AAGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGTAGAAATTAAAT
Found at i:35732695 original size:10 final size:10
Alignment explanation
Indices: 35732676--35732725 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
35732666 TGAAATTCTA
35732676 AAAGATAAAT
1 AAAGATAAAT
35732686 ACAA-ATAAAT
1 A-AAGATAAAT
35732696 AAAGATAAAT
1 AAAGATAAAT
35732706 AAAGATAAAT
1 AAAGATAAAT
35732716 GAAA-ATAAAT
1 -AAAGATAAAT
35732726 CCTAGAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:35739063 original size:26 final size:26
Alignment explanation
Indices: 35739034--35739114 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
35739024 GTGAGAACAC
35739034 ATGTGTAGTATTATGTGCAGGCTACT
1 ATGTGTAGTATTATGTGCAGGCTACT
* * *
35739060 ATGTGT-TTATGATGGTTGTAGG-TCAC-
1 ATGTGTAGTATTAT-G-TGCAGGCT-ACT
* *
35739086 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTATTATGTGCAGGCTACT
35739112 ATG
1 ATG
35739115 CGTAACAGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
25 12 0.29
26 19 0.46
27 10 0.24
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.37
Consensus pattern (26 bp):
ATGTGTAGTATTATGTGCAGGCTACT
Found at i:35739345 original size:16 final size:15
Alignment explanation
Indices: 35739324--35739353 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
35739314 GAAAGGAGTA
35739324 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
35739340 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
35739354 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:35742469 original size:3 final size:3
Alignment explanation
Indices: 35742461--35742485 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35742451 AAGCAAGATG
35742461 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
35742486 ACTAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35743098 original size:18 final size:18
Alignment explanation
Indices: 35743063--35743098 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35743053 TCACCTAAGT
*
35743063 AAAAACTAAGAATGAAAA
1 AAAAACTAAGAATCAAAA
*
35743081 AAAAACTAAGAGTCAAAA
1 AAAAACTAAGAATCAAAA
35743099 CCCTTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.08, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAACTAAGAATCAAAA
Found at i:35743302 original size:21 final size:19
Alignment explanation
Indices: 35743262--35743304 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
35743252 TTTTTAGTTG
**
35743262 CATAGGAGGTATGTTGCGA
1 CATAGGAGGTATGTCCCGA
35743281 CATAGGAGGGCTATGTCCCGA
1 CATAGGA-GG-TATGTCCCGA
35743302 CAT
1 CAT
35743305 TGAGGGAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 2 0.10
21 11 0.55
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (19 bp):
CATAGGAGGTATGTCCCGA
Found at i:35745909 original size:16 final size:16
Alignment explanation
Indices: 35745863--35745910 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
35745853 TGTTTTTTTT
35745863 AAAAAAATTATTTTAA
1 AAAAAAATTATTTTAA
35745879 AAATAAAA-TA---T-A
1 AAA-AAAATTATTTTAA
35745891 AAAAAAATTATTTTAA
1 AAAAAAATTATTTTAA
35745907 AAAA
1 AAAA
35745911 CATTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
11 4 0.15
12 6 0.23
13 1 0.04
15 1 0.04
16 10 0.38
17 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAAAATTATTTTAA
Found at i:35745928 original size:52 final size:52
Alignment explanation
Indices: 35745861--35746740 Score: 1751
Period size: 52 Copynumber: 16.9 Consensus size: 52
35745851 TGTGTTTTTT
*
35745861 TTAAAAAAATTATTTTAAAAATAAAATATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35745913 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35745965 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746017 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746069 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746121 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746173 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746225 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746277 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746329 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746381 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746433 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746485 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746537 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746589 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746641 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
35746693 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAA
1 TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAA
35746741 GCATATTATC
Statistics
Matches: 827, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 827 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (52 bp):
TTAAAAAAATTATTTTAAAAATAAAAAATAAAAAAAATTATTTTAAAAAACA
Found at i:35747497 original size:58 final size:58
Alignment explanation
Indices: 35747407--35747518 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
35747397 CCAAATGTAA
* *
35747407 ATTAATTGCAGCTGTGTGGCCACCTCCTAGTCCCTCGCAGCACCAAATCGCTTACAGT
1 ATTAATTGCAGCTGTGTGGCCACCTCCTAGTCCATCGCAGCACCAAATAGCTTACAGT
* * *
35747465 ATTAATTGCAGCTGTGTGGCTACCTCCTAGTCCATTGTAGCACCAAATAGCTTA
1 ATTAATTGCAGCTGTGTGGCCACCTCCTAGTCCATCGCAGCACCAAATAGCTTA
35747519 TAGCTGAGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (58 bp):
ATTAATTGCAGCTGTGTGGCCACCTCCTAGTCCATCGCAGCACCAAATAGCTTACAGT
Found at i:35747811 original size:26 final size:26
Alignment explanation
Indices: 35747782--35747832 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
35747772 CCAACCTACC
35747782 AATATCGTAGCAAAGCTACCAGTAAT
1 AATATCGTAGCAAAGCTACCAGTAAT
*
35747808 AATATCGTAGCAAAGCTGCCAGTAA
1 AATATCGTAGCAAAGCTACCAGTAA
35747833 CAGTAATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (26 bp):
AATATCGTAGCAAAGCTACCAGTAAT
Found at i:35747845 original size:26 final size:26
Alignment explanation
Indices: 35747781--35747857 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
35747771 ACCAACCTAC
* *
35747781 CAATATCGTAGCAAAGCTACCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* *
35747807 TAATATCGTAGCAAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* *
35747833 CAGTAAT-GCAGCAGAGCTGCCAGTA
1 CAAT-ATCGCAGCAAAGCTGCCAGTA
35747858 TCAGAATATG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 42 0.95
27 2 0.05
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCCAGTAA
Found at i:35757112 original size:28 final size:28
Alignment explanation
Indices: 35757080--35757135 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
35757070 ACTACAACAC
*
35757080 CCTATTCAAACTCTTTTCAGACTCTCAT
1 CCTATTCAAACTCTATTCAGACTCTCAT
35757108 CCTATTCAAACTCTATTCAGACTCTCAT
1 CCTATTCAAACTCTATTCAGACTCTCAT
35757136 GACCAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.32, G:0.04, T:0.38
Consensus pattern (28 bp):
CCTATTCAAACTCTATTCAGACTCTCAT
Found at i:35757444 original size:58 final size:58
Alignment explanation
Indices: 35757354--35757473 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 58
35757344 TTAAGAACAA
* *
35757354 CACTAAAAATTTTGCAAAAGCCATGACTTGAACCAGGCTTCTCAAACACTCCCAAACC
1 CACTAAAAATTTTGCAAAAGCCAAGACTTGAACCAGGATTCTCAAACACTCCCAAACC
35757412 CACTAAAAATTTTGCAAAAGCCAAGACTTGAACCAGGATTCTCAAACACTCCCAAACC
1 CACTAAAAATTTTGCAAAAGCCAAGACTTGAACCAGGATTCTCAAACACTCCCAAACC
35757470 CACT
1 CACT
35757474 CAAATCACCA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.39, C:0.31, G:0.10, T:0.20
Consensus pattern (58 bp):
CACTAAAAATTTTGCAAAAGCCAAGACTTGAACCAGGATTCTCAAACACTCCCAAACC
Found at i:35761190 original size:29 final size:27
Alignment explanation
Indices: 35761115--35761196 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
35761105 GCGAGGCTGC
* *
35761115 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
35761142 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
35761168 CAGATATATATGTGGCGAAGCCACCAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
35761197 TGCAATGAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.09
27 21 0.47
28 4 0.09
29 16 0.36
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:35768583 original size:98 final size:98
Alignment explanation
Indices: 35768414--35768767 Score: 665
Period size: 98 Copynumber: 3.6 Consensus size: 98
35768404 AAATTGCAGT
35768414 GAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCAACCAGAACAGA
1 GAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCAACCAGAACAGA
35768479 TATATATATGTGATGAAGCCACCAGATTATAGC
66 TATATATATGTGATGAAGCCACCAGATTATAGC
35768512 GAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCAACCAGAACAGA
1 GAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCAACCAGAACAGA
35768577 TATATATATGTGATGAAGCCACCAGATTATAGC
66 TATATATATGTGATGAAGCCACCAGATTATAGC
35768610 GAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCAACCAGAACAGA
1 GAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCAACCAGAACAGA
35768675 TATATATATGTGATGAAGCCACCAGATTATAGC
66 TATATATATGTGATGAAGCCACCAGATTATAGC
* * *
35768708 GAGGCTGCCAGATATTGTGACGAAGTCACCA-AAACAGATATATGTGGCGAGGCCACCAGA
1 GAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCAACCAGA
35768768 TTGCAGCGAG
Statistics
Matches: 252, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
97 9 0.04
98 243 0.96
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.21
Consensus pattern (98 bp):
GAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCAACCAGAACAGA
TATATATATGTGATGAAGCCACCAGATTATAGC
Found at i:35776021 original size:46 final size:46
Alignment explanation
Indices: 35775951--35776048 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
35775941 AGAGAACCAC
*
35775951 ATTTA-TAGCACGCACCGCTATTCATCCTGTACTCTCTGAAGTGAA
1 ATTTATTAGCACGCACCGCTATTCATCCTGCACTCTCTGAAGTGAA
* *
35775996 ATTTATTAGCACGCAGCGCTCTTCATCCTGCACTCTCTGAAGTGAA
1 ATTTATTAGCACGCACCGCTATTCATCCTGCACTCTCTGAAGTGAA
35776042 ATTTATT
1 ATTTATT
35776049 GTAGGTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 5 0.10
46 44 0.90
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (46 bp):
ATTTATTAGCACGCACCGCTATTCATCCTGCACTCTCTGAAGTGAA
Found at i:35787220 original size:6 final size:6
Alignment explanation
Indices: 35787209--35787300 Score: 89
Period size: 6 Copynumber: 15.3 Consensus size: 6
35787199 AATTCTCCTA
* *
35787209 TTTTAT TTTTAT TTTTA- -TTTAT TCTTAT TTTTAT TTTTAT TCTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * * *
35787255 TTTATTT ATTTTAT TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTT-TAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
35787301 CAAATTTCTT
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
4 4 0.06
6 58 0.84
7 4 0.06
8 3 0.04
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:35787277 original size:38 final size:38
Alignment explanation
Indices: 35787207--35787300 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 38
35787197 TGAATTCTCC
*
35787207 TATTTTATTTTTATTTTTATTTATTCTTATTTTTATTTT
1 TATTTTA-TTTTATTTATATTTATTCTTATTTTTATTTT
*
35787246 TATTCTTATTTTATTTAT-TTTATTCTTATTTTTCTTTT
1 TATT-TTATTTTATTTATATTTATTCTTATTTTTATTTT
*
35787284 GATTTTTATTTTCATTT
1 TA-TTTTATTTT-ATTT
35787301 CAAATTTCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
38 27 0.55
39 19 0.39
40 3 0.06
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (38 bp):
TATTTTATTTTATTTATATTTATTCTTATTTTTATTTT
Found at i:35794366 original size:31 final size:31
Alignment explanation
Indices: 35794331--35794403 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
35794321 ATATTGGGCC
*
35794331 GAAGCCTTTACATTATTCATGTCACTAGGCA
1 GAAGCCTTTACATTATTCATATCACTAGGCA
* * *
35794362 GAAGCCTTTTCATTATTCATATCACTGGGCC
1 GAAGCCTTTACATTATTCATATCACTAGGCA
35794393 GAAGCCTTTAC
1 GAAGCCTTTAC
35794404 TGTAAATGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (31 bp):
GAAGCCTTTACATTATTCATATCACTAGGCA
Found at i:35794636 original size:25 final size:25
Alignment explanation
Indices: 35794608--35794692 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
35794598 CTGGAGGCCT
35794608 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
35794633 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
** *
35794659 AGCCCTTTTCGGTAAACTAGGGC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
35794684 AGCCCTTTT
1 AGCCCTTTT
35794693 CGGTAACTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.46
26 28 0.52
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:35794693 original size:25 final size:26
Alignment explanation
Indices: 35794621--35794716 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
35794611 CTCTTTTAAT
* *
35794621 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
35794647 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
35794673 AACTAGGGC-AAAGCCCTTTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
* *
35794697 AACTGGAGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
35794717 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 17 0.27
25 15 0.23
26 32 0.50
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:35794857 original size:25 final size:25
Alignment explanation
Indices: 35794829--35794876 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35794819 ATAATTAAAC
* **
35794829 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
35794854 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
35794877 CTTATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:35809614 original size:14 final size:13
Alignment explanation
Indices: 35809591--35809622 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
35809581 GGGATATCAA
35809591 AACAATAATTAAG
1 AACAATAATTAAG
35809604 AACACATAATTAAG
1 AACA-ATAATTAAG
35809618 AACAA
1 AACAA
35809623 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:35813806 original size:22 final size:21
Alignment explanation
Indices: 35813762--35813806 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
35813752 AGGTGATGAC
*
35813762 TTTATTTGTTTTATCTTATAT
1 TTTATTTGTTTTATATTATAT
35813783 TTTATCTTGTTTTATTATTA-AT
1 TTTAT-TTGTTTTA-TATTATAT
35813805 TT
1 TT
35813807 AATATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTATTTGTTTTATATTATAT
Found at i:35826636 original size:13 final size:13
Alignment explanation
Indices: 35826618--35826644 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35826608 AAAGTAATCG
35826618 CACACGGGTGTGT
1 CACACGGGTGTGT
35826631 CACACGGGTGTGT
1 CACACGGGTGTGT
35826644 C
1 C
35826645 CGTACCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACACGGGTGTGT
Found at i:35846492 original size:70 final size:70
Alignment explanation
Indices: 35846411--35846550 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
35846401 ACTTCCTGAA
35846411 TGATGAATGAATTCCTCAAACTGGAGTTTTGGAGAATAATCGGCGTGAGAGTGGAGGAGGATACT
1 TGATGAATGAATTCCTCAAACTGGAGTTTTGGAGAATAATCGGCGTGAGAGTGGAGGAGGATACT
35846476 CCGGT
66 CCGGT
35846481 TGATGAATGAATTCCTCAAACTGGAGTTTTGGAGAATAATCGGCGTGAGAGTGGAGGAGGATACT
1 TGATGAATGAATTCCTCAAACTGGAGTTTTGGAGAATAATCGGCGTGAGAGTGGAGGAGGATACT
35846546 CCGGT
66 CCGGT
35846551 AGTGGTAGAG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.26
Consensus pattern (70 bp):
TGATGAATGAATTCCTCAAACTGGAGTTTTGGAGAATAATCGGCGTGAGAGTGGAGGAGGATACT
CCGGT
Found at i:35847507 original size:49 final size:49
Alignment explanation
Indices: 35847435--35847532 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
35847425 TGGTTCGAGG
*
35847435 AGTTTATACTCCTCATTCCTGCTATGAATCCCATCAAAATAAGGTTTTA
1 AGTTTATACTCCTCAATCCTGCTATGAATCCCATCAAAATAAGGTTTTA
35847484 AGTTTATACTCCTCAATCCTGCTATGAATCCCATCAAAATAAGGTTTTA
1 AGTTTATACTCCTCAATCCTGCTATGAATCCCATCAAAATAAGGTTTTA
35847533 GGCGGGTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (49 bp):
AGTTTATACTCCTCAATCCTGCTATGAATCCCATCAAAATAAGGTTTTA
Found at i:35850429 original size:93 final size:93
Alignment explanation
Indices: 35850268--35850453 Score: 309
Period size: 93 Copynumber: 2.0 Consensus size: 93
35850258 ATGATACGTG
* * *
35850268 ATATTCGTAATAGGTTTTAAATATTTATAATGAATCGTTCTTGAAACTAACAATTATCACGATGA
1 ATATTCGTAACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACAATTATCACGATAA
35850333 AGGCAAGTGTACCTATCAAACAATAGTA
66 AGGCAAGTGTACCTATCAAACAATAGTA
* *
35850361 ATATTCGTGACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACTATTATCACGATAA
1 ATATTCGTAACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACAATTATCACGATAA
* *
35850426 AGGCAAGTGTACCTATCGAACAGTAGTA
66 AGGCAAGTGTACCTATCAAACAATAGTA
35850454 TAACTTTAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (93 bp):
ATATTCGTAACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACAATTATCACGATAA
AGGCAAGTGTACCTATCAAACAATAGTA
Found at i:35850928 original size:152 final size:152
Alignment explanation
Indices: 35850652--35850955 Score: 608
Period size: 152 Copynumber: 2.0 Consensus size: 152
35850642 GAAAAATCCA
35850652 CCTAGACTTCACTTGTTATTTGACTCTGAATCAGACGATTTATTTATTTGACTTGATCCATAGAA
1 CCTAGACTTCACTTGTTATTTGACTCTGAATCAGACGATTTATTTATTTGACTTGATCCATAGAA
35850717 ATCCCTAAGTTATATTATTATCCCTCTTGAGACTAACAACGTCTAACCCTAGGTTGAATAATTGA
66 ATCCCTAAGTTATATTATTATCCCTCTTGAGACTAACAACGTCTAACCCTAGGTTGAATAATTGA
35850782 AATCTCTTTCTAATTAACTCCC
131 AATCTCTTTCTAATTAACTCCC
35850804 CCTAGACTTCACTTGTTATTTGACTCTGAATCAGACGATTTATTTATTTGACTTGATCCATAGAA
1 CCTAGACTTCACTTGTTATTTGACTCTGAATCAGACGATTTATTTATTTGACTTGATCCATAGAA
35850869 ATCCCTAAGTTATATTATTATCCCTCTTGAGACTAACAACGTCTAACCCTAGGTTGAATAATTGA
66 ATCCCTAAGTTATATTATTATCCCTCTTGAGACTAACAACGTCTAACCCTAGGTTGAATAATTGA
35850934 AATCTCTTTCTAATTAACTCCC
131 AATCTCTTTCTAATTAACTCCC
35850956 TAGGGTTGCA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 152 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (152 bp):
CCTAGACTTCACTTGTTATTTGACTCTGAATCAGACGATTTATTTATTTGACTTGATCCATAGAA
ATCCCTAAGTTATATTATTATCCCTCTTGAGACTAACAACGTCTAACCCTAGGTTGAATAATTGA
AATCTCTTTCTAATTAACTCCC
Done.