Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 196 of 222
Found at i:62619635 original size:99 final size:99
Alignment explanation
Indices: 62619383--62619986 Score: 739
Period size: 99 Copynumber: 6.1 Consensus size: 99
62619373 TTCTGTCAAA
* * * * * * *
62619383 TTAACTGCAATGTTGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGCCCCACTACACCGCCA
1 TTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCA
* *
62619448 GGGAAGTAAGATTCATCGTTGTGGCTTCAATCTTT
66 -GGAAGTAAGATTCACCGTTGCGGCTTCAATCTTT
* ** *
62619483 TCAATTGCAATACCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 TTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCA
* * *
62619548 GTGGAGTAAGATTCGCCGTTGCGGCTTTAATC-TT
66 G-GAAGTAAGATTCACCGTTGCGGCTTCAATCTTT
** **
62619582 TTAATTGCAATGTCGGGGAAACAAGATTCTTCGTCGTAGCTTCAATCTATTCCACTGCACCGCCA
1 TTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCA
* *
62619647 GGGGAGTAAGATTCACCGTTGTGGCTTCAATC-TT
66 -GGAAGTAAGATTCACCGTTGCGGCTTCAATCTTT
* * * * *
62619681 TTAATTGCAATGTGGGGGAAACAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTACACTGCCA
1 TTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCA
* ** *
62619746 GAAAAGTAAGATTCGTCGTTACGGCTTCAATCTTT
66 G-GAAGTAAGATTCACCGTTGCGGCTTCAATCTTT
* * * *
62619781 TTAATTGCAATGTCGGGG-AACGAGATTCGCTGTTGTAGCTTCAATCTGATCCACTGCATCACG-
1 TTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCA-C-CGC
*
62619844 AAGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTT
64 CAGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTT
* * * * *
62619880 TTAATTGCAATGTCGGGGAAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCCACTGCACTGTCA
1 TTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCA
*
62619945 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTT
66 GG-AAGTAAGATTCACCGTTGCGGCTTCAATCTTT
62619980 TTAATTG
1 TTAATTG
62619987 TAAACTATGG
Statistics
Matches: 432, Mismatches: 63, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
98 2 0.00
99 256 0.59
100 173 0.40
101 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (99 bp):
TTAATTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTGCACCGCCA
GGAAGTAAGATTCACCGTTGCGGCTTCAATCTTT
Found at i:62619785 original size:199 final size:197
Alignment explanation
Indices: 62619383--62619986 Score: 798
Period size: 199 Copynumber: 3.0 Consensus size: 197
62619373 TTCTGTCAAA
* * * * ** *
62619383 TTAACTGCAATGTTGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGCCCCACTACACCGCCA
1 TTAATTGCAATGTCGGGGAAACAAGATTC-CCGTTGTAGCTTCAATCT-ATCCACTGCACCGCCA
* **
62619448 GGGAAGTAAGATTCATCGTTGTGGCTTCAATCTTTTCAATTGCAATACCGGGGAAACAAGATTCG
64 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT-AATTGCAATGTCGGGGAAACAAGATTCG
* * * *** *
62619513 CCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCAGTGGAGTAAGATTCGCCGTTGCGGCTTTAA
128 CCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
62619578 TC-TT
193 TCTTT
* *
62619582 TTAATTGCAATGTCGGGGAAACAAGATTCTTCGTCGTAGCTTCAATCTATTCCACTGCACCGCCA
1 TTAATTGCAATGTCGGGGAAACAAGATTC-CCGTTGTAGCTTCAATCTA-TCCACTGCACCGCCA
* * *
62619647 GGGGAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTGGGGGAAACAAGATTCAC
64 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTCGGGGAAACAAGATTCGC
* * *
62619712 CGTCGTAGCTTTAATCTGCTCCACTACACTGCCAGAAAAGTAAGATTCGTCGTTACGGCTTCAAT
129 CGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAAT
62619777 CTTT
194 CTTT
* * * * *
62619781 TTAATTGCAATGTCGGGG-AACGAGATTCGCTGTTGTAGCTTCAATCTGATCCACTGCATCACGA
1 TTAATTGCAATGTCGGGGAAACAAGATTC-CCGTTGTAGCTTCAATCT-ATCCACTGCACCGCCA
* * *
62619845 AGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
64 GGGAAGTAAGATTCACCGTTGTGGCTTCAATC-TTTTAATTGCAATGTCGGGGAAACAAGATTCG
* * *
62619910 TCGTCGTAGCTTTAATCTGCTCCACTGCACTGTCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAA
128 CCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
62619975 TCTTT
193 TCTTT
62619980 TTAATTG
1 TTAATTG
62619987 TAAACTATGG
Statistics
Matches: 355, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
198 146 0.41
199 209 0.59
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (197 bp):
TTAATTGCAATGTCGGGGAAACAAGATTCCCGTTGTAGCTTCAATCTATCCACTGCACCGCCAGG
GAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATGTCGGGGAAACAAGATTCGCCG
TCGTAGCTTTAATCTGCTCCACTGCACTGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAATCT
TT
Found at i:62620068 original size:45 final size:45
Alignment explanation
Indices: 62620019--62620126 Score: 180
Period size: 45 Copynumber: 2.4 Consensus size: 45
62620009 GCTTCGTCAT
* *
62620019 CAATACAGGAAGGCAAGATCTGCTATTTTCAGTCTACTTCGCTAC
1 CAATACAGGAAGACAAGATCTGCTATATTCAGTCTACTTCGCTAC
* *
62620064 CAATACAAGAAGACAAGATCTGCTATATTCAGTCTACTTCGCTGC
1 CAATACAGGAAGACAAGATCTGCTATATTCAGTCTACTTCGCTAC
62620109 CAATACAGGAAGACAAGA
1 CAATACAGGAAGACAAGA
62620127 CTTTCTATCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (45 bp):
CAATACAGGAAGACAAGATCTGCTATATTCAGTCTACTTCGCTAC
Found at i:62620238 original size:40 final size:40
Alignment explanation
Indices: 62620185--62620381 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 40
62620175 ATTTCTTCTG
* * *
62620185 TCTGCTCCGCTACTACTTAGGGAGATAAGACTGAATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGAATTCGA
** **
62620225 TCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGAATTCGA
* ** * * *
62620268 TCCGCTCCACTACAACTTCAGGAAGAT-AGTATTGATTTTTTCTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAG-ACTGA---ATTC-GA
* *
62620312 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTGAATACGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGAATTCGA
*
62620352 TCTGCTCCACTACTGCTTAAGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
62620382 TTTGTGGTTT
Statistics
Matches: 121, Mismatches: 25, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
39 1 0.01
40 58 0.48
41 3 0.02
43 32 0.26
44 27 0.22
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGAATTCGA
Found at i:62620388 original size:127 final size:127
Alignment explanation
Indices: 62620157--62620428 Score: 447
Period size: 127 Copynumber: 2.1 Consensus size: 127
62620147 CTGCTTCAAT
* * * *
62620157 TTCAGGGAGATAGGATTAATTTCTTCTGTCTGCTCCGCTACTACTTAGGGAGATAAGACTGAATG
1 TTCAGGAAGATAGTATTGATTTCTTCTGTCTGCTCCGCTACTACTTAGGGAGATAAGACTGAATA
*
62620222 CGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAATCCGCTCCACTACAAC
66 CGATCTGCTCCACTACTGCTTAAGGAGATAAGACCTGTGGTTTTAATCCGCTCCACTACAAC
* *
62620284 TTCAGGAAGATAGTATTGATTTTTTCTGTCTGCTCCGCTACTGCTTAGGGAGATAAGACTGAATA
1 TTCAGGAAGATAGTATTGATTTCTTCTGTCTGCTCCGCTACTACTTAGGGAGATAAGACTGAATA
**
62620349 CGATCTGCTCCACTACTGCTTAAGGAGATAAGATTTGTGGTTTTAATCCGCTCCACTACAAC
66 CGATCTGCTCCACTACTGCTTAAGGAGATAAGACCTGTGGTTTTAATCCGCTCCACTACAAC
62620411 TTCA-GAGAGATAGTATTG
1 TTCAGGA-AGATAGTATTG
62620429 GATGCGATCT
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
126 2 0.01
127 133 0.99
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (127 bp):
TTCAGGAAGATAGTATTGATTTCTTCTGTCTGCTCCGCTACTACTTAGGGAGATAAGACTGAATA
CGATCTGCTCCACTACTGCTTAAGGAGATAAGACCTGTGGTTTTAATCCGCTCCACTACAAC
Found at i:62620588 original size:40 final size:40
Alignment explanation
Indices: 62620533--62620847 Score: 202
Period size: 40 Copynumber: 7.5 Consensus size: 40
62620523 GTCAGCTCTG
* *
62620533 CTACTGCCTAGGGAGATAAGACTGAATGTGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGACTGATTGTGATCTGCTCCA
* * * *
62620573 CTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCA
1 CTACTGCTTAGGGAGATAAGA-C--TGATTGTGATCTGCTCCA
* ** * * * *
62620616 CTGCAACTTTAGGGAGATAGGATTGATTTCTTCTG-TCTGCTCCG
1 CTACTGC-TTAGGGAGATAAGACTGA----TTGTGATCTGCTCCA
* *
62620660 CTACTGCTTAGGGAGATAAGACTGAATGCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGACTGATTGTGATCTGCTCCA
* * * *
62620700 CTACTGCTTAGGGAGATAAGACCTGTGGTTTTAATCCGCTCCA
1 CTACTGCTTAGGGAGATAAGA-C--TGATTGTGATCTGCTCCA
* ** * * * *
62620743 CTGCAACTTCAGGGAGATAGGATTGATTTCTTCTG-TCTGCTCCG
1 CTACTGCTT-AGGGAGATAAGACTGA----TTGTGATCTGCTCCA
* * * *
62620787 CTATTGCTTAGGGAGATAAGACTGAATGCGATATGCTCCA
1 CTACTGCTTAGGGAGATAAGACTGATTGTGATCTGCTCCA
62620827 CTACTGCTTAGGGAGATAAGA
1 CTACTGCTTAGGGAGATAAGA
62620848 TCTGTGGCTT
Statistics
Matches: 204, Mismatches: 53, Indels: 36
0.70 0.18 0.12
Matches are distributed among these distances:
39 4 0.02
40 76 0.37
41 6 0.03
43 65 0.32
44 47 0.23
45 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
CTACTGCTTAGGGAGATAAGACTGATTGTGATCTGCTCCA
Found at i:62620613 original size:212 final size:212
Alignment explanation
Indices: 62620246--62620640 Score: 612
Period size: 212 Copynumber: 1.9 Consensus size: 212
62620236 ACTGCTTAGG
* * *
62620246 GAGATAAGACCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGAAGATAGTATTGATTTTTTCT
1 GAGATAAGACCTGTGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTGATTTCTTCT
* *
62620311 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTGAATACGATCTGCTCCACTACTGCTTAAGGAG
66 GTCAGCTCCGCTACTGCCTAGGGAGATAAGACTGAATACGATCTGCTCCACTACTGCTTAAGGAG
* *
62620376 ATAAGATTTGTGGTTTTAATCCGCTCCACTACAACTTCAGAGAGATAGTATTGGATGCGATCTGC
131 ATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTGGATGCGATCTGC
62620441 TCTACTGTAACTTCAGA
196 TCTACTGTAACTTCAGA
* * * *
62620458 GAGATAAGATCTGTGGTTTTAATTCACTCCACTGCAACTTCAGTG-ATATAGGATTGATTTCTTC
1 GAGATAAGACCTGTGGTTTTAATCCACTCCACTACAACTTCAG-GAAGATAGGATTGATTTCTTC
* ** *
62620522 TGTCAGCTCTGCTACTGCCTAGGGAGATAAGACTGAATGTGATCTGCTCCACTACTGCTTAGGGA
65 TGTCAGCTCCGCTACTGCCTAGGGAGATAAGACTGAATACGATCTGCTCCACTACTGCTTAAGGA
* * *
62620587 GATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTG
130 GATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTG
62620641 ATTTCTTCTG
Statistics
Matches: 164, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
212 163 0.99
213 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (212 bp):
GAGATAAGACCTGTGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTGATTTCTTCT
GTCAGCTCCGCTACTGCCTAGGGAGATAAGACTGAATACGATCTGCTCCACTACTGCTTAAGGAG
ATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGAGAGATAGGATTGGATGCGATCTGC
TCTACTGTAACTTCAGA
Found at i:62620633 original size:44 final size:43
Alignment explanation
Indices: 62620228--62620888 Score: 149
Period size: 43 Copynumber: 15.6 Consensus size: 43
62620218 AATGCGATCT
** *
62620228 GCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
* * ** *
62620271 GCTCCACTACAACTTCAGGAAGAT-AGTAT-TGAT-TTTTTCTGTCT
1 GCTCCACTACAACTT-AGGGAGATAAG-ATCTG-TGGTTTT-AATCC
* ** ** *** *
62620315 GCTCCGCTACTGCTTAGGGAGATAAGA-C--TGAATACGATCT
1 GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
** * *
62620355 GCTCCACTACTGCTTAAGGAGATAAGATTTGTGGTTTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
* * * *** *
62620398 GCTCCACTACAACTTCAGAGAGAT-AG-TAT-TGGATGCGATCT
1 GCTCCACTACAACTT-AGGGAGATAAGATCTGTGGTTTTAATCC
* ** * *
62620439 GCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATTC
1 GCTCCACTACAACTT-AGGGAGATAAGATCTGTGGTTTTAATCC
* * * * * ** *
62620483 ACTCCACTGCAACTTCAGTGATATAGGAT-TGAT--TTCTTCTGTCA
1 GCTCCACTACAACTT-AGGGAGATAAGATCTG-TGGTT-TT-AATCC
** ** * ** * * *
62620527 GCTCTGCTACTGCCTAGGGAGATAAGA-C--TGAATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
**
62620567 GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
* * ** *
62620610 GCTCCACTGCAACTTTAGGGAGATAGGAT-TGAT--TTCTTCTGTCT
1 GCTCCACTACAAC-TTAGGGAGATAAGATCTG-TGGTT-TT-AATCC
* ** ** *** *
62620654 GCTCCGCTACTGCTTAGGGAGATAAGA-C--TGAATGCGATCT
1 GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
** *
62620694 GCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
* * ** *
62620737 GCTCCACTGCAACTTCAGGGAGATAGGAT-TGAT--TTCTTCTGTCT
1 GCTCCACTACAACTT-AGGGAGATAAGATCTG-TGGTT-TT-AATCC
* *** *
62620781 GCTCCGCTATTGCTTAGGGAGATAAGA-CTGAATGCG--AT-AT--
1 GCTCCACTACAACTTAGGGAGATAAGATCTG--TG-GTTTTAATCC
** *
62620821 GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGCTTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
* *
62620864 GCTCCACTGCAACTTCAGAGAGATA
1 GCTCCACTACAACTT-AGGGAGATA
62620889 GGATTGGTGC
Statistics
Matches: 442, Mismatches: 127, Indels: 97
0.66 0.19 0.15
Matches are distributed among these distances:
38 1 0.00
39 2 0.00
40 112 0.25
41 37 0.08
42 13 0.03
43 146 0.33
44 131 0.30
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (43 bp):
GCTCCACTACAACTTAGGGAGATAAGATCTGTGGTTTTAATCC
Found at i:62620873 original size:40 final size:41
Alignment explanation
Indices: 62620575--62620873 Score: 111
Period size: 44 Copynumber: 7.1 Consensus size: 41
62620565 CTGCTCCACT
*
62620575 ACTGCTTAGGGAGATAAGATCTG-TGGTTTTAATCCGCTCC
1 ACTGCTTAGGGAGATAAGATCTGATGGCTTTAATCCGCTCC
* ** * *
62620615 ACTGCAACTTTAGGGAGATAGGAT-TGATTTCTTCT-GTCTGCTCCGC
1 ACTG---C-TTAGGGAGATAAGATCTGATGGCTT-TAATCCGCT-C-C
* * ** *
62620661 TACTGCTTAGGGAGATAAGA-CTGAATGCGATCTGCTCCACT--
1 -ACTGCTTAGGGAGATAAGATCTG-ATG-GCTTTAATCCGCTCC
* *
62620702 ACTGCTTAGGGAGATAAGACCTG-TGGTTTTAATCCGCTCC
1 ACTGCTTAGGGAGATAAGATCTGATGGCTTTAATCCGCTCC
* ** * *
62620742 ACTGCAACTTCAGGGAGATAGGAT-TGATTTCTTCT-GTCTGCTCCGC
1 ACTG---CTT-AGGGAGATAAGATCTGATGGCTT-TAATCCGCT-C-C
* * * ** *
62620788 TATTGCTTAGGGAGATAAGA-CTGAATGCGATATGCTCCACT--
1 -ACTGCTTAGGGAGATAAGATCTG-ATG-GCTTTAATCCGCTCC
62620829 ACTGCTTAGGGAGATAAGATCTG-TGGCTTTAATCCGCTCC
1 ACTGCTTAGGGAGATAAGATCTGATGGCTTTAATCCGCTCC
62620869 ACTGC
1 ACTGC
62620874 AACTTCAGAG
Statistics
Matches: 186, Mismatches: 41, Indels: 64
0.64 0.14 0.22
Matches are distributed among these distances:
38 16 0.09
39 4 0.02
40 50 0.27
41 6 0.03
43 36 0.19
44 51 0.27
45 14 0.08
46 2 0.01
47 7 0.04
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (41 bp):
ACTGCTTAGGGAGATAAGATCTGATGGCTTTAATCCGCTCC
Found at i:62620910 original size:127 final size:127
Alignment explanation
Indices: 62620458--62620894 Score: 748
Period size: 127 Copynumber: 3.4 Consensus size: 127
62620448 TAACTTCAGA
* * * *
62620458 GAGATAAGATCTGTGGTTTTAATTCACTCCACTGCAACTTCAGTGATATAGGATTGATTTCTTCT
1 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
* * * *
62620523 GTCAGCTCTGCTACTGCCTAGGGAGATAAGACTGAATGTGATCTGCTCCACTACTGCTTAGG
66 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTGAATGCGATCTGCTCCACTACTGCTTAGG
*
62620585 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGATTTCTTCT
1 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
62620650 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTGAATGCGATCTGCTCCACTACTGCTTAGG
66 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTGAATGCGATCTGCTCCACTACTGCTTAGG
*
62620712 GAGATAAGACCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
1 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
* *
62620777 GTCTGCTCCGCTATTGCTTAGGGAGATAAGACTGAATGCGATATGCTCCACTACTGCTTAGG
66 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTGAATGCGATCTGCTCCACTACTGCTTAGG
* *
62620839 GAGATAAGATCTGTGGCTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTG
1 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTG
62620895 GTGCTTCCGA
Statistics
Matches: 294, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 294 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (127 bp):
GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT
GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTGAATGCGATCTGCTCCACTACTGCTTAGG
Found at i:62620975 original size:45 final size:45
Alignment explanation
Indices: 62620902--62621565 Score: 826
Period size: 45 Copynumber: 14.8 Consensus size: 45
62620892 TTGGTGCTTC
* * * * * *
62620902 CGATCTGCTTCACTGCCAGTACAAGAAGATAAGATCTACTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
62620947 C-AGTCTACTTCGCTGCCAATACAGGAAGACAAGA-CTTGCTATCTT
1 CGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTT
* * *
62620992 CGACCAACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
* * *
62621037 CGATCCACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
* * * **
62621082 CGATCCACTTTGCTGCTAATACAGGAAGGTAAGATCTGCTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
* *
62621127 CAATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
* *
62621172 C-AGTCTACTTCGTTGCAAATACAGGAAGACAAGA-CTTGCTATCTT
1 CGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTT
* * *
62621217 CGATCTACTTCGCTGCAAATACAGAAAAACAAGA-CTTGCTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTT
*
62621262 CGATCTACTTCGCTGCCAATACAGGAAAACAAGA-CTTGCTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTT
*
62621307 CGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
*
62621352 C-AGTCTACTTCGCTGCCAATATAGGAATG-CAAGA-CTTGCTATCTT
1 CGA-TCTACTTCGCTGCCAATACAGGAA-GACAAGATC-TGCTATCTT
* * *
62621397 CGATCTACTTCGCTGTCAATATAGGAAGATAAGATCTGCTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
* * *
62621442 CGATCTATTTCGCTGCCAATACAGGAAGACAATATCTGTTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
* * *
62621487 CGATCTACTTTGCTGCCAATACAGGAAGACAAGATATGTTATCTT
1 CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
* *
62621532 C-AGTCTACTTCGCTGCCAATACAGGGAGATAAGA
1 CGA-TCTACTTCGCTGCCAATACAGGAAGACAAGA
62621566 CTTGATTTGA
Statistics
Matches: 558, Mismatches: 46, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
44 8 0.01
45 543 0.97
46 7 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
CGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTT
Found at i:62622619 original size:17 final size:17
Alignment explanation
Indices: 62622587--62622635 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
62622577 GGCCTCTCCT
*
62622587 TTTTCTTTTTTATTTTTC
1 TTTTCTTTTCT-TTTTTC
62622605 TTTTCTTTTCTTTTTTC
1 TTTTCTTTTCTTTTTTC
**
62622622 TTTTAGTTTCTTTT
1 TTTTCTTTTCTTTT
62622636 ATTCAAGTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTTC
Found at i:62622769 original size:12 final size:12
Alignment explanation
Indices: 62622752--62622779 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62622742 TAAGGTCCTT
62622752 TCTAGTTTGACA
1 TCTAGTTTGACA
62622764 TCTAGTTTGACA
1 TCTAGTTTGACA
62622776 TCTA
1 TCTA
62622780 CTTTCTTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (12 bp):
TCTAGTTTGACA
Found at i:62628753 original size:19 final size:19
Alignment explanation
Indices: 62628729--62628782 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
62628719 AATCATATCT
62628729 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
62628748 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
62628767 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
62628783 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62628778 original size:38 final size:40
Alignment explanation
Indices: 62628706--62628782 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
62628696 AAATTAAATC
62628706 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
62628748 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
62628783 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:62632321 original size:28 final size:28
Alignment explanation
Indices: 62632283--62632357 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
62632273 AAAAAATAAA
* *
62632283 ATTTACCAAAATACTA-CAAGTTTTTTTT
1 ATTTACCAAAATA-TATAAACTTTTTTTT
*
62632311 ATTTACTAAAATATATAAACTTTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTTT
62632339 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
62632358 AAAACCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 2 0.05
28 40 0.95
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.45
Consensus pattern (28 bp):
ATTTACCAAAATATATAAACTTTTTTTT
Found at i:62632377 original size:17 final size:18
Alignment explanation
Indices: 62632343--62632380 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
62632333 TTTTTTATTT
*
62632343 ACCAAAATATATAAAAAA
1 ACCAAAATATAAAAAAAA
62632361 ACCAAAAT-TAAAAAAAA
1 ACCAAAATATAAAAAAAA
62632378 ACC
1 ACC
62632381 TGACAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (18 bp):
ACCAAAATATAAAAAAAA
Found at i:62632469 original size:27 final size:27
Alignment explanation
Indices: 62632431--62632497 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
62632421 CGCTAATGGT
62632431 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* **
62632458 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
62632485 ATTGGCGGCACCA
1 ATTGGCGGCACCA
62632498 GTTGGTGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.28, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:62632548 original size:4 final size:4
Alignment explanation
Indices: 62632539--62632663 Score: 89
Period size: 4 Copynumber: 30.5 Consensus size: 4
62632529 GCAGAAGGAG
* *
62632539 AGAA AGAA AGAA AGAA AGGAGA GGAA AGAA AGAA AGAA AGAA AGGGGA
1 AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA AGAA AGAA A--GAA
* *
62632587 GGAA AGAA AGAAA AGGAA AG-G AGAA GAGAA A-AA AGGAA AGAA AG-A
1 AGAA AGAA AG-AA A-GAA AGAA AGAA -AGAA AGAA A-GAA AGAA AGAA
* *
62632632 AG-A AGAA A-AA AGAA AGAA GGAA GGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
62632664 GGAAAGGAGA
Statistics
Matches: 99, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
3 14 0.14
4 64 0.65
5 17 0.17
6 4 0.04
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:62632568 original size:22 final size:22
Alignment explanation
Indices: 62632533--62632663 Score: 119
Period size: 26 Copynumber: 5.8 Consensus size: 22
62632523 GTGGGGGCAG
62632533 AAGGAGA-GAAAGAAAGAAAGA
1 AAGGAGAGGAAAGAAAGAAAGA
62632554 AAGGAGAGGAAAGAAAGAAAGAAAGA
1 AAGGAGA-G---GAAAGAAAGAAAGA
*
62632580 AAGGGGAGGAAAGAAAGAAAAGGA
1 AAGGAGAGGAAAGAAAG-AAA-GA
62632604 AAGGAGAAGAGAAA-AAAGGAAAGA
1 AAGGAG-AG-GAAAGAAA-GAAAGA
* *
62632628 AAGAAGAAGAAA-AAAGAAAG-
1 AAGGAGAGGAAAGAAAGAAAGA
62632648 AAGGA-AGGAAAGAAAG
1 AAGGAGAGGAAAGAAAG
62632664 GGAAAGGAGA
Statistics
Matches: 93, Mismatches: 6, Indels: 23
0.76 0.05 0.19
Matches are distributed among these distances:
19 5 0.05
20 8 0.09
21 12 0.13
22 16 0.17
23 4 0.04
24 14 0.15
25 9 0.10
26 25 0.27
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
AAGGAGAGGAAAGAAAGAAAGA
Found at i:62632570 original size:26 final size:26
Alignment explanation
Indices: 62632534--62632649 Score: 127
Period size: 26 Copynumber: 4.7 Consensus size: 26
62632524 TGGGGGCAGA
*
62632534 AGGAGAGAAAGAAAGAAAGAAAGGAG
1 AGGAAAGAAAGAAAGAAAGAAAGGAG
*
62632560 AGGAAAGAAAGAAAGAAAGAAAGGGG
1 AGGAAAGAAAGAAAGAAAGAAAGGAG
*
62632586 AGGAAAGAAAG-AA-AAGGAAAGGAG
1 AGGAAAGAAAGAAAGAAAGAAAGGAG
* *
62632610 A--AGAGAAA-AAAGGAAAGAAAGAAG
1 AGGAAAGAAAGAAA-GAAAGAAAGGAG
*
62632634 AAGAAA-AAAGAAAGAA
1 AGGAAAGAAAGAAAGAA
62632650 GGAAGGAAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
22 8 0.11
24 20 0.26
25 8 0.11
26 40 0.53
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (26 bp):
AGGAAAGAAAGAAAGAAAGAAAGGAG
Found at i:62632630 original size:29 final size:29
Alignment explanation
Indices: 62632592--62632684 Score: 89
Period size: 33 Copynumber: 3.0 Consensus size: 29
62632582 GGGGAGGAAA
62632592 GAAAGAAAAGGAAAGGAGAAGAGAAAAAAG
1 GAAAG-AAAGGAAAGGAGAAGAGAAAAAAG
* * *
62632622 GAAAGAAA-GAAGAAGAAAAAAGAAAGAAGGAAG
1 GAAAGAAAGGAA-AGGAGAAGAG-AA-AA--AAG
62632655 GAAAGAAAGGGAAAGGAGAAGAGAAAAAAG
1 GAAAGAAA-GGAAAGGAGAAGAGAAAAAAG
62632685 AAGAAGAAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
28 3 0.06
29 10 0.20
30 10 0.20
31 2 0.04
32 2 0.04
33 13 0.26
34 7 0.14
35 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (29 bp):
GAAAGAAAGGAAAGGAGAAGAGAAAAAAG
Found at i:62632660 original size:63 final size:65
Alignment explanation
Indices: 62632543--62632710 Score: 192
Period size: 63 Copynumber: 2.7 Consensus size: 65
62632533 AAGGAGAGAA
* *
62632543 AGAA-AGAAAGAAAGGAGAGGAAAG-A-AAGAAAGAAAGAAAGGGGAGGAAAGAAAGAAAAGGAA
1 AGAAGAGAAA-AAAGGA-AAGAAAGAAGAAGAAAGAAAGAAA-GGAAGGAAAGAAAGAAAAGGAA
62632605 AGG
63 AGG
* *
62632608 AGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAA-AAAGAAA-GAAGGAAGGAAAGAAAGGGAAAGG
1 AGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAGAAAGAAAGGAAGGAAAGAAAGAAAAGGAAAGG
* *
62632671 AGAAGAGAAAAAA-G-AAG-AAGAAGAAG-AGGGAAGAAAGGAA
1 AGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAGAAAGAAAGGAA
62632711 AAAAAAGGGA
Statistics
Matches: 92, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
59 1 0.01
60 15 0.16
61 6 0.07
62 1 0.01
63 34 0.37
64 6 0.07
65 18 0.20
66 11 0.12
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (65 bp):
AGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAGAAAGAAAGGAAGGAAAGAAAGAAAAGGAAAGG
Found at i:62632671 original size:48 final size:47
Alignment explanation
Indices: 62632539--62632663 Score: 141
Period size: 48 Copynumber: 2.6 Consensus size: 47
62632529 GCAGAAGGAG
**
62632539 AGAAAGAAAGAAAGAAAGGAGAGGAAAGAAAGAAA-GAAAGAAAGGGGA
1 AGAAAGAAAGAAAG-AAGGA-AGGAAAGAAAGAAAGGAAAGAAAGAAGA
* *
62632587 GGAAAGAAAG-AA-AAGGAAAGGAGAAGAGAAAAAAGGAAAGAAAGAAGA
1 AGAAAGAAAGAAAGAAGG-AAGGA-AAGA-AAGAAAGGAAAGAAAGAAGA
62632635 AGAAA-AAAGAAAGAAGGAAGGAAAGAAAG
1 AGAAAGAAAGAAAGAAGGAAGGAAAGAAAG
62632664 GGAAAGGAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
45 8 0.12
46 7 0.11
47 15 0.23
48 31 0.48
49 4 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (47 bp):
AGAAAGAAAGAAAGAAGGAAGGAAAGAAAGAAAGGAAAGAAAGAAGA
Found at i:62632684 original size:21 final size:20
Alignment explanation
Indices: 62632597--62632727 Score: 115
Period size: 21 Copynumber: 6.3 Consensus size: 20
62632587 GGAAAGAAAG
*
62632597 AAAAGGAAAGGAGAAGAGAA
1 AAAAGGAAAGAAGAAGAGAA
62632617 AAAAGGAAAGAAAGAAGAAGAA
1 AAAAGGAAAG-AAGAAG-AGAA
62632639 AAAA-GAAAGAAGGAAG-GAA
1 AAAAGGAAAGAA-GAAGAGAA
*
62632658 AGAAAGGGAAAGGAGAAGAGAA
1 A-AAA-GGAAAGAAGAAGAGAA
*
62632680 AAAAGAAGAAGAAGAAGAGGGAA
1 AAAAGGA-AAGAAGAAGA--GAA
* * *
62632703 GAAAGGAAA-AAAAAGGGAA
1 AAAAGGAAAGAAGAAGAGAA
62632722 AAAAGG
1 AAAAGG
62632728 TAATTTTATT
Statistics
Matches: 92, Mismatches: 9, Indels: 21
0.75 0.07 0.17
Matches are distributed among these distances:
19 12 0.13
20 17 0.18
21 35 0.38
22 20 0.22
23 8 0.09
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAAGGAAAGAAGAAGAGAA
Found at i:62632727 original size:63 final size:62
Alignment explanation
Indices: 62632588--62632727 Score: 153
Period size: 63 Copynumber: 2.2 Consensus size: 62
62632578 GAAAGGGGAG
* *
62632588 GAAA-GAAAGAAAAGGAAAGGAGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAAAAGAAAGAA
1 GAAAGGAAA-AAAGGGAAAGGAGAAGAGAAAAAAGAAAAGAAAGAAGAAGAAAAAAGAAAGAA
* * *
62632650 GGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAGAAGAAG-AAGAAGAGGGAAGAAAGGAAA-A
1 GAAAGGAAA-AAAGGGAAAGGAGAAGAGAAAAAAGAA-AAGAAAGAAGA-AGAA-AAAAGAAAGA
62632713 A
62 A
62632714 -AAAGGGAAAAAAGG
1 GAAA-GGAAAAAAGG
62632728 TAATTTTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
62 3 0.04
63 44 0.66
64 13 0.19
65 7 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (62 bp):
GAAAGGAAAAAAGGGAAAGGAGAAGAGAAAAAAGAAAAGAAAGAAGAAGAAAAAAGAAAGAA
Found at i:62639295 original size:3 final size:3
Alignment explanation
Indices: 62639287--62639327 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
62639277 TCTTCATACT
*
62639287 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AGC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
62639328 TAATAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.32, G:0.02, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:62639615 original size:27 final size:27
Alignment explanation
Indices: 62639577--62639652 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
62639567 ATAATACGAG
62639577 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
62639604 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
62639631 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
62639653 GTGACCAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:62639786 original size:29 final size:28
Alignment explanation
Indices: 62639723--62639795 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
62639713 GTTTTTTTTG
**
62639723 ATATATTTTGGTAAATAAAAAAAAGTTT
1 ATATATTTTGGTAAATAAAAAAAAACTT
*
62639751 ATATATTTTGATAAATAAAAAAAAACTT
1 ATATATTTTGGTAAATAAAAAAAAACTT
*
62639779 GTAGTATTTTGGTAAAT
1 ATA-TATTTTGGTAAAT
62639796 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 27 0.69
29 12 0.31
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAAACTT
Found at i:62650290 original size:18 final size:17
Alignment explanation
Indices: 62650269--62650303 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62650259 TTATTATTAA
*
62650269 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62650287 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62650304 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62650410 original size:61 final size:57
Alignment explanation
Indices: 62650249--62650423 Score: 136
Period size: 63 Copynumber: 2.9 Consensus size: 57
62650239 TTAATCATAT
* * *
62650249 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC
1 TTTAACATTATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTA
* * * * * ** * *
62650306 TTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATATGATACT-ATAAAATATA
1 TT--TAA-CATTATTATTAT-TAAATATATTTTAAT--TAAAATATATAAT-CTAATAAAAT-T-
62650370 A
57 A
* *
62650371 TTTAACATTATTATTATTAAATATATTTTAATTAAAATATCTAATTTAATAAA
1 TTTAACATTATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAA
62650424 TTCTTAATAA
Statistics
Matches: 85, Mismatches: 23, Indels: 18
0.67 0.18 0.14
Matches are distributed among these distances:
57 2 0.02
58 1 0.01
59 18 0.21
60 9 0.11
61 20 0.24
62 10 0.12
63 21 0.25
64 2 0.02
65 2 0.02
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (57 bp):
TTTAACATTATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTA
Found at i:62655615 original size:15 final size:15
Alignment explanation
Indices: 62655595--62655646 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
62655585 ACTACAAAAC
62655595 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
62655610 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
62655629 ATTTATTATTAATAT
1 ATTTATTATTAATAT
62655644 ATT
1 ATT
62655647 AATATTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 12 0.39
16 1 0.03
17 8 0.26
18 1 0.03
19 9 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:62655652 original size:17 final size:16
Alignment explanation
Indices: 62655598--62655652 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
62655588 ACAAAACATT
62655598 TATTATTAATATATTTA
1 TATTATTAATATA-TTA
62655615 TAATTA-TAATAAATATT-
1 T-ATTATTAAT--ATATTA
62655632 TATTATTAATATATTAA
1 TATTATTAATATATT-A
62655649 TATT
1 TATT
62655653 GAATATTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 14 0.44
18 6 0.19
19 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTAATATATTA
Found at i:62658303 original size:37 final size:37
Alignment explanation
Indices: 62658238--62658387 Score: 187
Period size: 37 Copynumber: 3.9 Consensus size: 37
62658228 TACATATGAT
*
62658238 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
62658273 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
62658310 CACTTATCACTTTGTCTCTTGATCAGATAAATGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGAT-AA-GT-G-T--AGC
62658353 TATCACTTATCACTTTGTCTCTTGATCAGATAAGT
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGT
62658388 ATATCCGAAG
Statistics
Matches: 101, Mismatches: 3, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
35 10 0.10
36 4 0.04
37 46 0.46
38 2 0.02
39 2 0.02
40 1 0.01
41 1 0.01
43 3 0.03
44 2 0.02
45 2 0.02
46 28 0.28
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:62658363 original size:46 final size:46
Alignment explanation
Indices: 62658310--62658578 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
62658300 TAAGTGTAGC
* * **
62658310 CACTTATCACTTTGTCTCTTGATCAGATAAATGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
62658356 CACTTATCACTTTGTCTCTTGATCAGATAAGTATATCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
62658402 CACTTTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
62658454 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
62658506 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
62658552 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
62658579 AGTACTCAAA
Statistics
Matches: 202, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
46 110 0.54
49 1 0.00
50 1 0.00
51 3 0.01
52 87 0.43
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:62658429 original size:52 final size:52
Alignment explanation
Indices: 62658353--62658572 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
62658343 TAGCTAAAGC
* * *
62658353 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATATCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
62658406 TTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
62658458 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
62658510 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
62658556 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
62658573 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
50 1 0.01
52 90 0.61
53 14 0.09
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:62658521 original size:98 final size:94
Alignment explanation
Indices: 62658310--62658578 Score: 321
Period size: 98 Copynumber: 2.8 Consensus size: 94
62658300 TAAGTGTAGC
* * ** *
62658310 CACTTATCACTTTGTCTCTTGATCAGATAAATGTAGCTAAAGCTATCACTTATCAC--TTTGTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
*
62658373 CTTGATCAGATAAGTATATCCGAAGCTAT
66 CTTGATCAGATAAGTATAGCCGAAGCTAT
* *
62658402 CACTTTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
* *
62658467 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
60 ----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
62658506 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TTTGTCA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
62658569 CTTGATCAGA
66 CTTGATCAGA
62658579 AGTACTCAAA
Statistics
Matches: 152, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
92 25 0.16
95 1 0.01
96 1 0.01
98 83 0.55
100 1 0.01
101 1 0.01
104 40 0.26
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (94 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
CTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:62660705 original size:68 final size:68
Alignment explanation
Indices: 62660588--62660737 Score: 187
Period size: 68 Copynumber: 2.2 Consensus size: 68
62660578 CTATTACAAA
* * * * *
62660588 GGTCTTACACAGTATGATCCCATGTTTAATGTCCCAGTGGACTCTCTTTGTTGCCACAGTCGAGC
1 GGTCTTACACAATAGGAACCCATATTTAATGTCCCAGTGGACTCCCTTTGTTGCCACAGTCGAGC
62660653 TAT
66 TAT
* * *
62660656 GGTCTTACACAATAGGAACCCATATTTAATGTCCTGACG-GG-CTCCCTTTGTTGCCATAGTTGA
1 GGTCTTACACAATAGGAACCCATATTTAATGTCC-CA-GTGGACTCCCTTTGTTGCCACAGTCGA
*
62660719 GTTAT
64 GCTAT
62660724 GGTCTTACACAATA
1 GGTCTTACACAATA
62660738 TAACCTCTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
68 67 0.94
69 3 0.04
70 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (68 bp):
GGTCTTACACAATAGGAACCCATATTTAATGTCCCAGTGGACTCCCTTTGTTGCCACAGTCGAGC
TAT
Found at i:62660902 original size:38 final size:39
Alignment explanation
Indices: 62660841--62660951 Score: 101
Period size: 35 Copynumber: 3.0 Consensus size: 39
62660831 AGAGTCGAGG
* **
62660841 GACCCTCGTCACAATGTCACTCTAGCGAGCCAGTTGATA
1 GACCGTCGTCACGGTGTCACTCTAGCGAGCCAGTTGATA
* * *
62660880 -ATCAC-T-GTCACGGTGTCGCTCTA--TAG--AGTCGATA
1 GA-C-CGTCGTCACGGTGTCACTCTAGCGAGCCAGTTGATA
62660914 GACCGTCGTCACGGTGTCACTCTAGCGAGCCAGTTGAT
1 GACCGTCGTCACGGTGTCACTCTAGCGAGCCAGTTGAT
62660952 GACATTCCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
33 1 0.02
34 9 0.16
35 17 0.31
36 2 0.04
37 2 0.04
38 15 0.27
39 8 0.15
40 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
GACCGTCGTCACGGTGTCACTCTAGCGAGCCAGTTGATA
Found at i:62660906 original size:73 final size:73
Alignment explanation
Indices: 62660814--62660951 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 73
62660804 CTTATTGCCA
*
62660814 TCACGGTATCGCTCCATAGAGTCGAGGGACCCTCGTCACAATGTCACTCTAGCGAGCCAGTTGAT
1 TCACGGTATCGCTCCATAGAGTCGAGAGACCCTCGTCACAATGTCACTCTAGCGAGCCAGTTGAT
62660879 AATCACTG
66 AATCACTG
* * * * **
62660887 TCACGGTGTCGCTCTATAGAGTCGATAGACCGTCGTCACGGTGTCACTCTAGCGAGCCAGTTGAT
1 TCACGGTATCGCTCCATAGAGTCGAGAGACCCTCGTCACAATGTCACTCTAGCGAGCCAGTTGAT
62660952 GACATTCCAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 58 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (73 bp):
TCACGGTATCGCTCCATAGAGTCGAGAGACCCTCGTCACAATGTCACTCTAGCGAGCCAGTTGAT
AATCACTG
Found at i:62667332 original size:16 final size:16
Alignment explanation
Indices: 62667311--62667362 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
62667301 TTTGGTTCGC
62667311 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62667327 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
62667343 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
62667359 TGTA
1 TGTA
62667363 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62667409 original size:45 final size:44
Alignment explanation
Indices: 62667343--62667437 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
62667333 GGATTAGAGG
* * * *
62667343 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAAAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
62667388 TGTAATGGAATAAAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAAAGGCGTAATAGCAAAACACTGTTTGGTTGAA
62667432 TGTAAT
1 TGTAAT
62667438 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAAAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:62667620 original size:18 final size:17
Alignment explanation
Indices: 62667599--62667633 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62667589 TTATTATTTA
*
62667599 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62667617 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62667634 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62667627 original size:28 final size:27
Alignment explanation
Indices: 62667557--62667629 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
62667547 TTTATTATAA
*
62667557 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
62667585 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
62667612 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
62667630 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:62667767 original size:18 final size:17
Alignment explanation
Indices: 62667746--62667780 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62667736 TTATTATTAA
*
62667746 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62667764 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62667781 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62667792 original size:147 final size:149
Alignment explanation
Indices: 62667518--62667792 Score: 491
Period size: 147 Copynumber: 1.9 Consensus size: 149
62667508 ATGATTATTG
*
62667518 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATAAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATAAAAAATAAATAATTTAATCATATTTAA
*
62667583 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
62667648 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* * *
62667667 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATAAAAAATAAATAATTTAATCATATTTAA
62667730 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
62667793 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
147 93 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATAAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:62667888 original size:18 final size:17
Alignment explanation
Indices: 62667848--62667900 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
62667838 AAATATAAAT
62667848 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
62667862 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
62667877 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
62667895 TAAAAT
1 TAAAAT
62667901 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:62667958 original size:60 final size:59
Alignment explanation
Indices: 62667774--62667960 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
62667764 ATATAATTTA
*
62667774 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
62667835 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
62667893 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
62667954 ATAAAAT
1 ATAAAAT
62667961 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:62667959 original size:119 final size:120
Alignment explanation
Indices: 62667726--62668020 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
62667716 TTACTCATAT
*
62667726 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
62667791 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
62667847 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
62667911 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
62667966 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
62668021 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:62671303 original size:20 final size:20
Alignment explanation
Indices: 62671278--62671329 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
62671268 GCACATTCAC
**
62671278 TATAATTTATAAATTTTAAT
1 TATAATTTATAAATAATAAT
*
62671298 TATAA-TCATAATATAATAAT
1 TATAATTTATAA-ATAATAAT
62671318 TATAATTT-TAAA
1 TATAATTTATAAA
62671330 GTTGATATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 6 0.23
20 19 0.73
21 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAATTTATAAATAATAAT
Found at i:62672017 original size:27 final size:27
Alignment explanation
Indices: 62671977--62672043 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
62671967 AAAATAATAG
*
62671977 AAAAACTATAAATATTATTAA-ATATT
1 AAAAAATATAAATATTATTAATATATT
*
62672003 AAAAAATATAGAATATTATTAATATGTT
1 AAAAAATATA-AATATTATTAATATATT
62672031 ATGAAAAATATAA
1 A--AAAAATATAA
62672044 TAATATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 9 0.26
27 11 0.31
28 5 0.14
29 1 0.03
30 9 0.26
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (27 bp):
AAAAAATATAAATATTATTAATATATT
Found at i:62672038 original size:30 final size:27
Alignment explanation
Indices: 62671968--62672062 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 27
62671958 GAAAATATAA
*
62671968 AAATAATAGAAAAACTATAAATATTATT
1 AAATATTAGAAAAA-TATAAATATTATT
62671996 AAATATTA-AAAAATATAGAATATTATT
1 AAATATTAGAAAAATATA-AATATTATT
* *
62672023 AATATGTTATGAAAAATAT-AATAATATAT
1 AA-ATATTA-GAAAAATATAAATATTAT-T
62672052 AAAT-TTAGAAA
1 AAATATTAGAAA
62672063 TTATAGAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
26 8 0.14
27 19 0.32
28 21 0.36
29 3 0.05
30 8 0.14
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (27 bp):
AAATATTAGAAAAATATAAATATTATT
Found at i:62672077 original size:21 final size:19
Alignment explanation
Indices: 62672052--62672131 Score: 56
Period size: 20 Copynumber: 4.1 Consensus size: 19
62672042 AATAATATAT
62672052 AAATTTAGAAATTATAGAAA
1 AAATTTAGAAATTATA-AAA
*
62672072 ACAATTTA-AAAATATAAAA
1 A-AATTTAGAAATTATAAAA
* *
62672091 AAGTTATAGAAA-TATATATA
1 AAATT-TAGAAATTATA-AAA
* *
62672111 AATTTATAAAAATTATAAAA
1 AAATT-TAGAAATTATAAAA
62672131 A
1 A
62672132 CTTATTAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
18 3 0.06
19 10 0.20
20 26 0.53
21 10 0.20
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (19 bp):
AAATTTAGAAATTATAAAA
Found at i:62672103 original size:19 final size:19
Alignment explanation
Indices: 62672078--62672168 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 19
62672068 GAAAACAATT
62672078 TAAAAATATAAAAAAGTTA
1 TAAAAATATAAAAAAGTTA
* * *
62672097 TAGAAATATATATAAATTTA
1 TAAAAATATA-AAAAAGTTA
*
62672117 TAAAAAT-TATAAAAACTTA
1 TAAAAATATA-AAAAAGTTA
* * *
62672136 TTAATAGTATTAAAAAGTTA
1 -TAAAAATATAAAAAAGTTA
*
62672156 TATAAATTATAAA
1 TA-AAAATATAAA
62672169 TATATATAAG
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
19 21 0.38
20 33 0.60
21 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (19 bp):
TAAAAATATAAAAAAGTTA
Found at i:62672108 original size:10 final size:9
Alignment explanation
Indices: 62672074--62672168 Score: 59
Period size: 10 Copynumber: 10.0 Consensus size: 9
62672064 TATAGAAAAC
62672074 AATT-TAAA
1 AATTATAAA
62672082 AA-TATAAAA
1 AATTAT-AAA
*
62672091 AAGTTATAGA
1 AA-TTATAAA
62672101 AATATATATAA
1 AAT-TATA-AA
*
62672112 ATTTATAAA
1 AATTATAAA
62672121 AATTATAAA
1 AATTATAAA
*
62672130 AACTTATTAA
1 AA-TTATAAA
* *
62672140 TAGTATTAAA
1 AATTA-TAAA
*
62672150 AAGTTATATA
1 AA-TTATAAA
62672160 AATTATAAA
1 AATTATAAA
62672169 TATATATAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
7 1 0.02
8 3 0.05
9 26 0.39
10 28 0.42
11 8 0.12
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (9 bp):
AATTATAAA
Found at i:62672127 original size:60 final size:60
Alignment explanation
Indices: 62672046--62672192 Score: 144
Period size: 59 Copynumber: 2.5 Consensus size: 60
62672036 AAATATAATA
*
62672046 ATATATAAA-TT-TAGAAATTATAGAAAACA-ATTTAAAAATATAAAAAAGTTATAGAAAT
1 ATATATAAATTTATAAAAATTATAGAAAACATA-TTAAAAATATAAAAAAGTTATAGAAAT
* * * * *
62672104 ATATATAAATTTATAAAAATTATA-AAAACTTATTAATAGTATTAAAAAGTTATATAAAT
1 ATATATAAATTTATAAAAATTATAGAAAACATATTAAAAATATAAAAAAGTTATAGAAAT
* *
62672163 -TATA-AATATATATAAGAAAAATATAGAAAA
1 ATATATAA-ATTTAT-A-AAAATTATAGAAAA
62672193 ATTTTGTTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
57 2 0.03
58 18 0.24
59 31 0.42
60 19 0.26
61 4 0.05
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (60 bp):
ATATATAAATTTATAAAAATTATAGAAAACATATTAAAAATATAAAAAAGTTATAGAAAT
Found at i:62672456 original size:20 final size:20
Alignment explanation
Indices: 62672431--62672495 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
62672421 TATTAATTTT
*
62672431 TTAAAA-ACTATTAGAAATTA
1 TTAAAATACTA-TAAAAATTA
*
62672451 TTAAAATATTATAAAAATTA
1 TTAAAATACTATAAAAATTA
62672471 TT-AAAT-CTTATAAAAATT-
1 TTAAAATAC-TATAAAAATTA
62672489 TTAAAAT
1 TTAAAAT
62672496 TACTGCTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 2 0.05
19 18 0.46
20 16 0.41
21 3 0.08
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAAAATACTATAAAAATTA
Found at i:62672481 original size:19 final size:19
Alignment explanation
Indices: 62672445--62672497 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
62672435 AAACTATTAG
62672445 AAATTATTAAAATATTATAA
1 AAATTATT-AAATATTATAA
*
62672465 AAATTATTAAATCTTATAA
1 AAATTATTAAATATTATAA
62672484 AAATT-TTAAA-ATTA
1 AAATTATTAAATATTA
62672498 CTGCTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 3 0.10
18 5 0.16
19 15 0.48
20 8 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTATTAAATATTATAA
Found at i:62674630 original size:20 final size:20
Alignment explanation
Indices: 62674605--62674665 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
62674595 GGTTTGTTTT
62674605 TTTTTAATTTTTAATTAATA
1 TTTTTAATTTTTAATTAATA
* *
62674625 TTTTTAATTTATAAGTATATTA
1 TTTTTAATTTTTAA-T-TAATA
*
62674647 TTTTGAAGTTTTTAATTAA
1 TTTTTAA-TTTTTAATTAA
62674666 AAAACATGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 13 0.39
21 3 0.09
22 11 0.33
23 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTAATTTTTAATTAATA
Found at i:62675201 original size:69 final size:70
Alignment explanation
Indices: 62675116--62675249 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 70
62675106 TTTTACATAT
*
62675116 AAAAATAATGATATTTGAAATAATTACTT-TTTT-TAATATTAGAATTTACCATACCCACAATGT
1 AAAAATAATGATATTTGAAATAATTACTTATTTTATAATATTAGAATCTACCATACCCACAATGT
62675179 AGGTG
66 AGGTG
* * * *
62675184 AAAACATATTGATATTTGTAATAATTATTTAATTTTATAATATTAGAATCTATCATACCCACAAT
1 AAAA-ATAATGATATTTGAAATAATTACTT-ATTTTATAATATTAGAATCTACCATACCCACAAT
62675249 G
64 G
62675250 AAGATGGAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 4 0.07
69 22 0.39
71 4 0.07
72 27 0.47
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (70 bp):
AAAAATAATGATATTTGAAATAATTACTTATTTTATAATATTAGAATCTACCATACCCACAATGT
AGGTG
Found at i:62682196 original size:16 final size:16
Alignment explanation
Indices: 62682177--62682240 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 16
62682167 AGGTTAGGGT
62682177 TTAGGGTTTAATTAGG
1 TTAGGGTTTAATTAGG
62682193 TTAGGGTTTTCAATTTAATTAGG
1 TTAGGG---T---TT-AATTAGG
62682216 TTAGGGTTTAATTAGG
1 TTAGGGTTTAATTAGG
62682232 TTAGGGTTT
1 TTAGGGTTT
62682241 TCAATTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
16 22 0.54
17 2 0.05
19 1 0.02
20 1 0.02
22 2 0.05
23 13 0.32
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (16 bp):
TTAGGGTTTAATTAGG
Found at i:62682451 original size:23 final size:23
Alignment explanation
Indices: 62681704--62682451 Score: 759
Period size: 23 Copynumber: 32.7 Consensus size: 23
62681694 TTTTAAGGGT
*
62681704 TTAGGTTTAGGGTTTTTAATTTAA
1 TTAGG-TTAGGGTTTTCAATTTAA
62681728 TTAGGTTAGGG-TTT-AAGGTTTAA
1 TTAGGTTAGGGTTTTCAA--TTTAA
**
62681751 TTAGGTTAGGGTTTTCTTTTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
*
62681774 TTAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
*
62681797 TTAGGTTAAGGTTTTCAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
* *
62681820 TTAGGTTATGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
****
62681843 TTAGGTTAGGGTTTAGGGTTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
** *
62681866 TTAGGTTAGTATTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62681889 TTAGGTTAGGGTTTTTCAATTTAA
1 TTAGGTTAGGG-TTTTCAATTTAA
*
62681913 TTAGGTAAGGGTTTTCTTTTCAATTTAA
1 TTAGGTTAGGG-----TTTTCAATTTAA
* ****
62681941 TCAGGTTAGGGTTTAGGGTTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
* *
62681964 TTAGGTTAGAGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62681987 TTAGGTTAGGG-TTT-AAGGTTTAA
1 TTAGGTTAGGGTTTTCAA--TTTAA
62682010 TTAGGTTAGGGTTTTCAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62682033 TTAGGTTAGGG-TTT-AAGGTTTAA
1 TTAGGTTAGGGTTTTCAA--TTTAA
62682056 TTAGGTTAGGG-TTT--ATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
*
62682076 TTAGGTTA--GTTTT-TATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62682096 TTAGGTTAGGGTTTTCAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62682119 TTAGGTTAGGGTTTTCAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
*
62682142 TTAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
****
62682165 TTAGGTTAGGGTTTAGGGTTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62682188 TTAGGTTAGGGTTTTCAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62682211 TTAGGTTAGGG-------TTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62682227 TTAGGTTAGGGTTTTCAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
****
62682250 TTAGG--A--GTTTAGGGTTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
*
62682269 TTAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
*
62682292 TTAGGTTAGGGTTTTTCAATTCAA
1 TTAGGTTAGGG-TTTTCAATTTAA
*
62682316 TAAGGTTAGGGTTTTCTTTTCAATTTAA
1 TTAGGTTAGGG-----TTTTCAATTTAA
* ****
62682344 TTAGGTTAGAGTTTAGGGTTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
* *
62682367 TTAAGTTAGGGTTTTCATTTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
* *
62682390 TTAGGTTAAGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
62682413 TTAGGTTAGGGTTTTCAATTTAA
1 TTAGGTTAGGGTTTTCAATTTAA
*
62682436 TTAGATTAGGGTTTTC
1 TTAGGTTAGGGTTTTC
62682452 TTTTCAATTT
Statistics
Matches: 608, Mismatches: 80, Indels: 73
0.80 0.11 0.10
Matches are distributed among these distances:
16 16 0.03
18 1 0.00
19 17 0.03
20 27 0.04
21 8 0.01
22 15 0.02
23 429 0.71
24 52 0.09
25 2 0.00
28 41 0.07
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTCAATTTAA
Found at i:62682546 original size:25 final size:25
Alignment explanation
Indices: 62682517--62682565 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
62682507 ATTCAAAAAT
62682517 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
62682542 TTCTATTTTATTACATCAAATAAA
1 TTCTATTTTATTACATCAAATAAA
62682566 TTTCAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:62682994 original size:18 final size:18
Alignment explanation
Indices: 62682971--62683010 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
62682961 GACTCAGAAA
*
62682971 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
62682989 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
62683007 AGGA
1 AGGA
62683011 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:62683892 original size:20 final size:20
Alignment explanation
Indices: 62683855--62683892 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62683845 TTTATTTTTA
*
62683855 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
62683875 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
62683893 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:62684884 original size:22 final size:22
Alignment explanation
Indices: 62684859--62684933 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
62684849 AAATATGAAT
62684859 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
* *
62684881 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTAGAAGGAAA
* *
62684903 TTGAGAGGAAATTGAG-AGGAAA
1 TTGAGA-GAATTTTAGAAGGAAA
62684925 TATGAGAGA
1 T-TGAGAGA
62684934 GGATTAGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 34 0.76
23 11 0.24
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:62684932 original size:12 final size:11
Alignment explanation
Indices: 62684899--62684932 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
62684889 ATTTTGGAAA
62684899 GAAATTGAGAG
1 GAAATTGAGAG
62684910 GAAATTGAGAG
1 GAAATTGAGAG
62684921 GAAATATGAGAG
1 GAAAT-TGAGAG
62684933 AGGATTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.35, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:62690986 original size:106 final size:105
Alignment explanation
Indices: 62690540--62691238 Score: 882
Period size: 104 Copynumber: 6.7 Consensus size: 105
62690530 ATAACCGACC
*
62690540 AAAAAAGAATTTTTTTTAATATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACTCAAAATTTT
1 AAAAAAGAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCAC-CAAAATTTT
*
62690605 TTTTATTTTTTTCGTATATTTATATATGATTCTGACACGAA
65 TTTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAA
* *
62690646 AAAAAA-AA-----TTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCTAAATTTTT
1 AAAAAAGAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC-AAAATTTT
*
62690705 TTTTATTTTTTT-GTATATTTATATCTTATTCTGACAC-AA
65 TTTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAA
* *
62690744 AAAAAA-AA------TT-AAATTGTACTGGGTGCCGGCCATTGACAGACCAGCACCCAAATTTTT
1 AAAAAAGAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTT
62690801 TTTATTTTTTTCGTATATTTATATCTGATTCTGACAC-AA
66 TTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAA
* *
62690840 AAAAAAGGAATTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGATAGGCCAGCACTCAAAAATT
1 AAAAAA-GAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCAC-CAAAATTT
* *
62690904 TTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAA
64 TTTTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAA
* * * * *
62690946 AAGAAAGAATTTTTTTTAATATTGTACTGGGTGCCAGCCATTGACAGGCCAACA-CTAAATTTAT
1 AAAAAAGAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTT-T
*
62691010 TTTT-TATTTTTCGTATATTTATATCTGATTCTGACACGAA
65 TTTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAA
* * *
62691050 AAAAAAGATTTTTTTTTAAAATTGTATTGGGTGCCGGCCATTGACAAGCCAGCACCAAAATTTTT
1 AAAAAAGAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA-TTTT
* *
62691115 TTTTATTTTTTTCGTATATTTATATCTGATTATGACACAAA
65 TTTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAA
**** * *
62691156 AAAAAAGAAAAAAAAATTTAAAAATTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAA
1 AAAAAAG---AATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CC--AAA
62691221 ATTTTTTTT-TTGTTTTTC
60 ATTTTTTTTATT-TTTTTC
62691239 TTTTTTTCCT
Statistics
Matches: 523, Mismatches: 46, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
95 18 0.03
96 68 0.13
97 2 0.00
98 12 0.02
99 24 0.05
100 58 0.11
104 123 0.24
105 70 0.13
106 88 0.17
109 38 0.07
110 4 0.01
111 14 0.03
112 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (105 bp):
AAAAAAGAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTT
TTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAA
Found at i:62694627 original size:19 final size:19
Alignment explanation
Indices: 62694567--62694626 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
62694557 ATTTTATAAT
*
62694567 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
* *
62694585 TTATAAAAATTATTTTCAAA
1 TTTTAAAAATTATTTT-GAA
*
62694605 TTTTAAAAATTACTTTG-A
1 TTTTAAAAATTATTTTGAA
62694623 TTTT
1 TTTT
62694627 TTTTAATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 12 0.35
19 6 0.18
20 16 0.47
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:62697665 original size:11 final size:11
Alignment explanation
Indices: 62697651--62697694 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
62697641 AGATAAATAT
62697651 TATTTTATTAA
1 TATTTTATTAA
*
62697662 TATTTTAATAAAA
1 TATTTT-AT-TAA
62697675 TATTTTATTAA
1 TATTTTATTAA
62697686 TATTTTATT
1 TATTTTATT
62697695 TAGTATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 17 0.59
12 4 0.14
13 8 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:62699758 original size:101 final size:100
Alignment explanation
Indices: 62699583--62699877 Score: 333
Period size: 101 Copynumber: 3.0 Consensus size: 100
62699573 AATTGACGAA
* * * * * * * * *
62699583 TAAGACCATGGTTAGACCATGGAAATGTTTAAATGTAAGACCATGGTTGAGCTGTGACATTTTAA
1 TAAGACCATGGTTGGACCATGG-AGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGA
* * *
62699648 TGAAAAGACCATAACTGGGTTATGACACTATGAACG
65 TGATAAGACCATAATTGGGTTATGGCACTATGAACG
62699684 TAAGACCATGGTTGGACCATGAGAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGA
1 TAAGACCATGGTTGGACCATG-GAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGA
*
62699749 TGATAAGACCATAATTGGGCTATGGCACTATGAACG
65 TGATAAGACCATAATTGGGTTATGGCACTATGAACG
* *
62699785 TAAGACCA----TGG----T--AGTTTTTATATGTAAGACCATAGCTAGGCTAT-ATCATTCTGA
1 TAAGACCATGGTTGGACCATGGAGTGTTTATATGTAAGACCATAGCTGGGCTATGA-CATTCTGA
* *
62699839 TGATAAGACCATAATTGGGTTATGGCACTACGAATG
65 TGATAAGACCATAATTGGGTTATGGCACTATGAACG
62699875 TAA
1 TAA
62699878 AGGATGAATT
Statistics
Matches: 174, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
89 1 0.01
90 74 0.43
93 1 0.01
97 3 0.02
101 94 0.54
102 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (100 bp):
TAAGACCATGGTTGGACCATGGAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
GATAAGACCATAATTGGGTTATGGCACTATGAACG
Found at i:62699851 original size:90 final size:90
Alignment explanation
Indices: 62699698--62699877 Score: 283
Period size: 90 Copynumber: 2.0 Consensus size: 90
62699688 ACCATGGTTG
*
62699698 GACCATGAGAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAA
1 GACCATGAGAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTCTGATGATAAGACCATAA
*
62699763 TTGGGCTATGGCACTATGAACGTAA
66 TTGGGCTATGGCACTACGAACGTAA
*
62699788 GACCATG-GTAGTTTTTATATGTAAGACCATAGCTAGGCTAT-ATCATTCTGATGATAAGACCAT
1 GACCATGAG-AGTGTTTATATGTAAGACCATAGCTAGGCTATGA-CATTCTGATGATAAGACCAT
* *
62699851 AATTGGGTTATGGCACTACGAATGTAA
64 AATTGGGCTATGGCACTACGAACGTAA
62699878 AGGATGAATT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
89 2 0.02
90 81 0.98
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (90 bp):
GACCATGAGAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTCTGATGATAAGACCATAA
TTGGGCTATGGCACTACGAACGTAA
Found at i:62699900 original size:90 final size:90
Alignment explanation
Indices: 62699716--62699901 Score: 214
Period size: 90 Copynumber: 2.1 Consensus size: 90
62699706 GAGTGTTTAT
* *
62699716 ATGTAAGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAATTGGGCTATGGCACTATG
1 ATGTAAGACCATAGCTAGGCTATGACATTCTGATGATAAGACCATAATTGGGCTATGGCACTACG
* ***** *
62699781 AACGTAAGACCATGGTAGTTTTTAT
66 AACGTAAGACCATGATAGACGGAAA
*
62699806 ATGTAAGACCATAGCTAGGCTAT-ATCATTCTGATGATAAGACCATAATTGGGTTATGGCACTAC
1 ATGTAAGACCATAGCTAGGCTATGA-CATTCTGATGATAAGACCATAATTGGGCTATGGCACTAC
* ** *
62699870 GAATGTAA-AGGATGAATTGACGGAAA
65 GAACGTAAGACCATG-ATAGACGGAAA
62699896 ATGTAA
1 ATGTAA
62699902 AGGATGATAT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
89 5 0.06
90 75 0.94
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (90 bp):
ATGTAAGACCATAGCTAGGCTATGACATTCTGATGATAAGACCATAATTGGGCTATGGCACTACG
AACGTAAGACCATGATAGACGGAAA
Found at i:62699926 original size:25 final size:25
Alignment explanation
Indices: 62699871--62699936 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
62699861 TGGCACTACG
*
62699871 AATGTAAAGGATGA-ATTGACGGAA
1 AATGTAAAGGATGATATTGACAGAA
62699895 AATGTAAAGGATGATATATGA-AGAA
1 AATGTAAAGGATGATAT-TGACAGAA
*
62699920 ACA-GTAAAAGATGATAT
1 A-ATGTAAAGGATGATAT
62699937 GTATCATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
24 14 0.38
25 19 0.51
26 4 0.11
ACGTcount: A:0.50, C:0.03, G:0.24, T:0.23
Consensus pattern (25 bp):
AATGTAAAGGATGATATTGACAGAA
Found at i:62702303 original size:21 final size:22
Alignment explanation
Indices: 62702282--62702370 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 22
62702272 AGGGTTGAAC
62702282 GAAAGCTCATAAGAGCTAAACG
1 GAAAGCTCATAAGAGCTAAACG
* * *
62702304 GAAA-CCCA-ATAGGGTTAAAC-
1 GAAAGCTCATA-AGAGCTAAACG
* * * *
62702324 -AAAACTCATATGAG-TTAACT
1 GAAAGCTCATAAGAGCTAAACG
62702344 G-AAGCTCATAAGAGCTAAACG
1 GAAAGCTCATAAGAGCTAAACG
62702365 GAAAGC
1 GAAAGC
62702371 AAACACGAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
19 7 0.14
20 17 0.35
21 17 0.35
22 8 0.16
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (22 bp):
GAAAGCTCATAAGAGCTAAACG
Found at i:62702318 original size:42 final size:41
Alignment explanation
Indices: 62702254--62702333 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
62702244 GCACATAATT
* * *
62702254 GCTAAACAGAAACCCGTAAGGGTTGAACGAAAGCTCATAAGA
1 GCTAAACAGAAACCCATAAGGGTTAAAC-AAAACTCATAAGA
*
62702296 GCTAAACGGAAACCCA-ATAGGGTTAAACAAAACTCATA
1 GCTAAACAGAAACCCATA-AGGGTTAAACAAAACTCATA
62702334 TGAGTTAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 10 0.30
42 23 0.70
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (41 bp):
GCTAAACAGAAACCCATAAGGGTTAAACAAAACTCATAAGA
Found at i:62716298 original size:21 final size:21
Alignment explanation
Indices: 62716273--62716320 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
62716263 TTAGTATGAT
62716273 TTTAAAATATAAAATATATTA
1 TTTAAAATATAAAATATATTA
* * * *
62716294 TTTAAATTGTTAATTATATTA
1 TTTAAAATATAAAATATATTA
62716315 TTTAAA
1 TTTAAA
62716321 TGCATTATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTAAAATATAAAATATATTA
Found at i:62725617 original size:73 final size:73
Alignment explanation
Indices: 62725498--62725644 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
62725488 AGCAGTCCTA
62725498 CCCATTGAAGTCGAAATTCCTTCTCTCCGAGTATTGGCTGAATTAAAATTCGATGAGGCTGAATG
1 CCCATTGAAGTCGAAATTCCTTCTCTCCGAGTATTGGCTGAATTAAAATTCGATGAGGCTGAATG
62725563 GCTCCAAT
66 GCTCCAAT
* * *
62725571 CCCATTGAAGTCGAAATTCTTTCTCTCTGGGTATTGGCTGAATTAAAATTCGATGAGGCTGAATG
1 CCCATTGAAGTCGAAATTCCTTCTCTCCGAGTATTGGCTGAATTAAAATTCGATGAGGCTGAATG
62725636 GCTCCAAT
66 GCTCCAAT
62725644 C
1 C
62725645 TCGGTATGAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (73 bp):
CCCATTGAAGTCGAAATTCCTTCTCTCCGAGTATTGGCTGAATTAAAATTCGATGAGGCTGAATG
GCTCCAAT
Found at i:62728070 original size:44 final size:44
Alignment explanation
Indices: 62727100--62728106 Score: 782
Period size: 44 Copynumber: 22.7 Consensus size: 44
62727090 ATTCACAGAT
* * * * * *
62727100 AGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGACCGAAG-A
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
* * * *
62727144 TGCAGATCTTGTCTTCCCATACTAGTGGC--AAAGTAGAACGAAGAA
1 AGCAGATCTTGTCTT--CATA-TATTGGCGTGAAGTAGATCGAAGAA
*
62727189 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA-A
* * * *
62727234 A-CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
* * ** * *
62727277 TGCAGATATTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
* *
62727322 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA-A
* * * *
62727367 A-CAGATCCTGTCTTTC-TATATTGGTAGCGAAGTGGATCGAAG-A
1 AGCAGATCTTGTC-TTCATATATTGG-CGTGAAGTAGATCGAAGAA
* * ** * * * *
62727410 TGCAGATCTGGTCTTCCCATACTGGTGGCGAAGTGGATCGAAGAA
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
*
62727455 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA-A
* * *
62727500 A-CAGAT-TCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG-A
1 AGCAGATCT-TGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
* * * *
62727543 TGCAGATCTTGTCTTCCCATACTAGTGGC--AAAGTAGAACGAAGAA
1 AGCAGATCTTGTCTT--CATA-TATTGGCGTGAAGTAGATCGAAGAA
*
62727588 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA-A
* * * *
62727633 A-CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
* * ** * * *
62727676 TGCAGATATTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
*
62727721 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA-A
* * *
62727766 A-CAGATCCTGTCTTTC-TATATTGGTAGTGAAGTGGATCGAAG-A
1 AGCAGATCTTGTC-TTCATATATTGG-CGTGAAGTAGATCGAAGAA
* * ** * * * *
62727809 TGCAGATCTGGTCTTCCCATACTGGTGGCGAAGTGGATCGAAGAA
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
* *
62727854 AGCAGATCTTGTCTTCCCATACTAGTGGC--AAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTT--CATA-TATTGGCGTGAAGTAGATCGAAGAA
* *
62727899 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTGGATCGAAGATA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA-A
* * * *
62727944 A-CAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
* * ** * *
62727987 TGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAA
* * * *
62728032 AGTAGATCTTGTCTTCATGTATTGGCGTAAAGTGGATCGAA-AA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAA
* *
62728075 TAGCAGATCCTGTCTTCTTATATTGGCAGTGA
1 -AGCAGATCTTGTCTTCATATATTGGC-GTGA
62728107 CGCAGACTGA
Statistics
Matches: 777, Mismatches: 138, Indels: 95
0.77 0.14 0.09
Matches are distributed among these distances:
42 18 0.02
43 24 0.03
44 451 0.58
45 261 0.34
46 6 0.01
47 12 0.02
48 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAA
Found at i:62728100 original size:133 final size:133
Alignment explanation
Indices: 62727096--62728091 Score: 1387
Period size: 133 Copynumber: 7.5 Consensus size: 133
62727086 CATGATTCAC
* * * *
62727096 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGACCGAAGATGCAGATCTTGTCTTCC
1 AGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * *
62727161 CATACTAGTGGCAAAGTAGAACGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
62727226 CGA
131 CGA
* *
62727229 AGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATATTGTCTTCC
1 AGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
62727294 CATACTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
62727359 CGA
131 CGA
* * * *
62727362 AGATAACAGATCCTGTCTTTCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTGGTCTTCC
1 AGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
*
62727427 CATACTGGTGGCGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
62727492 CGA
131 CGA
62727495 AGATAACAGAT-TCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 AGATAACAGATCT-TGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * *
62727559 CCATACTAGTGGCAAAGTAGAACGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
65 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
62727624 TCGA
130 TCGA
* *
62727628 AGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATATTGTCTTCC
1 AGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
62727693 CATACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
62727758 CGA
131 CGA
* * *
62727761 AGATAACAGATCCTGTCTTTCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTGGTCTTCC
1 AGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * * *
62727826 CATACTGGTGGCGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCCCATACTAGTGGC--AAAGTA
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT--CAT-GTATTGGCGTGAAGTA
62727889 GATCGA
128 GATCGA
* * * *
62727895 AGA-AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTGGATCGAAGATAACAGATCTTGTCTT
1 AGATAA-CAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGAT-GCAGATCTTGTCTT
* * * * * * *** * *
62727958 CCTATATTGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTATCTTCCCATATTGGTGGCGAAGTA
64 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
62728022 GATCGA
128 GATCGA
* * * * * * *
62728028 AGA-AAGTAGATCTTGTCTTCATGTATTGG-CGTAAAGTGGATCGAAAATAGCAGATCCTGTCTT
1 AGATAA-CAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGAT-GCAGATCTTGTCTT
62728091 C
64 C
62728092 TTATATTGGC
Statistics
Matches: 788, Mismatches: 65, Indels: 20
0.90 0.07 0.02
Matches are distributed among these distances:
130 5 0.01
131 1 0.00
133 702 0.89
134 71 0.09
135 3 0.00
136 6 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (133 bp):
AGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
CGA
Found at i:62731388 original size:30 final size:31
Alignment explanation
Indices: 62731337--62731410 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 31
62731327 TCACTAAATT
* ** *
62731337 TTTATTAAAA-TGATATTTCAGTTATTAA-A
1 TTTATAAAAAGTGATAAATCAGTCATTAACA
*
62731366 TTTATAAAAAGTGATAAATCAGTCATTAACG
1 TTTATAAAAAGTGATAAATCAGTCATTAACA
*
62731397 TTTATGAAAAGTGA
1 TTTATAAAAAGTGA
62731411 CAAAGCAATC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 9 0.24
30 15 0.41
31 13 0.35
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (31 bp):
TTTATAAAAAGTGATAAATCAGTCATTAACA
Found at i:62734508 original size:57 final size:56
Alignment explanation
Indices: 62734414--62734528 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 56
62734404 CTTTTACTTT
*
62734414 TGGTGGATAGAATTCCCTTAACAGTTCTCATAAATTGAGAATTCATTTGTGTTTGA
1 TGGTGGATAGAATTCCCTTAACAGTTCTCATAAATTGAGAATTCACTTGTGTTTGA
**
62734470 TGGTGGATAGAATTCCCTTTAACTTTTCTCATAAATTGAGAATTCACTTGTGTTTGA
1 TGGTGGATAGAATTCCC-TTAACAGTTCTCATAAATTGAGAATTCACTTGTGTTTGA
62734527 TG
1 TG
62734529 ATATGAAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 17 0.31
57 38 0.69
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (56 bp):
TGGTGGATAGAATTCCCTTAACAGTTCTCATAAATTGAGAATTCACTTGTGTTTGA
Found at i:62743502 original size:5 final size:5
Alignment explanation
Indices: 62743492--62743547 Score: 103
Period size: 5 Copynumber: 11.2 Consensus size: 5
62743482 CATTGCTTTC
*
62743492 TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTTG
1 TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG TCTAG
62743542 TCTAG T
1 TCTAG T
62743548 GTAGGTCTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (5 bp):
TCTAG
Found at i:62772923 original size:21 final size:21
Alignment explanation
Indices: 62772898--62772946 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
62772888 TGAGCTTTAG
*
62772898 TTAACTCGTATGAGTTTCAGA
1 TTAACCCGTATGAGTTTCAGA
* * *
62772919 TTAACCCTTCTGGGTTTCAGA
1 TTAACCCGTATGAGTTTCAGA
62772940 TTAACCC
1 TTAACCC
62772947 TTCTGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (21 bp):
TTAACCCGTATGAGTTTCAGA
Found at i:62772947 original size:21 final size:21
Alignment explanation
Indices: 62772911--62773020 Score: 98
Period size: 21 Copynumber: 5.2 Consensus size: 21
62772901 ACTCGTATGA
62772911 GTTTCAGATTAACCCTTCTGG
1 GTTTCAGATTAACCCTTCTGG
62772932 GTTTCAGATTAACCCTTCTGG
1 GTTTCAGATTAACCCTTCTGG
* * * *
62772953 GTTTCAG-TTCAGCTCTTTTGA
1 GTTTCAGATT-AACCCTTCTGG
* * * *
62772974 GCTTCAGTTTAGCTCTTCTGAG
1 GTTTCAGATTAACCCTTCTG-G
* *
62772996 CTTT-AGATTAACCCTTATGG
1 GTTTCAGATTAACCCTTCTGG
62773016 GTTTC
1 GTTTC
62773021 CATTCAGCTC
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
20 6 0.08
21 61 0.86
22 4 0.06
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (21 bp):
GTTTCAGATTAACCCTTCTGG
Found at i:62773056 original size:21 final size:21
Alignment explanation
Indices: 62773005--62773056 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
62772995 GCTTTAGATT
* *
62773005 AACCCTTATGGGTTTCCATTC
1 AACCCTTATGAGCTTCCATTC
* *
62773026 AGCTCC-TATGAGCTTCCGTTC
1 AAC-CCTTATGAGCTTCCATTC
62773047 AACCCTTATG
1 AACCCTTATG
62773057 GATTTTCGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (21 bp):
AACCCTTATGAGCTTCCATTC
Found at i:62789793 original size:20 final size:21
Alignment explanation
Indices: 62789770--62789812 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
62789760 AGAAAAAGAG
62789770 AAATACAAAAAG-AATAG-ATC
1 AAAT-CAAAAAGAAATAGAATC
*
62789790 AAATCAAAAGGAAATAGAATC
1 AAATCAAAAAGAAATAGAATC
62789811 AA
1 AA
62789813 CAATTTGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.14
Consensus pattern (21 bp):
AAATCAAAAAGAAATAGAATC
Found at i:62790500 original size:35 final size:34
Alignment explanation
Indices: 62790461--62790727 Score: 289
Period size: 35 Copynumber: 8.0 Consensus size: 34
62790451 TTGTCTTTTC
* *
62790461 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATT-TG
* * *
62790496 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
62790528 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* *
62790563 TTGTAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* * * *
62790598 TTGCAGTGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
* *
62790630 TTGTA-GGAATCTCTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* *
62790664 TTGCAGGGAATCTCT-CTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
* *
62790695 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
62790728 CTTTTGGACC
Statistics
Matches: 197, Mismatches: 25, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
31 33 0.17
32 40 0.20
33 13 0.07
34 24 0.12
35 87 0.44
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (34 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
Found at i:62790565 original size:67 final size:65
Alignment explanation
Indices: 62790456--62790717 Score: 287
Period size: 67 Copynumber: 3.9 Consensus size: 65
62790446 TTCACTTGTC
* * * * *
62790456 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACA
*
62790521 TCA
63 TTA
* * *
62790524 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGTAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTT--CA
62790588 CATTA
61 CATTA
* * * *
62790593 TTTTGTTGCAGTGAATCTTTCCTGTTCACATCATTTCTTGTA-GGAATCTCTCCTGTTCACGGAT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCAC--AT
62790657 TA
64 TA
*
62790659 TTTTGTTGCAGGGAATCTCT-CTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
62790718 TGTATTATTT
Statistics
Matches: 174, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
64 3 0.02
65 20 0.11
66 54 0.31
67 61 0.35
68 6 0.03
69 6 0.03
70 24 0.14
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (65 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACATTA
Found at i:62790659 original size:66 final size:67
Alignment explanation
Indices: 62790456--62790727 Score: 295
Period size: 66 Copynumber: 4.0 Consensus size: 67
62790446 TTCACTTGTC
* * * * *
62790456 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCAC-
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAC-CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACG
*
62790520 ATCA
64 ATTA
* * *
62790524 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGTAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAC-CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCAC-
*
62790588 CATTA
63 GATTA
* * * *
62790593 TTTTGTTGCAGTGAATCTTTCCTGTTCA-CATCATTTCTTGTA-GGAATCTCTCCTGTTCACGGA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCAC-GA
62790656 TTA
65 TTA
* *
62790659 TTTTGTTGCAGGGAATCTCT-CTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACG-A
62790722 TTA
65 TTA
62790725 TTT
1 TTT
62790728 CTTTTGGACC
Statistics
Matches: 182, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
65 21 0.12
66 64 0.35
67 64 0.35
68 6 0.03
69 3 0.02
70 24 0.13
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (67 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGAT
TA
Found at i:62793549 original size:21 final size:22
Alignment explanation
Indices: 62793519--62793563 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
62793509 GAGCAAATTG
62793519 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
62793541 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
62793562 TT
1 TT
62793564 CTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:62809483 original size:23 final size:24
Alignment explanation
Indices: 62809442--62809491 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
62809432 TGCTTAGGTT
* * *
62809442 TTTTTTTAATTTGATGTACTTGAG
1 TTTTTTTAAATTGAAGTACTTAAG
62809466 TTTTTTTAAATT-AAGTACTTAAG
1 TTTTTTTAAATTGAAGTACTTAAG
62809489 TTT
1 TTT
62809492 GACTTCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (24 bp):
TTTTTTTAAATTGAAGTACTTAAG
Found at i:62838803 original size:14 final size:14
Alignment explanation
Indices: 62838760--62838895 Score: 53
Period size: 14 Copynumber: 9.4 Consensus size: 14
62838750 AAATTAAAAA
*
62838760 ATATAAA-A-ATAA
1 ATATAAATATATAT
* * *
62838772 ATATAAGTATGTAC
1 ATATAAATATATAT
62838786 ATATAAATATATAT
1 ATATAAATATATAT
* * *
62838800 ATATATACTTATAAAA
1 ATATA-A-ATATATAT
* * *
62838816 ATTTAGAAAATATGT
1 ATATA-AATATATAT
**
62838831 ATATAGCTATGA-AT
1 ATATAAATAT-ATAT
*
62838845 ATATGAATATATAT
1 ATATAAATATATAT
62838859 ATATAAATTATAATAT
1 ATATAAA-TAT-ATAT
*
62838875 ATAAAAATAAGTATAT
1 ATATAAAT-A-TATAT
62838891 ATATA
1 ATATA
62838896 TGAATCAAAG
Statistics
Matches: 87, Mismatches: 27, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
12 6 0.07
13 2 0.02
14 36 0.41
15 13 0.15
16 29 0.33
17 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:62838874 original size:16 final size:15
Alignment explanation
Indices: 62838843--62838893 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
62838833 ATAGCTATGA
*
62838843 ATATATGAATAT-AT
1 ATATATAAATATAAT
62838857 ATATATAAATTATAAT
1 ATATATAAA-TATAAT
62838873 ATATA-AAA-ATAAGT
1 ATATATAAATATAA-T
62838887 ATATATA
1 ATATATA
62838894 TATGAATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 7 0.22
16 7 0.22
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (15 bp):
ATATATAAATATAAT
Found at i:62839110 original size:3 final size:3
Alignment explanation
Indices: 62839041--62839095 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
62839031 AAAATAAAAC
* * *
62839041 TAA TAA TAA TAAA TAG TAA TAA TAG TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62839087 TAA TAA TAA
1 TAA TAA TAA
62839096 ATGTAATGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:62839827 original size:18 final size:17
Alignment explanation
Indices: 62839803--62839847 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
62839793 TTGAATTTCG
*
62839803 AAATAAAAAATAAAAAA
1 AAATAAAAAAGAAAAAA
* *
62839820 ACAATAAAAACGAAACAA
1 A-AATAAAAAAGAAAAAA
62839838 AAATAAAAAA
1 AAATAAAAAA
62839848 AGTGACCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.82, C:0.07, G:0.02, T:0.09
Consensus pattern (17 bp):
AAATAAAAAAGAAAAAA
Found at i:62841599 original size:16 final size:16
Alignment explanation
Indices: 62841563--62841599 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
62841553 AAAACATCTT
*
62841563 AAAAATAAATGGTATA
1 AAAAATAAATAGTATA
*
62841579 TAAAATAAATAGTATA
1 AAAAATAAATAGTATA
62841595 AAAAA
1 AAAAA
62841600 ATTTGCAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (16 bp):
AAAAATAAATAGTATA
Found at i:62842207 original size:22 final size:21
Alignment explanation
Indices: 62842172--62842236 Score: 53
Period size: 22 Copynumber: 3.1 Consensus size: 21
62842162 AAAGGGTATC
* * *
62842172 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
62842193 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
62842216 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
62842235 TA
1 TA
62842237 TATATCCTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 9 0.25
21 3 0.08
22 15 0.42
23 9 0.25
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:62842417 original size:16 final size:16
Alignment explanation
Indices: 62842396--62842428 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62842386 AGCCTGGGCT
62842396 AAATTAGCCTATTACA
1 AAATTAGCCTATTACA
62842412 AAATTAGCCTATTACA
1 AAATTAGCCTATTACA
62842428 A
1 A
62842429 TTGGTGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATTAGCCTATTACA
Found at i:62842583 original size:13 final size:13
Alignment explanation
Indices: 62842565--62842591 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62842555 TTGTAATAAT
62842565 AAATTTGTTTAGC
1 AAATTTGTTTAGC
62842578 AAATTTGTTTAGC
1 AAATTTGTTTAGC
62842591 A
1 A
62842592 TAGATGATAG
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:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (13 bp):
AAATTTGTTTAGC
Found at i:62863686 original size:32 final size:32
Alignment explanation
Indices: 62863645--62863707 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
62863635 AACTGAAGTG
62863645 GTGTTTCTTAACAAGTTGAGCCTGTATGAGTA
1 GTGTTTCTTAACAAGTTGAGCCTGTATGAGTA
**
62863677 GTGTTTCTTAATGAGTTGAGCCTGTATGAGT
1 GTGTTTCTTAACAAGTTGAGCCTGTATGAGT
62863708 GACCCAGCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (32 bp):
GTGTTTCTTAACAAGTTGAGCCTGTATGAGTA
Found at i:62881525 original size:16 final size:16
Alignment explanation
Indices: 62881504--62881536 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62881494 ATTCGTTGAG
62881504 ATTATCTTCATATTGT
1 ATTATCTTCATATTGT
62881520 ATTATCTTCATATTGT
1 ATTATCTTCATATTGT
62881536 A
1 A
62881537 CTCTTTCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTATCTTCATATTGT
Found at i:62883193 original size:20 final size:21
Alignment explanation
Indices: 62883154--62883195 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
62883144 AGACTAAATC
* *
62883154 GAAAACATTTGAAAAGTTTAG
1 GAAAAAATTTGAAAAATTTAG
62883175 GAAAAAATTT-AAAAATTTAG
1 GAAAAAATTTGAAAAATTTAG
62883195 G
1 G
62883196 CTGCAGGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (21 bp):
GAAAAAATTTGAAAAATTTAG
Found at i:62883626 original size:13 final size:13
Alignment explanation
Indices: 62883608--62883632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62883598 TCATATAGGC
62883608 ACATTAAACATAT
1 ACATTAAACATAT
62883621 ACATTAAACATA
1 ACATTAAACATA
62883633 CCTAAACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATTAAACATAT
Found at i:62888724 original size:42 final size:42
Alignment explanation
Indices: 62888672--62888825 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
62888662 TTAACTTATA
* *
62888672 TGAGTTTCAGTTTAACCATAATGGGTTTCCGTTCAGCT-TTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTTCCGTTCAGCTCTTT
62888713 TAGAGCTTCAGTTTAACCCTAATGGGTTTCCGTTCAGCTCTTT
1 T-GAGCTTCAGTTTAACCCTAATGGGTTTCCGTTCAGCTCTTT
* * ** *
62888756 TGAGCTTCAATTTAACCCTTATGGGTTTTTGTTCAGCTCTTA
1 TGAGCTTCAGTTTAACCCTAATGGGTTTCCGTTCAGCTCTTT
* ** * *
62888798 CGAGCTTTTGTTCAACCCTTATGGGTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTT
62888826 TTGTTTAACA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 94 0.95
43 4 0.04
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTAATGGGTTTCCGTTCAGCTCTTT
Found at i:62888827 original size:21 final size:21
Alignment explanation
Indices: 62888769--62888841 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
62888759 GCTTCAATTT
62888769 AACCCTTATGGGTTTTTGTTC
1 AACCCTTATGGGTTTTTGTTC
* * * * *
62888790 AGCTCTTACGAGCTTTTGTTC
1 AACCCTTATGGGTTTTTGTTC
*
62888811 AACCCTTATGGGTTTTTGTTT
1 AACCCTTATGGGTTTTTGTTC
*
62888832 AACACTTATG
1 AACCCTTATG
62888842 TGCTTCTGTG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (21 bp):
AACCCTTATGGGTTTTTGTTC
Found at i:62893286 original size:41 final size:43
Alignment explanation
Indices: 62893185--62893341 Score: 153
Period size: 41 Copynumber: 3.7 Consensus size: 43
62893175 ATATCGAAAA
* * **
62893185 ATGCCAATGTCCCAGAC-GTGGTCTTACATGCTATCTCATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGCAATCAAATATCG
*
62893228 ATGCCACTGTCCCAGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGCAATCAAATATCG
* * *
62893269 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACATATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGCAATCA-A-ATATCG
*
62893314 ATGCC-ATCGTCCCAGGC-GTGGTCTTACA
1 ATGCCAAT-GTCCCAGACAG-GGTCTTACA
62893342 TGAGAACACA
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 29 0.30
42 11 0.11
43 27 0.28
44 6 0.06
45 23 0.24
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGCAATCAAATATCG
Found at i:62893340 original size:86 final size:84
Alignment explanation
Indices: 62893185--62893341 Score: 203
Period size: 84 Copynumber: 1.8 Consensus size: 84
62893175 ATATCGAAAA
* * *
62893185 ATGCCAATGTCCCAGACGTGGTCTTACATGCTATCTCATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGCTATCACATATCGATGCCACTGTCCCAGACAGGGT
62893250 CTTACACGAATCAAATACG
66 CTTACACGAATCAAATACG
* *
62893269 ATGCCAATGTCCTAGACATGGTCTTACACG-TAATCACATATATCGATGCCA-TCGTCCCAGGC-
1 ATGCCAATGTCCCAGACATGGTCTTACACGCT-ATCAC--ATATCGATGCCACT-GTCCCAGACA
62893331 GTGGTCTTACA
62 G-GGTCTTACA
62893342 TGAGAACACA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
83 1 0.02
84 31 0.49
85 2 0.03
86 29 0.46
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (84 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGCTATCACATATCGATGCCACTGTCCCAGACAGGGT
CTTACACGAATCAAATACG
Found at i:62902593 original size:46 final size:46
Alignment explanation
Indices: 62902519--62902657 Score: 190
Period size: 46 Copynumber: 3.0 Consensus size: 46
62902509 CATGGAAAAG
* *
62902519 TGTGGAACGTAGGCATGGTAATTT-AGTAAAGAAAACCATACTGAGT
1 TGTGAAACGTAGGTATGGT-ATTTCAGTAAAGAAAACCATACTGAGT
* *
62902565 TGTGAAACGTAGGTATGGTATTTCAGTAACGAAAACTATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* * * *
62902611 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAATCATATTGAGT
1 TGTGAAACGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
62902657 T
1 T
62902658 ATAGCATTGT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 4 0.05
46 78 0.95
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (46 bp):
TGTGAAACGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
Found at i:62902868 original size:13 final size:14
Alignment explanation
Indices: 62902845--62902873 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
62902835 TGGCAGGAAA
62902845 TGTTGTATTATAAT
1 TGTTGTATTATAAT
62902859 TGTT-TATTATAAT
1 TGTTGTATTATAAT
62902872 TG
1 TG
62902874 ATAGTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TGTTGTATTATAAT
Found at i:62919749 original size:17 final size:16
Alignment explanation
Indices: 62919719--62919762 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
62919709 GCATTTAATT
62919719 AATTTTTTAAAATTTA
1 AATTTTTTAAAATTTA
62919735 AATTTTTTAATAATTTA
1 AATTTTTTAA-AATTTA
62919752 AA-TTTTTAAAA
1 AATTTTTTAAAA
62919763 GTAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.07
16 17 0.63
17 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTTTTAAAATTTA
Found at i:62921801 original size:58 final size:58
Alignment explanation
Indices: 62921699--62921816 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 58
62921689 AAGGGACTCA
* * * **
62921699 AATAATGAAGATATGCCTCACCTCTATTGACAGCACAACGGGTTCAAAGAGGGGCCCG
1 AATAATAAAGATATGCCTCACCTCCATCGACAGCACAAAAGGTTCAAAGAGGGGCCCG
* * * ** *
62921757 AATAATAAAGATATGTCTCACCTCCATCGAGAGCCCAAAAGGTTCATGGATGGGCCCG
1 AATAATAAAGATATGCCTCACCTCCATCGACAGCACAAAAGGTTCAAAGAGGGGCCCG
62921815 AA
1 AA
62921817 ATGAAGATAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (58 bp):
AATAATAAAGATATGCCTCACCTCCATCGACAGCACAAAAGGTTCAAAGAGGGGCCCG
Found at i:62922213 original size:100 final size:97
Alignment explanation
Indices: 62921913--62922213 Score: 248
Period size: 100 Copynumber: 3.0 Consensus size: 97
62921903 GAAGGAGGCA
* * * * * ** *
62921913 TATGGAATATGGTAATAATGACCCTACTCCCAAATGCA-CAAGGAAGGCTTATAGAAGGTGGTAA
1 TATGGAAT-TTGTAATAATGATCATGCTCCCAAACGCATGGAGGGAGGCTTATAGAAGGTGGTAA
* * *
62921977 TAATGATTTTGCTCCTAAACGCATGGGAGAAGACT
65 TAATGACTCTACTCCTAAACGCATGGG-GAAG-CT
* * * * * * * *
62922012 TACGGAAGATTGTAATAGATG-TCATGCTCCCAAACGCATGGGGGGATGCTCACAAAAAGTGGTA
1 TATGGAA-TTTGTAATA-ATGATCATGCTCCCAAACGCATGGAGGGAGGCTTATAGAAGGTGGTA
* * * *
62922076 ATAATG-GTCTTACTCCTAGACACATGGGAGGAGGCT
64 ATAATGACTC-TACTCCTAAACGCAT-GG-GGAAGCT
* *
62922112 TATGGAATTTAGTAATAATGATCTTGCTCCCAAACGCATGGAGGGAGGCTTATAGAAGGTAGTAA
1 TATGGAATTT-GTAATAATGATCATGCTCCCAAACGCATGGAGGGAGGCTTATAGAAGGTGGTAA
*
62922177 TAAAGACTCTACTCCTAAACGCATGGTCGGAAGCT
65 TAATGACTCTACTCCTAAACGCATGG--GGAAGCT
62922212 TA
1 TA
62922214 CAGAAGGTGG
Statistics
Matches: 154, Mismatches: 38, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
99 34 0.22
100 112 0.73
101 7 0.05
102 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (97 bp):
TATGGAATTTGTAATAATGATCATGCTCCCAAACGCATGGAGGGAGGCTTATAGAAGGTGGTAAT
AATGACTCTACTCCTAAACGCATGGGGAAGCT
Found at i:62922240 original size:100 final size:98
Alignment explanation
Indices: 62921957--62922241 Score: 250
Period size: 100 Copynumber: 2.8 Consensus size: 98
62921947 TGCACAAGGA
* * *
62921957 AGGCTTATAGAAGGTGGTAATAATGATTTTGCTCCTAAACGCATGGGAGAAGACTTACGGAAGAT
1 AGGCTTATAGAAGGTGGTAATAATGACTCTACTCCTAAACGCATGGG-GAAG-CTTACGGAAGAT
* *
62922022 TGTAATAGAT-GTCATGCTCCCAAACGCATGGGGGG
64 AGTAATA-ATGGTCATGCTCCCAAACGCATGGAGGG
* * * * * * * * * * **
62922057 ATGCTCACAAAAAGTGGTAATAATG-GTCTTACTCCTAGACACATGGGAGGAGGCTTATGGAATT
1 AGGCTTATAGAAGGTGGTAATAATGACTC-TACTCCTAAACGCAT-GG-GGAAGCTTACGGAAGA
* *
62922121 TAGTAATAATGATCTTGCTCCCAAACGCATGGAGGG
63 TAGTAATAATGGTCATGCTCCCAAACGCATGGAGGG
* * * *
62922157 AGGCTTATAGAAGGTAGTAATAAAGACTCTACTCCTAAACGCATGGTCGGAAGCTTACAGAAGGT
1 AGGCTTATAGAAGGTGGTAATAATGACTCTACTCCTAAACGCATGG--GGAAGCTTACGGAAGAT
* * *
62922222 GGTAACAATGGTCCTGCTCC
64 AGTAATAATGGTCATGCTCC
62922242 TAGACATATA
Statistics
Matches: 141, Mismatches: 38, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
99 5 0.04
100 128 0.91
101 7 0.05
102 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
AGGCTTATAGAAGGTGGTAATAATGACTCTACTCCTAAACGCATGGGGAAGCTTACGGAAGATAG
TAATAATGGTCATGCTCCCAAACGCATGGAGGG
Found at i:62922242 original size:50 final size:50
Alignment explanation
Indices: 62921954--62922243 Score: 199
Period size: 50 Copynumber: 5.8 Consensus size: 50
62921944 AAATGCACAA
* * *
62921954 GGAAGGCTTATAGAAGGTGGTAATAATGATTTTGCTCCTAAACGCAT-GGG
1 GGAA-GCTTACAGAAGGTGGTAATAATGGTCTTGCTCCTAAACGCATGGGG
* * * * * *
62922004 AGAAGACTTACGGAAGATTGTAATAGAT-GTCATGCTCCCAAACGCATGGGG
1 GGAAG-CTTACAGAAGGTGGTAATA-ATGGTCTTGCTCCTAAACGCATGGGG
* * * * * * * *
62922055 GGATGCTCACAAAAAGTGGTAATAATGGTCTTACTCCTAGACACATGGGA
1 GGAAGCTTACAGAAGGTGGTAATAATGGTCTTGCTCCTAAACGCATGGGG
* ** ** * * * *
62922105 GGAGGCTTATGGAATTTAGTAATAATGATCTTGCTCCCAAACGCATGGAG
1 GGAAGCTTACAGAAGGTGGTAATAATGGTCTTGCTCCTAAACGCATGGGG
* * * * * * **
62922155 GGAGGCTTATAGAAGGTAGTAATAA-AGACTCTACTCCTAAACGCATGGTC
1 GGAAGCTTACAGAAGGTGGTAATAATGGTCT-TGCTCCTAAACGCATGGGG
* *
62922205 GGAAGCTTACAGAAGGTGGTAACAATGGTCCTGCTCCTA
1 GGAAGCTTACAGAAGGTGGTAATAATGGTCTTGCTCCTA
62922244 GACATATAAG
Statistics
Matches: 178, Mismatches: 56, Indels: 12
0.72 0.23 0.05
Matches are distributed among these distances:
49 5 0.03
50 163 0.92
51 10 0.06
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (50 bp):
GGAAGCTTACAGAAGGTGGTAATAATGGTCTTGCTCCTAAACGCATGGGG
Found at i:62922314 original size:50 final size:50
Alignment explanation
Indices: 62922207--62922350 Score: 141
Period size: 50 Copynumber: 2.9 Consensus size: 50
62922197 GCATGGTCGG
* * * * * * * *
62922207 AAGCTTACAGAAGGTGGTAACAATGGTCCTGCTCCTAGACATATAAGGGA
1 AAGCTTATAGAAAGTGGTAATAATAGCCCTGCTCCAAGACACATAAGAGA
62922257 AAGCTTATAGAATA-TGGTAATAA-AGGCCCTGCTCCAAGACACATAAAGAGA
1 AAGCTTATAGAA-AGTGGTAATAATA-GCCCTGCTCCAAGACACAT-AAGAGA
* * *
62922308 AA-CTTATCGAAAGTGGTAATAATAGCCCTACTCCCAGACACAT
1 AAGCTTATAGAAAGTGGTAATAATAGCCCTGCTCCAAGACACAT
62922351 GGGGGAGCCT
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
49 1 0.01
50 69 0.88
51 8 0.10
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (50 bp):
AAGCTTATAGAAAGTGGTAATAATAGCCCTGCTCCAAGACACATAAGAGA
Found at i:62923701 original size:22 final size:22
Alignment explanation
Indices: 62923673--62923749 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
62923663 TTTCTTTTAA
62923673 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
* * ** ****
62923695 TTAGGAGATAATATTTTGGTTTT
1 TTAGGAGATTAGATGCT-AAAGT
62923718 ATTAGGAGATTAGATGCTAAAGT
1 -TTAGGAGATTAGATGCTAAAGT
62923741 TTAGGAGAT
1 TTAGGAGAT
62923750 AATATTTTGG
Statistics
Matches: 37, Mismatches: 16, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
22 22 0.59
23 2 0.05
24 13 0.35
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.38
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:62923722 original size:46 final size:47
Alignment explanation
Indices: 62923667--62923762 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 47
62923657 ATCTATTTTC
62923667 TTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
62923714 TTTT-ATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
62923760 TTT
1 TTT
62923763 CTATCTTTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 45 0.92
47 4 0.08
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (47 bp):
TTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:62931539 original size:124 final size:123
Alignment explanation
Indices: 62931342--62931568 Score: 303
Period size: 124 Copynumber: 1.8 Consensus size: 123
62931332 ATACTATTTA
* * **
62931342 AGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCAATTTTGCTACAGTGGTCATGTAAGAAATAA
1 AGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCAATTTCACTACAGTGGTCATGTAAGAAATAA
**** *
62931407 TTTTTTTTGACGTTTTTTGAGCAAATAGTATAAAATCGCTGATACCGGGATGCTATATG
66 AAAATTTTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCGGGATGCTATATG
* * *
62931466 AGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCACTACAGTTGGTCATGTAGGAAA-A
1 AGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCAATTTCACTACAG-TGGTCATGTAAGAAATA
* *
62931530 AAAAATTTTGACGTTTCTGAGCAAATAGTGTCAAATCGC
65 AAAAATTTTGACGTTTCTGAGCAAATAGTATAAAATCGC
62931569 GCCCTCGTAG
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
123 23 0.26
124 51 0.58
125 14 0.16
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (123 bp):
AGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCAATTTCACTACAGTGGTCATGTAAGAAATAA
AAAATTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCGGGATGCTATATG
Found at i:62934867 original size:29 final size:28
Alignment explanation
Indices: 62934786--62935918 Score: 526
Period size: 23 Copynumber: 44.8 Consensus size: 28
62934776 GGTTTTTACA
62934786 TTAATTAAATTAGGTTAGGGTTAGGGATTT
1 TTAATTAAATTAGGTTAGGGTTA-GG-TTT
** * ** * *
62934816 CAAATAAAATGATAAATCAGGGTAAGAGTTT
1 TTAATTAAAT--TAGGTTAGGGTTAG-GTTT
*
62934847 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
* *
62934876 TTAATTAAAATAGGTTAGGGTTAGGGTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62934904 TTCATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTA-GGTTT
*
62934934 TTAATTAAATTAGGTTA-GGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
*
62934962 TCAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
** *
62934991 TTAATTAAATTAAATTA-GCTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
* *
62935019 TTAATTAAGTTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935042 TTAATTAAATTAGGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935065 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
62935094 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
*
62935117 TTAATTAAATTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62935140 TTAATTTAATTAAGTTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
* *
62935168 TTAATTAAGTTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935191 TTAATTAAATTAGGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935214 TTAATTAAATTAGGTTAGGGTTAGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
*
62935241 TTAATT--A--A-G-TAGGGTTAGGGTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62935263 TTAATTTAATTAAGTTA-GGTTAGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62935289 TT--TT-AATTAAGTTA-TGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
62935314 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
*
62935343 TT-A-T---TTAAG-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
* * *
62935366 TTAATTAAGTTATGTT--CG---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62935389 TGAA-TATAATTAAGTTA-GGTTAGGTTTT
1 TTAATTA-AATTAGGTTAGGGTTAGG-TTT
* *
62935417 TTAATTAAGTTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935440 TTAATTAAATTAGGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935463 TTAATTAAATTAGGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935486 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
* *
62935509 TTAATTAAGTTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62935532 TTAATTTAATTAAGTTA-GGTTAGGTTTT
1 TTAATTAAATTAGGTTAGGGTTAGG-TTT
* *
62935560 TTAATTAAGTTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935583 TTAATTAAATTAGGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935606 TTAATTAAATTAGGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935629 TTAATT--A--A-G-TAGGGTTAGAGTTT
1 TTAATTAAATTAGGTTAGGGTTAG-GTTT
* *
62935652 TTAATTAAGTTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62935675 TTAATTTAATTAAGTTA-GGTTAGGTTTT
1 TTAATTAAATTAGGTTAGGGTTAGG-TTT
62935703 TTAATT-AA--A--TTA-GGTTAGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935725 TTAATTAAATTAGGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62935748 TTAATTAAGTTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
* *
62935771 TTAATTTAATTAAGTTA-GGTTAGGTTTT
1 TTAATTAAATTAGGTTAGGGTTAGG-TTT
* *
62935799 TTAATTAAGTTATGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935822 TTAATTAAATTAGGTTA--G---GGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGTTT
62935845 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
62935874 TTAATT--A--A-G-TAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTA-GGTTT
62935897 TTAATTAAATTAGGTTAGGGTT
1 TTAATTAAATTAGGTTAGGGTT
62935919 TTTAATCAAA
Statistics
Matches: 913, Mismatches: 79, Indels: 223
0.75 0.07 0.18
Matches are distributed among these distances:
17 4 0.00
18 2 0.00
19 4 0.00
21 12 0.01
22 21 0.02
23 449 0.49
24 24 0.03
25 15 0.02
26 6 0.01
27 46 0.05
28 156 0.17
29 137 0.15
30 16 0.02
31 11 0.01
32 10 0.01
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (28 bp):
TTAATTAAATTAGGTTAGGGTTAGGTTT
Done.