Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 99 of 297
Found at i:35697030 original size:30 final size:31
Alignment explanation
Indices: 35696996--35697077 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
35696986 TTTGAAAAGC
*
35696996 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
35697026 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
35697056 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
35697078 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:35698974 original size:30 final size:30
Alignment explanation
Indices: 35698940--35699036 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
35698930 AGCTCACTCC
35698940 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
35698970 TAGCTCAACTTCAGCTTAAGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
35699000 CAGCTCAACTTTAGCTCACGTGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
35699030 TAGCTCA
1 TAGCTCA
35699037 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:35702308 original size:57 final size:59
Alignment explanation
Indices: 35702218--35702419 Score: 180
Period size: 61 Copynumber: 3.4 Consensus size: 59
35702208 TGTATCGATT
* * * *
35702218 GGATTTAGCCCGGACGGGTAATCCAGA-TCAAGCTCT-TT-AGAGAATATGTCA-T-AAAAA
1 GGATTTAGCCTGGACTGGTAATCCTGACT-AAGCTCTATTGAGA-AATATAT-ATTGAAAAA
* *
35702275 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTAAATATATATTGGAGAGA
1 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAG-AAATATATATT-GAAAAA
* * * * * *
35702336 GGATTTAACCTAGACTAGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGATA
1 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAG-AAATATATATT-GAAAAA
* *
35702397 GGTTTTAGCCTGGATTGGTAATC
1 GGATTTAGCCTGGACTGGTAATC
35702420 ATGTTGTATA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
57 31 0.25
58 4 0.03
59 9 0.07
60 1 0.01
61 77 0.63
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (59 bp):
GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGAAATATATATTGAAAAA
Found at i:35702418 original size:61 final size:61
Alignment explanation
Indices: 35702274--35702419 Score: 229
Period size: 61 Copynumber: 2.4 Consensus size: 61
35702264 TGTCATAAAA
*
35702274 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTAAATATATATTGGAGAG
1 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
* * * *
35702335 AGGATTTAACCTAGACTAGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAT
1 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
* *
35702396 AGGTTTTAGCCTGGATTGGTAATC
1 AGGATTTAGCCTGGACTGGTAATC
35702420 ATGTTGTATA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 75 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (61 bp):
AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
Found at i:35702648 original size:16 final size:15
Alignment explanation
Indices: 35702627--35702672 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
35702617 TCTGTCTAAA
35702627 ATACATGAAAATGATG
1 ATACATGAAAAT-ATG
*
35702643 ATACATGATAAT-TG
1 ATACATGAAAATATG
*
35702657 ATATATGAAAATATG
1 ATACATGAAAATATG
35702672 A
1 A
35702673 AATGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (15 bp):
ATACATGAAAATATG
Found at i:35707658 original size:69 final size:69
Alignment explanation
Indices: 35707529--35707663 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
35707519 TCAATGACAC
* * * *
35707529 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCGACCTCTTTCACAATGAA
1 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
35707594 GCAG
66 GCAG
* *
35707598 TGAGAAAAGCATGACACACCAATGAGGCATCGATGGAAATTGATGTTAACCACTTCCACAACGAA
1 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
35707663 G
66 G
35707664 TAGTTGTGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (69 bp):
TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
GCAG
Found at i:35709054 original size:57 final size:59
Alignment explanation
Indices: 35708964--35709165 Score: 180
Period size: 61 Copynumber: 3.4 Consensus size: 59
35708954 TGTATCGATT
* * * *
35708964 GGATTTAGCCCGGACGGGTAATCCAGA-TCAAGCTCT-TT-AGAGAATATGTCA-T-AAAAA
1 GGATTTAGCCTGGACTGGTAATCCTGACT-AAGCTCTATTGAGA-AATATAT-ATTGAAAAA
* *
35709021 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTAAATATATATTGGAGAGA
1 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAG-AAATATATATT-GAAAAA
* * * * * *
35709082 GGATTTAACCTAGACTAGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGATA
1 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAG-AAATATATATT-GAAAAA
* *
35709143 GGTTTTAGCCTGGATTGGTAATC
1 GGATTTAGCCTGGACTGGTAATC
35709166 ATGTTGTATA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
57 31 0.25
58 4 0.03
59 9 0.07
60 1 0.01
61 77 0.63
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (59 bp):
GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGAAATATATATTGAAAAA
Found at i:35709164 original size:61 final size:61
Alignment explanation
Indices: 35709020--35709165 Score: 229
Period size: 61 Copynumber: 2.4 Consensus size: 61
35709010 TGTCATAAAA
*
35709020 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTAAATATATATTGGAGAG
1 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
* * * *
35709081 AGGATTTAACCTAGACTAGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAT
1 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
* *
35709142 AGGTTTTAGCCTGGATTGGTAATC
1 AGGATTTAGCCTGGACTGGTAATC
35709166 ATGTTGTATA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 75 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (61 bp):
AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
Found at i:35709394 original size:16 final size:15
Alignment explanation
Indices: 35709373--35709418 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
35709363 TCTGTCTAAA
35709373 ATACATGAAAATGATG
1 ATACATGAAAAT-ATG
*
35709389 ATACATGATAAT-TG
1 ATACATGAAAATATG
*
35709403 ATATATGAAAATATG
1 ATACATGAAAATATG
35709418 A
1 A
35709419 AATGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (15 bp):
ATACATGAAAATATG
Found at i:35714404 original size:69 final size:69
Alignment explanation
Indices: 35714275--35714409 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
35714265 TCAATGACAC
* * * *
35714275 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCGACCTCTTTCACAATGAA
1 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
35714340 GCAA
66 GCAA
* *
35714344 TGAGAAAAGCATGACACACCAATGAGGCATCGATGGAAATTGATGTTAACCACTTCCACAACGAA
1 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
35714409 G
66 G
35714410 TAGTTGTGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (69 bp):
TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
GCAA
Found at i:35718382 original size:29 final size:29
Alignment explanation
Indices: 35718342--35718400 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
35718332 TTGTGGAAGA
* *
35718342 GGTGGAGAACTTGTTCGTTGAGAGTTCGT
1 GGTGGAGAACTTGTTCCTTGAGAATTCGT
* *
35718371 GGTGTAGAACTTGTTCCTTGTGAATTCGT
1 GGTGGAGAACTTGTTCCTTGAGAATTCGT
35718400 G
1 G
35718401 TCAAGGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.17, C:0.12, G:0.34, T:0.37
Consensus pattern (29 bp):
GGTGGAGAACTTGTTCCTTGAGAATTCGT
Found at i:35718518 original size:24 final size:24
Alignment explanation
Indices: 35718491--35718542 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
35718481 TTTCTAGAAG
* * *
35718491 ATTTAGCATTTATTAGTATAATAT
1 ATTTAACAATTATTAGCATAATAT
35718515 ATTTAACAATTATTAGCATAATAT
1 ATTTAACAATTATTAGCATAATAT
35718539 ATTT
1 ATTT
35718543 GACATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (24 bp):
ATTTAACAATTATTAGCATAATAT
Found at i:35718553 original size:24 final size:23
Alignment explanation
Indices: 35718491--35718554 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
35718481 TTTCTAGAAG
* *
35718491 ATTTAGCATTTATTAGTATAATAT
1 ATTTAACA-TTATTAGCATAATAT
35718515 ATTTAACAATTATTAGCATAATAT
1 ATTTAAC-ATTATTAGCATAATAT
*
35718539 ATTTGACATTAATTAG
1 ATTTAACATT-ATTAG
35718555 AATTATGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.09
24 31 0.89
25 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (23 bp):
ATTTAACATTATTAGCATAATAT
Found at i:35719319 original size:13 final size:13
Alignment explanation
Indices: 35719301--35719334 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
35719291 GGTCACACGT
35719301 CCATGTCCCGTGG
1 CCATGTCCCGTGG
35719314 CCATGTCCCGTGG
1 CCATGTCCCGTGG
35719327 CCATGTCC
1 CCATGTCC
35719335 TTCACACGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.41, G:0.26, T:0.24
Consensus pattern (13 bp):
CCATGTCCCGTGG
Found at i:35725644 original size:258 final size:258
Alignment explanation
Indices: 35725135--35725649 Score: 978
Period size: 258 Copynumber: 2.0 Consensus size: 258
35725125 ATGTTTATTT
35725135 TAAAGTTATTTGTAAGATAATTATTTTTATAAGTATTATAAAACATAAAATGGAAAGCCATGCAT
1 TAAAGTTATTTGTAAGATAATTATTTTTATAAGTATTATAAAACATAAAATGGAAAGCCATGCAT
35725200 GTTTGTATGTTGAGGGCCGAATTGAAGTTGTTTTTGTAAGTTGGAGTATTTGTGATGATATTTAA
66 GTTTGTATGTTGAGGGCCGAATTGAAGTTGTTTTTGTAAGTTGGAGTATTTGTGATGATATTTAA
35725265 CATTAGACAATTGATATGAACAGTATGAGACATAAAAAAAATAAAGCTATGTTATTTTTTTCAAA
131 CATTAGACAATTGATATGAACAGTATGAGACATAAAAAAAATAAAGCTATGTTATTTTTTTCAAA
35725330 GGTTAAACTAGTAAATTATTATTAAGAGAAGTTTTAATAAAACAAAGCATAAAAAAAAAAGAG
196 GGTTAAACTAGTAAATTATTATTAAGAGAAGTTTTAATAAAACAAAGCATAAAAAAAAAAGAG
*
35725393 TAAAGTTATTTGTGAGATAATTATTTTTATAAGTATTATAAAACATAAAATGGAAAGCCATGCAT
1 TAAAGTTATTTGTAAGATAATTATTTTTATAAGTATTATAAAACATAAAATGGAAAGCCATGCAT
35725458 GTTTGTATGTTGAGGGCCGAATTGAAGTTGTTTTTGTAAGTTGGAGTATTTGTGATGATATTTAA
66 GTTTGTATGTTGAGGGCCGAATTGAAGTTGTTTTTGTAAGTTGGAGTATTTGTGATGATATTTAA
* * * *
35725523 CCTTAGACAATTGATATGGACGGTATGGGACAT-AAAAAAATAAAGCTATGTTATTTTTTTCAAA
131 CATTAGACAATTGATATGAACAGTATGAGACATAAAAAAAATAAAGCTATGTTATTTTTTTCAAA
35725587 GGTTAAACTAGTAAATTATTATTAAGAGAAGTTTTAATAAAACAAAGCATAAAAAAAAAAGAG
196 GGTTAAACTAGTAAATTATTATTAAGAGAAGTTTTAATAAAACAAAGCATAAAAAAAAAAGAG
35725650 AACATGCATG
Statistics
Matches: 252, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
257 94 0.37
258 158 0.63
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (258 bp):
TAAAGTTATTTGTAAGATAATTATTTTTATAAGTATTATAAAACATAAAATGGAAAGCCATGCAT
GTTTGTATGTTGAGGGCCGAATTGAAGTTGTTTTTGTAAGTTGGAGTATTTGTGATGATATTTAA
CATTAGACAATTGATATGAACAGTATGAGACATAAAAAAAATAAAGCTATGTTATTTTTTTCAAA
GGTTAAACTAGTAAATTATTATTAAGAGAAGTTTTAATAAAACAAAGCATAAAAAAAAAAGAG
Found at i:35726131 original size:278 final size:278
Alignment explanation
Indices: 35725634--35726189 Score: 1085
Period size: 278 Copynumber: 2.0 Consensus size: 278
35725624 TAAAACAAAG
* * *
35725634 CATAAAAAAAAAAGAGAACATGCATGTAGTTCATCTTGGAGGCCGAACAAAGGAGAAAGAAAATA
1 CATAAAAAAAAAAGAGAACATGCATGTAGTTCATCTTAGAAGCCGAACAAAAGAGAAAGAAAATA
35725699 AAATTTGTGGCTTTGAAGTTTCGGCCATTTGAAAGCAAAAATTCAAGGTAAAATTCATGTTGTTT
66 AAATTTGTGGCTTTGAAGTTTCGGCCATTTGAAAGCAAAAATTCAAGGTAAAATTCATGTTGTTT
35725764 TTGTTAATTTTTAGTATCATTAAATTCCTTGCTTAATTTTCTCTAAAACCCATTAGTTAATTTTT
131 TTGTTAATTTTTAGTATCATTAAATTCCTTGCTTAATTTTCTCTAAAACCCATTAGTTAATTTTT
35725829 GTTTTGGTGAATAATTGATGTTCGGCCATGAGTTGATAAGCTAAGAAATTTGAGTTTGATGTTAG
196 GTTTTGGTGAATAATTGATGTTCGGCCATGAGTTGATAAGCTAAGAAATTTGAGTTTGATGTTAG
35725894 AAATTAGAAATCAAGTGT
261 AAATTAGAAATCAAGTGT
35725912 CATAAAAAAAAAAGAGAACATGCATGTAGTTCATCTTAGAAGCCGAACAAAAGAGAAAGAAAATA
1 CATAAAAAAAAAAGAGAACATGCATGTAGTTCATCTTAGAAGCCGAACAAAAGAGAAAGAAAATA
35725977 AAATTTGTGGCTTTGAAGTTTCGGCCATTTGAAAGCAAAAATTCAAGGTAAAATTCATGTTGTTT
66 AAATTTGTGGCTTTGAAGTTTCGGCCATTTGAAAGCAAAAATTCAAGGTAAAATTCATGTTGTTT
35726042 TTGTTAATTTTTAGTATCATTAAATTCCTTGCTTAATTTTCTCTAAAACCCATTAGTTAATTTTT
131 TTGTTAATTTTTAGTATCATTAAATTCCTTGCTTAATTTTCTCTAAAACCCATTAGTTAATTTTT
35726107 GTTTTGGTGAATAATTGATGTTCGGCCATGAGTTGATAAGCTAAGAAATTTGAGTTTGATGTTAG
196 GTTTTGGTGAATAATTGATGTTCGGCCATGAGTTGATAAGCTAAGAAATTTGAGTTTGATGTTAG
35726172 AAATTAGAAATCAAGTGT
261 AAATTAGAAATCAAGTGT
35726190 TAGATGAATA
Statistics
Matches: 275, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 275 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (278 bp):
CATAAAAAAAAAAGAGAACATGCATGTAGTTCATCTTAGAAGCCGAACAAAAGAGAAAGAAAATA
AAATTTGTGGCTTTGAAGTTTCGGCCATTTGAAAGCAAAAATTCAAGGTAAAATTCATGTTGTTT
TTGTTAATTTTTAGTATCATTAAATTCCTTGCTTAATTTTCTCTAAAACCCATTAGTTAATTTTT
GTTTTGGTGAATAATTGATGTTCGGCCATGAGTTGATAAGCTAAGAAATTTGAGTTTGATGTTAG
AAATTAGAAATCAAGTGT
Found at i:35726836 original size:32 final size:32
Alignment explanation
Indices: 35726775--35726865 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 32
35726765 ACTAAGTGTG
**
35726775 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
35726807 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
35726839 TATCTAGGTGTAGTTTGATATAGCCGA
1 TATATATGTGTAGTTGGATAAAGCCGA
35726866 TTGAGATGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 43 0.90
33 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:35727035 original size:27 final size:26
Alignment explanation
Indices: 35727004--35727149 Score: 80
Period size: 27 Copynumber: 5.5 Consensus size: 26
35726994 TTTGAGGGAT
35727004 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGAT-CTGA
* * * * *
35727031 GCACTAAGTGTACGAGTTGGATTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * *
35727057 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
* * * * * *
35727084 CCACTAAGTGTGCGAGTTGGGTTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * *
35727110 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
35727137 GCACTAAGTGTGC
1 GCACTAAGTGTGC
35727150 AAAATCAGTT
Statistics
Matches: 83, Mismatches: 31, Indels: 10
0.67 0.25 0.08
Matches are distributed among these distances:
26 33 0.40
27 50 0.60
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTTGATCTGA
Found at i:35727067 original size:26 final size:26
Alignment explanation
Indices: 35727004--35727121 Score: 85
Period size: 27 Copynumber: 4.5 Consensus size: 26
35726994 TTTGAGGGAT
* * * *
35727004 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAGTTGGAT-TTAA
*
35727031 GCACTAAGTGTACGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
* * * * *
35727057 GCACTATGTGTGTGAATT-AATTTCTGA
1 GCACTAAGTGTGCGAGTTGGA-TT-TAA
* *
35727084 CCACTAAGTGTGCGAGTTGGGTTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
*
35727110 GCACTATGTGTG
1 GCACTAAGTGTG
35727122 TGAATTAATT
Statistics
Matches: 68, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
25 1 0.01
26 30 0.44
27 37 0.54
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGTTGGATTTAA
Found at i:35727148 original size:53 final size:53
Alignment explanation
Indices: 35727027--35727149 Score: 219
Period size: 53 Copynumber: 2.3 Consensus size: 53
35727017 GAATTTGATA
*
35727027 CTGAGCACTAAGTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
1 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
* *
35727080 CTGACCACTAAGTGTGCGAGTTGGGTTTAAGCACTATGTGTGTGAATTAATTT
1 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
35727133 CTGAGCACTAAGTGTGC
1 CTGAGCACTAAGTGTGC
35727150 AAAATCAGTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (53 bp):
CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
Found at i:35736594 original size:20 final size:20
Alignment explanation
Indices: 35736569--35736606 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35736559 GTCACATATA
35736569 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
35736589 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
35736607 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:35739961 original size:24 final size:23
Alignment explanation
Indices: 35739908--35739957 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
35739898 TTTGTTTATT
*
35739908 ATTAAAATATTTTAAATAATGATA
1 ATTAATATATTTTAAATAA-GATA
35739932 ATTAATATATTTTAAATCAA-ATA
1 ATTAATATATTTTAAAT-AAGATA
35739955 ATT
1 ATT
35739958 TAATCTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 16 0.67
25 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTAATATATTTTAAATAAGATA
Found at i:35743221 original size:21 final size:23
Alignment explanation
Indices: 35743196--35743242 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
35743186 GGGACTGGAT
35743196 AAAATAAA-TTTTA-TTAATTAA
1 AAAATAAATTTTTATTTAATTAA
35743217 AAAATAAATTTTTTATTTAATTAA
1 AAAATAAA-TTTTTATTTAATTAA
35743241 AA
1 AA
35743243 GAGGTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.35
23 5 0.22
24 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATAAATTTTTATTTAATTAA
Found at i:35743606 original size:10 final size:10
Alignment explanation
Indices: 35743593--35743631 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
35743583 TAAAAATATT
35743593 AAAAATTAGA
1 AAAAATTAGA
*
35743603 AAAAATAAGAA
1 AAAAATTAG-A
*
35743614 AAAAATTATA
1 AAAAATTAGA
35743624 AAAAATTA
1 AAAAATTA
35743632 TTAAGTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (10 bp):
AAAAATTAGA
Found at i:35744126 original size:76 final size:75
Alignment explanation
Indices: 35744000--35744151 Score: 250
Period size: 76 Copynumber: 2.0 Consensus size: 75
35743990 GTAACACCCT
* * * *
35744000 TTACCTAACCAACCTGCCAAGTCTAGGAATCGGATTCTGCATTAACTAGATTTACTTAACAATTT
1 TTACCTAACCAAACTGCCAAGTCTAGGAATCGGATGCTGCATTAACTAGATTTACCTAACAAATT
35744065 TTTTCTAATTC
66 TTTT-TAATTC
*
35744076 TTACCTAACCAAACTGCCAAGTCTAGGTATCGGATGCTGCATTAACTAGATTTACCTAACAAATT
1 TTACCTAACCAAACTGCCAAGTCTAGGAATCGGATGCTGCATTAACTAGATTTACCTAACAAATT
35744141 TTTTTAATTC
66 TTTTTAATTC
35744151 T
1 T
35744152 AATTTAGTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
75 7 0.10
76 64 0.90
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (75 bp):
TTACCTAACCAAACTGCCAAGTCTAGGAATCGGATGCTGCATTAACTAGATTTACCTAACAAATT
TTTTTAATTC
Found at i:35745953 original size:7 final size:7
Alignment explanation
Indices: 35745937--35745967 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
35745927 TTCGAATGGC
35745937 AAATGATG
1 AAATG-TG
35745945 AAATGTG
1 AAATGTG
35745952 AAATGTG
1 AAATGTG
35745959 AAATGTG
1 AAATGTG
35745966 AA
1 AA
35745968 TTATATCGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.78
8 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (7 bp):
AAATGTG
Found at i:35747048 original size:42 final size:42
Alignment explanation
Indices: 35746986--35747071 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
35746976 CCTACAACAC
*
35746986 GGCCGTGTGACCCAAATCAATGAGTTACATGGGCAGAGACAT
1 GGCCGTGTGACCCAAATCAATGAGTTACATGGGCAAAGACAT
* * * *
35747028 GGCCGTGTGTCTCAAGTCAATGAGTTACATGGGTAAAGACAT
1 GGCCGTGTGACCCAAATCAATGAGTTACATGGGCAAAGACAT
35747070 GG
1 GG
35747072 GCTGGGATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (42 bp):
GGCCGTGTGACCCAAATCAATGAGTTACATGGGCAAAGACAT
Found at i:35749705 original size:27 final size:27
Alignment explanation
Indices: 35749675--35749852 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35749665 ATATTGAGTC
* * * *
35749675 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35749702 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35749729 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35749757 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35749784 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35749811 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35749838 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35749853 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35749814 original size:82 final size:81
Alignment explanation
Indices: 35749696--35749851 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35749686 TGCTATATAA
* *
35749696 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35749761 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35749778 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35749842 CACTTAGTGC
65 CACTTAGTGC
35749852 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35751710 original size:45 final size:45
Alignment explanation
Indices: 35751653--35751771 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 45
35751643 TGTCACAATT
* * **
35751653 CCATATCGTCTTTTAGATATGGTCTTA-TTCAT-TTCTGTCATGATG
1 CCATATCATCTTTCAGATATGGTCTTACTT-ATCTT-TACCATGATG
*
35751698 CCATATCATCTTTCAGTTATGGTCTTACTTATCTTTACCATGATG
1 CCATATCATCTTTCAGATATGGTCTTACTTATCTTTACCATGATG
* *
35751743 CCATAGCATCTTTCA-ACTACGGTCTTACT
1 CCATATCATCTTTCAGA-TATGGTCTTACT
35751772 GACTTTGATG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
45 59 0.94
46 4 0.06
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (45 bp):
CCATATCATCTTTCAGATATGGTCTTACTTATCTTTACCATGATG
Found at i:35756200 original size:46 final size:46
Alignment explanation
Indices: 35756148--35756513 Score: 563
Period size: 46 Copynumber: 8.0 Consensus size: 46
35756138 AGTGTGCTCT
35756148 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
35756194 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
35756240 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
35756286 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
35756332 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
35756378 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* *** * *
35756424 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * * * * *
35756470 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
35756514 TCATGTCAAA
Statistics
Matches: 302, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 301 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:35756843 original size:24 final size:24
Alignment explanation
Indices: 35756808--35756856 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
35756798 AATAAAAAGT
*
35756808 TAGTAGATATTTTTGGATGATTCA
1 TAGTAGACATTTTTGGATGATTCA
35756832 TAGTAGACATTTTTGGATGATTCA
1 TAGTAGACATTTTTGGATGATTCA
35756856 T
1 T
35756857 CCATGGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (24 bp):
TAGTAGACATTTTTGGATGATTCA
Found at i:35759766 original size:34 final size:33
Alignment explanation
Indices: 35759695--35759766 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
35759685 AACACAGTGT
**
35759695 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAATCTGGGCCAAAGCCCTAAACAGTAA
* ** *
35759728 CAGTACAGTCTGGGCCTTAGCCCTTAAACAGTAG
1 CAGTACAATCTGGGCCAAAGCCC-TAAACAGTAA
35759762 CAGTA
1 CAGTA
35759767 TAGGCCTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 20 0.62
34 12 0.38
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (33 bp):
CAGTACAATCTGGGCCAAAGCCCTAAACAGTAA
Found at i:35759874 original size:30 final size:31
Alignment explanation
Indices: 35759794--35759876 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
35759784 TTAGTCTCGA
*
35759794 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
35759824 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
35759855 CATATCACT-GGCTGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
35759877 ACTGTAAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:35760129 original size:25 final size:25
Alignment explanation
Indices: 35760095--35760164 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
35760085 CTCTTTTAAT
*
35760095 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35760120 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35760145 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35760165 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35761122 original size:27 final size:27
Alignment explanation
Indices: 35761092--35761177 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
35761082 GTAAATCTAC
35761092 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
35761119 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
35761145 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
35761175 AAA
1 AAA
35761178 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:35761196 original size:27 final size:27
Alignment explanation
Indices: 35761155--35761278 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
35761145 AGAAAGTCAA
** *
35761155 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* *
35761182 GGGTATTTTGATAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
35761208 AGAGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
35761236 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
35761263 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
35761279 CCACCCTATA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.04
27 75 0.94
28 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:35761295 original size:54 final size:54
Alignment explanation
Indices: 35761179--35761311 Score: 144
Period size: 54 Copynumber: 2.5 Consensus size: 54
35761169 TTTTGTAAAT
* * *
35761179 TAGGGGTATTTTGATAATTTTACAAATTGAGAGTATTTCGGTAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAATAGAGAGTATTTCGGTAATTCCACAAAC
* * * **
35761233 TAGTGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTCCACCCTA-
1 TAGGGGTATTTTGGTAATTTTACAAA-TAGAGAGTATTTCGGTAATTCCA-CAAAC
* *
35761287 TAGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTACAA
35761312 TCGAAGGTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 62 0.94
55 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
TAGGGGTATTTTGGTAATTTTACAAATAGAGAGTATTTCGGTAATTCCACAAAC
Found at i:35761347 original size:27 final size:27
Alignment explanation
Indices: 35761310--35761374 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
35761300 GTAATTTCAC
* * * *
35761310 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
35761337 AATCGAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
35761364 AATCGAGGGTA
1 AATCGAGGGTA
35761375 CTTTGGTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:35766218 original size:44 final size:44
Alignment explanation
Indices: 35766155--35766244 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
35766145 CATTGATAAC
*
35766155 CACCAATTCAATATGCATTTAGCTATATCCACAATTAAAACAAA
1 CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
35766199 CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
1 CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
35766243 CA
1 CA
35766245 TACCAAAACA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (44 bp):
CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
Found at i:35767991 original size:28 final size:28
Alignment explanation
Indices: 35767959--35768027 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
35767949 ATAGTAAGTC
35767959 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
35767987 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
35768015 CGCACACTTAGTG
1 CGCACACTTAGTG
35768028 TCAATCTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 34 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:35776700 original size:22 final size:22
Alignment explanation
Indices: 35776669--35776711 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
35776659 GTACGAGACC
35776669 GGATTAGCTTATTAGAAAACAT
1 GGATTAGCTTATTAGAAAACAT
*
35776691 GGATTCGCTTATTAGAAAACA
1 GGATTAGCTTATTAGAAAACA
35776712 CAGGTGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (22 bp):
GGATTAGCTTATTAGAAAACAT
Found at i:35782588 original size:68 final size:68
Alignment explanation
Indices: 35782516--35782663 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 68
35782506 CATCATGTGT
* * * *
35782516 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
35782579 TGTAG
64 TGTAG
* ** * *
35782584 ACAAGAGAGCT--ATGGTATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
35782647 GTAG
65 GTAG
35782651 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
35782664 GAGATAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 24 0.36
65 3 0.05
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:35782620 original size:64 final size:64
Alignment explanation
Indices: 35782540--35782723 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
35782530 AGACATTATG
* * *
35782540 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATG-GTATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAG-ATAA
* * * * *
35782604 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
35782669 AA
63 AA
* * *
35782671 AT-TGGCTAGGTCGAATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
35782724 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 31 0.32
68 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:35787007 original size:24 final size:25
Alignment explanation
Indices: 35786965--35787011 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
35786955 ACCTTTGCTC
*
35786965 TTCTAGCATGAACTTGTCTTACCCT
1 TTCTAGCATGAACTCGTCTTACCCT
*
35786990 TTCTAGTAT-AACTCGTCTTACC
1 TTCTAGCATGAACTCGTCTTACC
35787012 TTACCTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (25 bp):
TTCTAGCATGAACTCGTCTTACCCT
Found at i:35788991 original size:79 final size:81
Alignment explanation
Indices: 35788859--35789039 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
35788849 ATGATGTCCA
* *
35788859 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
35788923 CGAGATACTA-ATTCCG
66 CGAGATACTATA-ACCG
* * **
35788939 GGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGT
*
35789001 GCGAGTTACTATAACCG
65 GCGAGATACTATAACCG
* *
35789018 GACTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
35789040 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.66
80 29 0.33
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGATACTATAACCG
Found at i:35789046 original size:40 final size:40
Alignment explanation
Indices: 35788861--35789039 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
35788851 GATGTCCAGG
* * * * *
35788861 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGA
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGA
* * *
35788901 CTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
* *
35788941 CTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAATCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
*
35788980 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGA
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGA
*
35789020 CTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTG
35789040 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.29
40 74 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
Found at i:35789061 original size:79 final size:79
Alignment explanation
Indices: 35788908--35789072 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
35788898 GGACTAAGAT
* * **
35788908 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGACTAAGCCCGAAGGCATTTGAACAAGTTACTAA
*
35788973 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
35788987 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGACTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGACTAAG-CCCGAAGGCATTTGAACAAGTTA-C
* *
35789050 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35789066 CCGAAGG
1 CCGAAGG
35789073 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGACTAAGCCCGAAGGCATTTGAACAAGTTACTAA
ATCCGGGTTAAATC
Found at i:35791416 original size:21 final size:20
Alignment explanation
Indices: 35791392--35791436 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
35791382 ATTTATGGAA
35791392 ATGGTAAAATTCAA-GAAAAAT
1 ATGGTAAAA-T-AATGAAAAAT
*
35791413 ATGGTGAAATAATGAAAAAT
1 ATGGTAAAATAATGAAAAAT
35791433 ATGG
1 ATGG
35791437 GCTGTATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 12 0.55
21 8 0.36
ACGTcount: A:0.53, C:0.02, G:0.20, T:0.24
Consensus pattern (20 bp):
ATGGTAAAATAATGAAAAAT
Found at i:35793798 original size:27 final size:27
Alignment explanation
Indices: 35793767--35793826 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
35793757 CCCTGATTTG
* * *
35793767 TAAAATTACCGAAATACCCTTGTAGTA
1 TAAAATTACCAAAATACCCCTATAGTA
*
35793794 TAAAATTACCAAAATACCCCTATAGTG
1 TAAAATTACCAAAATACCCCTATAGTA
35793821 TAAAAT
1 TAAAAT
35793827 GACTGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTATAGTA
Found at i:35797061 original size:19 final size:19
Alignment explanation
Indices: 35797022--35797061 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35797012 ATATGTCAAA
* *
35797022 ATTTCAAATATCCAAATTG
1 ATTTCAAATATCAAAAGTG
*
35797041 ATTTCAATTATCAAAAGTG
1 ATTTCAAATATCAAAAGTG
35797060 AT
1 AT
35797062 CAAATGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTTCAAATATCAAAAGTG
Found at i:35798064 original size:22 final size:21
Alignment explanation
Indices: 35798025--35798065 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
35798015 CATATTATAA
**
35798025 AACAAAGAGAAATTTAGAATG
1 AACAAAGAGAAAAATAGAATG
35798046 AACAAGAGAGAAAAATAGAA
1 AACAA-AGAGAAAAATAGAA
35798066 AAAATGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.63, C:0.05, G:0.20, T:0.12
Consensus pattern (21 bp):
AACAAAGAGAAAAATAGAATG
Found at i:35800887 original size:27 final size:26
Alignment explanation
Indices: 35800864--35801020 Score: 192
Period size: 27 Copynumber: 5.9 Consensus size: 26
35800854 ATTTTACCTT
35800864 ACAGGGGTATTTCAGTAATTTTACAA
1 ACAGGGGTATTTCAGTAATTTTACAA
* *
35800890 ACTGGGGGTATTTCGGTAATTTTACAA
1 AC-AGGGGTATTTCAGTAATTTTACAA
35800917 ACCA-GGGTATTTCAGTAATTTTACAA
1 A-CAGGGGTATTTCAGTAATTTTACAA
* *
35800943 ACTTA-GGGTATTTCGGTAATTTTTCAA
1 AC--AGGGGTATTTCAGTAATTTTACAA
* *
35800970 ACTGGGGGTATTTCGGTAATTTTACAA
1 AC-AGGGGTATTTCAGTAATTTTACAA
35800997 ACCAGGGGTATTTCAGTAATTTTA
1 A-CAGGGGTATTTCAGTAATTTTA
35801021 AATAGTTTGG
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
25 1 0.01
26 25 0.22
27 87 0.76
28 2 0.02
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (26 bp):
ACAGGGGTATTTCAGTAATTTTACAA
Found at i:35800927 original size:53 final size:54
Alignment explanation
Indices: 35800868--35801020 Score: 220
Period size: 53 Copynumber: 2.9 Consensus size: 54
35800858 TACCTTACAG
*
35800868 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAAC-CA
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAACTCA
* **
35800921 GGGTATTTCAGTAATTTTACAAACTTA-GGGTATTTCGGTAATTTTTCAAACTGG
1 GGGTATTTCAGTAATTTTACAAAC-TAGGGGTATTTCGGTAATTTTACAAACTCA
* * *
35800975 GGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTA
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTA
35801021 AATAGTTTGG
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
53 48 0.54
54 41 0.46
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAACTCA
Found at i:35800963 original size:80 final size:81
Alignment explanation
Indices: 35800868--35801020 Score: 281
Period size: 80 Copynumber: 1.9 Consensus size: 81
35800858 TACCTTACAG
35800868 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACCA-GGGTATTTCAG
1 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAG
35800932 TAATTTTACAAACTTA
66 TAATTTTACAAACTTA
* *
35800948 GGGTATTTCGGTAATTTTTCAAACTGGGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAG
1 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAG
35801013 TAATTTTA
66 TAATTTTA
35801021 AATAGTTTGG
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
80 51 0.73
81 19 0.27
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAG
TAATTTTACAAACTTA
Found at i:35802507 original size:24 final size:25
Alignment explanation
Indices: 35802462--35802508 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
35802452 CTCTATTCAA
*
35802462 AGTCTCATGACCAATTCAACCTCAG
1 AGTCTCATGACCAACTCAACCTCAG
* *
35802487 AGTCTCA-GTCCAACTCCACCTC
1 AGTCTCATGACCAACTCAACCTC
35802509 TTACACAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.28, C:0.38, G:0.11, T:0.23
Consensus pattern (25 bp):
AGTCTCATGACCAACTCAACCTCAG
Found at i:35827021 original size:190 final size:190
Alignment explanation
Indices: 35826696--35827074 Score: 731
Period size: 190 Copynumber: 2.0 Consensus size: 190
35826686 CTTTATCGTC
35826696 ACTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAATAG
1 ACTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAATAG
* *
35826761 TACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAATT
66 TACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACT
*
35826826 GAGCTTTCAACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCTATCGAAATCGGCG
131 GAGCTTTCAACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCCATCGAAATCGGCG
35826886 ACTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAATAG
1 ACTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAATAG
35826951 TACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACT
66 TACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACT
35827016 GAGCTTTCAACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCCATCGAAATCGGC
131 GAGCTTTCAACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCCATCGAAATCGGC
35827075 ATAGTCCCAG
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 186 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (190 bp):
ACTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAATAG
TACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACT
GAGCTTTCAACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCCATCGAAATCGGCG
Found at i:35830580 original size:39 final size:39
Alignment explanation
Indices: 35830487--35830682 Score: 216
Period size: 39 Copynumber: 4.9 Consensus size: 39
35830477 AGCCCGGTTA
* * * *
35830487 TAGTAACTCGCACAATTGCCTTCAGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGGCTTAGCCCGGAAT
*
35830527 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCTGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
* *
35830566 TAGTATCTCGCACAAATGCCTTCTGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
* * *
35830605 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT
* * *
35830644 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
35830683 CATCATTCAA
Statistics
Matches: 134, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
39 74 0.55
40 52 0.39
41 8 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
Found at i:35831608 original size:152 final size:153
Alignment explanation
Indices: 35831441--35831739 Score: 591
Period size: 152 Copynumber: 2.0 Consensus size: 153
35831431 TAGCCATCTC
35831441 ATATATTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCA
1 ATATATTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCA
35831506 TCATAAATTTCCCCC-TTTTTTTTGTTTTCATGGCCGAATGCTCCTTCTACACCATTTACCTTCA
66 TCATAAATTTCCCCCTTTTTTTTTGTTTTCATGGCCGAATGCTCCTTCTACACCATTTACCTTCA
35831570 CAAAGCATGAATTTCATTCTCAT
131 CAAAGCATGAATTTCATTCTCAT
35831593 ATATATTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCA
1 ATATATTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCA
35831658 TCATAAATTTCCCCCTTTTTTTTTGTTTTCATGGCCGAATGCTCCTTCTACACCATTTACCTTCA
66 TCATAAATTTCCCCCTTTTTTTTTGTTTTCATGGCCGAATGCTCCTTCTACACCATTTACCTTCA
35831723 CAAAGCATGAATTTCAT
131 CAAAGCATGAATTTCAT
35831740 CATCCAACTT
Statistics
Matches: 146, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
152 80 0.55
153 66 0.45
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.39
Consensus pattern (153 bp):
ATATATTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCA
TCATAAATTTCCCCCTTTTTTTTTGTTTTCATGGCCGAATGCTCCTTCTACACCATTTACCTTCA
CAAAGCATGAATTTCATTCTCAT
Found at i:35831679 original size:77 final size:77
Alignment explanation
Indices: 35831446--35831681 Score: 186
Period size: 77 Copynumber: 3.1 Consensus size: 77
35831436 ATCTCATATA
35831446 TTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATA
1 TTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATA
35831511 AATTTCCCCCTT
66 AATTTCCCCCTT
* ** * *** ** * * *
35831523 TTTTTTGTT--T-TCATGGCCGAATGCTCCTTCTACACCAT-TTACCTTCACAAAGCATGAATTT
1 TTTTTT-TTCATCCCATACCCGAATGC-ACAAGTACATTATAATAGCTTC-C-AA-C-TTAA-TT
* * * *
35831584 CATTC-T-CATAT----ATA
59 CA-TCATAAATTTCCCCCTT
35831598 TTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATA
1 TTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATA
35831663 AATTTCCCCCTT
66 AATTTCCCCCTT
35831675 TTTTTTT
1 TTTTTTT
35831682 GTTTTCATGG
Statistics
Matches: 109, Mismatches: 32, Indels: 36
0.62 0.18 0.20
Matches are distributed among these distances:
71 2 0.02
72 5 0.05
73 6 0.06
74 3 0.03
75 26 0.24
76 18 0.17
77 33 0.30
78 3 0.03
79 6 0.06
80 5 0.05
81 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (77 bp):
TTTTTTTTCATCCCATACCCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATA
AATTTCCCCCTT
Found at i:35831698 original size:76 final size:75
Alignment explanation
Indices: 35831464--35831699 Score: 187
Period size: 76 Copynumber: 3.1 Consensus size: 75
35831454 CATCCCATAC
35831464 CCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATAAATTTCCCCCTTTTTTTT
1 CCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATAAATTTCCCCCTTTTTTTT
35831529 GTTTTCATGG
66 GTTTTCATGG
* *** ** * * * * * *
35831539 CCGAATGCTCCTTCTACACCAT-TTACCTTCACAAAGCATGAATTTCATTC-TCATATAT----A
1 CCGAATGC-ACAAGTACATTATAATAGCTTC-C-AA-C-TTAA-TTCA-TCAT-AAATTTCCCCC
** ** **
35831598 TTTTTTTTCATCCCATAC
58 TTTTTTTTGTTTTCATGG
35831616 CCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATAAATTTCCCCCTTTTTTTT
1 CCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATAAATTTCCCCC-TTTTTTT
35831681 TGTTTTCATGG
65 TGTTTTCATGG
35831692 CCGAATGC
1 CCGAATGC
35831700 TCCTTCTACA
Statistics
Matches: 110, Mismatches: 36, Indels: 29
0.63 0.21 0.17
Matches are distributed among these distances:
71 6 0.05
72 5 0.05
73 3 0.03
74 1 0.01
75 16 0.15
76 36 0.33
77 28 0.25
78 1 0.01
79 3 0.03
80 5 0.05
81 6 0.05
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (75 bp):
CCGAATGCACAAGTACATTATAATAGCTTCCAACTTAATTCATCATAAATTTCCCCCTTTTTTTT
GTTTTCATGG
Found at i:35842044 original size:27 final size:27
Alignment explanation
Indices: 35842002--35842149 Score: 199
Period size: 27 Copynumber: 5.5 Consensus size: 27
35841992 TGGATAAGTT
*
35842002 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
35842029 GTAGAATTACCAAAATACCTTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
35842056 ATAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
35842083 GTAGAAATACCGAAATA-CCTCTGTAGG
1 GTAGAATTACCGAAATACCCT-TGTAGG
* *
35842110 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
35842137 GTAAAATTACCGA
1 GTAGAATTACCGA
35842150 TTTACCCATG
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 99 0.94
28 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:35842145 original size:81 final size:81
Alignment explanation
Indices: 35842002--35842171 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 81
35841992 TGGATAAGTT
* * * *
35842002 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCTTTGTAGGATAGAATTATC
1 GTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGATAAAATTACC
* *
35842067 GAAATACCCTTGTAGG
66 GAAATACCCATGGAGG
* * * * *
35842083 GTAGAAATACCGAAATACCTCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGATAAAATTACC
**
35842148 GATTTACCCATGGAGG
66 GAAATACCCATGGAGG
35842164 GTA-AAATA
1 GTAGAAATA
35842172 ACTATTTTGC
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
80 5 0.07
81 71 0.93
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (81 bp):
GTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGATAAAATTACC
GAAATACCCATGGAGG
Found at i:35842155 original size:27 final size:27
Alignment explanation
Indices: 35842006--35842170 Score: 172
Period size: 27 Copynumber: 6.1 Consensus size: 27
35841996 TAAGTTGTAG
* *
35842006 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAA
* * * *
35842033 AATTACCAAAATACCTTTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAA
*
35842060 AATTATCGAAATACCCTTGTAGGGTAGA
1 AATTACCGAAATACCCTTGTAGGGTA-A
*
35842088 AA-TACCGAAATA-CCTCTGTAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAA
* *
35842114 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAA
** * *
35842141 AATTACCGATTTACCCATGGAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAA
35842168 AAT
1 AAT
35842171 AACTATTTTG
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.04
27 105 0.91
28 5 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAA
Found at i:35842844 original size:27 final size:26
Alignment explanation
Indices: 35842800--35842851 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35842790 CTCGCTGCAA
*
35842800 TTTGGTGGCCTCGCCACATATATCTGT
1 TTTGGTGACCTCGCCACA-ATATCTGT
* *
35842827 TTTGGTGACTTCGTCACAATATCTG
1 TTTGGTGACCTCGCCACAATATCTG
35842852 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TTTGGTGACCTCGCCACAATATCTGT
Found at i:35844228 original size:42 final size:42
Alignment explanation
Indices: 35844154--35844306 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 42
35844144 TATTCCAATT
* * ** *
35844154 CCATGTCCCAGACGTGGTCTTACATGGGATCTCACATCGATA
1 CCATATCCCAGACATGGTCTTACATGAAATCTCATATCGATA
* * * *
35844196 CCATATCCCAGATATGGTCTTATATGAAATCTCATTTCGATG
1 CCATATCCCAGACATGGTCTTACATGAAATCTCATATCGATA
* * * * **
35844238 CCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCAACC
1 CCATATCCCAGACATGGTCTTACATGAAATCTCATATCGATA
* * *
35844280 CCATAACCCAGATAAGGTCTTACATGA
1 CCATATCCCAGACATGGTCTTACATGA
35844307 TAACACATAA
Statistics
Matches: 87, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
CCATATCCCAGACATGGTCTTACATGAAATCTCATATCGATA
Found at i:35844322 original size:84 final size:84
Alignment explanation
Indices: 35844154--35844323 Score: 200
Period size: 84 Copynumber: 2.0 Consensus size: 84
35844144 TATTCCAATT
* ** * * * * *
35844154 CCATGTCCCAGACGTGGTCTTACATGGGATCTCACATCGATACCATATCCCAGATATGGTCTTAT
1 CCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACACCATAACCCAGATAAGGTCTTAC
* *
35844219 ATGAAATCTCATTTCGATG
66 ATGAAATCACATATCGATG
* *
35844238 CCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCAACCCCATAACCCAGATAAGGTCTTAC
1 CCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACACCATAACCCAGATAAGGTCTTAC
35844303 ATGATAA-CACATAAT-GATG
66 ATGA-AATCACAT-ATCGATG
35844322 CC
1 CC
35844324 GATGCCATAT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
84 69 0.96
85 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (84 bp):
CCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACACCATAACCCAGATAAGGTCTTAC
ATGAAATCACATATCGATG
Found at i:35852105 original size:23 final size:24
Alignment explanation
Indices: 35852079--35852140 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
35852069 TAGAAATAAC
35852079 AAAAATATATAAATTA-AAGTATA
1 AAAAATATATAAATTATAAGTATA
* *
35852102 AAAAATTTA-AAAATATAAGTATA
1 AAAAATATATAAATTATAAGTATA
*
35852125 AGAATAATAAATAAAT
1 A-AA-AATATATAAAT
35852141 AAATTAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.17
23 16 0.53
24 2 0.07
25 4 0.13
26 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (24 bp):
AAAAATATATAAATTATAAGTATA
Found at i:35852182 original size:22 final size:20
Alignment explanation
Indices: 35852152--35852203 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
35852142 AATTAATTAG
*
35852152 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAAAA
35852172 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAAAA
35852194 TAAAATAAAA
1 TAAAATAAAA
35852204 TTGGGGCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAAAA
Found at i:35858575 original size:18 final size:18
Alignment explanation
Indices: 35858548--35858594 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
35858538 ACGCTTGAGA
*
35858548 AATATCGATAACCTTATG
1 AATATTGATAACCTTATG
35858566 AATATTGATATAACCTTATG
1 AATATTG--ATAACCTTATG
35858586 AATATTGAT
1 AATATTGAT
35858595 TTACAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
20 18 0.69
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
AATATTGATAACCTTATG
Found at i:35858580 original size:20 final size:20
Alignment explanation
Indices: 35858555--35858594 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35858545 AGAAATATCG
35858555 ATAACCTTATGAATATTGAT
1 ATAACCTTATGAATATTGAT
35858575 ATAACCTTATGAATATTGAT
1 ATAACCTTATGAATATTGAT
35858595 TTACAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
ATAACCTTATGAATATTGAT
Found at i:35860255 original size:36 final size:36
Alignment explanation
Indices: 35860215--35860288 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
35860205 ATTACAAAAT
35860215 CAGCAGGAAAGATAAACTTATCTACACATACCAATA
1 CAGCAGGAAAGATAAACTTATCTACACATACCAATA
**
35860251 CAGCAGGAAAGATAAACTTATCTACATGTACCAATA
1 CAGCAGGAAAGATAAACTTATCTACACATACCAATA
35860287 CA
1 CA
35860289 TCATCGATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (36 bp):
CAGCAGGAAAGATAAACTTATCTACACATACCAATA
Found at i:35861683 original size:30 final size:30
Alignment explanation
Indices: 35861647--35861704 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
35861637 CTTACATAAG
35861647 ATAGCACCGTTAGCAGAAGCATCTACTATC
1 ATAGCACCGTTAGCAGAAGCATCTACTATC
35861677 ATAGCACCGTTAGCAGAAGCATCTACTA
1 ATAGCACCGTTAGCAGAAGCATCTACTA
35861705 CCATCCTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (30 bp):
ATAGCACCGTTAGCAGAAGCATCTACTATC
Found at i:35863676 original size:12 final size:13
Alignment explanation
Indices: 35863655--35863686 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
35863645 TCGACACAAG
35863655 TGGA-AGGGAAAA
1 TGGAGAGGGAAAA
35863667 TGG-GAGGGAAAA
1 TGGAGAGGGAAAA
35863679 TGGAGAGG
1 TGGAGAGG
35863687 AAACTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.50, T:0.09
Consensus pattern (13 bp):
TGGAGAGGGAAAA
Found at i:35867400 original size:59 final size:57
Alignment explanation
Indices: 35867300--35867416 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 57
35867290 ATTTAAAAGA
*
35867300 AGGGTTGGAGGGTTGTGGATTAGGATGGATGGGAAAGGAATGAAGCACAAGCAGCTAG
1 AGGGTTGGAGGGTTGCGGATTAGGATGGAT-GGAAAGGAATGAAGCACAAGCAGCTAG
* * **
35867358 AGGGTTGGAGGGTTTGCGGCTTAGGGTGGAT-GAAAGGAGAATGCCGCACAAGCAGCTAG
1 AGGGTTGGAGGG-TTGCGGATTAGGATGGATGGAAA-G-GAATGAAGCACAAGCAGCTAG
35867417 GGCGTGCGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
57 4 0.08
58 13 0.25
59 34 0.67
ACGTcount: A:0.28, C:0.10, G:0.43, T:0.19
Consensus pattern (57 bp):
AGGGTTGGAGGGTTGCGGATTAGGATGGATGGAAAGGAATGAAGCACAAGCAGCTAG
Found at i:35869385 original size:17 final size:19
Alignment explanation
Indices: 35869363--35869404 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
35869353 TTTCTGTTGG
35869363 TGACATT-TC-CAACTCTT
1 TGACATTATCACAACTCTT
35869380 TGACATTAGTCACAACTCTT
1 TGACATTA-TCACAACTCTT
35869400 T-ACAT
1 TGACAT
35869405 ATGCATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (19 bp):
TGACATTATCACAACTCTT
Found at i:35875500 original size:57 final size:57
Alignment explanation
Indices: 35875426--35875537 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
35875416 TGGAGGTTTT
*
35875426 TCAAGGGCCTTTTTGCAAGAATATTTTATCAGCTAATTTTCTGATTTGGGTCAGCCA
1 TCAAGGGCCTTTTTGCAAGAATATTTTATCAGCTAATTTGCTGATTTGGGTCAGCCA
*
35875483 TCAAGGGCCTTTTTGCAAGCATATTTTATCAGCTAATTTGCTGATTTGGGTCAGC
1 TCAAGGGCCTTTTTGCAAGAATATTTTATCAGCTAATTTGCTGATTTGGGTCAGC
35875538 TGATGGACGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (57 bp):
TCAAGGGCCTTTTTGCAAGAATATTTTATCAGCTAATTTGCTGATTTGGGTCAGCCA
Found at i:35885437 original size:17 final size:17
Alignment explanation
Indices: 35885415--35885449 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35885405 GCATCTAAAG
* *
35885415 TACATTTATAATGAAAT
1 TACATTTACAATAAAAT
35885432 TACATTTACAATAAAAT
1 TACATTTACAATAAAAT
35885449 T
1 T
35885450 TATCACATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (17 bp):
TACATTTACAATAAAAT
Found at i:35897064 original size:37 final size:37
Alignment explanation
Indices: 35896991--35897065 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
35896981 CTAACCAAAT
*
35896991 ATGCCAAACGCTCATAAGAGCTAATCTAACCAATAAC
1 ATGCCAAACGCTCATAAGAGCTAATCCAACCAATAAC
* * *
35897028 ATGCCAAACGCTCATCAGAGCTAATCCAATCGATAAC
1 ATGCCAAACGCTCATAAGAGCTAATCCAACCAATAAC
35897065 A
1 A
35897066 CGCCTTGGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.19
Consensus pattern (37 bp):
ATGCCAAACGCTCATAAGAGCTAATCCAACCAATAAC
Found at i:35898366 original size:14 final size:11
Alignment explanation
Indices: 35898334--35898361 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
35898324 AATGACTCTG
35898334 TAAATATTCTA
1 TAAATATTCTA
35898345 TAAATATTCTA
1 TAAATATTCTA
35898356 TAAATA
1 TAAATA
35898362 ATATTTACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAATATTCTA
Found at i:35901310 original size:2 final size:2
Alignment explanation
Indices: 35901303--35902154 Score: 1704
Period size: 2 Copynumber: 426.0 Consensus size: 2
35901293 TGGAAAAGAA
35901303 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901345 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901387 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901429 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901471 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901513 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901555 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901597 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901639 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901681 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901723 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901765 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901807 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901849 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901891 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901933 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35901975 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35902017 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35902059 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35902101 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35902143 AG AG AG AG AG AG
1 AG AG AG AG AG AG
35902155 GGGTGGAGGA
Statistics
Matches: 850, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 850 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35902387 original size:28 final size:28
Alignment explanation
Indices: 35902356--35902409 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
35902346 CTTAAGGGTA
*
35902356 AGCTAAAGCCTTACAACTAAGCAAGTTT
1 AGCTAAAGCCTTACAACTAAACAAGTTT
*
35902384 AGCTAAAGCCTTACTACTAAACAAGT
1 AGCTAAAGCCTTACAACTAAACAAGT
35902410 AAACTTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (28 bp):
AGCTAAAGCCTTACAACTAAACAAGTTT
Found at i:35904688 original size:3 final size:3
Alignment explanation
Indices: 35904680--35904706 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
35904670 TATCTATCTT
35904680 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
35904707 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:35904711 original size:3 final size:3
Alignment explanation
Indices: 35904705--35904731 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
35904695 ATAATAATAA
35904705 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
35904732 AAGATAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:35907045 original size:28 final size:28
Alignment explanation
Indices: 35907002--35907055 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
35906992 GAATAAGTTT
*
35907002 ACTTGTTTAGTAGTAAGGCTTTAGCTAA
1 ACTTGCTTAGTAGTAAGGCTTTAGCTAA
*
35907030 ACTTGCTTAGTTGTAAGGCTTTAGCT
1 ACTTGCTTAGTAGTAAGGCTTTAGCT
35907056 TACCCTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (28 bp):
ACTTGCTTAGTAGTAAGGCTTTAGCTAA
Found at i:35907264 original size:2 final size:2
Alignment explanation
Indices: 35907257--35907298 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
35907247 TCCTCCACCC
35907257 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
35907299 TTCTTTTCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:35910256 original size:11 final size:11
Alignment explanation
Indices: 35910240--35910267 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
35910230 CTGTAAATAT
35910240 TATTTATAGAA
1 TATTTATAGAA
35910251 TATTTATAGAA
1 TATTTATAGAA
35910262 TATTTA
1 TATTTA
35910268 CAGAGTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (11 bp):
TATTTATAGAA
Found at i:35923182 original size:17 final size:17
Alignment explanation
Indices: 35923152--35923186 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35923142 GTATGTGATA
* *
35923152 AATTTTATTGTAAATGT
1 AATTTCATTATAAATGT
35923169 AATTTCATTATAAATGT
1 AATTTCATTATAAATGT
35923186 A
1 A
35923187 CTTTAGATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (17 bp):
AATTTCATTATAAATGT
Found at i:35925049 original size:37 final size:37
Alignment explanation
Indices: 35924999--35925077 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35924989 TTATTACGAA
* * *
35924999 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
35925036 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
35925073 GTCTT
1 GTCTT
35925078 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:35925265 original size:47 final size:47
Alignment explanation
Indices: 35925196--35927950 Score: 5330
Period size: 47 Copynumber: 58.6 Consensus size: 47
35925186 CCCTTCGGGA
* * * * * *
35925196 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35925243 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925290 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925337 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925384 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925431 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925478 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925525 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925572 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925619 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925666 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925713 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925760 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925807 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925854 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925901 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925948 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35925995 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926042 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926089 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926136 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926183 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926230 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926277 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926324 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926371 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926418 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926465 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926512 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926559 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926653 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926700 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926747 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35926794 CTTATCATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926841 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926888 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926935 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35926982 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927029 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927076 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927123 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927170 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927217 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927264 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927311 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927358 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927405 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927452 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927501 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927548 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927595 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927642 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927689 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927736 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35927783 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927830 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927877 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35927924 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
35927951 TATTCAAATA
Statistics
Matches: 2690, Mismatches: 16, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
47 2644 0.98
49 46 0.02
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35931787 original size:40 final size:40
Alignment explanation
Indices: 35931755--35932096 Score: 252
Period size: 40 Copynumber: 8.6 Consensus size: 40
35931745 CCAGCATGAT
* * * * *
35931755 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
35931795 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
35931835 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35931875 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
35931915 TGCTCTTCGGGACTTAGGCC-GATTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGA-TACA-TCACTAGCACGAA
* ** * * *
35931956 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * * *
35931996 TGC-CTTCGGG-CTTAGCCCGGAATTA-GTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGG-A-TACATCACTAGCACGAA
* **
35932035 TGCT-TTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
35932075 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
35932097 CATCATTCGA
Statistics
Matches: 252, Mismatches: 37, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.02
39 30 0.12
40 195 0.77
41 23 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:35937665 original size:37 final size:37
Alignment explanation
Indices: 35937590--35937675 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 37
35937580 TTAGTGCCGA
*
35937590 GGCATGTTATCGATTGGATTAGCTCTCATGAGCATTT
1 GGCATGTTATCGATTGGATTAGCTCTAATGAGCATTT
* * **
35937627 GGCATGTTATTGGTTGGATTAGCTCTAATGAGTGTTT
1 GGCATGTTATCGATTGGATTAGCTCTAATGAGCATTT
*
35937664 GGCGTGTT-TCGA
1 GGCATGTTATCGA
35937676 CTAGACTACT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 2 0.05
37 39 0.95
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.40
Consensus pattern (37 bp):
GGCATGTTATCGATTGGATTAGCTCTAATGAGCATTT
Found at i:35940427 original size:10 final size:10
Alignment explanation
Indices: 35940412--35940458 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
35940402 TAACATGTTG
35940412 AATTTTAATT
1 AATTTTAATT
35940422 AATTTTATATT
1 AATTTTA-ATT
35940433 AAATTTTAATT
1 -AATTTTAATT
* *
35940444 ATTTTTGATT
1 AATTTTAATT
35940454 -ATTTT
1 AATTTT
35940459 TGACAGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 6 0.19
12 7 0.22
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
AATTTTAATT
Found at i:35942529 original size:13 final size:13
Alignment explanation
Indices: 35942513--35942545 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35942503 TTTAATTAAA
*
35942513 TTAGCTAATTAGT
1 TTAGATAATTAGT
35942526 TTAGATAATTAGT
1 TTAGATAATTAGT
35942539 TTA-ATAA
1 TTAGATAA
35942546 ACAATCCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:35946175 original size:10 final size:10
Alignment explanation
Indices: 35946159--35946202 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
35946149 ATGCTCGTGA
35946159 AAAAAAAGAAG
1 AAAAAAA-AAG
35946170 AAAAAAAAAG
1 AAAAAAAAAG
*
35946180 AAAAGAAAAGG
1 AAAA-AAAAAG
35946191 AACAAAAAAAG
1 AA-AAAAAAAG
35946202 A
1 A
35946203 GAGCATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 7 0.24
11 20 0.69
12 2 0.07
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:35948374 original size:13 final size:12
Alignment explanation
Indices: 35948352--35948409 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
35948342 CCAATCTTTA
*
35948352 TTTTTATTTATT
1 TTTTTATTTTTT
* *
35948364 TTTTTCTTTTAT
1 TTTTTATTTTTT
*
35948376 TATTTATTTTTT
1 TTTTTATTTTTT
35948388 TCTTTTA-TTTTT
1 T-TTTTATTTTTT
*
35948400 ATTTTATTTT
1 TTTTTATTTT
35948410 AGTTAAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 5 0.14
12 27 0.75
13 4 0.11
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTATTTTTT
Found at i:35948380 original size:20 final size:20
Alignment explanation
Indices: 35948355--35948404 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
35948345 ATCTTTATTT
35948355 TTATTTATTTTTTTCTTTTA
1 TTATTTATTTTTTTCTTTTA
35948375 TTATTTATTTTTTTCTTTTA
1 TTATTTATTTTTTTCTTTTA
35948395 TT-TTTATTTT
1 TTATTTATTTT
35948405 ATTTTAGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (20 bp):
TTATTTATTTTTTTCTTTTA
Found at i:35948675 original size:18 final size:18
Alignment explanation
Indices: 35948652--35948694 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
35948642 CTCCTCCACC
35948652 ACCCACCGCCGATTTCTT
1 ACCCACCGCCGATTTCTT
35948670 ACCCACCGCCGATTTCTT
1 ACCCACCGCCGATTTCTT
*
35948688 AGCCACC
1 ACCCACC
35948695 ATGGTGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.47, G:0.12, T:0.23
Consensus pattern (18 bp):
ACCCACCGCCGATTTCTT
Found at i:35949696 original size:118 final size:118
Alignment explanation
Indices: 35949348--35949675 Score: 611
Period size: 118 Copynumber: 2.8 Consensus size: 118
35949338 TGTTTTCCAT
** * *
35949348 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
35949413 CTACTTCGCGTCAAAAGGTTGTATGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTATGACGTGACAAGTAAAACTCCGCTAGCCGA
35949466 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
35949531 CTACTTCGCGTCAAAAGGTTGTATGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTATGACGTGACAAGTAAAACTCCGCTAGCCGA
35949584 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
*
35949649 CTACTTCGCGTCAAAAGGTTGTGTGAC
66 CTACTTCGCGTCAAAAGGTTGTATGAC
35949676 ATGTTGGGTA
Statistics
Matches: 205, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 205 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (118 bp):
GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTATGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:35949839 original size:21 final size:21
Alignment explanation
Indices: 35949800--35949839 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35949790 TATTCCTAAG
* * *
35949800 TAAATAAATAATAATAAAATT
1 TAAAAAAATAAAAAAAAAATT
35949821 TAAAAAAATAAAAAAAAAA
1 TAAAAAAATAAAAAAAAAA
35949840 GAAGAAGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAAAAATAAAAAAAAAATT
Found at i:35949853 original size:20 final size:20
Alignment explanation
Indices: 35949830--35949873 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
35949820 TTAAAAAAAT
*
35949830 AAAAA-AAAAAGAAGAAGAA
1 AAAAAGAAAAAAAAGAAGAA
35949849 AAAAAGAAAAAAAAGAAGAA
1 AAAAAGAAAAAAAAGAAGAA
35949869 AAAAA
1 AAAAA
35949874 TAAGTACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAAGAAGAA
Found at i:35949858 original size:23 final size:23
Alignment explanation
Indices: 35949822--35949873 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
35949812 AATAAAATTT
35949822 AAAAAAATAAAAAAAAAAGAAGA
1 AAAAAAATAAAAAAAAAAGAAGA
*
35949845 AGAAAAAA-AGAAAAAAAAGAAGA
1 A-AAAAAATAAAAAAAAAAGAAGA
35949868 AAAAAA
1 AAAAAA
35949874 TAAGTACTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 16 0.59
24 6 0.22
ACGTcount: A:0.87, C:0.00, G:0.12, T:0.02
Consensus pattern (23 bp):
AAAAAAATAAAAAAAAAAGAAGA
Found at i:35950529 original size:20 final size:20
Alignment explanation
Indices: 35950499--35950546 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
35950489 AATTTAGGAT
* * *
35950499 TTTAT-TTTAATTATCTTTG
1 TTTATCTTTAATTATATGTA
35950518 TTTATCTTTAATTATATGTA
1 TTTATCTTTAATTATATGTA
35950538 TTTATCTTT
1 TTTATCTTT
35950547 TTAGAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTATATGTA
Found at i:35960845 original size:23 final size:23
Alignment explanation
Indices: 35960783--35960849 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
35960773 TAATAGCAGC
*
35960783 AGAACAAAACAAAAAGAAAGGAAA
1 AGAAAAAAAC-AAAAGAAAGGAAA
* **
35960807 A-AGAAATTCAAGAAGAAAGGAAA
1 AGAAAAAAACAA-AAGAAAGGAAA
35960830 AGAAAAAAACAAAAGAAAGG
1 AGAAAAAAACAAAAGAAAGG
35960850 TGAAATAGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
22 2 0.06
23 24 0.71
24 8 0.24
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.03
Consensus pattern (23 bp):
AGAAAAAAACAAAAGAAAGGAAA
Found at i:35964304 original size:2 final size:2
Alignment explanation
Indices: 35964297--35964325 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35964287 GAAGCAGAGC
35964297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35964326 GAATTTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35965490 original size:17 final size:18
Alignment explanation
Indices: 35965470--35965503 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35965460 AGGGTTAGGC
35965470 GTTT-TGGGTTTTTTAAG
1 GTTTATGGGTTTTTTAAG
*
35965487 GTTTATGGTTTTTTTAA
1 GTTTATGGGTTTTTTAA
35965504 AGTGTTCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (18 bp):
GTTTATGGGTTTTTTAAG
Found at i:35972982 original size:68 final size:68
Alignment explanation
Indices: 35972873--35973139 Score: 525
Period size: 68 Copynumber: 3.9 Consensus size: 68
35972863 CTCTTGACTA
35972873 GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACCTAGGCAAAACCTTCAGTAGG
1 GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACCTAGGCAAAACCTTCAGTAGG
35972938 GAT
66 GAT
35972941 GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACCTAGGCAAAACCTTCAGTAGG
1 GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACCTAGGCAAAACCTTCAGTAGG
35973006 GAT
66 GAT
35973009 GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACCTAGGCAAAACCTTCAGTAGG
1 GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACCTAGGCAAAACCTTCAGTAGG
35973074 GAT
66 GAT
*
35973077 GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACATAGGCAAAACCTTCAGTA
1 GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACCTAGGCAAAACCTTCAGTA
35973140 TTGATACTGT
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 198 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (68 bp):
GAAATAGTCCATCGTGTTCCTTCGATACATAAATCATCCAATACCTAGGCAAAACCTTCAGTAGG
GAT
Found at i:35980939 original size:24 final size:24
Alignment explanation
Indices: 35980907--35980954 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
35980897 GAGGTAACTA
*
35980907 AAGGTGCCTCTGAAGATGATACCG
1 AAGGTGCCTCCGAAGATGATACCG
*
35980931 AAGGTGCCTCCGGAGATGATACCG
1 AAGGTGCCTCCGAAGATGATACCG
35980955 GAGGGGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (24 bp):
AAGGTGCCTCCGAAGATGATACCG
Found at i:35980966 original size:24 final size:24
Alignment explanation
Indices: 35980920--35980966 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
35980910 GTGCCTCTGA
* *
35980920 AGATGATACCGAAGGTGCCTCCGG
1 AGATGATACCGAAGGGGCATCCGG
* *
35980944 AGATGATACCGGAGGGGTATCCG
1 AGATGATACCGAAGGGGCATCCG
35980967 AAGGTGTATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.36, T:0.17
Consensus pattern (24 bp):
AGATGATACCGAAGGGGCATCCGG
Found at i:35981623 original size:21 final size:21
Alignment explanation
Indices: 35981599--35981641 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
35981589 GAGTTTCATG
35981599 ATAGAT-TATCAATGTTTT-TTA
1 ATAGATATA-CAA-GTTTTGTTA
35981620 ATAGATATACAAGTTTTGTTA
1 ATAGATATACAAGTTTTGTTA
35981641 A
1 A
35981642 GTGATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.25
21 13 0.65
22 2 0.10
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (21 bp):
ATAGATATACAAGTTTTGTTA
Found at i:35982231 original size:40 final size:40
Alignment explanation
Indices: 35982111--35982258 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 40
35982101 TGATTACAAA
* * * * *
35982111 TCAGCTATTTGTGGCACTTAGTGTGTGATTCGACATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCT
* * * *
35982151 ACGGTTATATATGGCACTTAGTGTGTGATTTGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCT
35982191 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCT
* * ** *
35982231 TCGGCTATGTACAGTACTTAGTGTGCGA
1 TCAGCTATATATGGCACTTAGTGTGCGA
35982259 GATATCGAGT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (40 bp):
TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCT
Found at i:35985861 original size:23 final size:23
Alignment explanation
Indices: 35985821--35985870 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
35985811 CGATATAATT
* * * *
35985821 AAAATATATATTATTTTTAAATG
1 AAAATATAAATAAATTTTAAATA
*
35985844 AAAATATAAATAAATTTTGAATA
1 AAAATATAAATAAATTTTAAATA
35985867 AAAA
1 AAAA
35985871 GCCTGAGAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
AAAATATAAATAAATTTTAAATA
Found at i:35991065 original size:25 final size:24
Alignment explanation
Indices: 35991037--35991083 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
35991027 TTATAATATT
35991037 AATAATAACAAAATATAATAATACC
1 AATAATAACAAAATATAA-AATACC
*
35991062 AATAATAATAAAATATAAAATA
1 AATAATAACAAAATATAAAATA
35991084 AAATATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (24 bp):
AATAATAACAAAATATAAAATACC
Found at i:35995039 original size:13 final size:13
Alignment explanation
Indices: 35995021--35995047 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35995011 GCTTGGTAGG
35995021 GACACGCCCGTGT
1 GACACGCCCGTGT
35995034 GACACGCCCGTGT
1 GACACGCCCGTGT
35995047 G
1 G
35995048 CGATTGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:35995417 original size:13 final size:13
Alignment explanation
Indices: 35995399--35995431 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
35995389 CATTTGCTTG
35995399 TCCTCAAGCAAAA
1 TCCTCAAGCAAAA
35995412 TCCTCAAGCAAAA
1 TCCTCAAGCAAAA
35995425 TCCTCAA
1 TCCTCAA
35995432 CTCATAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.18
Consensus pattern (13 bp):
TCCTCAAGCAAAA
Found at i:36001568 original size:36 final size:36
Alignment explanation
Indices: 36001471--36001572 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 36
36001461 CAGCTACAGT
* *
36001471 AGGTCTAATTATGCTCGATTTAGTTCCTGTTAAAGA
1 AGGTCTAACTATGCTCGATTCAGTTCCTGTTAAAGA
* * ** *
36001507 AGGTTTAGC-ATAATC-ATACATAGTTCCTGTTAAAGA
1 AGGTCTAACTATGCTCGATTC--AGTTCCTGTTAAAGA
36001543 AGGTCTAACTATGCTCGATTCAGTTCCTGT
1 AGGTCTAACTATGCTCGATTCAGTTCCTGT
36001573 AAAATCTTCG
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
34 2 0.04
35 4 0.08
36 37 0.74
37 4 0.08
38 3 0.06
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (36 bp):
AGGTCTAACTATGCTCGATTCAGTTCCTGTTAAAGA
Found at i:36004443 original size:39 final size:39
Alignment explanation
Indices: 36004389--36004516 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
36004379 TATGAGATTG
36004389 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * *
36004428 AAAATATCCGAACATGAGATCTGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
36004467 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
36004506 AAAATATCCGG
1 AAAATATCCGG
36004517 GTTAAAAACC
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:36004532 original size:78 final size:76
Alignment explanation
Indices: 36004388--36004542 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 76
36004378 GTATGAGATT
* * * * *
36004388 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGAACATGAGATCTGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAAACCCGCA
*
36004453 GGCTATATGCTA
66 GGCT-TACGCTA
* * ***
36004465 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCG-GGTTAAAAACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACAT-AAAACCCG
36004529 CAGGCTTACGCTA
64 CAGGCTTACGCTA
36004542 G
1 G
36004543 TAATGTATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 12 0.18
78 53 0.82
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAAACCCGCA
GGCTTACGCTA
Found at i:36006193 original size:13 final size:13
Alignment explanation
Indices: 36006175--36006200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36006165 TCACCTAAGT
36006175 ATAAAACATGAAA
1 ATAAAACATGAAA
36006188 ATAAAACATGAAA
1 ATAAAACATGAAA
36006201 TTAAGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
ATAAAACATGAAA
Found at i:36007388 original size:11 final size:11
Alignment explanation
Indices: 36007358--36007391 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
36007348 ATCTATTTCA
*
36007358 ACCATTTCAAT
1 ACCAATTCAAT
36007369 ACTCAATTCAAT
1 AC-CAATTCAAT
36007381 ACCAATTCAAT
1 ACCAATTCAAT
36007392 TAACTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.32
Consensus pattern (11 bp):
ACCAATTCAAT
Done.