Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 48 of 290
Found at i:15948436 original size:27 final size:27
Alignment explanation
Indices: 15948398--15948449 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
15948388 TAAAATATTG
15948398 GTCTTGCCTCTATCAGAGGCGGCACTA
1 GTCTTGCCTCTATCAGAGGCGGCACTA
*
15948425 GTCTTGCCTCTATTAGAGGCGGCAC
1 GTCTTGCCTCTATCAGAGGCGGCAC
15948450 CAGTTGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (27 bp):
GTCTTGCCTCTATCAGAGGCGGCACTA
Found at i:15951743 original size:64 final size:63
Alignment explanation
Indices: 15951617--15951768 Score: 277
Period size: 64 Copynumber: 2.4 Consensus size: 63
15951607 AATTGAGCTT
* *
15951617 ATGTTGTAATGTATTTAATTTATGTAAAAAAAATTTATTGCAAAGTTTGTTCCAATTTGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAAATTTATTGCAAAGTTTGTTCCAATTAGATTA
15951680 ATGTTGTAATGTATTTAATTTATATAAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAAATT-TATTGCAAAGTTTGTTCCAATTAGATTA
15951744 ATGTTGTAATGTATTTAATTTATAT
1 ATGTTGTAATGTATTTAATTTATAT
15951769 TAGTAGACTA
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
63 34 0.40
64 52 0.60
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.47
Consensus pattern (63 bp):
ATGTTGTAATGTATTTAATTTATATAAAAAAAATTTATTGCAAAGTTTGTTCCAATTAGATTA
Found at i:15951909 original size:38 final size:37
Alignment explanation
Indices: 15951866--15951941 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 37
15951856 TCCACTTTTC
15951866 AAAGTTCCAATTAATCTAATTAAATATATCAAAAAAAT
1 AAAGTTCCAATTAATCTAATTAAATATAT-AAAAAAAT
15951904 AAAGTTCCAATTAATCTAATTAAATATATAAAAAAAT
1 AAAGTTCCAATTAATCTAATTAAATATATAAAAAAAT
15951941 A
1 A
15951942 CAAACTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 9 0.24
38 29 0.76
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.32
Consensus pattern (37 bp):
AAAGTTCCAATTAATCTAATTAAATATATAAAAAAAT
Found at i:15964737 original size:28 final size:29
Alignment explanation
Indices: 15964692--15964746 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
15964682 AAAAAAGTAT
*
15964692 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
15964720 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
15964747 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:15965128 original size:7 final size:7
Alignment explanation
Indices: 15965110--15965206 Score: 50
Period size: 7 Copynumber: 13.4 Consensus size: 7
15965100 AGGGATTAGT
*
15965110 GGGTAAA
1 GGGTTAA
15965117 GGGTTAA
1 GGGTTAA
*
15965124 GGGTTAT
1 GGGTTAA
* *
15965131 GGATTAT
1 GGGTTAA
15965138 GGGTTTAA
1 GGG-TTAA
* *
15965146 TGATTAA
1 GGGTTAA
*
15965153 GGGTTAT
1 GGGTTAA
*
15965160 GGGTTAC
1 GGGTTAA
15965167 GGGTTTAA
1 GGG-TTAA
*
15965175 TGGTTAAA
1 GGGTT-AA
* *
15965183 GGGATAG
1 GGGTTAA
*
15965190 GGGTTAG
1 GGGTTAA
*
15965197 GGGTTGA
1 GGGTTAA
15965204 GGG
1 GGG
15965207 CCGGTTTAAT
Statistics
Matches: 68, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
7 54 0.79
8 14 0.21
ACGTcount: A:0.25, C:0.01, G:0.42, T:0.32
Consensus pattern (7 bp):
GGGTTAA
Found at i:15965134 original size:29 final size:29
Alignment explanation
Indices: 15965102--15965171 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
15965092 TAAAGTTTAG
*
15965102 GGATTAGTGGG-TAAAGGGTTAAGGGTTAT
1 GGATTA-TGGGTTAAAGGATTAAGGGTTAT
* *
15965131 GGATTATGGGTTTAATGATTAAGGGTTAT
1 GGATTATGGGTTAAAGGATTAAGGGTTAT
* *
15965160 GGGTTACGGGTT
1 GGATTATGGGTT
15965172 TAATGGTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.24, C:0.01, G:0.39, T:0.36
Consensus pattern (29 bp):
GGATTATGGGTTAAAGGATTAAGGGTTAT
Found at i:15965172 original size:29 final size:29
Alignment explanation
Indices: 15965120--15965201 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
15965110 GGGTAAAGGG
* *
15965120 TTAAGGGTTATGGATTATGGGTTTAATGA
1 TTAAGGGTTATGGGTTACGGGTTTAATGA
*
15965149 TTAAGGGTTATGGGTTACGGGTTTAATGG
1 TTAAGGGTTATGGGTTACGGGTTTAATGA
* * *
15965178 TTAAAGGGATAGGGGTTAGGGGTT
1 TT-AAGGGTTATGGGTTACGGGTT
15965202 GAGGGCCGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 28 0.61
30 18 0.39
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.37
Consensus pattern (29 bp):
TTAAGGGTTATGGGTTACGGGTTTAATGA
Found at i:15965253 original size:7 final size:7
Alignment explanation
Indices: 15965243--15965373 Score: 59
Period size: 7 Copynumber: 17.7 Consensus size: 7
15965233 ATGGGAAAGG
15965243 GGTTTAT
1 GGTTTAT
15965250 GGTTTAT
1 GGTTTAT
*
15965257 GAGTTAAT
1 G-GTTTAT
* *
15965265 GTTTTAA
1 GGTTTAT
*
15965272 GGTTTAG
1 GGTTTAT
15965279 GGATTT-T
1 GG-TTTAT
15965286 GGTTTAT
1 GGTTTAT
*
15965293 GGTTTAA
1 GGTTTAT
* **
15965300 GGGTTGG
1 GGTTTAT
*
15965307 GGTTTAA
1 GGTTTAT
15965314 GGTTTA-
1 GGTTTAT
*
15965320 GAGGTTAGT
1 G-GTTTA-T
15965329 GGTTATTCAT
1 GG-T-TT-AT
*
15965339 GGTTTAA
1 GGTTTAT
15965346 GGTTTCAT
1 GGTTT-AT
*
15965354 GGTTTAGG
1 GGTTTA-T
15965362 GGTTTAT
1 GGTTTAT
15965369 GGTTT
1 GGTTT
15965374 GGGGTTTAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
6 4 0.04
7 57 0.61
8 24 0.26
9 2 0.02
10 5 0.05
11 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:15965354 original size:15 final size:16
Alignment explanation
Indices: 15965334--15965373 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
15965324 TTAGTGGTTA
15965334 TTCATGGTTTA-AGGT
1 TTCATGGTTTAGAGGT
*
15965349 TTCATGGTTTAGGGGT
1 TTCATGGTTTAGAGGT
15965365 TT-ATGGTTT
1 TTCATGGTTT
15965374 GGGGTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.15, C:0.05, G:0.30, T:0.50
Consensus pattern (16 bp):
TTCATGGTTTAGAGGT
Found at i:15973342 original size:26 final size:26
Alignment explanation
Indices: 15973313--15973420 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
15973303 TGATACAAAT
15973313 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
15973339 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15973365 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15973391 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15973417 TGAT
1 TGAT
15973421 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15976665 original size:26 final size:27
Alignment explanation
Indices: 15976594--15976666 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 27
15976584 TAATTTCAAA
15976594 ATTTAAAGATTTCAAA-TTTAGAATAAT
1 ATTT-AAGATTTCAAATTTTAGAATAAT
15976621 ATTTAAGATTTCAAATTTTA-AATAAT
1 ATTTAAGATTTCAAATTTTAGAATAAT
* *
15976647 -TTTCAATATTTTAAATTTTA
1 ATTT-AAGATTTCAAATTTTA
15976667 TCTAATTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 3 0.07
26 31 0.74
27 8 0.19
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (27 bp):
ATTTAAGATTTCAAATTTTAGAATAAT
Found at i:15976812 original size:18 final size:17
Alignment explanation
Indices: 15976781--15976815 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15976771 TAGTTGATTG
*
15976781 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
15976798 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
15976816 AATAAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:15978279 original size:41 final size:41
Alignment explanation
Indices: 15978204--15978299 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
15978194 GTTTGCAATA
* * *
15978204 AAACACCGCAAAAAACAGAGCAATAGCAGCGTTTTTGATCC
1 AAACGCCGCTAAAAACAGAGCAATAGCAGCGTTTTTGACCC
* ** * *
15978245 AAACGCCGCTAAAAACTGAGCAATAGTGGTGTTTTTGGCCC
1 AAACGCCGCTAAAAACAGAGCAATAGCAGCGTTTTTGACCC
15978286 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
15978300 CTATACAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
AAACGCCGCTAAAAACAGAGCAATAGCAGCGTTTTTGACCC
Found at i:15978384 original size:41 final size:41
Alignment explanation
Indices: 15978308--15978702 Score: 594
Period size: 41 Copynumber: 9.6 Consensus size: 41
15978298 AACTATACAA
* * * *
15978308 TAGCGGCACTTTTGGAAAAATGCCGCTATAAGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
* * * * *
15978349 TAGTGGCGCTTCTGCAAAAACGCTGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
*
15978390 TAGCGGCGCTTTTGGAAAAACGCTGCTATAGGCCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
*
15978431 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
*
15978472 TAGCGGCGCTTTTGGAGAAACGCCGCTATAGGCCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
*
15978513 TAGCGGCACTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
* *
15978554 TAGCGGCGCTTTTGGAGAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
* *
15978595 TAGCGGCG-TTTATAGAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTT-TGGAAAAACGCCGCTATAGGCCGAGGTTT
* *
15978636 TAGCGGCGCTTTTGGAAAAACGCCACTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
*
15978677 TAGCGGCGCTTATGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
15978703 AAAAAAGTAA
Statistics
Matches: 326, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
40 3 0.01
41 320 0.98
42 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
Found at i:15978852 original size:15 final size:15
Alignment explanation
Indices: 15978832--15978863 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15978822 GGATTTTTTT
*
15978832 ATAATATAAATCTAA
1 ATAATATAAATATAA
15978847 ATAATATAAATATAA
1 ATAATATAAATATAA
15978862 AT
1 AT
15978864 TATTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATATAAATATAA
Found at i:15979037 original size:18 final size:18
Alignment explanation
Indices: 15979008--15979058 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
15978998 TTGTCCCTTG
15979008 TTATATATATATATTAA-A
1 TTATA-ATATATATTAAGA
*
15979026 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
15979045 TTATAATATATATT
1 TTATAATATATATT
15979059 TAGGGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:15979498 original size:15 final size:15
Alignment explanation
Indices: 15979478--15979509 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15979468 TTTAATGTAG
*
15979478 AAGATAAATGTATAT
1 AAGATAAATATATAT
15979493 AAGATAAATATATAT
1 AAGATAAATATATAT
15979508 AA
1 AA
15979510 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:15979548 original size:24 final size:23
Alignment explanation
Indices: 15979481--15979548 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
15979471 AATGTAGAAG
* *
15979481 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
15979506 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
15979530 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
15979549 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:15980196 original size:36 final size:37
Alignment explanation
Indices: 15980156--15980233 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 37
15980146 TTGTGTAGAT
** *
15980156 AAAAGG-GCATTAGTGGCGC-TTTACTGAAAACGCCGC
1 AAAAGGAGCATTACCGGCGCGTTT-CTGAAAACGCCAC
*
15980192 AAAAGGAATCATTACCGGCGCGTTTCTGAAAACGCCAC
1 AAAAGG-AGCATTACCGGCGCGTTTCTGAAAACGCCAC
15980230 AAAA
1 AAAA
15980234 TTTCCTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 6 0.17
38 26 0.74
39 3 0.09
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (37 bp):
AAAAGGAGCATTACCGGCGCGTTTCTGAAAACGCCAC
Found at i:15984053 original size:24 final size:24
Alignment explanation
Indices: 15984026--15984093 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
15984016 ATTATTATTG
* *
15984026 AAATATTCTCGTCTGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
15984050 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
15984074 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
15984094 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:15984427 original size:9 final size:9
Alignment explanation
Indices: 15984415--15984526 Score: 118
Period size: 9 Copynumber: 12.6 Consensus size: 9
15984405 TATTTGATAT
*
15984415 CATAATTTA
1 CATAACTTA
15984424 CATAACTTA
1 CATAACTTA
* *
15984433 TATAACATA
1 CATAACTTA
*
15984442 TATAACTTA
1 CATAACTTA
15984451 CATAACTTA
1 CATAACTTA
* *
15984460 TATAACATA
1 CATAACTTA
15984469 CATAACTTA
1 CATAACTTA
*
15984478 TATAACTTA
1 CATAACTTA
*
15984487 TATAACTTA
1 CATAACTTA
* *
15984496 GATAA-ATA
1 CATAACTTA
*
15984504 TATAACTTA
1 CATAACTTA
15984513 CATAACTTA
1 CATAACTTA
15984522 CATAA
1 CATAA
15984527 TACTTAAATA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
8 6 0.07
9 81 0.93
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:15984446 original size:27 final size:27
Alignment explanation
Indices: 15984415--15984526 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
15984405 TATTTGATAT
*
15984415 CATAATTTACATAACTTATATAACATA
1 CATAACTTACATAACTTATATAACATA
*
15984442 TATAACTTACATAACTTATATAACATA
1 CATAACTTACATAACTTATATAACATA
* *
15984469 CATAACTTATATAACTTATATAACTTA
1 CATAACTTACATAACTTATATAACATA
* * * * *
15984496 GATAA-ATATATAACTTACATAACTTA
1 CATAACTTACATAACTTATATAACATA
15984522 CATAA
1 CATAA
15984527 TACTTAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
26 23 0.30
27 53 0.70
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTACATAACTTATATAACATA
Found at i:15990404 original size:31 final size:31
Alignment explanation
Indices: 15990358--15990424 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
15990348 TGGTTGTATT
* *
15990358 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
15990389 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
15990420 TTTTA
1 TTTTA
15990425 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:15992139 original size:47 final size:47
Alignment explanation
Indices: 15992088--15992476 Score: 490
Period size: 47 Copynumber: 8.1 Consensus size: 47
15992078 TTAGGATTTT
* * *
15992088 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
15992135 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
15992186 ATGTGATGAATGTGAAAATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
15992233 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
15992286 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
15992333 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
15992380 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
15992427 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
15992474 ATG
1 ATG
15992477 CGAAACGTGT
Statistics
Matches: 305, Mismatches: 27, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
47 219 0.72
49 1 0.00
51 42 0.14
52 1 0.00
53 42 0.14
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:15992190 original size:24 final size:24
Alignment explanation
Indices: 15992162--15992237 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
15992152 CCGTATATAT
15992162 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* ** **
15992186 ATGTGATGA-ATGTG-AAAAT-GCGT
1 ATGTG-TGATAAG-GCCGAATGGCCA
15992209 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
15992233 ATGTG
1 ATGTG
15992238 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:15992422 original size:94 final size:96
Alignment explanation
Indices: 15992088--15992476 Score: 545
Period size: 94 Copynumber: 4.0 Consensus size: 96
15992078 TTAGGATTTT
* **
15992088 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAA-C
*
15992153 CGTATATATATGTGTGATAAGGCCGAATGGCCA
65 C-TATATATATATGTGATAAGGCCGAATGGCCA
* *
15992186 ATGTGATGAATGTGAAAATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
15992251 TGTATATATATATGCGTGATAAGGCCGAATGGCCA
66 --TATATATATAT--GTGATAAGGCCGAATGGCCA
15992286 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
** * *
15992350 -ATGCATATATGAGATAAGGCCAAATGGCCA
66 TATATATATATGTGATAAGGCCGAATGGCCA
* * *
15992380 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
* *
15992444 -ATGA-ATATATGTGGTAAGGCCGAATGGCTA
66 TAT-ATATATATGTGATAAGGCCGAATGGCCA
15992474 ATG
1 ATG
15992477 CGAAACGTGT
Statistics
Matches: 269, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
94 106 0.39
96 8 0.03
97 2 0.01
98 71 0.26
99 1 0.00
100 81 0.30
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (96 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
TATATATATATGTGATAAGGCCGAATGGCCA
Found at i:15992539 original size:46 final size:46
Alignment explanation
Indices: 15992450--15992540 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
15992440 GAACATGAAT
* * * *
15992450 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
15992496 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
15992541 TGTATAGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:15992788 original size:37 final size:37
Alignment explanation
Indices: 15992682--15992793 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
15992672 AACTTGGAAA
*
15992682 TATGTCCGGGTAAGACCCGATGACTACGTGTGAAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
15992719 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* * *
15992756 TATGTCCGGGTAAGACCCGATAACTTCATGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
15992793 T
1 T
15992794 TCGTCTGAGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:15993686 original size:43 final size:43
Alignment explanation
Indices: 15993626--15993832 Score: 279
Period size: 43 Copynumber: 4.7 Consensus size: 43
15993616 TAAAAAAAGT
* * *
15993626 GCCGCTAAAATCCTTGACCTTTAGCGACGCTTTTCCCACAAAT
1 GCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
*
15993669 GCCGCTAAAAGCCTTGACCCTTGACCTTTAGCGGCGCTTTTCCCACAAGC
1 GCCGCTAAAA-----G--CCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
15993719 GCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCGCACAAAC
1 GCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
15993762 GCCGCTAAAAGCCTTGACCTTTAGAGGTGCTTTTCCCACAAAC
1 GCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
15993805 GCCGCTAAAAGCCTTGACCTTTAGCGGC
1 GCCGCTAAAAGCCTTGACCTTTAGCGGC
15993833 ATTTTTTTCC
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
43 104 0.72
45 1 0.01
50 39 0.27
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:15994494 original size:19 final size:17
Alignment explanation
Indices: 15994461--15994508 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
15994451 GGAAGATATG
*
15994461 ATTTTTAATATATTTAT
1 ATTTTTAATACATTTAT
15994478 ACTTTTTAATAGCATTTAT
1 A-TTTTTAATA-CATTTAT
15994497 ATTGTTTAATAC
1 ATT-TTTAATAC
15994509 TTTTTATGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.04
18 12 0.44
19 14 0.52
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (17 bp):
ATTTTTAATACATTTAT
Found at i:15996400 original size:9 final size:9
Alignment explanation
Indices: 15996388--15996756 Score: 138
Period size: 9 Copynumber: 42.1 Consensus size: 9
15996378 TATTTGATAT
*
15996388 CATAATTTA
1 CATAACTTA
15996397 CATAACTTA
1 CATAACTTA
**
15996406 CATTCCTTA
1 CATAACTTA
*
15996415 CATAAATT-
1 CATAACTTA
* * *
15996423 TATATCATA
1 CATAACTTA
*
15996432 TCATAACTCA
1 -CATAACTTA
15996442 CATAACTTA
1 CATAACTTA
*
15996451 CAAAACTTA
1 CATAACTTA
15996460 CATAA--TA
1 CATAACTTA
* *
15996467 TATAA-ATA
1 CATAACTTA
*
15996475 TATAACTTA
1 CATAACTTA
15996484 CATAACTTA
1 CATAACTTA
*
15996493 CGTAA--TA
1 CATAACTTA
* *
15996500 AATAA-ATA
1 CATAACTTA
* ** *
15996508 TATTTCATA
1 CATAACTTA
*
15996517 TCATAATTTA
1 -CATAACTTA
15996527 CATAACTTA
1 CATAACTTA
**
15996536 CATTCCTTA
1 CATAACTTA
*
15996545 CATAA-ATA
1 CATAACTTA
* * *
15996553 TATATCATA
1 CATAACTTA
15996562 TCATAACTTA
1 -CATAACTTA
15996572 CATAACTTA
1 CATAACTTA
*
15996581 CAAAACTTA
1 CATAACTTA
15996590 CATAAC--A
1 CATAACTTA
*
15996597 CATAA-ATA
1 CATAACTTA
*
15996605 TATAACTTA
1 CATAACTTA
15996614 CATAACTTA
1 CATAACTTA
*
15996623 CGTAA--TA
1 CATAACTTA
* *
15996630 AATAA-ATA
1 CATAACTTA
* ** *
15996638 TATTTCATA
1 CATAACTTA
*
15996647 TCATAATTTA
1 -CATAACTTA
15996657 CATAACTTA
1 CATAACTTA
* *
15996666 CACACCTTA
1 CATAACTTA
*
15996675 CATAAGTT-
1 CATAACTTA
* * *
15996683 TATATCATA
1 CATAACTTA
*
15996692 TTATAACTTA
1 -CATAACTTA
15996702 CATAACTTA
1 CATAACTTA
*
15996711 CAAAACTTA
1 CATAACTTA
*
15996720 CAAAACTTA
1 CATAACTTA
* *
15996729 CAAAAGTTA
1 CATAACTTA
*
15996738 CAAAACTTA
1 CATAACTTA
*
15996747 CTTAACTTA
1 CATAACTTA
15996756 C
1 C
15996757 GTAATACATA
Statistics
Matches: 267, Mismatches: 76, Indels: 34
0.71 0.20 0.09
Matches are distributed among these distances:
7 22 0.08
8 33 0.12
9 186 0.70
10 26 0.10
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:15996454 original size:130 final size:130
Alignment explanation
Indices: 15996287--15996772 Score: 758
Period size: 130 Copynumber: 3.7 Consensus size: 130
15996277 ATCTTAATGT
* * *
15996287 TAAATATATATCATATCATAATTTACAAAACTTACAAAACTTACATTATATATAAATATATAACT
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAACT
*
15996352 TACATAACTTACGTAATAAATAAATATATTTGATATCATAATTTACATAACTTACATTCCTTACA
66 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
* *
15996417 TAAATTTATATCATATCATAACTCACATAACTTACAAAACTTACATAATATATAAATATATAACT
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAACT
15996482 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
66 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
* *
15996547 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAACACATAAATATATAACT
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAACT
**
15996612 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACACACCTTACA
66 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
* * * * * * *
15996677 TAAGTTTATATCATATTATAACTTACATAACTTACAAAACTTACAAAACT-TACAAAAGTTACAA
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAA-TATA-TAAA--TATAT
* *
15996741 AACTTACTTAACTTACGTAATACATAAATATA
62 AACTTACATAACTTACGTAATAAATAAATATA
15996773 CATTTGAAAA
Statistics
Matches: 329, Mismatches: 23, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
130 293 0.89
131 3 0.01
133 33 0.10
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (130 bp):
TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAACT
TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
Found at i:15996516 original size:29 final size:31
Alignment explanation
Indices: 15996448--15996510 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
15996438 CTCACATAAC
* *
15996448 TTACAAAACTTACATAATATATAAATATATAA
1 TTACATAACTTACATAATAAATAAATATAT-A
*
15996480 CTTACATAACTTACGTAATAAATAAATATAT
1 -TTACATAACTTACATAATAAATAAATATAT
15996511 TTCATATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (31 bp):
TTACATAACTTACATAATAAATAAATATATA
Found at i:16002369 original size:18 final size:18
Alignment explanation
Indices: 16002342--16002397 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 18
16002332 GAGCGGAGGT
*
16002342 AGCAGAGAGGGAGGCAGC
1 AGCAGCGAGGGAGGCAGC
16002360 AGCAGCGAGGGAGGTAACAGC
1 AGCAGCGAGGGAGG---CAGC
*
16002381 AGCAGCGAGAGAGGCAG
1 AGCAGCGAGGGAGGCAG
16002398 AGGCAAGAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 16 0.48
21 17 0.52
ACGTcount: A:0.34, C:0.18, G:0.46, T:0.02
Consensus pattern (18 bp):
AGCAGCGAGGGAGGCAGC
Found at i:16002408 original size:21 final size:21
Alignment explanation
Indices: 16002384--16002423 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16002374 TAACAGCAGC
16002384 AGCGAGAGAGGCAGAGGCAAG
1 AGCGAGAGAGGCAGAGGCAAG
*
16002405 AGCGAGGGAGGCAGAGGCA
1 AGCGAGAGAGGCAGAGGCA
16002424 GCAGTGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.50, T:0.00
Consensus pattern (21 bp):
AGCGAGAGAGGCAGAGGCAAG
Found at i:16002712 original size:33 final size:33
Alignment explanation
Indices: 16002662--16002743 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
16002652 TTAGAATTAA
* *
16002662 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
* *
16002695 TGTTTTTGGCTGCA--TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
* *
16002726 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
16002744 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
Found at i:16008239 original size:27 final size:27
Alignment explanation
Indices: 16008203--16008265 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
16008193 CTGGGAACTA
* *
16008203 GTGCCACCTACAATATTGGCACCACTT
1 GTGCCGCCTACAAGATTGGCACCACTT
*
16008230 GTGCCGCCTACAAGATTGGCACCATTT
1 GTGCCGCCTACAAGATTGGCACCACTT
16008257 GTGCCGCCT
1 GTGCCGCCT
16008266 TTCCCATAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (27 bp):
GTGCCGCCTACAAGATTGGCACCACTT
Found at i:16026861 original size:47 final size:45
Alignment explanation
Indices: 16026699--16026877 Score: 169
Period size: 47 Copynumber: 3.8 Consensus size: 45
16026689 TTGGGTGATT
* * * * *
16026699 TGAGCGCCAGTGTAAGACATTTCTAGGACATGCTTCGGCCACATTA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCATATTA
* * *
16026745 TGAGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCGGCATCTAGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGCCATAT-TA
** * * * *
16026793 CAAGGGCTAGTTTAAGACATGTTTGGGACATGCATCAGCCATATTA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCATATTA
16026839 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
16026878 ATACAGAGAT
Statistics
Matches: 104, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
46 35 0.34
47 46 0.44
48 23 0.22
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (45 bp):
TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCATATTA
Found at i:16026902 original size:48 final size:48
Alignment explanation
Indices: 16026844--16026961 Score: 193
Period size: 48 Copynumber: 2.5 Consensus size: 48
16026834 TATTATGAGA
*
16026844 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGATACAGAGATAAGT
1 GCCAGAGTAAGACCATGTCTGGGACATGGCATCGATACAGAGATAAGT
* * *
16026892 GCCAGAGTAAGACCAGGTCTGGGACATGGCATCGGTACAGAGATGAGT
1 GCCAGAGTAAGACCATGTCTGGGACATGGCATCGATACAGAGATAAGT
16026940 GCCAGAGTAAGA-CATGTCTGGG
1 GCCAGAGTAAGACCATGTCTGGG
16026962 GCATCTATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 9 0.14
48 56 0.86
ACGTcount: A:0.30, C:0.19, G:0.33, T:0.19
Consensus pattern (48 bp):
GCCAGAGTAAGACCATGTCTGGGACATGGCATCGATACAGAGATAAGT
Found at i:16026904 original size:94 final size:94
Alignment explanation
Indices: 16026704--16026877 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 94
16026694 TGATTTGAGC
* * *
16026704 GCCAGTGTAAGACAT-TTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTT-TGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGT
* *
16026768 CTGGGACATTGCATCGGCATCTAGACAAGG
65 CTGGGACATGGCATCGGCATCGAGACAAGG
* * *
16026798 GCTAGTTTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTC
16026863 TGGGACATGGCATCG
66 TGGGACATGGCATCG
16026878 ATACAGAGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 70 0.97
95 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATCGAGACAAGG
Found at i:16034914 original size:46 final size:47
Alignment explanation
Indices: 16034844--16035017 Score: 142
Period size: 49 Copynumber: 3.6 Consensus size: 47
16034834 TATAATGCCA
* * * *
16034844 ATGCCATGTCCCAGACATGGTCTTACATTG-CTCATC-CATC-AAGTTG
1 ATGCCATGTCCCAGACAT-ATCTTACACTGACT-ATCAAATCGAAGCTG
*
16034890 ATGCCATGTCCAAGACATCATCTTACACTGACTATCGAAATCGAAGCTG
1 ATGCCATGTCCCAGACAT-ATCTTACACTGACTATC-AAATCGAAGCTG
* *
16034939 ATGCCATGTCCCAGACATAGTCTTACACT-AGCTCTCACATATCCG-TGCTG
1 ATGCCATGTCCCAGACATA-TCTTACACTGA-CTATCA-A-AT-CGAAGCTG
* *
16034989 ATGCCATGTCCAAGACATTGTCTTACACT
1 ATGCCATGTCCCAGACA-TATCTTACACT
16035018 CACACCTCTA
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
46 29 0.27
47 2 0.02
48 6 0.06
49 36 0.34
50 31 0.29
51 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATATCTTACACTGACTATCAAATCGAAGCTG
Found at i:16035053 original size:48 final size:46
Alignment explanation
Indices: 16034938--16035109 Score: 165
Period size: 48 Copynumber: 3.7 Consensus size: 46
16034928 AATCGAAGCT
* * * *
16034938 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCCGTGCT
1 GATGCCATGTCCCAGACATTGTCTTACACTA-CAC-CTC-TAT-CGTGCC
*
16034988 GATGCCATGTCCAAGACATTGTCTTACACTCACACCTCTATACGTGCC
1 GATGCCATGTCCCAGACATTGTCTTACACT-ACACCTCTAT-CGTGCC
* *
16035036 GATGCCATGTCCCAGACATGGTCTTACACTAACACATC--TCGTAGCC
1 GATGCCATGTCCCAGACATTGTCTTACACT-ACACCTCTATCGT-GCC
16035082 GATG-CATG-CTCCAGACA-TGTCTTACACT
1 GATGCCATGTC-CCAGACATTGTCTTACACT
16035110 GGCTTACATC
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
44 11 0.10
45 14 0.13
46 8 0.07
48 42 0.39
49 2 0.02
50 30 0.28
51 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATTGTCTTACACTACACCTCTATCGTGCC
Found at i:16035065 original size:98 final size:96
Alignment explanation
Indices: 16034838--16035066 Score: 254
Period size: 98 Copynumber: 2.4 Consensus size: 96
16034828 ATAGGGTATA
* *
16034838 ATGCCAATGCCATGTCCCAGACATGGTCTTACA-TTGCTCATCCATCAAGTTGATGCCATGTCCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTTGATGCCATGTCCA
*
16034902 AGACATCATCTTACACTGACTATCGAAATCG
66 AGACATCATCTTACACTCACTATCGAAATCG
* * * *
16034933 AAGCTGATGCCATGTCCCAGACATAGTCTTACACTAGCTC-TCACAT-ATCCGTGCTGATGCCAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCA--AGT--TGATGCCAT
** * *
16034996 GTCCAAGACATTGTCTTACACTCAC-ACCTCTATA-CG
61 GTCCAAGACATCATCTTACACTCACTA--TCGAAATCG
16035032 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTA
16035067 ACACATCTCG
Statistics
Matches: 112, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
95 32 0.29
96 8 0.07
97 2 0.02
98 33 0.29
99 33 0.29
100 4 0.04
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (96 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTTGATGCCATGTCCA
AGACATCATCTTACACTCACTATCGAAATCG
Found at i:16035119 original size:46 final size:43
Alignment explanation
Indices: 16034988--16035156 Score: 151
Period size: 46 Copynumber: 3.7 Consensus size: 43
16034978 TATCCGTGCT
* * **
16034988 GATGCCATGTCCAAGACATTGTCTTACACTCACACCTCTATACGTGCC
1 GATG-CATGTCC-AGACA-TGTCTTACACTAACACATCTCGA-G-GCC
16035036 GATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTA-GCC
1 GATG-CATGT-CCAGACAT-GTCTTACACTAACACATCTCG-AGGCC
**
16035082 GATGCATGCTCCAGACATGTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCATG-TCCAGACATGTCTTACACTAAC--ACATCTCGAGGCC
*
16035128 GATGCATATCCTAGACATGTCTTACACTA
1 GATGCATGTCC-AGACATGTCTTACACTA
16035157 GTTCTCGTCT
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
44 11 0.10
45 16 0.15
46 42 0.40
47 1 0.01
48 32 0.30
49 3 0.03
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (43 bp):
GATGCATGTCCAGACATGTCTTACACTAACACATCTCGAGGCC
Found at i:16042893 original size:49 final size:50
Alignment explanation
Indices: 16042829--16042954 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 50
16042819 TCAAGTCGAT
* * * *
16042829 GCCATGTCCCAGACATGGTCTTCCACTGACTATCA-AAATCGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCAGAAATCCAGGCCAAC
* * * * * *
16042878 GCCATGTCCCGGACATGGTCTTACACTAACTCTCAGATATCCATGCTAAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCAGAAATCCAGGCCAAC
16042928 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
16042955 TACACCTCTA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
49 31 0.48
50 34 0.52
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAACTATCAGAAATCCAGGCCAAC
Found at i:16042989 original size:48 final size:48
Alignment explanation
Indices: 16042825--16043141 Score: 182
Period size: 46 Copynumber: 6.7 Consensus size: 48
16042815 TCCATCAAGT
* * * *
16042825 CGATGCCATGTCCCAGACATGGTCTTCCACTGACTA--TCAAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATA-CG-TGC
* * * *
16042874 CGACGCCATGTCCCGGACATGGTCTTACACT-A-ACTCTCAGATATCCATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC-CTC---TATACGTGC
** *
16042924 TAATGCCATGTCCCAGACATGGTCTTACACTTACACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGC
* * *
16042972 TGATGCCATGTCCCAGACATGTTCTTACACTGACACATC--T-CGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT-GC
* * * *
16043018 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCT-T--GAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACCTCTATACG-TGC
* * * * *
16043064 CGATG-CATGTTCTAGACAT-ATCTTACACTGGCTCTCGTCTCA-A--TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC-C-TCT-ATACGTGC
16043110 CGATGCCATGTCCCAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
16043142 GCTCTCATAA
Statistics
Matches: 215, Mismatches: 33, Indels: 41
0.74 0.11 0.14
Matches are distributed among these distances:
44 12 0.06
45 17 0.08
46 53 0.25
47 13 0.06
48 53 0.25
49 30 0.14
50 29 0.13
51 5 0.02
52 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGC
Found at i:16043073 original size:46 final size:46
Alignment explanation
Indices: 16042973--16043186 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 46
16042963 TATACGTGCT
* * * *
16042973 GATGCCATGTCCCAGACATGTTCTTACACT-G-ACACATCTCGTAGCC
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCTCTCATCTTGAAGCC
*
16043019 AATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTTGAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTTGAAGCC
* * * * *
16043065 GATGCATGTTCTAGACATATCTTACACTGGCTCTCGTC-TCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTGAA-GCC
*
16043111 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATG--GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CT-TGAAGCC
* **
16043159 GATGCATCTCCCAGACATAACTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
16043187 AGCACACAAA
Statistics
Matches: 138, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 9 0.07
45 19 0.14
46 59 0.43
47 26 0.19
48 24 0.17
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTGAAGCC
Found at i:16043160 original size:48 final size:47
Alignment explanation
Indices: 16042825--16043176 Score: 219
Period size: 48 Copynumber: 7.4 Consensus size: 47
16042815 TCCATCAAGT
* * *
16042825 CGATGCCATGTCCCAGACATGGTCTTCCACTGACTATCA-AAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATAT---GGC
* * *
16042874 CGACGCCATGTCCCGGACATGGTCTTACACTAACTCTCAGATATCCAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC--ATAT--ATGGC
** * * *
16042924 TAATGCCATGTCCCAGACATGGTCTTACACTTACACCTC-TATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-TCTCATATATG-GC
* * * *
16042972 TGATGCCATGTCCCAGACATGTTCTTACACTGACACATC-TCGTA--GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCAT-ATATGGC
* * *
16043018 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCT-TGAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CATATATG--GC
* * * * * *
16043064 CGATG-CATGTTCTAGACAT-ATCTTACACTGGCTCTCGTCTCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAT--ATGGC
*
16043110 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCAT-ATATGGC
*
16043158 CGATG-CATCTCCCAGACAT
1 CGATGCCATGTCCCAGACAT
16043177 AACTTACACT
Statistics
Matches: 244, Mismatches: 35, Indels: 50
0.74 0.11 0.15
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 12 0.05
45 14 0.06
46 48 0.20
47 29 0.12
48 63 0.26
49 37 0.15
50 31 0.13
51 4 0.02
52 1 0.00
54 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATGGC
Found at i:16052032 original size:12 final size:12
Alignment explanation
Indices: 16052015--16052039 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16052005 GGGTGGTTTC
16052015 GTGGCCACACGG
1 GTGGCCACACGG
16052027 GTGGCCACACGG
1 GTGGCCACACGG
16052039 G
1 G
16052040 CGTGTGCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.44, T:0.08
Consensus pattern (12 bp):
GTGGCCACACGG
Found at i:16054078 original size:23 final size:22
Alignment explanation
Indices: 16054052--16054098 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
16054042 GCAATAACAT
* * *
16054052 TTGTAGTATTTATGTACATATAC
1 TTGTACTAATTATATACAT-TAC
16054075 TTGTACTAATTATATACATTAC
1 TTGTACTAATTATATACATTAC
16054097 TT
1 TT
16054099 ATTATTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
TTGTACTAATTATATACATTAC
Found at i:16054462 original size:25 final size:25
Alignment explanation
Indices: 16054434--16054483 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
16054424 GAATTTCAAG
*
16054434 TTAGAGTTGAGAAAATGATTGGATT
1 TTAGAATTGAGAAAATGATTGGATT
16054459 TTAGAATTGAGAAAATGATTGGATT
1 TTAGAATTGAGAAAATGATTGGATT
16054484 GTAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (25 bp):
TTAGAATTGAGAAAATGATTGGATT
Found at i:16058217 original size:18 final size:18
Alignment explanation
Indices: 16058184--16058220 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16058174 TTATAAGATG
**
16058184 TTATAAATTGGTTTAAAT
1 TTATAAATTGAATTAAAT
16058202 TTATAAATTGAATTAAAT
1 TTATAAATTGAATTAAAT
16058220 T
1 T
16058221 ATCATATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (18 bp):
TTATAAATTGAATTAAAT
Found at i:16066760 original size:16 final size:16
Alignment explanation
Indices: 16066739--16066781 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
16066729 GTAGATCAGC
16066739 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
*
16066755 AAAAGCCGAAATGCTG
1 AAAAGCCGAAATGCCG
*
16066771 AAAAGCTGAAA
1 AAAAGCCGAAA
16066782 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:16066778 original size:8 final size:8
Alignment explanation
Indices: 16066739--16066781 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
16066729 GTAGATCAGC
16066739 AAAAGCCG
1 AAAAGCCG
*
16066747 AAATGCCG
1 AAAAGCCG
16066755 AAAAGCCG
1 AAAAGCCG
* *
16066763 AAATGCTG
1 AAAAGCCG
*
16066771 AAAAGCTG
1 AAAAGCCG
16066779 AAA
1 AAA
16066782 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:16067054 original size:29 final size:29
Alignment explanation
Indices: 16066994--16067087 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
16066984 AAGCATGTAC
*
16066994 ATGAATGTGATTTGGGCCTAATGGG-TCGT
1 ATGAATGTGATTTGGGCCTAATGGGCT-AT
16067023 ATGAATGTGATTTGGGCCTAATGGGCTAT
1 ATGAATGTGATTTGGGCCTAATGGGCTAT
* * * *
16067052 ATGAATGAGA-TTGGGCTTAGTGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCTAT
*
16067080 ATGCATGT
1 ATGAATGT
16067088 TTGTAGACTT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
28 21 0.37
29 35 0.61
30 1 0.02
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.33
Consensus pattern (29 bp):
ATGAATGTGATTTGGGCCTAATGGGCTAT
Found at i:16070700 original size:2 final size:2
Alignment explanation
Indices: 16070695--16070728 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
16070685 TATGTATATA
* *
16070695 TG TG TG TG TG TG TG TG TG TG CG TG TG TG CG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
16070729 ACCAAACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.06, G:0.50, T:0.44
Consensus pattern (2 bp):
TG
Found at i:16070879 original size:2 final size:2
Alignment explanation
Indices: 16070866--16070910 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
16070856 CTTAGCATAT
*
16070866 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
16070908 AC A
1 AC A
16070911 GACATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.47, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:16078177 original size:79 final size:82
Alignment explanation
Indices: 16078066--16078250 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
16078056 GCTACTCGTT
* * *
16078066 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
16078129 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
16078146 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
16078209 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
16078226 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16078251 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:16078250 original size:40 final size:40
Alignment explanation
Indices: 16078047--16078250 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
16078037 CGGAATTTAA
** *
16078047 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
16078087 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
16078127 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16078166 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
16078206 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
16078246 CCGGA
1 CCGGA
16078251 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16100394 original size:15 final size:15
Alignment explanation
Indices: 16100376--16100459 Score: 70
Period size: 15 Copynumber: 5.7 Consensus size: 15
16100366 GGGTTAGGTT
16100376 ATTTTTATTTTAGGG
1 ATTTTTATTTTAGGG
16100391 ATTTTT-TCTTTAGGG
1 ATTTTTAT-TTTAGGG
*
16100406 -TTTTTCAATTTTTGGG
1 ATTTTT--ATTTTAGGG
* *
16100422 ATTTTT-GTCTAGGG
1 ATTTTTATTTTAGGG
16100436 -TTTTTGATTTT-GGG
1 ATTTTT-ATTTTAGGG
16100450 ATTTTTATTT
1 ATTTTTATTT
16100460 ATTGTTTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
13 5 0.09
14 18 0.33
15 20 0.36
16 6 0.11
17 6 0.11
ACGTcount: A:0.14, C:0.04, G:0.20, T:0.62
Consensus pattern (15 bp):
ATTTTTATTTTAGGG
Found at i:16100435 original size:30 final size:29
Alignment explanation
Indices: 16100377--16100455 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
16100367 GGTTAGGTTA
*
16100377 TTTTT-ATTTTAGGGATTTTTTCTTTAGGG
1 TTTTTAATTTTTGGGATTTTTTC-TTAGGG
16100406 TTTTTCAATTTTTGGGATTTTTGTC-TAGGG
1 TTTTT-AATTTTTGGGATTTTT-TCTTAGGG
*
16100436 TTTTTGA-TTTTGGGATTTTT
1 TTTTTAATTTTTGGGATTTTT
16100456 ATTTATTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 13 0.29
29 6 0.13
30 10 0.22
31 14 0.31
32 2 0.04
ACGTcount: A:0.13, C:0.04, G:0.22, T:0.62
Consensus pattern (29 bp):
TTTTTAATTTTTGGGATTTTTTCTTAGGG
Found at i:16100473 original size:28 final size:28
Alignment explanation
Indices: 16100382--16100474 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
16100372 GGTTATTTTT
16100382 ATTTTAGGGATTTTT-TCTTTAGGGTTTTTCA
1 ATTTT-GGGATTTTTATC--TAGGG-TTTTCA
* **
16100413 ATTTTTGGGATTTTTGTCTAGGGTTTTTG
1 A-TTTTGGGATTTTTATCTAGGGTTTTCA
* **
16100442 ATTTTGGGATTTTTATTTATTGTTTTCA
1 ATTTTGGGATTTTTATCTAGGGTTTTCA
16100470 ATTTT
1 ATTTT
16100475 TGAGACATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
28 26 0.50
29 5 0.10
30 5 0.10
31 10 0.19
32 6 0.12
ACGTcount: A:0.15, C:0.04, G:0.19, T:0.61
Consensus pattern (28 bp):
ATTTTGGGATTTTTATCTAGGGTTTTCA
Found at i:16101441 original size:18 final size:18
Alignment explanation
Indices: 16101400--16101451 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
16101390 GCAGTAAAGA
16101400 TGGTAAGGGTGGTG-AGG
1 TGGTAAGGGTGGTGAAGG
*
16101417 T--TGAGGGTGGTGAAGG
1 TGGTAAGGGTGGTGAAGG
*
16101433 TGGTAAGGGTGTTGAAGG
1 TGGTAAGGGTGGTGAAGG
16101451 T
1 T
16101452 TTAAATAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 10 0.34
16 4 0.14
17 1 0.03
18 14 0.48
ACGTcount: A:0.19, C:0.00, G:0.54, T:0.27
Consensus pattern (18 bp):
TGGTAAGGGTGGTGAAGG
Found at i:16101541 original size:33 final size:33
Alignment explanation
Indices: 16101462--16101542 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
16101452 TTAAATAGGA
* **
16101462 AGGGTGCTAAGGTAACTAGCAGTAAAGGTGGTG
1 AGGGTGCTGAGGTTGCTAGCAGTAAAGGTGGTG
*
16101495 AGGGTACTGAGGTTGCTAGCAGTAAAGGTGGTG
1 AGGGTGCTGAGGTTGCTAGCAGTAAAGGTGGTG
16101528 AGGGTGCTGAGGTTG
1 AGGGTGCTGAGGTTG
16101543 AAAGTGGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.25, C:0.09, G:0.43, T:0.23
Consensus pattern (33 bp):
AGGGTGCTGAGGTTGCTAGCAGTAAAGGTGGTG
Found at i:16103565 original size:47 final size:47
Alignment explanation
Indices: 16103494--16103904 Score: 759
Period size: 47 Copynumber: 8.7 Consensus size: 47
16103484 CCCTTCGGGA
* * * * * *
16103494 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16103541 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16103588 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16103635 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16103682 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16103729 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16103776 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16103823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16103870 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
16103905 AGAATCCTAA
Statistics
Matches: 356, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 356 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16105066 original size:18 final size:18
Alignment explanation
Indices: 16105043--16105084 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
16105033 CATATGCATT
16105043 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
16105061 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
16105079 TTTAAT
1 TTTAAT
16105085 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:16107891 original size:40 final size:40
Alignment explanation
Indices: 16107859--16108165 Score: 462
Period size: 40 Copynumber: 7.8 Consensus size: 40
16107849 CCAGCATGAT
* * *
16107859 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
16107899 TGCTATTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
16107939 TGCTCCTCAGGACTTAGCCCGG----AT-ACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
16107974 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
16108014 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
16108054 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
16108094 TGCTCTTCGGGACATAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
16108134 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
16108166 CTCAATTCTC
Statistics
Matches: 244, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
35 31 0.13
36 2 0.01
39 2 0.01
40 209 0.86
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:16112371 original size:40 final size:40
Alignment explanation
Indices: 16112312--16112443 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
16112302 CATTTGAATG
* *
16112312 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGA-T
* * *
16112352 TTATCCGGGCTAAGGCCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGAT
* * *
16112392 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGAT
16112432 ATATCC-GGCTAA
1 ATATCCGGGCTAA
16112444 ATTCCGAAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.08
40 71 0.89
41 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGAT
Found at i:16119021 original size:49 final size:51
Alignment explanation
Indices: 16118909--16119041 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 51
16118899 GCACATCAAA
* *
16118909 ATCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGT
1 ATCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATTCAGGT
* * * * *
16118960 -T-GATGTCGTGTCCTAGACAGGTTTTACACTTG-CTCTCATCTA-TCA-GT
1 ATCGATGCCATGTCCCAGACAGGTCTTACAC-TGACTCTCATATATTCAGGT
*
16119007 ATCGATGCCATGTCCCAGACAGGTCTTACAATGAC
1 ATCGATGCCATGTCCCAGACAGGTCTTACACTGAC
16119042 ACGCAACAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
47 2 0.03
48 5 0.08
49 56 0.85
50 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (51 bp):
ATCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATTCAGGT
Found at i:16119140 original size:48 final size:47
Alignment explanation
Indices: 16119059--16119224 Score: 183
Period size: 48 Copynumber: 3.5 Consensus size: 47
16119049 AAGCTAATGC
* * * *
16119059 CATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TGTATATCTTGAGGCCGATG
* * * **
16119107 TATGTCCTAGACATGTCTTACACTGGCTGGTATATCTTTAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTGGCT-GTATATCTTGAGGCCGATG
* * *
16119155 CATGTCCCAGACATGTCTTACACTGGCTCTCA-AT-TTGTGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTGT-ATATCTTGAGGCCGATG
16119201 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
16119225 AGCACACATA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 31 0.31
47 4 0.04
48 64 0.65
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTGTATATCTTGAGGCCGATG
Found at i:16124640 original size:24 final size:24
Alignment explanation
Indices: 16124586--16124680 Score: 113
Period size: 24 Copynumber: 4.0 Consensus size: 24
16124576 GCTTTATCAT
*
16124586 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
16124611 ATAACTGGGGCAAAATCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
16124635 ACAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
16124658 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16124681 GCACTTCCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.35
24 28 0.47
25 11 0.18
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16124663 original size:23 final size:23
Alignment explanation
Indices: 16124607--16124679 Score: 101
Period size: 23 Copynumber: 3.1 Consensus size: 23
16124597 CCTAGCCTCT
* *
16124607 TTTAATAACTGGGGCAAAATCCC
1 TTTAATAACTGGGGCATAAGCCC
*
16124630 TTTTAACAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
16124654 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
16124677 TTT
1 TTT
16124680 TGCACTTCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 24 0.55
24 20 0.45
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:16124755 original size:20 final size:20
Alignment explanation
Indices: 16124730--16124794 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
16124720 ATGAATACAC
16124730 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
16124750 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
16124770 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
16124790 CATGT
1 CATGT
16124795 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:16124761 original size:11 final size:11
Alignment explanation
Indices: 16124730--16124783 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
16124720 ATGAATACAC
16124730 CATGTGCATAT
1 CATGTGCATAT
*
16124741 CA--TACATAT
1 CATGTGCATAT
16124750 CATGTGCATAT
1 CATGTGCATAT
* *
16124761 CA--TACATGT
1 CATGTGCATAT
16124770 CATGTGCATAT
1 CATGTGCATAT
16124781 CAT
1 CAT
16124784 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:16130647 original size:49 final size:48
Alignment explanation
Indices: 16130498--16130715 Score: 139
Period size: 49 Copynumber: 4.6 Consensus size: 48
16130488 TAAGATGCCA
* * * *
16130498 ATGCCATGTCTCAGACATGGTCTTACACTGGC-TAGCACATCAA--AGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGACAT-TCATAT-AACGAGTCG
** *
16130546 ATGCCATGTCCCAGACAGGTCTTACACTGACATTCATATATTGAGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACATTCATATAACGAGTC-G
* ** * *
16130595 ATGCCGTGTCCCAGATGGGTCTTACACTGGC-TCTCATCTAACGATGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACAT-TCATATAACGA-GTCG
** * * *
16130644 ATGCCATGTCTTAGACAGGTCTTACATTGACA--C--ACAACAAG-CTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACATTCATATAACGAGTC-G
* *
16130688 ATGCCATGTCCCAAATAGGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
16130716 AGCTTGTATA
Statistics
Matches: 133, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 25 0.19
45 4 0.03
46 1 0.01
47 18 0.14
48 21 0.16
49 61 0.46
50 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACATTCATATAACGAGTCG
Found at i:16130759 original size:48 final size:48
Alignment explanation
Indices: 16130687--16130857 Score: 193
Period size: 48 Copynumber: 3.6 Consensus size: 48
16130677 ACAACAAGCT
* * *
16130687 GATGCCATGTCCCAAATAGGTCTTACACTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* * * * ** *
16130736 GATGCATGTCCCAGACTTATCTTACACTAGC-TCT-CATCTTAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* *
16130782 GATGCATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* *
16130830 AATGTATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
16130858 GGCTCTCAAT
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
46 36 0.36
47 3 0.03
48 56 0.57
49 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
Found at i:16130807 original size:94 final size:95
Alignment explanation
Indices: 16130687--16130865 Score: 261
Period size: 94 Copynumber: 1.9 Consensus size: 95
16130677 ACAACAAGCT
* * *
16130687 GATGCCATGTCCCAAATAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAAACAGGTCTTACACTAGCTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
*
16130752 TTATCTTACACTAGCTCTCATCTTAATGCC
66 ATATCTTACACTAGCTCTCATCTTAATGCC
* * * *
16130782 GATG-CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCAATGTATGTCCCAGAC
1 GATGCCATGTCCCAAACAGGTCTTACACTAGCTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
* *
16130846 ATGTCTTACACTGGCTCTCA
66 ATATCTTACACTAGCTCTCA
16130866 ATGTGGTCGA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 70 0.95
95 4 0.05
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (95 bp):
GATGCCATGTCCCAAACAGGTCTTACACTAGCTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
ATATCTTACACTAGCTCTCATCTTAATGCC
Found at i:16135153 original size:197 final size:196
Alignment explanation
Indices: 16134818--16135211 Score: 707
Period size: 197 Copynumber: 2.0 Consensus size: 196
16134808 TCATCATAGG
* * * *
16134818 CATCTTGTAACTCATAAAGAGAATAGGAAATTGAAATTGATTAGTTAGAAGTTACCTTTGGATCA
1 CATCTTGTAACTCAAAAAAAGAATAGGAAATTGAAATTGATTAGCTAGAAGTTACCTTTGAATCA
* *
16134883 TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGGATGAATCCTTATTTCT
66 TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGAATGAATCCTTATTACT
* *
16134948 TCAAGTAGCAACATGAACCTTGAGCTTTTGTTTAAATGACCCTTTTTTTCTTCCATTGGGGACAA
131 TCAAGTAGCAACATGAACCTTGAGCTTTTGTTTAAATGA-CCGTTTTTTATTCCATTGGGGACAA
16135013 GA
195 GA
16135015 CATCTTGTAACTCAAAAAAAGAATAGGAAATTGAAATTGATTAGCTAGAAGTTACCTTTGAATCA
1 CATCTTGTAACTCAAAAAAAGAATAGGAAATTGAAATTGATTAGCTAGAAGTTACCTTTGAATCA
16135080 TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGAATGAATCCTTATTACT
66 TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGAATGAATCCTTATTACT
16135145 TCAAGTAGCAACATGAACCTTGAGCTTTTGTTTAAATGACCGTTTTTTATTCCATTGGGGACAAG
131 TCAAGTAGCAACATGAACCTTGAGCTTTTGTTTAAATGACCGTTTTTTATTCCATTGGGGACAAG
16135210 A
196 A
16135211 C
1 C
16135212 CGCCTCCAGA
Statistics
Matches: 189, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
196 26 0.14
197 163 0.86
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (196 bp):
CATCTTGTAACTCAAAAAAAGAATAGGAAATTGAAATTGATTAGCTAGAAGTTACCTTTGAATCA
TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGAATGAATCCTTATTACT
TCAAGTAGCAACATGAACCTTGAGCTTTTGTTTAAATGACCGTTTTTTATTCCATTGGGGACAAG
A
Found at i:16136892 original size:29 final size:28
Alignment explanation
Indices: 16136795--16136885 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
16136785 TACCTGTATC
* *
16136795 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCA-ATTTATA
* *
16136823 TGGCCCATTACGCCCAAATCAACTGTATA
1 TGGCCCATTAGGCCCAAATCAA-TTTATA
*
16136852 TGACCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCA-ATTTATA
16136881 TGGCC
1 TGGCC
16136886 TGTTAGGTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
28 15 0.28
29 37 0.70
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCAATTTATA
Found at i:16136990 original size:17 final size:18
Alignment explanation
Indices: 16136968--16137001 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16136958 TTCCTATTAT
16136968 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
16136985 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
16137002 TCCGACTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:16141417 original size:29 final size:29
Alignment explanation
Indices: 16141346--16141449 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
16141336 TTCACATACT
* * * *
16141346 TGTATCTGGCCCATTAAGCCC-AATTATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
16141374 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
16141403 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
16141432 TTTATATGGCCCGTTAGG
1 TGTATATGGCCCATTAGG
16141450 TCCAGTCACA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 17 0.26
29 46 0.71
30 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:16145758 original size:18 final size:19
Alignment explanation
Indices: 16145735--16145770 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16145725 ATGTTATGTT
*
16145735 GGTATC-ATTTTTCAAAAG
1 GGTATCGATATTTCAAAAG
16145753 GGTATCGATATTTCAAAA
1 GGTATCGATATTTCAAAA
16145771 ATATCGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GGTATCGATATTTCAAAAG
Found at i:16148085 original size:23 final size:23
Alignment explanation
Indices: 16148041--16148091 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
16148031 ACCACACAAG
16148041 GCATCGAGGTGCAAAACCCGTAA
1 GCATCGAGGTGCAAAACCCGTAA
* * * *
16148064 GCATTGAGGTGCAAGACTCGTAG
1 GCATCGAGGTGCAAAACCCGTAA
16148087 GCATC
1 GCATC
16148092 AAATGTTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (23 bp):
GCATCGAGGTGCAAAACCCGTAA
Found at i:16149753 original size:68 final size:65
Alignment explanation
Indices: 16149539--16149760 Score: 177
Period size: 64 Copynumber: 3.4 Consensus size: 65
16149529 CAAAATTTTG
* *
16149539 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAG---CCTCT-TTATCTAG
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC-A-
16149600 TA
64 TA
** * * * * * * * * * *
16149602 GCTCTCTTGTTTACATGGCGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCCA-TCTC
1 GCTCTCTTGTACACAT-G-GT-GTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC
*
16149666 GTA
63 ATA
16149669 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTC-T-AT-TCT
16149733 CATA
62 CATA
*
16149737 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
16149761 TCCCATATTA
Statistics
Matches: 118, Mismatches: 28, Indels: 21
0.71 0.17 0.13
Matches are distributed among these distances:
63 14 0.12
64 28 0.24
65 4 0.03
66 22 0.19
67 16 0.14
68 27 0.23
69 7 0.06
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCATA
Found at i:16149786 original size:68 final size:68
Alignment explanation
Indices: 16149662--16149788 Score: 150
Period size: 68 Copynumber: 1.9 Consensus size: 68
16149652 GCTACATCCA
* * * *
16149662 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATA
1 TCTCATAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
16149727 ATG
66 ATG
* * * *
16149730 TCTCATAGCTCTCTTGTAC-ACATGGTATACATCCCA-TATTACACATGTGACTTAGCTAC
1 TCTCATAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
16149789 ATACCATCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
68 46 0.94
69 3 0.06
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (68 bp):
TCTCATAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
ATG
Found at i:16153166 original size:133 final size:133
Alignment explanation
Indices: 16152926--16153195 Score: 337
Period size: 133 Copynumber: 2.0 Consensus size: 133
16152916 GTGTGCCTAT
* * *
16152926 ACCTATAATTGTAATCGTATTTTTAATGCTCACACGAGCTGTGAAGTGGGATTGATCACACGAGC
1 ACCTATAATTGTAATCGTATCTGTAATGCTCACACGAGCTGTGAAATGGGATTGATCACACGAGC
* * * * * * *
16152991 TGTAGGTCGGGATGTAGGTCACACAATGTTGTTTACATGAGCTGCGAAGAATCCGCAACAGATCC
66 TATAGGTCGGGATGTAGCTCACACAATGCTGTTCACACGAGCTGCGAAGAATCCACAACAAATCC
*
16153056 AGG
131 AGA
* *
16153059 ACCTATAATTGTAATCGTATCTGTAATGCTCACATGAGCTGTGAAATGGGATTGCTCACACGAGC
1 ACCTATAATTGTAATCGTATCTGTAATGCTCACACGAGCTGTGAAATGGGATTGATCACACGAGC
** * ** *
16153124 TATAGGT-GAGGATGTAAGCT-GGACGATGCTGTTCACACGAGCTTTGGAGAATCCACAACAAAT
66 TATAGGTCG-GGATGT-AGCTCACACAATGCTGTTCACACGAGCTGCGAAGAATCCACAACAAAT
16153187 CCAGA
129 CCAGA
16153192 ACCT
1 ACCT
16153196 CAGCCATCAA
Statistics
Matches: 116, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
132 1 0.01
133 112 0.97
134 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (133 bp):
ACCTATAATTGTAATCGTATCTGTAATGCTCACACGAGCTGTGAAATGGGATTGATCACACGAGC
TATAGGTCGGGATGTAGCTCACACAATGCTGTTCACACGAGCTGCGAAGAATCCACAACAAATCC
AGA
Found at i:16159706 original size:97 final size:96
Alignment explanation
Indices: 16159537--16159745 Score: 258
Period size: 97 Copynumber: 2.2 Consensus size: 96
16159527 AAAATTTTGG
* * * * * * *
16159537 AAATAAGGGTCACACGACCATTGGCCAGCCTGTATGATAAAGCCCCGGCCATGTCGCTCAGGGAC
1 AAATATGGGTCACACGACCATTGACCAGCCTATATGACAAAGCCCAGGCCATGTCACTCAAGGAC
* * **
16159602 ATGGTCATGTGCCTAAACTGTGTACAATTCA
66 ATAGTCATGTACCTAAACCATGTACAATTCA
* *
16159633 AAATATGGGTCACAC-AGCCATGTGACCAGGCTATATGACAAAGCCTAGGCCATGTCACTCAAGG
1 AAATATGGGTCACACGA-CCAT-TGACCAGCCTATATGACAAAGCCCAGGCCATGTCACTCAAGG
*
16159697 ACATAGTCATGTACCTAAACCATGTACAATTCG
64 ACATAGTCATGTACCTAAACCATGTACAATTCA
*
16159730 AAATATGGGTTACACG
1 AAATATGGGTCACACG
16159746 GTCGTGTCTC
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
95 1 0.01
96 18 0.19
97 76 0.80
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (96 bp):
AAATATGGGTCACACGACCATTGACCAGCCTATATGACAAAGCCCAGGCCATGTCACTCAAGGAC
ATAGTCATGTACCTAAACCATGTACAATTCA
Found at i:16163343 original size:80 final size:80
Alignment explanation
Indices: 16163166--16163373 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
16163156 TTATAATGCT
* * *
16163166 TTCAGAGGTACCGAAGTACAAATAGGGGCACATGTGTGCATTCAAGGGTACCGTAGTACAAAAAG
1 TTCAGAGGTATCGAAGTACAAATAGGGGCACGTGTGTGCATTCAGGGGTACCGTAGTACAAAAAG
* * * ** *
16163231 GGGCATGTATGTGCA
66 CGACACGTACCTACA
* * *
16163246 TTCATG-GATATCGAAGTACAAATAAGGGCACGTGTGTGCATTCAGGGGTATCGTAGTACAAACA
1 TTCA-GAGGTATCGAAGTACAAATAGGGGCACGTGTGTGCATTCAGGGGTACCGTAGTACAAA-A
16163310 A-CGACACGTACCTACA
64 AGCGACACGTACCTACA
* * * *
16163326 TTTAGAGGTATCAAAGTACAAATAGGGGCACGTATGTACATTCAGGGG
1 TTCAGAGGTATCGAAGTACAAATAGGGGCACGTGTGTGCATTCAGGGG
16163374 AACTGAAGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 103 0.96
81 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (80 bp):
TTCAGAGGTATCGAAGTACAAATAGGGGCACGTGTGTGCATTCAGGGGTACCGTAGTACAAAAAG
CGACACGTACCTACA
Found at i:16163383 original size:40 final size:40
Alignment explanation
Indices: 16163166--16163373 Score: 191
Period size: 40 Copynumber: 5.2 Consensus size: 40
16163156 TTATAATGCT
* * * *
16163166 TTCAGAGGTACCGAAGTACAAATAGGGGCACATGTGTGCA
1 TTCAGGGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
* * * * *
16163206 TTCAAGGGTACCGTAGTACAAAAAGGGGCATGTATGTGCA
1 TTCAGGGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
* * * *
16163246 TTCATGGATATCGAAGTACAAATAAGGGCACGTGTGTGCA
1 TTCAGGGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
* * ** * ** *
16163286 TTCAGGGGTATCGTAGTACAAACAACGACACGTACCTACA
1 TTCAGGGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
* * * *
16163326 TTTAGAGGTATCAAAGTACAAATAGGGGCACGTATGTACA
1 TTCAGGGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
16163366 TTCAGGGG
1 TTCAGGGG
16163374 AACTGAAGTA
Statistics
Matches: 131, Mismatches: 37, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (40 bp):
TTCAGGGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
Found at i:16166413 original size:31 final size:31
Alignment explanation
Indices: 16166370--16166461 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 31
16166360 GTGCATCAAT
* *
16166370 CATTCATTTTTGCATATTCATACCTTATAAC
1 CATTCATATTTGCATATTCATACCCTATAAC
**
16166401 CATTCATATTTGCATATTCATACCCTATAGT
1 CATTCATATTTGCATATTCATACCCTATAAC
* * *
16166432 CATTCGTATTTACATTTTTCATACCCTATA
1 CATTCATATTTGCA-TATTCATACCCTATA
16166462 GTCATTTGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 39 0.74
32 14 0.26
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.45
Consensus pattern (31 bp):
CATTCATATTTGCATATTCATACCCTATAAC
Found at i:16166458 original size:32 final size:32
Alignment explanation
Indices: 16166386--16166493 Score: 137
Period size: 32 Copynumber: 3.4 Consensus size: 32
16166376 TTTTTGCATA
* ** * * *
16166386 TTCATACCTTATAACCATTCATATTTGCA-TA
1 TTCATACCCTATAGTCATTCGTATTTACATTT
16166417 TTCATACCCTATAGTCATTCGTATTTACATTT
1 TTCATACCCTATAGTCATTCGTATTTACATTT
*
16166449 TTCATACCCTATAGTCATTTGTATTTACATTT
1 TTCATACCCTATAGTCATTCGTATTTACATTT
*
16166481 TTAATACCCTATA
1 TTCATACCCTATA
16166494 CACTGTACTA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
31 24 0.35
32 44 0.65
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (32 bp):
TTCATACCCTATAGTCATTCGTATTTACATTT
Found at i:16170104 original size:34 final size:34
Alignment explanation
Indices: 16170044--16170108 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
16170034 ACTGATATGC
**
16170044 GCTAAGGCCCAGACTACTTTTATTACTAAAATGG
1 GCTAAGGCCCAGACTACTACTATTACTAAAATGG
* *
16170078 GCTAAGGCCCAGACTGCTACTGTTACTAAAA
1 GCTAAGGCCCAGACTACTACTATTACTAAAA
16170109 AAGGGGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (34 bp):
GCTAAGGCCCAGACTACTACTATTACTAAAATGG
Found at i:16173202 original size:17 final size:18
Alignment explanation
Indices: 16173180--16173223 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
16173170 GGTTAAACCT
*
16173180 ATTTATAATTTTTA-ATA
1 ATTTATAATTTTTATAAA
*
16173197 ATTTATTATTTTTATAAA
1 ATTTATAATTTTTATAAA
16173215 ATTT-TAATT
1 ATTTATAATT
16173224 AATTATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTATAATTTTTATAAA
Found at i:16176177 original size:33 final size:33
Alignment explanation
Indices: 16176140--16176208 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
16176130 GTCTTATTGC
*
16176140 TTAATATGGATGTATGCTAATAAATCGATAAGT
1 TTAATATGGATGTATGCTAAAAAATCGATAAGT
*
16176173 TTAATATGGATGTATGCTAAAAAATCGGTAAGT
1 TTAATATGGATGTATGCTAAAAAATCGATAAGT
16176206 TTA
1 TTA
16176209 CTTTCCAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (33 bp):
TTAATATGGATGTATGCTAAAAAATCGATAAGT
Found at i:16186283 original size:13 final size:14
Alignment explanation
Indices: 16186244--16186284 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
16186234 GGAGATTTAC
16186244 AATTTTTATAAAATT
1 AATTTTTATAAAA-T
*
16186259 AAATTTTA-AAAAT
1 AATTTTTATAAAAT
16186272 -ATTTTTATAAAAT
1 AATTTTTATAAAAT
16186285 TTATATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.26
13 6 0.26
14 4 0.17
15 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTTTTATAAAAT
Found at i:16194853 original size:37 final size:37
Alignment explanation
Indices: 16194803--16194881 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
16194793 TTATTACGAA
* * *
16194803 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
16194840 GTCTTACCCGGACAAAATCCCCACGCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
16194877 GTCTT
1 GTCTT
16194882 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:16195078 original size:47 final size:47
Alignment explanation
Indices: 16195000--16195954 Score: 1838
Period size: 47 Copynumber: 20.3 Consensus size: 47
16194990 CCCTTCGGGA
* * * * * *
16195000 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16195047 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195094 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195141 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195188 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195235 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195282 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195329 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195376 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195423 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195470 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195517 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195564 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195658 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195705 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195752 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195799 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195846 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195893 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16195940 CTTATCACATATATA
1 CTTATCACATATATA
16195955 TACACATCAC
Statistics
Matches: 898, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 898 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16200726 original size:18 final size:18
Alignment explanation
Indices: 16200703--16200744 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
16200693 GGCCCAGAAT
16200703 CCCACACACCT-GTGTGGG
1 CCCACACACCTCGTGT-GG
*
16200721 CCCACA-AGCTCGTGTGG
1 CCCACACACCTCGTGTGG
16200738 CCCACAC
1 CCCACAC
16200745 GGCCCAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.19, C:0.43, G:0.24, T:0.14
Consensus pattern (18 bp):
CCCACACACCTCGTGTGG
Found at i:16201830 original size:27 final size:27
Alignment explanation
Indices: 16201790--16201842 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
16201780 GGGGCGTTAC
16201790 AACTCTATCCCCTAAAAGAAAATTTTA
1 AACTCTATCCCCTAAAAGAAAATTTTA
*
16201817 AACTCTATCTCCTAAAAGAAAATTTT
1 AACTCTATCCCCTAAAAGAAAATTTT
16201843 GACCTCGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (27 bp):
AACTCTATCCCCTAAAAGAAAATTTTA
Found at i:16206412 original size:27 final size:27
Alignment explanation
Indices: 16206382--16206433 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
16206372 ATATTATGAC
* *
16206382 AGAGTCACCAG-ATACAGATATTGTGGT
1 AGAGCCACCAGAAT-CAGATAATGTGGT
16206409 AGAGCCACCAGAATCAGATAATGTG
1 AGAGCCACCAGAATCAGATAATGTG
16206434 ACAAAGCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (27 bp):
AGAGCCACCAGAATCAGATAATGTGGT
Found at i:16206641 original size:78 final size:78
Alignment explanation
Indices: 16206512--16206723 Score: 352
Period size: 78 Copynumber: 2.7 Consensus size: 78
16206502 CAATATCGAT
* * * *
16206512 ACGAAGCCCACAATAACGGCACACAACCTTTGGTAACATGACCGGCACTCAGCTATTGATAACGG
1 ACGAAGCCTACAATAACGGCACACAGCCTTCGGTAACATGACCGGCACTCAGCCATTGATAACGG
*
16206577 GTCTATAATCGGC
66 GTCTATAATCAGC
16206590 ACGAAGCCTACAATAACGGCACACAGCCTTCGGTAACATGACCGGCACTCAGCCATTGATAACGG
1 ACGAAGCCTACAATAACGGCACACAGCCTTCGGTAACATGACCGGCACTCAGCCATTGATAACGG
16206655 GTCTATAATCAGC
66 GTCTATAATCAGC
* **
16206668 ACGAAGCCTACAATAACCGCACACAGCCTTCGGTAACATGATTGGCACTCAGCCAT
1 ACGAAGCCTACAATAACGGCACACAGCCTTCGGTAACATGACCGGCACTCAGCCAT
16206724 CGATCGGTCA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 126 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (78 bp):
ACGAAGCCTACAATAACGGCACACAGCCTTCGGTAACATGACCGGCACTCAGCCATTGATAACGG
GTCTATAATCAGC
Found at i:16206772 original size:27 final size:26
Alignment explanation
Indices: 16206733--16206812 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
16206723 TCGATCGGTC
*
16206733 AACAGATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGACAAAGCCACCAG
** *
16206759 ATACAGATATTGTGGTAGAGCCACCAG
1 A-ACAGATATTGTGACAAAGCCACCAG
* *
16206786 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAAAGCCACCAG
16206813 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGACAAAGCCACCAG
Found at i:16207069 original size:27 final size:27
Alignment explanation
Indices: 16207040--16207718 Score: 877
Period size: 27 Copynumber: 25.2 Consensus size: 27
16207030 GGGTAAAATG
* * * * *
16207040 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
16207067 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
16207094 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
16207121 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
16207148 GGAATTCTACCCTACAGGGG-ATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16207173 GATATTTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
16207201 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
16207228 GTATTTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
16207255 GTAATTCTACCCTACAGGGGTATTTCGA
1 GTAATTCTACCCTACAGGGGTATTTC-A
* * *
16207283 TGT--TTCTACCTTACAAGGGTATTTCG
1 -GTAATTCTACCCTACAGGGGTATTTCA
* * *
16207309 GTATTTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16207336 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16207363 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16207390 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16207416 GATAATTCTACCCCATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
16207444 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
16207471 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
16207498 ATAATTCTACCATACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16207524 GATAATTCTACCCTACAAGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
16207552 GTAATTCTACCCTATAGGGGTATTGCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
16207579 GTAATTATACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
16207606 GTAATT-TACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
** *
16207632 GTAATTCTACATTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16207659 GTAATTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16207686 GTAATTCTACCCTAGAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
16207713 GTAATT
1 GTAATT
16207719 TTATAAATCG
Statistics
Matches: 574, Mismatches: 66, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
25 3 0.01
26 48 0.08
27 518 0.90
28 3 0.01
29 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:16207732 original size:27 final size:27
Alignment explanation
Indices: 16207675--16208012 Score: 305
Period size: 27 Copynumber: 12.7 Consensus size: 27
16207665 CTACCCTATA
* ** *
16207675 AGGGTATTTCAGTAATTCTAC-CCTAG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
16207701 AAGGGTATTTCAGTAATTTTATAAATCG
1 -AGGGTATTTCAGTAATTTTACAAATCG
*
16207729 AGGGTATTTCAGTAATTTTAC-AATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
16207755 ATGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** * *
16207782 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
16207809 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
*
16207836 AGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
16207863 AAGGTATTTTAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
16207890 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
16207917 AGGGTATTTTAGTAATTTTA-TAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * * *
16207943 ACGATATTTCGGTAATTTTATAAACCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
16207970 AGGGTACTTT-GGTAATTTTAC-AATTG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
16207996 -GGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
16208013 GGTAAATTAA
Statistics
Matches: 257, Mismatches: 45, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
24 3 0.01
25 12 0.05
26 50 0.19
27 183 0.71
28 9 0.04
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:16207790 original size:134 final size:132
Alignment explanation
Indices: 16207245--16207925 Score: 372
Period size: 135 Copynumber: 5.1 Consensus size: 132
16207235 TACCCTACAG
* * * ** * * *
16207245 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATGTTTCTACCTTACAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTA-AAGGGTATTTAG-TAATTCTACCCTAGAAGGGTATTTCAG
** * * **
16207310 T-ATTTCTATCCTATAG-GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGT-ATTTCTA
64 TAATTT-TAT-AAATCGAGGGTATTTCAGTAATTTTACAAT-CAAGGGTATTTCGGTAATTT-TA
** *
16207372 C-CCTACAA
125 CAAAT-CGA
* * * * * * *
16207380 GGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCCATAGGGGTATTTCAA
1 GGGTATTTCGGTAATTCTACCCTA-AAGGGTATTTAG-TAATTCTACCCTAGAAGGGTATTTCAG
* * * * ** * ** *
16207445 TAATTCTACCCTACA--G-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTA
64 TAATTTTA---TAAATCGAGGGTATTTCAGTAATTTTACAAT-CAAGGGTATTTCGGTAATTTTA
* *
16207507 C-CATACAA
125 CAAAT-CGA
* * * *
16207515 GGGTATTTCGATAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTGCAG
1 GGGTATTTCGGTAATTCTACCCTA-AAGGGTA-TTTAGTAATTCTACCCTAGAAGGGTATTTCAG
** ** * * *
16207580 TAA--TTATACCCTAC-AGGGGTATTTCAGTAA-TTTACCCTACAGGGGTATTTCAGTAATTCTA
64 TAATTTTATA-AAT-CGA-GGGTATTTCAGTAATTTTACAAT-CAAGGGTATTTCGGTAATTTTA
*
16207641 C-ATTAC-A
125 CAAAT-CGA
16207648 GGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTAGAAGGGTATTTCA
1 -GGGTATTTCGGTAATTCTACCCTA-AAGGGTATTT-AGTAATTCTACCCTAGAAGGGTATTTCA
* *
16207713 GTAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAATCAATGGTATTTTGGTAATTTTACAA
63 GTAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAATCAAGGGTATTTCGGTAATTTTACAA
16207778 ATCGA
128 ATCGA
* * * * * ** *
16207783 GGATATTTGGGTAATTTTA---TAAACCGGGGGTACTTTGGTAATTTTACAAGTCG-AGGGTATT
1 GGGTATTTCGGTAATTCTACCCTAAA----GGGTA-TTTAGTAATTCTAC-CCTAGAAGGGTATT
* * * * * * *
16207844 TTAGTAATTTTACAAATCGAAGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTT
60 TCAGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAATC-AAGGGTATTTCGGTAATTTT
16207909 ACAAATCGA
124 ACAAATCGA
16207918 GGGTATTT
1 GGGTATTT
16207926 TAGTAATTTT
Statistics
Matches: 453, Mismatches: 66, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
130 4 0.01
131 3 0.01
133 6 0.01
134 202 0.45
135 221 0.49
136 15 0.03
137 1 0.00
138 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (132 bp):
GGGTATTTCGGTAATTCTACCCTAAAGGGTATTTAGTAATTCTACCCTAGAAGGGTATTTCAGTA
ATTTTATAAATCGAGGGTATTTCAGTAATTTTACAATCAAGGGTATTTCGGTAATTTTACAAATC
GA
Found at i:16207825 original size:161 final size:159
Alignment explanation
Indices: 16207672--16208011 Score: 443
Period size: 161 Copynumber: 2.1 Consensus size: 159
16207662 ATTCTACCCT
** *
16207672 ATAAGGGTATTTCAGTAATTCTAC-CCTAGAAGGGTATTTCAGTAATTTTATAAA-TCGAGGGTA
1 ATAAGGGTATTTCAGTAATTCTACAAATAGAA-GGTATTTCAGTAATTTTACAAACT-GAGGGTA
* * * *
16207735 TTTCAGTAATTTTAC-AATCAATGGTATTTTGGTAATTTTACAAATCGAGGATATTTGGGTAATT
64 TTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTA-AAATCGACGATATTTCGGTAATT
16207799 TTATAAACCGGGGGTACTTTGGTAATTTTACA
128 TTATAAACCGGGGGTACTTTGGTAATTTTACA
* * * * * *
16207831 AGTCGAGGGTATTTTAGTAATTTTACAAATCGAAGGTATTTTAGTAATTTTGCAAACTGAGGGTA
1 A-T-AAGGGTATTTCAGTAATTCTACAAATAGAAGGTATTTCAGTAATTTTACAAACTGAGGGTA
* * *
16207896 TTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTATAATCGACGATATTTCGGTAATTT
64 TTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTAAAATCGACGATATTTCGGTAATTT
*
16207961 TATAAACCGAGGGTACTTTGGTAATTTTACA
129 TATAAACCGGGGGTACTTTGGTAATTTTACA
**
16207992 ATTGGGGTATTTCAGTAATT
1 ATAAGGGTATTTCAGTAATT
16208012 TGGTAAATTA
Statistics
Matches: 156, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
159 16 0.10
160 2 0.01
161 111 0.71
162 27 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (159 bp):
ATAAGGGTATTTCAGTAATTCTACAAATAGAAGGTATTTCAGTAATTTTACAAACTGAGGGTATT
TCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTAAAATCGACGATATTTCGGTAATTTTA
TAAACCGGGGGTACTTTGGTAATTTTACA
Found at i:16211282 original size:31 final size:31
Alignment explanation
Indices: 16211247--16211305 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
16211237 TCACACACCC
* *
16211247 ATGTGGCCTTCCCGTGTGGGCTTACACGTCT
1 ATGTGGCCTGCCCGTATGGGCTTACACGTCT
16211278 ATGTGGCCTGCCCGTATGGGCTTACACG
1 ATGTGGCCTGCCCGTATGGGCTTACACG
16211306 CCCATGTAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.12, C:0.29, G:0.31, T:0.29
Consensus pattern (31 bp):
ATGTGGCCTGCCCGTATGGGCTTACACGTCT
Found at i:16213114 original size:8 final size:8
Alignment explanation
Indices: 16213101--16213127 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
16213091 ACTCATTAAT
16213101 AGATAAAA
1 AGATAAAA
16213109 AGATAAAA
1 AGATAAAA
16213117 AGATAAAA
1 AGATAAAA
16213125 AGA
1 AGA
16213128 ATACCAAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (8 bp):
AGATAAAA
Found at i:16213570 original size:25 final size:25
Alignment explanation
Indices: 16213536--16213584 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
16213526 TTATGATATT
16213536 TAATTAACCATACTAAGTATAGACC
1 TAATTAACCATACTAAGTATAGACC
16213561 TAATTAACCATACTAAGTATAGAC
1 TAATTAACCATACTAAGTATAGAC
16213585 TAAGGCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (25 bp):
TAATTAACCATACTAAGTATAGACC
Found at i:16226516 original size:22 final size:23
Alignment explanation
Indices: 16226490--16226535 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16226480 CAACCAATCC
16226490 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16226512 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16226535 A
1 A
16226536 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:16226541 original size:23 final size:23
Alignment explanation
Indices: 16226497--16226541 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16226487 TCCAATTCAA
*
16226497 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16226520 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16226542 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:16229285 original size:5 final size:5
Alignment explanation
Indices: 16229275--16229302 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16229265 ATATATGTTC
16229275 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
16229303 CAAGAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:16234544 original size:79 final size:81
Alignment explanation
Indices: 16234376--16234560 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
16234366 GCTACTCGTT
* *
16234376 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
16234440 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* ** *
16234457 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
16234519 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
16234536 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
16234561 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:16234560 original size:40 final size:40
Alignment explanation
Indices: 16234357--16234560 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
16234347 CGGAATTTAA
** *
16234357 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16234397 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
16234437 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
16234476 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
16234516 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
16234556 CCGGA
1 CCGGA
16234561 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16241363 original size:49 final size:49
Alignment explanation
Indices: 16241289--16241754 Score: 886
Period size: 49 Copynumber: 9.6 Consensus size: 49
16241279 CCCTTCGGGA
* *
16241289 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241336 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241385 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241434 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241483 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241532 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241581 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241630 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241679 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
16241728 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
16241755 TATTCAAATA
Statistics
Matches: 415, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
47 29 0.07
48 1 0.00
49 385 0.93
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:16243269 original size:56 final size:56
Alignment explanation
Indices: 16243202--16243321 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
16243192 TATTAGTTTA
16243202 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
16243258 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
16243314 TTGCCCAT
1 TTGCCCAT
16243322 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:16247797 original size:304 final size:304
Alignment explanation
Indices: 16247248--16247855 Score: 1216
Period size: 304 Copynumber: 2.0 Consensus size: 304
16247238 CTAGTTACAT
16247248 GCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTCGGCCAAGGATGAAC
1 GCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTCGGCCAAGGATGAAC
16247313 CAAAGGATGAACACTTTTTTTTTCTTTCCTTCAACTCACGGCAATGGGGGGGGGACAATCCCACA
66 CAAAGGATGAACACTTTTTTTTTCTTTCCTTCAACTCACGGCAATGGGGGGGGGACAATCCCACA
16247378 CATCCTTTCCTTTTTTTTTGTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
131 CATCCTTTCCTTTTTTTTTGTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
16247443 TTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTTTAGCCTTAACATC
196 TTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTTTAGCCTTAACATC
16247508 TTGTCCACCCATGCTCATGGCCAGCCACTACATATTAGGGGGGG
261 TTGTCCACCCATGCTCATGGCCAGCCACTACATATTAGGGGGGG
16247552 GCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTCGGCCAAGGATGAAC
1 GCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTCGGCCAAGGATGAAC
16247617 CAAAGGATGAACACTTTTTTTTTCTTTCCTTCAACTCACGGCAATGGGGGGGGGACAATCCCACA
66 CAAAGGATGAACACTTTTTTTTTCTTTCCTTCAACTCACGGCAATGGGGGGGGGACAATCCCACA
16247682 CATCCTTTCCTTTTTTTTTGTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
131 CATCCTTTCCTTTTTTTTTGTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
16247747 TTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTTTAGCCTTAACATC
196 TTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTTTAGCCTTAACATC
16247812 TTGTCCACCCATGCTCATGGCCAGCCACTACATATTAGGGGGGG
261 TTGTCCACCCATGCTCATGGCCAGCCACTACATATTAGGGGGGG
16247856 AAATTGACAT
Statistics
Matches: 304, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
304 304 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (304 bp):
GCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTCGGCCAAGGATGAAC
CAAAGGATGAACACTTTTTTTTTCTTTCCTTCAACTCACGGCAATGGGGGGGGGACAATCCCACA
CATCCTTTCCTTTTTTTTTGTTTCTCATCCTACTAACACTAATATTTTATTGCCCATGCTCTTTA
TTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTTTAGCCTTAACATC
TTGTCCACCCATGCTCATGGCCAGCCACTACATATTAGGGGGGG
Found at i:16248030 original size:100 final size:101
Alignment explanation
Indices: 16247856--16248070 Score: 414
Period size: 100 Copynumber: 2.1 Consensus size: 101
16247846 TTAGGGGGGG
16247856 AAATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATC
1 AAATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATC
16247921 ACATTTCAAAAATGTCACCCATAAGTCCTTTTGACT
66 ACATTTCAAAAATGTCACCCATAAGTCCTTTTGACT
16247957 -AATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATC
1 AAATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATC
16248021 ACATTTCAAAAATGTCACCCATAAGTCCTTTTGACT
66 ACATTTCAAAAATGTCACCCATAAGTCCTTTTGACT
*
16248057 AAATTCACATGCAA
1 AAATTGACATGCAA
16248071 TTTACTAAAT
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
100 100 0.89
101 12 0.11
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (101 bp):
AAATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATC
ACATTTCAAAAATGTCACCCATAAGTCCTTTTGACT
Found at i:16249814 original size:21 final size:22
Alignment explanation
Indices: 16249771--16249814 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
16249761 TACTAATCTA
*
16249771 ATACGTCAATTTAATCCATTTC
1 ATACGTCAATTTAATCCAATTC
*
16249793 ATAC-TCAATTTAATTCAATTC
1 ATACGTCAATTTAATCCAATTC
16249814 A
1 A
16249815 CATCTTAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (22 bp):
ATACGTCAATTTAATCCAATTC
Found at i:16254769 original size:49 final size:49
Alignment explanation
Indices: 16254708--16254895 Score: 243
Period size: 49 Copynumber: 3.8 Consensus size: 49
16254698 TGAGGTCCCG
* *
16254708 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
* * * *
16254757 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CAGATAA-T-TGGTCGCA
* * * * *
16254808 TGTGTAGTACTAAGTGCACGCTACTACGTGTACTAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
16254857 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
16254896 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 75 0.65
50 3 0.03
51 38 0.33
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
Done.