Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 192 of 195
Found at i:34791736 original size:18 final size:18
Alignment explanation
Indices: 34791705--34791739 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34791695 GTTTCTAAGT
**
34791705 GTAATGGAGTTTCAGGAC
1 GTAATGGAAATTCAGGAC
34791723 GTAATGGAAATTCAGGA
1 GTAATGGAAATTCAGGA
34791740 TCTAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
GTAATGGAAATTCAGGAC
Found at i:34793420 original size:2 final size:2
Alignment explanation
Indices: 34793413--34793440 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34793403 CCAAATAGAA
34793413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34793441 CAACAAGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34798391 original size:2 final size:2
Alignment explanation
Indices: 34798384--34798415 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34798374 CAAATGCATG
34798384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34798416 AGTTATTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34805296 original size:235 final size:235
Alignment explanation
Indices: 34804885--34805352 Score: 828
Period size: 235 Copynumber: 2.0 Consensus size: 235
34804875 CCTGTGACAA
34804885 GTGGTATCAGAGCTAGCCCTAAATCGTTCGATCCACGTCAAGCACCTCAAAGGGAGGCAGGCAAG
1 GTGGTATCAGAGCTAGCCCTAAATCGTTCGATCCACGTCAAGCACCTCAAAGGGAGGCAGGCAAG
* * *
34804950 GTGGTCAGCTTCCGTGACGAGGGTGTCACGAGGTTGGGTACGGGAGAATGTCACGGACTTAAGGA
66 GTGGTCAGCTTCCGTGACGAGGGTGTCACGAGGTTGGGTACGGGAAAATGTCACAGACCTAAGGA
** * *
34805015 AGAGAGTCCTAAATCCTGCATCGAACATAATAAGAGGGTCACTGAGGTATATAAGGGTTTACACT
131 AGAGAGTCCTAAATCCCACATCGAACATAATAAGAGGGTCACTGAGGTATATAAGAGTTTACACC
*
34805080 ACCTCCGTCTTGTGAGGCCTTTTTTGTAGGACAAAACCAG
196 ACCTCCGTCTTGTGAGGCCCTTTTTGTAGGACAAAACCAG
* * *
34805120 GTGGTATCAGAGTTAGCCTTAAATCGTTCGATCCACGTCAAGCACCTCAAAGGGAGGCAGGCAGG
1 GTGGTATCAGAGCTAGCCCTAAATCGTTCGATCCACGTCAAGCACCTCAAAGGGAGGCAGGCAAG
34805185 GTGGTCAGCTTCCGTGACGAGGGTGTCACGAGGTTGGGTACGGGAAAATGTCACAGACCTAAGGA
66 GTGGTCAGCTTCCGTGACGAGGGTGTCACGAGGTTGGGTACGGGAAAATGTCACAGACCTAAGGA
*
34805250 AGAGAGTCCTAAATCCCACATCGAACATAATAGGAGGGTCACTGAGGTATATAAGAGTTTACACC
131 AGAGAGTCCTAAATCCCACATCGAACATAATAAGAGGGTCACTGAGGTATATAAGAGTTTACACC
34805315 ACCTCCGTCTTGTGAGGCCCTTTTTGTAGGACAAAACC
196 ACCTCCGTCTTGTGAGGCCCTTTTTGTAGGACAAAACC
34805353 GTGAGGTCAG
Statistics
Matches: 221, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
235 221 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (235 bp):
GTGGTATCAGAGCTAGCCCTAAATCGTTCGATCCACGTCAAGCACCTCAAAGGGAGGCAGGCAAG
GTGGTCAGCTTCCGTGACGAGGGTGTCACGAGGTTGGGTACGGGAAAATGTCACAGACCTAAGGA
AGAGAGTCCTAAATCCCACATCGAACATAATAAGAGGGTCACTGAGGTATATAAGAGTTTACACC
ACCTCCGTCTTGTGAGGCCCTTTTTGTAGGACAAAACCAG
Found at i:34807301 original size:19 final size:18
Alignment explanation
Indices: 34807264--34807317 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 18
34807254 TATTTTTAAT
34807264 ATAAATATAAAA-T-TAA
1 ATAAATATAAAATTATAA
* *
34807280 ATATATATAATATATATAA
1 ATAAATATAAAAT-TATAA
34807299 ATAAATATAAAATTATAA
1 ATAAATATAAAATTATAA
34807317 A
1 A
34807318 AATAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 10 0.32
18 7 0.23
19 14 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAATATAAAATTATAA
Found at i:34811699 original size:15 final size:15
Alignment explanation
Indices: 34811679--34811710 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34811669 TGCGAGTTGC
34811679 AATATCAAAACTTCA
1 AATATCAAAACTTCA
34811694 AATATCAAAACTTCA
1 AATATCAAAACTTCA
34811709 AA
1 AA
34811711 ACACTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (15 bp):
AATATCAAAACTTCA
Found at i:34823703 original size:4 final size:4
Alignment explanation
Indices: 34823694--34823718 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34823684 TATTTTGGAT
34823694 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
34823719 CAGGGAGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:34847795 original size:14 final size:14
Alignment explanation
Indices: 34847772--34847808 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34847762 TGTTAATATG
34847772 TTTA-CTAAAAATA
1 TTTATCTAAAAATA
34847785 TTTATCTAAAAATA
1 TTTATCTAAAAATA
*
34847799 TATATC-AAAA
1 TTTATCTAAAA
34847809 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTATCTAAAAATA
Found at i:34858900 original size:26 final size:24
Alignment explanation
Indices: 34858836--34858901 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 24
34858826 ATTTTCATTT
* **
34858836 ATTAAATATATTTTTTAAAATAAA
1 ATTAAAAATATTTTAAAAAATAAA
*
34858860 ATATAAAAACAATTTTAAAAAATTAAAA
1 AT-TAAAAA-TATTTTAAAAAA-T-AAA
34858888 ATTAAAAATATTTT
1 ATTAAAAATATTTT
34858902 CTCAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
24 2 0.06
25 5 0.15
26 14 0.42
27 7 0.21
28 5 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTAAAAATATTTTAAAAAATAAA
Found at i:34869233 original size:3 final size:3
Alignment explanation
Indices: 34869227--34869253 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34869217 TAATAATAAT
34869227 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
34869254 TTCAATTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34872092 original size:3 final size:3
Alignment explanation
Indices: 34872084--34872116 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
34872074 AGACAATGAC
34872084 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34872117 GATAGGATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34884831 original size:2 final size:2
Alignment explanation
Indices: 34884824--34884850 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34884814 GGTTAAGATG
34884824 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
34884851 CGACGTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34900844 original size:12 final size:12
Alignment explanation
Indices: 34900827--34900852 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34900817 TTTGGTGAGA
34900827 TTTCTCTAATTG
1 TTTCTCTAATTG
34900839 TTTCTCTAATTG
1 TTTCTCTAATTG
34900851 TT
1 TT
34900853 GATTAGCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (12 bp):
TTTCTCTAATTG
Found at i:34911609 original size:15 final size:16
Alignment explanation
Indices: 34911579--34911609 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34911569 TTAATTCAGT
34911579 TCAAAATTTGAATTAA
1 TCAAAATTTGAATTAA
34911595 TCAAAATTT-AATTAA
1 TCAAAATTTGAATTAA
34911610 AACATAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
TCAAAATTTGAATTAA
Found at i:34913317 original size:17 final size:18
Alignment explanation
Indices: 34913284--34913317 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34913274 TCGTTTCATT
*
34913284 TTAACTATAATTAATTAC
1 TTAACTATAACTAATTAC
34913302 TTAACTA-AACTAATTA
1 TTAACTATAACTAATTA
34913318 TATATACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAACTATAACTAATTAC
Found at i:34914571 original size:13 final size:13
Alignment explanation
Indices: 34914553--34914578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34914543 ATTGAGAAAA
34914553 TCTGTAAAGATTT
1 TCTGTAAAGATTT
34914566 TCTGTAAAGATTT
1 TCTGTAAAGATTT
34914579 CCTCTGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TCTGTAAAGATTT
Found at i:34916445 original size:101 final size:101
Alignment explanation
Indices: 34916328--34916529 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
34916318 CAAGTACTTG
34916328 AAAACCTTCATCATCTGCTCATCTGGATGGCCACTGAGTTCTGGAAAGATGAACAGAGACTCAAT
1 AAAACCTTCATCATCTGCTCATCTGGATGGCCACTGAGTTCTGGAAAGATGAACAGAGACTCAAT
34916393 TTTCTGAACCCTGCCATTTACATTTCGGGCACCTAA
66 TTTCTGAACCCTGCCATTTACATTTCGGGCACCTAA
34916429 AAAACCTTCATCATCTGCTCATCTGGATGGCCACTGAGTTCTGGAAAGATGAACAGAGACTCAAT
1 AAAACCTTCATCATCTGCTCATCTGGATGGCCACTGAGTTCTGGAAAGATGAACAGAGACTCAAT
34916494 TTTCTGAACCCTGCCATTTACATTTCGGGCACCTAA
66 TTTCTGAACCCTGCCATTTACATTTCGGGCACCTAA
34916530 GGTATACAGT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (101 bp):
AAAACCTTCATCATCTGCTCATCTGGATGGCCACTGAGTTCTGGAAAGATGAACAGAGACTCAAT
TTTCTGAACCCTGCCATTTACATTTCGGGCACCTAA
Found at i:34926346 original size:20 final size:21
Alignment explanation
Indices: 34926301--34926347 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
34926291 TGATCAACTT
*
34926301 CAAATTTTGCTCAATTTCACA
1 CAAATTTTGCTCAATATCACA
34926322 CAAATTTTGCTCAA-ATCACA
1 CAAATTTTGCTCAATATCACA
*
34926342 TAAATT
1 CAAATT
34926348 AGTATAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (21 bp):
CAAATTTTGCTCAATATCACA
Found at i:34948286 original size:113 final size:113
Alignment explanation
Indices: 34948088--34948313 Score: 344
Period size: 113 Copynumber: 2.0 Consensus size: 113
34948078 GGGCGTTACG
* * *
34948088 AGGTTAGATAAAAAAGAAAGTCAGAGAGATCAGATCGGACAATATCTCACAAAAGTATGAACCGT
1 AGGTTAGATAAAAAAGAAAGTCAGAGAGATCAGAACGGACAATACCTCACAAAAGTATGAACCAT
* *
34948153 GACAAAAAAATTGATTTAAGACGTCGAAAAAATAAATATCCGAATCTT
66 GACAAAAAAATTGATCTAAGACGTCGAAAAAATAAATATCCAAATCTT
** * * **
34948201 AGGTTAGATGGAAGAGAAAGTCAGAGAGATCAGAACGGATAATACCTCACAAGTGTATGAACCAT
1 AGGTTAGATAAAAAAGAAAGTCAGAGAGATCAGAACGGACAATACCTCACAAAAGTATGAACCAT
*
34948266 GACAAAAAAATTGATCTAAGACGTCGAAAAAATGAATATCCAAATCTT
66 GACAAAAAAATTGATCTAAGACGTCGAAAAAATAAATATCCAAATCTT
34948314 CAAATCACAC
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 101 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (113 bp):
AGGTTAGATAAAAAAGAAAGTCAGAGAGATCAGAACGGACAATACCTCACAAAAGTATGAACCAT
GACAAAAAAATTGATCTAAGACGTCGAAAAAATAAATATCCAAATCTT
Found at i:34948811 original size:2 final size:2
Alignment explanation
Indices: 34948800--34948846 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
34948790 AAAAAAGGAC
* *
34948800 AG AG AT AG AG AG AG AT AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34948842 AG AG A
1 AG AG A
34948847 AAGGGCCCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.45, T:0.04
Consensus pattern (2 bp):
AG
Found at i:34955791 original size:40 final size:40
Alignment explanation
Indices: 34955737--34955812 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
34955727 TTTGTTTTAT
* *
34955737 GAAGGAAAGAATGCTTATGTTGTTCATAGTTCCCTTGTTC
1 GAAGGAAAGAATGCTTATATTATTCATAGTTCCCTTGTTC
34955777 GAAGGAAAGAATGCTTATATTATTCATAGTTCCCTT
1 GAAGGAAAGAATGCTTATATTATTCATAGTTCCCTT
34955813 CCTTTCTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (40 bp):
GAAGGAAAGAATGCTTATATTATTCATAGTTCCCTTGTTC
Found at i:34956207 original size:23 final size:23
Alignment explanation
Indices: 34956177--34956224 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
34956167 TACCCTGTGG
*
34956177 TGTATCATTACTGTGAAAGATGT
1 TGTATCATTACTGTGAAAGAAGT
34956200 TGTATCATTACTGTGAAAGAAGT
1 TGTATCATTACTGTGAAAGAAGT
34956223 TG
1 TG
34956225 CTTATACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (23 bp):
TGTATCATTACTGTGAAAGAAGT
Found at i:34968248 original size:9 final size:8
Alignment explanation
Indices: 34968229--34968259 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
34968219 TATTTAACAT
34968229 AAAAAATA
1 AAAAAATA
34968237 AAAAAATA
1 AAAAAATA
34968245 AAAAAATA
1 AAAAAATA
34968253 AAGAAAA
1 AA-AAAA
34968260 GAATGATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:34968349 original size:58 final size:57
Alignment explanation
Indices: 34968281--34968613 Score: 425
Period size: 58 Copynumber: 5.7 Consensus size: 57
34968271 TTGTGCAGGA
* * * * * *
34968281 AAAATAGATACTTTTAACTTTTCTCCAAAAATATTCTTTTGAAACTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* *
34968339 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTATTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-C-AAAAATAT-TTTTTTGAAAATTTATTTTTAAGG
*
34968399 AAAATTGATACTTTCAACTTTTCCCCAAAAA-ATCTTTTTTTAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATAT-TTTTTTGAAAATTTATTTTTAAGG
* *
34968457 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTTGAAAATTTATTTTTAAGG
* * ** *
34968516 AAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAAATTTATTTTTAAGG
34968574 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTT
34968614 TCTTGAAATT
Statistics
Matches: 242, Mismatches: 24, Indels: 18
0.85 0.08 0.06
Matches are distributed among these distances:
57 3 0.01
58 131 0.54
59 63 0.26
60 43 0.18
61 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
Found at i:34968400 original size:16 final size:15
Alignment explanation
Indices: 34968367--34968401 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34968357 TTTTCCTCAA
*
34968367 AAAATTTATTTTTTG
1 AAAATTTATTTTTAG
34968382 AAAATTTATTTTTAAG
1 AAAATTTATTTTT-AG
34968398 AAAA
1 AAAA
34968402 ATTGATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (15 bp):
AAAATTTATTTTTAG
Found at i:34968487 original size:118 final size:117
Alignment explanation
Indices: 34968279--34968614 Score: 503
Period size: 117 Copynumber: 2.9 Consensus size: 117
34968269 TCTTGTGCAG
* * * * * * *
34968279 GAAAAATAGATACTTTTAACTTTTCTCCAAAAATATTCTTTTGAAACTTTAATTTTGAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
34968344 TGATACTTTCAACTTTTCCTCAAAAAATTTATTTTTTGAAAATTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAAATTT-TTTTTTGAAAATTTATTTTTAA
*
34968397 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATCTTTTTTTAAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTGAAAATTTATTTTTAAGGAAAA
*
34968461 TTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTGAAAATTTATTTTTAA
65 TTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTGAAAATTTATTTTTAA
* * * ** *
34968514 GAAAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAAGCTTATTTTCAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
34968579 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
66 TGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTT
34968615 CTTGAAATTA
Statistics
Matches: 198, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
117 105 0.53
118 93 0.47
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (117 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTGAAAATTTATTTTTAA
Found at i:34970197 original size:37 final size:39
Alignment explanation
Indices: 34970147--34970224 Score: 133
Period size: 37 Copynumber: 2.1 Consensus size: 39
34970137 ACAGTAACTC
34970147 TTTCTTGCCTTCAATTTCTTTCCTAATGGCAT-T-TCTT
1 TTTCTTGCCTTCAATTTCTTTCCTAATGGCATCTGTCTT
*
34970184 TTTCTTGCTTTCAATTTCTTTCCTAATGGCATCTGTCTT
1 TTTCTTGCCTTCAATTTCTTTCCTAATGGCATCTGTCTT
34970223 TT
1 TT
34970225 CTAATACTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 31 0.82
38 1 0.03
39 6 0.16
ACGTcount: A:0.13, C:0.23, G:0.09, T:0.55
Consensus pattern (39 bp):
TTTCTTGCCTTCAATTTCTTTCCTAATGGCATCTGTCTT
Found at i:34971778 original size:42 final size:42
Alignment explanation
Indices: 34971689--34972074 Score: 469
Period size: 42 Copynumber: 9.1 Consensus size: 42
34971679 TTTTTTTAAA
* *
34971689 GCTCCTCTAAACAGAGAC-TCAGCGACTTT-AGAAAGTAAACT
1 GCTCCTCTAAACAGAGACACCA-CGACTTTGAGAAAGTAAATT
*
34971730 GCTCCTCTAAACAGAGACACCATGACTTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGACACCACGAC-TTTGAGAAAGTAAATT
* * *
34971772 GCTCCTCTAAACAGAGGCACCATGACTTTTAGAAAGTAAATT
1 GCTCCTCTAAACAGAGACACCACGACTTTGAGAAAGTAAATT
* * *
34971814 GCTCCTCTAACAGCAGAGCATACCATGACTTTGAAAAAGTAAATT
1 GCTCCTCTAA-A-CAGAG-ACACCACGACTTTGAGAAAGTAAATT
*
34971859 ACTCCTCTAAACAGAGACACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGACACCACGACTTTGAGAAAGTAAATT
*
34971901 GCTCCTCTAAACAGA-AGCATCACGACTTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGA-CACCACGAC-TTTGAGAAAGTAAATT
* * *
34971943 GCTCTTTTAAACAGATGA-GCCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGA-GACACCACGACTTTGAGAAAGTAAATT
* * *
34971985 GCTCCTCTAAACAGAGGCACCATGACTTTGAGAAAATAAATT
1 GCTCCTCTAAACAGAGACACCACGACTTTGAGAAAGTAAATT
* * * *
34972027 GCTCCTCTAAACAGAGGCACCACCACTTTGAGAAAATAAATG
1 GCTCCTCTAAACAGAGACACCACGACTTTGAGAAAGTAAATT
34972069 GCTCCT
1 GCTCCT
34972075 TGACAATCAT
Statistics
Matches: 304, Mismatches: 28, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
41 30 0.10
42 226 0.74
43 10 0.03
44 7 0.02
45 31 0.10
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGACACCACGACTTTGAGAAAGTAAATT
Found at i:34972392 original size:44 final size:44
Alignment explanation
Indices: 34972334--34972438 Score: 126
Period size: 43 Copynumber: 2.4 Consensus size: 44
34972324 TTTTTTTTTT
* *
34972334 TTCAAAGATTTTCATTTGGCAAACTTGGA-ATTCATATCCAAAAA
1 TTCAAAGCTTTTCATTTGG-AAACTTGGAGATTCACATCCAAAAA
**
34972378 -TCTAAAGCTTTTCATTT-GAATTTTGGAGATTCACATCCAAAAA
1 TTC-AAAGCTTTTCATTTGGAAACTTGGAGATTCACATCCAAAAA
*
34972421 TTCAAAGCTTCTCATTTG
1 TTCAAAGCTTTTCATTTG
34972439 AGTTCGAAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
42 7 0.13
43 30 0.58
44 15 0.29
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (44 bp):
TTCAAAGCTTTTCATTTGGAAACTTGGAGATTCACATCCAAAAA
Found at i:34973804 original size:28 final size:27
Alignment explanation
Indices: 34973773--34973837 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 27
34973763 AATTTGAATC
34973773 TTTTTTTTTCATTCTTTCCTTC-TT-TCTT
1 TTTTTTTTTCATT-TTT--TTCATTATCTT
34973801 TTTTTTTTTCATTTTTTTCATTATCTT
1 TTTTTTTTTCATTTTTTTCATTATCTT
34973828 TTTTTCTTTT
1 TTTTT-TTTT
34973838 TGCTTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 12 0.35
28 17 0.50
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTTTTTTCATTTTTTTCATTATCTT
Found at i:34978342 original size:102 final size:103
Alignment explanation
Indices: 34978216--34978418 Score: 311
Period size: 102 Copynumber: 2.0 Consensus size: 103
34978206 TCTTGTGCAG
* * *
34978216 GAAAAATTGATACTTTCAACTTTTC-CCTAAAAATATTCTTTTGAAACTTTAATTTCAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCTCCAAAAAACATT-TTTTGAAAATTTAATTTCAAGGAAAA
*
34978280 TTGATACTTTTAACTTTTCCTCAAAAA-TTTATTTTTAA
65 TTGATACTTTCAACTTTTCCTCAAAAACTTTATTTTTAA
* * *
34978318 GAAAAATTGATACTTTCAACTTTTCTCCAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCTCCAAAAAACATTTTTTGAAAATTTAATTTCAAGGAAAAT
*
34978383 TGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTT
66 TGATACTTTCAACTTTTCCTCAAAAACTTTATTTTT
34978419 GAAAATTTAT
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
102 74 0.81
103 17 0.19
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (103 bp):
GAAAAATTGATACTTTCAACTTTTCTCCAAAAAACATTTTTTGAAAATTTAATTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAACTTTATTTTTAA
Found at i:34978359 original size:44 final size:44
Alignment explanation
Indices: 34978276--34978359 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
34978266 AATTTCAAGG
* **
34978276 AAAATTGATACTTTTAACTTTTCCTCAAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTATTTTTAAGA
34978320 AAAATTGATACTTTCAACTTTT-CTCCAAAAAACCT-TTTTT
1 AAAATTGATACTTTCAACTTTTCCT-C-AAAAACCTATTTTT
34978360 GAAAATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.06
44 27 0.77
45 6 0.17
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (44 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACCTATTTTTAAGA
Found at i:34978566 original size:118 final size:117
Alignment explanation
Indices: 34978303--34978653 Score: 573
Period size: 117 Copynumber: 3.0 Consensus size: 117
34978293 CTTTTCCTCA
* *
34978303 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAAACCTTTTTTGAAAATTT
1 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAATCTTTTTTGAAAATTT
34978368 ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTG
66 ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTG
34978420 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAATCTTTTTTGAAAATTT
1 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAATCTTTTTTGAAAATTT
*
34978485 ATTTTTAAGGAAAATTGATACTTTCAACTTTTCTTCAAAAACCTTTTTTTTTG
66 ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTTTG
* * *
34978538 AAAATTTATTTTTAAGAAAAATTAATACTTTCAACTTTTCCCTAAAAATAT-TTTTTT-AAAAGC
1 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATCTTTTTTGAAAA-T
* *
34978601 TTATTTTCAAGGAAAATTGATAC-TTCAACTTTTCCTCAAAAATATTTTTTTTT
64 TTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTTT
34978654 CTTGAAATTA
Statistics
Matches: 221, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
117 134 0.61
118 85 0.38
119 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (117 bp):
AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAATCTTTTTTGAAAATTT
ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTG
Found at i:34978650 original size:58 final size:58
Alignment explanation
Indices: 34978303--34978652 Score: 455
Period size: 58 Copynumber: 6.0 Consensus size: 58
34978293 CTTTTCCTCA
* *
34978303 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTT-CTCCAAAAA-ACCTTTTTTG
1 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCT-CAAAAATA-TTTTTTTT
*
34978361 AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTTT
1 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTT
* *
34978419 GAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATCTTTTTTG
1 -AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTT
* *
34978478 AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTTCAAAAACCT-TTTTTTTT
1 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTT
*
34978537 GAAAATTTATTTTTAAGAAAAATTAATACTTTCAACTTTTCC-CTAAAAATA-TTTTTTT
1 -AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTT
* * *
34978595 AAAAGCTTATTTTCAAGGAAAATTGATAC-TTCAACTTTTCCTCAAAAATATTTTTTTT
1 AAAA-TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
34978653 TCTTGAAATT
Statistics
Matches: 260, Mismatches: 17, Indels: 30
0.85 0.06 0.10
Matches are distributed among these distances:
57 23 0.09
58 132 0.51
59 61 0.23
60 44 0.17
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (58 bp):
AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
Found at i:34981761 original size:16 final size:15
Alignment explanation
Indices: 34981728--34981762 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34981718 CTTTTCCTCA
*
34981728 AAAATTTATTTTTTG
1 AAAATTTATTTTTAG
34981743 AAAATTTATTTTTAAG
1 AAAATTTATTTTT-AG
34981759 AAAA
1 AAAA
34981763 ATTGATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (15 bp):
AAAATTTATTTTTAG
Found at i:34981762 original size:59 final size:58
Alignment explanation
Indices: 34981699--34982093 Score: 535
Period size: 59 Copynumber: 6.7 Consensus size: 58
34981689 TCTTGTGCAT
34981699 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTT-TTTTTTGAAAATTTATTTTTAA
* * * * **
34981758 GAAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTCTTTGGAAACTTTAATTTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATTTTTTTTTGAAAATTT-ATTTTTAA
* ***
34981817 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAAACCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATTTTTTTTTGAAAATTTATTTTTAA
*
34981875 GAAAAATTGATACTTTTAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTTATTTTTAA
* ***
34981934 GAAAAATTGATGCTTTCAACTTTTCC-CAATAAAACCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAA-AAATTTTTTTTTGAAAATTTATTTTTAA
*
34981992 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTTATTTTTAA
* *
34982051 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTT
34982094 CTTGCAATTA
Statistics
Matches: 297, Mismatches: 32, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
58 99 0.33
59 198 0.67
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTTAA
Found at i:34981789 original size:27 final size:27
Alignment explanation
Indices: 34981759--34981849 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
34981749 TATTTTTAAG
34981759 AAAAATTGATACTTTCAACTTTTCTCC
1 AAAAATTGATACTTTCAACTTTTCTCC
* * * *
34981786 AAAAA-T-ATTCTTTGGAAACTTTAATTTTCG
1 AAAAATTGATACTTT--CAAC-TT--TTCTCC
34981816 AGGAAAATTGATACTTTCAACTTTTCTCC
1 A--AAAATTGATACTTTCAACTTTTCTCC
34981845 AAAAA
1 AAAAA
34981850 ACCTTTTTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 6 0.13
26 1 0.02
27 12 0.26
28 2 0.04
29 5 0.11
30 5 0.11
31 2 0.04
32 7 0.15
33 1 0.02
34 6 0.13
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.38
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTCTCC
Found at i:34981908 original size:117 final size:117
Alignment explanation
Indices: 34981701--34982083 Score: 567
Period size: 117 Copynumber: 3.3 Consensus size: 117
34981691 TTGTGCATGA
***
34981701 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
* * * * **
34981766 GATACTTTCAACTTTT-CTCCAAAAAT-ATTCTTTGGAAACTTTAATTTTCGAGG
65 GATACTTTCAACTTTTCCT-CAAAAATCTTTTTTTTGAAAATTT-ATTTTTAAGG
34981819 AAAATTGATACTTTCAACTTTT-CTCCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
* *
34981883 GATACTTTTAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGA
65 GATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGG
* *
34981936 AAAATTGATGCTTTCAACTTTTCC-CAATAAAACCTTTTTTGAAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAA-AAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
34982000 GATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGG
65 GATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGG
*
34982053 AAAATTGATACTTTCAACTTTTTCTCAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA
34982084 TATTTTTTTT
Statistics
Matches: 242, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
116 3 0.01
117 193 0.80
118 46 0.19
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGG
Found at i:34982035 original size:176 final size:175
Alignment explanation
Indices: 34981699--34982093 Score: 593
Period size: 176 Copynumber: 2.2 Consensus size: 175
34981689 TCTTGTGCAT
34981699 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTT-TTTTTTGAAAATTTATTTTTAAGAAAAA
* *
34981764 TTGATACTTTCAACTTTTCTCCAAAAATATTCTTTGGAAACTTTAATTTTCGAGGAAAATTGATA
65 TTGATACTTTCAACTTTTCTCCAAAAATATTCTTTGGAAAATTTAATTTTCAAGGAAAATTGATA
34981829 CTTTCAACTTTTCTCCAAAAAACCTTTTTTGAAAATTTATTTTTAA
130 CTTTCAACTTTTCTCCAAAAAACCTTTTTTGAAAATTTATTTTTAA
*
34981875 GAAAAATTGATACTTTTAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTTATTTTTAAGAAAAA
* * *
34981940 TTGATGCTTTCAACTTTTC-CCAATAAA-ACCTT-TTTTGAAAATTT-ATTTTTAAGGAAAATTG
65 TTGATACTTTCAACTTTTCTCCAA-AAATA--TTCTTTGGAAAATTTAATTTTCAAGGAAAATTG
* *
34982001 ATACTTTCAACTTTTC-CTCAAAAATCTTTTTTTTGAAAATTTATTTTTAA
127 ATACTTTCAACTTTTCTC-CAAAAAAC-CTTTTTTGAAAATTTATTTTTAA
* *
34982051 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTT
34982094 CTTGCAATTA
Statistics
Matches: 201, Mismatches: 12, Indels: 12
0.89 0.05 0.05
Matches are distributed among these distances:
174 1 0.00
175 43 0.21
176 153 0.76
177 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (175 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTTAAGAAAAAT
TGATACTTTCAACTTTTCTCCAAAAATATTCTTTGGAAAATTTAATTTTCAAGGAAAATTGATAC
TTTCAACTTTTCTCCAAAAAACCTTTTTTGAAAATTTATTTTTAA
Found at i:34983677 original size:37 final size:38
Alignment explanation
Indices: 34983627--34983706 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
34983617 ACAACAACTC
*
34983627 TTTCTTGCCTTCAATTTCTTTCCTAATGGCATCTCT-T
1 TTTCTTGCCTTCAATTTCTTTCCAAATGGCATCTCTCT
* *
34983664 TTTCTTGCTTTCAATTTCTTTCCAAATGGCATCTGTCT
1 TTTCTTGCCTTCAATTTCTTTCCAAATGGCATCTCTCT
34983702 TTTCT
1 TTTCT
34983707 AATGCTTCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 33 0.85
38 6 0.15
ACGTcount: A:0.14, C:0.25, G:0.09, T:0.53
Consensus pattern (38 bp):
TTTCTTGCCTTCAATTTCTTTCCAAATGGCATCTCTCT
Found at i:34985786 original size:9 final size:8
Alignment explanation
Indices: 34985772--34985824 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
34985762 TACTATGCTT
34985772 AAAAAATGA
1 AAAAAAT-A
34985781 AAAAAATA
1 AAAAAATA
34985789 AAAAAATA
1 AAAAAATA
34985797 AAAAAA-A
1 AAAAAATA
*
34985804 CAAAGAA-A
1 -AAAAAATA
34985812 AAAAAATGA
1 AAAAAAT-A
34985821 AAAA
1 AAAA
34985825 TGAAGACTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 6 0.15
8 21 0.54
9 12 0.31
ACGTcount: A:0.85, C:0.02, G:0.06, T:0.08
Consensus pattern (8 bp):
AAAAAATA
Found at i:34985803 original size:17 final size:17
Alignment explanation
Indices: 34985772--34985817 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
34985762 TACTATGCTT
* *
34985772 AAAAAATGAAAAAAATA
1 AAAAAATAAAAAAAACA
34985789 AAAAAATAAAAAAAACA
1 AAAAAATAAAAAAAACA
34985806 AAGAAAA-AAAAA
1 AA-AAAATAAAAA
34985818 TGAAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.87, C:0.02, G:0.04, T:0.07
Consensus pattern (17 bp):
AAAAAATAAAAAAAACA
Found at i:34986939 original size:41 final size:41
Alignment explanation
Indices: 34986817--34987160 Score: 340
Period size: 41 Copynumber: 8.4 Consensus size: 41
34986807 GGAGCATTTG
* * * * *
34986817 TTTACTTTCCAAAGTTGTGATGCCTCTGTTTAGATGAGCAA
1 TTTATTTTCAAAAGTTATGGTGCCTCTATTTAGATGAGCAA
*
34986858 TTTATTTTTTCAAAAG-T-TGGTTGCCTCTATTTAGAGGAGCAA
1 TTTA--TTTTCAAAAGTTATGG-TGCCTCTATTTAGATGAGCAA
*
34986900 TTTATTTTCAAAAGTTATAGTGCCTCTATTTAGATGAGCAA
1 TTTATTTTCAAAAGTTATGGTGCCTCTATTTAGATGAGCAA
* *
34986941 TTTATTTTCAAAAGTTATAGTGCCTCTATTTAGATAAGCAA
1 TTTATTTTCAAAAGTTATGGTGCCTCTATTTAGATGAGCAA
* *
34986982 TTTATTTTTAAAAGTTATGGTGCCTCTATTTAGAAGAAG-AA
1 TTTATTTTCAAAAGTTATGGTGCCTCTATTTAGATG-AGCAA
** * * * *
34987023 TTTATTTTTGAAAGTTGTGGTACCTCTGTTTAGA-GAAACAA
1 TTTATTTTCAAAAGTTATGGTGCCTCTATTTAGATG-AGCAA
* * *
34987064 TTTATTTTC-AAAGTTGTGATGCCTCTGTTTAGA-GAAGCAA
1 TTTATTTTCAAAAGTTATGGTGCCTCTATTTAGATG-AGCAA
* * * * * * *
34987104 TTTACTTTCAAAAGTTGTGGTGCCTTTGTTTAAATAAGTAA
1 TTTATTTTCAAAAGTTATGGTGCCTCTATTTAGATGAGCAA
34987145 TTTACTTTTCAAAAGT
1 TTTA-TTTTCAAAAGT
34987161 CGTTGAGCCT
Statistics
Matches: 265, Mismatches: 28, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
40 49 0.18
41 170 0.64
42 38 0.14
43 8 0.03
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.42
Consensus pattern (41 bp):
TTTATTTTCAAAAGTTATGGTGCCTCTATTTAGATGAGCAA
Found at i:34987263 original size:44 final size:44
Alignment explanation
Indices: 34987150--34987315 Score: 181
Period size: 44 Copynumber: 3.8 Consensus size: 44
34987140 AGTAATTTAC
* * * *
34987150 TTTTCAAAAGTCGTTGAGCCTTTGTTTAGAAGAACTTTGTTTATT
1 TTTTC-AAAGTCATTGAGCCTCTGTTTAGAAGAGCCTTGTTTATT
* * * *
34987195 TTTTCAAA-TCATCGAGCCTTTGTTTAAAAGAGCCTTATTTATT
1 TTTTCAAAGTCATTGAGCCTCTGTTTAGAAGAGCCTTGTTTATT
* * * *
34987238 TTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAGTCTTGTTTATT
1 TTTTCAAAGTCATTGAGCCTCTGTTTAGAAGAGCCTTGTTTATT
* * *
34987282 TTTTAAAAGTTATTGAGCCTCTGATTAGAAGAGC
1 TTTTCAAAGTCATTGAGCCTCTGTTTAGAAGAGC
34987316 TTTGATCAAG
Statistics
Matches: 99, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
43 37 0.37
44 57 0.58
45 5 0.05
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (44 bp):
TTTTCAAAGTCATTGAGCCTCTGTTTAGAAGAGCCTTGTTTATT
Found at i:34987560 original size:21 final size:23
Alignment explanation
Indices: 34987509--34987571 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
34987499 TGGGCCTATT
*
34987509 TTATTTTTATTTTTATTTATCTA
1 TTATATTTATTTTTATTTATCTA
34987532 TTAATATTT-TTTATTATTTATCTA
1 TT-ATATTTATTT-TTATTTATCTA
34987556 -T-TATTTATTTTTATTT
1 TTATATTTATTTTTATTT
34987572 TTTGACTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 11 0.31
22 3 0.08
23 6 0.17
24 16 0.44
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (23 bp):
TTATATTTATTTTTATTTATCTA
Found at i:34988356 original size:3 final size:3
Alignment explanation
Indices: 34988348--34988376 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34988338 TATTTATTTC
34988348 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34988377 TTAAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34988594 original size:58 final size:56
Alignment explanation
Indices: 34988525--34988790 Score: 162
Period size: 57 Copynumber: 4.4 Consensus size: 56
34988515 AAAAATAAAG
* * * *
34988525 TTTCTAAAATAAAAAATTTTCAAAAATA-TTTTGGGGCAAAAGTTTAAAGTATCAATT
1 TTTCTAAAAT-AAAAAGTTTAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATT
34988582 TTTCTGAAAATAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
1 TTTCT-AAAATAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
* * ** *
34988639 TTCTTTAAAA-ATAAAGTTTCTAAAAAAAAAATTTCAAAAACATTTTGGGGGGAAAGTTGAAAGT
1 TT-TCTAAAATAAAAAG-TT-T----AAAAAA--T-------ATTTTTAGGGAAAAGTTGAAAGT
34988703 ATCAATT
50 ATCAATT
* * *
34988710 TCTT-TAAAAATAAAAAGTTTAAAAAATATTCTTA-AGAAAAGTTGAAAGTATAAATT
1 T-TTCT-AAAATAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
* **
34988766 TTCTTTAAAAATAAAACTTTTAAAA
1 TT-TCT-AAAATAAAAAGTTTAAAA
34988791 TAAAAATTTT
Statistics
Matches: 168, Mismatches: 18, Indels: 46
0.72 0.08 0.20
Matches are distributed among these distances:
55 1 0.01
56 26 0.15
57 69 0.41
58 15 0.09
62 6 0.04
64 2 0.01
66 6 0.04
70 2 0.01
71 35 0.21
72 6 0.04
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (56 bp):
TTTCTAAAATAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
Found at i:34988597 original size:57 final size:57
Alignment explanation
Indices: 34988525--34988640 Score: 164
Period size: 57 Copynumber: 2.0 Consensus size: 57
34988515 AAAAATAAAG
* * * *
34988525 TTTCTAAAATAAAAAATTTTCAAAAATA-TTTTGGGGCAAAAGTTTAAAGTATCAATT
1 TTTCTAAAATAAAAAAGTTTAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATT
34988582 TTTCTGAAAAT-AAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
1 TTTCT-AAAATAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
34988639 TT
1 TT
34988641 CTTTAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
57 41 0.77
58 12 0.23
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (57 bp):
TTTCTAAAATAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
Found at i:34988664 original size:57 final size:56
Alignment explanation
Indices: 34988546--34988780 Score: 172
Period size: 57 Copynumber: 3.9 Consensus size: 56
34988536 AAAAATTTTC
* * * *
34988546 AAAAATA-TTTTGGGGCAAAAGTTTAAAGTATCAATTTT-TCTGAAAATAAAAAGTTTA
1 AAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCT-TTAAAA-ATAAAGTTTA
34988603 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAGTTTCTAAAAA
1 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAG-TT-T----A
** *
34988665 AAAAATTTCAAAAACATTTTGGGGGGAAAGTTGAAAGTATCAA-TTTCTTTAAAAATAAAAAGTT
1 AAAAA--T-------ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT--AAAGTT
34988729 TA
55 TA
* * *
34988731 AAAAATATTCTTA-AGAAAAGTTGAAAGTATAAATTTTCTTTAAAAATAAA
1 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAA
34988781 ACTTTTAAAA
Statistics
Matches: 145, Mismatches: 13, Indels: 42
0.73 0.06 0.21
Matches are distributed among these distances:
55 3 0.02
56 22 0.15
57 52 0.36
58 9 0.06
62 6 0.04
64 2 0.01
66 6 0.04
70 14 0.10
71 27 0.19
72 4 0.03
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (56 bp):
AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAGTTTA
Found at i:34988678 original size:71 final size:72
Alignment explanation
Indices: 34988582--34988723 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 72
34988572 AGTATCAATT
* * *
34988582 TTTCTGAAAATAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAA
1 TTTCTGAAAATAAAAAATTTAAAAAACATTTTGAGGGAAAAGTTGAAAGTATCAA-TTTCTTTAA
34988647 AAATAAAG
65 AAATAAAG
* * *
34988655 TTTCT-AAAA-AAAAAATTTCAAAAACATTTTGGGGGGAAAGTTGAAAGTATCAATTTCTTTAAA
1 TTTCTGAAAATAAAAAATTTAAAAAACATTTTGAGGGAAAAGTTGAAAGTATCAATTTCTTTAAA
34988718 AATAAA
66 AATAAA
34988724 AAGTTTAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
70 16 0.25
71 38 0.60
72 4 0.06
73 5 0.08
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.34
Consensus pattern (72 bp):
TTTCTGAAAATAAAAAATTTAAAAAACATTTTGAGGGAAAAGTTGAAAGTATCAATTTCTTTAAA
AATAAAG
Found at i:34988802 original size:128 final size:129
Alignment explanation
Indices: 34988472--34988803 Score: 501
Period size: 128 Copynumber: 2.6 Consensus size: 129
34988462 AAATTCCAAA
* *
34988472 AAAAAATATTTTTAGGGAAAAGTTGAATGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAATAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAGTTTCTAAAAT-A
* * *
34988537 AAAATTTTCAAAAATATTTTGGGGCAAAAGTTTAAAGTATCAATTTTTCTGAAAATAAAAAGTTT
65 AAAATTTTCAAAAACATTTTGGGGCAAAAGTTGAAAGTATCAATTTTTCTAAAAATAAAAAGTTT
34988602 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAGTTTCTAAAA-AA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAGTTTCTAAAATAA
* **
34988666 AAAATTTCAAAAACATTTTGGGGGGAAAGTTGAAAGTATCAATTTCTT-TAAAAATAAAAAGTTT
66 AAATTTTCAAAAACATTTTGGGGCAAAAGTTGAAAGTATCAATTT-TTCTAAAAATAAAAAGTTT
* * * *
34988730 AAAAAATATTCTTA-AGAAAAGTTGAAAGTATAAATTTTCTTTAAAAATAAAACTTT-TAAAATA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAAGTTTCTAAAATA
34988793 AAAATTTTCAA
65 AAAATTTTCAA
34988804 TTGCTTTAAG
Statistics
Matches: 186, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
127 37 0.20
128 87 0.47
129 2 0.01
130 60 0.32
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (129 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAGTTTCTAAAATAA
AAATTTTCAAAAACATTTTGGGGCAAAAGTTGAAAGTATCAATTTTTCTAAAAATAAAAAGTTT
Found at i:34997228 original size:21 final size:21
Alignment explanation
Indices: 34997203--34997245 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34997193 TTTTAATTTT
* *
34997203 TCCTTATAGTAATCAATTTCA
1 TCCTTACAATAATCAATTTCA
34997224 TCCTTACAATAATCAATTTCA
1 TCCTTACAATAATCAATTTCA
34997245 T
1 T
34997246 TTTTATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (21 bp):
TCCTTACAATAATCAATTTCA
Found at i:35003313 original size:91 final size:90
Alignment explanation
Indices: 35003208--35003372 Score: 258
Period size: 91 Copynumber: 1.8 Consensus size: 90
35003198 TTTTTTTTGC
* * * *
35003208 ATTTTTTTATCTTTGTAAAGAAAATAATATGACAATAATTTTTTTAAAGTTTCATTTAAATTCTT
1 ATTTTTTTATCTTTGAAAAGAAAATAATATGAAAATAATTTTCTTAAAATTTCATTTAAATTCTT
*
35003273 TCATCATTTAGGTCTATTTAAAAAA
66 CCATCATTTAGGTCTATTTAAAAAA
* *
35003298 ATTTTATTTCTCTTTGAAAAGAAAATAATATGAAAATTATTTTCTTAAAATTTCATTTAAATTCT
1 ATTTT-TTTATCTTTGAAAAGAAAATAATATGAAAATAATTTTCTTAAAATTTCATTTAAATTCT
35003363 TCCATCATTT
65 TCCATCATTT
35003373 GGAGCAAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
90 5 0.07
91 62 0.93
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (90 bp):
ATTTTTTTATCTTTGAAAAGAAAATAATATGAAAATAATTTTCTTAAAATTTCATTTAAATTCTT
CCATCATTTAGGTCTATTTAAAAAA
Found at i:35003833 original size:26 final size:26
Alignment explanation
Indices: 35003781--35003838 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
35003771 CACTTAGGAA
*
35003781 TTTTATAAAAATTTATCATTTGAAAT
1 TTTTATAAAAATTTATCATTAGAAAT
35003807 TTTTAT-AAAATTTATCATTAGATAAT
1 TTTTATAAAAATTTATCATTAGA-AAT
*
35003833 TATTAT
1 TTTTAT
35003839 TTATTCTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (26 bp):
TTTTATAAAAATTTATCATTAGAAAT
Found at i:35005486 original size:4 final size:4
Alignment explanation
Indices: 35005462--35005500 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
35005452 ACCATACGTT
* * *
35005462 TATA CATA TAAA TACA TATA TATA TATA TATA TATA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TAT
35005501 TTCAATTGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (4 bp):
TATA
Found at i:35005486 original size:6 final size:6
Alignment explanation
Indices: 35005462--35005500 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
35005452 ACCATACGTT
* * *
35005462 TATACA TATAAA TACATA TATATA TATATA TATATA TAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TAT
35005501 TTCAATTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (6 bp):
TATATA
Found at i:35005492 original size:10 final size:10
Alignment explanation
Indices: 35005462--35005500 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
35005452 ACCATACGTT
35005462 TATACATATA
1 TATACATATA
*
35005472 AATACATATA
1 TATACATATA
*
35005482 TATATATATA
1 TATACATATA
*
35005492 TATATATAT
1 TATACATAT
35005501 TTCAATTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (10 bp):
TATACATATA
Found at i:35005802 original size:22 final size:23
Alignment explanation
Indices: 35005777--35005830 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
35005767 ATATTTTAAT
35005777 TAATAAAATA-TCTTAATATAAA
1 TAATAAAATATTCTTAATATAAA
* *
35005799 TAATCAAAACATTTTTAATATAAA
1 TAAT-AAAATATTCTTAATATAAA
*
35005823 -AATTAAAT
1 TAATAAAAT
35005831 TTATTTTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.27
23 8 0.31
24 11 0.42
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATAAAATATTCTTAATATAAA
Found at i:35005892 original size:5 final size:5
Alignment explanation
Indices: 35005884--35005925 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
35005874 AATTTTTATT
*
35005884 TTAAA TTAAA TTTAAA TTAAA -AAAA TTAAA TTAAA TTAAA TT
1 TTAAA TTAAA -TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TT
35005926 CGAATCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 25 0.76
6 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:35005919 original size:19 final size:20
Alignment explanation
Indices: 35005886--35005923 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
35005876 TTTTTATTTT
35005886 AAATTAAATTTAAATTAAAA
1 AAATTAAATTTAAATTAAAA
35005906 AAATTAAA-TTAAATTAAA
1 AAATTAAATTTAAATTAAA
35005924 TTCGAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTAAATTTAAATTAAAA
Found at i:35006336 original size:24 final size:22
Alignment explanation
Indices: 35006309--35006384 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 22
35006299 TCTTCTTTGA
35006309 AATATTTCAAAATTATATATTTTT
1 AATATTT-AAAATTAT-TATTTTT
*
35006333 AATATTTAAAATTTTTATTTTTT
1 AATATTTAAAATTATTA-TTTTT
* *
35006356 TATATTTTAAAATTATT-TTTAT
1 AATA-TTTAAAATTATTATTTTT
35006378 AATATTT
1 AATATTT
35006385 TCACTTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.07
22 9 0.20
23 15 0.33
24 18 0.40
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (22 bp):
AATATTTAAAATTATTATTTTT
Found at i:35006385 original size:22 final size:21
Alignment explanation
Indices: 35006309--35006385 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 21
35006299 TCTTCTTTGA
*
35006309 AATATTTCAAAATTATATATTTTT
1 AATATTTTAAAA-T-TAT-TTTTT
35006333 AATA-TTTAAAATTTTTATTTTTT
1 AATATTTTAAAA---TTATTTTTT
*
35006356 TATATTTTAAAATTATTTTTAT
1 AATATTTTAAAATTATTTTT-T
35006378 AATATTTT
1 AATATTTT
35006386 CACTTTTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 8 0.17
22 8 0.17
23 14 0.30
24 14 0.30
25 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (21 bp):
AATATTTTAAAATTATTTTTT
Found at i:35014166 original size:136 final size:136
Alignment explanation
Indices: 35013922--35014189 Score: 441
Period size: 136 Copynumber: 2.0 Consensus size: 136
35013912 CAGAATGAGG
* * *
35013922 TATGGGCTTGGGCCCACTCTTACTAGTTTTACTCCACCAAAAAGGCCTATAAAATGAGTAAACTC
1 TATGGGCTTAGGCCCACTCTAACTAGTTTTACTCCACCAAAAAGGCCTATAAAATGAATAAACTC
* *
35013987 TGTCAAGAAAATAAAGCTGTATATAAAACCAGGGCCTAGCCCAAAATAATTAAAAGGTCAAA-AT
66 TGTCAAGAAAATAAAGCTGTATATAAAACCAGGGCCTACCCCAAAAGAATTAAAAGGT-AAATAT
35014051 ATAGGGA
130 ATAGGGA
* *
35014058 TATGGGCTTAGGCCCACTCTAAGTAGTTTTTA-TCCACCAAAGAGGCCTATAAAATGAATAAACT
1 TATGGGCTTAGGCCCACTCTAACTAG-TTTTACTCCACCAAAAAGGCCTATAAAATGAATAAACT
35014122 CTGTCAAGAAAATAAAGCTGTATATAAAACCAGGGCCTACCCCAAAAGAATTAAAAGGTAAATAT
65 CTGTCAAGAAAATAAAGCTGTATATAAAACCAGGGCCTACCCCAAAAGAATTAAAAGGTAAATAT
35014187 ATA
130 ATA
35014190 TATAATTTTT
Statistics
Matches: 123, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
135 3 0.02
136 115 0.93
137 5 0.04
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (136 bp):
TATGGGCTTAGGCCCACTCTAACTAGTTTTACTCCACCAAAAAGGCCTATAAAATGAATAAACTC
TGTCAAGAAAATAAAGCTGTATATAAAACCAGGGCCTACCCCAAAAGAATTAAAAGGTAAATATA
TAGGGA
Found at i:35015529 original size:7 final size:7
Alignment explanation
Indices: 35015517--35015542 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35015507 ATTATTATCA
35015517 TTATATT
1 TTATATT
35015524 TTATATT
1 TTATATT
35015531 TTATATT
1 TTATATT
35015538 TTATA
1 TTATA
35015543 AATAATAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTATATT
Found at i:35015956 original size:30 final size:30
Alignment explanation
Indices: 35015922--35015978 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
35015912 TTTATTAAAA
* *
35015922 ATTTAAATAATATTATTTTTATATTTTTAT
1 ATTTAAATAATAATATTATTATATTTTTAT
*
35015952 ATTTATATAATAATATTATTATATTTT
1 ATTTAAATAATAATATTATTATATTTT
35015979 AAATTATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTTAAATAATAATATTATTATATTTTTAT
Found at i:35016973 original size:21 final size:22
Alignment explanation
Indices: 35016943--35016984 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35016933 TATTTTAATA
*
35016943 TTAAATATTTTATTTAATTTAT
1 TTAAATATTTAATTTAATTTAT
35016965 TTAAA-ATTTAATTTAATTTA
1 TTAAATATTTAATTTAATTTA
35016985 AATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTAAATATTTAATTTAATTTAT
Found at i:35016975 original size:16 final size:17
Alignment explanation
Indices: 35016954--35016986 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
35016944 TAAATATTTT
35016954 ATTTAATTT-ATTTAAA
1 ATTTAATTTAATTTAAA
35016970 ATTTAATTTAATTTAAA
1 ATTTAATTTAATTTAAA
35016987 TATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTAATTTAATTTAAA
Found at i:35017033 original size:30 final size:29
Alignment explanation
Indices: 35016997--35017063 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
35016987 TATATTTATT
35016997 ATTTGATTAATAAAAATTTAACTAAAT-TAA
1 ATTTGATTAATAAAAATTTAA--AAATATAA
* **
35017027 ATTTGATTAATTAATTTTTAAAAATATAA
1 ATTTGATTAATAAAAATTTAAAAATATAA
35017056 ATTTGATT
1 ATTTGATT
35017064 TAATTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 11 0.33
30 18 0.55
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (29 bp):
ATTTGATTAATAAAAATTTAAAAATATAA
Found at i:35021048 original size:18 final size:19
Alignment explanation
Indices: 35021025--35021072 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
35021015 TAACTCGTGA
35021025 ATTTAATTAAATTTTTA-T
1 ATTTAATTAAATTTTTATT
* *
35021043 ATTTAAATATATTTTTATT
1 ATTTAATTAAATTTTTATT
35021062 ATTTTAATTAA
1 A-TTTAATTAA
35021073 TAAAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.62
19 2 0.08
20 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTAATTAAATTTTTATT
Found at i:35062120 original size:5 final size:5
Alignment explanation
Indices: 35062110--35062137 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
35062100 ACTGTTAAGC
35062110 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
35062138 TGCTTTACAT
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:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (5 bp):
TTTGG
Found at i:35068309 original size:22 final size:23
Alignment explanation
Indices: 35068281--35068330 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
35068271 TTAAAAAAAA
* *
35068281 TAAAAA-TTATTATAATTTTAAT
1 TAAAAATTTACTATAATTATAAT
*
35068303 TAAAAATTTACTGTAATTATAAT
1 TAAAAATTTACTATAATTATAAT
35068326 TAAAA
1 TAAAA
35068331 CTTTTTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAAAATTTACTATAATTATAAT
Found at i:35069501 original size:10 final size:10
Alignment explanation
Indices: 35069471--35069512 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
35069461 AAAATAATTT
35069471 TATATTAAAA
1 TATATTAAAA
35069481 TATACTT-AAA
1 TATA-TTAAAA
35069491 TATATTAAAA
1 TATATTAAAA
35069501 TAATATATAAAA
1 T-ATAT-TAAAA
35069513 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 15 0.54
11 6 0.21
12 5 0.18
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
TATATTAAAA
Found at i:35074259 original size:2 final size:2
Alignment explanation
Indices: 35074252--35074279 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35074242 GGATCTGGTT
35074252 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35074280 CCCCTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:35103281 original size:13 final size:13
Alignment explanation
Indices: 35103259--35103302 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
35103249 TTTATATTAT
*
35103259 TTTTATTCATGAA
1 TTTTAATCATGAA
*
35103272 TTTTAATCATG-T
1 TTTTAATCATGAA
35103284 TTTTAATCATGAA
1 TTTTAATCATGAA
35103297 TTTTAA
1 TTTTAA
35103303 ACCAGTGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (13 bp):
TTTTAATCATGAA
Found at i:35108096 original size:30 final size:30
Alignment explanation
Indices: 35108060--35108127 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
35108050 CGAAATTAAT
* * *
35108060 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATAATTA
* *
35108090 AAAATATCATTATATAAATATATATAATTA
1 AAAATATTATTATATAAATATAAATAATTA
35108120 AAAA-ATTA
1 AAAATATTA
35108128 ATTAATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATAATTA
Found at i:35116084 original size:2 final size:2
Alignment explanation
Indices: 35116077--35116111 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
35116067 AAAAGAAATG
35116077 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
35116112 CATAAAGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35118304 original size:19 final size:20
Alignment explanation
Indices: 35118280--35118326 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
35118270 GATTTTTAAT
* *
35118280 TTTTAATTTATATAAAT-TA
1 TTTTAATATATATAAATAAA
*
35118299 TTTTAATATATTTAAATAAA
1 TTTTAATATATATAAATAAA
35118319 TTTTAATA
1 TTTTAATA
35118327 AAAATTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAATATATATAAATAAA
Found at i:35118448 original size:24 final size:24
Alignment explanation
Indices: 35118410--35118458 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35118400 TTAAAATTTA
* *
35118410 ATTTAAATCTAATATATATTTAAT
1 ATTTAAATCTAATATAAATTGAAT
* *
35118434 ATTTAAATTTGATATAAATTGAAT
1 ATTTAAATCTAATATAAATTGAAT
35118458 A
1 A
35118459 CAAAAATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTTAAATCTAATATAAATTGAAT
Found at i:35142824 original size:13 final size:13
Alignment explanation
Indices: 35142808--35142832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35142798 GCTTTTATTT
35142808 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
35142821 AAAGAAAAAAAA
1 AAAGAAAAAAAA
35142833 AACACATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:35147165 original size:59 final size:60
Alignment explanation
Indices: 35147072--35147192 Score: 208
Period size: 59 Copynumber: 2.0 Consensus size: 60
35147062 ACCTCATCAG
*
35147072 ATTAACGACACAAATTTGTTCGTTGGGTCACCTACCATTTAGTTTATTACTGCCCGGCGT
1 ATTAACGACACAAATTTGTTCGTTGGCTCACCTACCATTTAGTTTATTACTGCCCGGCGT
* *
35147132 ATTAACGACACAAA-TTGTTCGTTGGCTTACCTACCATTTAGTTTATTACTGCCTGGCGT
1 ATTAACGACACAAATTTGTTCGTTGGCTCACCTACCATTTAGTTTATTACTGCCCGGCGT
35147191 AT
1 AT
35147193 AGTGTAGATG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 44 0.76
60 14 0.24
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (60 bp):
ATTAACGACACAAATTTGTTCGTTGGCTCACCTACCATTTAGTTTATTACTGCCCGGCGT
Found at i:35149149 original size:37 final size:37
Alignment explanation
Indices: 35149099--35149204 Score: 146
Period size: 34 Copynumber: 2.9 Consensus size: 37
35149089 ACAAAATAAA
35149099 CAAATCCTACCTTTAACTTGGTCTCTTCATTATTAGT
1 CAAATCCTACCTTTAACTTGGTCTCTTCATTATTAGT
**** *
35149136 CAAATCCTACCTTTAACTTGG---AAAAAATATTAGT
1 CAAATCCTACCTTTAACTTGGTCTCTTCATTATTAGT
35149170 CAAATCCTACCTTTAACTTGGTCTCTTCATTATTA
1 CAAATCCTACCTTTAACTTGGTCTCTTCATTATTA
35149205 ATAAGAAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
34 29 0.52
37 27 0.48
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (37 bp):
CAAATCCTACCTTTAACTTGGTCTCTTCATTATTAGT
Found at i:35149265 original size:14 final size:14
Alignment explanation
Indices: 35149236--35149264 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35149226 ATGATTTACT
35149236 AATAAAAATCATAA
1 AATAAAAATCATAA
35149250 AATAAAAAT-ATAA
1 AATAAAAATCATAA
35149263 AA
1 AA
35149265 AACTTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAAATCATAA
Found at i:35149834 original size:12 final size:11
Alignment explanation
Indices: 35149814--35149856 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
35149804 AAAAATTATC
*
35149814 AAAATTAAAAT
1 AAAAATAAAAT
35149825 AATAAATAAAAT
1 AA-AAATAAAAT
*
35149837 AAATAATAATAT
1 AAA-AATAAAAT
35149849 AAAAATAA
1 AAAAATAA
35149857 GAAATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:35149839 original size:17 final size:18
Alignment explanation
Indices: 35149814--35149852 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 18
35149804 AAAAATTATC
35149814 AAAATTAAAATAATAA-AT
1 AAAATT-AAATAATAATAT
35149832 AAAA-TAAATAATAATAT
1 AAAATTAAATAATAATAT
35149849 AAAA
1 AAAA
35149853 ATAAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 7 0.35
18 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTAAATAATAATAT
Found at i:35149840 original size:16 final size:17
Alignment explanation
Indices: 35149821--35149852 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
35149811 ATCAAAATTA
35149821 AAATAATAA-ATAAAAT
1 AAATAATAATATAAAAT
35149837 AAATAATAATATAAAA
1 AAATAATAATATAAAA
35149853 ATAAGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAATAATATAAAAT
Found at i:35151161 original size:22 final size:22
Alignment explanation
Indices: 35151117--35151162 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
35151107 TTTAAGAGAG
*
35151117 TTAGTCAACTTTTTCCCATTTT
1 TTAGTCAACTTTTTCCCAGTTT
* * *
35151139 TTAGTCTACTTTTTTCCGGTTT
1 TTAGTCAACTTTTTCCCAGTTT
35151161 TT
1 TT
35151163 TCGTGGTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.20, G:0.09, T:0.59
Consensus pattern (22 bp):
TTAGTCAACTTTTTCCCAGTTT
Found at i:35170223 original size:24 final size:24
Alignment explanation
Indices: 35170196--35170269 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
35170186 GAGAATATTT
35170196 TATTACTTGCAAAAGAAATGTTTC
1 TATTACTTGCAAAAGAAATGTTTC
* * *
35170220 TATTGCATT-CATAAGAGAATATTT-
1 TATTAC-TTGCAAAAGA-AATGTTTC
* *
35170244 TATTACATGCAAAAGAAAAGTTTC
1 TATTACTTGCAAAAGAAATGTTTC
35170268 TA
1 TA
35170270 ATGCATTCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
23 6 0.16
24 24 0.63
25 8 0.21
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (24 bp):
TATTACTTGCAAAAGAAATGTTTC
Found at i:35170256 original size:48 final size:48
Alignment explanation
Indices: 35170185--35170279 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
35170175 TAACCTACAT
* * *
35170185 AGAGAATATTTTATTACTTGCAAAAGAAATGTTTCTATTGCATTCATA
1 AGAGAATATTTTATTACATGCAAAAGAAAAGTTTCTAATGCATTCATA
35170233 AGAGAATATTTTATTACATGCAAAAGAAAAGTTTCTAATGCATTCAT
1 AGAGAATATTTTATTACATGCAAAAGAAAAGTTTCTAATGCATTCAT
35170280 TCAGTACTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (48 bp):
AGAGAATATTTTATTACATGCAAAAGAAAAGTTTCTAATGCATTCATA
Found at i:35171863 original size:71 final size:70
Alignment explanation
Indices: 35171713--35171927 Score: 245
Period size: 72 Copynumber: 3.0 Consensus size: 70
35171703 TGATTGCAGT
* * * * *
35171713 ATCGAGTGAGCCATTTCTGGATAATTTCCTTAAAAAAAATTATA-TATATGGAAAGACAAAATAA
1 ATCGAGTGAGCCATTTATGGGTAGTTTCCTTAAAAGAAATTATATTATATGGAAAGACAATAT-A
35171777 TTATGGA
65 -TATGGA
* * *
35171784 AT-GTAGTGAGCCGCTTTATGGGTAGTTTCCTTAAAGGAAATTATATTATACGGAAAGACAATAT
1 ATCG-AGTGAGCC-ATTTATGGGTAGTTTCCTTAAAAGAAATTATATTATATGGAAAGACAATAT
35171848 ATATGGA
64 ATATGGA
* * * * *
35171855 ATCGAGTGAGCCATTTCACGGGTAGTTTCTTTAAAAGAAATTTTGTATAAATGGAAAGACAATAT
1 ATCGAGTGAGCCATTT-ATGGGTAGTTTCCTTAAAAGAAATTATAT-TATATGGAAAGACAATAT
35171920 ATATGGA
64 ATATGGA
35171927 A
1 A
35171928 AGAAGTTTCT
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
70 4 0.03
71 50 0.41
72 52 0.43
73 16 0.13
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (70 bp):
ATCGAGTGAGCCATTTATGGGTAGTTTCCTTAAAAGAAATTATATTATATGGAAAGACAATATAT
ATGGA
Found at i:35179390 original size:25 final size:25
Alignment explanation
Indices: 35179353--35179404 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
35179343 CATCTCTTGG
35179353 AGAAACTCCATGTCCTAAAGGTTAA
1 AGAAACTCCATGTCCTAAAGGTTAA
*
35179378 AGAAACTCGATGTCCTAAAGGTTAA
1 AGAAACTCCATGTCCTAAAGGTTAA
35179403 AG
1 AG
35179405 GCAGAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (25 bp):
AGAAACTCCATGTCCTAAAGGTTAA
Found at i:35179438 original size:39 final size:39
Alignment explanation
Indices: 35179380--35179457 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
35179370 AAGGTTAAAG
35179380 AAACTCGATGTCCTAAAGGTTAAAGGCAGAGATAAACGT
1 AAACTCGATGTCCTAAAGGTTAAAGGCAGAGATAAACGT
*
35179419 AAACTCGATGTCCTCAAGGTTAAAGGCAGAGATAAACGT
1 AAACTCGATGTCCTAAAGGTTAAAGGCAGAGATAAACGT
35179458 GGCCGTAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.21
Consensus pattern (39 bp):
AAACTCGATGTCCTAAAGGTTAAAGGCAGAGATAAACGT
Found at i:35180764 original size:14 final size:14
Alignment explanation
Indices: 35180745--35180772 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35180735 TAAGTTTGAA
35180745 TCGAATTTTAAATC
1 TCGAATTTTAAATC
35180759 TCGAATTTTAAATC
1 TCGAATTTTAAATC
35180773 GAGTTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TCGAATTTTAAATC
Found at i:35195407 original size:17 final size:17
Alignment explanation
Indices: 35195359--35195424 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 17
35195349 ATTTTTTTAA
35195359 TTTATTAAATTCATATAATT
1 TTTATTAAATT--T-TAATT
35195379 TTTATTAAAATTTTAATT
1 TTTATT-AAATTTTAATT
*
35195397 TTATATT-AATTTTTA-T
1 TT-TATTAAATTTTAATT
*
35195413 ATTATTAAATTT
1 TTTATTAAATTT
35195425 ACCGATATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 4 0.10
16 7 0.17
17 7 0.17
18 7 0.17
19 5 0.12
20 6 0.15
21 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATTAAATTTTAATT
Found at i:35202043 original size:2 final size:2
Alignment explanation
Indices: 35202036--35202067 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
35202026 GTACTCTAGA
*
35202036 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35202068 GAGAACATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:35206799 original size:5 final size:5
Alignment explanation
Indices: 35206789--35206813 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35206779 TTGGGTCTCA
35206789 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
35206814 GAATGGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:35207175 original size:14 final size:14
Alignment explanation
Indices: 35207156--35207184 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35207146 TTTTGAGATG
35207156 ATATATATATTTAT
1 ATATATATATTTAT
35207170 ATATATATATTTAT
1 ATATATATATTTAT
35207184 A
1 A
35207185 ATTTGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATATATTTAT
Found at i:35222542 original size:7 final size:7
Alignment explanation
Indices: 35222530--35222560 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
35222520 AAACTTTCAC
35222530 AAACCCT
1 AAACCCT
35222537 AAACCCT
1 AAACCCT
35222544 AAACCCT
1 AAACCCT
35222551 AAACCCT
1 AAACCCT
35222558 AAA
1 AAA
35222561 TTATACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:35224853 original size:44 final size:44
Alignment explanation
Indices: 35224785--35224870 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
35224775 CCAACTGGGA
* *
35224785 AGTTTTTTATAATATATCTGAATGTGGTTATCTCTGGATTATAT
1 AGTTGTTTATAATATACCTGAATGTGGTTATCTCTGGATTATAT
35224829 AGTTGTTTATAATATACCTGAATGTGGTTATCTCTGGATTAT
1 AGTTGTTTATAATATACCTGAATGTGGTTATCTCTGGATTAT
35224871 GTATATCTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (44 bp):
AGTTGTTTATAATATACCTGAATGTGGTTATCTCTGGATTATAT
Found at i:35230591 original size:2 final size:2
Alignment explanation
Indices: 35230584--35230611 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35230574 ATTATCAGCA
35230584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35230612 TAAATAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35235228 original size:60 final size:60
Alignment explanation
Indices: 35235135--35235257 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
35235125 GTAAATGCTG
* * * *
35235135 TATCTGTCAATCCTGGAGAAGTCGTTTTCTAATTACAGCAAAGCAGAGAACTTGATTAGT
1 TATCTCTCAATCATGGAGAAGTCATTATCTAATTACAGCAAAGCAGAGAACTTGATTAGT
* * *
35235195 TATCTCTCAATCATGGAGAAGTCATTATCTAATTACTGCCAAGCAGAGAACTTGCTTAGT
1 TATCTCTCAATCATGGAGAAGTCATTATCTAATTACAGCAAAGCAGAGAACTTGATTAGT
35235255 TAT
1 TAT
35235258 ACACTGATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (60 bp):
TATCTCTCAATCATGGAGAAGTCATTATCTAATTACAGCAAAGCAGAGAACTTGATTAGT
Found at i:35236347 original size:2 final size:2
Alignment explanation
Indices: 35236340--35236370 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35236330 AGGAAATTAA
35236340 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
35236371 ATTGAAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35247958 original size:31 final size:31
Alignment explanation
Indices: 35247923--35247983 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
35247913 GCAAATAAAC
* * *
35247923 AAATCAATGTATGCATGATTAATAGGATTCA
1 AAATCAATGCAAGCATCATTAATAGGATTCA
35247954 AAATCAATGCAAGCATCATTAATAGGATTC
1 AAATCAATGCAAGCATCATTAATAGGATTC
35247984 CAAAGAGAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (31 bp):
AAATCAATGCAAGCATCATTAATAGGATTCA
Found at i:35254674 original size:19 final size:19
Alignment explanation
Indices: 35254647--35254698 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
35254637 GGACCCCAAC
*
35254647 ATCTCGTTGGAATGTCACG
1 ATCTTGTTGGAATGTCACG
35254666 ATCTTGTTGGAATGTCACG
1 ATCTTGTTGGAATGTCACG
*
35254685 ATCTTATTGGAATG
1 ATCTTGTTGGAATG
35254699 ACTCTGGCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (19 bp):
ATCTTGTTGGAATGTCACG
Found at i:35262742 original size:48 final size:48
Alignment explanation
Indices: 35262671--35262767 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
35262661 GGATAAGAGT
35262671 TGTCATGTTATTAGAATTGATATTTGGAGGTTATAAGTTTCAGAAAGC
1 TGTCATGTTATTAGAATTGATATTTGGAGGTTATAAGTTTCAGAAAGC
35262719 TGTCATGTTATTAGAATTGATATTTGGAGGTTATAAGTTTCAGAAAGC
1 TGTCATGTTATTAGAATTGATATTTGGAGGTTATAAGTTTCAGAAAGC
35262767 T
1 T
35262768 TAAGCGTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (48 bp):
TGTCATGTTATTAGAATTGATATTTGGAGGTTATAAGTTTCAGAAAGC
Found at i:35265761 original size:42 final size:43
Alignment explanation
Indices: 35265714--35265821 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 43
35265704 AACCCAAACG
* *
35265714 GAAACCCAAA-TGATTTCTCATTTATAGCAGCAAAATGCGAGC
1 GAAACCCAAAGTGATCTCTCATTCATAGCAGCAAAATGCGAGC
* * * * *
35265756 GAAACCGAAAGTGATCTCTCATTCATGGTAGCAAGATGTGAGC
1 GAAACCCAAAGTGATCTCTCATTCATAGCAGCAAAATGCGAGC
* * *
35265799 CAAACCC-AAGTGACCTGTCATTC
1 GAAACCCAAAGTGATCTCTCATTC
35265822 GGCGAAGCAT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 23 0.43
43 31 0.57
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (43 bp):
GAAACCCAAAGTGATCTCTCATTCATAGCAGCAAAATGCGAGC
Found at i:35265881 original size:69 final size:71
Alignment explanation
Indices: 35265796--35265937 Score: 227
Period size: 70 Copynumber: 2.0 Consensus size: 71
35265786 GCAAGATGTG
* *
35265796 AGCCAAACCCAAGTGA-C-CTGTCATTCGGCGAAGCATGATAGTGATATTATGAACTTATCCAAG
1 AGCCAAACCCAAGTGACCTCTCTCATTCGGAGAAGCATGAT-GTGATATTATGAACTTATCCAAG
35265859 TGGCTAA
65 TGGCTAA
*
35265866 AGCC-AACCGAAGTGACCTCTCTCATTCGGAGAAGCATGATGTGATATTATGAACTTATCCAAGT
1 AGCCAAACCCAAGTGACCTCTCTCATTCGGAGAAGCATGATGTGATATTATGAACTTATCCAAGT
35265930 GGCTAA
66 GGCTAA
35265936 AG
1 AG
35265938 TTTATCCAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
69 10 0.15
70 37 0.55
71 20 0.30
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (71 bp):
AGCCAAACCCAAGTGACCTCTCTCATTCGGAGAAGCATGATGTGATATTATGAACTTATCCAAGT
GGCTAA
Found at i:35268310 original size:28 final size:29
Alignment explanation
Indices: 35268244--35268310 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 29
35268234 TGAGTAATTA
* *
35268244 AAATATTTTAAATATATATACAAAATAAT
1 AAATTTTTTAAAAATATATACAAAATAAT
* * * *
35268273 AAA-TTATTAAAAATATA-AGATAATATT
1 AAATTTTTTAAAAATATATACAAAATAAT
35268300 AAATTTTTTAA
1 AAATTTTTTAA
35268311 CCATTAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
27 10 0.33
28 17 0.57
29 3 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (29 bp):
AAATTTTTTAAAAATATATACAAAATAAT
Found at i:35269652 original size:28 final size:27
Alignment explanation
Indices: 35269608--35269671 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 27
35269598 ATTGATCATG
35269608 AATAAATAT-TAAAATAATTATATCCT
1 AATAAATATATAAAATAATTATATCCT
*
35269634 ATTAAATATAATAAAATAATTATATCCT
1 AATAAATAT-ATAAAATAATTATATCCT
*
35269662 AATAATTATA
1 AATAAATATA
35269672 CAACTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.24
27 1 0.03
28 24 0.73
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (27 bp):
AATAAATATATAAAATAATTATATCCT
Found at i:35269665 original size:14 final size:14
Alignment explanation
Indices: 35269620--35269671 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
35269610 TAAATATTAA
35269620 AATAATTATATCCT
1 AATAATTATATCCT
* * **
35269634 ATTAAATATAAT-AA
1 AATAATTAT-ATCCT
35269648 AATAATTATATCCT
1 AATAATTATATCCT
35269662 AATAATTATA
1 AATAATTATA
35269672 CAACTTAAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAATTATATCCT
Found at i:35269783 original size:33 final size:33
Alignment explanation
Indices: 35269720--35269782 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
35269710 TTATTAAAAA
* * *
35269720 ATAACAATATTTTATAAACTTCACAAAAAAAGT
1 ATAACAAAATTATATAAACTTAACAAAAAAAGT
35269753 ATAACAAAATTAT-TAAACTTAACAAAAAAA
1 ATAACAAAATTATATAAACTTAACAAAAAAA
35269783 AACTAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.27
Consensus pattern (33 bp):
ATAACAAAATTATATAAACTTAACAAAAAAAGT
Found at i:35286921 original size:24 final size:24
Alignment explanation
Indices: 35286894--35286948 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
35286884 TCGTGATCCT
35286894 CTGACCACAAG-AACTCACGGTCCA
1 CTGACCA-AAGCAACTCACGGTCCA
* * *
35286918 CTGACCAACGCAGCTCATGGTCCA
1 CTGACCAAAGCAACTCACGGTCCA
35286942 CTGACCA
1 CTGACCA
35286949 TCTCGCTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.29, C:0.38, G:0.18, T:0.15
Consensus pattern (24 bp):
CTGACCAAAGCAACTCACGGTCCA
Found at i:35290311 original size:5 final size:5
Alignment explanation
Indices: 35290289--35290326 Score: 58
Period size: 5 Copynumber: 7.2 Consensus size: 5
35290279 CACACACACA
35290289 TATAT ATATAT ATATAT TATAT TATAT TATAT TATAT T
1 TATAT -TATAT -TATAT TATAT TATAT TATAT TATAT T
35290327 CCTAAATCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 21 0.66
6 11 0.34
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:35294888 original size:22 final size:22
Alignment explanation
Indices: 35294863--35294905 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
35294853 TATATGTATA
35294863 TATAAAAATTAATTTTTTAAAT
1 TATAAAAATTAATTTTTTAAAT
* * *
35294885 TATATATATTAGTTTTTTAAA
1 TATAAAAATTAATTTTTTAAA
35294906 AATTATATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TATAAAAATTAATTTTTTAAAT
Found at i:35294912 original size:22 final size:22
Alignment explanation
Indices: 35294870--35294933 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
35294860 ATATATAAAA
*
35294870 ATTAATTTTTTAAATTATATAT
1 ATTAATTTTTTAAAATATATAT
*
35294892 ATTAGTTTTTTAAAA-AT-TAT
1 ATTAATTTTTTAAAATATATAT
* * *
35294912 ATTCAAATATTTAAAATTTATA
1 ATT-AATTTTTTAAAATATATA
35294934 GTATATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 6 0.18
21 11 0.33
22 14 0.42
23 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTAATTTTTTAAAATATATAT
Found at i:35295126 original size:18 final size:20
Alignment explanation
Indices: 35295089--35295128 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
35295079 TTTCTTTAAA
35295089 AAATAAAAATATATATTATT
1 AAATAAAAATATATATTATT
*
35295109 AAATAATAATA-A-ATTATT
1 AAATAAAAATATATATTATT
35295127 AA
1 AA
35295129 CATACTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATAAAAATATATATTATT
Found at i:35295280 original size:34 final size:34
Alignment explanation
Indices: 35295242--35295330 Score: 83
Period size: 34 Copynumber: 2.6 Consensus size: 34
35295232 CATAAGAATG
35295242 AAATTATAATAAAAATAAAATATA-TCTTGAAAAA
1 AAATTATAATAAAAATAAAATATACT-TTGAAAAA
* ** * *
35295276 AAATTACAATAGTAATAGAATTTACTTTGAAAAA
1 AAATTATAATAAAAATAAAATATACTTTGAAAAA
*
35295310 AAGTTATTGAA-AAAAATAAAA
1 AAATTA-T-AATAAAAATAAAA
35295331 AAAGTGATGT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
34 32 0.76
35 8 0.19
36 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (34 bp):
AAATTATAATAAAAATAAAATATACTTTGAAAAA
Found at i:35295766 original size:21 final size:20
Alignment explanation
Indices: 35295726--35295775 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
35295716 AATAATTTTT
35295726 AAAA-AAAATTATTTGATAA
1 AAAATAAAATTATTTGATAA
*
35295745 ACAACTAAAATTATTT-ATTAA
1 A-AAATAAAATTATTTGA-TAA
35295766 AAAATAAAAT
1 AAAATAAAAT
35295776 CCATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 11 0.42
21 14 0.54
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATAAAATTATTTGATAA
Found at i:35296492 original size:18 final size:18
Alignment explanation
Indices: 35296469--35296522 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
35296459 GTTTTACAAA
*
35296469 ATTTTATATTTATATTAT
1 ATTTTATATTCATATTAT
* *
35296487 ATTTTATA-TGAAACTTAT
1 ATTTTATATTCATA-TTAT
35296505 ATTTTATAATTCATATTA
1 ATTTTAT-ATTCATATTA
35296523 ATATAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 3 0.10
18 19 0.66
19 4 0.14
20 3 0.10
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTTATATTCATATTAT
Found at i:35309882 original size:5 final size:5
Alignment explanation
Indices: 35309872--35309896 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35309862 ACATGGAAAA
35309872 AGAAG AGAAG AGAAG AGAAG AGAAG
1 AGAAG AGAAG AGAAG AGAAG AGAAG
35309897 CAATTGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:35315559 original size:30 final size:30
Alignment explanation
Indices: 35315523--35315581 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
35315513 CCAAAATTAA
* * *
35315523 TAAAAATATTATTTTTTAAATATAAATATT
1 TAAAAATATCATTATATAAATATAAATATT
*
35315553 TAAAAATATCATTATATAAATATATATAT
1 TAAAAATATCATTATATAAATATAAATAT
35315582 AATTAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAAAATATCATTATATAAATATAAATATT
Done.