Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 92 of 93
Found at i:15308466 original size:24 final size:25
Alignment explanation
Indices: 15308430--15308498 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
15308420 CAAGATATGA
**
15308430 AAAGAGCCGAAAGTTCGAGACGT-G
1 AAAGAGCTAAAAGTTCGAGACGTGG
*
15308454 AAAGAGCTAAAAGTTCGAGATGTGG
1 AAAGAGCTAAAAGTTCGAGACGTGG
* *
15308479 AAAGAGCTAAAGGTTTGAGA
1 AAAGAGCTAAAAGTTCGAGA
15308499 AGTGCATGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 20 0.51
25 19 0.49
ACGTcount: A:0.41, C:0.10, G:0.32, T:0.17
Consensus pattern (25 bp):
AAAGAGCTAAAAGTTCGAGACGTGG
Found at i:15308758 original size:11 final size:11
Alignment explanation
Indices: 15308741--15308776 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
15308731 AAATTCCATA
15308741 AGAGATTTGTT
1 AGAGATTTGTT
*
15308752 TGAGATTTGTT
1 AGAGATTTGTT
*
15308763 AGAGATTTTTT
1 AGAGATTTGTT
15308774 AGA
1 AGA
15308777 TATTGCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:15308861 original size:52 final size:52
Alignment explanation
Indices: 15308798--15308953 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
15308788 GGACAAGAAG
*
15308798 ACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGTAAGTTTA
1 ACTTGTAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGTAAGTTTA
* * * * *
15308850 ACTTGTAAAAGAAGAATTCTAAAAGGAAA-AGGATTCTTAATAGGCAAATTTG
1 ACTTGTAAAAGAAGAATTCTAAGA-GAAAGAAGATTCTTAATAGGTAAGTTTA
* * * *
15308902 ACTTATAAAAAAAGAATTCTAAGAG-GAGAGAGATTCTTAATGGGTAAGTTTA
1 ACTTGTAAAAGAAGAATTCTAAGAGAAAGA-AGATTCTTAATAGGTAAGTTTA
15308954 TATGGTTATA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 79 0.92
53 4 0.05
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (52 bp):
ACTTGTAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGTAAGTTTA
Found at i:15309600 original size:25 final size:24
Alignment explanation
Indices: 15309485--15309601 Score: 101
Period size: 25 Copynumber: 4.8 Consensus size: 24
15309475 AAGTGGTATC
*
15309485 AGAGCTGAAGGTTTGAAATGTGAGA
1 AGAGCTGAAGGTTTGAGATGTGA-A
* * **
15309510 AGAGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTTGAGATGTG-AA
* *
15309535 AGAG-TCGAAGGTTCGAGACGTGAA
1 AGAGCT-GAAGGTTTGAGATGTGAA
* *
15309559 AGAGCTAAAAGTTTGAGATGTGGAA
1 AGAGCTGAAGGTTTGAGATGT-GAA
*
15309584 AGAGCTAAAGGTTTGAGA
1 AGAGCTGAAGGTTTGAGA
15309602 AGTGCATGGT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
24 18 0.24
25 56 0.75
26 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.22
Consensus pattern (24 bp):
AGAGCTGAAGGTTTGAGATGTGAA
Found at i:15309859 original size:11 final size:11
Alignment explanation
Indices: 15309843--15309867 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15309833 GAATCCCATA
15309843 AGAGATTTGTT
1 AGAGATTTGTT
15309854 AGAGATTTGTT
1 AGAGATTTGTT
15309865 AGA
1 AGA
15309868 TATTGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:15309976 original size:52 final size:52
Alignment explanation
Indices: 15309887--15310043 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
15309877 ATGGACAAGA
* * *
15309887 TGACTTGCAAAAGAAGAATTCTAAGA-GAAAGAAGATTCTTAATAGGTAAGTT
1 TGACTTACAAGAGAAGAATTCTAAAAGGAAAG-AGATTCTTAATAGGTAAGTT
** * * * *
15309939 TGACTTGTAAGAGAATAATTTTAAAAGGAAAGGGATTCTTAATAGGCAAGTT
1 TGACTTACAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTT
* * *
15309991 TGACTTACAAGAGAAGAATTCTAAGAGGAGAGAGATTCTTAATGGGTAAGTT
1 TGACTTACAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTT
15310043 T
1 T
15310044 ATACGGTTAT
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
52 83 0.94
53 5 0.06
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (52 bp):
TGACTTACAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTT
Found at i:15310813 original size:2 final size:2
Alignment explanation
Indices: 15310808--15310843 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15310798 CACACACACC
15310808 AT AT AT AT 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 AT AT AT AT
15310844 TCTTGTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15316490 original size:21 final size:21
Alignment explanation
Indices: 15316464--15316507 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15316454 CCAATATATT
*
15316464 ACTGCTAT-AAACATAAAAATC
1 ACTGCT-TCAAACAGAAAAATC
*
15316485 ACTGCTTCAAACAGAAAACTC
1 ACTGCTTCAAACAGAAAAATC
15316506 AC
1 AC
15316508 AGCAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.48, C:0.25, G:0.07, T:0.20
Consensus pattern (21 bp):
ACTGCTTCAAACAGAAAAATC
Found at i:15317814 original size:18 final size:17
Alignment explanation
Indices: 15317777--15317820 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
15317767 TTTTTATTTA
*
15317777 ATTATATAAATAAATTAT
1 ATTAT-TAAAAAAATTAT
15317795 ATTATTAAAAAAATTAAT
1 ATTATTAAAAAAATT-AT
15317813 ATTTATTA
1 A-TTATTA
15317821 CATATCGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
18 8 0.35
19 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTATTAAAAAAATTAT
Found at i:15322428 original size:2 final size:2
Alignment explanation
Indices: 15322421--15322461 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
15322411 CAATTCTTTA
* * *
15322421 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15322462 GACACACACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (2 bp):
AT
Found at i:15322438 original size:12 final size:12
Alignment explanation
Indices: 15322421--15322461 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
15322411 CAATTCTTTA
*
15322421 ATATATATATAT
1 ATATATATATAG
15322433 ATATATATATAG
1 ATATATATATAG
*
15322445 ATATAGATATAG
1 ATATATATATAG
15322457 ATATA
1 ATATA
15322462 GACACACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
ATATATATATAG
Found at i:15322535 original size:13 final size:14
Alignment explanation
Indices: 15322509--15322537 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15322499 TTTAAAACTG
15322509 CAACAAGCCAATAA
1 CAACAAGCCAATAA
15322523 CAACAAG-CAATAA
1 CAACAAGCCAATAA
15322536 CA
1 CA
15322538 TCTAAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.28, G:0.07, T:0.07
Consensus pattern (14 bp):
CAACAAGCCAATAA
Found at i:15342096 original size:13 final size:12
Alignment explanation
Indices: 15342057--15342090 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
15342047 GCATCCTTTT
15342057 TCAAGAGAAAAC
1 TCAAGAGAAAAC
15342069 TCAA-AGAAAAAC
1 TCAAGAG-AAAAC
15342081 TCAAGAGAAA
1 TCAAGAGAAA
15342091 TTCTCATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.10
12 16 0.80
13 2 0.10
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.09
Consensus pattern (12 bp):
TCAAGAGAAAAC
Found at i:15346618 original size:3 final size:3
Alignment explanation
Indices: 15346610--15346634 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15346600 AAACAATTGG
15346610 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
15346635 ATCACATCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15348488 original size:4 final size:4
Alignment explanation
Indices: 15348479--15348513 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
15348469 GTCAAATGCC
15348479 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
15348514 TAAATAGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
ATGA
Found at i:15350372 original size:2 final size:2
Alignment explanation
Indices: 15350367--15350396 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15350357 TTAAGAGAGA
*
15350367 GT GT GT GT GC GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
15350397 TGGTTGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
GT
Found at i:15356961 original size:2 final size:2
Alignment explanation
Indices: 15356954--15356992 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15356944 ACTTACAGAC
15356954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15356993 TACTGCATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15366026 original size:24 final size:24
Alignment explanation
Indices: 15365994--15366039 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
15365984 CGCTGTTTTG
15365994 GCAAGGTGGGAAAGCTTGAAAACA
1 GCAAGGTGGGAAAGCTTGAAAACA
15366018 GCAAGGTGGGAAAGCTTGAAAA
1 GCAAGGTGGGAAAGCTTGAAAA
15366040 AAGAAAGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.35, T:0.13
Consensus pattern (24 bp):
GCAAGGTGGGAAAGCTTGAAAACA
Found at i:15366268 original size:24 final size:26
Alignment explanation
Indices: 15366221--15366268 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
15366211 TTAATTTTTT
* *
15366221 AAATTTTTATATGCTATTTTAATATA
1 AAATTTTTATATGATATTTAAATATA
15366247 AAATTTTTA-AT-ATATTTAAATA
1 AAATTTTTATATGATATTTAAATA
15366269 GATTTTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 2 0.10
26 9 0.45
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
AAATTTTTATATGATATTTAAATATA
Found at i:15366340 original size:20 final size:20
Alignment explanation
Indices: 15366303--15366344 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
15366293 TTACTTTATG
15366303 AAAATTTAAAAAGTATATATA
1 AAAATTTAAAAAG-ATATATA
15366324 AAAATTATAAAAA-ATATATA
1 AAAATT-TAAAAAGATATATA
15366344 A
1 A
15366345 TTTGATTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 6 0.30
22 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATTTAAAAAGATATATA
Found at i:15366341 original size:22 final size:21
Alignment explanation
Indices: 15366303--15366343 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
15366293 TTACTTTATG
*
15366303 AAAATTTAAAAAGTATATATA
1 AAAATTTAAAAAATATATATA
15366324 AAAATTATAAAAAATATATA
1 AAAATT-TAAAAAATATATA
15366344 ATTTGATTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATTTAAAAAATATATATA
Found at i:15369742 original size:17 final size:17
Alignment explanation
Indices: 15369715--15369757 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
15369705 ATGATCAGCA
*
15369715 CAACCAACCTGCAAAATT
1 CAACAAACCTG-AAAATT
*
15369733 CAA-AAACCTGAAACTT
1 CAACAAACCTGAAAATT
15369749 CAACAAACC
1 CAACAAACC
15369758 CTTCTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 8 0.36
17 11 0.50
18 3 0.14
ACGTcount: A:0.49, C:0.33, G:0.05, T:0.14
Consensus pattern (17 bp):
CAACAAACCTGAAAATT
Found at i:15381228 original size:20 final size:20
Alignment explanation
Indices: 15381205--15381250 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
15381195 TTAATTTTAT
15381205 ATTTATATTAAAAAATAATA
1 ATTTATATTAAAAAATAATA
*
15381225 ATTTATATTTAAAAATAATA
1 ATTTATATTAAAAAATAATA
15381245 ATTTAT
1 ATTTAT
15381251 TAATTTCGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTATATTAAAAAATAATA
Found at i:15383405 original size:14 final size:14
Alignment explanation
Indices: 15383352--15383405 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
15383342 TAATTAATTT
15383352 ATATATATTTATATAA
1 ATATATATTTA-A-AA
* * *
15383368 TTATATATTCAAAT
1 ATATATATTTAAAA
*
15383382 ATTTATATTTAAAA
1 ATATATATTTAAAA
15383396 ATATATATTT
1 ATATATATTT
15383406 TATATTTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 20 0.67
15 1 0.03
16 9 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATATTTAAAA
Found at i:15383409 original size:21 final size:21
Alignment explanation
Indices: 15383379--15383429 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
15383369 TATATATTCA
15383379 AATA-TTTATATTT-AAAAAT
1 AATATTTTATATTTAAAAAAT
15383398 ATATATTTTATATTTAAAAAAT
1 A-ATATTTTATATTTAAAAAAT
15383420 AATATTTTAT
1 AATATTTTAT
15383430 TAATTTTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.03
20 3 0.10
21 18 0.62
22 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:15386085 original size:26 final size:26
Alignment explanation
Indices: 15386038--15386092 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
15386028 TTATTATGTT
*
15386038 AATATATAAATATTAATTTTTTAAATA
1 AATATATAAATATTAATATTTTAAA-A
15386065 AATATATAAA-ATTAATATTTTAAAA
1 AATATATAAATATTAATATTTTAAAA
15386090 AAT
1 AAT
15386093 TTTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 4 0.15
26 13 0.48
27 10 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATATATAAATATTAATATTTTAAAA
Found at i:15386092 original size:29 final size:27
Alignment explanation
Indices: 15386038--15386089 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15386028 TTATTATGTT
*
15386038 AATATATAAATATTAATTTTTTAAATA
1 AATATATAAATATTAATTTTTAAAATA
15386065 AATATATAAA-ATTAATATTTTAAAA
1 AATATATAAATATTAAT-TTTTAAAA
15386090 AATTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AATATATAAATATTAATTTTTAAAATA
Found at i:15386163 original size:29 final size:27
Alignment explanation
Indices: 15386091--15386164 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
15386081 ATTTTAAAAA
15386091 ATTTTATTTATTAAT-A-AAATAATAT
1 ATTTTATTTATTAATAATAAATAATAT
* *
15386116 -TTTGATTCACTTAATTAATAAGATAATATT
1 ATTTTATTTA-TTAA-TAATAA-ATAATA-T
15386146 ATTTTATTTATTAATAATA
1 ATTTTATTTATTAATAATA
15386165 TTTTAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
24 7 0.18
25 4 0.11
26 1 0.03
27 1 0.03
28 2 0.05
29 11 0.29
30 5 0.13
31 7 0.18
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (27 bp):
ATTTTATTTATTAATAATAAATAATAT
Found at i:15419306 original size:27 final size:27
Alignment explanation
Indices: 15419272--15419325 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15419262 ATCTTGACAT
15419272 ATACGTCCTCGTACTGGAATCTAAGTG
1 ATACGTCCTCGTACTGGAATCTAAGTG
15419299 ATACGTCCTCGTACTGGAATCTAAGTG
1 ATACGTCCTCGTACTGGAATCTAAGTG
15419326 TTATGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (27 bp):
ATACGTCCTCGTACTGGAATCTAAGTG
Found at i:15419496 original size:2 final size:2
Alignment explanation
Indices: 15419489--15419520 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15419479 CTTTGCGCTG
*
15419489 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15419521 TGCTTTATAG
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:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15424787 original size:2 final size:2
Alignment explanation
Indices: 15424780--15424805 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15424770 AGAATAGGGA
15424780 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
15424806 TGGTCAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15425293 original size:20 final size:19
Alignment explanation
Indices: 15425260--15425299 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
15425250 AAATAACAAG
*
15425260 TAAGAAAACCATATAGCATA
1 TAAGAAAACAATATAG-ATA
*
15425280 TAAGAAAATAATATAGATA
1 TAAGAAAACAATATAGATA
15425299 T
1 T
15425300 TTACAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.25
Consensus pattern (19 bp):
TAAGAAAACAATATAGATA
Found at i:15428191 original size:16 final size:17
Alignment explanation
Indices: 15428160--15428192 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15428150 TATTCATAAA
15428160 ATTTAAAATCAAAATTTT
1 ATTTAAAA-CAAAATTTT
15428178 ATTTAAAA-AAAATTT
1 ATTTAAAACAAAATTT
15428193 GACATCCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAAACAAAATTTT
Found at i:15433832 original size:13 final size:13
Alignment explanation
Indices: 15433814--15433838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15433804 TTTATTCTAT
15433814 ATTTTATATAAAA
1 ATTTTATATAAAA
15433827 ATTTTATATAAA
1 ATTTTATATAAA
15433839 CATTAAAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATATAAAA
Found at i:15433908 original size:28 final size:30
Alignment explanation
Indices: 15433853--15433931 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 30
15433843 AAAATATAAA
* *
15433853 ATATAATT-TTTTAATTTTATTAATTTATTT
1 ATATATTTATTTTAATTTTA-TAATTTATAT
15433883 ATATATTTATTTTAATTTTA-AA-TTATAT
1 ATATATTTATTTTAATTTTATAATTTATAT
* * *
15433911 ATTTATTTATATTATTTTTAT
1 ATATATTTATTTTAATTTTAT
15433932 GTCGAATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
28 22 0.52
29 2 0.05
30 7 0.17
31 11 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
ATATATTTATTTTAATTTTATAATTTATAT
Found at i:15433990 original size:28 final size:28
Alignment explanation
Indices: 15433936--15433989 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
15433926 TTTTATGTCG
15433936 AATTATCATATAATATTTTAAAATTTTA
1 AATTATCATATAATATTTTAAAATTTTA
15433964 AATTATCATA-AGAT-TTTTAAAATTTT
1 AATTATCATATA-ATATTTTAAAATTTT
15433990 TTAAGTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (28 bp):
AATTATCATATAATATTTTAAAATTTTA
Found at i:15437568 original size:13 final size:14
Alignment explanation
Indices: 15437542--15437570 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15437532 TTATTTGCAG
15437542 CTTTCATCATCCAT
1 CTTTCATCATCCAT
15437556 CTTTCAT-ATCCAT
1 CTTTCATCATCCAT
15437569 CT
1 CT
15437571 GCAGTCTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (14 bp):
CTTTCATCATCCAT
Found at i:15439203 original size:11 final size:11
Alignment explanation
Indices: 15439187--15439212 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15439177 AATGTTAGTA
15439187 TTCTTTTAAAT
1 TTCTTTTAAAT
15439198 TTCTTTTAAAT
1 TTCTTTTAAAT
15439209 TTCT
1 TTCT
15439213 AATATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (11 bp):
TTCTTTTAAAT
Found at i:15457463 original size:2 final size:2
Alignment explanation
Indices: 15457458--15457528 Score: 83
Period size: 2 Copynumber: 36.5 Consensus size: 2
15457448 AGAGCGGAGT
* * * * *
15457458 AG AG AG AG A- AC AG AG -G AG AG AG AA AG AC AG AG AT AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15457498 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
15457529 TCAACGGTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
1 2 0.03
2 56 0.97
ACGTcount: A:0.51, C:0.03, G:0.45, T:0.01
Consensus pattern (2 bp):
AG
Found at i:15466722 original size:23 final size:23
Alignment explanation
Indices: 15466667--15466731 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 23
15466657 ATTAAAAGTA
15466667 ATAA-TAAAAAA-TATTATAATT
1 ATAATTAAAAAATTATTATAATT
* *
15466688 ATGATTGAAAAAAATTATTATATTT
1 ATAATT--AAAAAATTATTATAATT
*
15466713 ATAATTAAAAAATTTTTAT
1 ATAATTAAAAAATTATTAT
15466732 TAAAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 12 0.33
24 6 0.17
25 14 0.39
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (23 bp):
ATAATTAAAAAATTATTATAATT
Found at i:15466739 original size:21 final size:23
Alignment explanation
Indices: 15466696--15466739 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
15466686 TTATGATTGA
* *
15466696 AAAAAATTATTATATTTATAATT
1 AAAAAATTATTATATTAAAAATT
15466719 AAAAAATT-TT-TATTAAAAATT
1 AAAAAATTATTATATTAAAAATT
15466740 TATGATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAAAATTATTATATTAAAAATT
Found at i:15466782 original size:17 final size:18
Alignment explanation
Indices: 15466762--15466811 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 18
15466752 ATTTTATTAA
15466762 AATTAATATT-TAAATTT
1 AATTAATATTATAAATTT
15466779 AATTAATAATATGATAAATTT
1 AATTAAT-AT-T-ATAAATTT
15466800 AATT-ATATTATA
1 AATTAATATTATA
15466812 TAAAAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 10 0.34
18 3 0.10
19 3 0.10
20 2 0.07
21 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTAATATTATAAATTT
Found at i:15467992 original size:14 final size:14
Alignment explanation
Indices: 15467968--15468007 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
15467958 ATTTTTTAAA
*
15467968 ATATAAAATATTATT
1 ATAT-AAATATAATT
*
15467983 TTATAAATATAATT
1 ATATAAATATAATT
15467997 ATATAAATATA
1 ATATAAATATA
15468008 TAAACAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATAAATATAATT
Found at i:15468000 original size:22 final size:22
Alignment explanation
Indices: 15467948--15467994 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
15467938 ATCGAAATTA
*
15467948 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTATAAAAT
15467970 ATAAAATATTATTTTAT-AAAT
1 ATAAAATATTATTTTATAAAAT
15467991 ATAA
1 ATAA
15467995 TTATATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAAATATTATTTTATAAAAT
Found at i:15488548 original size:14 final size:15
Alignment explanation
Indices: 15488529--15488559 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15488519 AGCGAAATGG
15488529 AAAAAAAAAA-TCCA
1 AAAAAAAAAATTCCA
15488543 AAAAAAAAAATTCCA
1 AAAAAAAAAATTCCA
15488558 AA
1 AA
15488560 GTTTTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAATTCCA
Found at i:15488549 original size:15 final size:15
Alignment explanation
Indices: 15488529--15488559 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15488519 AGCGAAATGG
15488529 AAAAAAAAAATCCAA
1 AAAAAAAAAATCCAA
*
15488544 AAAAAAAAATTCCAA
1 AAAAAAAAAATCCAA
15488559 A
1 A
15488560 GTTTTAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAATCCAA
Found at i:15490900 original size:17 final size:17
Alignment explanation
Indices: 15490878--15490916 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15490868 AGTAATTAGA
*
15490878 TAAATTTAATATAAAA-T
1 TAAATTAAAT-TAAAATT
15490895 TAAATTAAATTAAAATT
1 TAAATTAAATTAAAATT
15490912 TAAAT
1 TAAAT
15490917 GTGAAATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTAAATTAAAATT
Found at i:15501520 original size:5 final size:5
Alignment explanation
Indices: 15501510--15501539 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
15501500 CGTCAAGTAT
15501510 TGAAA TGAAA TGAAA TGAAA TGAAA TGAAA
1 TGAAA TGAAA TGAAA TGAAA TGAAA TGAAA
15501540 CTCTCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
TGAAA
Found at i:15501663 original size:6 final size:6
Alignment explanation
Indices: 15501652--15501677 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15501642 CTTCCACACC
15501652 TCTGCT TCTGCT TCTGCT TCTGCT TC
1 TCTGCT TCTGCT TCTGCT TCTGCT TC
15501678 AACCACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
TCTGCT
Found at i:15503057 original size:35 final size:36
Alignment explanation
Indices: 15502997--15503067 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
15502987 TCTGTGATTG
*
15502997 ATTGCGGGAGGATAAAAGTTGAATGCTTGATAATCA
1 ATTGCCGGAGGATAAAAGTTGAATGCTTGATAATCA
15503033 ATTGCCGGAGGAT-AAAGTTGAATGCTTGATAATCA
1 ATTGCCGGAGGATAAAAGTTGAATGCTTGATAATCA
15503068 CTAGGTAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 22 0.65
36 12 0.35
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (36 bp):
ATTGCCGGAGGATAAAAGTTGAATGCTTGATAATCA
Found at i:15504804 original size:16 final size:17
Alignment explanation
Indices: 15504781--15504817 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
15504771 AAAAACAATC
15504781 GAAA-GAAAAGGAAAGA
1 GAAATGAAAAGGAAAGA
*
15504797 -AAATGAAAGGGAAAGA
1 GAAATGAAAAGGAAAGA
15504813 GAAAT
1 GAAAT
15504818 ACTTTGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 11 0.61
17 4 0.22
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (17 bp):
GAAATGAAAAGGAAAGA
Found at i:15516007 original size:24 final size:24
Alignment explanation
Indices: 15515975--15516023 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15515965 TACTGTTCTA
15515975 TGGCCCCTACCATTTAAGAACATG
1 TGGCCCCTACCATTTAAGAACATG
15515999 TGGCCCCTACCATTTAAGAACATG
1 TGGCCCCTACCATTTAAGAACATG
15516023 T
1 T
15516024 CAGCAAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (24 bp):
TGGCCCCTACCATTTAAGAACATG
Found at i:15523385 original size:15 final size:15
Alignment explanation
Indices: 15523365--15523393 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15523355 AAATATTAAT
15523365 AAAGGAAAAGAAAGG
1 AAAGGAAAAGAAAGG
15523380 AAAGGAAAAGAAAG
1 AAAGGAAAAGAAAG
15523394 TTTTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
AAAGGAAAAGAAAGG
Found at i:15527946 original size:40 final size:40
Alignment explanation
Indices: 15527902--15527977 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
15527892 AAACAAGAAA
15527902 GATTCCCACAATAATACCAAAGAAAGAAGGTATTATTGAT
1 GATTCCCACAATAATACCAAAGAAAGAAGGTATTATTGAT
*
15527942 GATTCCCATAATAATACCAAAGAAAGAAGGTATTAT
1 GATTCCCACAATAATACCAAAGAAAGAAGGTATTAT
15527978 AGATAGAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (40 bp):
GATTCCCACAATAATACCAAAGAAAGAAGGTATTATTGAT
Found at i:15531633 original size:2 final size:2
Alignment explanation
Indices: 15531626--15531656 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15531616 GATTTAATGG
15531626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15531657 CTTTGATGGG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15535695 original size:4 final size:4
Alignment explanation
Indices: 15535686--15535711 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15535676 GTCTTCATCA
15535686 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
15535712 GCACCTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:15538959 original size:15 final size:15
Alignment explanation
Indices: 15538940--15538981 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
15538930 TTGGTTTTTT
*
15538940 ATTTTTATTTTT-TA
1 ATTTTTTTTTTTGTA
*
15538954 GTTTTTTTTTTTGTA
1 ATTTTTTTTTTTGTA
*
15538969 ATTTTTTTGTTTG
1 ATTTTTTTTTTTG
15538982 CTTTTTCCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.79
Consensus pattern (15 bp):
ATTTTTTTTTTTGTA
Found at i:15538964 original size:14 final size:13
Alignment explanation
Indices: 15538915--15538976 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
15538905 TAAGTCTACC
15538915 TTTTTTCTTTTTT-
1 TTTTTT-TTTTTTA
**
15538928 TTTTGGTTTTTTA
1 TTTTTTTTTTTTA
*
15538941 TTTTTATTTTTTA
1 TTTTTTTTTTTTA
15538954 GTTTTTTTTTTTGTAA
1 -TTTTTTTTTTT-T-A
15538970 TTTTTTT
1 TTTTTTT
15538977 GTTTGCTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 6 0.15
13 15 0.38
14 10 0.25
15 8 0.20
16 1 0.03
ACGTcount: A:0.08, C:0.02, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:15543928 original size:2 final size:2
Alignment explanation
Indices: 15543921--15543946 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15543911 TGTACAAGAC
15543921 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
15543947 GTTTTAGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15554028 original size:2 final size:2
Alignment explanation
Indices: 15554023--15554051 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15554013 CTTAAAAAAT
15554023 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15554052 TTATATGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15555707 original size:90 final size:90
Alignment explanation
Indices: 15555549--15555728 Score: 333
Period size: 90 Copynumber: 2.0 Consensus size: 90
15555539 TCTCTCTTCT
15555549 CCTCCAGTTGCTGTTAATAGATTTGATTATCTAATATGCCAGTTAATTATACTGGATTCTTAGTT
1 CCTCCAGTTGCTGTTAATAGATTTGATTATCTAATATGCCAGTTAATTATACTGGATTCTTAGTT
15555614 CATTAACTAAAAGGTTTCTTTCTTA
66 CATTAACTAAAAGGTTTCTTTCTTA
* * *
15555639 CCTCTAGTTGCTGTTAATGGATTTGATTATCTAATCTGCCAGTTAATTATACTGGATTCTTAGTT
1 CCTCCAGTTGCTGTTAATAGATTTGATTATCTAATATGCCAGTTAATTATACTGGATTCTTAGTT
15555704 CATTAACTAAAAGGTTTCTTTCTTA
66 CATTAACTAAAAGGTTTCTTTCTTA
15555729 TGGTGAATCT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (90 bp):
CCTCCAGTTGCTGTTAATAGATTTGATTATCTAATATGCCAGTTAATTATACTGGATTCTTAGTT
CATTAACTAAAAGGTTTCTTTCTTA
Found at i:15564454 original size:21 final size:21
Alignment explanation
Indices: 15564402--15564454 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
15564392 AGATTGCGTA
*
15564402 TTTAATATTT-ATATTAATTT
1 TTTAAAATTTAATATTAATTT
* * *
15564422 TTAAAAAATTAATTTTAATTT
1 TTTAAAATTTAATATTAATTT
*
15564443 TTTAAGATTTAA
1 TTTAAAATTTAA
15564455 ATTTCGATTC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAAAATTTAATATTAATTT
Found at i:15566010 original size:3 final size:3
Alignment explanation
Indices: 15566002--15566029 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15565992 AATTGTTATT
15566002 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15566030 TTGATCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15566093 original size:3 final size:3
Alignment explanation
Indices: 15566087--15566119 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15566077 TATTATTAGT
15566087 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15566120 TATACAATTT
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):
ATA
Found at i:15566839 original size:8 final size:8
Alignment explanation
Indices: 15566826--15566859 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
15566816 TGAAAATAAA
15566826 AATAAAAT
1 AATAAAAT
15566834 AATAAAAAAT
1 AAT--AAAAT
15566844 AATAAAAT
1 AATAAAAT
15566852 AATAAAAT
1 AATAAAAT
15566860 TAAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:15566864 original size:21 final size:20
Alignment explanation
Indices: 15566818--15566865 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
15566808 ACGTGCAATG
15566818 AAAATAAA-AATAAAATAAT
1 AAAATAAATAATAAAATAAT
15566837 -AAA-AAATAATAAAATAAT
1 AAAATAAATAATAAAATAAT
15566855 AAAATTAAATA
1 AAAA-TAAATA
15566866 TTTTATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
18 14 0.56
19 3 0.12
21 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATAAATAATAAAATAAT
Found at i:15574452 original size:3 final size:3
Alignment explanation
Indices: 15574446--15574470 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15574436 TTACCTCCTC
15574446 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
15574471 AACCCCCGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:15577070 original size:4 final size:4
Alignment explanation
Indices: 15577063--15577103 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
15577053 ACTTTATTTC
*
15577063 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT GTGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
15577104 CTACAAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:15581634 original size:70 final size:71
Alignment explanation
Indices: 15581516--15581653 Score: 233
Period size: 70 Copynumber: 2.0 Consensus size: 71
15581506 TACATGATAT
* *
15581516 ATTTTCTCTTTTTCTTTTCCATCAAGCCCAAGCATTTGGGTTAGCCAGCTAAGTTGGGATCCCCG
1 ATTTTCTCTTTTTCTTTACCATCAAGCCCAAGCATTTGGGTAAGCCAGCTAAGTTGGGATCCCCG
15581581 GCCTAC
66 GCCTAC
* *
15581587 ATTTTCTCTTTTTC-TTACCATCAAGCCCAAGTATTTTGGTAAGCCAGCTAAGTTGGGATCCCCG
1 ATTTTCTCTTTTTCTTTACCATCAAGCCCAAGCATTTGGGTAAGCCAGCTAAGTTGGGATCCCCG
15581651 GCC
66 GCC
15581654 CAAGAAAACG
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 49 0.78
71 14 0.22
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
ATTTTCTCTTTTTCTTTACCATCAAGCCCAAGCATTTGGGTAAGCCAGCTAAGTTGGGATCCCCG
GCCTAC
Found at i:15582156 original size:58 final size:58
Alignment explanation
Indices: 15582066--15582184 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
15582056 GCGGAGGTTT
*
15582066 CTCATCAGATCTTTCTGGCACTCACAACAAAAACAATCATATATGAAATCAATGAAAG
1 CTCATCAGATCTTTCTAGCACTCACAACAAAAACAATCATATATGAAATCAATGAAAG
* *
15582124 CTCATCAGGTGTTTCTAGCACTCACAACAAAAACAATCATATATGAAATCAATGAAAG
1 CTCATCAGATCTTTCTAGCACTCACAACAAAAACAATCATATATGAAATCAATGAAAG
15582182 CTC
1 CTC
15582185 TATGGTTATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (58 bp):
CTCATCAGATCTTTCTAGCACTCACAACAAAAACAATCATATATGAAATCAATGAAAG
Found at i:15586431 original size:2 final size:2
Alignment explanation
Indices: 15586424--15586453 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15586414 CAAAAGCTGA
15586424 AT 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 AT
15586454 TCTCAATCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15588026 original size:4 final size:4
Alignment explanation
Indices: 15588017--15588042 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15588007 ATCTTTCTCT
15588017 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
15588043 AAAAGCCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:15602247 original size:15 final size:14
Alignment explanation
Indices: 15602229--15602272 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
15602219 TCTTTTTATG
15602229 ATATAATTATTTAAA
1 ATAT-ATTATTTAAA
*
15602244 ATAT-TAATTTAAA
1 ATATATTATTTAAA
15602257 ATATATTACTTTAAA
1 ATATATTA-TTTAAA
15602272 A
1 A
15602273 ATTTATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 12 0.48
14 2 0.08
15 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATTATTTAAA
Found at i:15602575 original size:154 final size:153
Alignment explanation
Indices: 15602394--15602706 Score: 590
Period size: 154 Copynumber: 2.0 Consensus size: 153
15602384 CAAGCAATAT
*
15602394 AATAAAAGTTTATGAGTTTTGGTAAAAGTGTTGCGCTTTATGGATGGTGATGAAAAACCAACAAT
1 AATAGAAGTTTATGAGTTTTGGTAAAAGTGTTGCGCTTTATGGATGGTGATGAAAAACCAACAAT
15602459 GGACTTTATTTCTGAGGCTGTGGATATAGCTAAACAAGCAATTCAACAAAATTGTCATTATTATG
66 GGACTTTATTTCTGAGGCTGTGGATATAGCTAAACAAGCAATTCAACAAAATTGTCATTATTATG
15602524 CTAAATACAAAAAGATTATTGAC
131 CTAAATACAAAAAGATTATTGAC
*
15602547 AATAGAAGTTTATGAGTCTTTGGTAAAAGTGTTGCGCTTTGTGGATGGTGATGAAAAACCAACAA
1 AATAGAAGTTTATGAGT-TTTGGTAAAAGTGTTGCGCTTTATGGATGGTGATGAAAAACCAACAA
*
15602612 TGGACTTTATTTCTGAGGCTGTGGATATAGCTAAACAAGCAATTCAGCAAAATTGTCATTATTAT
65 TGGACTTTATTTCTGAGGCTGTGGATATAGCTAAACAAGCAATTCAACAAAATTGTCATTATTAT
15602677 GCTAAATACAAAAAGATTATTGAC
130 GCTAAATACAAAAAGATTATTGAC
15602701 AATAGA
1 AATAGA
15602707 TGGAGTTTCA
Statistics
Matches: 156, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
153 16 0.10
154 140 0.90
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (153 bp):
AATAGAAGTTTATGAGTTTTGGTAAAAGTGTTGCGCTTTATGGATGGTGATGAAAAACCAACAAT
GGACTTTATTTCTGAGGCTGTGGATATAGCTAAACAAGCAATTCAACAAAATTGTCATTATTATG
CTAAATACAAAAAGATTATTGAC
Found at i:15603710 original size:3 final size:3
Alignment explanation
Indices: 15603702--15603744 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
15603692 TTTAAGTCTA
* * * *
15603702 GAT GAT GAT GAT GAT GGT GAT GGT GAT GGT GAT GGT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
15603745 CGAATTTTGG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:15603713 original size:6 final size:6
Alignment explanation
Indices: 15603702--15603741 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
15603692 TTTAAGTCTA
* *
15603702 GATGAT GATGAT GATGGT GATGGT GATGGT GATGGT GATG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATG
15603742 ATGCGAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.33
Consensus pattern (6 bp):
GATGGT
Found at i:15604097 original size:21 final size:21
Alignment explanation
Indices: 15604072--15604114 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15604062 TTATTATTCA
* *
15604072 CCTCAAATGTATCCTCTACCT
1 CCTCAAATGCATCCTCCACCT
15604093 CCTCAAATGCATCCTCCACCT
1 CCTCAAATGCATCCTCCACCT
15604114 C
1 C
15604115 AAATGTATCA
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:0.23, C:0.44, G:0.05, T:0.28
Consensus pattern (21 bp):
CCTCAAATGCATCCTCCACCT
Found at i:15604116 original size:18 final size:21
Alignment explanation
Indices: 15604070--15604119 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
15604060 GGTTATTATT
*
15604070 CACCTCAAATGTATCCTCTAC
1 CACCTCAAATGCATCCTCTAC
*
15604091 CTCCTCAAATGCAT-C-CT-C
1 CACCTCAAATGCATCCTCTAC
15604109 CACCTCAAATG
1 CACCTCAAATG
15604120 TATCATTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
20 1 0.04
21 12 0.46
ACGTcount: A:0.28, C:0.40, G:0.06, T:0.26
Consensus pattern (21 bp):
CACCTCAAATGCATCCTCTAC
Found at i:15604147 original size:36 final size:33
Alignment explanation
Indices: 15604094--15604193 Score: 110
Period size: 36 Copynumber: 2.9 Consensus size: 33
15604084 CCTCTACCTC
* *
15604094 CTCAAATGCATCCTCCACCTCAAATGTATCATTTA
1 CTCAAATGTATCATCCACCTCAAATGTATCA--TA
* * *
15604129 CTGCAAATGTATCTTCCACCACAAATGTATCATC
1 CT-CAAATGTATCATCCACCTCAAATGTATCATA
* *
15604163 CTCAAATATATCATCCACCTTAAATGTATCA
1 CTCAAATGTATCATCCACCTCAAATGTATCA
15604194 AGAACAAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.45
34 3 0.05
35 2 0.04
36 26 0.46
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (33 bp):
CTCAAATGTATCATCCACCTCAAATGTATCATA
Found at i:15604192 original size:18 final size:18
Alignment explanation
Indices: 15604070--15604193 Score: 94
Period size: 18 Copynumber: 6.9 Consensus size: 18
15604060 GGTTATTATT
*
15604070 CACCTCAAATGTATCCTCTAC
1 CACCTCAAATGTAT-C-AT-C
* * *
15604091 CTCCTCAAATGCATCCTC
1 CACCTCAAATGTATCATC
*
15604109 CACCTCAAATGTATCATT
1 CACCTCAAATGTATCATC
* *
15604127 TA-CTGCAAATGTATCTTC
1 CACCT-CAAATGTATCATC
*
15604145 CACCACAAATGTATCAT-
1 CACCTCAAATGTATCATC
*
15604162 --CCTCAAATATATCATC
1 CACCTCAAATGTATCATC
*
15604178 CACCTTAAATGTATCA
1 CACCTCAAATGTATCA
15604194 AGAACAAAGG
Statistics
Matches: 82, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
15 13 0.16
17 2 0.02
18 51 0.62
19 3 0.04
20 1 0.01
21 12 0.15
ACGTcount: A:0.32, C:0.31, G:0.06, T:0.31
Consensus pattern (18 bp):
CACCTCAAATGTATCATC
Found at i:15613213 original size:18 final size:17
Alignment explanation
Indices: 15613192--15613225 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15613182 TTTAAATCTT
15613192 TAAAACTTATAGTATATA
1 TAAAACTTATA-TATATA
*
15613210 TAAAATTTATATATAT
1 TAAAACTTATATATAT
15613226 TAACTTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
TAAAACTTATATATATA
Found at i:15614209 original size:25 final size:25
Alignment explanation
Indices: 15614159--15614215 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
15614149 ATTTAATTTT
*
15614159 TTATTATAATTTGAATAAATTTAAAA
1 TTATT-TAATTTGAATAAATTCAAAA
*
15614185 TTATTTAATTTGTAATTAA-TCAAAA
1 TTATTTAATTTG-AATAAATTCAAAA
15614210 TTATTT
1 TTATTT
15614216 TATTCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
TTATTTAATTTGAATAAATTCAAAA
Found at i:15614666 original size:3 final size:3
Alignment explanation
Indices: 15614658--15614684 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15614648 ATGCCATGGG
15614658 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
15614685 GCATCATCCA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:15618379 original size:3 final size:3
Alignment explanation
Indices: 15618371--15618395 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15618361 GGAACGGCAC
15618371 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
15618396 GGAGGAGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15618615 original size:36 final size:34
Alignment explanation
Indices: 15618557--15618627 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 34
15618547 TTAAATATAA
* *
15618557 AAATAATATTTTAATATCAAATTCAAA-CAAAAC
1 AAATAATATTTTAAAATCAAATTAAAATCAAAAC
15618590 AAATATATATTTTATAAAATCAAATTAAAATCAAAAC
1 AAATA-ATA-TTT-TAAAATCAAATTAAAATCAAAAC
15618627 A
1 A
15618628 TACAAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 5 0.16
34 3 0.09
35 3 0.09
36 14 0.44
37 7 0.22
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (34 bp):
AAATAATATTTTAAAATCAAATTAAAATCAAAAC
Found at i:15623810 original size:2 final size:2
Alignment explanation
Indices: 15623803--15623830 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15623793 TCCAGTTTCA
15623803 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15623831 ATATATATAT
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):
CT
Found at i:15623927 original size:20 final size:20
Alignment explanation
Indices: 15623889--15623927 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15623879 GGATTAAAAT
*
15623889 TTTAATAAAAATTATATAAA
1 TTTAATAAAAAATATATAAA
15623909 TTTAATAAAATAATA-ATAA
1 TTTAATAAAA-AATATATAA
15623928 TATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAATAAAAAATATATAAA
Found at i:15624524 original size:13 final size:13
Alignment explanation
Indices: 15624506--15624530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15624496 CTAAATTTTG
15624506 AAAAAATTTAAAT
1 AAAAAATTTAAAT
15624519 AAAAAATTTAAA
1 AAAAAATTTAAA
15624531 CTCATTAGAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAAATTTAAAT
Found at i:15635344 original size:40 final size:41
Alignment explanation
Indices: 15635289--15635370 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 41
15635279 TGATAAATGA
* *
15635289 GTCAGCATGATATGACA-TAAATACTAATGTCTTATATTGT
1 GTCAGCATGACATGACAGTAAACACTAATGTCTTATATTGT
*
15635329 GTCAGCATGACATGACATGTAAACACTAATGTGTTATATTGT
1 GTCAGCATGACATGACA-GTAAACACTAATGTCTTATATTGT
15635371 ACGAATACGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 16 0.43
42 21 0.57
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (41 bp):
GTCAGCATGACATGACAGTAAACACTAATGTCTTATATTGT
Found at i:15636272 original size:7 final size:7
Alignment explanation
Indices: 15636234--15636313 Score: 65
Period size: 7 Copynumber: 11.4 Consensus size: 7
15636224 CTTAGATCTC
*
15636234 AAACCCT
1 AAACCTT
*
15636241 AAACCTG
1 AAACCTT
* *
15636248 AGACCTA
1 AAACCTT
*
15636255 AATACCAT
1 AA-ACCTT
15636263 AAACCTT
1 AAACCTT
15636270 AAACC-T
1 AAACCTT
*
15636276 AAACTTT
1 AAACCTT
*
15636283 AAATCTT
1 AAACCTT
15636290 AAAACC-T
1 -AAACCTT
15636297 AAACCTT
1 AAACCTT
15636304 AAACCTT
1 AAACCTT
15636311 AAA
1 AAA
15636314 ATACTAAAAC
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
6 10 0.18
7 38 0.67
8 9 0.16
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (7 bp):
AAACCTT
Found at i:15636296 original size:21 final size:21
Alignment explanation
Indices: 15636262--15636314 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
15636252 CTAAATACCA
*
15636262 TAAACCTT-AAACCTAAACTT
1 TAAACCTTAAAACCTAAACCT
*
15636282 TAAATCTTAAAACCTAAACCT
1 TAAACCTTAAAACCTAAACCT
15636303 TAAACCTTAAAA
1 TAAACCTTAAAA
15636315 TACTAAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCTTAAAACCTAAACCT
Found at i:15636343 original size:37 final size:36
Alignment explanation
Indices: 15636252--15636346 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 36
15636242 AACCTGAGAC
* * *
15636252 CTAAATACCATAAACCTTAAACC-TAAACTTTAAATCT
1 CTAAAT-CC-TAAACCTTAAACCTTAAAATCTAAAACT
*
15636289 -TAAAACCTAAACCTTAAACCTTAAAATACTAAAACT
1 CTAAATCCTAAACCTTAAACCTTAAAAT-CTAAAACT
15636325 CTAAATCCTAAACCTTAAACCT
1 CTAAATCCTAAACCTTAAACCT
15636347 AATACTCGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
34 13 0.26
35 7 0.14
36 10 0.20
37 20 0.40
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (36 bp):
CTAAATCCTAAACCTTAAACCTTAAAATCTAAAACT
Found at i:15636372 original size:93 final size:93
Alignment explanation
Indices: 15636275--15636457 Score: 285
Period size: 93 Copynumber: 2.0 Consensus size: 93
15636265 ACCTTAAACC
* * * * *
15636275 TAAACTTTAAATCTTAAAACCTAAACCTTAAACCTTAAAATACTAAAACTCTAAATCCTAAACCT
1 TAAACCTTAAACCTTAAAACCTAAACCCTAAACCTTAAAACACTAAAACTCTAAATCATAAACCT
*
15636340 TAAACCTAATACTCGAGACCCCAAGTTT
66 TAAACCCAATACTCGAGACCCCAAGTTT
* * *
15636368 TAAACCTTAAACCTTAAAACCTAAACCCTAAACTTTGAAACATTAAAACTCTAAATCATAAACCT
1 TAAACCTTAAACCTTAAAACCTAAACCCTAAACCTTAAAACACTAAAACTCTAAATCATAAACCT
15636433 TAAACCCAATACTCGAGACCCCAAG
66 TAAACCCAATACTCGAGACCCCAAG
15636458 CCTTAAATCG
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 81 1.00
ACGTcount: A:0.45, C:0.26, G:0.04, T:0.25
Consensus pattern (93 bp):
TAAACCTTAAACCTTAAAACCTAAACCCTAAACCTTAAAACACTAAAACTCTAAATCATAAACCT
TAAACCCAATACTCGAGACCCCAAGTTT
Found at i:15636389 original size:8 final size:7
Alignment explanation
Indices: 15636367--15636438 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
15636357 ACCCCAAGTT
15636367 TTAAACC
1 TTAAACC
15636374 TTAAACC
1 TTAAACC
15636381 TTAAAACC
1 TT-AAACC
15636389 -TAAACC
1 TTAAACC
* *
15636395 CTAAACT
1 TTAAACC
*
15636402 TTGAAACA
1 TT-AAACC
*
15636410 TTAAAAC
1 TTAAACC
*
15636417 TCTAAATC
1 T-TAAACC
*
15636425 ATAAACC
1 TTAAACC
15636432 TTAAACC
1 TTAAACC
15636439 CAATACTCGA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
6 5 0.10
7 31 0.60
8 16 0.31
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.26
Consensus pattern (7 bp):
TTAAACC
Found at i:15636389 original size:15 final size:14
Alignment explanation
Indices: 15636367--15636438 Score: 56
Period size: 15 Copynumber: 5.0 Consensus size: 14
15636357 ACCCCAAGTT
15636367 TTAAACCTTAAACC
1 TTAAACCTTAAACC
15636381 TTAAAACC-TAAACC
1 TT-AAACCTTAAACC
* * *
15636395 CTAAACTTTGAAACA
1 TTAAACCTT-AAACC
* *
15636410 TTAAAACTCTAAATC
1 TTAAACCT-TAAACC
*
15636425 ATAAACCTTAAACC
1 TTAAACCTTAAACC
15636439 CAATACTCGA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
13 4 0.09
14 15 0.35
15 23 0.53
16 1 0.02
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.26
Consensus pattern (14 bp):
TTAAACCTTAAACC
Found at i:15637170 original size:21 final size:21
Alignment explanation
Indices: 15637128--15637180 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
15637118 AGAGACCTAG
* *
15637128 ACCCTAACACCAAGACTATAA
1 ACCCTAAAACCAAAACTATAA
15637149 ACCCTAAAACCAAAATCT-TAA
1 ACCCTAAAACCAAAA-CTATAA
* *
15637170 AACTTAAAACC
1 ACCCTAAAACC
15637181 CTAAACTCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.17
Consensus pattern (21 bp):
ACCCTAAAACCAAAACTATAA
Found at i:15637294 original size:21 final size:21
Alignment explanation
Indices: 15637260--15637307 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
15637250 TCTTAAACCT
* *
15637260 TAAACCCAAGATCC-AAAAAC
1 TAAACCAAAAATCCTAAAAAC
*
15637280 ATAAACCAAAAATCCTAAAATC
1 -TAAACCAAAAATCCTAAAAAC
15637302 TAAACC
1 TAAACC
15637308 TGAGACTCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (21 bp):
TAAACCAAAAATCCTAAAAAC
Found at i:15637454 original size:14 final size:14
Alignment explanation
Indices: 15637437--15637479 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
15637427 ACCTAGGAAT
15637437 TTAAACTCTAAACC
1 TTAAACTCTAAACC
15637451 TTAAAAC-CTAAACC
1 TT-AAACTCTAAACC
*
15637465 TTAAACTATAAACC
1 TTAAACTCTAAACC
15637479 T
1 T
15637480 AGGGTCACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 4 0.15
14 18 0.69
15 4 0.15
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAACTCTAAACC
Found at i:15637595 original size:14 final size:14
Alignment explanation
Indices: 15637576--15637611 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15637566 CTTCGCCCGC
15637576 TCATCCATCC-AGCT
1 TCATCCATCCGA-CT
15637590 TCATCCATCCGACT
1 TCATCCATCCGACT
15637604 TCATCCAT
1 TCATCCAT
15637612 GAGGCTCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.22, C:0.42, G:0.06, T:0.31
Consensus pattern (14 bp):
TCATCCATCCGACT
Found at i:15641029 original size:15 final size:15
Alignment explanation
Indices: 15641003--15641036 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15640993 AGTAAACATA
15641003 TTTATTTTTTTAATAT
1 TTTATTTTTTTAAT-T
15641019 TTTA-TTTTTTAATT
1 TTTATTTTTTTAATT
15641033 TTTA
1 TTTA
15641037 GAATCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 9 0.50
16 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTTTAATT
Found at i:15641312 original size:181 final size:177
Alignment explanation
Indices: 15640956--15642638 Score: 883
Period size: 181 Copynumber: 9.4 Consensus size: 177
15640946 TTAAAGTAGG
** * * *
15640956 TAATTGTAT-AAATAGTCATAATTATTTAAATTATTTCAGTAAACATATTTATTTTTTTAATATT
1 TAATTGT-TCAAATAGTCATAACCATTTAAATTATTTCAGTAAACAGATTTATTTTTTAAATATC
* * * * *
15641020 TTATTTTTTAATTTTTAGAATCTTAATAACTTAGTATTATTTTATTTCAAATACAATTGTATGAA
65 TTATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTTCAAAT--AATTTTATGAA
* * *
15641085 TAGAAACAATTATTTTATAATAAAACCAAAGGCCAAAATGATTTGAAATAAA
128 TAGAAACAATTA-TTTATGACAAAA-CAAAGGTCAAAATGATTTGAAATAAA
* * * * * * * *
15641137 TTATTGTTCAAATTGTCATAGCCATTTGAATTATTTTAGTAAACAAATTTATCTTTTAAATCTCT
1 TAATTGTTCAAATAGTCATAACCATTTAAATTATTTCAGTAAACAGATTTATTTTTTAAATATCT
*
15641202 TATTTATTAATTTTCATAATATTAATAAATTAGTATTATTTTATTTCAAATAAGTTTATATGAAT
66 TATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTTCAAATAA-TTT-TATGAAT
* * * ** *
15641267 GGAAACAATTGTTATAGGACAAAACAAAAGGTTGAAATAATTTGAAATAAA
129 AGAAACAATTATT-TATGACAAAAC-AAAGGTCAAAATGATTTGAAATAAA
* * * *
15641318 TAATTGTTAAAATAGTTATAACCATTTGAATT-TGTTC-GATAAGCAGATTTATTTTTTAAATAT
1 TAATTGTTCAAATAGTCATAACCATTTAAATTAT-TTCAG-TAAACAGATTTATTTTTTAAATAT
* * * * *
15641381 CTTACTTATTAATTTTCAGAATATAAATAGATTAGTATTATTTTATTCTGAAAAAACTTTTATGA
64 CTTATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATT-TCAAATAA-TTTTATGA
* * ** *
15641446 ATAGAAACAATTAATTTATGACTAAACAAAGATCCTAACGATTTGAAATAAA
127 ATAGAAACAATT-ATTTATGACAAAACAAAGGTCAAAATGATTTGAAATAAA
* * **
15641498 TAATTGTTCAGATAATCATAATTATTTAAACTTA-TTCAGTAAACAGATTCT-TTTTTT-AA-AT
1 TAATTGTTCAAATAGTCATAACCATTTAAA-TTATTTCAGTAAACAGATT-TATTTTTTAAATAT
* * * * * *
15641559 C-T-CTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTATTAT-GAATAAACTTGTATG
64 CTTATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATT-TCAAAT-AA-TTTTATG
* * * * * **
15641621 AATAG-AA-AATTATTTTATGACAAAATAAAAAGTCATAACGATTTGAAGTAGT
126 AATAGAAACAATTA-TTTATGACAAAA-CAAAGGTCAAAATGATTTGAAATAAA
* * ** * * * * ** *
15641673 TAATTGTTTAAATTGTCATAATTATTTCAACTGTTTC-GATAAATTAGCATTT-TTTAAT-AATC
1 TAATTGTTCAAATAGTCATAACCATTTAAATTATTTCAG-TAAA-CAG-ATTTATTTTTTAAATA
* * * * * * *
15641735 TTTTATTAATTAATTTTTAGAATATTAATAAATTAGTCTTATTTTATTTCGAATAAACTTGTATA
63 TCTTATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTTCAAAT-AA-TTTTATG
* * * * *
15641800 AATAGGAACAAATGT-TTTATGACAAAAAAAAAGCTCATAATGATTTGAAATAGA
126 AATAGAAAC-AAT-TATTTATGAC-AAAACAAAGGTCAAAATGATTTGAAATAAA
* ** * * * * *
15641854 TAATTATTCAAATAGTTGTAACTATTTAAACTTA-TTCGGTAAATAGATTAATTTTTTAAATCTC
1 TAATTGTTCAAATAGTCATAACCATTTAAA-TTATTTCAGTAAACAGATTTATTTTTTAAATATC
* * * ** * *
15641918 TTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTAGAACATGCTTGTAAGAA
65 TTATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTT-CAA-ATAATTTTATGAA
* * * * * * * ** *
15641983 CA-AAACTAATTATGGTAAATAAC-ATA-AAATGTCATAACGATTTGAGGTAAT
128 TAGAAAC-AATTAT--T-TATGACAAAACAAAGGTCAAAATGATTTGAAATAAA
* * ** * * * * *
15642034 TAATTATTCAAATGGTCATAATTATTTGAACTGT-TTTGA-TAAAGAGATTTATTTTTAAAATTT
1 TAATTGTTCAAATAGTCATAACCATTT-AAAT-TATTTCAGTAAACAGATTTATTTTTTAAATAT
* * * * ** * *
15642097 TTTACTTATTAATTTTGA-AATATTAATAAATTATTATTATTTTATTTTGAATAAACTTGTATAA
64 CTTATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTTCAAAT-AA-TTTTATGA
* * * * * ** * *
15642161 ACAGAAACAATTGTTATATAACTAAACCAAGGTCAAAACAATTCGAAATAGA
127 ATAGAAACAATTATT-TATGACAAAACAAAGGTCAAAATGATTTGAAATAAA
* * * * * * * * *
15642213 TAATTGTTGAAATAATCAT-ACTATTTGAACTTGTTTGA-TAAACAAATTCA-TTTTTAAATCTC
1 TAATTGTTCAAATAGTCATAACCATTT-AAATTATTTCAGTAAACAGATTTATTTTTTAAATATC
* * * * *
15642275 TGACTTATTAATTTTCAGAATACTAATAAATTAGTATTATTTTATTTTGAACA-AATTTATATAA
65 TTATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTA-TTTCAA-ATAATTT-TATGA
* * * * ** * * *
15642339 ATAAAAACAATTATTTTATGATAAAA-AAAGAT-AGAACAAATTGGAATAGA
127 ATAGAAACAATTA-TTTATGACAAAACAAAGGTCAAAATGATTTGAAATAAA
* * * * * * * * * *
15642389 TAATTGGTGAAATAGTCATAACCTTTTGAATTTGTTTGA-AAAATAAATTTATTTTTTAAATTTC
1 TAATTGTTCAAATAGTCATAACCATTT-AAATTATTTCAGTAAACAGATTTATTTTTTAAATATC
* * * * *** * * * * *
15642453 TTACTTATAAAATTTT-AAAATAATAAGGGATAAATGTTATTTTA-TTCTGAATAAGCTTGTATG
65 TTATTTAT-TAATTTTCAGAATATTAATAAATTAGTATTATTTTATTTC-AAATAA--TTTTATG
* * * ** ** * *
15642516 AATAGAAACAATTGTTTTATGACAAACAAAAAGGTTAGGACAATTTTAAATAGA
126 AATAGAAACAATT-ATTTATGACAAA-ACAAAGGTCAAAATGATTTGAAATAAA
* * * * * * ** * * *
15642570 TAATTGTTTAAATAATTATAACTATCTGAATTGCTTCAATAAACAGATTTATTTTTTTAATCTCT
1 TAATTGTTCAAATAGTCATAACCATTTAAATTATTTCAGTAAACAGATTTATTTTTTAAATATCT
15642635 TATT
66 TATT
15642639 AATTTTTGAA
Statistics
Matches: 1190, Mismatches: 247, Indels: 130
0.76 0.16 0.08
Matches are distributed among these distances:
173 1 0.00
174 17 0.01
175 55 0.05
176 96 0.08
177 73 0.06
178 144 0.12
179 153 0.13
180 179 0.15
181 443 0.37
182 22 0.02
183 7 0.01
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (177 bp):
TAATTGTTCAAATAGTCATAACCATTTAAATTATTTCAGTAAACAGATTTATTTTTTAAATATCT
TATTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTTCAAATAATTTTATGAATAG
AAACAATTATTTATGACAAAACAAAGGTCAAAATGATTTGAAATAAA
Found at i:15642121 original size:360 final size:360
Alignment explanation
Indices: 15641002--15642329 Score: 1158
Period size: 361 Copynumber: 3.7 Consensus size: 360
15640992 CAGTAAACAT
** * * * * *
15641002 ATTTATTTTTTTAATATTTTATTTTTTAATTTTTAGAATCTTAATAACTTAGTATTATTTTATTT
1 ATTTATTTTTAAAATATTTTACTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTT
* * * * ** * *
15641067 CAAATACAA-TTGTATGAATAGAAACAATTATTTTAT-AATAAAACCAAAGGCCAAAATGATTTG
66 CGAATA-AACTTGTATAAATAGAAACAATTGTTTTATGACT-AAA-CAAAGATCATAACGATTTG
* * ** * * * ** * * *
15641130 AAATAAATTATTGTTCAAATTGTCATAGCCATTTGAA-TTATTTTAGTAAACAAATTTATCTTTT
128 AAATAGATAATTGTTCAAATAATCATAACTATTTAAACTTA-TTCGGTAAACAGATTCATTTTTT
* * * * **
15641194 AAATCTCTTATTTATTAATTTTCATAATATTAATAAATTAGTATTATTTTATTTCA-AATAAGTT
192 AAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTT-AGAACAAACT
* * * * * * * * ** * *
15641258 TATATGAATGGAAACAA-T-TGTTATAGGACAAAACAAAAGGTTGA-AATAATTTGAAATAAATA
256 TGTAAGAA--CAAAAAATTATGGTATA--ACAAAATAAAAAG-TCATAACGATTTGAAGTAATTA
* * * * ** * *
15641320 ATTGTTAAAATAGTTATAACCATTTGAA-TTTGTTCGAT-AA-GCAG
316 ATTATTCAAATGGTCATAATTATTTCAACTGT-TTCGATAAATG-AG
* * * *
15641364 ATTTATTTTTTAAATATCTTACTTATTAATTTTCAGAATATAAATAGATTAGTATTATTTTA-TT
1 ATTTATTTTTAAAATATTTTACTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTT
* * * ** *
15641428 CTGAAAAAACTTTTATGAATAGAAACAATTAATTTATGACTAAACAAAGATCCTAACGATTTGAA
66 C-GAATAAACTTGTATAAATAGAAACAATTGTTTTATGACTAAACAAAGATCATAACGATTTGAA
* * * * *
15641493 ATAAATAATTGTTCAGATAATCATAATTATTTAAACTTATTCAGTAAACAGATTCTTTTTTTAAA
130 ATAGATAATTGTTCAAATAATCATAACTATTTAAACTTATTCGGTAAACAGATTCATTTTTTAAA
* * *
15641558 --TC-T-CTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTA-TTATGAATAAACTTGT
195 TCTCTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTA-GAACAAACTTGT
* * * ** * * * *
15641618 ATGAATAGAAAATTATTTTATGACAAAATAAAAAGTCATAACGATTTGAAGTAGTTAATTGTTTA
259 AAGAACAAAAAATTATGGTATAACAAAATAAAAAGTCATAACGATTTGAAGTAATTAATTATTCA
* *
15641683 AATTGTCATAATTATTTCAACTGTTTCGATAAATTAG
324 AATGGTCATAATTATTTCAACTGTTTCGATAAATGAG
* * *
15641720 CA--T-TTTTTAATAATCTTTTA-TTAATTAATTTTTAGAATATTAATAAATTAGTCTTATTTTA
1 -ATTTATTTTTAA-AATATTTTACTT-ATTAATTTTCAGAATATTAATAAATTAGTATTATTTTA
* * * * * *
15641781 TTTCGAATAAACTTGTATAAATAGGAACAAATGTTTTATGACAAAAAAAAAGCTCATAATGATTT
63 TTTCGAATAAACTTGTATAAATAGAAACAATTGTTTTATGAC-TAAACAAAGATCATAACGATTT
* * ** * *
15641846 GAAATAGATAATTATTCAAATAGTTGTAACTATTTAAACTTATTCGGTAAATAGATTAATTTTTT
127 GAAATAGATAATTGTTCAAATAATCATAACTATTTAAACTTATTCGGTAAACAGATTCATTTTTT
**
15641911 AAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTAGAACATGCTT
192 AAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTAGAACAAACTT
* * * *
15641976 GTAAGAACAAAACTAATTATGGTA-AATAACATAAAATGTCATAACGATTTGAGGTAATTAATTA
257 GTAAGAACAAAA--AATTATGGTATAACAAAATAAAAAGTCATAACGATTTGAAGTAATTAATTA
* *
15642040 TTCAAATGGTCATAATTATTTGAACTGTTTTGATAAA-GAG
320 TTCAAATGGTCATAATTATTTCAACTGTTTCGATAAATGAG
* * *
15642080 ATTTATTTTTAAAATTTTTTACTTATTAATTTTGA-AATATTAATAAATTATTATTATTTTATTT
1 ATTTATTTTTAAAATATTTTACTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTT
* * * * * * * * *
15642144 TGAATAAACTTGTATAAACAGAAACAATTGTTATATAACTAAACCAAGGTCAAAACAATTCGAAA
66 CGAATAAACTTGTATAAATAGAAACAATTGTTTTATGACTAAACAAAGATCATAACGATTTGAAA
* * * * * *
15642209 TAGATAATTGTTGAAATAATCAT-ACTATTTGAACTTGTTTGATAAACAAATTCA-TTTTTAAAT
131 TAGATAATTGTTCAAATAATCATAACTATTTAAACTTATTCGGTAAACAGATTCATTTTTTAAAT
* * * *
15642272 CTCTGACTTATTAATTTTCAGAATACTAATAAATTAGTATTATTTTATTTTGAACAAA
196 CTCTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTAGAACAAA
15642330 TTTATATAAA
Statistics
Matches: 790, Mismatches: 148, Indels: 61
0.79 0.15 0.06
Matches are distributed among these distances:
354 10 0.01
355 130 0.16
356 86 0.11
357 117 0.15
358 27 0.03
359 40 0.05
360 117 0.15
361 157 0.20
362 104 0.13
363 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (360 bp):
ATTTATTTTTAAAATATTTTACTTATTAATTTTCAGAATATTAATAAATTAGTATTATTTTATTT
CGAATAAACTTGTATAAATAGAAACAATTGTTTTATGACTAAACAAAGATCATAACGATTTGAAA
TAGATAATTGTTCAAATAATCATAACTATTTAAACTTATTCGGTAAACAGATTCATTTTTTAAAT
CTCTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTAGAACAAACTTGTAA
GAACAAAAAATTATGGTATAACAAAATAAAAAGTCATAACGATTTGAAGTAATTAATTATTCAAA
TGGTCATAATTATTTCAACTGTTTCGATAAATGAG
Found at i:15642304 original size:717 final size:717
Alignment explanation
Indices: 15640893--15642364 Score: 1558
Period size: 717 Copynumber: 2.0 Consensus size: 717
15640883 TCTTAATTGG
* * ** **
15640893 CTTGTATGAACAGAAAATAATAGTTTTATTACAAAATAAAGTGTCATAGTGATTTAAAGTAGGTA
1 CTTGTATGAATAGAAAAT--TA-TTTTATGACAAAATAAAAAGTCATAACGATTTAAAGTAGGTA
* **
15640958 ATTGTATAAATAGTCATAATTATTTAAATTATTTCAGTAAACATATTTATTTTTTTAATATTTTA
63 ATTGTATAAATAGTCATAATTATTTAAACTATTTCAGTAAACATATGCATTTTTTTAATATTTTA
** * * *
15641023 TTTTTTAATTTTTAGAATCTTAATAACTTAGTATTATTTTATTTCAAATACAATTGTATGAATAG
128 TTAATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATACAATTGTATAAATAG
* * * * * * *
15641088 AAACAATTATTTTATAATAAAACCAAAGGCCAAAATGATTTGAAATAAATTATTGTTCAAATTGT
193 AAACAAATATTTTATAACAAAACAAAAAGCCAAAATGATTTGAAATAAATAATTATTCAAATAGT
* * * * *
15641153 CATAGCCATTTGAATTATTTTAGTAAACAAATTTATCTTTTAAATCTCTTATTTATTAATTTTCA
258 CATAACCATTTAAATTATTTCAGTAAACAAATTAATCTTTTAAATCTCTTACTTATTAATTTTCA
* * * * ** * *
15641218 TAATATTAATAAATTAGTATTATTTTATTTCAAATAAGTTTATATGAATGGAAACAATTGTTATA
323 GAATATTAATAAATTAGTATTATTTTATTTCAAACAAGCTTATAAGAATCAAAACAATTATGATA
* * * * *
15641283 GGACAAAACAAAAGGTTGAAATAATTTGAAATAAATAATTGTTAAAATAGTTATAACCATTTGAA
388 GAACAAAACAAAAGGTTCAAACAATTTGAAATAAATAATTATTAAAATAGTCATAACCATTTGAA
* *
15641348 TTTGTTCGATAAGCAGATTTATTTTTTAAATATCTTACTTATTAATTTTCAGAATATAAATAGAT
453 TTTGTTCGATAAGCAGATTTATTTTTAAAATATCTTACTTATTAATTTTCAGAATATAAATAAAT
* * * *
15641413 TAGTATTATTTTATTCTGAAAAAACTTTTATGAATAGAAACAATTAATTTATGACTAAACAAAGA
518 TAGTATTATTTTATTCTGAAAAAACTTGTATAAACAGAAACAATTAATTTATAACTAAACAAAGA
** * * * *
15641478 TCCTAACGATTTGAAATAAATAATTGTTCAGATAATCATAATTATTTAAACTTATTCAGTAAACA
583 TCAAAACAATTCGAAATAAATAATTGTTCAAATAATCATAACTATTTAAACTTATTCAGTAAACA
* * * *
15641543 GATTCTTTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTATTATGA
648 AATTCTATTTTTAAATCTCTTATTAATTTTCAAAATACTAATAAATTAATATTATTTTATTATGA
*
15641608 ATAAA
713 ACAAA
* *
15641613 CTTGTATGAATAGAAAATTATTTTATGACAAAATAAAAAGTCATAACGATTTGAAGTAGTTAATT
1 CTTGTATGAATAGAAAATTATTTTATGACAAAATAAAAAGTCATAACGATTTAAAGTAGGTAATT
* * * * * *
15641678 GTTTAAATTGTCATAATTATTTCAACTGTTTC-GATAAA-TTA-GCATTTTTTAATAATCTTTTA
66 GTATAAATAGTCATAATTATTTAAACTATTTCAG-TAAACATATGCATTTTTT--TAATATTTTA
* *
15641740 TTAATTAATTTTTAGAATATTAATAAATTAGTCTTATTTTATTTCGAATA-AACTTGTATAAATA
128 TTAATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATACAA-TTGTATAAATA
* * * * *
15641804 GGAACAAATGTTTTATGACAAAA-AAAAAGCTCATAATGATTTGAAATAGATAATTATTCAAATA
192 GAAACAAATATTTTATAACAAAACAAAAAGC-CAAAATGATTTGAAATAAATAATTATTCAAATA
** * * * * *
15641868 GTTGTAACTATTTAAACTTA-TTCGGTAAATAGATTAATTTTTTAAATCTCTTACTTATTAATTT
256 GTCATAACCATTTAAA-TTATTTCAGTAAACAAATTAATCTTTTAAATCTCTTACTTATTAATTT
* * *
15641932 TTAGAATATTAATAAATTAGTATTATTTTATTT-AGAACATGCTTGTAAGAA-CAAAACTAATTA
320 TCAGAATATTAATAAATTAGTATTATTTTATTTCA-AACAAGCTTATAAGAATCAAAAC-AATTA
* * * * * * ** * * * **
15641995 TGGTA-AATAACATAAAATG-TCATAACGATTTGAGGTAATTAATTATTCAAATGGTCATAATTA
383 TGATAGAACAAAACAAAAGGTTCA-AACAATTTGAAATAAATAATTATTAAAATAGTCATAACCA
* * *
15642058 TTTGAACTGTT-TT-GATAAAG-AGATTTATTTTTAAAATTTTTTACTTATTAATTTTGA-AATA
447 TTTGAA-T-TTGTTCGAT-AAGCAGATTTATTTTTAAAATATCTTACTTATTAATTTTCAGAATA
* * * * *
15642119 TTAATAAATTATTATTATTTTATTTTGAATAAACTTGTATAAACAGAAACAATT-GTTATATAAC
509 TAAATAAATTAGTATTATTTTATTCTGAAAAAACTTGTATAAACAGAAACAATTAATT-TATAAC
* * * * * *
15642183 TAAACCAAGGTCAAAACAATTCGAAATAGATAATTGTTGAAATAATCAT-ACTATTTGAACTTGT
573 TAAACAAAGATCAAAACAATTCGAAATAAATAATTGTTCAAATAATCATAACTATTTAAACTTAT
* * *
15642247 T-TGATAAACAAATTC-ATTTTTAAATCTCTGACTTATTAATTTTCAGAATACTAATAAATTAGT
638 TCAG-TAAACAAATTCTATTTTTAAA--TCT--CTTATTAATTTTCAAAATACTAATAAATTAAT
*
15642310 ATTATTTTATTTTGAACAAA
698 ATTATTTTATTATGAACAAA
* * * * *
15642330 TTTATATAAATAAAAACAATTATTTTATGATAAAA
1 CTTGTATGAAT-AGAA-AATTATTTTATGACAAAA
15642365 AAAGATAGAA
Statistics
Matches: 615, Mismatches: 117, Indels: 41
0.80 0.15 0.05
Matches are distributed among these distances:
713 9 0.01
714 25 0.04
715 107 0.17
716 95 0.15
717 335 0.54
718 10 0.02
719 17 0.03
720 17 0.03
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (717 bp):
CTTGTATGAATAGAAAATTATTTTATGACAAAATAAAAAGTCATAACGATTTAAAGTAGGTAATT
GTATAAATAGTCATAATTATTTAAACTATTTCAGTAAACATATGCATTTTTTTAATATTTTATTA
ATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATACAATTGTATAAATAGAAA
CAAATATTTTATAACAAAACAAAAAGCCAAAATGATTTGAAATAAATAATTATTCAAATAGTCAT
AACCATTTAAATTATTTCAGTAAACAAATTAATCTTTTAAATCTCTTACTTATTAATTTTCAGAA
TATTAATAAATTAGTATTATTTTATTTCAAACAAGCTTATAAGAATCAAAACAATTATGATAGAA
CAAAACAAAAGGTTCAAACAATTTGAAATAAATAATTATTAAAATAGTCATAACCATTTGAATTT
GTTCGATAAGCAGATTTATTTTTAAAATATCTTACTTATTAATTTTCAGAATATAAATAAATTAG
TATTATTTTATTCTGAAAAAACTTGTATAAACAGAAACAATTAATTTATAACTAAACAAAGATCA
AAACAATTCGAAATAAATAATTGTTCAAATAATCATAACTATTTAAACTTATTCAGTAAACAAAT
TCTATTTTTAAATCTCTTATTAATTTTCAAAATACTAATAAATTAATATTATTTTATTATGAACA
AA
Found at i:15642367 original size:536 final size:532
Alignment explanation
Indices: 15640965--15642368 Score: 1388
Period size: 536 Copynumber: 2.6 Consensus size: 532
15640955 GTAATTGTAT
* * * * *
15640965 AAATAGTCATAATTATTTAAA-TTATTTCAGTAAACATATTTATTTTTTTAATATTTTATTTTTT
1 AAATAATCATAATTATTTAAACTTA-TTCAGTAAACAGATTTATTTTTTAAAT-TTTTACTTATT
* * * * **
15641029 AATTTTTAGAATCTTAATAACTTAGTATTATTTTATTTCAAATACAA-TTGTATGAATAGAAACA
64 AA-TTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATA-AACTTGTATGAATAGAAACA
* * * *
15641093 ATTATTTTATAA-TAAAACCAAAGGCCAAAATGATTTGAAATAAATTATTGTTCAAATTGTCATA
127 ATTATTTTATAACT-AAACC-AAGGTCAAAACGATTTGAAATAGATAATTGTTCAAATTGTCATA
* * * *
15641157 GCCATTTGAA-TTATTTTAGTAAACAAATTTATCTTTTAAATCTCTTATTTATTAATTTTCATAA
190 -CTATTTGAACTTGTTTGA-TAAACAAA-TTAT-TTTTAAATCTCTTA-TTATTAATTTTCAGAA
* * * * * *
15641221 TATTAATAAATTAGTATTATTTTATTTCAAATAAGTTTATATGAATGGAAACAATTGTTATAGGA
250 TATTAATAAATTAGTATTATTTTATTTCGAATAAATTTATATAAATAGAAACAATTGTTTTATGA
* * * * *
15641286 CAAAACAAAAGGTTGAAATAATTTGAAATAAATAATTGTTAAAATAGTTATAACCATTTGAATTT
315 -AAAA-AAAA-GCTCAAATAATTTGAAATAAATAATTATTAAAATAGTTATAACCATTTAAACTT
* * * *
15641351 GTTCGATAAGCAGATTTATTTTTTAAATATCTTACTTATTAATTTTCAGAATATAAATAGATTAG
377 ATTCGATAAACAGATTAATTTTTTAAATATCTTACTTATTAATTTTCAGAATATAAATAAATTAG
* * * * * *
15641416 TATTATTTTATTCTGAAAAAACTTTTATGAATAGAAACAATTAATTTATGACTAAACAAAGATCC
442 TATTATTTTATTCTGAAAAAACTTGTAAGAACAGAAACAATTAATTAATAACTAAACAAAGATCA
*
15641481 TAACGATTTGAAATAAATAATTGTTC
507 TAACGATTTGAAATAAATAATTATTC
* *
15641507 AGATAATCATAATTATTTAAACTTATTCAGTAAACAGATTCT-TTTTTTAAA--TCT-CTTATTA
1 AAATAATCATAATTATTTAAACTTATTCAGTAAACAGATT-TATTTTTTAAATTTTTACTTATTA
*
15641568 ATTTTTAAAATATTAATAAATTAATATTATTTTATTATGAATAAACTTGTATGAATAG-AA-AAT
65 A-TTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAAACTTGTATGAATAGAAACAAT
* * ** * * * * * *
15641631 TATTTTATGACAAAATAAAAAGTCATAACGATTTGAAGTAGTTAATTGTTTAAATTGTCATAATT
129 TATTTTATAACTAAA-CCAAGGTCAAAACGATTTGAAATAGATAATTGTTCAAATTGTCAT-ACT
* * * * * *
15641696 ATTTCAAC-TGTTTCGATAAATTAGCATT-TTTTAATAATCTTTTATTAATTAATTTTTAGAATA
192 ATTTGAACTTGTTT-GATAAA-CA-AATTATTTTTA-AATCTCTTATT-ATTAATTTTCAGAATA
* * * * *
15641759 TTAATAAATTAGTCTTATTTTATTTCGAATAAACTTGTATAAATAGGAACAAATGTTTTATGACA
252 TTAATAAATTAGTATTATTTTATTTCGAATAAATTTATATAAATAGAAACAATTGTTTTATG--A
* * * * *
15641824 AAAAAAAAGCTCATAATGATTTGAAATAGATAATTATTCAAATAGTTGTAACTATTTAAACTTAT
315 AAAAAAAAGCTCA-AATAATTTGAAATAAATAATTATTAAAATAGTTATAACCATTTAAACTTAT
* * * * *
15641889 TCGGTAAATAGATTAATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTAATAAATTAGTA
379 TCGATAAACAGATTAATTTTTTAAATATCTTACTTATTAATTTTCAGAATATAAATAAATTAGTA
* ** *
15641954 TTATTTTATT-TAGAACATGCTTGTAAGAACA-AAACTAATT-ATGGTAAATAAC-ATAA-AATG
444 TTATTTTATTCT-GAAAAAACTTGTAAGAACAGAAAC-AATTAAT--T-AATAACTA-AACAAAG
** *
15642014 -TCATAACGATTTGAGGTAATTAATTATTC
503 ATCATAACGATTTGAAATAAATAATTATTC
** * * * * *
15642043 AAATGGTCATAATTATTTGAACTGTTTTGA-TAAAGAGATTTATTTTTAAAATTTTTTACTTATT
1 AAATAATCATAATTATTTAAACT-TATTCAGTAAACAGATTTATTTTTTAAA-TTTTTACTTATT
* * * *
15642107 AATTTTGAAATATTAATAAATTATTATTATTTTATTTTGAATAAACTTGTATAAACAGAAACAAT
64 AATTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAAACTTGTATGAATAGAAACAAT
* * * * * **
15642172 TGTTATATAACTAAACCAAGGTCAAAACAATTCGAAATAGATAATTGTTGAAATAATCATACTAT
129 TATTTTATAACTAAACCAAGGTCAAAACGATTTGAAATAGATAATTGTTCAAATTGTCATACTAT
* *
15642237 TTGAACTTGTTTGATAAACAAATTCATTTTTAAATCTCTGACTTATTAATTTTCAGAATACTAAT
194 TTGAACTTGTTTGATAAACAAATT-ATTTTTAAATCTCTTA-TTATTAATTTTCAGAATATTAAT
* * * * *
15642302 AAATTAGTATTATTTTATTTTGAACAAATTTATATAAATAAAAACAATTATTTTATGATAAAAAA
257 AAATTAGTATTATTTTATTTCGAATAAATTTATATAAATAGAAACAATTGTTTTATGAAAAAAAA
15642367 AG
322 AG
15642369 ATAGAACAAA
Statistics
Matches: 699, Mismatches: 130, Indels: 72
0.78 0.14 0.08
Matches are distributed among these distances:
535 17 0.02
536 336 0.48
537 25 0.04
538 136 0.19
539 77 0.11
540 49 0.07
541 14 0.02
542 41 0.06
543 4 0.01
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (532 bp):
AAATAATCATAATTATTTAAACTTATTCAGTAAACAGATTTATTTTTTAAATTTTTACTTATTAA
TTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAAACTTGTATGAATAGAAACAATTA
TTTTATAACTAAACCAAGGTCAAAACGATTTGAAATAGATAATTGTTCAAATTGTCATACTATTT
GAACTTGTTTGATAAACAAATTATTTTTAAATCTCTTATTATTAATTTTCAGAATATTAATAAAT
TAGTATTATTTTATTTCGAATAAATTTATATAAATAGAAACAATTGTTTTATGAAAAAAAAAGCT
CAAATAATTTGAAATAAATAATTATTAAAATAGTTATAACCATTTAAACTTATTCGATAAACAGA
TTAATTTTTTAAATATCTTACTTATTAATTTTCAGAATATAAATAAATTAGTATTATTTTATTCT
GAAAAAACTTGTAAGAACAGAAACAATTAATTAATAACTAAACAAAGATCATAACGATTTGAAAT
AAATAATTATTC
Found at i:15643248 original size:17 final size:17
Alignment explanation
Indices: 15643228--15643266 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
15643218 GGTCAGAACG
15643228 ATTTAAAATAG-ATAATT
1 ATTT-AAATAGTATAATT
15643245 ATTTAAATAGTTATAATT
1 ATTTAAATAG-TATAATT
15643263 ATTT
1 ATTT
15643267 GAATTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
ATTTAAATAGTATAATT
Found at i:15643688 original size:180 final size:180
Alignment explanation
Indices: 15643109--15644870 Score: 1329
Period size: 181 Copynumber: 9.8 Consensus size: 180
15643099 AACTTTTTCA
* * * * * ** * *
15643109 ATTTTTTGAATATCTTATTTATAAATTTTTGGAATAATAATGCATAAGCATTATTTTATTTTGAA
1 ATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA
* * * * * *
15643174 TATGTTTGTATGAATAGAAACAATTATTTTATGACAAAA-ATAAAGGTCAGAACGATTTAAAATA
66 TAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACA-AAAGGTCATAATGATTTGAAATA
* * * * * *
15643238 GATAATTATTTAAATAGTTATAATTATTTGAATTGTTT-TGATAAATATATTT
130 GATAATTGTTCAAATAGTTATAACTATTTAAATT-TTTCAG-TAAATAGATTT
* * * * ** **
15643290 ATTTTTTCAATCTTTTACTTATTAATTTTTGGAAA-AGTAATAAATTAAAATTATTTTATTCCGA
1 ATTTTTTAAATATCTTACTTATTAATTTTT-GAAATATTAATAAATTAGTATTATTTTATTTTGA
* * * * * * * * *
15643354 AT-AGACTTGTATGAACAGAAATAAATGTTTTATGACAAAATAAAAAGAT-ATAATGATTAGAAG
65 ATAAG-CTTGTATGAATAGAAACAATTATTTTATGATAAAA-CAAAAGGTCATAATGATTTGAAA
* * * * * * * * * *
15643417 TAGTTAACTGTACCAATAGTCATAACAATTCAAATTGTTTTAGTAAACATATTT
128 TAGATAATTGTTCAAATAGTTATAACTATTTAAATT-TTTCAGTAAATAGATTT
* * * *
15643471 ATTTTTTAAATTTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTTCGAA
1 ATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA
* * * * * * * *
15643536 TAAGCTTATATGAATATAAAAAATTGTTTCATGATAAAAGAAAAGGCCATAATGATTTGAAATAA
66 TAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAG
* * *
15643601 ATAATTGTTCAAATAGTTATGACCATTTAAATTTTTCAGTAAATATATTT
131 ATAATTGTTCAAATAGTTATAACTATTTAAATTTTTCAGTAAATAGATTT
* ** * ***
15643651 ATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAGTGGATTAGTATTACTTTATTCCCAA
1 ATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT-TTGA
* * * * * * *
15643716 ATAAACTTGTATGAATAAAAACAAATATTTTATGACAAAACAAAAGGTTAGAATGATTTAAAATA
65 ATAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATA
* * * * * *
15643781 AATAATTATTTAAATAGTCATAACTATTTGAACTTTTT-AGTTAATAGATTT
130 GATAATTGTTCAAATAGTTATAACTATTT-AAATTTTTCAGTAAATAGATTT
* * * * * * * * *
15643832 ATTTCTT---TATC-T-CATATTAATTTTCAGAAA-AGTAACAAATTCGTACTATTTTATTCTAA
1 ATTTTTTAAATATCTTACTTATTAATTTT-TGAAATATTAATAAATTAGTATTATTTTATTTTGA
* * * * * * *
15643891 ATAAGTTTGTATAAACAGATATAATTATTTTATGATAAAACAAAAGGTAATAATGATTT-AAGGT
65 ATAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAA-AT
* * * * * * *
15643955 AGTTAATTG-TCTAAATAGTCATAATTATTTGAATTGTTCTGGTAATTAGATTT
129 AGATAATTGTTC-AAATAGTTATAACTATTTAAATTTTTC-AGTAAATAGATTT
* * * *
15644008 ATTTTTTAAA-ACTCTTACTTCTTAA-TTTTCAGAATATTAATAAATTAGTTTTATTTTATTTTA
1 ATTTTTTAAATA-TCTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTG
** * *
15644071 AATAAGCTAATATGAATA-AAACAACTGTTTTATGATAAAACAAAAGG-CAATAATGATTTGAAA
64 AATAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGGTC-ATAATGATTTGAAA
* * *
15644134 TAGATAATTGTTCAAATAGTTAGAACTATTTAAACTTGTTCGGTAAATAGATTT
128 TAGATAATTGTTCAAATAGTTATAACTATTTAAA-TTTTTCAGTAAATAGATTT
* * * * * *
15644188 GTTTTTTAAATATCTTACTTATTAATTTTTGGAATATTAGTAGATTAGTGTTATTTTATTTTAAA
1 ATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA
* * * * * *
15644253 TAAAG-TTGTATGAATAGAAACAATTGTTCTATTGCT-TAA-GAAAGGTCATAATAATTTGAAAT
66 T-AAGCTTGTATGAATAGAAACAATTATTTTA-TGATAAAACAAAAGGTCATAATGATTTGAAAT
* * * * * * **
15644315 ATATATTTGTTCAAATTGTAATAACTATTTGAATTTATT-TG-ATAGCAGATTT
129 AGATAATTGTTCAAATAGTTATAACTATTTAAATTT-TTCAGTA-AATAGATTT
* * * *
15644367 ATTTTTTAAGTCTCTTATTTATTAATTTTTGAAATATTTATAAATTAGTATTATTTTATTTTGAA
1 ATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA
* * * * * * ** *
15644432 TAAACCTGTATGAATAGAAATAATTATTTTATAACAAAATAAAATTTCATAATGATTTGAAGTAG
66 TAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAG
* * * *
15644497 TTAATTGTTCAAATAGTTATAACTATTTGAATTGCTTCAATAAATAGATTT
131 ATAATTGTTCAAATAGTTATAACTATTTAAATT-TTTCAGTAAATAGATTT
* * * * *
15644548 ATTTTTGAAATCTCTTACTTAATAA-TTTTCAGAATATTAATAAATTAATATTATTTTATTTTGA
1 ATTTTTTAAATATCTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGA
* * * * * * *
15644612 ATAAGCTTTTATGAACAGAAACAACTATTTTATGATAAAGCAAAAGGTCAAAACGATTTAAAATA
65 ATAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATA
* * * * * * *
15644677 AATAATTATTCAAATAGTCATAAC-ATTTGAACTTGTTT-GGTAAACAAATTT
130 GATAATTGTTCAAATAGTTATAACTATTT-AAATT-TTTCAGTAAATAGATTT
* * * * *** * **
15644728 ATTTTGT-AA-A-CAT-CTTAGTAA-TTTTCATAATATTAAGGGATTAATATTATTTTATTTCAA
1 ATTTTTTAAATATCTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGA
* * * * * * * *
15644788 ATAAACTTGTATGAATGGATACAATTATTTTATGATAAAACAGTAA-GTTAGAATAATTTAAAAT
65 ATAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACA-AAAGGTCATAATGATTTGAAAT
*
15644852 AAATAATTGTTCAAATAGT
129 AGATAATTGTTCAAATAGT
15644871 CAACTATTTG
Statistics
Matches: 1256, Mismatches: 281, Indels: 93
0.77 0.17 0.06
Matches are distributed among these distances:
174 8 0.01
175 75 0.06
176 151 0.12
177 9 0.01
178 9 0.01
179 95 0.08
180 338 0.27
181 548 0.44
182 22 0.02
183 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.43
Consensus pattern (180 bp):
ATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA
TAAGCTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAG
ATAATTGTTCAAATAGTTATAACTATTTAAATTTTTCAGTAAATAGATTT
Found at i:15644010 original size:537 final size:532
Alignment explanation
Indices: 15642720--15644882 Score: 1796
Period size: 537 Copynumber: 4.0 Consensus size: 532
15642710 ATTAATTGTA
* * * *
15642720 CAAATAGTAATAAATATTTGAACTGTTTTAGTAAACT-GATTTATTTTTTAAATCTCTTATTAAT
1 CAAATAGTCATAACTATTTGAA-T-TTTTAGTTAA-TAGATTTATTTTTT-AATCTCATATTAAT
* * * * * * ** * *
15642784 TTTCAGAATATTAATAAGTTAGTGTCATTTTATT-TCAAATAAATTTGTATGAACAAAAACAATT
62 TTT-AGAAAAGTAATAAATTAGTATTATTTTATTCT-GAATAAGCTTGTATGAACAGAAATAATT
* * * * * * * ** * * *
15642848 GTTTCATGACAAAACAAAATGTTATAATGCTTTGAAATAAATAATTAT-TCAAATAGTTATAACA
125 ATTTTATGACAAAATAAAAAGTAATAATGATTT-AAGTAGTTAATTGTCT-AAATAGTCATAACT
* * * * * *
15642912 ATTTGAATTTATTC-GGTAAATATATTTATGTTTTTAAATATTTTACTTATTAAATTTTGA-AAT
188 ATTTGAA-TTGTTCTAGTAAATAGATTTAT-TTTTTAAATCTCTTACTTATT-AATTTTCAGAAT
*** * ** * * * * *
15642975 ATTAATGGTTTGGTATTGCTTTATTCTGAATAAACTTGTATGAACAAAAACAATTGTTTTATGAC
250 ATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTATATGAA-TAAAACAACTGTTTTATGA-
* * **** * * ** * * *
15643040 T-CAACAAAATAATAAAACGATTTGAAATTGATAATTGTTGAAATAGTTATAACCATTTGAACTT
313 TAAAAGAAAAGGCCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATGACCATTT-AAATT
* * * * * * * *
15643104 TTTC---------A---ATTTTTTGAATATCTTATTTATAAATTTTTGGAATAATAATGCATAAG
377 TTTCGGTAAATAAATTTATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAGTGGATTAG
* ** *** *
15643157 CATTATTTTATTTTGAATATGTTTGTATGAATAGAAACAATTATTTTATGACAAAAATAAAGGTC
442 TATTATTTTATTTCAAATAAACTTGTATGAATAGAAACAATTATTTTATGACAAAAAGAAAGGTC
** *
15643222 AGAACGATTTAAAATAGATAATTATT
507 AGAATAATTTAAAATAAATAATTATT
* * * * * * *
15643248 TAAATAGTTATAATTATTTGAATTGTTTTGATAAATATATTTATTTTTTCAATCTTTTACTTATT
1 CAAATAGTCATAACTATTTGAATT-TTTAG-TTAATAGATTTATTTTTT-AATC---T-CATATT
* ** *
15643313 AATTTTTGGAAAAGTAATAAATTAAAATTATTTTATTCCGAAT-AGACTTGTATGAACAGAAATA
59 AA-TTTTAGAAAAGTAATAAATTAGTATTATTTTATTCTGAATAAG-CTTGTATGAACAGAAATA
* * * * *
15643377 AATGTTTTATGACAAAATAAAAAG-ATATAATGATTAGAAGTAGTTAACTGTAC-CAATAGTCAT
122 ATTATTTTATGACAAAATAAAAAGTA-ATAATGATT-TAAGTAGTTAATTGT-CTAAATAGTCAT
* ** * * * * * *
15643440 AACAATTCAAATTGTTTTAGTAAACATATTTATTTTTTAAATTTCTTACTTATTAATTTTTAAAA
184 AACTATTTGAATTGTTCTAGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAGAA
* * * * *
15643505 TATTAATAAATTAGTGTTATTTTATTTCGAATAAGCTTATATGAATATAAAAAATTGTTTCATGA
249 TATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTATATGAATA-AAACAACTGTTTTATGA
15643570 TAAAAGAAAAGGCCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATGACCATTTAAATTT
313 TAAAAGAAAAGGCCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATGACCATTTAAATTT
* *
15643635 TTCAGTAAATATATTTATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAGTGGATTAGT
378 TTCGGTAAATAAATTTATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAGTGGATTAGT
* * * *
15643700 ATTACTTTATTCCCAAATAAACTTGTATGAATAAAAACAAATATTTTATGACAAAACA-AAAGGT
443 ATTATTTTATT-TCAAATAAACTTGTATGAATAGAAACAATTATTTTATGACAAAA-AGAAAGGT
* *
15643764 TAGAATGATTTAAAATAAATAATTATT
506 CAGAATAATTTAAAATAAATAATTATT
*
15643791 TAAATAGTCATAACTATTTGAACTTTTTAGTTAATAGATTTATTTCTTT-ATCTCATATTAATTT
1 CAAATAGTCATAACTATTTGAA-TTTTTAGTTAATAGATTTATTT-TTTAATCTCATATTAATTT
* * * * * * *
15643855 TCAGAAAAGTAACAAATTCGTACTATTTTATTCTAAATAAGTTTGTATAAACAGATATAATTATT
64 T-AGAAAAGTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAACAGAAATAATTATT
* * * *
15643920 TTATGATAAAACAAAAGGTAATAATGATTTAAGGTAGTTAATTGTCTAAATAGTCATAATTATTT
128 TTATGACAAAATAAAAAGTAATAATGATTTAA-GTAGTTAATTGTCTAAATAGTCATAACTATTT
* * * *
15643985 GAATTGTTCTGGTAATTAGATTTATTTTTTAAAACTCTTACTTCTTAATTTTCAGAATATTAATA
192 GAATTGTTCTAGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAGAATATTAATA
* * * *
15644050 AATTAGTTTTATTTTATTTTAAATAAGCTAATATGAATAAAACAACTGTTTTATGATAAAACAAA
257 AATTAGTATTATTTTATTTTGAATAAGCTTATATGAATAAAACAACTGTTTTATGATAAAAGAAA
* * * *
15644115 AGGCAATAATGATTTGAAATAGATAATTGTTCAAATAGTTA-GAACTATTTAAACTTGTTCGGTA
322 AGGCCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATG-ACCATTTAAA-TTTTTCGGTA
* * * * *
15644179 AATAGATTTGTTTTTTAAATATCTTACTTATTAATTTTTGGAATATTAGTAGATTAGTGTTATTT
385 AATAAATTTATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAGTGGATTAGTATTATTT
* * * * ** *
15644244 TATTTTAAATAAAGTTGTATGAATAGAAACAATTGTTCTATTG-C-TTAAGAAAGGTCATAATAA
450 TATTTCAAATAAACTTGTATGAATAGAAACAATTATTTTA-TGACAAAAAGAAAGGTCAGAATAA
* * * *
15644307 TTTGAAATATATATTTGTT
514 TTTAAAATAAATAATTATT
* * * * **
15644326 CAAATTGTAATAACTATTTGAATTTATTTGATAGCAGATTTATTTTTTAAGTCTCTTATTTATTA
1 CAAATAGTCATAACTATTTGAATTT-TTAGTTAATAGATTTATTTTTTAA-TCTC--A--TATTA
* * * * * * *
15644391 ATTTTTGAAATATTTATAAATTAGTATTATTTTATTTTGAATAAACCTGTATGAATAGAAATAAT
60 ATTTTAGAAA-AGTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAACAGAAATAAT
* ** * *
15644456 TATTTTATAACAAAATAAAATTTCATAATGATTTGAAGTAGTTAATTGT-TCAAATAGTTATAAC
124 TATTTTATGACAAAATAAAAAGTAATAATGATTT-AAGTAGTTAATTGTCT-AAATAGTCATAAC
* * *
15644520 TATTTGAATTGCTTC-AATAAATAGATTTATTTTTGAAATCTCTTACTTAATAATTTTCAGAATA
187 TATTTGAATTG-TTCTAGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAGAATA
* * * *
15644584 TTAATAAATTAATATTATTTTATTTTGAATAAGCTTTTATGAACAGAAACAACTATTTTATGAT-
251 TTAATAAATTAGTATTATTTTATTTTGAATAAGCTTATATGAATA-AAACAACTGTTTTATGATA
* * * * * * * *
15644648 AAAGCAAAAGGTCAAAACGATTTAAAATAAATAATTATTCAAATAGTCAT-AACATTTGAACTTG
315 AAAG-AAAAGGCCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATGACCATTT-AAATT-
* * * * *
15644712 TTT-GGTAAACAAATTTATTTTGT-AA-A-CAT-CTTAGTAA-TTTTCATAATATTAAG-GGATT
377 TTTCGGTAAATAAATTTATTTTTTAAATATCTTACTTATTAATTTTTGA-AATATT-AGTGGATT
* * * * *
15644770 AATATTATTTTATTTCAAATAAACTTGTATGAATGGATACAATTATTTTATGATAAAACAGTAA-
440 AGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAACAATTATTTTATGACAAAA-AGAAAG
* *
15644834 GTTAGAATAATTTAAAATAAATAATTGTT
504 GTCAGAATAATTTAAAATAAATAATTATT
15644863 CAAATAGTC--AACTATTTGAA
1 CAAATAGTCATAACTATTTGAA
15644883 CTATTTAATT
Statistics
Matches: 1322, Mismatches: 249, Indels: 121
0.78 0.15 0.07
Matches are distributed among these distances:
526 1 0.00
527 6 0.00
528 38 0.03
530 17 0.01
531 121 0.09
532 115 0.09
533 4 0.00
534 7 0.01
535 80 0.06
536 170 0.13
537 301 0.23
538 10 0.01
539 8 0.01
540 220 0.17
541 65 0.05
542 63 0.05
543 93 0.07
544 3 0.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (532 bp):
CAAATAGTCATAACTATTTGAATTTTTAGTTAATAGATTTATTTTTTAATCTCATATTAATTTTA
GAAAAGTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAACAGAAATAATTATTTTA
TGACAAAATAAAAAGTAATAATGATTTAAGTAGTTAATTGTCTAAATAGTCATAACTATTTGAAT
TGTTCTAGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAGAATATTAATAAATT
AGTATTATTTTATTTTGAATAAGCTTATATGAATAAAACAACTGTTTTATGATAAAAGAAAAGGC
CATAATGATTTGAAATAAATAATTGTTCAAATAGTTATGACCATTTAAATTTTTCGGTAAATAAA
TTTATTTTTTAAATATCTTACTTATTAATTTTTGAAATATTAGTGGATTAGTATTATTTTATTTC
AAATAAACTTGTATGAATAGAAACAATTATTTTATGACAAAAAGAAAGGTCAGAATAATTTAAAA
TAAATAATTATT
Found at i:15645090 original size:391 final size:394
Alignment explanation
Indices: 15644486--15645226 Score: 836
Period size: 391 Copynumber: 1.9 Consensus size: 394
15644476 TTTCATAATG
* * * * * *
15644486 ATTTGAAGTAGTTAATTGTTCAAATAGTTATAACTATTTGAATTGCTTCAATAAATAGATTTATT
1 ATTTGAACTAGTTAATTATTCAAATAGTCATAACTATTTGAATTGCTTCAATAAACAAACTTATT
* * * * *
15644551 TTTGAAATCTCTTACTTAATAATTTTCAGAATATTAATAAATTAATATTATTTTATTTTGAATAA
66 TTTGAAATCTCTTACTTAATAATTTTCACAATAGTAATAAATTAATATTATTATAATTCGAATAA
* * * * *
15644616 GCTTTTATGAACAGAAACAACTATTTTATGATAAAGCAAAAGGTCAAAACGATTTAAAATAAATA
131 GCTTGTATGAACAGAAAAAACTATTTTATAACAAAACAAAAGGTCAAAACGATTTAAAATAAATA
*
15644681 ATTATTCAAATAGTCATAA-CATTTGAACTTGTTT-GGTAAACAA-ATTTA-TTTTGTAAA-C-A
196 ATTATTCAAATAGTCATAATCATTTGAAC-TGTTTCAGTAAA-AAGATTTATTTTTGTAAATCTA
* * ** *
15644740 TCTTA-GTAATTTTCATAATATTAAGGGATTAATATTATTTTATT-TCAAATAAACTTGTATGAA
259 TCTTATGAAATTTT-AGAATATTAAGAAATTAATATTATTTTATTCT-AAATAAACTTGTATAAA
* *
15644803 TGGATACAATTATTTTATGATAAAACAGTAAGTTAGAATAATTTAAAATAAATAATTGTTCAAAT
322 TAGAAACAATTATTTTATGATAAAACAGTAAGTTAGAATAATTTAAAATAAATAATTGTTCAAAT
15644868 AGTCAACT
387 AGTCAACT
* * *
15644876 ATTTGAACTATTTAATTATTCAAATAGTCATAACTATTTGAATTGTTTCCATAAACAAACTTATT
1 ATTTGAACTAGTTAATTATTCAAATAGTCATAACTATTTGAATTGCTTCAATAAACAAACTTA-T
* * * ** * * * *
15644941 TTTTTAAATTTCTTACTTATTAATTTTTTCATTCGTAATAAATTAGTTTTATTATAATTCGAATA
65 TTTTGAAATCTCTTACTTAATAATTTTCACAATAGTAATAAATTAATATTATTATAATTCGAATA
* * * * * * * * *
15645006 AG-TGTGTATTAATAGAAAAAATTGTTTTATAACAAAACATAAGGTCTTAAA-GATTTGAAGTAC
130 AGCT-TGTATGAACAGAAAAAACTATTTTATAACAAAACAAAAGGTC-AAAACGATTTAAAATAA
* * * * *
15645069 CTAATTGTTCAAATAGTCATAATTATTTGAACTGTTTCATTAAAAAGATTTATTTTTTTAAATCT
193 ATAATTATTCAAATAGTCATAATCATTTGAACTGTTTCAGTAAAAAGATTTATTTTTGTAAA--T
* * * *
15645134 CTTTCTTATGAAATTTTAGAATATTAATAAATTATTATTATTTTATTCTAAATAAGCTTGTATAA
256 CTATCTTATGAAATTTTAGAATATTAAGAAATTAATATTATTTTATTCTAAATAAACTTGTATAA
*
15645199 ATAGAAATAATTATTTTATGATAAAACA
321 ATAGAAACAATTATTTTATGATAAAACA
15645227 AAAGGTCTGA
Statistics
Matches: 283, Mismatches: 55, Indels: 19
0.79 0.15 0.05
Matches are distributed among these distances:
390 55 0.19
391 122 0.43
392 20 0.07
393 8 0.03
396 1 0.00
397 69 0.24
398 8 0.03
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (394 bp):
ATTTGAACTAGTTAATTATTCAAATAGTCATAACTATTTGAATTGCTTCAATAAACAAACTTATT
TTTGAAATCTCTTACTTAATAATTTTCACAATAGTAATAAATTAATATTATTATAATTCGAATAA
GCTTGTATGAACAGAAAAAACTATTTTATAACAAAACAAAAGGTCAAAACGATTTAAAATAAATA
ATTATTCAAATAGTCATAATCATTTGAACTGTTTCAGTAAAAAGATTTATTTTTGTAAATCTATC
TTATGAAATTTTAGAATATTAAGAAATTAATATTATTTTATTCTAAATAAACTTGTATAAATAGA
AACAATTATTTTATGATAAAACAGTAAGTTAGAATAATTTAAAATAAATAATTGTTCAAATAGTC
AACT
Found at i:15645204 original size:182 final size:176
Alignment explanation
Indices: 15644888--15645370 Score: 440
Period size: 182 Copynumber: 2.7 Consensus size: 176
15644878 TTGAACTATT
* * * *
15644888 TAATTATTCAAATAGTCATAACTATTTGAATTGTTTCCATAAACAAACTTATTTTTTTAAATTTC
1 TAATTGTTCAAATAGTCATAATTATTTGAACTGTTT-CATAAA-AAATTTATTTTTTTAAA-TTC
* * ** * * *
15644953 TTACTTATTAATTTTTTCAT-TCGTAATAAATTAGTT-TTATTATAATTCGAATAAGTGTGTATT
63 TTTCTTATAAATTTTTGAATAT--TAATAAATTA-TTATTATT-TTATTCAAATAAGTGTGTATA
* * * * **
15645016 AATAGAAAAAATTGTTTTATAACAAAACATAAGGTCTTAA-AGATTTGAAGTACC
124 AATAGAAAAAATTATTTTATAACAAAACAAAAGGTCTGAACAG-TTTGAA-AAAA
15645070 TAATTGTTCAAATAGTCATAATTATTTGAACTGTTTCATTAAAAAGATTTATTTTTTTAAATCTC
1 TAATTGTTCAAATAGTCATAATTATTTGAACTGTTTCA-TAAAAA-ATTTATTTTTTTAAAT-TC
*
15645135 TTTCTTATGAAATTTTAGAATATTAATAAATTATTATTATTTTATTCTAAATAAGCT-TGTATAA
63 TTTCTTAT-AAATTTTTGAATATTAATAAATTATTATTATTTTATTC-AAATAAG-TGTGTATAA
* * * *
15645199 ATAGAAATAATTATTTTATGATAAAACAAAAGGTCTGAACTGTTTGAAAAAA
125 ATAGAAAAAATTATTTTATAACAAAACAAAAGGTCTGAACAGTTTGAAAAAA
* * * * * *
15645251 TCATTGTTCAAATAGTCATAAATT-TTTGAACTTTTTAAGTAAACATATTTA-TTTTGT-AATTA
1 TAATTGTTCAAATAGTCAT-AATTATTTGAACTGTTTCA-TAAA-AAATTTATTTTTTTAAATTC
* * *
15645313 TTTCACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGT
63 TTT--CTTATAAATTTTTG-AATATTAATAAATTATTATTATTTTA-TTCAAATAAGT
15645371 TTATATGAGT
Statistics
Matches: 253, Mismatches: 33, Indels: 33
0.79 0.10 0.10
Matches are distributed among these distances:
178 4 0.02
179 11 0.04
180 41 0.16
181 55 0.22
182 131 0.52
183 10 0.04
184 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (176 bp):
TAATTGTTCAAATAGTCATAATTATTTGAACTGTTTCATAAAAAATTTATTTTTTTAAATTCTTT
CTTATAAATTTTTGAATATTAATAAATTATTATTATTTTATTCAAATAAGTGTGTATAAATAGAA
AAAATTATTTTATAACAAAACAAAAGGTCTGAACAGTTTGAAAAAA
Found at i:15645440 original size:3 final size:3
Alignment explanation
Indices: 15645434--15645482 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
15645424 TCTTCTTTTT
* *
15645434 TTA TTA TTA -TA TAA TT- TTG TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
15645478 TTA TT
1 TTA TT
15645483 CTTTAAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.85
4 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15645528 original size:11 final size:10
Alignment explanation
Indices: 15645486--15645525 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
15645476 TATTATTCTT
15645486 TAAAACAAAAG
1 TAAAA-AAAAG
* *
15645497 GAAAAAAAGG
1 TAAAAAAAAG
15645507 TAAAAAAAAG
1 TAAAAAAAAG
15645517 TAAAAAAAA
1 TAAAAAAAA
15645526 AGTCTTTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 21 0.84
11 4 0.16
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.07
Consensus pattern (10 bp):
TAAAAAAAAG
Found at i:15646379 original size:3 final size:3
Alignment explanation
Indices: 15646365--15646413 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
15646355 TTTTATGATG
* *
15646365 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15646411 TTA
1 TTA
15646414 CTGGTAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15646500 original size:14 final size:14
Alignment explanation
Indices: 15646438--15646505 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
15646428 TTTAAAAAAC
*
15646438 AAATAAATAAATAG
1 AAATAAAAAAATAG
*
15646452 AAATAAAAGAAATAA
1 AAATAAAA-AAATAG
*
15646467 AAATAAAATAA-AG
1 AAATAAAAAAATAG
** *
15646480 ACTTAAAAAAATAT
1 AAATAAAAAAATAG
15646494 AAATAAAAAAAT
1 AAATAAAAAAAT
15646506 TTAATAATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.21
14 20 0.48
15 13 0.31
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (14 bp):
AAATAAAAAAATAG
Found at i:15646635 original size:21 final size:19
Alignment explanation
Indices: 15646608--15646657 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
15646598 TAGTTTTTGC
15646608 TAAAAAATAAGAAAATATATAA
1 TAAAAAATAAG-AAATA-A-AA
15646630 -AAAAAATAAGAAATAAAA
1 TAAAAAATAAGAAATAAAA
15646648 TAAAAAATAA
1 TAAAAAATAA
15646658 ATTGTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.07
19 10 0.37
20 5 0.19
21 10 0.37
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (19 bp):
TAAAAAATAAGAAATAAAA
Found at i:15646659 original size:16 final size:16
Alignment explanation
Indices: 15646611--15646659 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
15646601 TTTTTGCTAA
*
15646611 AAAATAAGAAAATATAT
1 AAAATAA-AAAATAAAT
*
15646628 AAAA-AAAATAAGAAAT
1 AAAATAAAA-AATAAAT
15646644 AAAATAAAAAATAAAT
1 AAAATAAAAAATAAAT
15646660 TGTTTAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 2 0.07
16 17 0.63
17 8 0.30
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAATAAAT
Found at i:15647165 original size:50 final size:51
Alignment explanation
Indices: 15647110--15647208 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
15647100 CAAAATTGAG
* * ** *
15647110 ATAATCTTAAAACTTGTTTAA-AATTTTTAGGATTTCACCGAAGAGTCGGA
1 ATAATCTTAAAACTTGTTTAATAAATTTTAAGAACTCACCAAAGAGTCGGA
*
15647160 ATAATCTTAAAATTTGTTTAATAAATTTTAAGAACTCACCAAAGAGTCG
1 ATAATCTTAAAACTTGTTTAATAAATTTTAAGAACTCACCAAAGAGTCG
15647209 AGATGTTCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 20 0.48
51 22 0.52
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (51 bp):
ATAATCTTAAAACTTGTTTAATAAATTTTAAGAACTCACCAAAGAGTCGGA
Found at i:15660575 original size:39 final size:40
Alignment explanation
Indices: 15660468--15660623 Score: 188
Period size: 40 Copynumber: 3.9 Consensus size: 40
15660458 TCAGATTTTA
* * *
15660468 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTTAAC
1 ATTTAAAGTTTGTTGCCTTTGGTCAGAGGAGCTTTTTAAC
* * *
15660508 ATTTAAAGTTTGTTACCTTTGGTCAGAGGAGCCTTTTGA-
1 ATTTAAAGTTTGTTGCCTTTGGTCAGAGGAGCTTTTTAAC
* * * *
15660547 ATTTAAAGTTTGTTGCCTCTGATGAGAGGATCTTTTTAAC
1 ATTTAAAGTTTGTTGCCTTTGGTCAGAGGAGCTTTTTAAC
* * *
15660587 ATTTAAAGTTTGTTGTCTTTGGTCAGATGAGTTTTTT
1 ATTTAAAGTTTGTTGCCTTTGGTCAGAGGAGCTTTTT
15660624 TTTTTTTTAA
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 32 0.34
40 63 0.66
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (40 bp):
ATTTAAAGTTTGTTGCCTTTGGTCAGAGGAGCTTTTTAAC
Found at i:15660598 original size:79 final size:78
Alignment explanation
Indices: 15660463--15660613 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 78
15660453 GCCTCTCAGA
* * * *
15660463 TTTTAATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTTAACATTTAAAGTTTGTTACCTTT
1 TTTTAATTTAAAGTTTGTTGCCTCTGATGAAAGGAGCTTTTTAACATTTAAAGTTTGTTACCTTT
15660528 GGTCAGAGGAGCC
66 GGTCAGAGGAGCC
* * **
15660541 TTTTGAATTTAAAGTTTGTTGCCTCTGATGAGAGGATCTTTTTAACATTTAAAGTTTGTTGTCTT
1 TTTT-AATTTAAAGTTTGTTGCCTCTGATGAAAGGAGCTTTTTAACATTTAAAGTTTGTTACCTT
15660606 TGGTCAGA
65 TGGTCAGA
15660614 TGAGTTTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 4 0.06
79 60 0.94
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.46
Consensus pattern (78 bp):
TTTTAATTTAAAGTTTGTTGCCTCTGATGAAAGGAGCTTTTTAACATTTAAAGTTTGTTACCTTT
GGTCAGAGGAGCC
Found at i:15660767 original size:33 final size:33
Alignment explanation
Indices: 15660725--15660796 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
15660715 CAGGTCTTTA
*
15660725 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCC
1 ATTTAAAGTTCGTTGCCTTTGGTTAAAGGAGCC
* *
15660758 ATTTAAAGTTCGTTGCCTTTGGTTAGATGAGCC
1 ATTTAAAGTTCGTTGCCTTTGGTTAAAGGAGCC
*
15660791 TTTTAA
1 ATTTAA
15660797 CATTTAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (33 bp):
ATTTAAAGTTCGTTGCCTTTGGTTAAAGGAGCC
Found at i:15660844 original size:39 final size:39
Alignment explanation
Indices: 15660724--15661065 Score: 296
Period size: 39 Copynumber: 8.9 Consensus size: 39
15660714 TCAGGTCTTT
*
15660724 AATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCC-----
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCCTTTTG
* * *
15660758 -ATTTAAAGTTCGTTGCCTTTGGTTAGATG-AGCCTTTTA
1 AATTTAAAGTTTGTTGCCTTTGGTTA-AAGAAGCCTTTTG
*
15660796 ACATTTAAAGTATGTTGCCTTTGGTTAAAGAAG-CTTTTGG
1 A-ATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCCTTTT-G
*
15660836 AATTTAAAGTTTGTTACCTTTGGTTAAATG-AG-CTTTTG
1 AATTTAAAGTTTGTTGCCTTTGGTTAAA-GAAGCCTTTTG
* ** * *
15660874 GATTTAAAGTTTGTTGCCTTTGGAGAGACAAGCCTTTTG
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCCTTTTG
* * * *
15660913 AATTTAAAGTTTGTTGCCTCTGATGAGAGAAGCCTTTTG
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCCTTTTG
* *
15660952 AATTTAAAGTTCGTTGCCTTTGGTTAAAGGAG-CTTTT-
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCCTTTTG
* * * * * * *
15660989 AACTTAAAGTTTGTTACCTATAGTGAGAGGAGCCTTTTG
1 AATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCCTTTTG
* * *
15661028 AATTTAAAGTTT-TATAGCCTTTGTTTAGAGGAGCCTTT
1 AATTTAAAGTTTGT-T-GCCTTTGGTTAAAGAAGCCTTT
15661066 CAAATTTTCT
Statistics
Matches: 253, Mismatches: 38, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
33 28 0.11
34 2 0.01
37 25 0.10
38 37 0.15
39 117 0.46
40 44 0.17
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.41
Consensus pattern (39 bp):
AATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCCTTTTG
Done.