Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 97 of 121
Found at i:16500156 original size:27 final size:28
Alignment explanation
Indices: 16500100--16500175 Score: 111
Period size: 27 Copynumber: 2.7 Consensus size: 28
16500090 TCTTAGGTCT
16500100 AGGCTCGATTTTCAATTCAACTGGACTTC
1 AGGCTCGATTTT-AATTCAACTGGACTTC
*
16500129 AGGCTCGATTTTAATT-AACTAGG-TTTC
1 AGGCTCGATTTTAATTCAACT-GGACTTC
16500156 AGGCTCGATTTTAATTCAAC
1 AGGCTCGATTTTAATTCAAC
16500176 CAAGTTCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
27 23 0.52
28 9 0.20
29 12 0.27
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (28 bp):
AGGCTCGATTTTAATTCAACTGGACTTC
Found at i:16502287 original size:29 final size:27
Alignment explanation
Indices: 16502237--16502308 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 27
16502227 ATCATTAGAT
16502237 TTTTAAAAATTTAATATGATATTTAAA
1 TTTTAAAAATTTAATATGATATTTAAA
*
16502264 TTTTAAAAATTTTTAATTTGATATTTAAA
1 TTTTAAAAA--TTTAATATGATATTTAAA
* *
16502293 TTATAAATATATTAAT
1 TTTTAAAAAT-TTAAT
16502309 TAAAATAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.26
28 5 0.13
29 24 0.62
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
TTTTAAAAATTTAATATGATATTTAAA
Found at i:16502429 original size:28 final size:28
Alignment explanation
Indices: 16502383--16502458 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
16502373 TTTTGATATT
16502383 ATATTA-ATTAATAAA-TTTATAATTTAA
1 ATATTATATTAA-AAATTTTATAATTTAA
* *
16502410 GTATTATATTAAAAATTTTAAAATTTAA
1 ATATTATATTAAAAATTTTATAATTTAA
* *
16502438 ATATCATATTAAATATTTTAT
1 ATATTATATTAAAAATTTTAT
16502459 TATAATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.20
28 33 0.80
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
ATATTATATTAAAAATTTTATAATTTAA
Found at i:16503253 original size:27 final size:27
Alignment explanation
Indices: 16503217--16503276 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
16503207 AATTACTAAT
16503217 AAAAA-TTATTATAATTGTGATTGAAA
1 AAAAATTTATTATAATTGTGATTGAAA
16503243 AAAAATTTATTATAATTGTGATTGAAA
1 AAAAATTTATTATAATTGTGATTGAAA
16503270 AAAAATT
1 AAAAATT
16503277 CAATAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
AAAAATTTATTATAATTGTGATTGAAA
Found at i:16503288 original size:29 final size:27
Alignment explanation
Indices: 16503229--16503285 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
16503219 AAATTATTAT
* * *
16503229 AATTGTGATTGAAAAAAAATTTATTAT
1 AATTGTGATTGAAAAAAAATTAATAAA
16503256 AATTGTGATTGAAAAAAAATTCAATAAA
1 AATTGTGATTGAAAAAAAATT-AATAAA
16503284 AA
1 AA
16503286 ATTTTTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (27 bp):
AATTGTGATTGAAAAAAAATTAATAAA
Found at i:16504383 original size:22 final size:21
Alignment explanation
Indices: 16504358--16504401 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
16504348 AAAATGTAAT
16504358 AATTA-AATTGATAATATAAAAA
1 AATTAGAATT-ATAA-ATAAAAA
*
16504380 AATTAGCATTATAAATAAAAA
1 AATTAGAATTATAAATAAAAA
16504401 A
1 A
16504402 TAATCCTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 9 0.45
23 3 0.15
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (21 bp):
AATTAGAATTATAAATAAAAA
Found at i:16505861 original size:16 final size:16
Alignment explanation
Indices: 16505840--16505873 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16505830 TTATAAATAG
16505840 AAAATAATTTAA-TAAA
1 AAAAT-ATTTAAGTAAA
16505856 AAAATATTTAAGTAAA
1 AAAATATTTAAGTAAA
16505872 AA
1 AA
16505874 TGTGAGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAATATTTAAGTAAA
Found at i:16506085 original size:18 final size:17
Alignment explanation
Indices: 16506043--16506077 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
16506033 AAAAGTTATT
*
16506043 ATTATAAACAAAAAGTA
1 ATTATAAACAAAAAATA
16506060 ATTATAAACAAAAAATA
1 ATTATAAACAAAAAATA
16506077 A
1 A
16506078 GTGTTAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (17 bp):
ATTATAAACAAAAAATA
Found at i:16507146 original size:19 final size:17
Alignment explanation
Indices: 16507122--16507159 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
16507112 CATATTTGAG
16507122 TTATATATTTTATTAATAT
1 TTATATATTTT-TTAA-AT
16507141 TTATATATTTTTTAAAT
1 TTATATATTTTTTAAAT
16507158 TT
1 TT
16507160 TAATTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATATATTTTTTAAAT
Found at i:16508227 original size:20 final size:21
Alignment explanation
Indices: 16508211--16508258 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
16508201 TTTTATATGT
16508211 AAAATCAT-TTAAATATATTA
1 AAAATCATATTAAATATATTA
16508231 AAAATCATATTAAAATAATATATA
1 AAAATCATATT-AAAT-ATAT-TA
16508255 AAAA
1 AAAA
16508259 ATTAAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
21 2 0.08
22 4 0.17
23 4 0.17
24 6 0.25
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATCATATTAAATATATTA
Found at i:16509077 original size:24 final size:24
Alignment explanation
Indices: 16509050--16509097 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
16509040 ATTAATCCTC
16509050 ATTTCTATTTTTGTAGATTTTTAA
1 ATTTCTATTTTTGTAGATTTTTAA
16509074 ATTTCTATTTTTGTAGATTTTTAA
1 ATTTCTATTTTTGTAGATTTTTAA
16509098 TGGATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.62
Consensus pattern (24 bp):
ATTTCTATTTTTGTAGATTTTTAA
Found at i:16509720 original size:13 final size:14
Alignment explanation
Indices: 16509694--16509722 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16509684 TATATTTATA
16509694 TAATTATAATATTT
1 TAATTATAATATTT
16509708 TAATTAT-ATATTT
1 TAATTATAATATTT
16509721 TA
1 TA
16509723 TTAGAGTGGC
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:16522130 original size:22 final size:21
Alignment explanation
Indices: 16522105--16522145 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
16522095 AGAATAATAA
16522105 TTTTTAAAAAAATAAAAAAGAG
1 TTTTTAAAAAAA-AAAAAAGAG
**
16522127 TTTTTGCAAAAAAAAAAAG
1 TTTTTAAAAAAAAAAAAAG
16522146 TGAGATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (21 bp):
TTTTTAAAAAAAAAAAAAGAG
Found at i:16527426 original size:44 final size:44
Alignment explanation
Indices: 16527321--16527411 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
16527311 CACACACACT
16527321 ACCAGCTATAAACCAAAATACCTAAAACCCATCTACCACCAACC
1 ACCAGCTATAAACCAAAATACCTAAAACCCATCTACCACCAACC
*
16527365 ACCAGCTATAAACCAAAATACCTAAAACCCATTTACCACCAACC
1 ACCAGCTATAAACCAAAATACCTAAAACCCATCTACCACCAACC
16527409 ACC
1 ACC
16527412 TTCTTTCCCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.45, C:0.38, G:0.02, T:0.14
Consensus pattern (44 bp):
ACCAGCTATAAACCAAAATACCTAAAACCCATCTACCACCAACC
Found at i:16528529 original size:2 final size:2
Alignment explanation
Indices: 16528517--16528557 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
16528507 ACAAAAAGAA
*
16528517 AG AG AG TG AG 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 AG AG AG AG AG A
16528558 AAATAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
AG
Found at i:16528818 original size:18 final size:20
Alignment explanation
Indices: 16528797--16528837 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
16528787 ATGTTTGAAA
16528797 AATAAAAATAA-T-ATTAAT
1 AATAAAAATAAGTAATTAAT
16528815 AAT--AAATAAGTAATTAAT
1 AATAAAAATAAGTAATTAAT
16528833 AATAA
1 AATAA
16528838 TTAATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
16 6 0.32
17 1 0.05
18 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AATAAAAATAAGTAATTAAT
Found at i:16529993 original size:8 final size:8
Alignment explanation
Indices: 16529989--16530068 Score: 72
Period size: 8 Copynumber: 9.5 Consensus size: 8
16529979 AAAAAAATCA
*
16529989 AAAAAATC
1 AAAAAATT
16529997 AAAAAAATT
1 A-AAAAATT
16530006 AAAAAAAGTT
1 -AAAAAA-TT
16530016 AAAAAATT
1 AAAAAATT
16530024 AAAAAA-T
1 AAAAAATT
**
16530031 ATTTAAATT
1 A-AAAAATT
16530040 AAAAAATT
1 AAAAAATT
*
16530048 AAAAAATC
1 AAAAAATT
16530056 AAAAAATT
1 AAAAAATT
16530064 GAAAA
1 -AAAA
16530069 CAAAAAAAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
7 2 0.03
8 31 0.53
9 23 0.39
10 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (8 bp):
AAAAAATT
Found at i:16530009 original size:16 final size:16
Alignment explanation
Indices: 16529981--16530076 Score: 56
Period size: 18 Copynumber: 5.9 Consensus size: 16
16529971 TCTTAACAAA
*
16529981 AAAAATCAAAAAAATCAA
1 AAAAATCAAAAAAAT--T
*
16529999 AAAAATTAAAAAAAGTT
1 AAAAATCAAAAAAA-TT
*
16530016 AAAAAATTAAAAAATATT
1 -AAAAATCAAAAAA-ATT
* *
16530034 -TAAAT-TAAAAAATT
1 AAAAATCAAAAAAATT
16530048 AAAAAATC-AAAAAATT
1 -AAAAATCAAAAAAATT
*
16530064 GAAAA-CAAAAAAA
1 AAAAATCAAAAAAA
16530077 GAAAAACCAC
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
14 4 0.06
15 15 0.23
16 16 0.25
18 28 0.43
19 2 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAAATCAAAAAAATT
Found at i:16530017 original size:10 final size:9
Alignment explanation
Indices: 16529979--16530053 Score: 70
Period size: 9 Copynumber: 8.7 Consensus size: 9
16529969 TTTCTTAACA
*
16529979 AAAAAAATC
1 AAAAAAATT
*
16529988 AAAAAAATC
1 AAAAAAATT
16529997 AAAAAAATT
1 AAAAAAATT
16530006 AAAAAAAGTT
1 AAAAAAA-TT
16530016 -AAAAAATT
1 AAAAAAATT
16530024 AAAAAATATT
1 AAAAAA-ATT
*
16530034 ---TAAATT
1 AAAAAAATT
16530040 -AAAAAATT
1 AAAAAAATT
16530048 AAAAAA
1 AAAAAA
16530054 TCAAAAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
6 3 0.05
7 2 0.04
8 7 0.12
9 40 0.70
10 5 0.09
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (9 bp):
AAAAAAATT
Found at i:16530590 original size:12 final size:12
Alignment explanation
Indices: 16530573--16530605 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
16530563 ATGATCATGC
16530573 ATCAACATAAAT
1 ATCAACATAAAT
*
16530585 ATCAACACAAAT
1 ATCAACATAAAT
16530597 ATCAACATA
1 ATCAACATA
16530606 TGGGATGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATCAACATAAAT
Found at i:16535555 original size:18 final size:17
Alignment explanation
Indices: 16535527--16535568 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
16535517 AGTCTTTGAG
* *
16535527 AAAAGAGTTTAGGAAAA
1 AAAAAAGTTTAAGAAAA
16535544 AAAGAAAGTTTAAGAAAA
1 AAA-AAAGTTTAAGAAAA
16535562 AAAAAAG
1 AAAAAAG
16535569 GATAAGAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (17 bp):
AAAAAAGTTTAAGAAAA
Found at i:16535574 original size:17 final size:18
Alignment explanation
Indices: 16535539--16535576 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
16535529 AAGAGTTTAG
**
16535539 GAAAAAAAGAAAGTTTAA
1 GAAAAAAAGAAAGGATAA
16535557 GAAAAAAA-AAAGGATAA
1 GAAAAAAAGAAAGGATAA
16535574 GAA
1 GAA
16535577 TCTCCCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (18 bp):
GAAAAAAAGAAAGGATAA
Found at i:16535651 original size:12 final size:12
Alignment explanation
Indices: 16535634--16535675 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
16535624 AGAAAAGTTT
16535634 GAAAAAAGAAAG
1 GAAAAAAGAAAG
16535646 GAAAAATAGAAA-
1 GAAAAA-AGAAAG
16535658 G-AAAAAGAAAG
1 GAAAAAAGAAAG
16535669 AGAAAAA
1 -GAAAAA
16535676 GATAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 8 0.31
13 9 0.35
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
GAAAAAAGAAAG
Found at i:16535676 original size:12 final size:12
Alignment explanation
Indices: 16535636--16535677 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
16535626 AAAAGTTTGA
16535636 AAAAAGAAAG-G
1 AAAAAGAAAGAG
*
16535647 AAAAATAGAA-AG
1 AAAAAGA-AAGAG
16535659 AAAAAGAAAGAG
1 AAAAAGAAAGAG
16535671 AAAAAGA
1 AAAAAGA
16535678 TAAAAAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:16536167 original size:35 final size:35
Alignment explanation
Indices: 16536128--16536204 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
16536118 ATTATCTTTC
* * *
16536128 AACTTGCAACTCAGTTTC-ATTCATTTTTATTCTCT
1 AACTTGCAACTCAATCTCTA-TCATCTTTATTCTCT
16536163 AACTTGCAACTCAATCTCTATCATCTTTATTCTCT
1 AACTTGCAACTCAATCTCTATCATCTTTATTCTCT
*
16536198 GACTTGC
1 AACTTGC
16536205 CTCTTAGCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 36 0.97
36 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.44
Consensus pattern (35 bp):
AACTTGCAACTCAATCTCTATCATCTTTATTCTCT
Found at i:16536540 original size:40 final size:40
Alignment explanation
Indices: 16536416--16536544 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 40
16536406 AAAAAAAAAA
* * * * *
16536416 CAAAACCTCAGATTTTTAAGTGATTTTCGAAGACTTTCGAG
1 CAAAACCTCAGA-TTTTAAATGATTTTCAAAAACCTCCGAG
* * *
16536457 CAAAACCTTAAATTTTGAACAT--TTTTCAAAAACCTGC-AGG
1 CAAAACCTCAGATTTT-AA-ATGATTTTCAAAAACCTCCGA-G
* *
16536497 CAAAACCTCAGATTTTAAATGATTTCCAAATACCTCCGAG
1 CAAAACCTCAGATTTTAAATGATTTTCAAAAACCTCCGAG
16536537 CAAAACCT
1 CAAAACCT
16536545 TATATTTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 51 0.73
41 13 0.19
42 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (40 bp):
CAAAACCTCAGATTTTAAATGATTTTCAAAAACCTCCGAG
Found at i:16536728 original size:49 final size:47
Alignment explanation
Indices: 16536620--16536740 Score: 129
Period size: 48 Copynumber: 2.5 Consensus size: 47
16536610 CATAATGCTT
* * * *
16536620 TAAATTTTTAAAGTTTTAAAGCCTTTGATTTGAGGAGCCTTTTTTGA
1 TAAAATTTTAAAGTTTCAAAGCCTTTGATTTGAGGAGCCTATTTTCA
*
16536667 TAAAATCTTTAAACTTTCAAAGCCTTT-ATTTATGAGGAG-CTATTTTCA
1 TAAAAT-TTTAAAGTTTCAAAGCCTTTGA-TT-TGAGGAGCCTATTTTCA
*
16536715 TAAAAGATTTTAAAGTTTCAAGGCCT
1 T-AAA-ATTTTAAAGTTTCAAAGCCT
16536741 CTGTTTAGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
47 6 0.10
48 28 0.45
49 26 0.42
50 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (47 bp):
TAAAATTTTAAAGTTTCAAAGCCTTTGATTTGAGGAGCCTATTTTCA
Found at i:16537295 original size:20 final size:19
Alignment explanation
Indices: 16537254--16537296 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
16537244 GGAGTTTTTT
* *
16537254 AAAAATTAAAAAATTCTAA
1 AAAAATAAAAAAATTCCAA
*
16537273 AAAAATAAAGAAAATTCCCA
1 AAAAATAAA-AAAATTCCAA
16537293 AAAA
1 AAAA
16537297 GAAAACAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAATAAAAAAATTCCAA
Found at i:16538888 original size:13 final size:13
Alignment explanation
Indices: 16538870--16538894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16538860 AAAAAAAAGC
16538870 AAAAATATTTTTA
1 AAAAATATTTTTA
16538883 AAAAATATTTTT
1 AAAAATATTTTT
16538895 GGCCGAATGC
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):
AAAAATATTTTTA
Found at i:16539638 original size:6 final size:6
Alignment explanation
Indices: 16539627--16539685 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
16539617 TGTCGAACTA
* * * *
16539627 AAAAAT AAAAAT AAAAAT AAAGAT -AAAAT AAATAAT AATAAG AATAA-
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT
16539674 AAAAAT AAAAAT
1 AAAAAT AAAAAT
16539686 TTCAAAGATG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 8 0.18
6 32 0.71
7 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:16539654 original size:11 final size:12
Alignment explanation
Indices: 16539627--16539685 Score: 59
Period size: 11 Copynumber: 5.0 Consensus size: 12
16539617 TGTCGAACTA
16539627 AAAAATAAAAAT
1 AAAAATAAAAAT
*
16539639 AAAAATAAAGAT
1 AAAAATAAAAAT
16539651 -AAAATAAATAAT
1 AAAAATAAA-AAT
* * *
16539663 AATAAGAATAA-
1 AAAAATAAAAAT
16539674 AAAAATAAAAAT
1 AAAAATAAAAAT
16539686 TTCAAAGATG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
11 16 0.44
12 15 0.42
13 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:16539661 original size:21 final size:20
Alignment explanation
Indices: 16539633--16539685 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
16539623 ACTAAAAAAT
16539633 AAAAATAAAAATAA-AGATAA
1 AAAAATAAAAATAAGA-ATAA
*
16539653 AATAAATAATAATAAGAATAA
1 AA-AAATAAAAATAAGAATAA
16539674 AAAAATAAAAAT
1 AAAAATAAAAAT
16539686 TTCAAAGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 11 0.38
21 17 0.59
22 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAAATAAAAATAAGAATAA
Found at i:16539678 original size:24 final size:23
Alignment explanation
Indices: 16539626--16539685 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
16539616 GTGTCGAACT
*
16539626 AAAAAATAAAAATAAAAATAAAG
1 AAAAAATAAAAATAAAAAGAAAG
* *
16539649 ATAAAATAAATAATAATAAGAATA-
1 AAAAAATAAA-AATAAAAAGAA-AG
16539673 AAAAAATAAAAAT
1 AAAAAATAAAAAT
16539686 TTCAAAGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 12 0.39
24 18 0.58
25 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (23 bp):
AAAAAATAAAAATAAAAAGAAAG
Found at i:16540078 original size:3 final size:3
Alignment explanation
Indices: 16540072--16540124 Score: 61
Period size: 3 Copynumber: 16.7 Consensus size: 3
16540062 TTAGAAAAAA
* *
16540072 AAT AAT AAT ACT AAT AGT AAT AAT AATT AAT AAAT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT -AAT AAT AAT AAT AA-T
16540120 AAT AA
1 AAT AA
16540125 ATACAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 34 0.79
4 9 0.21
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:16540104 original size:7 final size:7
Alignment explanation
Indices: 16540092--16540163 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
16540082 CTAATAGTAA
16540092 TAATAAT
1 TAATAAT
*
16540099 TAATAAA
1 TAATAAT
16540106 TAATAA-
1 TAATAAT
16540112 TAATAAT
1 TAATAAT
*
16540119 TAATAAA
1 TAATAAT
*
16540126 TACAAAAT
1 TA-ATAAT
* *
16540134 AAAT-TT
1 TAATAAT
16540140 TCAATAA-
1 T-AATAAT
16540147 TAATAAT
1 TAATAAT
*
16540154 TTATAAT
1 TAATAAT
16540161 TAA
1 TAA
16540164 AATGAGGGAT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
6 12 0.24
7 33 0.67
8 4 0.08
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (7 bp):
TAATAAT
Found at i:16540112 original size:20 final size:20
Alignment explanation
Indices: 16540072--16540127 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
16540062 TTAGAAAAAA
* *
16540072 AATAATAA-TACT-AATAGT
1 AATAATAATTAATAAATAAT
16540090 AATAATAATTAATAAATAAT
1 AATAATAATTAATAAATAAT
16540110 AATAATAATTAATAAATA
1 AATAATAATTAATAAATA
16540128 CAAAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.24
19 3 0.09
20 23 0.68
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AATAATAATTAATAAATAAT
Found at i:16548245 original size:46 final size:46
Alignment explanation
Indices: 16548181--16548341 Score: 202
Period size: 46 Copynumber: 3.5 Consensus size: 46
16548171 TCAAGGCTTA
* * *
16548181 TAATGAAAAGTGCCTTTCAATTTGACTTTTAAAATTGTCAAACCTC
1 TAATGAAAAGAGCCTTTCAATTTGATTTTTAAAATTGTCAAGCCTC
* *
16548227 TAAT-AAAATGAGCCTTTCAGTTTGATTTTTAAAATTGTCAAGCTTC
1 TAATGAAAA-GAGCCTTTCAATTTGATTTTTAAAATTGTCAAGCCTC
* * *
16548273 TAATGAGAAA-AGCCCTTT-AGTTTGATTTTTAAAGTTGTCAAGTCTC
1 TAATGA-AAAGAG-CCTTTCAATTTGATTTTTAAAATTGTCAAGCCTC
16548319 TAATGAAAAGAGCCTTTCAATTT
1 TAATGAAAAGAGCCTTTCAATTT
16548342 AAATTTCTTA
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
45 12 0.12
46 79 0.79
47 6 0.06
48 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (46 bp):
TAATGAAAAGAGCCTTTCAATTTGATTTTTAAAATTGTCAAGCCTC
Found at i:16548255 original size:92 final size:91
Alignment explanation
Indices: 16548160--16548337 Score: 218
Period size: 92 Copynumber: 1.9 Consensus size: 91
16548150 TTTAGATTAA
*
16548160 TTTTAAAAGTT-TCAAGGCTTATAAT-GAAAAGTGCCTTTCAATTTGACTTTTAAAATTGTCAAA
1 TTTTAAAA-TTGTCAA-GCTTATAATAGAAAAG-CCCTTT-AATTTGACTTTTAAAATTGTCAAA
16548223 CCTCTAAT-AAAATGAGCCTTTCAGTTTGAT
62 CCTCTAATGAAAA-GAGCCTTTCAGTTTGAT
* * * * **
16548253 TTTTAAAATTGTCAAGCTTCTAATGAGAAAAGCCCTTTAGTTTGATTTTTAAAGTTGTCAAGTCT
1 TTTTAAAATTGTCAAGCTTATAAT-AGAAAAGCCCTTTAATTTGACTTTTAAAATTGTCAAACCT
16548318 CTAATGAAAAGAGCCTTTCA
65 CTAATGAAAAGAGCCTTTCA
16548338 ATTTAAATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
92 47 0.64
93 21 0.28
94 6 0.08
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (91 bp):
TTTTAAAATTGTCAAGCTTATAATAGAAAAGCCCTTTAATTTGACTTTTAAAATTGTCAAACCTC
TAATGAAAAGAGCCTTTCAGTTTGAT
Found at i:16554601 original size:62 final size:62
Alignment explanation
Indices: 16554483--16554614 Score: 171
Period size: 62 Copynumber: 2.1 Consensus size: 62
16554473 AAATTGAAGT
* * * *
16554483 GGATTATT-GAAGGCGTTTTTAGCCATAAATGCCTTGAATAATCCCATTAAATTTTTTGTAAA
1 GGATTATTCGAAGGCGTTTCTAGCAAAAAATGCCTTGAATAATCCCATCAAATTTTTT-TAAA
* *
16554545 GGATTATTCGAA-GCGTTTCTAGCAAAAAATGCCTTGAATAATCCCCTCCAAATTTTTTT-TA
1 GGATTATTCGAAGGCGTTTCTAGCAAAAAATGCCTTGAATAATCCCAT-CAAATTTTTTTAAA
16554606 GGATTATTC
1 GGATTATTC
16554615 AAGACATTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
61 10 0.16
62 40 0.65
63 12 0.19
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (62 bp):
GGATTATTCGAAGGCGTTTCTAGCAAAAAATGCCTTGAATAATCCCATCAAATTTTTTTAAA
Found at i:16558026 original size:144 final size:144
Alignment explanation
Indices: 16557766--16558055 Score: 580
Period size: 144 Copynumber: 2.0 Consensus size: 144
16557756 GTGGGACGGC
16557766 GACGTGTACGCCGAGATCAGGAAAGGGTTGTATCCGGAGCTTTGTGCCAAGCTTGGATTGACCAC
1 GACGTGTACGCCGAGATCAGGAAAGGGTTGTATCCGGAGCTTTGTGCCAAGCTTGGATTGACCAC
16557831 CAAAGCGTATGCTACACCGAGGCTTTGATTAATGGTTTTTACTATTTGAATAATCGAATGTTGTT
66 CAAAGCGTATGCTACACCGAGGCTTTGATTAATGGTTTTTACTATTTGAATAATCGAATGTTGTT
16557896 TTTAATTTAAAACA
131 TTTAATTTAAAACA
16557910 GACGTGTACGCCGAGATCAGGAAAGGGTTGTATCCGGAGCTTTGTGCCAAGCTTGGATTGACCAC
1 GACGTGTACGCCGAGATCAGGAAAGGGTTGTATCCGGAGCTTTGTGCCAAGCTTGGATTGACCAC
16557975 CAAAGCGTATGCTACACCGAGGCTTTGATTAATGGTTTTTACTATTTGAATAATCGAATGTTGTT
66 CAAAGCGTATGCTACACCGAGGCTTTGATTAATGGTTTTTACTATTTGAATAATCGAATGTTGTT
16558040 TTTAATTTAAAACA
131 TTTAATTTAAAACA
16558054 GA
1 GA
16558056 AGATTTGAAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 146 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (144 bp):
GACGTGTACGCCGAGATCAGGAAAGGGTTGTATCCGGAGCTTTGTGCCAAGCTTGGATTGACCAC
CAAAGCGTATGCTACACCGAGGCTTTGATTAATGGTTTTTACTATTTGAATAATCGAATGTTGTT
TTTAATTTAAAACA
Found at i:16565697 original size:1 final size:1
Alignment explanation
Indices: 16565691--16565715 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
16565681 TCTCAAACCC
16565691 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
16565716 CCAGATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16567418 original size:25 final size:25
Alignment explanation
Indices: 16567384--16567433 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
16567374 AACTGGCAAC
16567384 AATACAGCAGCAGTGAAATAAACTA
1 AATACAGCAGCAGTGAAATAAACTA
* *
16567409 AATATAGCAGCAGTGAAGTAAACTA
1 AATACAGCAGCAGTGAAATAAACTA
16567434 GAAGTAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (25 bp):
AATACAGCAGCAGTGAAATAAACTA
Found at i:16568777 original size:16 final size:17
Alignment explanation
Indices: 16568753--16568789 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
16568743 TAATTATATA
16568753 TAAATTTAATATTTTAT
1 TAAATTTAATATTTTAT
*
16568770 TAAA-TTAATTTTTTAT
1 TAAATTTAATATTTTAT
16568786 TAAA
1 TAAA
16568790 ATATTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAATTTAATATTTTAT
Found at i:16568820 original size:27 final size:27
Alignment explanation
Indices: 16568758--16568834 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 27
16568748 ATATATAAAT
* **
16568758 TTAATATTTTATTAAATTAAT-TTTTTA
1 TTAATATTATATTAAA-TAATAAATTTA
16568785 TTAA-A--ATATTAAATAATAAATTTA
1 TTAATATTATATTAAATAATAAATTTA
*
16568809 TTAATATTATATATAATTAAGTAAAT
1 TTAATATTATAT-TAAATAA-TAAAT
16568835 AATTAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
23 4 0.10
24 15 0.38
25 1 0.03
26 1 0.03
27 8 0.20
28 6 0.15
29 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TTAATATTATATTAAATAATAAATTTA
Found at i:16571541 original size:10 final size:10
Alignment explanation
Indices: 16571526--16571550 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16571516 TCAAATCAAA
16571526 ATCCAGCTTG
1 ATCCAGCTTG
16571536 ATCCAGCTTG
1 ATCCAGCTTG
16571546 ATCCA
1 ATCCA
16571551 TCCAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (10 bp):
ATCCAGCTTG
Found at i:16573472 original size:16 final size:15
Alignment explanation
Indices: 16573432--16573477 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
16573422 TTTTTTTATA
*
16573432 TAAAAAAGTAAAAAT
1 TAAAAAATTAAAAAT
*
16573447 TAAAAAATTACAAAT
1 TAAAAAATTAAAAAT
*
16573462 TACAAATATTAAAAAT
1 TA-AAAAATTAAAAAT
16573478 CAAATTTCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (15 bp):
TAAAAAATTAAAAAT
Found at i:16573905 original size:20 final size:21
Alignment explanation
Indices: 16573880--16573921 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
16573870 TTTAAATATT
16573880 TATTT-AAAAATAATATTTTA
1 TATTTAAAAAATAATATTTTA
16573900 TATTTAAAAAATAATATTTTA
1 TATTTAAAAAATAATATTTTA
16573921 T
1 T
16573922 TAATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTAAAAAATAATATTTTA
Found at i:16574002 original size:16 final size:15
Alignment explanation
Indices: 16573983--16574022 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
16573973 AAAATAAAAA
16573983 AAATTTAAATTAAATC
1 AAATTTAAATTAAA-C
*
16573999 AAATTTAAATTTAAC
1 AAATTTAAATTAAAC
*
16574014 AAATATAAA
1 AAATTTAAA
16574023 ATCGAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTTAAATTAAAC
Found at i:16591230 original size:39 final size:38
Alignment explanation
Indices: 16591115--16591284 Score: 216
Period size: 39 Copynumber: 4.4 Consensus size: 38
16591105 TAGAGGCTTA
* * *
16591115 ACAACTTTAAAAATAAATGTTCCTCATAACAGAGGCAT
1 ACAACTTTAAAAATAAAAGCTCCTCATAACAGAGGCAC
*
16591153 ACAACTTTAAAAATAAAAGCTCTTCATAACTA-AGGCAC
1 ACAACTTTAAAAATAAAAGCTCCTCATAAC-AGAGGCAC
*
16591191 ACAACTTTAAAAATAAAAGGCTCCTCATAATAGAGGCAC
1 ACAACTTTAAAAATAAAA-GCTCCTCATAACAGAGGCAC
* * * *
16591230 ATAACTTAAAAAATGAAAGTTCCTCCATAACAGAGGCAC
1 ACAACTTTAAAAATAAAAGCTCCT-CATAACAGAGGCAC
*
16591269 ACAATTTTAAAAATAA
1 ACAACTTTAAAAATAA
16591285 TGGCTCATAA
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 56 0.50
39 57 0.50
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.24
Consensus pattern (38 bp):
ACAACTTTAAAAATAAAAGCTCCTCATAACAGAGGCAC
Found at i:16591290 original size:77 final size:77
Alignment explanation
Indices: 16591115--16591290 Score: 223
Period size: 77 Copynumber: 2.3 Consensus size: 77
16591105 TAGAGGCTTA
* * * *
16591115 ACAACTTTAAAAATAAAT-GTTCCTCATAACAGAGGCATACAACTTTAAAAATAAAAGCTCTTCA
1 ACAACTTTAAAAATAAATGGCTCCTCATAACAGAGGCACACAACTTAAAAAATAAAAGCTCTCCA
16591179 TAACTAAGGCAC
66 TAACTAAGGCAC
* * * * *
16591191 ACAACTTTAAAAATAAAAGGCTCCTCATAATAGAGGCACATAACTTAAAAAATGAAAGTTCCTCC
1 ACAACTTTAAAAATAAATGGCTCCTCATAACAGAGGCACACAACTTAAAAAATAAAAGCT-CTCC
16591256 ATAAC-AGAGGCAC
65 ATAACTA-AGGCAC
*
16591269 ACAATTTTAAAAAT-AATGGCTC
1 ACAACTTTAAAAATAAATGGCTC
16591291 ATAAAAGTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
76 17 0.20
77 42 0.49
78 27 0.31
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (77 bp):
ACAACTTTAAAAATAAATGGCTCCTCATAACAGAGGCACACAACTTAAAAAATAAAAGCTCTCCA
TAACTAAGGCAC
Found at i:16592412 original size:10 final size:9
Alignment explanation
Indices: 16592385--16592439 Score: 56
Period size: 9 Copynumber: 5.6 Consensus size: 9
16592375 TGAGTTTTAA
16592385 TTTTTTTTC
1 TTTTTTTTC
16592394 ATTCATTTTTTC
1 -TT--TTTTTTC
16592406 TCTTTTTTTCC
1 T-TTTTTTT-C
*
16592417 TTGTTTTTC
1 TTTTTTTTC
16592426 TTTTTTTTC
1 TTTTTTTTC
16592435 TTTTT
1 TTTTT
16592440 CTAAGTGTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 14 0.36
10 14 0.36
11 3 0.08
12 8 0.21
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:16599773 original size:14 final size:14
Alignment explanation
Indices: 16599754--16599780 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16599744 TATGAATGCA
16599754 ATGTATGAGAGATG
1 ATGTATGAGAGATG
16599768 ATGTATGAGAGAT
1 ATGTATGAGAGAT
16599781 AATATTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (14 bp):
ATGTATGAGAGATG
Found at i:16603352 original size:15 final size:15
Alignment explanation
Indices: 16603340--16603384 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
16603330 AGAAATATCA
16603340 ATAAATAAAATATAT
1 ATAAATAAAATATAT
16603355 ATAAATAAAA-ATAT
1 ATAAATAAAATATAT
*
16603369 ATTAAA-AAAAGATAT
1 A-TAAATAAAATATAT
16603384 A
1 A
16603385 AAAAACCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAATAAAATATAT
Found at i:16605182 original size:2 final size:2
Alignment explanation
Indices: 16605177--16605203 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16605167 AATCTCTTAA
16605177 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 A
16605204 AGAAAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16609973 original size:2 final size:2
Alignment explanation
Indices: 16609966--16609991 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16609956 ATCAAGGTTG
16609966 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
16609992 CCTAGTTGAG
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:16627603 original size:31 final size:31
Alignment explanation
Indices: 16627568--16627628 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
16627558 AATAACGACG
16627568 TTTTCTATAAAACG-CTGCTATATTAGCGGCA
1 TTTTCTATAAAACGTC-GCTATATTAGCGGCA
* *
16627599 TTTTCTATAAAATGTCGTTATATTAGCGGC
1 TTTTCTATAAAACGTCGCTATATTAGCGGC
16627629 GTTTGTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTTCTATAAAACGTCGCTATATTAGCGGCA
Found at i:16627657 original size:34 final size:34
Alignment explanation
Indices: 16627586--16627737 Score: 148
Period size: 34 Copynumber: 4.6 Consensus size: 34
16627576 AAAACGCTGC
* * *
16627586 TATATTAGCGGCATTT-TCTAT--AAAATGTCGT
1 TATATTAGCGGCGTTTGTATATGAAAAATATCGT
* ***
16627617 TATATTAGCGGCGTTTGTATTTGAAAAACGCCGT
1 TATATTAGCGGCGTTTGTATATGAAAAATATCGT
** * *
16627651 TATATTAGTAGCGTTTGTATCTGAAAAATATCGC
1 TATATTAGCGGCGTTTGTATATGAAAAATATCGT
* * *
16627685 TATATTAGTGACGTTTGTATATGAAAAATATCTT
1 TATATTAGCGGCGTTTGTATATGAAAAATATCGT
*
16627719 TATATTAGCGGTGTTTGTA
1 TATATTAGCGGCGTTTGTA
16627738 CCTTTGACAC
Statistics
Matches: 98, Mismatches: 20, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
31 15 0.15
32 3 0.03
34 80 0.82
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (34 bp):
TATATTAGCGGCGTTTGTATATGAAAAATATCGT
Found at i:16635761 original size:187 final size:186
Alignment explanation
Indices: 16635460--16637438 Score: 2272
Period size: 187 Copynumber: 10.6 Consensus size: 186
16635450 AAATTTACAG
* ** * * * *
16635460 GATTATTAAAGGCGT-TTTCCAATGAAAAATGCTTTCAATTTTTCACAACTCTAATTTTAATACA
1 GATTATTAAAGGCGTCTTT-CAGTGAAAAACACCTTCAATTTTTCACTACTCTAATTTTAAGACG
* * * * *
16635524 GTTAATGAAGACGTTTATTCTAGAAAAACGCCTTCATTAATTTCCTCTAATTTACGTACATAATA
65 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATA
*
16635589 ATTGAAGGCATTTTTTGAGAACAAAC-CCTTTCAATAATTTTCTCTTAAAATTTTTGA
130 ATTGAAGGCATTTTTTGAGAGCAAACGCC-TTCAATAATTTTCTCTTAAAATTTTTGA
* * * * *
16635646 GATTATTAAAGGCGTCTTTCAGTAAAAAAATACCTTTAATTTTTTA-TAACTTTAATTTTAAGAC
1 GATTATTAAAGGCGTCTTTCAGT-GAAAAACACCTTCAATTTTTCACT-ACTCTAATTTTAAGAC
* * ** *
16635710 GGTTAGTGAAGGTGTTTATTCTAGAAAACTGCCTTCACTAATTTTCTCTAATTTACATACATAAT
64 GGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAAT
* * *
16635775 AATTGAAGGCATTTTTTTGATGAACAAACGCCTTTAATAATTTTCTCTTAAAATTTTTGG
129 AATTGAAGGCA-TTTTTTGA-GAGCAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGA
* * * * * *
16635835 GATTATTAAAGACGTCTTCCAATGAAAAACGCCTTTAATTTTTCACAACTCTAATTTTAAGACGG
1 GATTATTAAAGGCGTCTTTCAGTGAAAAACACCTTCAATTTTTCACTACTCTAATTTTAAGACGG
* * * *
16635900 TTAATGAAGCCGTTTATTCTAGAAAAATGCCTTTACTAATTCCCTCTAATTTATGTACATAATAA
66 TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATAA
* * * **
16635965 TTGAAAGCATTTTTTAAGAGCAAAAGCCTTCAATAAATTCCCTCTTAAAATTTTTGA
131 TTGAAGGCATTTTTTGAGAGCAAACGCCTTCAAT-AATTTTCTCTTAAAATTTTTGA
* *
16636022 GATTATTAAAGGCGT-TTTCTAGTGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTGAA-AC
1 GATTATTAAAGGCGTCTTTC-AGTGAAAAACACCTTCAATTTTTCACTACTCTAATTTT-AAGAC
** * * * * * * *
16636085 AATTAGTGGAGGCATTTATTCTAGAAAAATGCTTTCACTAATTTCTTCTAATTTATGTATATAAT
64 GGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAAT
*
16636150 AATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAAATTCTCTCTTAAAATTTTTGA
129 AATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAAT-AATTTTCTCTTAAAATTTTTGA
* * * * * * *
16636209 GATTATTAAAGGTGTCTTTCAATGAAAAACGCATTTAATTTTTTACTACTCTAATTTTGAGACGG
1 GATTATTAAAGGCGTCTTTCAGTGAAAAACACCTTCAATTTTTCACTACTCTAATTTTAAGACGG
16636274 TTAGTGAAGGCGTTTATTCTA-AGAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATA
66 TTAGTGAAGGCGTTTATTCTAGA-AAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATA
* * * * * *
16636338 ATTGAAGGTATTTTTTTGAGAGCAAAGGCCTTTAATAAAATTTCTTTTAAAAATTTTTGG
130 ATTGAAGGCA-TTTTTTGAGAGCAAACGCCTTCAAT-AATTTTCTCTT-AAAATTTTTGA
* * * * * * *
16636398 GATTATTAAAAGCGTTTTTTAGTGAAAAATACCTTCAATTTTTCACAACTCTAATTTTAAGATGA
1 GATTATTAAAGGCGTCTTTCAGTGAAAAACACCTTCAATTTTTCACTACTCTAATTTTAAGACGG
* * * * *
16636463 TTAGTGAATGTGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTATGTATATAATAA
66 TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATAA
* ** *
16636528 TTGAAGGCATTTTTTTAGAATAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGG
131 TTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGA
* * * * * * * * *
16636584 GATTATTAAAAGCATTTTTC-GATGAAAAATACCTTGAATTTTTTACTACTTTAATTTTGAGACC
1 GATTATTAAAGGCGTCTTTCAG-TGAAAAACACCTTCAATTTTTCACTACTCTAATTTTAAGACG
* ** * * **
16636648 GTTAGTGGACACATTTATTCTAGAAAAATGCATTCACTAATTTTCTCTAATTTACGTACATAATA
65 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATA
* *** * * * *
16636713 ATTAAAGATGTTTTTTTAGAGCAAACGCCTTTAATAAATTCTCTCTTAAAATTTTTGG
130 ATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAAT-AATTTTCTCTTAAAATTTTTGA
** * * * *
16636771 GATTATTAAAGGTATTTTTCAGTGAAAAACGCCTTCAAATTTTCACTACTCTAATTTTAATACGG
1 GATTATTAAAGGCGTCTTTCAGTGAAAAACACCTTCAATTTTTCACTACTCTAATTTTAAGACGG
* * * *
16636836 TTAATGAAGGCGTTTATTATAGGAAAATGTCTTCACTAATTCCCTCTAATTTACGTACATAATAA
66 TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATAA
* * * * *
16636901 TTAAAGGCATTTTTTGAGAGCAACCACCTTCAATAA-TTCCTTCTTAAAATTTTTAA
131 TTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAATTTTC-TCTTAAAATTTTTGA
* * * *
16636957 GATTATTAAAGGCGTCTTCCAGT-AAGAAACACCTTCAATTTTTCATTACTCTAATTTTGAGACA
1 GATTATTAAAGGCGTCTTTCAGTGAA-AAACACCTTCAATTTTTCACTACTCTAATTTTAAGACG
* * * *
16637021 ATTAGTTG-AGGCATTTATTCTAAAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAAT
65 GTTAG-TGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAAT
* * * *
16637085 CATTGAAGGTATTTTTTGAGAGCAAACGCCTTCAATAAATTTCTTCATAAAATTTTTGA
129 AATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAATTTTC-TCTTAAAATTTTTGA
** * * * * * *
16637144 GATTATTAAAGGTATCTTCCAATGAAAAACGA-CTTAAATTTTTTACTACTATAATTTTGAGACG
1 GATTATTAAAGGCGTCTTTCAGTGAAAAAC-ACCTTCAATTTTTCACTACTCTAATTTTAAGACG
* * * * *
16637208 GTTAGTGAAAGTGTTTATTCTAGAAAAATGCCTTTACTAATTCTCTCTAATTTATGTACATAATA
65 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATA
* * * *
16637273 ATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAACAAATTCTCTCTTAAATTTTTTGG
130 ATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAA-TAATTTTCTCTTAAAATTTTTGA
* ** *
16637331 GATTATTAAAGGTGTCTTTCAGTGAAAAATGCCTTCAATTTTTCACTACTCTAATTTTGAA-ATG
1 GATTATTAAAGGCGTCTTTCAGTGAAAAACACCTTCAATTTTTCACTACTCTAATTTT-AAGACG
*
16637395 GTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCC
65 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCC
16637439 TTTTAAATAT
Statistics
Matches: 1523, Mismatches: 241, Indels: 57
0.84 0.13 0.03
Matches are distributed among these distances:
185 5 0.00
186 336 0.22
187 823 0.54
188 175 0.11
189 181 0.12
190 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (186 bp):
GATTATTAAAGGCGTCTTTCAGTGAAAAACACCTTCAATTTTTCACTACTCTAATTTTAAGACGG
TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATAA
TTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGA
Found at i:16636574 original size:562 final size:559
Alignment explanation
Indices: 16635460--16637438 Score: 2530
Period size: 562 Copynumber: 3.5 Consensus size: 559
16635450 AAATTTACAG
* * * * *
16635460 GATTATTAAAGGCGTTTTCCAATGAAAAATGCTTTCAATTTTTCACAACTCTAATTTT-AATACA
1 GATTATTAAAGGCATTTTCCAATGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTGAA-ACA
* * * * *
16635524 GTTAATGAAGACGTTTATTCTAGAAAAACGCCTTCATTAATTTC-CTCTAATTTACGTACATAAT
65 GTTAGTGAAGACATTTATTCTAGAAAAATGCTTTCACTAATTTCTCTCTAATTTACGTACATAAT
* *
16635588 AATTGAAGGCATTTTTTGAGAACAAAC-CCTTTCAAT-AATTTTCTCTTAAAATTTTTGAGATTA
130 AATTGAAGGCATTTTTTGAGAGCAAACGCC-TTCAATAAATTCTCTCTTAAAATTTTTGAGATTA
* * ** * * *
16635651 TTAAAGGCGTCTTTCAGTAAAAAAATACCTTTAATTTTTTA-TAACTTTAATTTTAAGACGGTTA
194 TTAAAGGTGTCTTTCAGT-GAAAAACGCCTTCAATTTTTCACT-ACTCTAATTTTAAGACGGTTA
* ** *
16635715 GTGAAGGTGTTTATTCTAGAAAACTGCCTTCACTAATTTTCTCTAATTTACATACATAATAATTG
257 GTGAAGGCGTTTATTCTAGAAAA-TGCCTTCACTAATTCCCTCTAATTTACGTACATAATAATTG
* * *
16635780 AAGGCATTTTTTTGATGAACAAACGCCTTTAATAATTTTCTCTTAAAATTTTTGGGATTATT-AA
321 AAGGCATTTTTTTGA-GAGCAAACGCCTTTAATAAATTTCTTTTAAAATTTTTGGGATTATTAAA
* * * * *
16635844 AGACGTCTTCCAATGAAAAACGCCTTTAATTTTTCACAACTCTAATTTTAAGACGGTTAATGAAG
385 AG-CGTCTTCCAGTGAAAAACACCTTCAATTTTTCACAACTCTAATTTTAAGACGATTAGTGAAG
* *
16635909 CCGTTTATTCTAGAAAAATGCCTTTACTAATTCCCTCTAATTTATGTACATAATAATTGAAAGCA
449 -CGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGAAGGCA
* **
16635974 TTTTTTAAGAGCAAAAGCCTTCAATAAATTCCCTCTTAAAATTTTTGA
513 TTTTTTAAGAGCAAACGCCTTCAAT-AATTTTCTCTTAAAATTTTTGA
* * * *
16636022 GATTATTAAAGGCGTTTTCTAGTGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTGAAACAA
1 GATTATTAAAGGCATTTTCCAATGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTGAAACAG
* * * *
16636087 TTAGTGGAGGCATTTATTCTAGAAAAATGCTTTCACTAATTTCT-TCTAATTTATGTATATAATA
66 TTAGTGAAGACATTTATTCTAGAAAAATGCTTTCACTAATTTCTCTCTAATTTACGTACATAATA
16636151 ATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAAATTCTCTCTTAAAATTTTTGAGATTATT
131 ATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAAATTCTCTCTTAAAATTTTTGAGATTATT
* * * * *
16636216 AAAGGTGTCTTTCAATGAAAAACGCATTTAATTTTTTACTACTCTAATTTTGAGACGGTTAGTGA
196 AAAGGTGTCTTTCAGTGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTAAGACGGTTAGTGA
16636281 AGGCGTTTATTCTAAGAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATAATTGAAGG
261 AGGCGTTTATTCT-AGAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATAATTGAAGG
* *
16636346 TATTTTTTTGAGAGCAAAGGCCTTTAATAAAATTTCTTTTAAAAATTTTTGGGATTATTAAAAGC
325 CATTTTTTTGAGAGCAAACGCCTTTAAT-AAATTTCTTTT-AAAATTTTTGGGATTATTAAAAGC
* ** * * *
16636411 GTTTTTTAGTGAAAAATACCTTCAATTTTTCACAACTCTAATTTTAAGATGATTAGTGAATGTGT
388 GTCTTCCAGTGAAAAACACCTTCAATTTTTCACAACTCTAATTTTAAGACGATTAGTGAA-GCGT
* *
16636476 TTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTATGTATATAATAATTGAAGGCATTTT
452 TTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGAAGGCATTTT
* ** *
16636541 TTTAGAATAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGG
517 TTAAGAGCAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGA
* * * ** * * * *
16636584 GATTATTAAAAGCATTTTTCGATGAAAAATACCTTGAATTTTTTACTACTTTAATTTTGAGACCG
1 GATTATTAAAGGCATTTTCCAATGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTGAAACAG
* * *
16636649 TTAGTGGACACATTTATTCTAGAAAAATGCATTCACTAATTT-TCTCTAATTTACGTACATAATA
66 TTAGTGAAGACATTTATTCTAGAAAAATGCTTTCACTAATTTCTCTCTAATTTACGTACATAATA
* *** * * *
16636713 ATTAAAGATGTTTTTTTAGAGCAAACGCCTTTAATAAATTCTCTCTTAAAATTTTTGGGATTATT
131 ATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAAATTCTCTCTTAAAATTTTTGAGATTATT
* * * * *
16636778 AAAGGTATTTTTCAGTGAAAAACGCCTTCAAATTTTCACTACTCTAATTTTAATACGGTTAATGA
196 AAAGGTGTCTTTCAGTGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTAAGACGGTTAGTGA
* * *
16636843 AGGCGTTTATTATAGGAAAATGTCTTCACTAATTCCCTCTAATTTACGTACATAATAATTAAAGG
261 AGGCGTTTATTCTA-GAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATAATTGAAGG
* * * * ** *
16636908 CA-TTTTTTGAGAGCAACCACCTTCAAT-AATTCCTTCTTAAAATTTTTAAGATTATTAAAGGCG
325 CATTTTTTTGAGAGCAAACGCCTTTAATAAATTTCTT-TTAAAATTTTTGGGATTATTAAAAGCG
** * * * *
16636971 TCTTCCAGT-AAGAAACACCTTCAATTTTTCATTACTCTAATTTTGAGACAATTAGTTGAGGCAT
389 TCTTCCAGTGAA-AAACACCTTCAATTTTTCACAACTCTAATTTTAAGACGATTAG-TGAAGCGT
* * *
16637035 TTATTCTAAAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATCATTGAAGGTATTTT
452 TTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGAAGGCATTTT
* * *
16637100 TTGAGAGCAAACGCCTTCAATAAATTTCTTCATAAAATTTTTGA
517 TTAAGAGCAAACGCCTTCAATAATTTTC-TCTTAAAATTTTTGA
* * * * * * *
16637144 GATTATTAAAGGTATCTTCCAATGAAAAACGACTTAAATTTTTTACTACTATAATTTTGAGACGG
1 GATTATTAAAGGCATTTTCCAATGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTGAAACAG
** *
16637209 TTAGTGAA-AGTGTTTATTCTAGAAAAATGCCTTT-ACTAA-TTCTCTCTAATTTATGTACATAA
66 TTAGTGAAGA-CATTTATTCTAGAAAAATG-CTTTCACTAATTTCTCTCTAATTTACGTACATAA
* * *
16637271 TAATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAACAAATTCTCTCTTAAATTTTTTGGGATTA
129 TAATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAAATTCTCTCTTAAAATTTTTGAGATTA
* *
16637336 TTAAAGGTGTCTTTCAGTGAAAAATGCCTTCAATTTTTCACTACTCTAATTTTGAA-ATGGTTAG
194 TTAAAGGTGTCTTTCAGTGAAAAACGCCTTCAATTTTTCACTACTCTAATTTT-AAGACGGTTAG
*
16637400 TGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCC
258 TGAAGGCGTTTATTCTAG-AAAATGCCTTCACTAATTCC
16637439 TTTTAAATAT
Statistics
Matches: 1236, Mismatches: 160, Indels: 44
0.86 0.11 0.03
Matches are distributed among these distances:
558 2 0.00
559 162 0.13
560 266 0.22
561 43 0.03
562 556 0.45
563 202 0.16
564 5 0.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (559 bp):
GATTATTAAAGGCATTTTCCAATGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTGAAACAG
TTAGTGAAGACATTTATTCTAGAAAAATGCTTTCACTAATTTCTCTCTAATTTACGTACATAATA
ATTGAAGGCATTTTTTGAGAGCAAACGCCTTCAATAAATTCTCTCTTAAAATTTTTGAGATTATT
AAAGGTGTCTTTCAGTGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTAAGACGGTTAGTGA
AGGCGTTTATTCTAGAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATAATTGAAGGC
ATTTTTTTGAGAGCAAACGCCTTTAATAAATTTCTTTTAAAATTTTTGGGATTATTAAAAGCGTC
TTCCAGTGAAAAACACCTTCAATTTTTCACAACTCTAATTTTAAGACGATTAGTGAAGCGTTTAT
TCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGAAGGCATTTTTTAA
GAGCAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGA
Found at i:16636948 original size:373 final size:372
Alignment explanation
Indices: 16635459--16637468 Score: 2399
Period size: 373 Copynumber: 5.4 Consensus size: 372
16635449 AAAATTTACA
* * * * *
16635459 GGATTATTAAAGGCGT-TTTCCAATGAAAAATGCTTTCAATTTTTCACAACTCTAATTTTAATAC
1 GGATTATTAAAGGCGTCTTT-CAATGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTGAGAC
* * * * * *
16635523 AGTTAATGAAGACGTTTATTCTAGAAAAACGCCTTCATTAATTTCCTCTAATTTACGTACATAAT
65 GGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAAT
* * *
16635588 AATTGAAGGCATTTTTTGAGAACAAAC-CCTTTCAATAATTTTCTCTTAAAATTTTTGAGATTAT
130 AATTGAAGGTATTTTTTGAGAGCAAACGCCTTT-AATAAATTTCTCTTAAAATTTTTGAGATTAT
** * * ** * *
16635652 TAAAGGCGTCTTTCAGTAAAAAAATACCTTTAATTTTTTA-TAACTTTAATTTTAAGACGGTTAG
194 TAAAGGTATTTTTCAGT-GAAAAACGCCTTCAATTTTTTACT-ACTCTAATTTTAAGACGGTTAG
* ** **
16635716 TGAAGGTGTTTATTCTAGAAAACTGCCTTCACTAATTTTCTCTAATTTACATACATAATAATTGA
257 TGAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGA
* * *
16635781 AGGCATTTTTTTGATGAACAAACGCCTTTAATAATTTTCTCTTAAAATTTTTG
322 AGGCA-TTTTTTGA-GAGCAAACGCCTTCAATAATTCTCTCTTAAAATTTTTG
* * * * *
16635834 GGATTATTAAAGACGTCTTCCAATGAAAAACGCCTTTAATTTTTCACAACTCTAATTTTAAGACG
1 GGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTGAGACG
* * * *
16635899 GTTAATGAAGCCGTTTATTCTAGAAAAATGCCTTTACTAATTCCCTCTAATTTATGTACATAATA
66 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATA
* * * * * *
16635964 ATTGAAAGCATTTTTTAAGAGCAAAAGCCTTCAATAAATTCCCTCTTAAAATTTTTGAGATTATT
131 ATTGAAGGTATTTTTTGAGAGCAAACGCCTTTAATAAATT-TCTCTTAAAATTTTTGAGATTATT
** **
16636029 AAAGG-CGTTTTCTAGTGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTGAA-ACAATTAGT
195 AAAGGTATTTTTC-AGTGAAAAACGCCTTCAATTTTTTACTACTCTAATTTT-AAGACGGTTAGT
* ** * * * *
16636092 GGAGGCATTTATTCTAGAAAAATGCTTTCACTAATTTCTTCTAATTTATGTATATAATAATTGAA
258 GAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGAA
16636157 GGCATTTTTTGAGAGCAAACGCCTTCAATAAATTCTCTCTTAAAATTTTTG
323 GGCATTTTTTGAGAGCAAACGCCTTCAAT-AATTCTCTCTTAAAATTTTTG
* * * * *
16636208 AGATTATTAAAGGTGTCTTTCAATGAAAAACGCATTTAATTTTTTACTACTCTAATTTTGAGACG
1 GGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTGAGACG
16636273 GTTAGTGAAGGCGTTTATTCTA-AGAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAAT
66 GTTAGTGAAGGCGTTTATTCTAGA-AAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAAT
* * *
16636337 AATTGAAGGTATTTTTTTGAGAGCAAAGGCCTTTAATAAAATTTCTTTTAAAAATTTTTGGGATT
130 AATTGAAGGTA-TTTTTTGAGAGCAAACGCCTTTAAT-AAATTTCTCTT-AAAATTTTTGAGATT
** * * * *
16636402 ATTAAAAGCGT-TTTTT-AGTGAAAAATACCTTCAATTTTTCACAACTCTAATTTTAAGATGATT
192 ATT-AAAG-GTATTTTTCAGTGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTAAGACGGTT
* * *
16636465 AGTGAATGTGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTATGTATATAATAATT
255 AGTGAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATT
* ** *
16636530 GAAGGCATTTTTTTAGAATAAACGCCTTCAATAATTTTCTCTTAAAATTTTTG
320 GAAGGCATTTTTTGAGAGCAAACGCCTTCAATAATTCTCTCTTAAAATTTTTG
* * * * ** * * * *
16636583 GGATTATTAAAAGCATTTTTCGATGAAAAATACCTTGAATTTTTTACTACTTTAATTTTGAGACC
1 GGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTGAGACG
* ** * * **
16636648 GTTAGTGGACACATTTATTCTAGAAAAATGCATTCACTAATTTTCTCTAATTTACGTACATAATA
66 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATA
* * * * *
16636713 ATTAAAGATGTTTTTTTAGAGCAAACGCCTTTAATAAATTCTCTCTTAAAATTTTTGGGATTATT
131 ATTGAAGGTATTTTTTGAGAGCAAACGCCTTTAATAAATT-TCTCTTAAAATTTTTGAGATTATT
* * * *
16636778 AAAGGTATTTTTCAGTGAAAAACGCCTTCAAATTTTCACTACTCTAATTTTAATACGGTTAATGA
195 AAAGGTATTTTTCAGTGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTAAGACGGTTAGTGA
* * * * * *
16636843 AGGCGTTTATTATAGGAAAATGTCTTCACTAATTCCCTCTAATTTACGTACATAATAATTAAAGG
260 AGGTGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGAAGG
* * *
16636908 CATTTTTTGAGAGCAACCACCTTCAATAATTC-CTTCTTAAAATTTTTA
325 CATTTTTTGAGAGCAAACGCCTTCAATAATTCTC-TCTTAAAATTTTTG
* * * * *
16636956 AGATTATTAAAGGCGTCTTCCAGT-AAGAAACACCTTCAATTTTTCATTACTCTAATTTTGAGAC
1 GGATTATTAAAGGCGTCTTTCAATGAA-AAACGCCTTCAATTTTTCACTACTCTAATTTTGAGAC
** * * *
16637020 AATTAGTTG-AGGCATTTATTCTAAAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAA
65 GGTTAG-TGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAA
* * *
16637084 TCATTGAAGGTATTTTTTGAGAGCAAACGCCTTCAATAAATTTCTTCATAAAATTTTTGAGATTA
129 TAATTGAAGGTATTTTTTGAGAGCAAACGCCTTTAATAAATTTC-TCTTAAAATTTTTGAGATTA
* * * * * * *
16637149 TTAAAGGTATCTTCCAATGAAAAACGACTTAAATTTTTTACTACTATAATTTTGAGACGGTTAGT
193 TTAAAGGTATTTTTCAGTGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTAAGACGGTTAGT
* * *
16637214 GAAAGTGTTTATTCTAGAAAAATGCCTTTACTAATTCTCTCTAATTTATGTACATAATAATTGAA
258 GAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGAA
* *
16637279 GGCATTTTTTGAGAGCAAACGCCTTCAACAAATTCTCTCTTAAATTTTTTG
323 GGCATTTTTTGAGAGCAAACGCCTTCAA-TAATTCTCTCTTAAAATTTTTG
* * * * *
16637330 GGATTATTAAAGGTGTCTTTCAGTGAAAAATGCCTTCAATTTTTCACTACTCTAATTTTGAAATG
1 GGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTGAGACG
* * *
16637395 GTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCCTTTTAAATATT--GTACATAA
66 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCT-AAT-TTACGTACATAA
*
16637458 TTATTGAAGGT
129 TAATTGAAGGT
16637469 GGTTCTCTGC
Statistics
Matches: 1407, Mismatches: 199, Indels: 59
0.85 0.12 0.04
Matches are distributed among these distances:
371 2 0.00
372 14 0.01
373 471 0.33
374 309 0.22
375 411 0.29
376 191 0.14
377 4 0.00
378 5 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (372 bp):
GGATTATTAAAGGCGTCTTTCAATGAAAAACGCCTTCAATTTTTCACTACTCTAATTTTGAGACG
GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTACGTACATAATA
ATTGAAGGTATTTTTTGAGAGCAAACGCCTTTAATAAATTTCTCTTAAAATTTTTGAGATTATTA
AAGGTATTTTTCAGTGAAAAACGCCTTCAATTTTTTACTACTCTAATTTTAAGACGGTTAGTGAA
GGTGTTTATTCTAGAAAAATGCCTTCACTAATTCCCTCTAATTTATGTACATAATAATTGAAGGC
ATTTTTTGAGAGCAAACGCCTTCAATAATTCTCTCTTAAAATTTTTG
Found at i:16638010 original size:12 final size:12
Alignment explanation
Indices: 16637995--16638062 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
16637985 GAATCGTATA
16637995 CTGAATGGTTTG
1 CTGAATGGTTTG
* *
16638007 CTGAATGCTATTT
1 CTGAATGGT-TTG
16638020 CTGAATGGTTTG
1 CTGAATGGTTTG
* * * *
16638032 TTAAATAGTATTT
1 CTGAATGGT-TTG
*
16638045 TTGAATGGTTTG
1 CTGAATGGTTTG
16638057 CTGAAT
1 CTGAAT
16638063 AGTATTTTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
12 23 0.55
13 19 0.45
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.46
Consensus pattern (12 bp):
CTGAATGGTTTG
Found at i:16638027 original size:25 final size:25
Alignment explanation
Indices: 16637995--16638085 Score: 112
Period size: 25 Copynumber: 3.6 Consensus size: 25
16637985 GAATCGTATA
16637995 CTGAATGGTTTGCTGAAT-GCTATTT
1 CTGAATGGTTTGCTGAATAG-TATTT
* *
16638020 CTGAATGGTTTGTTAAATAGTATTT
1 CTGAATGGTTTGCTGAATAGTATTT
*
16638045 TTGAATGGTTTGCTGAATAGTATTT
1 CTGAATGGTTTGCTGAATAGTATTT
* * *
16638070 TTGAGTGATTTGCTGA
1 CTGAATGGTTTGCTGA
16638086 GGGGTGTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 57 0.98
26 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (25 bp):
CTGAATGGTTTGCTGAATAGTATTT
Found at i:16638793 original size:56 final size:55
Alignment explanation
Indices: 16638703--16638816 Score: 165
Period size: 56 Copynumber: 2.1 Consensus size: 55
16638693 TGCCTTTAAT
* * * *
16638703 AGGGCCACAAATACCTTTAATAATTCTCTCAATAAATTTTTATGAAAGATTATTGA
1 AGGGCCAAAAATACATTTAATAATCCCCTCAATAAATTTTTATGAAAGA-TATTGA
* *
16638759 AGGGCCAAAAATGCATTTAATAATCCCCTTAATAAATTTTTATGAAAGATATTGA
1 AGGGCCAAAAATACATTTAATAATCCCCTCAATAAATTTTTATGAAAGATATTGA
16638814 AGG
1 AGG
16638817 TATTTTTGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 9 0.17
56 43 0.83
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (55 bp):
AGGGCCAAAAATACATTTAATAATCCCCTCAATAAATTTTTATGAAAGATATTGA
Found at i:16638894 original size:62 final size:63
Alignment explanation
Indices: 16638808--16638948 Score: 191
Period size: 62 Copynumber: 2.3 Consensus size: 63
16638798 TTATGAAAGA
* *
16638808 TATTGAAGGTATTTTTGGTCAAAAACACCTTTAATAATCCT-TTCTAAATTTTTTT--AGAGGAT
1 TATTGAAGGTATTTTTGCTCAAAAACACCTTCAATAATCCTCTTC-AAATTTTTTTCAAG-GGAT
* *
16638870 TATTGAAGATATTTTTAGCT-AAAAACGCCTTCAATAATCCTCTTCAAATTTTTTTCAAGGGAT
1 TATTGAAGGTATTTTT-GCTCAAAAACACCTTCAATAATCCTCTTCAAATTTTTTTCAAGGGAT
16638933 TATTGAAGGTATTTTT
1 TATTGAAGGTATTTTT
16638949 TACCTTAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
62 44 0.63
63 24 0.34
64 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (63 bp):
TATTGAAGGTATTTTTGCTCAAAAACACCTTCAATAATCCTCTTCAAATTTTTTTCAAGGGAT
Found at i:16639151 original size:65 final size:63
Alignment explanation
Indices: 16639049--16639185 Score: 161
Period size: 65 Copynumber: 2.1 Consensus size: 63
16639039 TGAAGGCACT
* *
16639049 TTCAATAATCCCTTCCAAAATTTGTTGAATGAATTATTG-AAGACATTTTT-GACTAAAAATGCC
1 TTCAATAATCCCCTCCAAAATTTGTTGAATGAATTATTGAAAG-CATTTTTGGAC-AAAAACGCC
* * * *
16639112 TTCAATAATCCCCTCAACAAAATTTTTTGCATGGATTATTGAAAGTATTTTTGGACAAAAACGCC
1 TTCAATAATCCCCTC--CAAAATTTGTTGAATGAATTATTGAAAGCATTTTTGGACAAAAACGCC
*
16639177 TTTAATAAT
1 TTCAATAAT
16639186 ACCTTCAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
63 14 0.22
65 43 0.68
66 6 0.10
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (63 bp):
TTCAATAATCCCCTCCAAAATTTGTTGAATGAATTATTGAAAGCATTTTTGGACAAAAACGCC
Found at i:16639448 original size:108 final size:108
Alignment explanation
Indices: 16639249--16639459 Score: 352
Period size: 108 Copynumber: 2.0 Consensus size: 108
16639239 GTCAAAAACA
* *
16639249 CTTTTAATAATCCCTTTCAATATTTTGTAAGCCAATAGTTTTTTTGTTTTAAGCCTACATTGACT
1 CTTTCAATAATCCCATTCAATATTTTGTAAGCCAATAGTTTTTTTGTTTTAAGCCTACATTGACT
*
16639314 GTTACATTAATAACTATCAGTATATAACATATTTATACAAATG
66 GTTACATTAATAACTATCAGTATATAACATATCTATACAAATG
*
16639357 CTTTCAATAATCCCATTCAATATTTTGTAAGCCAATGGTTTTTTTGTTTTAAGCCTACATTGACT
1 CTTTCAATAATCCCATTCAATATTTTGTAAGCCAATAGTTTTTTTGTTTTAAGCCTACATTGACT
* *
16639422 GTTACATTAATAA-TCGTCAGTGTATAACATATCTATAC
66 GTTACATTAATAACT-ATCAGTATATAACATATCTATAC
16639460 TTATGGATAG
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 1 0.01
108 95 0.99
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (108 bp):
CTTTCAATAATCCCATTCAATATTTTGTAAGCCAATAGTTTTTTTGTTTTAAGCCTACATTGACT
GTTACATTAATAACTATCAGTATATAACATATCTATACAAATG
Found at i:16639775 original size:64 final size:65
Alignment explanation
Indices: 16639669--16639793 Score: 162
Period size: 64 Copynumber: 1.9 Consensus size: 65
16639659 ATCCATACAA
* * * * * *
16639669 AAAATTTTTTGTATGGATTATTAAAAGCATTTTTG-ATCAAAAATGCCTTCAATAATCCCTCTCC
1 AAAATGTTTTGAATAGATTATTAAAAGCATTTTTGAATAAAAAACGCATTCAATAATCCCTCTCC
* *
16639733 AAAATGTTTTGAATAGATTATTAAAGGCATTTTTGTAAAAAAAAACGCATTCAATAATCCC
1 AAAATGTTTTGAATAGATTATTAAAAGCATTTTTG-AATAAAAAACGCATTCAATAATCCC
16639794 ATTCAATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 31 0.61
66 20 0.39
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (65 bp):
AAAATGTTTTGAATAGATTATTAAAAGCATTTTTGAATAAAAAACGCATTCAATAATCCCTCTCC
Found at i:16640343 original size:14 final size:13
Alignment explanation
Indices: 16640321--16640377 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
16640311 TAATTATTTT
16640321 AAAAATAAATTAA
1 AAAAATAAATTAA
*
16640334 AAAAACTAAAATAA
1 AAAAA-TAAATTAA
16640348 AATAAATAAAATTATA
1 AA-AAAT-AAATTA-A
16640364 AAAAAGT-AATTAA
1 AAAAA-TAAATTAA
16640377 A
1 A
16640378 TATGATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.19
14 15 0.41
15 11 0.30
16 4 0.11
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (13 bp):
AAAAATAAATTAA
Found at i:16640368 original size:24 final size:22
Alignment explanation
Indices: 16640321--16640397 Score: 54
Period size: 24 Copynumber: 3.5 Consensus size: 22
16640311 TAATTATTTT
* *
16640321 AAAAATAAATTAAA-AAAACT-
1 AAAAATAAAATAAATAAAATTA
16640341 -AAAATAAAATAAATAAAATTA
1 AAAAATAAAATAAATAAAATTA
* **
16640362 TAAAAA-AGTAATTAAATATGATTA
1 -AAAAATA--AAATAAATAAAATTA
16640386 AAAAATAAAATA
1 AAAAATAAAATA
16640398 TTACCAATGG
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
19 12 0.27
20 5 0.11
22 5 0.11
23 9 0.20
24 13 0.30
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATAAAATAAATAAAATTA
Found at i:16642426 original size:3 final size:3
Alignment explanation
Indices: 16642420--16642446 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16642410 CCTTAAAAGA
16642420 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
16642447 TTTTATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:16643673 original size:114 final size:115
Alignment explanation
Indices: 16643472--16643682 Score: 379
Period size: 114 Copynumber: 1.8 Consensus size: 115
16643462 CTCAACGTCT
* *
16643472 TTTATAATACAATCTTCCTTCCATTAATTAAGGTAAGTAAATAATTAATGCCTATGATAATAATG
1 TTTATAATACAATCTTCCTCCCATTAATTAAGGTAAGTAAATAATTAATGCATATGATAATAATG
*
16643537 AAACTAATTGTCAATACTTAATTTTGACAAAAAGACAATTTTTGACTTCA
66 AAACTAATTGTCAATACCTAATTTTGACAAAAAGACAATTTTTGACTTCA
*
16643587 TTTATAATACAATCTTCCTCCCTTTAATT-AGGTAAGTAAATAATTAATGCATATGATAATAATG
1 TTTATAATACAATCTTCCTCCCATTAATTAAGGTAAGTAAATAATTAATGCATATGATAATAATG
16643651 AAACTAATTGTCAATACCTAATTTTGACAAAA
66 AAACTAATTGTCAATACCTAATTTTGACAAAA
16643683 GGTAGGTAAA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
114 65 0.71
115 27 0.29
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (115 bp):
TTTATAATACAATCTTCCTCCCATTAATTAAGGTAAGTAAATAATTAATGCATATGATAATAATG
AAACTAATTGTCAATACCTAATTTTGACAAAAAGACAATTTTTGACTTCA
Found at i:16643722 original size:66 final size:67
Alignment explanation
Indices: 16643616--16643754 Score: 226
Period size: 66 Copynumber: 2.1 Consensus size: 67
16643606 CCCTTTAATT
*
16643616 AGGTAAGTAAATAATTAATGCATATGATAATAATGAAACTAATTGTCAATACCTAATTTTGAC-A
1 AGGTAAGTAAATAATTAATGCATATGATAATAATAAAACTAATTGTCAATACCTAATTTTGACAA
16643680 AA
66 AA
* * * *
16643682 AGGTAGGTAAATAATTAATGCCTATGATGATAATAAAACTAATTGTCAATATCTAATTTTGACAA
1 AGGTAAGTAAATAATTAATGCATATGATAATAATAAAACTAATTGTCAATACCTAATTTTGACAA
16643747 AA
66 AA
16643749 AGGTAA
1 AGGTAA
16643755 CTTTTGACTT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
66 58 0.88
67 8 0.12
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.32
Consensus pattern (67 bp):
AGGTAAGTAAATAATTAATGCATATGATAATAATAAAACTAATTGTCAATACCTAATTTTGACAA
AA
Found at i:16644315 original size:44 final size:44
Alignment explanation
Indices: 16644265--16644352 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
16644255 AGGTCCACCC
*
16644265 ATCAATTTTTGAATTTTTCATATTTGATAAGGTTGGATAAACCT
1 ATCAATTTTTGAATTTCTCATATTTGATAAGGTTGGATAAACCT
16644309 ATCAATTTTTGAATTTCTCATATTTGATAAGGTTGGATAAACCT
1 ATCAATTTTTGAATTTCTCATATTTGATAAGGTTGGATAAACCT
16644353 TTCTCTTTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (44 bp):
ATCAATTTTTGAATTTCTCATATTTGATAAGGTTGGATAAACCT
Found at i:16647302 original size:20 final size:20
Alignment explanation
Indices: 16647279--16647318 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16647269 TTCAAATATG
*
16647279 AATTAAACAATTCATGGATA
1 AATTAAACAATCCATGGATA
**
16647299 AATTAATTAATCCATGGATA
1 AATTAAACAATCCATGGATA
16647319 TTTAATCTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
AATTAAACAATCCATGGATA
Found at i:16647427 original size:3 final size:3
Alignment explanation
Indices: 16647419--16647447 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16647409 GTGCTTATAG
16647419 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16647448 ACTTGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16649579 original size:27 final size:27
Alignment explanation
Indices: 16649536--16649590 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
16649526 AAAATAAAAA
* *
16649536 ATAATGATAAAGATAAAATTAATTATT
1 ATAATAATAAAGATAAAATTAATGATT
16649563 ATAATAAT-AAGATTAAAATTAATGATT
1 ATAATAATAAAGA-TAAAATTAATGATT
16649590 A
1 A
16649591 AGATATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (27 bp):
ATAATAATAAAGATAAAATTAATGATT
Found at i:16649743 original size:27 final size:26
Alignment explanation
Indices: 16649689--16649740 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16649679 GTTATATGAA
* *
16649689 ATAAAATTTTAAATTATTTAATATTT
1 ATAAAATTATAAATTATTAAATATTT
16649715 ATAAAATTAATAAATTATTAAA-ATTT
1 ATAAAATT-ATAAATTATTAAATATTT
16649741 TATTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAAAATTATAAATTATTAAATATTT
Found at i:16649802 original size:12 final size:12
Alignment explanation
Indices: 16649785--16649809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16649775 AAATAATTAA
16649785 AAATAATATTTT
1 AAATAATATTTT
16649797 AAATAATATTTT
1 AAATAATATTTT
16649809 A
1 A
16649810 TTATATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:16649869 original size:23 final size:23
Alignment explanation
Indices: 16649817--16649865 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16649807 TTATTATATT
*
16649817 AAATTAATAAAATTATTTCTTAA
1 AAATTAATAAAATTATATCTTAA
16649840 AAATTAATAAAATTA-AT-TTAA
1 AAATTAATAAAATTATATCTTAA
16649861 AAATT
1 AAATT
16649866 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 15 0.60
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATTAATAAAATTATATCTTAA
Found at i:16651427 original size:22 final size:22
Alignment explanation
Indices: 16651402--16651444 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16651392 TAATTTATTT
* *
16651402 ATTATAATTAAACAATTATAAA
1 ATTATAATAAAAAAATTATAAA
16651424 ATTATAATAAAAAAATTATAA
1 ATTATAATAAAAAAATTATAA
16651445 GTGAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTATAATAAAAAAATTATAAA
Found at i:16654633 original size:17 final size:19
Alignment explanation
Indices: 16654605--16654639 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16654595 GATGAAAGAA
16654605 AAAATCTATAAGT-TATTG
1 AAAATCTATAAGTATATTG
16654623 AAAAT-TATAAGTATATT
1 AAAATCTATAAGTATATT
16654640 ATCATAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (19 bp):
AAAATCTATAAGTATATTG
Found at i:16655647 original size:20 final size:20
Alignment explanation
Indices: 16655599--16655647 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
16655589 TTTTTGTTTG
16655599 AAAAATTTTAAAACATTTTC
1 AAAAATTTTAAAACATTTTC
* * *
16655619 AACACTTTTAAAATATTTT-
1 AAAAATTTTAAAACATTTTC
16655638 AGAAAATTTT
1 A-AAAATTTT
16655648 TTGTATGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAAATTTTAAAACATTTTC
Found at i:16655747 original size:122 final size:122
Alignment explanation
Indices: 16655587--16655813 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 122
16655577 ATTGCTATTA
* * * *
16655587 TTTTTTTGTTTGAAAAATTTTAAAACATTTTCAACACTTTTAAAATATTT-TAGAAAATTTTTTG
1 TTTTTTTGCTTGAAAAATTTTAAAACATTTTCAACACTTTTAAAATATTTAAAAAAAAATTTTTG
* * *
16655651 TATGAATATTTTTAATAAATTTACCACTTGTGACTTTATTCTTATTAATATTTTTTT
66 TATAAATATTTTTAATAAAATTACCACTTATGACTTTATTCTTATTAATATTTTTTT
* *
16655708 TTTTTTATGCTTG-AAAATTTCTAAAATA-TTTCTAACACTTTTAGAATATTTAAAAAAAAATTT
1 TTTTTT-TGCTTGAAAAATTT-TAAAACATTTTC-AACACTTTTAAAATATTTAAAAAAAAATTT
* *
16655771 TTGTGTAAATATTTTTAATAAAATTACTACTTATGACTTTATT
63 TTGTATAAATATTTTTAATAAAATTACCACTTATGACTTTATT
16655814 ATTTTTATTG
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
121 17 0.19
122 28 0.31
123 46 0.51
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (122 bp):
TTTTTTTGCTTGAAAAATTTTAAAACATTTTCAACACTTTTAAAATATTTAAAAAAAAATTTTTG
TATAAATATTTTTAATAAAATTACCACTTATGACTTTATTCTTATTAATATTTTTTT
Found at i:16656401 original size:16 final size:17
Alignment explanation
Indices: 16656370--16656402 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16656360 TTTATCTTGC
*
16656370 TTAATTGTTGTTTATCT
1 TTAATTGTTATTTATCT
16656387 TTAATT-TTATTTATCT
1 TTAATTGTTATTTATCT
16656403 AATTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (17 bp):
TTAATTGTTATTTATCT
Found at i:16656890 original size:9 final size:9
Alignment explanation
Indices: 16656866--16656906 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
16656856 CCAATTCCTA
16656866 TATTTATTT
1 TATTTATTT
16656875 TATTTTATTT
1 TA-TTTATTT
16656885 TATTTATTT
1 TATTTATTT
*
16656894 TGTTTA-TT
1 TATTTATTT
16656902 TATTT
1 TATTT
16656907 CTAAAGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 6 0.21
9 14 0.48
10 9 0.31
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (9 bp):
TATTTATTT
Found at i:16661902 original size:22 final size:22
Alignment explanation
Indices: 16661870--16661933 Score: 58
Period size: 24 Copynumber: 2.8 Consensus size: 22
16661860 AATAAAAAAT
*
16661870 AAATGAAAAATAAAAAA-GTTAA
1 AAATGAGAAATAAAAAATG-TAA
16661892 AAATGAGAAATGGAAAAAATGTAA
1 AAATGAGAAAT--AAAAAATGTAA
* *
16661916 AAGAAGAGAAAAAAAAAA
1 AA-ATGAGAAATAAAAAA
16661934 CTAAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 10 0.29
23 6 0.17
24 11 0.31
25 8 0.23
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (22 bp):
AAATGAGAAATAAAAAATGTAA
Found at i:16662865 original size:20 final size:20
Alignment explanation
Indices: 16662823--16662867 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
16662813 CTAGACTATT
*
16662823 ACATTTGCATCATTAAGAAA
1 ACATTTGCATCATTAACAAA
* *
16662843 ACATTTGCATCATTATCATA
1 ACATTTGCATCATTAACAAA
16662863 ACATT
1 ACATT
16662868 CTTTATATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (20 bp):
ACATTTGCATCATTAACAAA
Found at i:16663072 original size:21 final size:21
Alignment explanation
Indices: 16663048--16663103 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
16663038 GTTAAAAATT
16663048 ATGAGAATATTTGAGTTTTAA
1 ATGAGAATATTTGAGTTTTAA
* * * *
16663069 ATGAGAATTTTTAATTTTTAT
1 ATGAGAATATTTGAGTTTTAA
* *
16663090 ATAAGAATCTTTGA
1 ATGAGAATATTTGA
16663104 ATGAGAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (21 bp):
ATGAGAATATTTGAGTTTTAA
Found at i:16663256 original size:22 final size:23
Alignment explanation
Indices: 16663231--16663273 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16663221 TGAAAGGCTT
*
16663231 TAAAATT-TTGGATGAAAACCCC
1 TAAAATTATTGAATGAAAACCCC
*
16663253 TAAATTTATTGAATGAAAACC
1 TAAAATTATTGAATGAAAACC
16663274 TTTGAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (23 bp):
TAAAATTATTGAATGAAAACCCC
Found at i:16663661 original size:16 final size:16
Alignment explanation
Indices: 16663584--16663822 Score: 129
Period size: 16 Copynumber: 14.9 Consensus size: 16
16663574 CTCTCAAATT
*
16663584 TGAATCTTAAAATCTTG
1 TGAATC-TAAATTCTTG
* *
16663601 TGAATCTAAGTTATTG
1 TGAATCTAAATTCTTG
* *
16663617 GGAATCTAAAGTT-TTA
1 TGAATCTAAA-TTCTTG
* *
16663633 TGAATCTGAGTTCTTG
1 TGAATCTAAATTCTTG
*
16663649 TGAATCTAAGTTCTTG
1 TGAATCTAAATTCTTG
** *
16663665 AAAATCTAAAATCTTG
1 TGAATCTAAATTCTTG
*
16663681 TGGAAT-TGAAAATCTTG
1 T-GAATCT-AAATTCTTG
*
16663698 TGAATCTAAAATT-TTA
1 TGAATCT-AAATTCTTG
*
16663714 CGAATC-AAATTCTTG
1 TGAATCTAAATTCTTG
*
16663729 TGAATCT-AATTCCTTT
1 TGAATCTAAATT-CTTG
16663745 TGAAAT-TGAAATT-TTG
1 TG-AATCT-AAATTCTTG
*
16663761 AGAATC-AAATTCTTG
1 TGAATCTAAATTCTTG
* *
16663776 CGAATCTAAAATT-TTA
1 TGAATCT-AAATTCTTG
*
16663792 CGAATCTGAAA-TCTTG
1 TGAATCT-AAATTCTTG
* *
16663808 CGAATCTGAATTCTT
1 TGAATCTAAATTCTT
16663823 ATAAAATTAG
Statistics
Matches: 174, Mismatches: 31, Indels: 35
0.73 0.13 0.15
Matches are distributed among these distances:
14 10 0.06
15 27 0.16
16 99 0.57
17 34 0.20
18 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (16 bp):
TGAATCTAAATTCTTG
Found at i:16663802 original size:47 final size:46
Alignment explanation
Indices: 16663699--16663822 Score: 110
Period size: 47 Copynumber: 2.6 Consensus size: 46
16663689 AAAATCTTGT
* * **
16663699 GAATCTAAAATTTT-ACGAATCAAATTCTTGTGAATCTAATTCCTTTT
1 GAATCTGAAATTTTGA-GAATCAAATTCTTGCGAATCTAATT-CTTAC
16663746 GAAAT-TGAAATTTTGAGAATCAAATTCTTGCGAATCTAAAATT-TTAC
1 G-AATCTGAAATTTTGAGAATCAAATTCTTGCGAATCT--AATTCTTAC
* * *
16663793 GAATCTGAAATCTTGCGAATCTGAATTCTT
1 GAATCTGAAATTTTGAGAATC-AAATTCTT
16663823 ATAAAATTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
46 3 0.05
47 46 0.72
48 11 0.17
49 4 0.06
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (46 bp):
GAATCTGAAATTTTGAGAATCAAATTCTTGCGAATCTAATTCTTAC
Found at i:16663953 original size:49 final size:49
Alignment explanation
Indices: 16663837--16664010 Score: 149
Period size: 49 Copynumber: 3.6 Consensus size: 49
16663827 AATTAGAAAA
* * * * * *
16663837 TCTTGCTAACCTGAAAAACCTTACGAAACTGAAATTTTGATAATTAAAT
1 TCTTGCGAAGCTGAAAATCTTTACGAAACTGAAATCTTGAGAATTAAAT
* * *
16663886 TCTTGCGAATCTGAAAATCTTTACGAACCTGAAATCCTTGAGCATTAAAT
1 TCTTGCGAAGCTGAAAATCTTTACGAAACTGAAAT-CTTGAGAATTAAAT
* * *
16663936 TCTTGC-AAGCTCG-AAATCTTTGC-AAATCTAAAAT-TTTACGAATTAAAT
1 TCTTGCGAAGCT-GAAAATCTTTACGAAA-CTGAAATCTTGA-GAATTAAAT
** *
16663984 TCTTGCGAATTTGAAAATCCTTACGAA
1 TCTTGCGAAGCTGAAAATCTTTACGAA
16664011 CTTGAAAATC
Statistics
Matches: 100, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
47 3 0.03
48 17 0.17
49 60 0.60
50 20 0.20
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (49 bp):
TCTTGCGAAGCTGAAAATCTTTACGAAACTGAAATCTTGAGAATTAAAT
Found at i:16664010 original size:18 final size:18
Alignment explanation
Indices: 16663989--16664028 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
16663979 TAAATTCTTG
*
16663989 CGAATTTGAAAATCCTTA
1 CGAACTTGAAAATCCTTA
16664007 CGAACTTGAAAATCCTTA
1 CGAACTTGAAAATCCTTA
16664025 CGAA
1 CGAA
16664029 ACAAATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (18 bp):
CGAACTTGAAAATCCTTA
Found at i:16679861 original size:141 final size:142
Alignment explanation
Indices: 16679607--16679890 Score: 507
Period size: 141 Copynumber: 2.0 Consensus size: 142
16679597 ATGTAAAATG
16679607 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATAAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATAAGACCACCCCGACTCTCCAACATCTAGGC
* *
16679672 AGAGCTTAGGTGCGACTGTTTATATTTAAGATCCCAATTTTATTATAC-TTTTTATTTATTAATC
66 AGAGCTTAGGTGCGACTGTTTACATTTAAAATCCCAATTTTATTATACTTTTTTATTTATTAATC
*
16679736 TTATTTTTAATA
131 TTATTATTAATA
*
16679748 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATAAGACCACCCCGACTCTCCAACATCTAGGC
*
16679813 AGAGCTTAGGTGCGACTGTTTACATTTAAAATCTCAATTTTATTATACTTTTTTTATTTATTAAT
66 AGAGCTTAGGTGCGACTGTTTACATTTAAAATCCCAATTTTATTATAC-TTTTTTATTTATTAAT
16679878 CTTATTATTAATA
130 CTTATTATTAATA
16679891 TGAATTATGA
Statistics
Matches: 136, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
141 109 0.80
143 27 0.20
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (142 bp):
AAATGCAATTTAAGAGTTGGATTCTTAAATATAATAAGACCACCCCGACTCTCCAACATCTAGGC
AGAGCTTAGGTGCGACTGTTTACATTTAAAATCCCAATTTTATTATACTTTTTTATTTATTAATC
TTATTATTAATA
Found at i:16680594 original size:17 final size:17
Alignment explanation
Indices: 16680572--16680633 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 17
16680562 CGATGGTCCG
16680572 GGCGGTCTGACCGGTTC
1 GGCGGTCTGACCGGTTC
16680589 GGCGGT-TGGATCGGCGGTTC
1 GGCGGTCT-GA-C--CGGTTC
*
16680609 GGGCGATCTGACCGGTTC
1 -GGCGGTCTGACCGGTTC
16680627 GGCGGTC
1 GGCGGTC
16680634 GATAGGCGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
16 1 0.03
17 14 0.38
18 7 0.19
20 7 0.19
21 7 0.19
22 1 0.03
ACGTcount: A:0.06, C:0.26, G:0.45, T:0.23
Consensus pattern (17 bp):
GGCGGTCTGACCGGTTC
Found at i:16680619 original size:38 final size:37
Alignment explanation
Indices: 16680570--16680646 Score: 118
Period size: 38 Copynumber: 2.1 Consensus size: 37
16680560 AACGATGGTC
* * *
16680570 CGGGCGGTCTGACCGGTTCGGCGGTTGGATCGGCGGTT
1 CGGGCGATCTGACCGGTTCGGCGG-TCGATAGGCGGTT
16680608 CGGGCGATCTGACCGGTTCGGCGGTCGATAGGCGGTT
1 CGGGCGATCTGACCGGTTCGGCGGTCGATAGGCGGTT
16680645 CG
1 CG
16680647 TATGAACCGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 13 0.36
38 23 0.64
ACGTcount: A:0.08, C:0.25, G:0.45, T:0.22
Consensus pattern (37 bp):
CGGGCGATCTGACCGGTTCGGCGGTCGATAGGCGGTT
Found at i:16681204 original size:13 final size:13
Alignment explanation
Indices: 16681170--16681204 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
16681160 GACTGTGTTA
*
16681170 TTTTTTTGGTTTT
1 TTTTTTTGTTTTT
*
16681183 TGTTTTTGTTTTT
1 TTTTTTTGTTTTT
16681196 TTTTTTTGT
1 TTTTTTTGT
16681205 GGCGGTTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:16681618 original size:17 final size:18
Alignment explanation
Indices: 16681596--16681658 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 18
16681586 CTTTTTTTTT
*
16681596 TTTTG-TTTGTTTACTTG
1 TTTTGTTTTGTTTTCTTG
16681613 TTTTG-TTT-TTTTC-TG
1 TTTTGTTTTGTTTTCTTG
*
16681628 TTTTGTTTTTTTTTCTT-
1 TTTTGTTTTGTTTTCTTG
16681645 TTTTGTTTTGTTTT
1 TTTTGTTTTGTTTT
16681659 GTTAAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.17
16 7 0.17
17 26 0.63
18 1 0.02
ACGTcount: A:0.02, C:0.05, G:0.13, T:0.81
Consensus pattern (18 bp):
TTTTGTTTTGTTTTCTTG
Found at i:16681638 original size:22 final size:22
Alignment explanation
Indices: 16681613--16681658 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
16681603 TGTTTACTTG
*
16681613 TTTTGTTT-TTTTCTGTTTTGT
1 TTTTTTTTCTTTTCTGTTTTGT
*
16681634 TTTTTTTTCTTTTTTGTTTTGT
1 TTTTTTTTCTTTTCTGTTTTGT
16681656 TTT
1 TTT
16681659 GTTAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (22 bp):
TTTTTTTTCTTTTCTGTTTTGT
Found at i:16681659 original size:5 final size:5
Alignment explanation
Indices: 16681610--16681661 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
16681600 GTTTGTTTAC
*
16681610 TTGTT TTGTT TT-TT TCTGTT TTGTT TT-TT TT-TC TT-TT TTGTT TTGTT
1 TTGTT TTGTT TTGTT T-TGTT TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT
16681657 TTGTT
1 TTGTT
16681662 AAATATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 13 0.31
5 26 0.62
6 3 0.07
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (5 bp):
TTGTT
Found at i:16682519 original size:15 final size:16
Alignment explanation
Indices: 16682472--16682535 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
16682462 ACTAGTTTGG
16682472 TAAATAATATTATCTTTTT
1 TAAAT-ATATTA--TTTTT
*
16682491 TAACTA-ATTCATTTTT
1 TAAATATATT-ATTTTT
*
16682507 TATAT-TATTA-TTTT
1 TAAATATATTATTTTT
16682521 TAAATATATTATTTT
1 TAAATATATTATTTT
16682536 ATGATATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
14 8 0.22
15 6 0.16
16 14 0.38
17 3 0.08
18 2 0.05
19 4 0.11
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
TAAATATATTATTTTT
Found at i:16682520 original size:14 final size:15
Alignment explanation
Indices: 16682503--16682535 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16682493 ACTAATTCAT
*
16682503 TTTTTATAT-TATTA
1 TTTTTAAATATATTA
16682517 TTTTTAAATATATTA
1 TTTTTAAATATATTA
16682532 TTTT
1 TTTT
16682536 ATGATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAAATATATTA
Found at i:16682535 original size:30 final size:30
Alignment explanation
Indices: 16682478--16682535 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
16682468 TTGGTAAATA
*
16682478 ATATTATCTTTTTTAACTAATTCATTTTTT
1 ATATTATCTTTTTTAAATAATTCATTTTTT
16682508 ATATTAT-TATTTTTAAATATATT-ATTTT
1 ATATTATCT-TTTTTAAATA-ATTCATTTT
16682536 ATGATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 21 0.84
31 3 0.12
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
ATATTATCTTTTTTAAATAATTCATTTTTT
Found at i:16682899 original size:61 final size:61
Alignment explanation
Indices: 16682791--16682906 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
16682781 TGAATTTTAG
* * *
16682791 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATTGTGAGAATTTGTGAGTTTTGA
1 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGGTAAGAATTTATGAGTTTTGA
* * * * * *
16682852 TTTACTATGTTTTATGTATTTTATAATTCTATTATTTATGGTAAGAATTTATGAG
1 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGGTAAGAATTTATGAG
16682907 AGTTTTATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (61 bp):
TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGGTAAGAATTTATGAGTTTTGA
Found at i:16694341 original size:21 final size:21
Alignment explanation
Indices: 16694301--16694341 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16694291 GAAGTAATCT
*
16694301 GAATGAAAGTTGACTAAGAAA
1 GAATGAAAGTTGACAAAGAAA
16694322 GAATGAAAG-TGACAATAGAA
1 GAATGAAAGTTGACAA-AGAA
16694342 GCATCTGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.17
Consensus pattern (21 bp):
GAATGAAAGTTGACAAAGAAA
Found at i:16694764 original size:23 final size:23
Alignment explanation
Indices: 16694727--16694772 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16694717 AAGACATAAT
* * *
16694727 GAAAAGTATGTACCCAAGAAAAA
1 GAAAAGAATGAACCCAAAAAAAA
16694750 GAAAAGAATGAACCCAAAAAAAA
1 GAAAAGAATGAACCCAAAAAAAA
16694773 ATAATAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.63, C:0.13, G:0.15, T:0.09
Consensus pattern (23 bp):
GAAAAGAATGAACCCAAAAAAAA
Found at i:16696958 original size:9 final size:9
Alignment explanation
Indices: 16696944--16696969 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16696934 TTGAGAGGTT
16696944 TTTTTTTTA
1 TTTTTTTTA
16696953 TTTTTTTTA
1 TTTTTTTTA
16696962 TTTTTTTT
1 TTTTTTTT
16696970 TAAACGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:16696958 original size:10 final size:10
Alignment explanation
Indices: 16696943--16696971 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
16696933 GTTGAGAGGT
16696943 TTTTTTTTTA
1 TTTTTTTTTA
16696953 -TTTTTTTTA
1 TTTTTTTTTA
16696962 TTTTTTTTTA
1 TTTTTTTTTA
16696972 AACGTTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:16697624 original size:47 final size:48
Alignment explanation
Indices: 16697534--16697625 Score: 132
Period size: 47 Copynumber: 1.9 Consensus size: 48
16697524 TCATAAATTT
* * * **
16697534 TTTAACATATATTATGGTAATTTTTTTTTTGTTTTTATTAATAATCTC
1 TTTAACATATATGATGATAATTTTTTTATTAATTTTATTAATAATCTC
16697582 TTTAACATATATGATGATAA-TTTTTTATTAATTTTATTAATAAT
1 TTTAACATATATGATGATAATTTTTTTATTAATTTTATTAATAAT
16697626 AAATATTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 21 0.54
48 18 0.46
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (48 bp):
TTTAACATATATGATGATAATTTTTTTATTAATTTTATTAATAATCTC
Found at i:16697938 original size:62 final size:65
Alignment explanation
Indices: 16697844--16697970 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 65
16697834 ATAAAATATG
* *
16697844 AGGGGATTATTTAAAATATTTTTTGTCTAAAAACA-CTTTAAAT-A-A-TCTTTAATATTTTTTA
1 AGGGGATTATTTAAAATATTTTTTATCTAAAAAAAGCTTTAAATAATACTCTTTAAT-TTTTTTA
16697905 A
65 A
* *
16697906 AGGGGATTATTT-AAGTAATTTTTTAT-TAAAAAAAAGTTTTAAATAATACTCTTTAATTTTTTT
1 AGGGGATTATTTAAAAT-ATTTTTTATCT-AAAAAAAGCTTTAAATAATACTCTTTAATTTTTTT
16697969 AA
64 AA
16697971 GGATATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
61 4 0.07
62 26 0.47
63 7 0.13
64 1 0.02
65 9 0.16
66 8 0.15
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (65 bp):
AGGGGATTATTTAAAATATTTTTTATCTAAAAAAAGCTTTAAATAATACTCTTTAATTTTTTTAA
Found at i:16699609 original size:15 final size:15
Alignment explanation
Indices: 16699577--16699611 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16699567 ATCATGGTAA
*
16699577 AAAAATAAAAATTAT
1 AAAAATAAAAACTAT
*
16699592 AAAAATAAAAACTCT
1 AAAAATAAAAACTAT
16699607 AAAAA
1 AAAAA
16699612 AAATTCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATAAAAACTAT
Found at i:16701339 original size:10 final size:10
Alignment explanation
Indices: 16701324--16701354 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16701314 TTGAGGAGAG
16701324 AGAAGGGGAA
1 AGAAGGGGAA
16701334 AGAAGGGGAA
1 AGAAGGGGAA
*
16701344 AGAAGGTGAA
1 AGAAGGGGAA
16701354 A
1 A
16701355 AAAGATAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.45, T:0.03
Consensus pattern (10 bp):
AGAAGGGGAA
Found at i:16702650 original size:104 final size:102
Alignment explanation
Indices: 16702465--16702652 Score: 227
Period size: 104 Copynumber: 1.8 Consensus size: 102
16702455 AAACATATTT
* * *
16702465 AAAAAAAAAGCCTTATCAATAGATTATAAGGTAATCAGTTTTTTAAAAAATATGATTTTACCAAC
1 AAAAAAAAAGCCTTATCAATAGATTAGAAGGTAATAAGTTTTTTAAAAAATAAGATTTTACCAAC
*
16702530 ATATTAAAAAATCTTATAACCTTTTTTTATTTAAAAA
66 ATATTAAAAAACCTTATAACCTTTTTTTATTTAAAAA
* * **
16702567 AAAATAAAAAGCCTTATCAATATATTAGAAGGCTAA-AATTTTATTTCCAAAATAA-AGTTTTAC
1 AAAA-AAAAAGCCTTATCAATAGATTAGAAGG-TAATAAGTTT-TTTAAAAAATAAGA-TTTTAC
* * *
16702630 CAATATATTAGAAAGCCTTATAA
62 CAACATATTAAAAAACCTTATAA
16702653 TTTCCTAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
102 4 0.06
103 30 0.42
104 37 0.52
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (102 bp):
AAAAAAAAAGCCTTATCAATAGATTAGAAGGTAATAAGTTTTTTAAAAAATAAGATTTTACCAAC
ATATTAAAAAACCTTATAACCTTTTTTTATTTAAAAA
Found at i:16707752 original size:46 final size:45
Alignment explanation
Indices: 16707684--16707799 Score: 117
Period size: 46 Copynumber: 2.5 Consensus size: 45
16707674 TATGAAGCCA
* * *
16707684 TAAAGTTTTTGAAAAAGGATCTTTGAAACCTTAGAT-GTGAATCTC
1 TAAAATTTTTGAATAAGAATCTTTGAAACCTTAGATAGT-AATCTC
** * *
16707729 TAAAATTTTTCGAATAAGAATCTTTGAAATTTTGGATAGTAATTTC
1 TAAAATTTTT-GAATAAGAATCTTTGAAACCTTAGATAGTAATCTC
**
16707775 TAAAATTTTTTGAATATTAATCTTT
1 TAAAA-TTTTTGAATAAGAATCTTT
16707800 AAAATTTTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
45 9 0.15
46 43 0.73
47 7 0.12
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (45 bp):
TAAAATTTTTGAATAAGAATCTTTGAAACCTTAGATAGTAATCTC
Found at i:16707795 original size:24 final size:24
Alignment explanation
Indices: 16707723--16707807 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
16707713 CTTAGATGTG
* *
16707723 AATCTCTAAAATTTTTCGAATAAG-
1 AATCTTTAAAATTTTTTGAAT-AGT
* *
16707747 AATCTTTGAAA--TTTTGGATAGT
1 AATCTTTAAAATTTTTTGAATAGT
*
16707769 AAT-TTCTAAAATTTTTTGAATATT
1 AATCTT-TAAAATTTTTTGAATAGT
16707793 AATCTTTAAAATTTT
1 AATCTTTAAAATTTT
16707808 GGATGTGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
21 4 0.08
22 13 0.27
24 30 0.61
25 2 0.04
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (24 bp):
AATCTTTAAAATTTTTTGAATAGT
Found at i:16707871 original size:45 final size:45
Alignment explanation
Indices: 16707717--16707871 Score: 134
Period size: 46 Copynumber: 3.4 Consensus size: 45
16707707 TGAAACCTTA
*
16707717 GATGTGAATCTCTAAAATTTTTCGAATAAGAA-TCTTTGAAATTTTG
1 GATGTGAATCTCTAAAAATTTTCGAATAAGAACT-TTTG-AATTTTG
* * * ** **
16707763 GATAGT-AATTTCTAAAATTTTTTGAATATTAATCTTTAAAATTTTG
1 GAT-GTGAATCTCTAAAAATTTTCGAATAAGAA-CTTTTGAATTTTG
* * * * *
16707809 GATGTGAAACCCCAAAAATTTTCAAATACGAACTTTTGAATTTTG
1 GATGTGAATCTCTAAAAATTTTCGAATAAGAACTTTTGAATTTTG
*
16707854 GATGTGAATCACTAAAAA
1 GATGTGAATCTCTAAAAA
16707872 AAATCCTTTG
Statistics
Matches: 85, Mismatches: 20, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
45 28 0.33
46 52 0.61
47 4 0.05
48 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (45 bp):
GATGTGAATCTCTAAAAATTTTCGAATAAGAACTTTTGAATTTTG
Found at i:16708014 original size:34 final size:34
Alignment explanation
Indices: 16707976--16708089 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 34
16707966 CATACTTTAG
** * *
16707976 ATTCTTGCAAACCTTAAATTTTTGTGAACTTGAA
1 ATTCTTGCAAACCCGAAATTCTTGTGAACCTGAA
*
16708010 ATTCTTGCAAACCCGAAGTTCTTGTGAACCTGAA
1 ATTCTTGCAAACCCGAAATTCTTGTGAACCTGAA
* * ** *
16708044 A-TCTT-AAGAACCTGAAGCTCTTGTGAATCTGAA
1 ATTCTTGCA-AACCCGAAATTCTTGTGAACCTGAA
*
16708077 GTTCTTGCGAAAC
1 ATTCTTGC-AAAC
16708090 TTAGATCCTT
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
32 1 0.02
33 26 0.40
34 34 0.52
35 3 0.05
36 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (34 bp):
ATTCTTGCAAACCCGAAATTCTTGTGAACCTGAA
Found at i:16708039 original size:17 final size:17
Alignment explanation
Indices: 16707997--16708083 Score: 77
Period size: 17 Copynumber: 5.2 Consensus size: 17
16707987 CCTTAAATTT
* *
16707997 TTGTGAACTTGAAATTC
1 TTGTGAACCTGAAGTTC
** *
16708014 TTGCAAACCCGAAGTTC
1 TTGTGAACCTGAAGTTC
*
16708031 TTGTGAACCTGAA-ATC
1 TTGTGAACCTGAAGTTC
** *
16708047 TTAAGAACCTGAAGCTC
1 TTGTGAACCTGAAGTTC
*
16708064 TTGTGAATCTGAAGTTC
1 TTGTGAACCTGAAGTTC
16708081 TTG
1 TTG
16708084 CGAAACTTAG
Statistics
Matches: 53, Mismatches: 16, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
16 13 0.25
17 40 0.75
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (17 bp):
TTGTGAACCTGAAGTTC
Found at i:16708283 original size:17 final size:17
Alignment explanation
Indices: 16708261--16708294 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16708251 TCTGCAAAAC
* *
16708261 TTAGAATCTTTGTGAAT
1 TTAGAACCTTTGAGAAT
16708278 TTAGAACCTTTGAGAAT
1 TTAGAACCTTTGAGAAT
16708295 CTTGAATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (17 bp):
TTAGAACCTTTGAGAAT
Found at i:16708649 original size:44 final size:43
Alignment explanation
Indices: 16708562--16708719 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 43
16708552 ATTTAAAGTT
* * * * *
16708562 TTTAAAGTTGTTTAGCC-TCAGTATA-AAAGAGCTTATTTTTTAA
1 TTTAAAGTTGTTTAGCCTTTA-TATAGAAAAACCCT-TTTCTTAA
*
16708605 TTTAAAATTGTTTTAGCCTTTATATAGAAAAACCCTTTTCTTAA
1 TTTAAAGTTG-TTTAGCCTTTATATAGAAAAACCCTTTTCTTAA
* ** * * *
16708649 TTTTAAAGTTGTTTAACCTTTATATAGAGGAGCCCATTTCTTAT
1 -TTTAAAGTTGTTTAGCCTTTATATAGAAAAACCCTTTTCTTAA
* *
16708693 TTTAAAGTTGTTTAGCCTCTGTATAGA
1 TTTAAAGTTGTTTAGCCTTTATATAGA
16708720 GGAGCCTATT
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
43 33 0.35
44 45 0.47
45 17 0.18
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (43 bp):
TTTAAAGTTGTTTAGCCTTTATATAGAAAAACCCTTTTCTTAA
Done.