Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 89 of 93
Found at i:14591118 original size:24 final size:22
Alignment explanation
Indices: 14591076--14591126 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
14591066 AGTTAAGAAT
14591076 TTTTGAAATTGTGAAAAATAAA
1 TTTTGAAATTGTGAAAAATAAA
* * *
14591098 TATTTGACAATTTTGATAAATTAA
1 T-TTTGA-AATTGTGAAAAATAAA
14591122 TTTTG
1 TTTTG
14591127 GGTTGTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 9 0.38
24 14 0.58
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (22 bp):
TTTTGAAATTGTGAAAAATAAA
Found at i:14591664 original size:23 final size:23
Alignment explanation
Indices: 14591637--14591683 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14591627 TTGCAACTTA
*
14591637 TAAAAATAATTA-TTATTAAATAT
1 TAAAAATAAATATTTA-TAAATAT
*
14591660 TAAAATTAAATATTTATAAATAT
1 TAAAAATAAATATTTATAAATAT
14591683 T
1 T
14591684 TATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAAAATAAATATTTATAAATAT
Found at i:14591757 original size:19 final size:19
Alignment explanation
Indices: 14591723--14591772 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
14591713 TTTATAATTT
*
14591723 ATATTTATATTAATATTTTAA
1 ATATTT-TATTAATA-TTAAA
14591744 ATATTTTATT-ATATTAAA
1 ATATTTTATTAATATTAAA
14591762 ATAATTTTATT
1 AT-ATTTTATT
14591773 TTAATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 6 0.22
19 11 0.41
20 4 0.15
21 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTTATTAATATTAAA
Found at i:14592557 original size:27 final size:27
Alignment explanation
Indices: 14592527--14592580 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
14592517 GTTTTTTTCC
14592527 AACAAGTGGTATCAGAGCGAGGTTCGA
1 AACAAGTGGTATCAGAGCGAGGTTCGA
14592554 AACAAGTGGTATCAGAGCGAGGTTCGA
1 AACAAGTGGTATCAGAGCGAGGTTCGA
14592581 GGTTTAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.19
Consensus pattern (27 bp):
AACAAGTGGTATCAGAGCGAGGTTCGA
Found at i:14592835 original size:41 final size:41
Alignment explanation
Indices: 14592777--14592861 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
14592767 CTAATTGGAA
14592777 TAGGATTCAAAAAAAGGCTGTTAGTACTATTAGATTGACGT
1 TAGGATTCAAAAAAAGGCTGTTAGTACTATTAGATTGACGT
* * *
14592818 TAGGATTCAGAAGAAGGCTGTTAGTACTATTAGATTGATGT
1 TAGGATTCAAAAAAAGGCTGTTAGTACTATTAGATTGACGT
14592859 TAG
1 TAG
14592862 CTCTAAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (41 bp):
TAGGATTCAAAAAAAGGCTGTTAGTACTATTAGATTGACGT
Found at i:14592861 original size:20 final size:20
Alignment explanation
Indices: 14592795--14592861 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
14592785 AAAAAAAGGC
14592795 TGTTAGTACTATTAGATTGA
1 TGTTAGTACTATTAGATTGA
* * * ** ** *
14592815 CGTTAGGATTCAGAAGAAGGC
1 TGTTAGTACT-ATTAGATTGA
14592836 TGTTAGTACTATTAGATTGA
1 TGTTAGTACTATTAGATTGA
14592856 TGTTAG
1 TGTTAG
14592862 CTCTAAAAGT
Statistics
Matches: 30, Mismatches: 16, Indels: 2
0.62 0.33 0.04
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.37
Consensus pattern (20 bp):
TGTTAGTACTATTAGATTGA
Found at i:14603754 original size:24 final size:24
Alignment explanation
Indices: 14603707--14603771 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
14603697 TTGCGAATAT
*
14603707 AACTGTCTATTTTAAATAGATAAA
1 AACTGTCTATTTTAAACAGATAAA
* * *
14603731 AACTGTCTTTTTTGAACAG-TTAA
1 AACTGTCTATTTTAAACAGATAAA
*
14603754 AACTAT-TCATTTTAAACA
1 AACTGTCT-ATTTTAAACA
14603772 TATTTATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 1 0.03
23 16 0.48
24 16 0.48
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (24 bp):
AACTGTCTATTTTAAACAGATAAA
Found at i:14612079 original size:45 final size:45
Alignment explanation
Indices: 14612015--14612104 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
14612005 GATCCTTTAC
*
14612015 CTCCTATTGAAGTCGGAGAACAGGAAGTTGTTGGAGATGGTGGCG
1 CTCCTATTGAAGTCGGAGAACAAGAAGTTGTTGGAGATGGTGGCG
* *
14612060 CTCCTATTGAATTCGGAGAAGAAGAAGTTGTTGGAGATGGTGGCG
1 CTCCTATTGAAGTCGGAGAACAAGAAGTTGTTGGAGATGGTGGCG
14612105 GTGTCGGTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.12, G:0.37, T:0.26
Consensus pattern (45 bp):
CTCCTATTGAAGTCGGAGAACAAGAAGTTGTTGGAGATGGTGGCG
Found at i:14613081 original size:69 final size:69
Alignment explanation
Indices: 14612970--14613103 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 69
14612960 TGGTATATAT
* *
14612970 GGGTCCATTTGGATCCCCAGTTGGCTGTGGTGTGGTGCGGTTGGCACCTTCAAACACGCTGGAAT
1 GGGTCCATTTGGATCCCCAGTTGGCTATGGTGTGATGCGGTTGGCACCTTCAAACACGCTGGAAT
14613035 TTCA
66 TTCA
* * * *
14613039 GGGTCCATTTGGATCCCCAGTTGGCTATGGTGTGATGGGGTTGGCATCTTCAATCATGCTGGAAT
1 GGGTCCATTTGGATCCCCAGTTGGCTATGGTGTGATGCGGTTGGCACCTTCAAACACGCTGGAAT
14613104 CTCGATCACT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.16, C:0.21, G:0.32, T:0.31
Consensus pattern (69 bp):
GGGTCCATTTGGATCCCCAGTTGGCTATGGTGTGATGCGGTTGGCACCTTCAAACACGCTGGAAT
TTCA
Found at i:14613393 original size:21 final size:21
Alignment explanation
Indices: 14613360--14613416 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
14613350 ATTTTAACAT
14613360 TAAT-TTTAA-TTTATCATTA
1 TAATATTTAATTTTATCATTA
**
14613379 TAATATTTAATTTTATTTTTA
1 TAATATTTAATTTTATCATTA
*
14613400 TAATAATTAATTTTATC
1 TAATATTTAATTTTATC
14613417 GTCATCATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.12
20 5 0.16
21 23 0.72
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATATTTAATTTTATCATTA
Found at i:14617901 original size:26 final size:25
Alignment explanation
Indices: 14617846--14617901 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
14617836 TCTCACCTAA
*
14617846 AAATTTTATAAAAATTTACCATTTG
1 AAATTTTATAAAAATTTACCATTGG
* *
14617871 AAATTTT-TATAAATTTCATCATTGG
1 AAATTTTATAAAAATTT-ACCATTGG
14617896 ATAATT
1 A-AATT
14617902 AATATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (25 bp):
AAATTTTATAAAAATTTACCATTGG
Found at i:14617920 original size:205 final size:204
Alignment explanation
Indices: 14617554--14617939 Score: 464
Period size: 205 Copynumber: 1.9 Consensus size: 204
14617544 ATTTTATTAT
**
14617554 TTTGAAAAAAATATAATTATTTGTATTAAAATTTCATCTAAATCATTCCACCGTTTGAGCCAAAT
1 TTTGAAAAAAATATAATTATTTGTATTAAAATTTCATCTAAATCATTCCACAATTTGAGCCAAAT
* * *
14617619 TTAGATAAAATTTCTCACCTAGAAATTTCTTAAGAACTCACCATTTGAAATTTCTAGGAATCTCA
66 TTAGA-AAAATTTCTCACCTAAAAATTTCTTAAAAACTCACCATTTGAAATTTCTAGAAATCTCA
* **
14617684 TCCTTGAGTAATTTGTATTTAATTCCAAAATTTTTATATTT-TTATGTTTTTTTATATATTTTTT
130 TCATTGAGTAATTAATATTTAATTCCAAAATTTTTATATTTATTAT-TTTTTTTATATATTTTTT
14617748 AATTTTTTTGA
194 AATTTTTTTGA
* * *
14617759 TTTGAAAATAAATATTAATTA-TTGTTATTGAAACTTT-ATCTAAATTATTCTACAATTT-AGGC
1 TTTGAAAA-AAATA-TAATTATTTG-TATT-AAAATTTCATCTAAATCATTCCACAATTTGA-GC
* * * * *
14617821 CAAATTTAG-ACAATTTCTCACCTAAAAATTT-TATAAAAATTTACCATTTGAAATTTTTATAAA
61 CAAATTTAGAAAAATTTCTCACCTAAAAATTTCT-TAAAAACTCACCATTTGAAATTTCTAGAAA
* *
14617884 TTTCATCATTG-GATAATTAATATTT-ATTCTCAAAATTTTTATTTTTATTATTTTTT
125 TCTCATCATTGAG-TAATTAATATTTAATTC-CAAAATTTTTATATTTATTATTTTTT
14617940 AATTAAATTA
Statistics
Matches: 154, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
204 6 0.04
205 91 0.59
206 13 0.08
207 38 0.25
208 6 0.04
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.47
Consensus pattern (204 bp):
TTTGAAAAAAATATAATTATTTGTATTAAAATTTCATCTAAATCATTCCACAATTTGAGCCAAAT
TTAGAAAAATTTCTCACCTAAAAATTTCTTAAAAACTCACCATTTGAAATTTCTAGAAATCTCAT
CATTGAGTAATTAATATTTAATTCCAAAATTTTTATATTTATTATTTTTTTTATATATTTTTTAA
TTTTTTTGA
Found at i:14618012 original size:13 final size:13
Alignment explanation
Indices: 14617981--14618022 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
14617971 AAATAAATAC
*
14617981 ATAAATAAAAAGAA
1 ATAATTAAAAA-AA
14617995 ATAATTAAAAAAA
1 ATAATTAAAAAAA
*
14618008 TTAATTAAAAAAA
1 ATAATTAAAAAAA
14618021 AT
1 AT
14618023 CAAAAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
ATAATTAAAAAAA
Found at i:14618801 original size:19 final size:20
Alignment explanation
Indices: 14618777--14618823 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
14618767 AGAAACCAAG
*
14618777 AAAATAAAAAATAAAAC-CA
1 AAAATAAAAAATAAAACTAA
*
14618796 AAAAT-AAAAGTAAAACTAA
1 AAAATAAAAAATAAAACTAA
14618815 AAAATAAAA
1 AAAATAAAA
14618824 TTGGGCCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 11 0.46
20 3 0.12
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.13
Consensus pattern (20 bp):
AAAATAAAAAATAAAACTAA
Found at i:14619142 original size:75 final size:75
Alignment explanation
Indices: 14619052--14619203 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
14619042 TTTGAAAGGT
14619052 GATAAAGGTTGGGTTTTAGATTCAACTGCTATAGTCCATGTTTGTAATGATTGGAGTTGTTTTGT
1 GATAAAGGTTGGGTTTTAGATTCAACTGCTATAGTCCATGTTTGTAATGATTGGAGTTGTTTTGT
14619117 GGAATTAGAA
66 GGAATTAGAA
14619127 GATAAAGGTTGGGTTTTAGATTCAACTGCTATAGTCCATGTTTGTAATGATTGGAGTTGTTTTGT
1 GATAAAGGTTGGGTTTTAGATTCAACTGCTATAGTCCATGTTTGTAATGATTGGAGTTGTTTTGT
14619192 GGAATTAGAA
66 GGAATTAGAA
14619202 GA
1 GA
14619204 AAATGAGAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.39
Consensus pattern (75 bp):
GATAAAGGTTGGGTTTTAGATTCAACTGCTATAGTCCATGTTTGTAATGATTGGAGTTGTTTTGT
GGAATTAGAA
Found at i:14623185 original size:14 final size:15
Alignment explanation
Indices: 14623168--14623200 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14623158 TTTTTTTTTT
*
14623168 TTTATATTTTAATG-
1 TTTATATTTCAATGC
14623182 TTTATATTTCAATGC
1 TTTATATTTCAATGC
14623197 TTTA
1 TTTA
14623201 GTGAAGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTATATTTCAATGC
Found at i:14631210 original size:12 final size:12
Alignment explanation
Indices: 14631193--14631217 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14631183 CTGAAGCAAT
14631193 AACAATGATGAC
1 AACAATGATGAC
14631205 AACAATGATGAC
1 AACAATGATGAC
14631217 A
1 A
14631218 GTACGAGTTG
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:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AACAATGATGAC
Found at i:14637691 original size:37 final size:38
Alignment explanation
Indices: 14637650--14637724 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
14637640 TTCATATAGA
14637650 AACATG-AGGAAGGTGTCTTCTGTTCTCTGCCCAATTT
1 AACATGCAGGAAGGTGTCTTCTGTTCTCTGCCCAATTT
*
14637687 AACATGCAGGAAGGTGTCTTCTGTTCTCTGCCTAATTT
1 AACATGCAGGAAGGTGTCTTCTGTTCTCTGCCCAATTT
14637725 TGTTCTGCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 6 0.17
38 30 0.83
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (38 bp):
AACATGCAGGAAGGTGTCTTCTGTTCTCTGCCCAATTT
Found at i:14638051 original size:108 final size:108
Alignment explanation
Indices: 14637861--14638077 Score: 398
Period size: 108 Copynumber: 2.0 Consensus size: 108
14637851 ATTTCATTGA
*
14637861 TGCAAAATTAAATGAACGAAACAAAGTTATACCTTTCAAAAAATTAAAAAAAAATTAAGTGGGTA
1 TGCAAAATTAAATGAACGAAACAAAGTTATACCTTTCAAAAAATTAAAAAAAAAATAAGTGGGTA
*
14637926 GTTAAGTAGAGATAGGGTACAGAAATTCAAACCTGATAATATC
66 GTTAAGTAGAGACAGGGTACAGAAATTCAAACCTGATAATATC
*
14637969 TGCAAAATTAAATGAACGAAACAAAGTTATACCTTTCAAAAAATTAAAAAAAAAATAAGTGGGTG
1 TGCAAAATTAAATGAACGAAACAAAGTTATACCTTTCAAAAAATTAAAAAAAAAATAAGTGGGTA
*
14638034 GTTAAGTAGAGACAGGGTACAGAAATTCAAACTTGATAATATC
66 GTTAAGTAGAGACAGGGTACAGAAATTCAAACCTGATAATATC
14638077 T
1 T
14638078 AAGATTTAGT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (108 bp):
TGCAAAATTAAATGAACGAAACAAAGTTATACCTTTCAAAAAATTAAAAAAAAAATAAGTGGGTA
GTTAAGTAGAGACAGGGTACAGAAATTCAAACCTGATAATATC
Found at i:14642566 original size:2 final size:2
Alignment explanation
Indices: 14642561--14642627 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
14642551 AAAATGACAA
14642561 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14642603 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
14642628 TATGATATAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14648950 original size:30 final size:31
Alignment explanation
Indices: 14648916--14648990 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
14648906 TTTAATAATT
*
14648916 ATTAAAAATTTTAATATTTTATTATGA-TCA
1 ATTAAAATTTTTAATATTTTATTATGATTCA
* * * *
14648946 ATTAAATTTTTTATTTTTTTATTTTGATTCA
1 ATTAAAATTTTTAATATTTTATTATGATTCA
14648977 ATT-AAATTTTTAAT
1 ATTAAAATTTTTAAT
14648991 TGAACAAAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 31 0.84
31 6 0.16
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
ATTAAAATTTTTAATATTTTATTATGATTCA
Found at i:14649038 original size:22 final size:25
Alignment explanation
Indices: 14649013--14649069 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
14649003 TAAAACATAA
14649013 TAAAATTA-AATCAATT-AAT-TTT
1 TAAAATTATAATCAATTAAATCTTT
14649035 T-AAATTATAATCAATTAAATCTTT
1 TAAAATTATAATCAATTAAATCTTT
*
14649059 TAAAAATATAA
1 TAAAATTATAA
14649070 AAAAATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.20
22 9 0.30
23 3 0.10
24 4 0.13
25 8 0.27
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAAATTATAATCAATTAAATCTTT
Found at i:14656113 original size:17 final size:17
Alignment explanation
Indices: 14656091--14656125 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14656081 GGACTCTGTA
14656091 TGCATGGATAAAATGGC
1 TGCATGGATAAAATGGC
14656108 TGCATGGATAAAATGGC
1 TGCATGGATAAAATGGC
14656125 T
1 T
14656126 ACAAGTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (17 bp):
TGCATGGATAAAATGGC
Found at i:14656709 original size:9 final size:9
Alignment explanation
Indices: 14656687--14656718 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
14656677 TCTCCCAATG
14656687 TCAATTCC-
1 TCAATTCCA
14656695 TCAATTCCA
1 TCAATTCCA
14656704 TCAATTCCA
1 TCAATTCCA
14656713 TCAATT
1 TCAATT
14656719 AATGGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (9 bp):
TCAATTCCA
Found at i:14662668 original size:17 final size:17
Alignment explanation
Indices: 14662648--14662693 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
14662638 AAATTTAAAA
* *
14662648 TTATATCATTTTTATTT
1 TTATATCATATTTATAT
*
14662665 TTATATTATATTTATAT
1 TTATATCATATTTATAT
*
14662682 TTATATTATATT
1 TTATATCATATT
14662694 ATTATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATCATATTTATAT
Found at i:14662682 original size:19 final size:19
Alignment explanation
Indices: 14662655--14662703 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
14662645 AAATTATATC
*
14662655 ATTTTTATTTTTATATTAT
1 ATTTATATTTTTATATTAT
14662674 ATTTATA--TTTATATTAT
1 ATTTATATTTTTATATTAT
14662691 ATTATTATATTTT
1 A-T-TTATATTTT
14662704 AAATTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 11 0.44
18 1 0.04
19 11 0.44
21 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTATATTTTTATATTAT
Found at i:14663415 original size:29 final size:29
Alignment explanation
Indices: 14663356--14663438 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
14663346 ATTTGAAATG
* * *
14663356 AAAATTTATTTAGATACAAATCAAATTATA
1 AAAATTTATTTAGATA-TAATAAAAATATA
14663386 AAAATTTATTTAGATATAATAAAAATATA
1 AAAATTTATTTAGATATAATAAAAATATA
* * *
14663415 AGAGTTTATTTTA-AAATAATAAAA
1 AAAATTTA-TTTAGATATAATAAAA
14663439 TAATTCAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 26 0.57
30 20 0.43
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.37
Consensus pattern (29 bp):
AAAATTTATTTAGATATAATAAAAATATA
Found at i:14669438 original size:10 final size:10
Alignment explanation
Indices: 14669423--14669486 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
14669413 CATTTAAAAG
*
14669423 AAAATTTTAA
1 AAAATTCTAA
14669433 AAAATTCTAA
1 AAAATTCTAA
**
14669443 AATCTT-TAA
1 AAAATTCTAA
*
14669452 ACAATTCTAA
1 AAAATTCTAA
* *
14669462 AACA-TATATA
1 AAAATTCTA-A
14669472 AAAATTCTAA
1 AAAATTCTAA
14669482 AAAAT
1 AAAAT
14669487 ATTTTTTTAA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
9 9 0.22
10 28 0.70
11 3 0.08
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:14669452 original size:19 final size:19
Alignment explanation
Indices: 14669423--14669483 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
14669413 CATTTAAAAG
14669423 AAAAT-TTTAAAAAATTCT
1 AAAATCTTTAAAAAATTCT
*
14669441 AAAATCTTTAAACAATTCT
1 AAAATCTTTAAAAAATTCT
*
14669460 AAAA-CATATATAAAAATTCT
1 AAAATC-TTTA-AAAAATTCT
14669480 AAAA
1 AAAA
14669484 AATATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 6 0.16
19 19 0.51
20 12 0.32
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATCTTTAAAAAATTCT
Found at i:14669525 original size:10 final size:10
Alignment explanation
Indices: 14669512--14669701 Score: 74
Period size: 10 Copynumber: 19.4 Consensus size: 10
14669502 GAAAAGTATT
*
14669512 AAAAATTCTA
1 AAAAATTTTA
* *
14669522 AAAAGTATTA
1 AAAAATTTTA
*
14669532 AAGAATTTTGA
1 AAAAATTTT-A
*
14669543 AAAAATTAT-
1 AAAAATTTTA
**
14669552 AAATTTTTTAA
1 AAAAATTTT-A
14669563 AAAAATTTT-
1 AAAAATTTTA
*
14669572 AAAAATTCT-
1 AAAAATTTTA
*
14669581 AAAAACTTT-
1 AAAAATTTTA
*
14669590 AAAATTTTCTA
1 AAAAATTT-TA
*
14669601 AAACATTTTA
1 AAAAATTTTA
* *
14669611 AAACA--TCA
1 AAAAATTTTA
*
14669619 AAAAA-ATTA
1 AAAAATTTTA
*
14669628 AAAAATTAT-
1 AAAAATTTTA
* *
14669637 CAAAA-TTCA
1 AAAAATTTTA
14669646 AAATAATTTTA
1 AAA-AATTTTA
*
14669657 AAATATTTTA
1 AAAAATTTTA
*
14669667 AAATATTTTTA
1 AAA-AATTTTA
* *
14669678 AAAACTTCTA
1 AAAAATTTTA
*
14669688 AAAATTTTTA
1 AAAAATTTTA
14669698 AAAA
1 AAAA
14669702 TAATTTGAAA
Statistics
Matches: 132, Mismatches: 37, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
8 7 0.05
9 40 0.30
10 50 0.38
11 35 0.27
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:14669527 original size:19 final size:19
Alignment explanation
Indices: 14669503--14669603 Score: 64
Period size: 19 Copynumber: 5.2 Consensus size: 19
14669493 TTAAAAAAAG
14669503 AAAAGTATTAAAAATTCTA
1 AAAAGTATTAAAAATTCTA
*
14669522 AAAAGTATTAAAGAATTTTGA
1 AAAAGTATTAAA-AATTCT-A
* *
14669543 AAAA--ATTATAAATTTTTTAA
1 AAAAGTATTA-AAA-ATTCT-A
* *
14669563 AAAAATTTTAAAAATTCTA
1 AAAAGTATTAAAAATTCTA
* *
14669582 AAAACT-TTAAAATTTTCTA
1 AAAAGTATTAAAA-ATTCTA
14669601 AAA
1 AAA
14669604 CATTTTAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
18 6 0.09
19 31 0.46
20 19 0.28
21 8 0.12
22 3 0.04
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (19 bp):
AAAAGTATTAAAAATTCTA
Found at i:14669564 original size:81 final size:79
Alignment explanation
Indices: 14669418--14669571 Score: 177
Period size: 80 Copynumber: 1.9 Consensus size: 79
14669408 CATCACATTT
* * *
14669418 AAAAGAAAATTTTAAAAAATTCTAAAATCTTTAAACAATTCTAAAACATATATAAAAATTCTAAA
1 AAAAGAAAATATTAAAAAATTCTAAAAACTTTAAACAATTCTAAAAAATATATAAAAATTCTAAA
14669483 AAATATTTTTTTAAA
66 AAA-ATTTTTTTAAA
* * * ** *
14669498 AAAAGAAAAGTATT-AAAAATTCTAAAAAGTATTAAAGAATTTTGAAAAAAT-TATAAATTTTTT
1 AAAAGAAAA-TATTAAAAAATTCTAAAAACT-TTAAACAATTCT-AAAAAATATATAAAAATTCT
14669561 AAAAAAATTTT
63 AAAAAAATTTT
14669572 AAAAATTCTA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
80 28 0.45
81 28 0.45
82 6 0.10
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (79 bp):
AAAAGAAAATATTAAAAAATTCTAAAAACTTTAAACAATTCTAAAAAATATATAAAAATTCTAAA
AAAATTTTTTTAAA
Found at i:14669583 original size:20 final size:19
Alignment explanation
Indices: 14669423--14669702 Score: 92
Period size: 20 Copynumber: 13.7 Consensus size: 19
14669413 CATTTAAAAG
14669423 AAAATTTTAAAAAATTCT--
1 AAAATTTT-AAAAATTCTAA
14669441 AAAATCTTTAAACAATTCTAA
1 AAAAT-TTTAAA-AATTCTAA
* *
14669462 AACATATATAAAAATTCTAAA
1 AAAAT-TTTAAAAATTCT-AA
14669483 AAATATTTTTTTAAAAA----AA
1 AAA-A---TTTTAAAAATTCTAA
*
14669502 GAAAAGTATTAAAAATTCTAA
1 -AAAA-TTTTAAAAATTCTAA
* * *
14669523 AAAGTATTAAAGAATTTTGAA
1 AAAATTTTAAA-AATTCT-AA
* ** *
14669544 AAAATTATAAATTTTTTAAA
1 AAAATTTTAAAAATTCT-AA
14669564 AAAATTTTAAAAATTCT-A
1 AAAATTTTAAAAATTCTAA
* *
14669582 AAAACTTTAAAATTTTCTAA
1 AAAATTTTAAAA-ATTCTAA
* *
14669602 AACATTTTAAAACA-TCAAA
1 AAAATTTTAAAA-ATTCTAA
14669621 AAAATTAAAAAATTATCAAAATTC-AA
1 AAAATT------TTA--AAAATTCTAA
*
14669647 AATAATTTTAAAATATTTTAA
1 AA-AATTTTAAAA-ATTCTAA
*
14669668 AATATTTTTAAAAACTTCTAA
1 AA-AATTTTAAAAA-TTCTAA
*
14669689 AAATTTTTAAAAAT
1 AAAATTTTAAAAAT
14669703 AATTTGAAAA
Statistics
Matches: 201, Mismatches: 30, Indels: 61
0.69 0.10 0.21
Matches are distributed among these distances:
17 8 0.04
18 20 0.10
19 36 0.18
20 62 0.31
21 49 0.24
22 1 0.00
24 7 0.03
25 4 0.02
26 5 0.02
27 9 0.04
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAATTTTAAAAATTCTAA
Found at i:14669659 original size:11 final size:11
Alignment explanation
Indices: 14669645--14669713 Score: 63
Period size: 10 Copynumber: 6.5 Consensus size: 11
14669635 ATCAAAATTC
14669645 AAAATAATTTT
1 AAAATAATTTT
14669656 AAAAT-ATTTT
1 AAAATAATTTT
*
14669666 AAAATATTTTT
1 AAAATAATTTT
* *
14669677 AAAA-ACTTCT
1 AAAATAATTTT
*
14669687 AAAA-ATTTTT
1 AAAATAATTTT
*
14669697 AAAAATAATTTG
1 -AAAATAATTTT
14669709 AAAAT
1 AAAAT
14669714 TTGAAAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
10 22 0.46
11 22 0.46
12 4 0.08
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:14669702 original size:10 final size:10
Alignment explanation
Indices: 14669652--14669741 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
14669642 TTCAAAATAA
14669652 TTTT-AAAAT
1 TTTTAAAAAT
14669661 ATTTTAAAATAT
1 -TTTTAAAA-AT
*
14669673 TTTTAAAAAC
1 TTTTAAAAAT
*
14669683 TTCTAAAAAT
1 TTTTAAAAAT
14669693 TTTTAAAAAT
1 TTTTAAAAAT
* *
14669703 AATTTGAAAA-
1 -TTTTAAAAAT
*
14669713 -TTTGAAAAT
1 TTTTAAAAAT
**
14669722 TTTTTTAAAT
1 TTTTAAAAAT
14669732 TTCTTAAAAA
1 TT-TTAAAAA
14669742 ATTCTAAACA
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
8 8 0.12
10 31 0.48
11 23 0.36
12 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:14670065 original size:18 final size:18
Alignment explanation
Indices: 14670015--14670066 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
14670005 TTTTCAAAAA
* *
14670015 TTAAAAAATTTCAAAATT
1 TTAAAAAATATAAAAATT
* *
14670033 TTGAAATATTATAAAAATT
1 TT-AAAAAATATAAAAATT
*
14670052 TTAAAAAATCTAAAA
1 TTAAAAAATATAAAA
14670067 TATAAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (18 bp):
TTAAAAAATATAAAAATT
Found at i:14670088 original size:16 final size:17
Alignment explanation
Indices: 14670047--14670093 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
14670037 AATATTATAA
14670047 AAATTTT-AAAAAATCT
1 AAATTTTAAAAAAATCT
* *
14670063 AAAATATAAAAAAAT-T
1 AAATTTTAAAAAAATCT
14670079 AAATTTTAAATAAAA
1 AAATTTTAAA-AAAA
14670094 ATCCAAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTTTAAAAAAATCT
Found at i:14670221 original size:7 final size:7
Alignment explanation
Indices: 14670211--14670244 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
14670201 TTTTCAAAAA
14670211 AATTTTG
1 AATTTTG
14670218 AATTTTG
1 AATTTTG
14670225 AATTTTG
1 AATTTTG
14670232 AATTTTG
1 AATTTTG
14670239 AATTTT
1 AATTTT
14670245 TCTTTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
AATTTTG
Found at i:14670423 original size:19 final size:19
Alignment explanation
Indices: 14670395--14670438 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14670385 AAAAATTTTT
*
14670395 ATTTTAAAATTTTTCAAAA
1 ATTTTTAAATTTTTCAAAA
* *
14670414 ATTTTTAAATTTTTCTAGA
1 ATTTTTAAATTTTTCAAAA
14670433 ATTTTT
1 ATTTTT
14670439 TTAAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTTTAAATTTTTCAAAA
Found at i:14671009 original size:19 final size:19
Alignment explanation
Indices: 14670985--14671046 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
14670975 TATTTAAAAG
14670985 AAAATTTTTTAAAAATTCT
1 AAAATTTTTTAAAAATTCT
14671004 AAAA-TTTTTAAACAATTCT
1 AAAATTTTTTAAA-AATTCT
* *
14671023 AAAATATATATAAAAATTCT
1 AAAAT-TTTTTAAAAATTCT
14671043 AAAA
1 AAAA
14671047 AAAATTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 8 0.21
19 14 0.37
20 10 0.26
21 6 0.16
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTTTTAAAAATTCT
Found at i:14671086 original size:10 final size:10
Alignment explanation
Indices: 14671071--14671245 Score: 69
Period size: 10 Copynumber: 17.8 Consensus size: 10
14671061 AAGAAACGTA
14671071 TTAAAAATTT
1 TTAAAAATTT
14671081 TTAAAAA-TT
1 TTAAAAATTT
* *
14671090 CTAAAAA-CT
1 TTAAAAATTT
14671099 TTAAAAATTT
1 TTAAAAATTT
* *
14671109 CTAAAAAATT
1 TTAAAAATTT
*
14671119 TT-AAAACTT
1 TTAAAAATTT
** * *
14671128 CAAAAAACTA
1 TTAAAAATTT
14671138 TTAAAAA-TT
1 TTAAAAATTT
* *
14671147 ATAAAAA-TC
1 TTAAAAATTT
*
14671156 CTAAATAA-TT
1 TTAAA-AATTT
*
14671166 CTATAAAATTT
1 TTA-AAAATTT
14671177 TT-AAAATTT
1 TTAAAAATTT
*
14671186 TTTAAAATTT
1 TTAAAAATTT
* **
14671196 ATAAAAAATAA
1 -TTAAAAATTT
14671207 TT-AAAATTT
1 TTAAAAATTT
*
14671216 CTCAAAAATTTT
1 -TTAAAAA-TTT
*
14671228 TTAAAAACTT
1 TTAAAAATTT
*
14671238 GTAAAAAT
1 TTAAAAAT
14671246 AATTTTTAAT
Statistics
Matches: 124, Mismatches: 31, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
9 47 0.38
10 53 0.43
11 21 0.17
12 3 0.02
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.39
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:14671094 original size:19 final size:19
Alignment explanation
Indices: 14671072--14671202 Score: 104
Period size: 19 Copynumber: 6.8 Consensus size: 19
14671062 AGAAACGTAT
14671072 TAAAAATTTTTAAAAATTC
1 TAAAAATTTTTAAAAATTC
*
14671091 TAAAAA-CTTTAAAAATTTC
1 TAAAAATTTTTAAAAA-TTC
* *
14671110 TAAAAAATTTTAAAACTTC
1 TAAAAATTTTTAAAAATTC
* * * *
14671129 AAAAAACTATTAAAAATTA
1 TAAAAATTTTTAAAAATTC
**
14671148 TAAAAA-TCCTAAATAATTC
1 TAAAAATTTTTAAA-AATTC
* *
14671167 TATAAAATTTTTAAAATTTT
1 TA-AAAATTTTTAAAAATTC
* *
14671187 TTAAAATTTATAAAAA
1 TAAAAATTTTTAAAAA
14671203 ATAATTAAAA
Statistics
Matches: 88, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
18 13 0.15
19 55 0.62
20 15 0.17
21 5 0.06
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATTTTTAAAAATTC
Found at i:14671462 original size:27 final size:27
Alignment explanation
Indices: 14671422--14671498 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
14671412 GGAAAATTTT
14671422 AAAAATTCTGAAAATTTCTTAAAAAATAA
1 AAAAATTC--AAAATTTCTTAAAAAATAA
**** ** *
14671451 AAAAATTCAAAAAAAGTTAAAATTTAT
1 AAAAATTCAAAATTTCTTAAAAAATAA
14671478 AAAAATT-AAAATTTCTTAAAA
1 AAAAATTCAAAATTTCTTAAAA
14671499 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
26 10 0.27
27 19 0.51
29 8 0.22
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (27 bp):
AAAAATTCAAAATTTCTTAAAAAATAA
Found at i:14671497 original size:17 final size:17
Alignment explanation
Indices: 14671432--14671498 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
14671422 AAAAATTCTG
* *
14671432 AAAATTTCTTAAAAAATAA
1 AAAATTTCAT-AAAAAT-T
* *
14671451 AAAAATTCAAAAAAAGTT
1 AAAATTTCATAAAAA-TT
14671469 AAAATTT-ATAAAAATT
1 AAAATTTCATAAAAATT
*
14671485 AAAATTTCTTAAAA
1 AAAATTTCATAAAA
14671499 TTTTAAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
16 9 0.23
17 11 0.28
18 11 0.28
19 8 0.21
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (17 bp):
AAAATTTCATAAAAATT
Found at i:14671882 original size:16 final size:17
Alignment explanation
Indices: 14671851--14671883 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14671841 TAAAATCATC
*
14671851 ATTTTTTTATTCTTTTA
1 ATTTTTTAATTCTTTTA
14671868 ATTTTTTAATT-TTTTA
1 ATTTTTTAATTCTTTTA
14671884 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTAATTCTTTTA
Found at i:14671906 original size:17 final size:18
Alignment explanation
Indices: 14671870--14671911 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
14671860 TTCTTTTAAT
*
14671870 TTTTTAATTTTTTATTGAA
1 TTTTTAATTTTCTA-TGAA
14671889 TTTTTAATTTTCTA-GAA
1 TTTTTAATTTTCTATGAA
14671906 TTTTTA
1 TTTTTA
14671912 GAAATTTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
19 13 0.59
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTAATTTTCTATGAA
Found at i:14671908 original size:69 final size:69
Alignment explanation
Indices: 14671831--14671985 Score: 167
Period size: 69 Copynumber: 2.2 Consensus size: 69
14671821 AACAAAGTTT
* * * *
14671831 TAAAAATTTTTA-AAATCATC-ATTTTTTTAT-TCTTTTAATTTTTTAATTTTTTATTGAA-TTT
1 TAAAAATTTTTAGAAAT-ATCGATTTTTTGATATC--TTAATTTTTAAAATTTTTA--AAATTTT
14671892 TTAATTTTC
61 TTAATTTTC
* *
14671901 T-AGAATTTTTAGAAATTTCGATTTTTTGATATCTTAATTTTTAAAATTTTTAAAATTTTTTAAT
1 TAAAAATTTTTAGAAATATCGATTTTTTGATATCTTAATTTTTAAAATTTTTAAAATTTTTTAAT
14671965 TTTC
66 TTTC
*
14671969 TAAAAATTTTTTGAAAT
1 TAAAAATTTTTAGAAAT
14671986 TATTTTAAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
67 2 0.03
68 13 0.18
69 41 0.57
70 14 0.19
71 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.59
Consensus pattern (69 bp):
TAAAAATTTTTAGAAATATCGATTTTTTGATATCTTAATTTTTAAAATTTTTAAAATTTTTTAAT
TTTC
Found at i:14671959 original size:8 final size:9
Alignment explanation
Indices: 14671936--14672143 Score: 87
Period size: 9 Copynumber: 21.6 Consensus size: 9
14671926 TTGATATCTT
14671936 AATTTTTAA
1 AATTTTTAA
14671945 AATTTTTAA
1 AATTTTTAA
*
14671954 AATTTTT-T
1 AATTTTTAA
14671962 AATTTTCTAAA
1 AATTTT-T-AA
14671973 AATTTTTTGAA
1 AA-TTTTT-AA
*
14671984 ATTATTTTAA
1 AAT-TTTTAA
* *
14671994 AGTTTTTAG
1 AATTTTTAA
14672003 AATTTTTGAAA
1 AATTTTT--AA
*
14672014 AATTTTTAT
1 AATTTTTAA
*
14672023 AATTTTAAAA
1 AATTTT-TAA
*
14672033 AATTTTTCAT
1 AATTTTT-AA
*
14672043 ATTTTTTAGA
1 AATTTTTA-A
** *
14672053 TTTTTTTTGA
1 -AATTTTTAA
*
14672063 ATTTTTTAA
1 AATTTTTAA
*
14672072 AGTTTTTAA
1 AATTTTTAA
* **
14672081 TATTTTTTT
1 AATTTTTAA
14672090 AATTTTTAAA
1 AATTTTT-AA
14672100 AATTTTT-A
1 AATTTTTAA
* *
14672108 GATTCTTTATTTG
1 AATT-TTTA---A
14672121 AATTTTTAA
1 AATTTTTAA
*
14672130 AATTTTTTA
1 AATTTTTAA
14672139 AATTT
1 AATTT
14672144 AAAAAAAATT
Statistics
Matches: 150, Mismatches: 32, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
8 10 0.07
9 78 0.52
10 27 0.18
11 24 0.16
12 8 0.05
13 3 0.02
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (9 bp):
AATTTTTAA
Found at i:14671979 original size:20 final size:19
Alignment explanation
Indices: 14671936--14672050 Score: 101
Period size: 20 Copynumber: 5.9 Consensus size: 19
14671926 TTGATATCTT
*
14671936 AATTTTTAAAATTTTT-AA
1 AATTTTTATAATTTTTAAA
14671954 AATTTTT-TAATTTTCTAAA
1 AATTTTTATAATTTT-TAAA
*
14671973 AATTTTT-TGAAATTATTTTAA
1 AATTTTTAT--AATT-TTTAAA
* *
14671994 AGTTTTTAGAATTTTTGAAA
1 AATTTTTATAATTTTT-AAA
*
14672014 AATTTTTATAATTTTAAAA
1 AATTTTTATAATTTTTAAA
*
14672033 AATTTTTCATATTTTTTA
1 AATTTTT-ATAATTTTTA
14672051 GATTTTTTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
17 6 0.08
18 8 0.10
19 23 0.29
20 27 0.34
21 13 0.16
22 2 0.03
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (19 bp):
AATTTTTATAATTTTTAAA
Found at i:14672078 original size:20 final size:20
Alignment explanation
Indices: 14671947--14672072 Score: 93
Period size: 21 Copynumber: 6.4 Consensus size: 20
14671937 ATTTTTAAAA
14671947 TTTTT-AAAATTTTTT-AAT
1 TTTTTAAAAATTTTTTGAAT
*
14671965 TTTCTAAAAATTTTTTGAAAT
1 TTTTTAAAAATTTTTTG-AAT
* *
14671986 TATTTT-AAAGTTTTTAGAAT
1 T-TTTTAAAAATTTTTTGAAT
*
14672006 TTTTGAAAAATTTTTAT-AA-
1 TTTTTAAAAATTTTT-TGAAT
* *
14672025 -TTTTAAAAAATTTTTCATAT
1 TTTTTAAAAATTTTTTGA-AT
* **
14672045 TTTTTAGATTTTTTTTGAAT
1 TTTTTAAAAATTTTTTGAAT
14672065 TTTTTAAA
1 TTTTTAAA
14672073 GTTTTTAATA
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
17 1 0.01
18 17 0.20
19 14 0.17
20 23 0.28
21 25 0.30
22 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTTAAAAATTTTTTGAAT
Found at i:14672106 original size:20 final size:20
Alignment explanation
Indices: 14671938--14672179 Score: 89
Period size: 20 Copynumber: 12.2 Consensus size: 20
14671928 GATATCTTAA
*
14671938 TTTTTAAAATTTTT-AAAA-
1 TTTTTATAATTTTTAAAAAT
14671956 TTTTT-TAATTTTCTAAAAAT
1 TTTTTATAATTTT-TAAAAAT
* *
14671976 TTTTTGA-AATTATTT-TAAAG
1 TTTTT-ATAATT-TTTAAAAAT
*
14671996 TTTTTAGAATTTTTGAAAAA-
1 TTTTTATAATTTTT-AAAAAT
*
14672016 TTTTTATAATTTTAAAAAAT
1 TTTTTATAATTTTTAAAAAT
* * *
14672036 TTTTCAT-ATTTTT-TAGAT
1 TTTTTATAATTTTTAAAAAT
* * *
14672054 TTTTTTTGAATTTTTTAAAGT
1 TTTTTAT-AATTTTTAAAAAT
* **
14672075 TTTTAAT-ATTTTT-TTAAT
1 TTTTTATAATTTTTAAAAAT
* * *
14672093 TTTTAAAAATTTTT--AGAT
1 TTTTTATAATTTTTAAAAAT
*
14672111 TCTTTATTTGAATTTTT-AAAAT
1 T-TTT-TAT-AATTTTTAAAAAT
**
14672133 TTTTTA-AATTTAAAAAAAAT
1 TTTTTATAATTT-TTAAAAAT
* *
14672153 TATTTTAGAATTTTTAGAATAT
1 T-TTTTATAATTTTTA-AAAAT
14672175 TTTTT
1 TTTTT
14672180 TGAAAATTTT
Statistics
Matches: 168, Mismatches: 33, Indels: 43
0.69 0.14 0.18
Matches are distributed among these distances:
17 6 0.04
18 30 0.18
19 33 0.20
20 48 0.29
21 35 0.21
22 16 0.10
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTTATAATTTTTAAAAAT
Found at i:14672263 original size:29 final size:29
Alignment explanation
Indices: 14672230--14672290 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
14672220 TTTTGAATTC
*
14672230 TTTGAATT-TTTTAGAAAATTTTAAATTTT
1 TTTGAATTCTTTTAG-AAATTTTAAATATT
*
14672259 TTTGAATTCTTTTAGAATTTTTAAATATT
1 TTTGAATTCTTTTAGAAATTTTAAATATT
14672288 TTT
1 TTT
14672291 CTTTTAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (29 bp):
TTTGAATTCTTTTAGAAATTTTAAATATT
Found at i:14672855 original size:84 final size:84
Alignment explanation
Indices: 14672706--14672872 Score: 271
Period size: 84 Copynumber: 2.0 Consensus size: 84
14672696 AGAAACACAT
* * * *
14672706 ATAAGAGGGTTATGTTCAATTGTGGTGCCATAAAAATCTTGGCAATGTCAAGAACATAAAACATA
1 ATAAAAGGGTCATGTTCAACTGTGGTGCCATAAAAATCTTGGCAATGTCAACAACATAAAACATA
14672771 TATCCATTTTTATATTTAG
66 TATCCATTTTTATATTTAG
* *
14672790 ATAAAAGGGTCATGTTCAACTGTGGTGCCATAAAAATCTTGGCAATGTCAACAATATAAAGCATA
1 ATAAAAGGGTCATGTTCAACTGTGGTGCCATAAAAATCTTGGCAATGTCAACAACATAAAACATA
*
14672855 TATTCATTTTTATATTTA
66 TATCCATTTTTATATTTA
14672873 TATGTATATC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 76 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (84 bp):
ATAAAAGGGTCATGTTCAACTGTGGTGCCATAAAAATCTTGGCAATGTCAACAACATAAAACATA
TATCCATTTTTATATTTAG
Found at i:14673996 original size:18 final size:18
Alignment explanation
Indices: 14673973--14674013 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
14673963 TATATATGAT
14673973 ATTAAGAAGTGGATGGAA
1 ATTAAGAAGTGGATGGAA
14673991 ATTAAGAAGTGGATGGAA
1 ATTAAGAAGTGGATGGAA
14674009 ATTAA
1 ATTAA
14674014 AATAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.24
Consensus pattern (18 bp):
ATTAAGAAGTGGATGGAA
Found at i:14676262 original size:2 final size:2
Alignment explanation
Indices: 14676255--14676289 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14676245 TCGAATATCC
14676255 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14676290 TTTACTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14676747 original size:30 final size:31
Alignment explanation
Indices: 14676713--14676779 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
14676703 TTTAATAATT
14676713 ATTAAAAATTTTAATATTTTATTATGA-TCA
1 ATTAAAAATTTTAATATTTTATTATGATTCA
** * * *
14676743 ATTAAATTTTTTATTTTTTTATTTTGATTCA
1 ATTAAAAATTTTAATATTTTATTATGATTCA
14676774 ATTAAA
1 ATTAAA
14676780 TTTTTATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (31 bp):
ATTAAAAATTTTAATATTTTATTATGATTCA
Found at i:14676832 original size:31 final size:30
Alignment explanation
Indices: 14676797--14676854 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
14676787 TGAACAAACC
14676797 TTAAAACATAATAAAATTAAATCATTAATTT
1 TTAAAACATAAT-AAATTAAATCATTAATTT
** * *
14676828 TTAAATTATAATCAATTAAATCTTTAA
1 TTAAAACATAATAAATTAAATCATTAA
14676855 AAATATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 13 0.57
31 10 0.43
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (30 bp):
TTAAAACATAATAAATTAAATCATTAATTT
Found at i:14690010 original size:30 final size:31
Alignment explanation
Indices: 14689965--14690026 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
14689955 TAGATGTTAG
*
14689965 GGATGATTATAGTTTTGATATTATTTATTAA
1 GGATCATTATAGTTTTGATATTATTTATTAA
*
14689996 GGATCATT-TAGTTTTGATATTATTTGTTAA
1 GGATCATTATAGTTTTGATATTATTTATTAA
14690026 G
1 G
14690027 TAAAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.52
Consensus pattern (31 bp):
GGATCATTATAGTTTTGATATTATTTATTAA
Found at i:14691843 original size:42 final size:42
Alignment explanation
Indices: 14691781--14691867 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
14691771 ATAACATTTC
* * *
14691781 TTATTATTAATACCAGACACTGCCTTGAAAAAAAGAAAACAT
1 TTATTATTAATAACAAACACTCCCTTGAAAAAAAGAAAACAT
* * *
14691823 TTATTATTGATAACAAACACTCCCTTGAAAAACAGAAAGCAT
1 TTATTATTAATAACAAACACTCCCTTGAAAAAAAGAAAACAT
14691865 TTA
1 TTA
14691868 AACTTCCTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (42 bp):
TTATTATTAATAACAAACACTCCCTTGAAAAAAAGAAAACAT
Found at i:14693144 original size:18 final size:19
Alignment explanation
Indices: 14693123--14693158 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14693113 AAAATTTTAT
14693123 ATTTTTATT-ATATTTAAA
1 ATTTTTATTAATATTTAAA
*
14693141 ATTTTTTTTAATATTTAA
1 ATTTTTATTAATATTTAA
14693159 TTTGTACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTATTAATATTTAAA
Found at i:14693911 original size:28 final size:28
Alignment explanation
Indices: 14693866--14693927 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
14693856 GAAATAAAAA
*
14693866 TTAATATGTTTAACTTTATTATTTACTT
1 TTAATATGTTTAACTTTATCATTTACTT
** *
14693894 TTAATATGTTTAGTTTTATCATTTATTT
1 TTAATATGTTTAACTTTATCATTTACTT
14693922 TTAATA
1 TTAATA
14693928 AACAAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (28 bp):
TTAATATGTTTAACTTTATCATTTACTT
Found at i:14694232 original size:2 final size:2
Alignment explanation
Indices: 14694227--14694270 Score: 65
Period size: 2 Copynumber: 22.5 Consensus size: 2
14694217 CAAACTTGAA
14694227 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AGT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
14694268 AT A
1 AT A
14694271 ATGATATTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 36 0.92
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14696283 original size:306 final size:302
Alignment explanation
Indices: 14695398--14696321 Score: 817
Period size: 306 Copynumber: 3.0 Consensus size: 302
14695388 TTTGGTAGAG
* * * * * * **
14695398 AAATGCCCTCAATAATCCATA-AAAGAAATATGGAACCGATTCT-TGAAGATATTTTTGGCTGAA
1 AAATGCCCTTAATAATCCATAGGAA-AAATATGAAACAGATT-TGTGAAGGTGTTTTTGGCCAAA
** * * ** * * *
14695461 CTCACCTTCAATAATCCAATCAATAAACTTTTAGTTTGGATTATTAAAGGCGATTTTTGTCAAAA
64 AGCGCCTTCAATAATCCAATCAATAAATTTTTAAATTAGATTATTGAAGGTGATTTTTGTCAAAA
* *
14695526 ATGCCTTCAATAATCCATAC-ACAAGTT-GAAACGGATTCTTGAAGGCGTTTTTGGCTCAAAATG
129 ATGCCTTCAATAATCCATACAAAAAGTTGGAAA-GGATTCTTGAAGGCGTTTTTGTC-CAAAATG
* * * *
14695589 CCTTTAATATTTCACACGATAAATTTAAATT-GTTGGATTATTGAAGGCAGTTTTTA-TAAAAAA
192 CCTTTAATATTCCACACAATAAATTT---TTAGTAGGATTATTGAAGG-AGATTTTAGTAAAAAA
* * * * *** ** *
14695652 ATGCCTTCAATAACATGTTGTTAGGGATTATTCAATACGTTTTCCAGCAAAAA
253 CT-CCTTCAATAACATTTTGTTAAGGATAATTCAAGGTGTTTTCTTGC--TAA
*
14695705 AAATGCCCTTAATAATCCATAGGAAAAATATGGAACAGATTTGTGAAGGTGTTTTTGGCCAAAAG
1 AAATGCCCTTAATAATCCATAGGAAAAATATGAAACAGATTTGTGAAGGTGTTTTTGGCCAAAAG
* * * * * * * **
14695770 TGCCTTCAATAATCCATTCAATTAATTTTT-AGTTGATATTATTGAAGGTAATTTTTTTTTTTTA
66 CGCCTTCAATAATCCAATCAATAAATTTTTAAATT-AGATTATTGAAGGTGA---TTTTTGTCAA
* * * * *
14695834 AAATGCCTTCAATAATCCATACAAAAAAGTTGGAATGGATTATTGAAGGCATTTTTTATCCTAAA
127 AAATGCCTTCAATAATCCATAC-AAAAAGTTGGAAAGGATTCTTGAAGGC-GTTTTTGTCCAAAA
* * * * *
14695899 TGCCCTTAATATTCTACACAATAAATTTTTAGGTGGGATTATTGAA-GATAGTTTTGGTAAAAAA
190 TGCCTTTAATATTCCACACAATAAATTTTTA-GTAGGATTATTGAAGGAGA-TTTTAGTAAAAAA
*
14695963 CTCCTTAAATAACATTTTGTTAAGGATAATTCAAGGTGTTTTCTTGCTAA
253 CTCCTTCAATAACATTTTGTTAAGGATAATTCAAGGTGTTTTCTTGCTAA
* ** *** **
14696013 ATATGCCCTTAATTTGTTTGTAGGAAAAATATGAAAC-GAATTCT-TGAAGGTGTTTTTAGG-TG
1 AAATGCCCTTAA-TAATCCATAGGAAAAATATGAAACAG-ATT-TGTGAAGGTGTTTTT-GGCCA
* * *
14696075 AAAGCGCCTTTAATAATCCAATCAATAAATTTTTAAAATAGATTATTGAAGGTGGTTTTTGTCAA
62 AAAGCGCCTTCAATAATCCAATCAATAAATTTTTAAATTAGATTATTGAAGGTGATTTTTGTCAA
* * * *
14696140 AAATACCTTCAATAATCCATACAAAATATTTGGAAAGGATTCTTAAAGGCGTTTTTGTCCCAAAT
127 AAATGCCTTCAATAATCCATACAAAA-AGTTGGAAAGGATTCTTGAAGGCGTTTTTGTCCAAAAT
* * * * *
14696205 CGCTTTTAATATTCCACATAATATATTTTTAGATAGGATTATTGAAGGGGATTTTAGTTAAAAAC
191 -GCCTTTAATATTCCACACAATAAATTTTTAG-TAGGATTATTGAAGGAGATTTTAGTAAAAAAC
* * * * * *
14696270 TCCTTCCATAACATTTTGTTACGAATGATTAAAGGTATTTTCTTGCTAA
254 TCCTTCAATAACATTTTGTTAAGGATAATTCAAGGTGTTTTCTTGCTAA
14696319 AAA
1 AAA
14696322 CGCCTTCATT
Statistics
Matches: 497, Mismatches: 97, Indels: 47
0.78 0.15 0.07
Matches are distributed among these distances:
305 17 0.03
306 143 0.29
307 89 0.18
308 16 0.03
309 80 0.16
310 75 0.15
311 21 0.04
312 47 0.09
313 9 0.02
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (302 bp):
AAATGCCCTTAATAATCCATAGGAAAAATATGAAACAGATTTGTGAAGGTGTTTTTGGCCAAAAG
CGCCTTCAATAATCCAATCAATAAATTTTTAAATTAGATTATTGAAGGTGATTTTTGTCAAAAAT
GCCTTCAATAATCCATACAAAAAGTTGGAAAGGATTCTTGAAGGCGTTTTTGTCCAAAATGCCTT
TAATATTCCACACAATAAATTTTTAGTAGGATTATTGAAGGAGATTTTAGTAAAAAACTCCTTCA
ATAACATTTTGTTAAGGATAATTCAAGGTGTTTTCTTGCTAA
Found at i:14696416 original size:35 final size:35
Alignment explanation
Indices: 14696370--14696438 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
14696360 TATATATGTC
14696370 AAGTCAGTTGTA-AGTTTATGCCCAGAAAACATTTA
1 AAGTCAGTTGTACA-TTTATGCCCAGAAAACATTTA
*
14696405 AAGTCAGTTGTACATTTATGCCTAGAAAACATTT
1 AAGTCAGTTGTACATTTATGCCCAGAAAACATTT
14696439 GGTTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (35 bp):
AAGTCAGTTGTACATTTATGCCCAGAAAACATTTA
Found at i:14700665 original size:187 final size:185
Alignment explanation
Indices: 14700351--14701853 Score: 1784
Period size: 187 Copynumber: 8.1 Consensus size: 185
14700341 GAATTGAGGG
* * * *
14700351 AATTATTGAAGGCGTTTGTTCTTAAAAAA-GCCTTCAATAATTATGTGCAAAAACTAAAAAGAAT
1 AATTATTGAAGGCGTTTGTTC-TAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAAT
* *
14700415 TAGTGAAGGTATTTTTCTGGAATAAACGCCATT-ACTAACCATCTTAAAATTTGAGTATTGAAAT
65 TAGTGAAAGTATTTTTCTAGAATAAACGCC-TTCACTAACCATCTTAAAATTTGAGTATTGAAAT
* * * *
14700479 ATTGAAAGCGTTTTTCATTAGAAGACA-CTTTTAATAATCCCATAAATTTTTAAAAGAA
129 ATTGAAGGCGTTTTTCACTAGAAGACATC-TTTAATAATCTCAAAAATTTTTAAAA-AA
*
14700537 AATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATGTATATAAATT-AAAAGAAA
1 AATTATTGAAGGCGTTTGTTCT-AAAAAATACCTTCAATAATTATGTACATAAATTAAAAAG-AA
** *
14700601 TTAGTGAAAGTATTTTT-TAAGAATAAATACCTTCACTAACCATCTTAAAATTTGAATATTGAAA
64 TTAGTGAAAGTATTTTTCT-AGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTATTGAAA
* * **
14700665 TATTGAAGGTGTTTTTCACTAGAAGAC-GCATTTAATAATCTCAAAAATTTTTTTTAAAA
128 TATTGAAGGCGTTTTTCACTAGAAGACATC-TTTAATAATCTCAAAAA-TTTTTAAAAAA
* * * *
14700724 AATTATTGAAGGCATTT-TT-TGAGAACAAATGCCTTCAATAATTATGTACAAAAATTAAAAGGA
1 AATTATTGAAGGCGTTTGTTCT-A-AA-AAATACCTTCAATAATTATGTACATAAATTAAAAAGA
* * * *
14700787 ATTAGT-AAAGGTATTTTTTTGGAATAAACACCTTCATTAACCATCTTAAAATTTGAGTATTGAA
63 ATTAGTGAAA-GTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTATTGAA
* *
14700851 ATATTGAAGGC-ATTTTCACTAGAAGACGTCTTTAATAATCTCAAAAA-TTTTAAAAAA
127 ATATTGAAGGCGTTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAAAA
* * * * * *
14700908 AATTATTAAAGACGTTTATTCTCAAAAAATGCCTTCAATAATTATATACATAAATTAAAATGAAT
1 AATTATTGAAGGCGTTTGTTCT-AAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAAT
* * * * *
14700973 TAGTGAAGGCATTTTTCTAGAGTAAACACCTTCACT-ACCTGTCTTAAAATTTGAGTATT-AGAA
65 TAGTGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACC-ATCTTAAAATTTGAGTATTGA-AA
* ** ***
14701036 TATTAAAGGTATTTTTCACTAGAAGATGCCTTTAATAATC-CAAAAAATTTTTAAAAAGA
128 TATTGAAGGCGTTTTTCACTAGAAGACATCTTTAATAATCTC-AAAAATTTTTAAAAA-A
*
14701095 AATTATTGAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAAT
1 AATTATTGAAGGCGTTTGTTCT-AAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAAT
* * *
14701160 TAGTGAAAGTATTTTTCTAGAATAAACGCCTTCAGTAACTATCTTAAAATTTAAGTATTGAAATA
65 TAGTGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTATTGAAATA
* * *
14701225 TTGAAGGCATTTTTTTACTAGAAAACATCTTTAATAATCTCAAAAATTTTTAAAAAGA
130 TTGAAGGC-GTTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAAA-A
* * *
14701283 AATTATTGAATGTGTTTGTTCTAAAAAA-ATCTTCAATAATTATGTACATAAATTAAAAAGAATT
1 AATTATTGAAGGCGTTTGTTCTAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATT
* * *
14701347 AGTGAAAGTGTTTTTCTAGAATAAATGCCTTCAGTAACCATCTTAAAATTTGAGTATT-AGAATA
66 AGTGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTATTGA-AATA
* * * * *
14701411 TTGAAGGTGTTTTGT-AC-AAAAGACATGTTTAATTATCTAAAAAATTTTTAAAAGAA
130 TTGAAGGCGTTTT-TCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAA-AA
* * * *
14701467 AATTATTGAAAGAGTTTGTTCTAAAAAAAAGGCTTTCAATAATTAT-TACATAAATTAAAAAGAA
1 AATTATTGAAGGCGTTTGTTCTAAAAAATA--CCTTCAATAATTATGTACATAAATTAAAAAGAA
* * * * * * *
14701531 TTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACTATCTTAAAATTTGAGTAATGGACT
64 TTAGTGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTATTGAAAT
* * * * *
14701596 ATTAAAGGCATTTTTCACTAGAAGACGTATTTAATAATCCCAAAAATTTTTAAAAGAA
129 ATTGAAGGCGTTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAA-AA
** *
14701654 AATTATTGAAGATGTTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAAATTAAAAAGAAT
1 AATTATTGAAGGCGTTTGTTCT-AAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAAT
* * * * * *
14701719 TATTGAAGGCATTTTTCTAGAATAAACGCTTTCACTAACCGTATTAAAATTTGAGTATTGAAATA
65 TAGTGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTATTGAAATA
** * *
14701784 TTGAAGGTATTTTTCACTAGAAGACATCTTTAATAATCTAAAAAAATTTTAAAAGAA
130 TTGAAGGCGTTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAA-AA
14701841 AATTATTGAAGGC
1 AATTATTGAAGGC
14701854 ATTTTTTGCA
Statistics
Matches: 1146, Mismatches: 134, Indels: 73
0.85 0.10 0.05
Matches are distributed among these distances:
183 4 0.00
184 172 0.15
185 50 0.04
186 286 0.25
187 550 0.48
188 83 0.07
189 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (185 bp):
AATTATTGAAGGCGTTTGTTCTAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATT
AGTGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTATTGAAATAT
TGAAGGCGTTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAAAA
Found at i:14701150 original size:558 final size:553
Alignment explanation
Indices: 14700351--14701882 Score: 1991
Period size: 558 Copynumber: 2.7 Consensus size: 553
14700341 GAATTGAGGG
* * * * * *
14700351 AATTATTGAAGGCGTTTGTTCTTAAAAAAGCCTTCAATAATTATGTGCAAAAACTAAAAAGAATT
1 AATTATTAAAGACGTTTGTTCTAAAAAAAGCCTTCAATAATTAT-TACATAAATTAAAAAGAATT
* *
14700416 AGTGAAGGTATTTTTCTGGAATAAACGCCATT-ACTAACC-ATCTTAAAATTTGAGTATTGAAAT
65 AGTGAAGGCATTTTTCTAGAATAAACGCC-TTCACT-ACCTATCTTAAAATTTGAGTATTG-AAT
* * * *
14700479 ATTGAAAGCG-TTTTTCATTAGAAGACACTTTTAATAATCCCATAAATTTTTAAAAGAAAATTAT
127 ATT-AAAG-GATTTTTCACTAGAAGACGCATTTAATAATCCCAAAAATTTTTAAAAGAAAATTAT
* * *
14700543 TGAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATGTATATAAATT-AAAAGAAATTAGTG
190 TGAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAG-AATTAGTG
**
14700607 AAAGTATTTTT-TAAGAATAAATACCTTCACTAACCATCTTAAAATTTGAATATTGAAATATTGA
254 AAAGTATTTTTCT-AGAATAAACGCCTTCACTAACCATCTTAAAATTTGAATATTGAAATATTGA
* **
14700671 AGGTGTTTTTCACTAGAAGAC-GCATTTAATAATCTCAAAAATTTTTTTTAAAAAATTATTGAAG
318 AGGT-TTTTTCACTAGAAGACATC-TTTAATAATCTCAAAAA-TTTTTAAAAAAAATTATTGAAG
*
14700735 GCATTTTTTGAGAACAAATGCCTTCAATAATTATGTACAAAAATTAAAAGGAATTAGT-AAAGGT
380 GCATTTTTTGAGAA-AAATGCCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAA-GT
* * *
14700799 ATTTTTTTGGAATAAACACCTTCATTAACCATCTTAAAATTTGAGTATT-GAAATATTGAAGGCA
443 ATTTTTCTAGAATAAACACCTTCAGTAACCATCTTAAAATTTGAGTATTAG-AATATTGAAGGCA
* * *
14700863 TTTT-CACTAGAAGACGTCTTTAATAATCTCAAAAA-TTTTAAAA-AA
507 TTTTGCAC-AAAAGACATCTTTAATAATCTAAAAAATTTTTAAAAGAA
* * *
14700908 AATTATTAAAGACGTTTATTCTCAAAAAATGCCTTCAATAATTATATACATAAATTAAAATGAAT
1 AATTATTAAAGACGTTTGTTCT-AAAAAAAGCCTTCAATAATTAT-TACATAAATTAAAAAGAAT
* * *
14700973 TAGTGAAGGCATTTTTCTAGAGTAAACACCTTCACTACCTGTCTTAAAATTTGAGTATTAGAATA
64 TAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTACCTATCTTAAAATTTGAGTATT-GAATA
* * *
14701038 TTAAAGGTATTTTTCACTAGAAGATGCCTTTAATAATCCAAAAAATTTTTAAAA-AGAAATTATT
128 TTAAAGG-ATTTTTCACTAGAAGACGCATTTAATAATCCCAAAAATTTTTAAAAGA-AAATTATT
14701102 GAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGAA
191 GAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGAA
* *
14701167 AGTATTTTTCTAGAATAAACGCCTTCAGTAACTATCTTAAAATTT-AAGTATTGAAATATTGAAG
256 AGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAA-TATTGAAATATTGAAG
* * * *
14701231 GCATTTTTTTACTAGAAAACATCTTTAATAATCTCAAAAATTTTTAAAAAGAAATTATTGAATGT
320 G--TTTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAAA-AAATTATTGAAGGC
* * * *
14701296 GTTTGTTCT-AAAAAAAT--CTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGAAAGTGT
382 ATTT-TT-TGAGAAAAATGCCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAAGTAT
** **
14701358 TTTTCTAGAATAAATGCCTTCAGTAACCATCTTAAAATTTGAGTATTAGAATATTGAAGGTGTTT
445 TTTTCTAGAATAAACACCTTCAGTAACCATCTTAAAATTTGAGTATTAGAATATTGAAGGCATTT
* * *
14701423 TGTACAAAAGACATGTTTAATTATCTAAAAAATTTTTAAAAGAA
510 TGCACAAAAGACATCTTTAATAATCTAAAAAATTTTTAAAAGAA
*
14701467 AATTATTGAAAGA-GTTTGTTCTAAAAAAAAGGCTTTCAATAATTATTACATAAATTAAAAAGAA
1 AATTATT-AAAGACGTTTGTTCT-AAAAAAA-GCCTTCAATAATTATTACATAAATTAAAAAGAA
* * * *
14701531 TTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACTATCTTAAAATTTGAGTAATGGACT
63 TTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTACCTATCTTAAAATTTGAGT-ATTGAAT
*
14701596 ATTAAAGGCATTTTTCACTAGAAGACGTATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATT
127 ATTAAAGG-ATTTTTCACTAGAAGACGCATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATT
* * *
14701661 GAAGATGTTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAAATTAAAAAGAATTATTGAA
191 GAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGAA
* * * * * *
14701726 GGCATTTTTCTAGAATAAACGCTTTCACTAACCGTATTAAAATTTGAGTATTGAAATATTGAAGG
256 AGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAATATTGAAATATTGAAGG
* *
14701791 TATTTTTCACTAGAAGACATCTTTAATAATCTAAAAAAATTTTAAAAGAAAATTATTGAAGGCAT
321 T-TTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAA-AAAATTATTGAAGGCAT
* *
14701856 TTTTTGCAGAAAATTGCCTTCACTAAT
384 TTTTTG-AGAAAAATGCCTTCAATAAT
14701883 ATTCATAGAT
Statistics
Matches: 852, Mismatches: 91, Indels: 61
0.85 0.09 0.06
Matches are distributed among these distances:
556 2 0.00
557 151 0.18
558 331 0.39
559 328 0.38
560 39 0.05
561 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (553 bp):
AATTATTAAAGACGTTTGTTCTAAAAAAAGCCTTCAATAATTATTACATAAATTAAAAAGAATTA
GTGAAGGCATTTTTCTAGAATAAACGCCTTCACTACCTATCTTAAAATTTGAGTATTGAATATTA
AAGGATTTTTCACTAGAAGACGCATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATTGAAGG
TGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGAAAGTAT
TTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAATATTGAAATATTGAAGGTTTTT
TCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAAAAAATTATTGAAGGCATTTTTTGA
GAAAAATGCCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAAGTATTTTTCTAGAAT
AAACACCTTCAGTAACCATCTTAAAATTTGAGTATTAGAATATTGAAGGCATTTTGCACAAAAGA
CATCTTTAATAATCTAAAAAATTTTTAAAAGAA
Found at i:14701161 original size:62 final size:61
Alignment explanation
Indices: 14701086--14701379 Score: 185
Period size: 63 Copynumber: 4.7 Consensus size: 61
14701076 CAAAAAATTT
*
14701086 TTAAAAAGAAATTATTGAAGGTGTTTGTTCTA-AAAAAATACCTTCAATAATTATGTACATAAA
1 TTAAAAAG-AATTATTGAAAGTGTTT-TTCTAGAAAAAAT-CCTTCAATAATTATGTACATAAA
* * ** * * * *
14701149 TTAAAAAGAATTAGTGAAAGTATTTTTCTAGAATAAACGCCTTCAGTAACTATCTTA-A-AAT
1 TTAAAAAGAATTATTGAAAGTGTTTTTCTAGAA-AAAATCCTTCAATAATTAT-GTACATAAA
** * * * * * * *
14701210 TTAAGTATTGAAATATTGAAGGCATTTTTTTACTAGAAAACAT-CTT---TAATAATCT-CAAAA
1 TTAA--AAAGAATTATTGAAAG--TGTTTTT-CTAGAAAAAATCCTTCAATAATTATGTACATAA
14701270 A
61 A
*
14701271 TTTTTAAAAAGAAATTATTGAATGTGTTTGTTCTA-AAAAAAT-CTTCAATAATTATGTACATAA
1 ---TTAAAAAG-AATTATTGAAAGTGTTT-TTCTAGAAAAAATCCTTCAATAATTATGTACATAA
14701334 A
61 A
* *
14701335 TTAAAAAGAATTAGTGAAAGTGTTTTTCTAGAATAAATGCCTTCA
1 TTAAAAAGAATTATTGAAAGTGTTTTTCTAGAAAAAAT-CCTTCA
14701380 GTAACCATCT
Statistics
Matches: 175, Mismatches: 34, Indels: 45
0.69 0.13 0.18
Matches are distributed among these distances:
59 5 0.03
60 32 0.18
61 33 0.19
62 38 0.22
63 41 0.23
64 12 0.07
65 8 0.05
66 6 0.03
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (61 bp):
TTAAAAAGAATTATTGAAAGTGTTTTTCTAGAAAAAATCCTTCAATAATTATGTACATAAA
Found at i:14701396 original size:60 final size:58
Alignment explanation
Indices: 14701146--14701396 Score: 123
Period size: 60 Copynumber: 4.1 Consensus size: 58
14701136 TTATGTACAT
* * * *
14701146 AAATTAAAAAGAATTAGTGAAAGTATTTTTCTAGAATAAACGCCTTCAGTAACTATCTTA
1 AAATTAAAAAGAATTAGTGAAAGTGTTTTTCTAGAATAAA--TCTTCAATAACCATCTTA
** * * * * * * *
14701206 AAATTTAAGTATTGAAATATTGAAGGCATTTTTTTACTAGAA-AACATCTTTAATAATC-TC-AA
1 AAA-TTAA--AAAGAATTAGTGAAAG--TGTTTTT-CTAGAATAA-ATCTTCAATAACCATCTTA
* * * ** * *
14701268 AAATTTTTAAAAAGAAATTATTGAATGTGTTTGTTCTA-AAAAAATCTTCAATAATTATGTACA
1 AAA---TTAAAAAG-AATTAGTGAAAGTGTTT-TTCTAGAATAAATCTTCAATAACCATCT-TA
*
14701331 TAAATTAAAAAGAATTAGTGAAAGTGTTTTTCTAGAATAAATGCCTTCAGTAACCATCTTA
1 -AAATTAAAAAGAATTAGTGAAAGTGTTTTTCTAGAATAAAT--CTTCAATAACCATCTTA
14701392 AAATT
1 AAATT
14701397 TGAGTATTAG
Statistics
Matches: 143, Mismatches: 29, Indels: 38
0.68 0.14 0.18
Matches are distributed among these distances:
59 5 0.03
60 42 0.29
61 23 0.16
62 19 0.13
63 24 0.17
64 15 0.10
65 8 0.06
66 7 0.05
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (58 bp):
AAATTAAAAAGAATTAGTGAAAGTGTTTTTCTAGAATAAATCTTCAATAACCATCTTA
Found at i:14701619 original size:559 final size:555
Alignment explanation
Indices: 14700351--14701868 Score: 1992
Period size: 559 Copynumber: 2.7 Consensus size: 555
14700341 GAATTGAGGG
* * * * * * *
14700351 AATTATTGAAGGCGTTTGTTCTTAAAAAAGCCTTCAATAATTATGTGCAAAAACTAAAAAGAATT
1 AATTATTGAAAGAGTTTGTTCTAAAAAAAGCCTTCAATAATTATATACATAAATTAAAAAGAATT
* * * *
14700416 AGTGAAGGTATTTTTCTGGAATAAACGCCATT-ACTAACCATCTTAAAATTTGAGTATTGAAATA
66 AGTGAAGGCATTTTTCTAGAATAAACGCC-TTCACTAACTATCTTAAAATTTGAGTATTGGAATA
* * * * *
14700480 TTGAAA-GCGTTTTTCATTAGAAGACACTTTTAATAATCCCATAAATTTTTAAAAGAAAATTATT
130 TT-AAAGGCATTTTTCACTAGAAGACGCATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATT
* * *
14700544 GAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATGTATATAAATT-AAAAGAAATTAGTGA
194 GAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAG-AATTAGTGA
**
14700608 AAGTATTTTT-TAAGAATAAATACCTTCACTAACCATCTTAAAATTTGAA-TATTGAAATATTGA
258 AAGTATTTTTCT-AGAATAAACGCCTTCACTAACCATCTTAAAATTT-AAGTATTGAAATATTGA
* *
14700671 AGG-TGTTTTTCACTAGAAGAC-GCATTTAATAATCTCAAAAATTTTTTTTAAA-AAATTATTGA
321 AGGAT-TTTTTCACTAGAAGACATC-TTTAATAATCTCAAAAA--TTTTTAAAAGAAATTATTGA
* *
14700733 AGGCATTTTTTGAGAACAAATGCCTTCAATAATTATGTACAAAAATTAAAAGGAATTAGTAAAGG
382 AGGCATTTTTTGAGAAAAAAT-CCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGTAAAGG
* * *
14700798 TATTTTTTTGGAATAAACACCTTCATTAACCATCTTAAAATTTGAGTATTGAAATATTGAAGGCA
446 TATTTTTCTAGAATAAACACCTTCAGTAACCATCTTAAAATTTGAGTATTGAAATATTGAAGGCA
* * *
14700863 TTTTCACTAGAAGACGTCTTTAATAATCTCAAAAATTTTAAAAAA
511 TTTTCACTAAAAGACATCTTTAATAATCTAAAAAATTTTAAAAAA
* * *
14700908 AATTATT-AAAGACGTTTATTCTCAAAAAATGCCTTCAATAATTATATACATAAATTAAAATGAA
1 AATTATTGAAAGA-GTTTGTTCT-AAAAAAAGCCTTCAATAATTATATACATAAATTAAAAAGAA
* * * * *
14700972 TTAGTGAAGGCATTTTTCTAGAGTAAACACCTTCACTACCTGTCTTAAAATTTGAGTATTAGAAT
64 TTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACTATCTTAAAATTTGAGTATTGGAAT
* * * *
14701037 ATTAAAGGTATTTTTCACTAGAAGATGCCTTTAATAATCCAAAAAATTTTTAAAA-AGAAATTAT
129 ATTAAAGGCATTTTTCACTAGAAGACGCATTTAATAATCCCAAAAATTTTTAAAAGA-AAATTAT
14701101 TGAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGA
193 TGAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGA
* *
14701166 AAGTATTTTTCTAGAATAAACGCCTTCAGTAACTATCTTAAAATTTAAGTATTGAAATATTGAAG
258 AAGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTATTGAAATATTGAAG
* * * *
14701231 GCATTTTTTTACTAGAAAACATCTTTAATAATCTCAAAAATTTTTAAAAAGAAATTATTGAATGT
323 G-ATTTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTT-AAAAGAAATTATTGAAGGC
* * *
14701296 GTTTGTTCT-A-AAAAAAT-CTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGAAA-GTG
386 ATTT-TT-TGAGAAAAAATCCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGT-AAAGGTA
** **
14701357 TTTTTCTAGAATAAATGCCTTCAGTAACCATCTTAAAATTTGAGTATT-AGAATATTGAAGGTGT
448 TTTTTCTAGAATAAACACCTTCAGTAACCATCTTAAAATTTGAGTATTGA-AATATTGAAGGCAT
* * *
14701421 TTTGTAC-AAAAGACATGTTTAATTATCTAAAAAATTTTTAAAAGAA
512 TTT-CACTAAAAGACATCTTTAATAATCTAAAAAA-TTTTAAAA-AA
*
14701467 AATTATTGAAAGAGTTTGTTCTAAAAAAAAGGCTTTCAATAATTAT-TACATAAATTAAAAAGAA
1 AATTATTGAAAGAGTTTGTTCT-AAAAAAA-GCCTTCAATAATTATATACATAAATTAAAAAGAA
* * *
14701531 TTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACTATCTTAAAATTTGAGTAATGGACT
64 TTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACTATCTTAAAATTTGAGTATTGGAAT
*
14701596 ATTAAAGGCATTTTTCACTAGAAGACGTATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATT
129 ATTAAAGGCATTTTTCACTAGAAGACGCATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATT
* * *
14701661 GAAGATGTTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAAATTAAAAAGAATTATTGAA
194 GAAGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGAA
* * * * * *
14701726 GGCATTTTTCTAGAATAAACGCTTTCACTAACCGTATTAAAATTTGAGTATTGAAATATTGAAGG
259 AGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTATTGAAATATTGAAGG
* *
14701791 -TATTTTTCACTAGAAGACATCTTTAATAATCTAAAAAAATTTTAAAAGAAAATTATTGAAGGCA
324 AT-TTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAAG-AAATTATTGAAGGCA
14701855 TTTTTTGCAGAAAA
387 TTTTTTG-AGAAAA
14701869 TTGCCTTCAC
Statistics
Matches: 839, Mismatches: 94, Indels: 54
0.85 0.10 0.05
Matches are distributed among these distances:
556 5 0.01
557 153 0.18
558 319 0.38
559 336 0.40
560 25 0.03
561 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (555 bp):
AATTATTGAAAGAGTTTGTTCTAAAAAAAGCCTTCAATAATTATATACATAAATTAAAAAGAATT
AGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACTATCTTAAAATTTGAGTATTGGAATAT
TAAAGGCATTTTTCACTAGAAGACGCATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATTGA
AGGTGTTTGTTCTAAAAAAATACCTTCAATAATTATGTACATAAATTAAAAAGAATTAGTGAAAG
TATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTATTGAAATATTGAAGGAT
TTTTTCACTAGAAGACATCTTTAATAATCTCAAAAATTTTTAAAAGAAATTATTGAAGGCATTTT
TTGAGAAAAAATCCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGTAAAGGTATTTTTCTA
GAATAAACACCTTCAGTAACCATCTTAAAATTTGAGTATTGAAATATTGAAGGCATTTTCACTAA
AAGACATCTTTAATAATCTAAAAAATTTTAAAAAA
Found at i:14709517 original size:9 final size:9
Alignment explanation
Indices: 14709498--14709532 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
14709488 TTTCTTATAT
14709498 ATTTTTT-A
1 ATTTTTTAA
14709506 ATTTTTTAA
1 ATTTTTTAA
14709515 ATTTTTTAA
1 ATTTTTTAA
*
14709524 ATTATTTAA
1 ATTTTTTAA
14709533 GGTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:14710595 original size:21 final size:20
Alignment explanation
Indices: 14710569--14710609 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14710559 AATCAAATAG
14710569 GAAAGAAGAAAAAGAAAAAAA
1 GAAAGAA-AAAAAGAAAAAAA
*
14710590 GAAAGAAAAAAATAAAAAAA
1 GAAAGAAAAAAAGAAAAAAA
14710610 TAATACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (20 bp):
GAAAGAAAAAAAGAAAAAAA
Found at i:14710878 original size:45 final size:44
Alignment explanation
Indices: 14710829--14711021 Score: 136
Period size: 45 Copynumber: 4.3 Consensus size: 44
14710819 AGACTCAACA
* * * *
14710829 ACTTTTGAAAATTTTAAAGAGGCTATTCTAAGCAGAGGCTAAATG
1 ACTTTT-AAAAATTTAAAGAGGCTACTCTAAGCAAAGGCTAAACG
* *
14710874 ACTTTTAAAAATTTAAAGAGGCTCCTCTAAGCAAAGGCTCAACG
1 ACTTTTAAAAATTTAAAGAGGCTACTCTAAGCAAAGGCTAAACG
* * * * * * * * *
14710918 ACTTTCAAAAATGTAAAAAAAGTTTCTCTAAGCAGAGGCTCAACA
1 ACTTTTAAAAAT-TTAAAGAGGCTACTCTAAGCAAAGGCTAAACG
* * * * ** *
14710963 ACTTTAAAAAATGTAAAAAAAGCTTTTCTAAGCAAAGGCTCAAC-
1 ACTTTTAAAAAT-TTAAAGAGGCTACTCTAAGCAAAGGCTAAACG
**
14711007 AAGTTTAAAAATTTA
1 ACTTTTAAAAATTTA
14711022 TCTTGAAAAA
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
43 2 0.02
44 52 0.42
45 71 0.57
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (44 bp):
ACTTTTAAAAATTTAAAGAGGCTACTCTAAGCAAAGGCTAAACG
Found at i:14710904 original size:44 final size:44
Alignment explanation
Indices: 14710812--14710979 Score: 147
Period size: 45 Copynumber: 3.8 Consensus size: 44
14710802 AAATCTCTTT
* * * * *
14710812 TAAGCAGAGACTCAACAACTTTTGAAAATTTTAAAGAGGCTATTC
1 TAAGCAGAGGCTAAACGACTTTT-AAAAATTTAAAGAGGCTACTC
* *
14710857 TAAGCAGAGGCTAAATGACTTTTAAAAATTTAAAGAGGCTCCTC
1 TAAGCAGAGGCTAAACGACTTTTAAAAATTTAAAGAGGCTACTC
* * * * * * * *
14710901 TAAGCAAAGGCTCAACGACTTTCAAAAATGTAAAAAAAGTTTCTC
1 TAAGCAGAGGCTAAACGACTTTTAAAAAT-TTAAAGAGGCTACTC
* * * *
14710946 TAAGCAGAGGCTCAACAACTTTAAAAAATGTAAA
1 TAAGCAGAGGCTAAACGACTTTTAAAAATTTAAA
14710980 AAAAGCTTTT
Statistics
Matches: 101, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
44 46 0.46
45 55 0.54
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (44 bp):
TAAGCAGAGGCTAAACGACTTTTAAAAATTTAAAGAGGCTACTC
Found at i:14710915 original size:89 final size:90
Alignment explanation
Indices: 14710855--14711114 Score: 240
Period size: 96 Copynumber: 2.8 Consensus size: 90
14710845 AAGAGGCTAT
** * * * * *
14710855 TCTAAGCAGAGGCTAAATGACTTTTAAAAAT-TTAAAGAGGCTCCTCTAAGCAAAGGCTCAACGA
1 TCTAAGCAGAGGCTAAACAACTTTAAAAAATGTAAAAAAAGCTCCTCTAAGCAAAGGCTCAACAA
*
14710919 CTTTCAAAAATGTAAAAAAAGTTTC
66 CTTTCAAAAATGTAAAAAAAGTATC
* **
14710944 TCTAAGCAGAGGCTCAACAACTTTAAAAAATGTAAAAAAAGCTTTTCTAAGCAAAGGCTCAACAA
1 TCTAAGCAGAGGCTAAACAACTTTAAAAAATGTAAAAAAAGCTCCTCTAAGCAAAGGCTCAACAA
* * *
14711009 GTTT-AAAAATTTATCTTGAAAAAGCT-TC
66 CTTTCAAAAATGTA----AAAAAAG-TATC
* * ** * *
14711037 TCTAAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCATCTAAGCAGAGGCTCAA
1 TCTAAGCAGAGGCTAAACAACTTTAAAAA---ATGTAAAAAAAGCTCCTCTAAGCAAAGGCTCAA
14711102 CAACTTT-AAAAAT
63 CAACTTTCAAAAAT
14711115 CTTATCTTGA
Statistics
Matches: 142, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
89 35 0.25
90 30 0.21
93 37 0.26
94 1 0.01
96 39 0.27
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (90 bp):
TCTAAGCAGAGGCTAAACAACTTTAAAAAATGTAAAAAAAGCTCCTCTAAGCAAAGGCTCAACAA
CTTTCAAAAATGTAAAAAAAGTATC
Found at i:14711050 original size:48 final size:48
Alignment explanation
Indices: 14710934--14711306 Score: 398
Period size: 48 Copynumber: 7.8 Consensus size: 48
14710924 AAAAATGTAA
* * **
14710934 AAAAAGTTTCTCTAAGCAGAGGCTCAACAACTTTAAAAA---ATGTAA
1 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
* * *
14710979 AAAAAGCTTTTCTAAGCAAAGGCTCAACAAGTTTAAAAATTTATCTTG
1 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
**
14711027 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAATCCATCTTG
1 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
14711075 AAAAAGC-TCATCTAAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTG
1 AAAAAGCTTC-TCTAAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTTG
* * * * * * * *
14711124 AAAAAGGCTCCTTTTAGCAGAGGTTTAACAACTTTAAATATCTATATTG
1 AAAAA-GCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
* * *
14711173 AAAAAGC-TCATCTTAGCAAAGGCTCAACAACTTTAAAAACTTATCTTG
1 AAAAAGCTTC-TCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
* * * * *
14711221 AAAAAGCTCCTCTCAGTAGAGGTTCAATAACTTTAAAAATTTAATCTTG
1 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAATTT-ATCTTG
* * *
14711270 AAAAAGC-TCATCTCAGTAGAGGCTCAATAACTTTAAA
1 AAAAAGCTTC-TCTAAGCAGAGGCTCAACAACTTTAAA
14711307 GATTAATTTT
Statistics
Matches: 277, Mismatches: 40, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
45 35 0.13
47 3 0.01
48 149 0.54
49 62 0.22
50 27 0.10
51 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (48 bp):
AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
Found at i:14711199 original size:146 final size:146
Alignment explanation
Indices: 14710898--14711275 Score: 390
Period size: 146 Copynumber: 2.6 Consensus size: 146
14710888 AAAGAGGCTC
* * * ** *
14710898 CTCTAAGCAAAGGCTCAACGACTTTCAAAA---ATGTAAAAAAAGTTTC-TCTAAGCAGAGGCTC
1 CTCTAAGCAAAGGCTCAACAACTTTAAAAACTCATCTTGAAAAAG-CTCATCTAAGCAGAGGCTC
* * * * *
14710959 AACAACTTTAAAAAATGTAA-----AAAAA-GCT--TTTCTAAGCAAAGGCTCAACAAGTTTAAA
65 AACAACTTT-AAAAATTTAATCTTGAAAAAGGCTCCTTT-T-AGCAGAGGTTTAACAACTTTAAA
* *
14711016 AATTTATCTTGAAAAAGCTT
127 AATCTATATTGAAAAAGCTT
*
14711036 CTCTAAGCAGAGGCTCAACAACTTTAAAAA-TCCATCTTGAAAAAGCTCATCTAAGCAGAGGCTC
1 CTCTAAGCAAAGGCTCAACAACTTTAAAAACT-CATCTTGAAAAAGCTCATCTAAGCAGAGGCTC
*
14711100 AACAACTTTAAAAATCTT-ATCTTGAAAAAGGCTCCTTTTAGCAGAGGTTTAACAACTTTAAATA
65 AACAACTTTAAAAAT-TTAATCTTGAAAAAGGCTCCTTTTAGCAGAGGTTTAACAACTTTAAAAA
14711164 TCTATATTGAAAAAGC-T
129 TCTATATTGAAAAAGCTT
* * * * * *
14711181 CATCTTAGCAAAGGCTCAACAACTTTAAAAACTTATCTTGAAAAAGCTCCTCTCAGTAGAGGTTC
1 C-TCTAAGCAAAGGCTCAACAACTTTAAAAACTCATCTTGAAAAAGCTCATCTAAGCAGAGGCTC
*
14711246 AATAACTTTAAAAATTTAATCTTGAAAAAG
65 AACAACTTTAAAAATTTAATCTTGAAAAAG
14711276 CTCATCTCAG
Statistics
Matches: 201, Mismatches: 23, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
138 27 0.13
140 9 0.04
141 34 0.17
145 9 0.04
146 117 0.58
147 2 0.01
148 3 0.01
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.28
Consensus pattern (146 bp):
CTCTAAGCAAAGGCTCAACAACTTTAAAAACTCATCTTGAAAAAGCTCATCTAAGCAGAGGCTCA
ACAACTTTAAAAATTTAATCTTGAAAAAGGCTCCTTTTAGCAGAGGTTTAACAACTTTAAAAATC
TATATTGAAAAAGCTT
Found at i:14723453 original size:204 final size:200
Alignment explanation
Indices: 14723134--14723503 Score: 494
Period size: 204 Copynumber: 1.8 Consensus size: 200
14723124 ATATTGAAGT
*
14723134 TTTTCTATAAATATTTCAATACACTGGTAATATTTAAAAAAAATCTTCTCACCTAGGGATTTCGT
1 TTTTCTATAAATATTTCAATACACTGGTAATATTTAAAAAAAATCTTCTCACCTAGAGATTTCGT
* * * *
14723199 AAAGCATCACTACTCGAAATACTTTTAAAATCTCATCATTGGATAAAATTTCCCTTTTCCTTATT
66 AAAGCATCACTACTCGAAATACCTTTAAAATCTCATCATCGAATAAAATTT-CATTTT-CTTA--
* **
14723264 TATATTATTATTATTTTATAAATTAATTAATTTTTATTTTTTATTAACAAAAAAAAAATTTATTG
127 CAT-TTATTATTATTTTATAAATTAATTAAGGTTTATTTTTTATTAACAAAAAAAAAATTTATTG
14723329 TATTGAAAAC
191 TATTGAAAAC
* *
14723339 TTTT-TATAAATATTTCAATACACTGGTAGTATTTTTAAAAAAATCTTCTCACCTAGAGATTTCG
1 TTTTCTATAAATATTTCAATACACTGGTAATA-TTTAAAAAAAATCTTCTCACCTAGAGATTTCG
* * * * *
14723403 T-AGGTATCACTACTCGGAATACCTTT-GAATCTCATCGTCGAATAAAAATTTCATTTTCTTACA
65 TAAAGCATCACTACTCGAAATACCTTTAAAATCTCATCATCGAAT-AAAATTTCATTTTCTTACA
* * *
14723466 TTTTTTATTATTTTTTAAATTATTTAAGGTTTATTTTT
129 TTTATTATTATTTTATAAATTAATTAAGGTTTATTTTT
14723504 ATTTTTGTAG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
199 32 0.22
200 2 0.01
202 4 0.03
203 18 0.12
204 54 0.37
205 35 0.24
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (200 bp):
TTTTCTATAAATATTTCAATACACTGGTAATATTTAAAAAAAATCTTCTCACCTAGAGATTTCGT
AAAGCATCACTACTCGAAATACCTTTAAAATCTCATCATCGAATAAAATTTCATTTTCTTACATT
TATTATTATTTTATAAATTAATTAAGGTTTATTTTTTATTAACAAAAAAAAAATTTATTGTATTG
AAAAC
Found at i:14724518 original size:7 final size:7
Alignment explanation
Indices: 14724506--14724564 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
14724496 TTAGAACAGG
14724506 AAAAAGA
1 AAAAAGA
14724513 AAAAAGA
1 AAAAAGA
*
14724520 AGGAAA-A
1 A-AAAAGA
*
14724527 AGAAAGA
1 AAAAAGA
14724534 AAGAAAGA
1 AA-AAAGA
14724542 AAAACAGA
1 AAAA-AGA
*
14724550 AAATAG-
1 AAAAAGA
14724556 AAAAAGA
1 AAAAAGA
14724563 AA
1 AA
14724565 GAAAAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 9 0.21
7 18 0.42
8 16 0.37
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:14724525 original size:17 final size:18
Alignment explanation
Indices: 14724503--14724545 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
14724493 TAATTAGAAC
14724503 AGGAAAAAGAAA-AAAGA
1 AGGAAAAAGAAAGAAAGA
14724520 AGGAAAAAGAAAGAAAGA
1 AGGAAAAAGAAAGAAAGA
*
14724538 AAGAAAAA
1 AGGAAAAA
14724546 CAGAAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AGGAAAAAGAAAGAAAGA
Found at i:14724581 original size:3 final size:3
Alignment explanation
Indices: 14724573--14724620 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
14724563 AAGAAAAAAT
14724573 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
14724618 ATA
1 ATA
14724621 CAAAATGGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14726287 original size:23 final size:21
Alignment explanation
Indices: 14726245--14726288 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
14726235 TGAATTAATT
* *
14726245 CTTTGAATAAAAATAGATACA
1 CTTTGAAAAAAAATAAATACA
14726266 CTTTAGAAAAAAAATCAAATACA
1 CTTT-GAAAAAAAAT-AAATACA
14726289 TCTATAGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (21 bp):
CTTTGAAAAAAAATAAATACA
Found at i:14728725 original size:20 final size:19
Alignment explanation
Indices: 14728696--14728735 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
14728686 AATTGTAATT
*
14728696 TATAATTAAAATAATAAAA
1 TATAATTAAAATAAAAAAA
14728715 TATATATTAAAATAAAAAAA
1 TATA-ATTAAAATAAAAAAA
14728735 T
1 T
14728736 TCGATAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAATTAAAATAAAAAAA
Found at i:14731176 original size:21 final size:21
Alignment explanation
Indices: 14731152--14731194 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14731142 AAATTTGCAA
14731152 CAATAGGAATCCACTTTGGTT
1 CAATAGGAATCCACTTTGGTT
14731173 CAATAGGAATCCACTTTGGTT
1 CAATAGGAATCCACTTTGGTT
14731194 C
1 C
14731195 GCCTTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
CAATAGGAATCCACTTTGGTT
Found at i:14736752 original size:17 final size:16
Alignment explanation
Indices: 14736730--14736762 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
14736720 AATTCATAAA
14736730 CTAAATATTATAAATAT
1 CTAAATATT-TAAATAT
14736747 CTAAATATTTAAATAT
1 CTAAATATTTAAATAT
14736763 ATAATTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
CTAAATATTTAAATAT
Found at i:14737306 original size:15 final size:16
Alignment explanation
Indices: 14737276--14737308 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14737266 ATGCTTGTTG
14737276 AGAGGAAATTTTCATGA
1 AGAGGAAA-TTTCATGA
14737293 AGAGGAAA-TTCATGA
1 AGAGGAAATTTCATGA
14737308 A
1 A
14737309 AAACAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.24
Consensus pattern (16 bp):
AGAGGAAATTTCATGA
Found at i:14737965 original size:62 final size:62
Alignment explanation
Indices: 14737890--14738035 Score: 181
Period size: 62 Copynumber: 2.4 Consensus size: 62
14737880 AAATGATAAG
**
14737890 GGATTATTCAAGACATTTTT-GACAAAAA-ATGCCTTAAATAATCCTTTCATAAAAATTGAAGA-
1 GGATTATTCAAGACATTTTTAGACAAAAACA--CCTTAAATAATCCCCTCATAAAAATTGAA-AT
* * * *
14737952 GGATTATTGAAGACATTTTTAGTCAAAAACACTTTAAATAATCCCCTCATAAATATTGAAAT
1 GGATTATTCAAGACATTTTTAGACAAAAACACCTTAAATAATCCCCTCATAAAAATTGAAAT
*
14738014 GGATTATTCAAGGCATTTTTAG
1 GGATTATTCAAGACATTTTTAG
14738036 CCAGAAATAC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
61 1 0.01
62 64 0.88
63 7 0.10
64 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (62 bp):
GGATTATTCAAGACATTTTTAGACAAAAACACCTTAAATAATCCCCTCATAAAAATTGAAAT
Found at i:14741813 original size:23 final size:23
Alignment explanation
Indices: 14741783--14741829 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
14741773 TCGTTGACAA
14741783 AACTTTTTATTATTAATTATATC
1 AACTTTTTATTATTAATTATATC
14741806 AACTTTTTATTATTAATTATATC
1 AACTTTTTATTATTAATTATATC
14741829 A
1 A
14741830 TTTCCTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (23 bp):
AACTTTTTATTATTAATTATATC
Found at i:14741979 original size:16 final size:17
Alignment explanation
Indices: 14741955--14741987 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14741945 TAAAGTTTTT
14741955 TGTAGATTTA-ATAATA
1 TGTAGATTTATATAATA
*
14741971 TGTATATTTATATAATA
1 TGTAGATTTATATAATA
14741988 AAAAATATTA
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:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
TGTAGATTTATATAATA
Found at i:14742117 original size:53 final size:53
Alignment explanation
Indices: 14742030--14742161 Score: 131
Period size: 54 Copynumber: 2.4 Consensus size: 53
14742020 TTTTATATAA
*
14742030 AAATTATATATTATAATTGATATCAATATAAAAATAAAAAATATA-TTTTTTATTTTATT
1 AAATT-TATATTATAATT-AT-T--AT-TAAAATTAAAAAATATATTTTTTTATTTT-TT
* *
14742089 AAATTTATATATATAATTATTATTAAAATTTAAAATTATATTTTTTTATTTTTT
1 AAATTTATAT-TATAATTATTATTAAAATTAAAAAATATATTTTTTTATTTTTT
** *
14742143 ATTTTTATATTATATTTAT
1 AAATTTATATTATAATTAT
14742162 ATCGTATTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
53 8 0.12
54 24 0.37
55 13 0.20
57 1 0.02
58 7 0.11
59 12 0.18
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (53 bp):
AAATTTATATTATAATTATTATTAAAATTAAAAAATATATTTTTTTATTTTTT
Found at i:14744881 original size:4 final size:4
Alignment explanation
Indices: 14744872--14744901 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
14744862 GGATCTACAA
*
14744872 AAAT AAAT AAAT AAAT AAAT AAAT GAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
14744902 GCAGTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:14747225 original size:15 final size:16
Alignment explanation
Indices: 14747193--14747225 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14747183 TTTAATTTTT
*
14747193 TTAATTATTAATTTAA
1 TTAATTATTAATTGAA
14747209 TTAATT-TTAATTGAA
1 TTAATTATTAATTGAA
14747224 TT
1 TT
14747226 TACAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTAATTATTAATTGAA
Found at i:14747764 original size:37 final size:39
Alignment explanation
Indices: 14747723--14747808 Score: 106
Period size: 38 Copynumber: 2.2 Consensus size: 39
14747713 CAGGTGCACG
*
14747723 AATTAAT-TTAATTT-ATTTAAATATTTATAG-ATATATA
1 AATTAATATT-ATTTAATTTAAATATTTAAAGTATATATA
* *
14747760 AATTAATATTATTTAATTTATATTTTTAAAGTATATATA
1 AATTAATATTATTTAATTTAAATATTTAAAGTATATATA
14747799 AATTACATAT
1 AATTA-ATAT
14747809 AACAATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 11 0.26
38 15 0.36
39 12 0.29
40 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (39 bp):
AATTAATATTATTTAATTTAAATATTTAAAGTATATATA
Found at i:14757211 original size:20 final size:20
Alignment explanation
Indices: 14757173--14757213 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14757163 TTTATATTTT
*
14757173 AAATAATTATATTTGAATAA
1 AAATAATTATATATGAATAA
14757193 AAATAATTATTATAT-AATAA
1 AAATAATTA-TATATGAATAA
14757213 A
1 A
14757214 TTATCATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATAATTATATATGAATAA
Found at i:14758339 original size:35 final size:36
Alignment explanation
Indices: 14758280--14758348 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
14758270 CTGTAAGTAG
14758280 AGGCTCAATGACTTTTAGAAAAATAAATGGCTCCAA
1 AGGCTCAATGACTTTTAGAAAAATAAATGGCTCCAA
*
14758316 AGGCTCAATGAC-TTTAGAAAAATAAGTGGCTCC
1 AGGCTCAATGACTTTTAGAAAAATAAATGGCTCC
14758349 TTTAATCGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 20 0.62
36 12 0.38
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (36 bp):
AGGCTCAATGACTTTTAGAAAAATAAATGGCTCCAA
Found at i:14759445 original size:8 final size:8
Alignment explanation
Indices: 14759432--14759501 Score: 79
Period size: 8 Copynumber: 8.4 Consensus size: 8
14759422 TTTTCATTCA
14759432 CTTTTTTT
1 CTTTTTTT
*
14759440 CTTTTTTC
1 CTTTTTTT
14759448 CTTTTTTT
1 CTTTTTTT
14759456 -TTTTTTT
1 CTTTTTTT
14759463 CATTTTTTTT
1 C--TTTTTTT
14759473 CATTTTTTT
1 C-TTTTTTT
*
14759482 CATTTTTT
1 CTTTTTTT
14759490 CATTTTTTT
1 C-TTTTTTT
14759499 CTT
1 CTT
14759502 CAAGCATAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
7 7 0.13
8 23 0.43
9 15 0.28
10 8 0.15
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (8 bp):
CTTTTTTT
Found at i:14759453 original size:9 final size:9
Alignment explanation
Indices: 14759432--14759499 Score: 56
Period size: 9 Copynumber: 8.0 Consensus size: 9
14759422 TTTTCATTCA
14759432 CTTTTTTT-
1 CTTTTTTTC
14759440 C-TTTTTTC
1 CTTTTTTTC
14759448 CTTTTTTT-
1 CTTTTTTTC
14759456 -TTTTTTTC
1 CTTTTTTTC
*
14759464 ATTTTTTTTC
1 -CTTTTTTTC
*
14759474 ATTTTTTT-
1 CTTTTTTTC
*
14759482 CATTTTTTC
1 CTTTTTTTC
*
14759491 ATTTTTTTC
1 CTTTTTTTC
14759500 TTCAAGCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 13 0.27
8 8 0.16
9 20 0.41
10 8 0.16
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (9 bp):
CTTTTTTTC
Found at i:14759454 original size:10 final size:10
Alignment explanation
Indices: 14759455--14759498 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
14759445 TTCCTTTTTT
14759455 TTTTTTTTCA
1 TTTTTTTTCA
14759465 TTTTTTTTCA
1 TTTTTTTTCA
14759475 -TTTTTTTCA
1 TTTTTTTTCA
14759484 --TTTTTTCA
1 TTTTTTTTCA
14759492 TTTTTTT
1 TTTTTTT
14759499 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.25
9 9 0.28
10 15 0.47
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:14759458 original size:33 final size:34
Alignment explanation
Indices: 14759421--14759489 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
14759411 TGAATCTTTC
*
14759421 TTTTTCATTCACTTTTTTTC-TTTTTTCCTTTTT
1 TTTTTCATTCACTTTTTTTCATTTTTTCCATTTT
** * *
14759454 TTTTTTTTTCATTTTTTTTCATTTTTTTCATTTT
1 TTTTTCATTCACTTTTTTTCATTTTTTCCATTTT
14759488 TT
1 TT
14759490 CATTTTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 17 0.57
34 13 0.43
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (34 bp):
TTTTTCATTCACTTTTTTTCATTTTTTCCATTTT
Found at i:14759487 original size:17 final size:17
Alignment explanation
Indices: 14759441--14759499 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
14759431 ACTTTTTTTC
* *
14759441 TTTTTTCCTTTTTT-TT
1 TTTTTTCATTTTTTCAT
14759457 TTTTTTCATTTTTTTTCAT
1 TTTTTTCA--TTTTTTCAT
14759476 TTTTTTCATTTTTTCAT
1 TTTTTTCATTTTTTCAT
14759493 TTTTTTC
1 TTTTTTC
14759500 TTCAAGCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
16 7 0.18
17 16 0.42
18 6 0.16
19 9 0.24
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTCATTTTTTCAT
Found at i:14774919 original size:58 final size:58
Alignment explanation
Indices: 14774853--14775324 Score: 497
Period size: 58 Copynumber: 7.9 Consensus size: 58
14774843 TTTTGTGTAG
* * *
14774853 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTGAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTTAA
* * * * **
14774911 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTATTTTTGGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTT-CCTCAAAA-A-TTTT-TTTTT-GAAAATTTATTTTTAA
* * * **
14774974 GAAAAATTGATACTTTCAACTTTTCTTCAAAAA-TATTTTTTGAAAAAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTG---AAAA-TTTATTTTTAA
* * *
14775035 GGAAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTTTGAAAATTTAGTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATTTTTTTTTGAAAATTTATTTTTAA
*
14775094 GAAAAATTGATGCTTTCAACTTTTCCTC-AAAATCTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTTATTTTTAA
* * **
14775152 GAAAAATTGATACTTTCAACTTTT-TTCCAAAAA-TATTTTTTGAAAAATTTGAATTTCGAA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATTTTTTTTTG-AAAATTT--ATTTTTAA
* * *
14775212 -AAAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTTTTGAAGATTTATTCTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAA--ATTTTTTTTTGAAAATTTATTTTTAA
* *
14775271 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTTG-AATTTTATTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTTATTT
14775325 AAAAAAAATA
Statistics
Matches: 349, Mismatches: 42, Indels: 46
0.80 0.10 0.11
Matches are distributed among these distances:
57 11 0.03
58 93 0.27
59 87 0.25
60 46 0.13
61 51 0.15
62 19 0.05
63 42 0.12
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTTAA
Found at i:14775374 original size:26 final size:24
Alignment explanation
Indices: 14775324--14775379 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
14775314 GAATTTTATT
*
14775324 TAAAAAAAATAAAATAATAAAAAA
1 TAAAAAAAAGAAAATAATAAAAAA
14775348 TGAAAAAAAACGAAAATAA-ATAAAAA
1 T-AAAAAAAA-GAAAATAATA-AAAAA
14775374 TAAAAA
1 TAAAAA
14775380 TATTAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 1 0.04
25 14 0.50
26 13 0.46
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (24 bp):
TAAAAAAAAGAAAATAATAAAAAA
Found at i:14775408 original size:6 final size:6
Alignment explanation
Indices: 14775399--14775451 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 6
14775389 ATTTTGATAT
*
14775399 AATAAT AATAAA TAAATAAA AATAAA AATAAA AATAAAA AATGAAA AA-AAA
1 AATAAA AATAAA --AATAAA AATAAA AATAAA AAT-AAA AAT-AAA AATAAA
14775450 AA
1 AA
14775452 ACTTGGAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 5 0.12
6 20 0.48
7 11 0.26
8 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:14775435 original size:18 final size:19
Alignment explanation
Indices: 14775412--14775451 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14775402 AATAATAAAT
14775412 AAAT-AAAAAT-AAAAATAA
1 AAATAAAAAATGAAAAA-AA
14775430 AAATAAAAAATGAAAAAAA
1 AAATAAAAAATGAAAAAAA
14775449 AAA
1 AAA
14775452 ACTTGGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 11 0.55
20 5 0.25
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (19 bp):
AAATAAAAAATGAAAAAAA
Found at i:14775437 original size:17 final size:18
Alignment explanation
Indices: 14775397--14775438 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
14775387 CAATTTTGAT
*
14775397 ATAATAATAATAAAT-AA
1 ATAAAAATAATAAATAAA
14775414 ATAAAAATAA-AAATAAAA
1 ATAAAAATAATAAAT-AAA
14775432 ATAAAAA
1 ATAAAAA
14775439 ATGAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 9 0.41
18 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAAAAATAATAAATAAA
Found at i:14775439 original size:20 final size:19
Alignment explanation
Indices: 14775399--14775452 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
14775389 ATTTTGATAT
* *
14775399 AATAATAATAAATAAATAAA
1 AATAAAAATAAA-AAAAAAA
*
14775419 AATAAAAATAAAAATAAAA
1 AATAAAAATAAAAAAAAAA
*
14775438 AATGAAAA-AAAAAAA
1 AATAAAAATAAAAAAA
14775453 CTTGGAATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 6 0.21
19 12 0.41
20 11 0.38
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (19 bp):
AATAAAAATAAAAAAAAAA
Found at i:14776443 original size:13 final size:12
Alignment explanation
Indices: 14776427--14776479 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
14776417 TATATATACA
14776427 AAAAATATAAAAT
1 AAAAATA-AAAAT
14776440 AAAAATAAAATAT
1 AAAAATAAAA-AT
*
14776453 AAAAATACAAA-
1 AAAAATAAAAAT
*
14776464 AATAATAAAAAAT
1 AAAAAT-AAAAAT
14776477 AAA
1 AAA
14776480 GTGAACCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 5 0.15
12 8 0.24
13 20 0.61
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:14776461 original size:35 final size:34
Alignment explanation
Indices: 14776373--14776479 Score: 94
Period size: 35 Copynumber: 3.0 Consensus size: 34
14776363 GATAAATGAT
*
14776373 AATAAATATATAAAAGATA-AAGAAAAGAAAAA-AAGA
1 AATAAA-ATATAAAA-ATACAA-AAAATAAAAATAA-A
* *
14776409 AA-AAAATATATATATACAAAAAATATAAAATAAA
1 AATAAAATATAAAAATACAAAAAATA-AAAATAAA
14776443 AATAAAATATAAAAATACAAAAATAATAAAAAATAAA
1 AATAAAATATAAAAATAC-AAAA-AAT-AAAAATAAA
14776480 GTGAACCAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
33 8 0.14
34 15 0.25
35 18 0.31
36 6 0.10
37 11 0.19
38 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (34 bp):
AATAAAATATAAAAATACAAAAAATAAAAATAAA
Found at i:14776776 original size:20 final size:20
Alignment explanation
Indices: 14776680--14776776 Score: 56
Period size: 20 Copynumber: 4.9 Consensus size: 20
14776670 CACAAAAAGA
* *
14776680 TTCTAAAAAGTATTAAAAAT
1 TTCTAAAAAGTTTTAAAATT
* * *
14776700 TT-TAAAACA-TTATAGATTT
1 TTCTAAAA-AGTTTTAAAATT
* * *
14776719 TTTTAAAAATATTTTAAAA-G
1 TTCTAAAAA-GTTTTAAAATT
* * *
14776739 TTCTCAAAACTTTGAAAATT
1 TTCTAAAAAGTTTTAAAATT
14776759 TTCTAAAAAGTTTTAAAA
1 TTCTAAAAAGTTTTAAAA
14776777 CTTCAAAAAA
Statistics
Matches: 55, Mismatches: 17, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
19 20 0.36
20 30 0.55
21 5 0.09
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (20 bp):
TTCTAAAAAGTTTTAAAATT
Found at i:14776795 original size:10 final size:10
Alignment explanation
Indices: 14776782--14776855 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
14776772 TAAAACTTCA
14776782 AAAAAAATTT
1 AAAAAAATTT
14776792 -AAAAAATTT
1 AAAAAAATTT
*
14776801 ATAAAAATTCT
1 AAAAAAATT-T
*
14776812 -AAATAATTCT
1 AAAAAAATT-T
*
14776822 -AAAATATTT
1 AAAAAAATTT
*
14776831 TAAAAAATTCT
1 AAAAAAATT-T
14776842 AAAAAAAATTT
1 -AAAAAAATTT
14776853 AAA
1 AAA
14776856 TTTTTTTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
9 10 0.19
10 31 0.60
11 3 0.06
12 8 0.15
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:14776796 original size:20 final size:20
Alignment explanation
Indices: 14776763--14776855 Score: 80
Period size: 20 Copynumber: 4.6 Consensus size: 20
14776753 AAAATTTTCT
* * *
14776763 AAAAAGTTTTAAAACTTCAA
1 AAAAAATTTAAAAAATTCAA
*
14776783 AAAAAATTTAAAAAATT-TA
1 AAAAAATTTAAAAAATTCAA
* * *
14776802 TAAAAATTCTAAATAATTCTA
1 AAAAAATT-TAAAAAATTCAA
* *
14776823 AAATATTTTAAAAAATTCTAA
1 AAAAAATTTAAAAAATTC-AA
14776844 AAAAAATTTAAA
1 AAAAAATTTAAA
14776856 TTTTTTTTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
19 8 0.14
20 31 0.54
21 18 0.32
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAAAATTTAAAAAATTCAA
Found at i:14776797 original size:30 final size:29
Alignment explanation
Indices: 14776762--14776855 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 29
14776752 GAAAATTTTC
* *
14776762 TAAAAAGTTTTAAAACTTCAAAAAAAATT
1 TAAAAAATTTTAAAAATTCAAAAAAAATT
* *
14776791 TAAAAAATTTATAAAAATTC-TAAATAATT
1 TAAAAAATTT-TAAAAATTCAAAAAAAATT
*
14776820 CTAAAATATTTTAAAAAATTCTAAAAAAAATT
1 -TAAAAAATTTT-AAAAATTC-AAAAAAAATT
14776852 TAAA
1 TAAA
14776856 TTTTTTTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
29 17 0.32
30 25 0.47
31 4 0.08
32 7 0.13
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (29 bp):
TAAAAAATTTTAAAAATTCAAAAAAAATT
Found at i:14777063 original size:26 final size:26
Alignment explanation
Indices: 14777032--14777085 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
14777022 AACAAAATTT
* *
14777032 TTAAAAGTTTGAAAT-TTATAAAAAA
1 TTAAAAATATGAAATATTATAAAAAA
* *
14777057 TTAAAAATATGAAATATTTTAATAAA
1 TTAAAAATATGAAATATTATAAAAAA
14777083 TTA
1 TTA
14777086 TAAACATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (26 bp):
TTAAAAATATGAAATATTATAAAAAA
Found at i:14777469 original size:22 final size:22
Alignment explanation
Indices: 14777442--14777489 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
14777432 TTTAAATTTT
14777442 TTTATATTCTTTTAAAAAAAAG
1 TTTATATTCTTTTAAAAAAAAG
*
14777464 TTTATATTCTTTTAAAAAAAAT
1 TTTATATTCTTTTAAAAAAAAG
14777486 TTTA
1 TTTA
14777490 GTTTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTATATTCTTTTAAAAAAAAG
Found at i:14777605 original size:10 final size:9
Alignment explanation
Indices: 14777590--14777845 Score: 56
Period size: 10 Copynumber: 26.8 Consensus size: 9
14777580 AATTCTTTTG
*
14777590 AATTTTCAA
1 AATTTTTAA
*
14777599 AATTTTT-T
1 AATTTTTAA
14777607 AA-TTTTAA
1 AATTTTTAA
*
14777615 AATTTTCCAGA
1 AATTTT-TA-A
*
14777626 ATTTTTTAGA
1 AATTTTTA-A
14777636 AATTTTT-A
1 AATTTTTAA
* *
14777644 ATTTTTTTA
1 AATTTTTAA
*
14777653 AATTTGTAAA
1 AATTT-TTAA
* *
14777663 AACTTTTAG
1 AATTTTTAA
14777672 AATTTTTAAA
1 AATTTTT-AA
* *
14777682 AAATTTAAA
1 AATTTTTAA
*
14777691 AAATTTT--
1 AATTTTTAA
14777698 AATTTTCTAAAA
1 AATTTT-T--AA
14777710 AATTTTTGAA
1 AATTTTT-AA
* *
14777720 ATTATTTTAG
1 AAT-TTTTAA
*
14777730 AATTTATAGA
1 AATTTTTA-A
* *
14777740 ACTTTTGAAA
1 AATTTT-TAA
14777750 AATTTTTAGA
1 AATTTTTA-A
*
14777760 ATTTTTTAAAA
1 AATTTTT--AA
*
14777771 AATTTTCATA
1 AATTTTTA-A
* *
14777781 ATTTTTTAG
1 AATTTTTAA
*
14777790 ACTTTTTGAA
1 AATTTTT-AA
14777800 AA-TTTTAA
1 AATTTTTAA
14777808 TAATTTTTTAA
1 -AA-TTTTTAA
**
14777819 AATTCTTTTT
1 AATT-TTTAA
*
14777829 TATTTTTAAA
1 AATTTTT-AA
14777839 AATTTTT
1 AATTTTT
14777846 TAGATTTTTT
Statistics
Matches: 176, Mismatches: 46, Indels: 49
0.65 0.17 0.18
Matches are distributed among these distances:
7 9 0.05
8 14 0.08
9 53 0.30
10 69 0.39
11 24 0.14
12 7 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (9 bp):
AATTTTTAA
Found at i:14777605 original size:17 final size:16
Alignment explanation
Indices: 14777569--14777620 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
14777559 TCTTTTTCTA
* *
14777569 TTTGAATTTTTAATTCT
1 TTTGAATTTTAAAAT-T
14777586 TTTGAATTTTCAAAATT
1 TTTGAATTTT-AAAATT
*
14777603 TTTTAATTTTAAAATT
1 TTTGAATTTTAAAATT
14777619 TT
1 TT
14777621 CCAGAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 8 0.26
17 20 0.65
18 3 0.10
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTGAATTTTAAAATT
Found at i:14777669 original size:19 final size:19
Alignment explanation
Indices: 14777648--14777683 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14777638 TTTTTAATTT
14777648 TTTTA-AATTTGTAAAAAC
1 TTTTAGAATTTGTAAAAAC
*
14777666 TTTTAGAATTTTTAAAAA
1 TTTTAGAATTTGTAAAAA
14777684 ATTTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (19 bp):
TTTTAGAATTTGTAAAAAC
Found at i:14777697 original size:19 final size:19
Alignment explanation
Indices: 14777652--14777699 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
14777642 TAATTTTTTT
* * *
14777652 AAATTTGTAAAAACTTTTAG
1 AAATTT-TAAAAAATTTAAA
*
14777672 AATTTTTAAAAAATTTAAA
1 AAATTTTAAAAAATTTAAA
14777691 AAATTTTAA
1 AAATTTTAA
14777700 TTTTCTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (19 bp):
AAATTTTAAAAAATTTAAA
Found at i:14777722 original size:27 final size:26
Alignment explanation
Indices: 14777630--14777714 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 26
14777620 TCCAGAATTT
* * ** *
14777630 TTTAGAAATTTTTAATTTTTTTAAAT
1 TTTAAAAAATTTTAATTTTTAAAAAA
*
14777656 TTGTAAAAACTTTTAGAATTTTTAAAAAA
1 TT-TAAAAAATTTT--AATTTTTAAAAAA
14777685 TTTAAAAAATTTTAATTTTCTAAAAAA
1 TTTAAAAAATTTTAATTTT-TAAAAAA
14777712 TTT
1 TTT
14777715 TTGAAATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
26 8 0.16
27 19 0.39
28 10 0.20
29 12 0.24
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTAAAAAATTTTAATTTTTAAAAAA
Found at i:14777771 original size:21 final size:21
Alignment explanation
Indices: 14777685--14777788 Score: 78
Period size: 21 Copynumber: 5.2 Consensus size: 21
14777675 TTTTAAAAAA
14777685 TTTAAAAAA-TTTT--AATTT
1 TTTAAAAAATTTTTAGAATTT
*
14777703 TCTAAAAAATTTTT-GAAATTAT
1 TTTAAAAAATTTTTAG-AATT-T
* * *
14777725 TTT--AGAATTTATAGAA-CT
1 TTTAAAAAATTTTTAGAATTT
*
14777743 TTTGAAAAATTTTTAGAATTT
1 TTTAAAAAATTTTTAGAATTT
* *
14777764 TTTAAAAAATTTTCATAATTT
1 TTTAAAAAATTTTTAGAATTT
14777785 TTTA
1 TTTA
14777789 GACTTTTTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
18 12 0.18
19 4 0.06
20 20 0.30
21 28 0.42
22 3 0.04
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTAAAAAATTTTTAGAATTT
Found at i:14777776 original size:20 final size:20
Alignment explanation
Indices: 14777685--14777788 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 20
14777675 TTTTAAAAAA
14777685 TTTAAAAAATTTT--AATTT
1 TTTAAAAAATTTTAGAATTT
* *
14777703 TCTAAAAAATTTTTGAAATTAT
1 TTTAAAAAATTTTAG-AATT-T
* *
14777725 TTT--AGAATTTATAGAACTT
1 TTTAAAAAATTT-TAGAATTT
* *
14777744 TTGAAAAATTTTTAGAATTT
1 TTTAAAAAATTTTAGAATTT
*
14777764 TTTAAAAAATTTTCATAATTT
1 TTTAAAAAATTTT-AGAATTT
14777785 TTTA
1 TTTA
14777789 GACTTTTTGA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
18 12 0.18
19 3 0.05
20 27 0.41
21 21 0.32
22 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTAAAAAATTTTAGAATTT
Done.