Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 75 of 130
Found at i:15404842 original size:16 final size:14
Alignment explanation
Indices: 15404818--15404891 Score: 78
Period size: 14 Copynumber: 5.1 Consensus size: 14
15404808 AAAATAGAAC
*
15404818 AAAATAAAAAACTA
1 AAAATAAAAAAATA
15404832 AAAATAAAAAAATAA
1 AAAATAAAAAAAT-A
15404847 AAAATTAAAAAAATAAA
1 AAAA-TAAAAAAAT--A
*
15404864 AAAATAGAAAAATA
1 AAAATAAAAAAATA
*
15404878 AAAA-AATAAAATA
1 AAAATAAAAAAATA
15404891 A
1 A
15404892 CATCAAAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
13 8 0.15
14 17 0.32
15 5 0.09
16 17 0.32
17 6 0.11
ACGTcount: A:0.82, C:0.01, G:0.01, T:0.15
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:15404899 original size:24 final size:24
Alignment explanation
Indices: 15404831--15404924 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
15404821 ATAAAAAACT
* * *
15404831 AAAAATAAAAAAATAAAAAATTAA
1 AAAAATAAAAAAACAGAAAAATAA
*
15404855 AAAAATAAAAAAATAGAAAAATAA
1 AAAAATAAAAAAACAGAAAAATAA
* * *
15404879 AAAAATAAAATAACATCAAAATTGAA
1 AAAAATAAAAAAACA-GAAAAAT-AA
*
15404905 AAATATAACAAAAA-AGAAAA
1 AAAAATAA-AAAAACAGAAAA
15404925 GCAAAAACCT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 35 0.60
25 9 0.16
26 10 0.17
27 4 0.07
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (24 bp):
AAAAATAAAAAAACAGAAAAATAA
Found at i:15404900 original size:32 final size:31
Alignment explanation
Indices: 15404803--15404909 Score: 112
Period size: 32 Copynumber: 3.4 Consensus size: 31
15404793 AATAAATATT
15404803 AATA-AAAAATAGAACAAAATAAAAAAC-TAAA
1 AATAGAAAAATA-AA-AAAATAAAAAACATAAA
* *
15404834 AATAAAAAAATAAAAAATTAAAAAA-ATAAAAA
1 AATAGAAAAATAAAAAAATAAAAAACAT--AAA
*
15404866 AATAGAAAAATAAAAAAATAAAATAACATCAA
1 AATAGAAAAATAAAAAAATAAAA-AACATAAA
*
15404898 AATTGAAAAATA
1 AATAGAAAAATA
15404910 TAACAAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
30 11 0.17
31 6 0.09
32 44 0.68
33 2 0.03
34 2 0.03
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.16
Consensus pattern (31 bp):
AATAGAAAAATAAAAAAATAAAAAACATAAA
Found at i:15405875 original size:6 final size:6
Alignment explanation
Indices: 15405864--15405925 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
15405854 CTTTGACCAA
* * * * *
15405864 TAAAAT TAAAAT CAAAAT AAAAAAC TAAAAT CAAAAT CAAAAT TAAAA-
1 TAAAAT TAAAAT TAAAAT -TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
*
15405912 TCAAAT TAAAAT TA
1 TAAAAT TAAAAT TA
15405926 TTAGATTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
5 4 0.09
6 37 0.82
7 4 0.09
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (6 bp):
TAAAAT
Found at i:15405886 original size:12 final size:12
Alignment explanation
Indices: 15405865--15405922 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
15405855 TTTGACCAAT
*
15405865 AAAATTAAAATC
1 AAAATAAAAATC
*
15405877 AAAATAAAAAAC
1 AAAATAAAAATC
*
15405889 TAAAATCAAAATC
1 -AAAATAAAAATC
*
15405902 AAAATTAAAATC
1 AAAATAAAAATC
*
15405914 AAATTAAAA
1 AAAATAAAA
15405923 TTATTAGATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
12 28 0.74
13 10 0.26
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:15406281 original size:57 final size:56
Alignment explanation
Indices: 15406172--15406291 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 56
15406162 TATAATATAT
* * *
15406172 AAAAAAAGAATCAAAGTTAAAGATAAACGATGTACCATAAACACTGACAAAAGGAAA
1 AAAAAAAGAATCAAAATTAAAGATAAACAATCTACCATAAACACTGACAAAA-GAAA
* * * *
15406229 AAAAAAAGAATCAAAATTAAAGATAAATAATCTACCGTAAGCACCT-ATAAAAGAAA
1 AAAAAAAGAATCAAAATTAAAGATAAACAATCTACCATAAACA-CTGACAAAAGAAA
15406285 AAAAAAA
1 AAAAAAA
15406292 TACTTATGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
56 11 0.20
57 42 0.76
58 2 0.04
ACGTcount: A:0.62, C:0.12, G:0.11, T:0.15
Consensus pattern (56 bp):
AAAAAAAGAATCAAAATTAAAGATAAACAATCTACCATAAACACTGACAAAAGAAA
Found at i:15406665 original size:128 final size:131
Alignment explanation
Indices: 15406525--15406769 Score: 379
Period size: 132 Copynumber: 1.9 Consensus size: 131
15406515 ATATATCTAG
*
15406525 ATTATTAAAAAATTAATTTTAAAAGATAAAAGATA-A-ATATTTAAAT-TATATATCTAAATTAT
1 ATTATTAAAAAATTAATTTTAAAAGATAAAAAATATATATATTTAAATATATATATCTAAATTAT
* * *
15406587 TAAAAAATTAATTTTGGATAACTAATAATTTTTAAATACTTTTATTTATTTAATAAATACCATAA
66 TAAAAAATTAATGTTCGATAACTAATAACTTTTAAATACTTTTATTTATTTAATAAATACCATAA
15406652 A
131 A
* * *
15406653 ATTATTAGAAAATTAATTTTAGAAGATAAAAAATATATATATTTAAATAATATATATGTAAATTA
1 ATTATTAAAAAATTAATTTTAAAAGATAAAAAATATATATATTTAAAT-ATATATATCTAAATTA
* *
15406718 TTAGAAAATTAATGTTCGATAACTAATAACTTTTAAATATTTTTATTTATTT
65 TTAAAAAATTAATGTTCGATAACTAATAACTTTTAAATACTTTTATTTATTT
15406770 GGTTAATTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
128 32 0.31
129 1 0.01
130 10 0.10
132 61 0.59
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (131 bp):
ATTATTAAAAAATTAATTTTAAAAGATAAAAAATATATATATTTAAATATATATATCTAAATTAT
TAAAAAATTAATGTTCGATAACTAATAACTTTTAAATACTTTTATTTATTTAATAAATACCATAA
A
Found at i:15407289 original size:128 final size:127
Alignment explanation
Indices: 15407129--15407359 Score: 349
Period size: 128 Copynumber: 1.8 Consensus size: 127
15407119 ATTTTAAAAG
15407129 ATAAAAAGATATAGATTTAAATTATATATAAATTATTAAAAAAATTAATTTT-AGATAACTAATA
1 ATAAAAAGATATAGATTTAAATTATATATAAATTATTAAAAAAATTAATTTTGA-ATAACTAATA
* *
15407193 ATTTTTAAATACTTTTATTTATTTGATAAATACTATAAATTATTAGATAATTAAATTTATGAC
65 ATTTTTAAATACTTTTATTTAGTTGACAAATACTATAAATTATTAGATAATTAAATTTATGAC
* * * *
15407256 ATAAAAAGATATATA-TTAGATTATATATGTAAATTATTAAAAAAATTGATTTTGAATAATTAAT
1 ATAAAAAGATATAGATTTAAATTATATA--TAAATTATTAAAAAAATTAATTTTGAATAACTAAT
* *
15407320 AATTTTTAAATATTTTTATTTAGTTGGCAAATACTATAAA
64 AATTTTTAAATACTTTTATTTAGTTGACAAATACTATAAA
15407360 ATTAGAAATT
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
126 11 0.12
127 14 0.15
128 67 0.72
129 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (127 bp):
ATAAAAAGATATAGATTTAAATTATATATAAATTATTAAAAAAATTAATTTTGAATAACTAATAA
TTTTTAAATACTTTTATTTAGTTGACAAATACTATAAATTATTAGATAATTAAATTTATGAC
Found at i:15407766 original size:55 final size:56
Alignment explanation
Indices: 15407707--15407836 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 56
15407697 TGTAATATAT
* ** *
15407707 AAAAA-AATCAAAGTTAAAGACAAATGATTTACCGTAAACACTTATAAAAGGAAAAA
1 AAAAAGAATCAAAGTTAAAGACAAATAACCTACCATAAACACTTATAAAA-GAAAAA
* * *
15407763 AAAAAGAATTATA-TCTAAAGATAAATAACCTACCATAAACACTTATAAAAG-AAAA
1 AAAAAGAATCAAAGT-TAAAGACAAATAACCTACCATAAACACTTATAAAAGAAAAA
*
15407818 AAAAAGAATCAAAGGTAAA
1 AAAAAGAATCAAAGTTAAA
15407837 TGACCTACCA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
55 19 0.31
56 7 0.11
57 35 0.57
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.19
Consensus pattern (56 bp):
AAAAAGAATCAAAGTTAAAGACAAATAACCTACCATAAACACTTATAAAAGAAAAA
Found at i:15407843 original size:49 final size:52
Alignment explanation
Indices: 15407736--15407871 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 52
15407726 ACAAATGATT
*
15407736 TACCGTAAACACTTATAAAAGGAAAAAAAAAAGAATTATATCTAAAGATAAATAACC
1 TACCATAAACACTTATAAAA-G-AAAAAAAAAG-A--ATATCTAAAGATAAATAACC
* *
15407793 TACCATAAACACTTATAAAAGAAAAAAAAAG-A-ATC-AAAGGTAAATGACC
1 TACCATAAACACTTATAAAAGAAAAAAAAAGAATATCTAAAGATAAATAACC
* * *
15407842 TACCAAAAACACCTACAAAAGAAAAAAAAA
1 TACCATAAACACTTATAAAAGAAAAAAAAA
15407872 ATACTTATGT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
49 39 0.53
50 3 0.04
51 1 0.01
55 10 0.14
56 1 0.01
57 19 0.26
ACGTcount: A:0.61, C:0.15, G:0.08, T:0.16
Consensus pattern (52 bp):
TACCATAAACACTTATAAAAGAAAAAAAAAGAATATCTAAAGATAAATAACC
Found at i:15410057 original size:156 final size:156
Alignment explanation
Indices: 15409773--15410086 Score: 601
Period size: 156 Copynumber: 2.0 Consensus size: 156
15409763 AACCATATTG
*
15409773 AATAAAGATCTTATGGCTTAATTTAGGTTTCAAGATGGTGAGAAAGTCCTCAAAGCTCTTATGTT
1 AATAAAGATCTTATGGCTTAATTTAGGTTTCAAGATGGTGAGAAAGTCCTCAAAGCTCTCATGTT
15409838 TGATAAATATAAATTTTATAAATGGAGAATGAAGATGAAGATGTTCGTAACGGCCTATGATTTTA
66 TGATAAATATAAATTTTATAAATGGAGAATGAAGATGAAGATGTTCGTAACGGCCTATGATTTTA
15409903 AAGCTTGGAATGTGATAAAGGGATTA
131 AAGCTTGGAATGTGATAAAGGGATTA
15409929 AATAAAGATCTTATGGCTTAATTTAGGTTTCAAGATGGTGAGAAAGTCCTCAAAGCTCTCATGTT
1 AATAAAGATCTTATGGCTTAATTTAGGTTTCAAGATGGTGAGAAAGTCCTCAAAGCTCTCATGTT
* *
15409994 TGATAAATATAAATTTTGTGAATGGAGAATGAAGATGAAGATGTTCGTAACGGCCTATGATTTTA
66 TGATAAATATAAATTTTATAAATGGAGAATGAAGATGAAGATGTTCGTAACGGCCTATGATTTTA
15410059 AAGCTTGGAATGTGATAAAGGGATTA
131 AAGCTTGGAATGTGATAAAGGGATTA
15410085 AA
1 AA
15410087 ACTCCTTCAA
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 155 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (156 bp):
AATAAAGATCTTATGGCTTAATTTAGGTTTCAAGATGGTGAGAAAGTCCTCAAAGCTCTCATGTT
TGATAAATATAAATTTTATAAATGGAGAATGAAGATGAAGATGTTCGTAACGGCCTATGATTTTA
AAGCTTGGAATGTGATAAAGGGATTA
Found at i:15416450 original size:15 final size:15
Alignment explanation
Indices: 15416430--15416460 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15416420 TTTTGAATTA
*
15416430 AAGATTAGTGGATTG
1 AAGATTAATGGATTG
15416445 AAGATTAATGGATTG
1 AAGATTAATGGATTG
15416460 A
1 A
15416461 GGCCTTGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (15 bp):
AAGATTAATGGATTG
Found at i:15418734 original size:59 final size:59
Alignment explanation
Indices: 15418560--15418951 Score: 493
Period size: 58 Copynumber: 6.8 Consensus size: 59
15418550 TTGTGCAGGA
* * *
15418560 AAAATTGATACTTTCATCTTTTTC-CAAAAATTTTTTTTTG-AAA-CTTTAATTTCGAA-G
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAGC-TTATTTTC-AAGG
* * *** *
15418617 AAAATTAATACTTTTAACTTTTTCTCAAAAATCCATTTTTGAAAA-CTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
*
15418675 AAAATTAATACTTTCAACTTTTT-TCCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
* *
15418734 AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTAG-AAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
* * *
15418791 -AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAAGCTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
* *
15418848 AAAATTGATACTTTCAA-TGTTTCCTCAAAAATATTTTTTTTAAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACT-TTTTCTCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
*
15418907 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTT-AAAA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTGAAAA
15418952 TTTTATCTAA
Statistics
Matches: 303, Mismatches: 20, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
56 25 0.08
57 72 0.24
58 108 0.36
59 90 0.30
60 8 0.03
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
Found at i:15418861 original size:173 final size:173
Alignment explanation
Indices: 15418560--15418946 Score: 523
Period size: 173 Copynumber: 2.2 Consensus size: 173
15418550 TTGTGCAGGA
* * * *
15418560 AAAATTGATACTTTCATCTTTTTCC-AAAAATTTTTTTTTGAAACTTTAATTTCGAAGAAAATTA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAATATTTTTTAGAAACTTTAATTTCGAAGAAAATTA
* * * *
15418624 ATACTTTTAACTTTTTCTCAAAAATCCATTTTTGAAAACTTATTTTTAAGGAAAATTAATACTTT
65 ATACTTTCAACTTTTCCTCAAAAAT-CATTTTTGAAAACTTATTTTCAAGAAAAATTAATACTTT
* *
15418689 CAACTTTTTTC-CAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
129 CAA-TGTTTCCTCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
* * *
15418734 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAGC-TTATTTTC-AAGGAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAA-CTTTAATTTCGAAGAAAATTA
* *
15418797 ATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTT
65 ATACTTTCAACTTTTCCTCAAAAATCA-TTTTT-GAAAACTTATTTTCAAGAAAAATTAATACTT
*
15418861 TCAATGTTTCCTCAAAAATATTTTTTTTAAAAGCTTATTTTCAAGG
128 TCAATGTTTCCTCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
15418907 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAATAT-TTTTT
15418947 TAAAATTTTA
Statistics
Matches: 190, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
171 1 0.01
172 10 0.05
173 127 0.67
174 46 0.24
175 6 0.03
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (173 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAACTTTAATTTCGAAGAAAATTAA
TACTTTCAACTTTTCCTCAAAAATCATTTTTGAAAACTTATTTTCAAGAAAAATTAATACTTTCA
ATGTTTCCTCAAAAATATTTTTTTGAAAAGCTTATTTTCAAGG
Found at i:15418997 original size:13 final size:13
Alignment explanation
Indices: 15418969--15419035 Score: 84
Period size: 13 Copynumber: 5.2 Consensus size: 13
15418959 TAAAGAAAAT
15418969 AAAAT-AAAAT-A
1 AAAATGAAAATAA
15418980 AAAATGAAAATAA
1 AAAATGAAAATAA
15418993 AAAATGAAAATAA
1 AAAATGAAAATAA
*
15419006 AAAATGAAGAAGAAA
1 AAAATGAA-AA-TAA
*
15419021 AAAATAAAAATAA
1 AAAATGAAAATAA
15419034 AA
1 AA
15419036 TAAAAAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
11 5 0.10
12 5 0.10
13 26 0.53
14 4 0.08
15 9 0.18
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAATGAAAATAA
Found at i:15419031 original size:6 final size:6
Alignment explanation
Indices: 15418964--15419041 Score: 63
Period size: 6 Copynumber: 12.7 Consensus size: 6
15418954 TTATCTAAAG
* *
15418964 AAAAT- AAAAT- AAAATA AAAATG AAAATAA AAAATG AAAATAA AAAATGA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAAT-A AAAAT-A
*
15419013 AGAAGAAA AAAATA AAAAT- AAAATA AAAA
1 A-AA-ATA AAAATA AAAATA AAAATA AAAA
15419042 ATTAAACAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
5 15 0.25
6 26 0.43
7 14 0.23
8 4 0.07
9 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:15419395 original size:20 final size:20
Alignment explanation
Indices: 15419370--15419409 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15419360 AGCAGAATTC
15419370 TCCTTCC-CTCTCTCTCTCTT
1 TCCTTCCTCT-TCTCTCTCTT
*
15419390 TCCTTCTTCTTCTCTCTCTT
1 TCCTTCCTCTTCTCTCTCTT
15419410 CTCTCTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (20 bp):
TCCTTCCTCTTCTCTCTCTT
Found at i:15419966 original size:16 final size:17
Alignment explanation
Indices: 15419936--15419981 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
15419926 TAAATATATT
15419936 AATAGATAACA-AAAA-A
1 AATAGATAA-ATAAAAGA
*
15419952 ATTAGATAAATAAAAGA
1 AATAGATAAATAAAAGA
15419969 AATAGATAAATAA
1 AATAGATAAATAA
15419982 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 13 0.50
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (17 bp):
AATAGATAAATAAAAGA
Found at i:15419974 original size:17 final size:16
Alignment explanation
Indices: 15419936--15420050 Score: 62
Period size: 16 Copynumber: 7.2 Consensus size: 16
15419926 TAAATATATT
15419936 AATAGATAACA-AAAAA
1 AATAGATAA-ATAAAAA
*
15419952 ATTAGATAAATAAAAGA
1 AATAGATAAATAAAA-A
*
15419969 AATAGATAAAT--AAT
1 AATAGATAAATAAAAA
*
15419983 AATA-A-AAA-ATAAA
1 AATAGATAAATAAAAA
**
15419996 AGCAGATAAATAATAAA
1 AATAGATAAATAA-AAA
* *
15420013 AATATTAATAGATAAAAA
1 AATA--GATAAATAAAAA
* *
15420031 AATAAAAAAATAAAAA
1 AATAGATAAATAAAAA
15420047 AATA
1 AATA
15420051 TATATTAAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
12 3 0.04
13 5 0.07
14 5 0.07
15 6 0.08
16 27 0.36
17 16 0.21
18 7 0.09
19 7 0.09
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (16 bp):
AATAGATAAATAAAAA
Found at i:15419990 original size:24 final size:24
Alignment explanation
Indices: 15419963--15420040 Score: 63
Period size: 27 Copynumber: 3.2 Consensus size: 24
15419953 TTAGATAAAT
*
15419963 AAAAGAAATAGATAAATAATAATAA
1 AAAAAAAATAGATAAATAATAAT-A
*
15419988 AAAATAAAAGCAGATAAATAATAA-A
1 AAAA-AAAA-TAGATAAATAATAATA
* **
15420013 AATATTAATAGATAAA-AA-AATA
1 AAAAAAAATAGATAAATAATAATA
15420035 AAAAAA
1 AAAAAA
15420041 TAAAAAAATA
Statistics
Matches: 41, Mismatches: 9, Indels: 9
0.69 0.15 0.15
Matches are distributed among these distances:
21 2 0.05
22 6 0.15
23 7 0.17
24 2 0.05
25 8 0.20
26 3 0.07
27 13 0.32
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAAAAAATAGATAAATAATAATA
Found at i:15420011 original size:30 final size:30
Alignment explanation
Indices: 15419959--15420046 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
15419949 AAAATTAGAT
* *
15419959 AAATAAAAGAAATAGATAAATAATAATAAA
1 AAATAAAAGAAATAAATAAATAAAAATAAA
*
15419989 AAATAAAAGCAGATAAAT-AATAAAAATATTAA
1 AAATAAAAG-AAATAAATAAATAAAAATA--AA
* *
15420021 TAGATAAAA-AAATAAAAAAATAAAAA
1 -AAATAAAAGAAATAAATAAATAAAAA
15420047 AATATATATT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 18 0.38
31 12 0.26
32 10 0.21
33 7 0.15
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (30 bp):
AAATAAAAGAAATAAATAAATAAAAATAAA
Found at i:15420040 original size:9 final size:8
Alignment explanation
Indices: 15420024--15420050 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15420014 ATATTAATAG
15420024 ATAAAAAA
1 ATAAAAAA
15420032 ATAAAAAA
1 ATAAAAAA
15420040 ATAAAAAA
1 ATAAAAAA
15420048 ATA
1 ATA
15420051 TATATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:15420044 original size:83 final size:83
Alignment explanation
Indices: 15419925--15420079 Score: 190
Period size: 83 Copynumber: 1.9 Consensus size: 83
15419915 AAATAAAAAG
* ** * *
15419925 ATAAATATATTAATAGATAACAAAAAAATTAGATAAATAAAAGAAATAGATAAATAAT-AATA-A
1 ATAAAAATATTAATAGATAACAAAAAAAAAAAATAAA-AAAAGAAATA-ATAAATAATGAAAATA
15419988 AAAATAAAAGCAGATAAATA
64 AAAATAAAAGCAGATAAATA
* * *
15420008 ATAAAAATATTAATAGATAA-AAAAATAAAAAAATAAAAAAATATATATTAAATAATGAAAATAA
1 ATAAAAATATTAATAGATAACAAAAA-AAAAAAATAAAAAAAGAAATAATAAATAATGAAAATAA
15420072 AAATAAAA
65 AAATAAAA
15420080 AAACCATTGG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
81 8 0.13
82 16 0.26
83 37 0.61
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.23
Consensus pattern (83 bp):
ATAAAAATATTAATAGATAACAAAAAAAAAAAATAAAAAAAGAAATAATAAATAATGAAAATAAA
AATAAAAGCAGATAAATA
Found at i:15420366 original size:45 final size:44
Alignment explanation
Indices: 15420315--15420445 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 44
15420305 AAATTTTGAT
*
15420315 CAAAGCTCCTCTAAGCAAAAGCTTAACGA-TTTTGAGAAACATAAA
1 CAAAGCTCCTCTAAGCAAAAGCTCAACGACTTTTGA-AAA-ATAAA
* * *
15420360 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAAT-AA
1 CAAAGCTCCTCTAAGCAAAAGCTCAACGACTTTTGAAAAATAAA
** * * * *
15420403 -ATGGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAGCAAAAGCTCAACGACTTTTGAAAAATAAA
15420446 TGGCTCCTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
42 37 0.48
43 4 0.05
44 2 0.03
45 28 0.36
46 6 0.08
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (44 bp):
CAAAGCTCCTCTAAGCAAAAGCTCAACGACTTTTGAAAAATAAA
Found at i:15420498 original size:41 final size:41
Alignment explanation
Indices: 15420364--15420904 Score: 483
Period size: 41 Copynumber: 13.1 Consensus size: 41
15420354 CATAAACAAA
* * *
15420364 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATT
* * *
15420406 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTT-GAAAAGTAAATT
* *
15420448 GCTCCTATAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATT
* * *
15420489 GCTCTTATAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATT
* * **
15420530 GCTCATCTAATTAGAGGCTCAACAACTTTGAAAA-TAACTAAA
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAA--ATT
* *
15420572 GCTCCTCTAATTAGAGGCTCAACAACTTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATT
* * * * *
15420614 GCTCCTCTAATCATAGGCTTATC--TTTTGGAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATT
* * * * *
15420653 GCTCCTCTAAACAGAGGCACCACATCTTTGGAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATT
* * * *
15420694 GCTCCTCTAAAT-AGATGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCT-AATCAGAGGCTCAACAACTTT-GAAAAGTAAATT
* * * * *
15420735 GCTCTTTTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATT
* *
15420776 GCTCCTCTAAAT-AGA-G-ACAACGAGACTTTG-GAAGTAAATT
1 GCTCCTCT-AATCAGAGGCTCAAC-A-ACTTTGAAAAGTAAATT
* * * * *
15420816 GCTCATCTAATTAGAGGCACTACCACTTTGAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATT
* *
15420857 GCTCCTCTAAACAGAGG--CAACGAAACTTTGAAAAAATAAATT
1 GCTCCTCTAATCAGAGGCTCAAC--AACTTTG-AAAAGTAAATT
15420899 GCTCCT
1 GCTCCT
15420905 TGACAATCAT
Statistics
Matches: 427, Mismatches: 51, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
39 40 0.09
40 37 0.09
41 200 0.47
42 139 0.33
43 8 0.02
44 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATT
Found at i:15421428 original size:22 final size:21
Alignment explanation
Indices: 15421372--15421432 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
15421362 AACTTTTCAC
15421372 TTCTCAAAGATTCTCATTTTGA
1 TTCTCAAAGATTCTCA-TTTGA
** *
15421394 AACTTAAAGATTCTCATTTGA
1 TTCTCAAAGATTCTCATTTGA
*
15421415 GTTCTCAAAAATTCTCAT
1 -TTCTCAAAGATTCTCAT
15421433 CAAAATATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (21 bp):
TTCTCAAAGATTCTCATTTGA
Found at i:15421964 original size:63 final size:63
Alignment explanation
Indices: 15421824--15421964 Score: 192
Period size: 63 Copynumber: 2.2 Consensus size: 63
15421814 TACATGCTAG
* * * ** *
15421824 GCTTATCAGCACTAACCATTTCAAAATAAATTTCATGTTCTGTCACTTGGTCATCGTTCATAA
1 GCTTCTCAGCACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAA
* ** *
15421887 GCTTCTTAATACTAGCCATTTCAAAACAAATTTCATCATCTGTCATTTGGTCATCATTCATAA
1 GCTTCTCAGCACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAA
15421950 GCTTCTCAGCACTAG
1 GCTTCTCAGCACTAG
15421965 TTTCATCTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (63 bp):
GCTTCTCAGCACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAA
Found at i:15422666 original size:7 final size:8
Alignment explanation
Indices: 15422647--15422671 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15422637 TTTGAATCTT
15422647 TTTTTTCA
1 TTTTTTCA
15422655 TTTTTTCA
1 TTTTTTCA
15422663 TTTTTTCA
1 TTTTTTCA
15422671 T
1 T
15422672 CATCTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:15426578 original size:16 final size:16
Alignment explanation
Indices: 15426557--15426593 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15426547 TGTTTAACAT
15426557 TAAAAAA-ATAAGAAAA
1 TAAAAAAGA-AAGAAAA
15426573 TAAAAAAGAAAGAAAA
1 TAAAAAAGAAAGAAAA
15426589 -AAAAA
1 TAAAAA
15426594 TGATTGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 14 0.70
17 1 0.05
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (16 bp):
TAAAAAAGAAAGAAAA
Found at i:15426777 original size:59 final size:59
Alignment explanation
Indices: 15426608--15426827 Score: 274
Period size: 57 Copynumber: 3.8 Consensus size: 59
15426598 TGCTTTTGTG
* * * * *
15426608 CAAGAAAAATTGATACTTTCAACTTTTTC-CCAAAAT-TTTTTTTTGAAA-CTTTAATTT
1 CAAGGAAAATTGATACTTTAAACTTTTTCTCAAAAATATTTTTTTAGAAAGC-TTATTTT
*
15426665 CGAA-GAAAATTGATACTTTCAAA-TTTTCCTC-AAAATA-TTTTTTAGAAAGCTTATTTT
1 C-AAGGAAAATTGATACTTT-AAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTT
* *
15426722 CAAGGAAAATTGATATTTTAAACTTTTTCTTAAAAATATTTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTAAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTT
*
15426781 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTTTA
1 CAAGGAAAATTGATACTTTAAACTTTTTCTCAAAAATAT-TTTTTTA
15426828 AAATTTTATC
Statistics
Matches: 142, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
56 5 0.04
57 62 0.44
58 12 0.08
59 56 0.39
60 7 0.05
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (59 bp):
CAAGGAAAATTGATACTTTAAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTT
Found at i:15426814 original size:116 final size:116
Alignment explanation
Indices: 15426608--15426825 Score: 291
Period size: 116 Copynumber: 1.9 Consensus size: 116
15426598 TGCTTTTGTG
* * *
15426608 CAAGAAAAATTGATACTTTCAACTTTTTCCCAAAATTTTTTTTTGAAACTTTAATTTCGAAGAAA
1 CAAGAAAAATTGATACTTTAAACTTTTTCCAAAAATTTTTTTTAGAAACTTTAATTTCGAAGAAA
15426673 ATTGATACTTTCAAATTTTCCTC-AAAATAT-TTTTTAGAAAGCTTATTTT
66 ATTGATACTTTCAAATTTTCCTCAAAAATATATTTTTAGAAAGCTTATTTT
* * * *
15426722 CAAGGAAAATTGATATTTTAAACTTTTTCTTAAAAATATTTTTTTAGAAAGC-TTATTTTC-AAG
1 CAAGAAAAATTGATACTTTAAACTTTTTC-CAAAAAT-TTTTTTTAGAAA-CTTTAATTTCGAA-
* *
15426785 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTT
62 GAAAATTGATACTTTCAAATTTTCCTCAAAAATATATTTTT
15426826 TAAAATTTTA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
114 26 0.29
115 7 0.08
116 43 0.48
117 8 0.09
118 5 0.06
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (116 bp):
CAAGAAAAATTGATACTTTAAACTTTTTCCAAAAATTTTTTTTAGAAACTTTAATTTCGAAGAAA
ATTGATACTTTCAAATTTTCCTCAAAAATATATTTTTAGAAAGCTTATTTT
Found at i:15426850 original size:9 final size:8
Alignment explanation
Indices: 15426848--15426896 Score: 57
Period size: 9 Copynumber: 6.0 Consensus size: 8
15426838 TAAAGAAAAT
15426848 AAAATAAAA
1 AAAAT-AAA
15426857 AAAATAAAA
1 AAAAT-AAA
15426866 AAAATAAA
1 AAAATAAA
15426874 AAAGA-AAA
1 AAA-ATAAA
15426882 AAAAT-AA
1 AAAATAAA
15426889 AAAATAAA
1 AAAATAAA
15426897 TATTAAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 8 0.22
8 14 0.38
9 15 0.41
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (8 bp):
AAAATAAA
Found at i:15426860 original size:14 final size:14
Alignment explanation
Indices: 15426838--15426890 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
15426828 AAATTTTATC
*
15426838 TAAAGAAAATAAAA
1 TAAAAAAAATAAAA
15426852 TAAAAAAAAT-AAA
1 TAAAAAAAATAAAA
*
15426865 -AAAAATAA-AAAA
1 TAAAAAAAATAAAA
*
15426877 GAAAAAAAATAAAA
1 TAAAAAAAATAAAA
15426891 AATAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.30
13 10 0.30
14 13 0.39
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (14 bp):
TAAAAAAAATAAAA
Found at i:15426865 original size:6 final size:6
Alignment explanation
Indices: 15426843--15426979 Score: 57
Period size: 6 Copynumber: 22.3 Consensus size: 6
15426833 TTATCTAAAG
* *
15426843 AAAAT- AAAATA AAAA-A AATAAAA AAAATA AAAA-A GAAA-A AAAATAA
1 AAAATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAAT-A
* * * * * * *
15426889 AAAATA AATATTA AACAATTCT AATATA ATAATA ATAATA ATAATA ATAATA
1 AAAATA AA-AATA AA-AA-T-A AAAATA AAAATA AAAATA AAAATA AAAATA
* * * * *
15426941 ATAATA ATAATA ATAATA ATAATA ATAATA ATAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AA
15426980 TAAATAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
5 16 0.14
6 70 0.63
7 21 0.19
8 2 0.02
9 2 0.02
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (6 bp):
AAAATA
Found at i:15426869 original size:23 final size:23
Alignment explanation
Indices: 15426838--15426896 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
15426828 AAATTTTATC
*
15426838 TAAAGAAAATAAAATAA-AAAAAA
1 TAAAAAAAATAAAA-AAGAAAAAA
15426861 TAAAAAAAATAAAAAAGAAAAAA
1 TAAAAAAAATAAAAAAGAAAAAA
15426884 -AATAAAAAATAAA
1 TAA-AAAAAATAAA
15426897 TATTAAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (23 bp):
TAAAAAAAATAAAAAAGAAAAAA
Found at i:15426874 original size:16 final size:16
Alignment explanation
Indices: 15426843--15426896 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
15426833 TTATCTAAAG
*
15426843 AAAAT-AAAATAA-AA
1 AAAATAAAAAAAATAA
15426857 AAAATAAAAAAAATAA
1 AAAATAAAAAAAATAA
*
15426873 AAAAGAAAAAAAATAA
1 AAAATAAAAAAAATAA
15426889 AAAATAAA
1 AAAATAAA
15426897 TATTAAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 5 0.14
15 6 0.17
16 24 0.69
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (16 bp):
AAAATAAAAAAAATAA
Found at i:15426922 original size:3 final size:3
Alignment explanation
Indices: 15426910--15426974 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
15426900 TAAACAATTC
15426910 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15426957 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
15426975 ATAAATAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:15427273 original size:16 final size:17
Alignment explanation
Indices: 15427237--15427279 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
15427227 GCAGAATCCT
* *
15427237 CCTTCCCTCTCTCTCTT
1 CCTTCTCTCTCTCTCTC
*
15427254 CCTTTTCTCT-TCTCTC
1 CCTTCTCTCTCTCTCTC
15427270 CCTTCTCTCT
1 CCTTCTCTCT
15427280 AAAACTCGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (17 bp):
CCTTCTCTCTCTCTCTC
Found at i:15427621 original size:19 final size:19
Alignment explanation
Indices: 15427594--15427635 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15427584 CTTTTAAATC
*
15427594 TTCTCTGTGTCTGCTTTTT
1 TTCTCTGTGTCTGCTTTTG
* *
15427613 TTCTGTGTGTCTTCTTTTG
1 TTCTCTGTGTCTGCTTTTG
15427632 TTCT
1 TTCT
15427636 TCCAGCACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.17, T:0.64
Consensus pattern (19 bp):
TTCTCTGTGTCTGCTTTTG
Found at i:15427880 original size:24 final size:24
Alignment explanation
Indices: 15427850--15427930 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 24
15427840 TAATTAGATA
*
15427850 AATAAAAGA-AATAGATAAAAAAT
1 AATAAAAAATAATAGATAAAAAAT
* *
15427873 AATAAAAAATAAAAGCA-AATAAAT
1 AATAAAAAATAATAG-ATAAAAAAT
15427897 AATAAAAATATTAATAGATAAAAAAAT
1 AATAAAAA-A-TAATAGAT-AAAAAAT
15427924 AA-AAAAA
1 AATAAAAA
15427931 TATATATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
23 8 0.17
24 18 0.38
25 3 0.06
26 10 0.21
27 8 0.17
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (24 bp):
AATAAAAAATAATAGATAAAAAAT
Found at i:15427943 original size:26 final size:27
Alignment explanation
Indices: 15427893--15427955 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
15427883 AAAAGCAAAT
*
15427893 AAATAATAAAAATATTAATAGATAA-AA
1 AAATAA-AAAAATATTAATAAATAATAA
*
15427920 AAATAAAAAAATA-TATATAAATAATGA
1 AAATAAAAAAATATTA-ATAAATAATAA
15427947 AAATAAAAA
1 AAATAAAAA
15427956 TAAAAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 14 0.44
27 16 0.50
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (27 bp):
AAATAAAAAAATATTAATAAATAATAA
Found at i:15427964 original size:59 final size:63
Alignment explanation
Indices: 15427833--15427964 Score: 143
Period size: 62 Copynumber: 2.1 Consensus size: 63
15427823 ATAGATAACA
15427833 AAAAAAATAATTAGATAAATAAAAGAAATAGATAAAAAATAATAAAAAATAAAAGCAAATAAAT
1 AAAAAAATAATTAGATAAATAAAAGAAATAGATAAAAAATAATAAAAAATAAAA-CAAATAAAT
* * *
15427897 AATAAAAAT-ATTA-ATAGATAAAA-AAATA-A-AAAAATATATATAAATAATGAAAA-TAA-AA
1 AA-AAAAATAATTAGATAAATAAAAGAAATAGATAAAAA-ATA-ATAAAAAAT-AAAACAAATAA
15427955 AT
62 AT
15427957 AAAAAAAT
1 AAAAAAAT
15427965 CATTGGGGCC
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
59 6 0.10
60 11 0.18
61 6 0.10
62 13 0.21
63 13 0.21
64 6 0.10
65 6 0.10
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (63 bp):
AAAAAAATAATTAGATAAATAAAAGAAATAGATAAAAAATAATAAAAAATAAAACAAATAAAT
Found at i:15430648 original size:17 final size:17
Alignment explanation
Indices: 15430625--15430659 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
15430615 ATCAGGTACC
15430625 TATATATGTTATAATATAA
1 TATATATG--ATAATATAA
15430644 TATATATGATAATATA
1 TATATATGATAATATA
15430660 TAAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
TATATATGATAATATAA
Found at i:15430660 original size:19 final size:19
Alignment explanation
Indices: 15430625--15430662 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15430615 ATCAGGTACC
*
15430625 TATATATGTTATAATATAA
1 TATATATGTAATAATATAA
15430644 TATATATGATAAT-ATATAA
1 TATATATG-TAATAATATAA
15430663 ATTATTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TATATATGTAATAATATAA
Found at i:15431149 original size:23 final size:23
Alignment explanation
Indices: 15431119--15431167 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
15431109 TTTGTTTGCT
15431119 TTTAGATCATAGTAAAAAAGACA
1 TTTAGATCATAGTAAAAAAGACA
15431142 TTTAGATCATAGTAAAAAAGACA
1 TTTAGATCATAGTAAAAAAGACA
15431165 TTT
1 TTT
15431168 CCATATGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (23 bp):
TTTAGATCATAGTAAAAAAGACA
Found at i:15438873 original size:15 final size:15
Alignment explanation
Indices: 15438845--15438876 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15438835 AAAATAAAAG
*
15438845 ATATATATTTAAATT
1 ATATATATCTAAATT
15438860 ATATATATCTAAATT
1 ATATATATCTAAATT
15438875 AT
1 AT
15438877 TAGAAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATCTAAATT
Found at i:15439002 original size:15 final size:15
Alignment explanation
Indices: 15438982--15439014 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15438972 AAGATATATA
*
15438982 TATATATATTTAAAT
1 TATATATATGTAAAT
15438997 TATATATATGTAAAT
1 TATATATATGTAAAT
15439012 TAT
1 TAT
15439015 TAGAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TATATATATGTAAAT
Found at i:15441536 original size:21 final size:21
Alignment explanation
Indices: 15441511--15441550 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15441501 TAGATTTTTA
15441511 CATTAGGGTTT-AGGGTTTCTC
1 CATTAGGGTTTCA-GGTTTCTC
*
15441532 CATTATGGTTTCAGGTTTC
1 CATTAGGGTTTCAGGTTTC
15441551 ATTTAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.45
Consensus pattern (21 bp):
CATTAGGGTTTCAGGTTTCTC
Found at i:15443610 original size:22 final size:22
Alignment explanation
Indices: 15443565--15443611 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
15443555 ACTTTATTTT
*
15443565 ATTTTTATTTTTGGGCCTTGAA
1 ATTTTTATTTTTGGGCCTTAAA
15443587 ATTTTTATTGTTTGGGCC-TAAA
1 ATTTTTATT-TTTGGGCCTTAAA
15443609 ATT
1 ATT
15443612 GTATCATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.53
Consensus pattern (22 bp):
ATTTTTATTTTTGGGCCTTAAA
Found at i:15443677 original size:23 final size:25
Alignment explanation
Indices: 15443646--15443693 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
15443636 ATTTTGGGCC
15443646 AATTCTATTTC-TTTTTATT-TTTA
1 AATTCTATTTCTTTTTTATTATTTA
*
15443669 AATTTTATTTCTTTTTTATTATTTA
1 AATTCTATTTCTTTTTTATTATTTA
15443694 TTATTTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (25 bp):
AATTCTATTTCTTTTTTATTATTTA
Found at i:15443690 original size:27 final size:26
Alignment explanation
Indices: 15443660--15443761 Score: 66
Period size: 27 Copynumber: 3.7 Consensus size: 26
15443650 CTATTTCTTT
15443660 TTATTTTTAAATTTTATTTCTTTTTTA
1 TTATTTTT-AATTTTATTTCTTTTTTA
* *
15443687 TTATTTATT-ATTTCTATTACTATTTACTA
1 TTATTT-TTAATTT-TATTTCT-TTT-TTA
*
15443716 TTATATTTTTATTTTTATTTGGCTTTTTTA
1 -T-TATTTTTAATTTTATTT--CTTTTTTA
*
15443746 -TATTTTTTA-TTTATTT
1 TTATTTTTAATTTTATTT
15443762 GAATTTTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 19
0.69 0.08 0.22
Matches are distributed among these distances:
26 11 0.19
27 19 0.32
28 5 0.08
29 2 0.03
30 9 0.15
31 11 0.19
32 2 0.03
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (26 bp):
TTATTTTTAATTTTATTTCTTTTTTA
Found at i:15443768 original size:26 final size:27
Alignment explanation
Indices: 15443716--15443768 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
15443706 CTATTTACTA
* **
15443716 TTATATTTTTATTTTTATTTGGCTTTT
1 TTATATTTTTATATTTATTTGAATTTT
15443743 TTATATTTTT-TATTTATTTGAATTTT
1 TTATATTTTTATATTTATTTGAATTTT
15443769 CATTTAATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (27 bp):
TTATATTTTTATATTTATTTGAATTTT
Found at i:15447476 original size:20 final size:20
Alignment explanation
Indices: 15447430--15447468 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15447420 AATATATTAT
15447430 AATATAAACTACCATGCAAC
1 AATATAAACTACCATGCAAC
* * *
15447450 AACATAAATTATCATGCAA
1 AATATAAACTACCATGCAA
15447469 ATATATAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (20 bp):
AATATAAACTACCATGCAAC
Found at i:15447788 original size:41 final size:41
Alignment explanation
Indices: 15447708--15448067 Score: 210
Period size: 41 Copynumber: 8.6 Consensus size: 41
15447698 ATAATGTAAT
* *
15447708 TAAATATATAATCATCCAATTAAACAATGTAAAGCATGCAAT
1 TAAATATATAATCATCCAATT-AACAATGTAAAACATGCAAA
* ** *
15447750 TAAATATCTAATCATTTAATTGACAATGTAAAACATGCAAA
1 TAAATATATAATCATCCAATTAACAATGTAAAACATGCAAA
* * * *
15447791 TAAATATATAATCATGCAATTAATAATATAAATCATGCAAA
1 TAAATATATAATCATCCAATTAACAATGTAAAACATGCAAA
* ** * * * *
15447832 TAAATATATAATCATACAATTAGTAATATAAATCATACAAT
1 TAAATATATAATCATCCAATTAACAATGTAAAACATGCAAA
* * *
15447873 TAAATATATATAATCA-CGCAATTAACAATATAAATCATGAATATAAATA
1 T-AA-ATATATAATCATC-CAATTAACAATGTAAAACATG-----CAA-A
* * * * *
15447922 TAAATATATAATAATGCAATTAACAATATAAATCATGC-AG
1 TAAATATATAATCATCCAATTAACAATGTAAAACATGCAAA
* * * * * *
15447962 TAAAATATACAATTATGCAACTAACAATATAAATCATGC-AA
1 T-AAATATATAATCATCCAATTAACAATGTAAAACATGCAAA
* ** * *
15448003 TCAAATATATAATTATGTAATT-A-AATGTATAATCATGCAAT
1 T-AAATATATAATCATCCAATTAACAATGTA-AAACATGCAAA
*
15448044 TAACA-ATATAAATCATACAATTAA
1 TAA-ATATAT-AATCATCCAATTAA
15448068 ATATATAATC
Statistics
Matches: 262, Mismatches: 40, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
39 5 0.02
40 16 0.06
41 155 0.59
42 21 0.08
43 29 0.11
47 31 0.12
48 4 0.02
49 1 0.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.31
Consensus pattern (41 bp):
TAAATATATAATCATCCAATTAACAATGTAAAACATGCAAA
Found at i:15448014 original size:90 final size:90
Alignment explanation
Indices: 15447831--15447999 Score: 234
Period size: 90 Copynumber: 1.9 Consensus size: 90
15447821 AATCATGCAA
* ** * * *
15447831 ATAAATATATAATCATACAATTAGTAATATAAATCATACAATTAAATATATATAATCACGCAATT
1 ATAAATATATAATAATACAATTAACAATATAAATCATACAAGTAAATATATACAATCACGCAACT
15447896 AACAATATAAATCATGAATATAAAT
66 AACAATATAAATCATGAATATAAAT
* * * *
15447921 ATAAATATATAATAATGCAATTAACAATATAAATCATGC-AGTAAA-ATATACAATTATGCAACT
1 ATAAATATATAATAATACAATTAACAATATAAATCATACAAGTAAATATATACAATCACGCAACT
15447984 AACAATATAAATCATG
66 AACAATATAAATCATG
15448000 CAATCAAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
88 30 0.43
89 5 0.07
90 34 0.49
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.31
Consensus pattern (90 bp):
ATAAATATATAATAATACAATTAACAATATAAATCATACAAGTAAATATATACAATCACGCAACT
AACAATATAAATCATGAATATAAAT
Found at i:15448133 original size:32 final size:31
Alignment explanation
Indices: 15448097--15448189 Score: 85
Period size: 32 Copynumber: 3.2 Consensus size: 31
15448087 CACAAATAAA
15448097 TAAATTAATAATCATGCAATTAAACATGCAAT
1 TAAATTAATAATCATGCAA-TAAACATGCAAT
*
15448129 TAAA-TATATAATCATGCAA-ATA-AT--AA-
1 TAAATTA-ATAATCATGCAATAAACATGCAAT
*
15448155 T--ACTAATAATCATGCAAATAAACATGCAAT
1 TAAATTAATAATCATGC-AATAAACATGCAAT
15448185 TAAAT
1 TAAAT
15448190 ATATAATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 20
0.68 0.04 0.28
Matches are distributed among these distances:
24 11 0.23
25 4 0.08
26 3 0.06
27 4 0.08
29 4 0.08
30 3 0.06
31 2 0.04
32 17 0.35
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (31 bp):
TAAATTAATAATCATGCAATAAACATGCAAT
Found at i:15448149 original size:56 final size:56
Alignment explanation
Indices: 15448078--15448196 Score: 186
Period size: 56 Copynumber: 2.1 Consensus size: 56
15448068 ATATATAATC
* *
15448078 ATATAATCACACAAATAAATAA-ATTAATAATCATGCAATTAAACATGCAATTAAAT
1 ATATAATCACACAAAT-AATAATACTAATAATCATGCAAATAAACATGCAATTAAAT
**
15448134 ATATAATCATGCAAATAATAATACTAATAATCATGCAAATAAACATGCAATTAAAT
1 ATATAATCACACAAATAATAATACTAATAATCATGCAAATAAACATGCAATTAAAT
15448190 ATATAAT
1 ATATAAT
15448197 AATAATCATG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 5 0.09
56 53 0.91
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (56 bp):
ATATAATCACACAAATAATAATACTAATAATCATGCAAATAAACATGCAATTAAAT
Found at i:15448151 original size:12 final size:12
Alignment explanation
Indices: 15448103--15448183 Score: 62
Period size: 12 Copynumber: 7.1 Consensus size: 12
15448093 TAAATAAATT
15448103 AATAATCATGCA
1 AATAATCATGCA
* *
15448115 ATTAAACATGCA
1 AATAATCATGCA
*
15448127 ATTAA--AT--A
1 AATAATCATGCA
*
15448135 TATAATCATGCA
1 AATAATCATGCA
* * *
15448147 AATAATAATACT
1 AATAATCATGCA
15448159 AATAATCATGCA
1 AATAATCATGCA
*
15448171 AATAAACATGCA
1 AATAATCATGCA
15448183 A
1 A
15448184 TTAAATATAT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
8 4 0.08
10 4 0.08
12 45 0.85
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (12 bp):
AATAATCATGCA
Found at i:15448262 original size:20 final size:20
Alignment explanation
Indices: 15448239--15448312 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
15448229 GATAATTAGA
*
15448239 CAAATAAATTAATAATCATG
1 CAAATATATTAATAATCATG
* *
15448259 CAAACATATTAATAGTCATG
1 CAAATATATTAATAATCATG
**
15448279 CAAATATATTAATAAATCACA
1 CAAATATATTAAT-AATCATG
15448300 CAAATATATTAAT
1 CAAATATATTAAT
15448313 CATGTAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (20 bp):
CAAATATATTAATAATCATG
Found at i:15448339 original size:16 final size:16
Alignment explanation
Indices: 15448318--15448363 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
15448308 TTAATCATGT
15448318 AAATAAAATATTAGGC
1 AAATAAAATATTAGGC
* * *
15448334 AAATAAATTATCATGC
1 AAATAAAATATTAGGC
*
15448350 AAATATAATATTAG
1 AAATAAAATATTAG
15448364 TCATGTCATG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (16 bp):
AAATAAAATATTAGGC
Found at i:15448348 original size:32 final size:33
Alignment explanation
Indices: 15448300--15448363 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
15448290 ATAAATCACA
* *
15448300 CAAATATATTAATCATGTAAATAAAATATTAGG
1 CAAATAAATTAATCATGCAAATAAAATATTAGG
*
15448333 CAAATAAATT-ATCATGCAAATATAATATTAG
1 CAAATAAATTAATCATGCAAATAAAATATTAG
15448364 TCATGTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (33 bp):
CAAATAAATTAATCATGCAAATAAAATATTAGG
Found at i:15449001 original size:12 final size:13
Alignment explanation
Indices: 15448983--15449018 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
15448973 TTTTTTGACA
15448983 AAAAAATTAAAC-
1 AAAAAATTAAACT
*
15448995 GAAAAATTAAACT
1 AAAAAATTAAACT
15449008 AAAAAATTAAA
1 AAAAAATTAAA
15449019 ATACAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (13 bp):
AAAAAATTAAACT
Found at i:15449521 original size:13 final size:13
Alignment explanation
Indices: 15449503--15449528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15449493 TTTCCAAACA
15449503 TATGCAATGAATG
1 TATGCAATGAATG
15449516 TATGCAATGAATG
1 TATGCAATGAATG
15449529 AAAAGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
TATGCAATGAATG
Found at i:15456359 original size:21 final size:20
Alignment explanation
Indices: 15456325--15456365 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
15456315 AGAAAAAGGT
15456325 TAGTTAACATATACAAGGAA
1 TAGTTAACATATACAAGGAA
*
15456345 TAGTATAATATATACAAGGAA
1 TAGT-TAACATATACAAGGAA
15456366 CAATCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (20 bp):
TAGTTAACATATACAAGGAA
Found at i:15457543 original size:29 final size:27
Alignment explanation
Indices: 15457492--15457551 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
15457482 CAAATAAACG
* *
15457492 TATATAATGTCATGCAAATATATTATAAA
1 TATAAAATGCCATGCAAATATA-TA-AAA
15457521 TATAAAATGCCATGCAACA-ATATAAAA
1 TATAAAATGCCATGCAA-ATATATAAAA
15457548 TATA
1 TATA
15457552 TATCATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.25
28 2 0.07
29 18 0.64
30 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.32
Consensus pattern (27 bp):
TATAAAATGCCATGCAAATATATAAAA
Found at i:15457680 original size:24 final size:24
Alignment explanation
Indices: 15457650--15457711 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
15457640 AATATCATTC
*
15457650 AAATATAATATTA-ATCATACAAT
1 AAATATAATATCATATCATACAAT
*
15457673 AACATATAATATCATATTATACAAT
1 AA-ATATAATATCATATCATACAAT
*
15457698 AAATATAAAATCAT
1 AAATATAATATCAT
15457712 GCAATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.62
25 11 0.32
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (24 bp):
AAATATAATATCATATCATACAAT
Found at i:15457836 original size:22 final size:22
Alignment explanation
Indices: 15457808--15457904 Score: 128
Period size: 22 Copynumber: 4.5 Consensus size: 22
15457798 AATATATAGT
15457808 CATGCAATTAAACAATGTAAAA
1 CATGCAATTAAACAATGTAAAA
15457830 CATGCAATTAAACAATGTAAAA
1 CATGCAATTAAACAATGTAAAA
* * *
15457852 CATGCAATTAAA-TATCT-AAT
1 CATGCAATTAAACAATGTAAAA
15457872 CATGCAATT-AACAATGTAAAA
1 CATGCAATTAAACAATGTAAAA
* *
15457893 TATGCAAATAAA
1 CATGCAATTAAA
15457905 TATATAATCA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.03
20 14 0.22
21 12 0.19
22 36 0.56
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (22 bp):
CATGCAATTAAACAATGTAAAA
Found at i:15457892 original size:41 final size:41
Alignment explanation
Indices: 15457798--15458111 Score: 284
Period size: 41 Copynumber: 7.6 Consensus size: 41
15457788 CATATAATTA
* * * *
15457798 AATATATAGTCATGCAATTAAACAATGTAAAACATGCAATTAAAC
1 AATATA-AATCATGCAATTAAA-TATAT-AATCATGCAATT-AAC
* * *
15457843 AATGTAAAACATGCAATTAAATATCTAATCATGCAATTAAC
1 AATATAAATCATGCAATTAAATATATAATCATGCAATTAAC
* * * *
15457884 AATGTAAAAT-ATGCAAATAAATATATAATCATGCAAATAAT
1 AATAT-AAATCATGCAATTAAATATATAATCATGCAATTAAC
* * *
15457925 TATAT-AATCATGTAATTAACA-ATATAAATCATGC-AGTAA-
1 AATATAAATCATGCAATTAA-ATATAT-AATCATGCAATTAAC
* * *
15457964 AATATATGATTATGCAATTAACAGTATA-AATCATGCAA-TCA-
1 AATATA-AATCATGCAATTAA-A-TATATAATCATGCAATTAAC
* *
15458005 AATATATAATTATGCAATTAAATATATAATCATGCAATTAAA
1 AATATA-AATCATGCAATTAAATATATAATCATGCAATTAAC
15458047 AATATAAATCATGCAATTAAATATATAATCATGCAATTAAC
1 AATATAAATCATGCAATTAAATATATAATCATGCAATTAAC
* *
15458088 AATATAAACCATGCAAATAAATAT
1 AATATAAATCATGCAATTAAATAT
15458112 GCAATTAAAT
Statistics
Matches: 230, Mismatches: 27, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
39 11 0.05
40 27 0.12
41 147 0.64
42 21 0.09
43 6 0.03
44 13 0.06
45 5 0.02
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (41 bp):
AATATAAATCATGCAATTAAATATATAATCATGCAATTAAC
Found at i:15457942 original size:61 final size:61
Alignment explanation
Indices: 15457772--15458111 Score: 275
Period size: 61 Copynumber: 5.5 Consensus size: 61
15457762 ATCACACAAA
** * * *
15457772 CAAATAAAT-TAATAATCATATAATTAAATATATAGTCATGCAATTAAACAATGTAAAACATG
1 CAAATAAATAT-ATAATCATGCAATTAAATATATAATCATGCAATT-AACAATATAAAATATG
* * * * * *
15457834 CAATTAAACAATGTAAAACATGCAATTAAATATCTAATCATGCAATTAACAATGTAAAATATG
1 CAAATAAA-TATAT-AATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAATATG
* * *
15457897 CAAATAAATATATAATCATGCAAATAATTATATAATCATGTAATTAACAATAT-AAATCATG
1 CAAATAAATATATAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAAT-ATG
* * * * *
15457958 C-AGTAAAATATATGATTATGCAATTAACAGTATA-AATCATGCAA-TCA-AATATATAATTATG
1 CAAAT-AAATATATAATCATGCAATTAA-A-TATATAATCATGCAATTAACAATATA-AAATATG
* * *
15458019 CAATTAAATATATAATCATGCAATTAAAAATATAAATCATGCAATT-A-AATATATAATCATG
1 CAAATAAATATATAATCATGCAATTAAATATAT-AATCATGCAATTAACAATATAAAAT-ATG
* * *
15458080 CAATTAACA-ATATAAACCATGCAAATAAATAT
1 CAAATAA-ATATAT-AATCATGCAATTAAATAT
15458112 GCAATTAAAT
Statistics
Matches: 227, Mismatches: 35, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
59 3 0.01
60 14 0.06
61 114 0.50
62 41 0.18
63 27 0.12
64 28 0.12
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (61 bp):
CAAATAAATATATAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAATATG
Found at i:15457968 original size:102 final size:102
Alignment explanation
Indices: 15457796--15458111 Score: 377
Period size: 102 Copynumber: 3.1 Consensus size: 102
15457786 ATCATATAAT
* * * * * * *
15457796 TAAATATATAGTCATGCAATTAAACAATGTAAAACATGCAATTAAACAATGTAAAACATGCAATT
1 TAAATATATAATCATGCAAATAAA-TATAT-AATCATGCAATT-AACAATATAAATCATGCAATT
*
15457861 AAATATCTAATCATGCAATTAACAATGTAAAATATGCAAA
63 AAATATATAATCATGCAATTAACAATGTAAAATATGCAAA
* * * *
15457901 TAAATATATAATCATGCAAATAATTATATAATCATGTAATTAACAATATAAATCATGCAGTAAAA
1 TAAATATATAATCATGCAAATAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAA
* *
15457966 TATATGATTATGCAATTAAC-A-GTATAAATCATGC-AA
66 TATATAATCATGCAATTAACAATGTA-AAAT-ATGCAAA
* * *
15458002 TCAAATATATAATTATGCAATTAAATATATAATCATGCAATTAAAAATATAAATCATGCAATTAA
1 T-AAATATATAATCATGCAAATAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAA
* **
15458067 ATATATAATCATGCAATTAACAATATAAACCATGCAAA
65 ATATATAATCATGCAATTAACAATGTAAAATATGCAAA
15458105 TAAATAT
1 TAAATAT
15458112 GCAATTAAAT
Statistics
Matches: 179, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
100 3 0.02
101 8 0.04
102 126 0.70
103 16 0.09
104 5 0.03
105 21 0.12
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (102 bp):
TAAATATATAATCATGCAAATAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAA
TATATAATCATGCAATTAACAATGTAAAATATGCAAA
Found at i:15458118 original size:102 final size:102
Alignment explanation
Indices: 15457830--15458111 Score: 386
Period size: 102 Copynumber: 2.8 Consensus size: 102
15457820 CAATGTAAAA
* * * * *
15457830 CATGCAATTAAACAATGTAAAACATGCAATTAAATATCTAATCATGCAATTAACAATGTAAAATA
1 CATGCAATTAAA-AATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACA
* *
15457895 TGCAAATAAATATATAATCATGCAAATAATTATATAAT
65 TGCAAATAAATATATAATTATGCAAATAAATATATAAT
* * * * * * * *
15457933 CATGTAATTAACAATATAAATCATGCAGTAAAATATATGATTATGCAATTAACAGTATAAATCAT
1 CATGCAATTAAAAATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACAT
*
15457998 GC-AATCAAATATATAATTATGCAATTAAATATATAAT
66 GCAAAT-AAATATATAATTATGCAAATAAATATATAAT
*
15458035 CATGCAATTAAAAATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAACCAT
1 CATGCAATTAAAAATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACAT
15458100 GCAAATAAATAT
66 GCAAATAAATAT
15458112 GCAATTAAAT
Statistics
Matches: 153, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
101 3 0.02
102 137 0.90
103 13 0.08
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (102 bp):
CATGCAATTAAAAATATAAATCATGCAATTAAATATATAATCATGCAATTAACAATATAAAACAT
GCAAATAAATATATAATTATGCAAATAAATATATAAT
Found at i:15458129 original size:53 final size:56
Alignment explanation
Indices: 15458050--15458301 Score: 273
Period size: 53 Copynumber: 4.4 Consensus size: 56
15458040 AATTAAAAAT
* * *
15458050 ATAAATCATGCAATTAAATATATAATCATGCAATTAACAATA-T-A-AACCATGCAA
1 ATAAAT-ATGCAATTAAATATATAATCATGCAAATAATAATATTAATAATCATGCAA
15458104 ATAAATATGCAATTAAATATATAATCATGCAATCATACAAATAAATAAATTAATAATCATGCAA
1 ATAAATATGCAATTAAATATATAATCATGCAA--AT---AAT-AAT--ATTAATAATCATGCAA
* * * *
15458168 TTAGACATGCAGTTAAATATATAATCATGCAAATAATAATATTAATAATCATGCAA
1 ATAAATATGCAATTAAATATATAATCATGCAAATAATAATATTAATAATCATGCAA
* * * * *
15458224 ATAAACATGCAATTAAAAATATAATAATACAAATAATAATA-T-A-AATCATTCAA
1 ATAAATATGCAATTAAATATATAATCATGCAAATAATAATATTAATAATCATGCAA
15458277 ATAAATATGCAATTAAATATATAAT
1 ATAAATATGCAATTAAATATATAAT
15458302 AATAATAATC
Statistics
Matches: 171, Mismatches: 16, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
53 58 0.34
54 7 0.04
55 2 0.01
56 51 0.30
58 5 0.03
59 6 0.04
61 1 0.01
62 3 0.02
63 1 0.01
64 37 0.22
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (56 bp):
ATAAATATGCAATTAAATATATAATCATGCAAATAATAATATTAATAATCATGCAA
Found at i:15458226 original size:12 final size:12
Alignment explanation
Indices: 15458188--15458235 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
15458178 AGTTAAATAT
15458188 ATAATCATGCAA
1 ATAATCATGCAA
* ***
15458200 ATAATAATATTA
1 ATAATCATGCAA
15458212 ATAATCATGCAA
1 ATAATCATGCAA
*
15458224 ATAAACATGCAA
1 ATAATCATGCAA
15458236 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.27
Consensus pattern (12 bp):
ATAATCATGCAA
Found at i:15458302 original size:53 final size:56
Alignment explanation
Indices: 15458138--15458305 Score: 227
Period size: 56 Copynumber: 3.1 Consensus size: 56
15458128 TCATGCAATC
* * * *
15458138 ATACAAATAAATAA-ATTAATAATCATGCAATTAGACATGCAGTTAAATATATAATC
1 ATACAAAT-AATAATATTAATAATCATGCAAATAAACATGCAATTAAATATATAATA
* *
15458194 ATGCAAATAATAATATTAATAATCATGCAAATAAACATGCAATTAAAAATATAATA
1 ATACAAATAATAATATTAATAATCATGCAAATAAACATGCAATTAAATATATAATA
* *
15458250 ATACAAATAATAATA-T-A-AATCATTCAAATAAATATGCAATTAAATATATAATA
1 ATACAAATAATAATATTAATAATCATGCAAATAAACATGCAATTAAATATATAATA
15458303 ATA
1 ATA
15458306 ATAATCATGC
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
53 36 0.36
54 1 0.01
55 6 0.06
56 58 0.57
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (56 bp):
ATACAAATAATAATATTAATAATCATGCAAATAAACATGCAATTAAATATATAATA
Found at i:15458353 original size:20 final size:20
Alignment explanation
Indices: 15458328--15458413 Score: 91
Period size: 20 Copynumber: 4.2 Consensus size: 20
15458318 TCACACAAAT
*
15458328 AAATAAATTGATAATCATAC
1 AAATAAATTAATAATCATAC
*
15458348 AAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATAC
* * * *
15458368 AAACATATTAATAGTCATGC
1 AAATAAATTAATAATCATAC
* *
15458388 AAATATATTAATAAATCACAC
1 AAATAAATTAAT-AATCATAC
15458409 AAATA
1 AAATA
15458414 TATTTATCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
20 46 0.82
21 10 0.18
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.29
Consensus pattern (20 bp):
AAATAAATTAATAATCATAC
Found at i:15458454 original size:32 final size:33
Alignment explanation
Indices: 15458408--15458471 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
15458398 ATAAATCACA
* *
15458408 CAAATATATTTATCATGTAAATAAAATATTAGG
1 CAAATATAATTATCATGCAAATAAAATATTAGG
* *
15458441 CAAATA-AATTATCATGCAAATATATTATTAG
1 CAAATATAATTATCATGCAAATAAAATATTAG
15458472 CCATACAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (33 bp):
CAAATATAATTATCATGCAAATAAAATATTAGG
Found at i:15458467 original size:16 final size:16
Alignment explanation
Indices: 15458417--15458468 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
15458407 ACAAATATAT
*
15458417 TTATCATGTAAATAAA
1 TTATCATGCAAATAAA
* * *
15458433 ATATTAGGCAAATAAA
1 TTATCATGCAAATAAA
*
15458449 TTATCATGCAAATATA
1 TTATCATGCAAATAAA
15458465 TTAT
1 TTAT
15458469 TAGCCATACA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (16 bp):
TTATCATGCAAATAAA
Found at i:15458482 original size:32 final size:32
Alignment explanation
Indices: 15458417--15458490 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 32
15458407 ACAAATATAT
* * *
15458417 TTATCATGTAAATAAAATATTAGGCAAATAAA
1 TTATCATGCAAATAAAATATTAGCCAAACAAA
* * *
15458449 TTATCATGCAAATATATTATTAGCCATACAAA
1 TTATCATGCAAATAAAATATTAGCCAAACAAA
15458481 -T-TCATGCAAA
1 TTATCATGCAAA
15458491 AATAAATACC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 9 0.25
31 1 0.03
32 26 0.72
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (32 bp):
TTATCATGCAAATAAAATATTAGCCAAACAAA
Found at i:15459011 original size:20 final size:20
Alignment explanation
Indices: 15458988--15459034 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
15458978 ATGCAAAATC
15458988 TTATTTTTTTTCTTTTTTTA
1 TTATTTTTTTTCTTTTTTTA
**
15459008 TTA--TTTACTCTTTTTTTA
1 TTATTTTTTTTCTTTTTTTA
15459026 -TATTTTTTT
1 TTATTTTTTT
15459035 ACCAATTGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 5
0.70 0.13 0.17
Matches are distributed among these distances:
17 2 0.10
18 13 0.62
19 3 0.14
20 3 0.14
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (20 bp):
TTATTTTTTTTCTTTTTTTA
Found at i:15459080 original size:12 final size:13
Alignment explanation
Indices: 15459062--15459097 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
15459052 TTTTTGACAA
15459062 AAAAAATTAAAC-
1 AAAAAATTAAACT
*
15459074 CAAAAATTAAACT
1 AAAAAATTAAACT
15459087 AAAAAATTAAA
1 AAAAAATTAAA
15459098 ATACAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAAATTAAACT
Found at i:15460623 original size:32 final size:31
Alignment explanation
Indices: 15460578--15460646 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
15460568 ATTTCCAGAA
* *
15460578 TCCGGCGAAAATTCCGGCGAA-ATTTGAATTTT
1 TCCGGCGAAAATTCCGACGAACA-TTGAA-GTT
15460610 TCCGGC-AACAATTCCGACGAACATTGAAGTT
1 TCCGGCGAA-AATTCCGACGAACATTGAAGTT
15460641 TCCGGC
1 TCCGGC
15460647 TACCTACCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 10 0.30
32 22 0.67
33 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (31 bp):
TCCGGCGAAAATTCCGACGAACATTGAAGTT
Found at i:15460744 original size:20 final size:19
Alignment explanation
Indices: 15460702--15460746 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
15460692 CCGGCCAACT
* *
15460702 TCCGACGAAATTTCCAGAT
1 TCCGGCGAAATTTCCAGAA
*
15460721 TCCGGCGAAATTTTCTAGAA
1 TCCGGCGAAA-TTTCCAGAA
15460741 TCCGGC
1 TCCGGC
15460747 ACCGGTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (19 bp):
TCCGGCGAAATTTCCAGAA
Found at i:15461087 original size:21 final size:19
Alignment explanation
Indices: 15461057--15461126 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 19
15461047 GCCGCTCCAG
15461057 GTTT-TTTTTTTTTTTTTT
1 GTTTATTTTTTTTTTTTTT
15461075 GTTTGAATTTTTTTTATTTCTTT
1 GTTT--ATTTTTTTT-TTT-TTT
*
15461098 GTTTATTTGTTTATTTTATTT
1 GTTTATTT-TTT-TTTTTTTT
15461119 GTTTATTT
1 GTTTATTT
15461127 ATTAGATTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
18 4 0.09
21 23 0.52
22 8 0.18
23 9 0.20
ACGTcount: A:0.10, C:0.01, G:0.09, T:0.80
Consensus pattern (19 bp):
GTTTATTTTTTTTTTTTTT
Found at i:15461117 original size:13 final size:13
Alignment explanation
Indices: 15461086--15461126 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
15461076 TTTGAATTTT
*
15461086 TTTTATTTCTTT-
1 TTTTATTTGTTTA
*
15461098 GTTTATTTGTTTA
1 TTTTATTTGTTTA
15461111 TTTTATTTGTTTA
1 TTTTATTTGTTTA
15461124 TTT
1 TTT
15461127 ATTAGATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:15461269 original size:59 final size:61
Alignment explanation
Indices: 15461194--15461614 Score: 532
Period size: 59 Copynumber: 6.9 Consensus size: 61
15461184 TAAATAAAAG
*
15461194 AGAAATAAATTT-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-A
1 AGAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
15461253 AG-AATAAATTTCC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
1 AGAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AA
15461312 AGAAAAATAAATTTCCAAAAAAAAGGTATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTCCTTAA
1 AG--AAATAAATTTCCAAAAAAAA--TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-A
15461376 A
61 A
**
15461377 AGAAAAATAAATTTCCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTTG
1 AG--AAATAAATTTCCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
15461440 A-AAATCAAAATTT-CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT--
1 AGAAAT--AAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
15461499 AGAAATAAATTTTCAAAAAAAGA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-G
1 AGAAATAAATTTCCAAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
15461559 A-AAATCAAAATTTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCC
1 AGAAAT--AAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
15461615 CTACAAAAAA
Statistics
Matches: 334, Mismatches: 7, Indels: 42
0.87 0.02 0.11
Matches are distributed among these distances:
57 43 0.13
58 16 0.05
59 91 0.27
60 43 0.13
61 19 0.06
62 17 0.05
63 1 0.00
64 39 0.12
65 37 0.11
66 28 0.08
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (61 bp):
AGAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:15461304 original size:27 final size:27
Alignment explanation
Indices: 15461216--15461304 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
15461206 CAAAAAAAAT
15461216 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
15461243 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
15461273 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
15461300 ATTTT
1 ATTTT
15461305 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:15466107 original size:34 final size:34
Alignment explanation
Indices: 15466060--15466126 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
15466050 CATTTGAGAC
* * * *
15466060 ACCGTTAATTTAGTGATGTTTTTATAAAAAAAAT
1 ACCGCTAAATTAGTGATATTTGTATAAAAAAAAT
*
15466094 ACCGCTAAATTAGTGGTATTTGTATAAAAAAAA
1 ACCGCTAAATTAGTGATATTTGTATAAAAAAAA
15466127 ATGCTGCTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (34 bp):
ACCGCTAAATTAGTGATATTTGTATAAAAAAAAT
Found at i:15466151 original size:35 final size:34
Alignment explanation
Indices: 15466060--15466151 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 34
15466050 CATTTGAGAC
* *
15466060 ACCGTTAATTTAGT-GATGTTTTTATAAAAAAAAT
1 ACCGCTAATTTAGTGGA-GTTTGTATAAAAAAAAT
*
15466094 ACCGCTAAATTAGTGGTA-TTTGTATAAAAAAAAAT
1 ACCGCTAATTTAGTGG-AGTTTGTAT-AAAAAAAAT
* *
15466129 GCTGCTAATTTAGTGGAGTTTGT
1 ACCGCTAATTTAGTGGAGTTTGT
15466152 TGATACAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
34 19 0.40
35 28 0.58
36 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (34 bp):
ACCGCTAATTTAGTGGAGTTTGTATAAAAAAAAT
Found at i:15467270 original size:178 final size:178
Alignment explanation
Indices: 15466927--15467289 Score: 398
Period size: 178 Copynumber: 2.0 Consensus size: 178
15466917 TTTGTATAGA
* * *
15466927 TTATTGAAGGTATTTTTTACAAAAACTGCTTTCAATAATCCCAACTAAAAATTTATTGATTGGAT
1 TTATTGAAGGTATTTTTTACAAAAACTACATTCAATAATCCCAACTAAAAATTTATTGATTGGAA
* ** *
15466992 TATTAAAGGAGCTTTCAGCCAAAAATGCCTTTAAAAATCTGTTTCATATTTTTCGTATGGATTAT
66 TATTAAAGGAGCTTTCAGCCAAAAATGCCTTCAAAAATCCATTCCATATTTTTCGTATGGATTAT
*
15467057 TAAGGCATTTTTAGCAAGAAAACACCTTGAATAATCCCTAAC-AAA-AT
131 TAAGGCATTTTTAGCAAGAAAACACCTTCAATAATCCC-AACTAAATAT
* * * * **
15467104 GTTATTGAATGTGTTTTTTACCAAAACTACATTCAATAATCCCATCTAAAAATTTATT-ATGTTT
1 -TTATTGAAGGTATTTTTTACAAAAACTACATTCAATAATCCCAACTAAAAATTTATTGAT-TGG
* * * * * * *
15467168 AATATTCAAGGCG-TTTTAGGTCAAAAATGTCTTCAAGAATCCATTCCA-ACTTTTTTGTATGGA
64 AATATTAAAGGAGCTTTCA-GCCAAAAATGCCTTCAAAAATCCATTCCATA-TTTTTCGTATGGA
* * *
15467231 TTATTGAAGGCATTTTT-GACAA-AAACCGCTTTCAATAATCCCAACTAAATAT
127 TTATT-AAGGCATTTTTAG-CAAGAAAACACCTTCAATAATCCCAACTAAATAT
15467283 TTATTGA
1 TTATTGA
15467290 TTGGATTATT
Statistics
Matches: 154, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
177 10 0.06
178 128 0.83
179 16 0.10
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (178 bp):
TTATTGAAGGTATTTTTTACAAAAACTACATTCAATAATCCCAACTAAAAATTTATTGATTGGAA
TATTAAAGGAGCTTTCAGCCAAAAATGCCTTCAAAAATCCATTCCATATTTTTCGTATGGATTAT
TAAGGCATTTTTAGCAAGAAAACACCTTCAATAATCCCAACTAAATAT
Found at i:15467651 original size:303 final size:302
Alignment explanation
Indices: 15466743--15467651 Score: 944
Period size: 303 Copynumber: 3.0 Consensus size: 302
15466733 AATTTTGATG
* * *
15466743 GGATTAATGAAGGCGTTTTTAGCAAGAAAAAGCCTTGAATAATCCTTAACAAAATGTTATTGAAG
1 GGATT-ATTAAGGCATTTTTAGCAAGAAAACGCCTTGAATAAT-CTTAACAAAATGTTATTGAAG
* * *
15466808 GCATTTTTTTTA-TTAAAATCGCCTTCAATAATCCCACATAAAAATTTATTGTATGAAATATTAA
64 GCA--TTTTTTACTT-AAACCGCCTTCAATAATCCCACTTAAAAATTTATTGTGTG-AATATTAA
* * * * * * * *
15466872 ATGCATTTCGGGTCAAAAACGGCTTCAAGAATCCATTTTAATTTTTTTGTATAGATTATTGAAGG
125 AGGCATTTTGGGTCAAAAATGCCTTCAAGAATCCATTTCAACTTTTTTGTATGGATTATTGAAAG
** *
15466937 TATTTTTTACAAAAACTG-CTTTCAATAATCCCAACTAAAAATTTATTGATTGGATTATTAAAGG
190 CGTTTTTTAC-AAAA-TGCCTTTCAATAATCCCAACTAAAAATTTATTGATTGGATTATTGAAGG
* * *
15467001 -AGCTTTC-AGCCAAAAA-TGCCTTTAAAAATCTGTTTCATA-TTTTTCGTAT
253 CA-CTTTCGA-CCAAAAACT-CCTTCAAAAATCTCTCTCATATTTTTTCGTAT
* * *
15467050 GGATTATTAAGGCATTTTTAGCAAGAAAACACCTTGAATAATCCCTAACAAAATGTTATTGAATG
1 GGATTATTAAGGCATTTTTAGCAAGAAAACGCCTTGAATAAT-CTTAACAAAATGTTATTGAAGG
** ** ** * * * *
15467115 TGTTTTTTACCAAAACTACATTCAATAATCCCA-TCTAAAAATTTATTATGTTTAATATTCAAGG
65 CATTTTTTACTTAAACCGCCTTCAATAATCCCACT-TAAAAATTTATTGTG-TGAATATTAAAGG
* * * * * *
15467179 CGTTTTAGGTCAAAAATGTCTTCAAGAATCCATTCCAACTTTTTTGTATGGATTATTGAAGGCAT
128 CATTTTGGGTCAAAAATGCCTTCAAGAATCCATTTCAACTTTTTTGTATGGATTATTGAAAGCGT
* ** * *
15467244 TTTTGACAAAAACCGCTTTCAATAATCCCAACTAAATATTTATTGATTGGATTATTGAAAGCA-T
193 TTTTTACAAAATGC-CTTTCAATAATCCCAACTAAAAATTTATTGATTGGATTATTGAAGGCACT
* * * *
15467308 TAT-GACCAGAAACGCTTTCAAGAATC-CATCTCATATTTTTTC-TAT
257 T-TCGACCAAAAACTCCTTCAAAAATCTC-TCTCATATTTTTTCGTAT
* * * *
15467353 GGATTATTAAGGCATTTTTACCAAGAAGACGCCTTGAATAATCTATAATAAAATGTTACTGAAGG
1 GGATTATTAAGGCATTTTTAGCAAGAAAACGCCTTGAATAATCT-TAACAAAATGTTATTGAAGG
* *
15467418 CATTTTTGACTTAAACCGCCTTCAATAATCTCACTTAAAAATTTATTGTGTAGAATATT-AAGGC
65 CATTTTTTACTTAAACCGCCTTCAATAATCCCACTTAAAAATTTATTGTGT-GAATATTAAAGGC
* * *
15467482 ATTTTGGGCCAAATATGCCTTCAAGAATCCGTTTCAACTTTTTTGTATGGATTATTGAAAGCGTC
129 ATTTTGGGTCAAAAATGCCTTCAAGAATCCATTTCAACTTTTTTGTATGGATTATTGAAAGCGT-
** * * *
15467547 TTTTTACAAAATTGCCTTT-AATAATTTCATCTAAAAATTTATTGATTGAATTATTGTAGGCACT
193 TTTTTACAAAA-TGCCTTTCAATAATCCCAACTAAAAATTTATTGATTGGATTATTGAAGGCACT
* * * *
15467611 TTCGACCAAAAACTCCTTCAATATTCTCTCTAAAATTTTTT
257 TTCGACCAAAAACTCCTTCAAAAATCTCTCTCATATTTTTT
15467652 AAATCGATTG
Statistics
Matches: 496, Mismatches: 87, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
302 99 0.20
303 175 0.35
304 161 0.32
305 2 0.00
306 54 0.11
307 5 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (302 bp):
GGATTATTAAGGCATTTTTAGCAAGAAAACGCCTTGAATAATCTTAACAAAATGTTATTGAAGGC
ATTTTTTACTTAAACCGCCTTCAATAATCCCACTTAAAAATTTATTGTGTGAATATTAAAGGCAT
TTTGGGTCAAAAATGCCTTCAAGAATCCATTTCAACTTTTTTGTATGGATTATTGAAAGCGTTTT
TTACAAAATGCCTTTCAATAATCCCAACTAAAAATTTATTGATTGGATTATTGAAGGCACTTTCG
ACCAAAAACTCCTTCAAAAATCTCTCTCATATTTTTTCGTAT
Found at i:15472281 original size:2 final size:2
Alignment explanation
Indices: 15472274--15472300 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15472264 GGCAAGATTC
15472274 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15472301 AATAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15475671 original size:24 final size:26
Alignment explanation
Indices: 15475644--15475692 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
15475634 TTTAAACTCG
*
15475644 AATTCAAAT-TTAAAATAT-TTTATT
1 AATTAAAATATTAAAATATATTTATT
15475668 AATTAAAATAATTAAAATATATTTA
1 AATTAAAAT-ATTAAAATATATTTA
15475693 AATATAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
26 9 0.43
27 4 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTAAAATATTAAAATATATTTATT
Found at i:15475962 original size:2 final size:2
Alignment explanation
Indices: 15475955--15476005 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
15475945 CCCCCTCACC
15475955 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15475997 TA TA TA TA T
1 TA TA TA TA T
15476006 TCCCAAACCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15478734 original size:76 final size:78
Alignment explanation
Indices: 15478615--15478758 Score: 202
Period size: 76 Copynumber: 1.9 Consensus size: 78
15478605 AGATCTATGT
** ** * **
15478615 TTTTTGGGTGAATTTTTTTGGAAATTTAATCTGAAAGGTGGAA-GGGTTATCAAGAGCTATCGGA
1 TTTTTGGGTGAATTTCCTTGGAAATCCAATCTGAAAAGTGGAAGGGGACATCAAGAGCTATCGGA
15478679 AAACAATCTAGGC
66 AAACAATCTAGGC
*
15478692 TTTTT-GGTGAATTTCCTTGGAAATCCAATTTGAAAAGTGGAAGGGGACATCAAGAGCTATCGGA
1 TTTTTGGGTGAATTTCCTTGGAAATCCAATCTGAAAAGTGGAAGGGGACATCAAGAGCTATCGGA
15478756 AAA
66 AAA
15478759 AAAAGTTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 31 0.53
77 27 0.47
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (78 bp):
TTTTTGGGTGAATTTCCTTGGAAATCCAATCTGAAAAGTGGAAGGGGACATCAAGAGCTATCGGA
AAACAATCTAGGC
Found at i:15479077 original size:29 final size:29
Alignment explanation
Indices: 15479019--15479078 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
15479009 TTGATTATAT
* *
15479019 ATTTTATTATTATTTAATCATTCATTAAA
1 ATTTTATTATTATTTAATAATTCATCAAA
15479048 ATTTTA-TATTTATTTATATAATT-ATCAAA
1 ATTTTATTA-TTATTTA-ATAATTCATCAAA
15479077 AT
1 AT
15479079 AATATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 20 0.74
30 5 0.19
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (29 bp):
ATTTTATTATTATTTAATAATTCATCAAA
Found at i:15479568 original size:58 final size:57
Alignment explanation
Indices: 15479450--15479567 Score: 168
Period size: 58 Copynumber: 2.1 Consensus size: 57
15479440 AAAAAAGACT
* *
15479450 AAAGCGAGGGTGTAGTAGAAAGAAAAATCTGCGATGGAAATGAGCGTATAATATAAAA
1 AAAGCGAGGGTATACTAGAAAGAAAAATCTGCGATGGAAA-GAGCGTATAATATAAAA
*
15479508 AAAGCGAGGGTATACTAGAAAGAAAAATCTGCTATGG-AA-AGCGTATAATAATAATAA
1 AAAGCGAGGGTATACTAGAAAGAAAAATCTGCGATGGAAAGAGCGTATAAT-ATAA-AA
15479565 AAA
1 AAA
15479568 AAAAGTCTGC
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
55 10 0.18
56 4 0.07
57 7 0.13
58 34 0.62
ACGTcount: A:0.49, C:0.08, G:0.24, T:0.19
Consensus pattern (57 bp):
AAAGCGAGGGTATACTAGAAAGAAAAATCTGCGATGGAAAGAGCGTATAATATAAAA
Found at i:15481068 original size:16 final size:16
Alignment explanation
Indices: 15481017--15481075 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
15481007 AGGTCATGAT
* *
15481017 TTTTAGAGTTTCAAAG
1 TTTTAGAGTTTTAAGG
* * *
15481033 TTTTAAAGTTTTGAGA
1 TTTTAGAGTTTTAAGG
15481049 TTTTAGAGTTTTAAGG
1 TTTTAGAGTTTTAAGG
*
15481065 TTTTAGGGTTT
1 TTTTAGAGTTT
15481076 CTAGTTTTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.22, T:0.51
Consensus pattern (16 bp):
TTTTAGAGTTTTAAGG
Found at i:15481125 original size:17 final size:17
Alignment explanation
Indices: 15481105--15481138 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15481095 GGTTTTAAGA
15481105 TTTTGGAATTTTTAGGG
1 TTTTGGAATTTTTAGGG
**
15481122 TTTTGGGTTTTTTAGGG
1 TTTTGGAATTTTTAGGG
15481139 GTTCAAGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (17 bp):
TTTTGGAATTTTTAGGG
Found at i:15481205 original size:17 final size:16
Alignment explanation
Indices: 15481161--15481221 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 16
15481151 GAGATTTGGC
*
15481161 TTTTAGGATTTTGAGT-
1 TTTTAGG-TTTCGAGTG
*
15481177 TTATAGGGTTTCGAGTG
1 TTTTA-GGTTTCGAGTG
15481194 TTTTAAGGTTTCGAGTG
1 TTTT-AGGTTTCGAGTG
15481211 TTTTAGGTTTC
1 TTTTAGGTTTC
15481222 AAAATTTCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
16 18 0.46
17 20 0.51
18 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.28, T:0.51
Consensus pattern (16 bp):
TTTTAGGTTTCGAGTG
Found at i:15481247 original size:49 final size:49
Alignment explanation
Indices: 15481194--15481295 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
15481184 GTTTCGAGTG
*
15481194 TTTTAAGGTTTCGAGTGTTTT-AGGTTTCAAAATTTCAGGGTTTCAAAAT
1 TTTTAAGGTTTCGAGT-TTTTAAGGTTTCAAAATTTCAAGGTTTCAAAAT
* * * * * *
15481243 TTTTAGGGTTTTGAGTTTTTAAGGTTTTAAGATTTTAAGGTTTCCAAAT
1 TTTTAAGGTTTCGAGTTTTTAAGGTTTCAAAATTTCAAGGTTTCAAAAT
15481292 TTTT
1 TTTT
15481296 TCCTATGATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.09
49 41 0.91
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.50
Consensus pattern (49 bp):
TTTTAAGGTTTCGAGTTTTTAAGGTTTCAAAATTTCAAGGTTTCAAAAT
Found at i:15481254 original size:8 final size:8
Alignment explanation
Indices: 15481243--15481285 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
15481233 GTTTCAAAAT
*
15481243 TTTTAGGG
1 TTTTAAGG
* *
15481251 TTTTGAGT
1 TTTTAAGG
15481259 TTTTAAGG
1 TTTTAAGG
*
15481267 TTTTAAGA
1 TTTTAAGG
15481275 TTTTAAGG
1 TTTTAAGG
15481283 TTT
1 TTT
15481286 CCAAATTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.56
Consensus pattern (8 bp):
TTTTAAGG
Found at i:15481270 original size:16 final size:16
Alignment explanation
Indices: 15481033--15481285 Score: 79
Period size: 16 Copynumber: 15.7 Consensus size: 16
15481023 AGTTTCAAAG
* *
15481033 TTTTAAAGTTTTGAGA
1 TTTTAAGGTTTTGAGT
* *
15481049 TTTT-AGAGTTTTAAGG
1 TTTTAAG-GTTTTGAGT
*
15481065 TTTTAGGGTTTCT-AGT
1 TTTTAAGGTTT-TGAGT
* *
15481081 TTTTAAGGTTTCGAGG
1 TTTTAAGGTTTTGAGT
* *
15481097 TTTTAAGATTTTGGAAT
1 TTTTAAGGTTTT-GAGT
* *
15481114 TTTTAGGGTTTTGGGTT
1 TTTTAAGGTTTTGAG-T
* * **
15481131 TTTTAGGGGTTCAAG-
1 TTTTAAGGTTTTGAGT
* *
15481146 TTTT-AGAGATTTG-GC
1 TTTTAAG-GTTTTGAGT
15481161 TTTT-AGGATTTTGAGT
1 TTTTAAGG-TTTTGAGT
* * *
15481177 TTATAGGGTTTCGAGT
1 TTTTAAGGTTTTGAGT
*
15481193 GTTTTAAGGTTTCGAGT
1 -TTTTAAGGTTTTGAGT
** **
15481210 GTTTT-AGGTTTCAAAA
1 -TTTTAAGGTTTTGAGT
* * ** *
15481226 TTTCAGGGTTTCAAAAT
1 TTTTAAGGTTT-TGAGT
*
15481243 TTTTAGGGTTTTGAGT
1 TTTTAAGGTTTTGAGT
* *
15481259 TTTTAAGGTTTTAAGA
1 TTTTAAGGTTTTGAGT
15481275 TTTTAAGGTTT
1 TTTTAAGGTTT
15481286 CCAAATTTTT
Statistics
Matches: 178, Mismatches: 45, Indels: 28
0.71 0.18 0.11
Matches are distributed among these distances:
14 3 0.02
15 21 0.12
16 94 0.53
17 60 0.34
ACGTcount: A:0.21, C:0.04, G:0.25, T:0.50
Consensus pattern (16 bp):
TTTTAAGGTTTTGAGT
Found at i:15483803 original size:24 final size:23
Alignment explanation
Indices: 15483767--15483822 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
15483757 GTCTAAATCG
* **
15483767 TCTTTTTTTTTCTTTTTTCTTTTA
1 TCTTTTTTGTTCTGCTTT-TTTTA
15483791 TCTTTTTTGTTCTGCTTTTTTTA
1 TCTTTTTTGTTCTGCTTTTTTTA
15483814 TGCTTTTTT
1 T-CTTTTTT
15483823 AAAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.04, C:0.12, G:0.05, T:0.79
Consensus pattern (23 bp):
TCTTTTTTGTTCTGCTTTTTTTA
Found at i:15485130 original size:28 final size:27
Alignment explanation
Indices: 15485097--15485158 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
15485087 CAAATGCTTT
**
15485097 ATGCAAATAAGAAAATGTTTTTTTCTTG
1 ATGCAAATAA-AAAATGTCCTTTTCTTG
*
15485125 ATGCAAA-AACAAATGTCCTTTTCTTG
1 ATGCAAATAAAAAATGTCCTTTTCTTG
15485151 ATGCAAAT
1 ATGCAAAT
15485159 GTTTCATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 21 0.70
27 2 0.07
28 7 0.23
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (27 bp):
ATGCAAATAAAAAATGTCCTTTTCTTG
Found at i:15485671 original size:23 final size:21
Alignment explanation
Indices: 15485637--15485683 Score: 51
Period size: 21 Copynumber: 2.1 Consensus size: 21
15485627 TATGCTAATC
15485637 TTTCACCTATTTTCATCTTTTTT
1 TTTCACCTA-TTTC-TCTTTTTT
*
15485660 TTTCA-CTAATTTCTGTTTTTT
1 TTTCACCT-ATTTCTCTTTTTT
15485681 TTT
1 TTT
15485684 TTCAAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 10 0.45
22 6 0.27
23 6 0.27
ACGTcount: A:0.13, C:0.17, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTCACCTATTTCTCTTTTTT
Found at i:15486929 original size:22 final size:23
Alignment explanation
Indices: 15486897--15486946 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
15486887 ATTTAATCAT
*
15486897 TTTTTTCCTTTTTCTT-TTGTTTA
1 TTTTTTCCTTTTT-TTCTTCTTTA
15486920 TTTTTT-CTTTTTTTCTTCTTTA
1 TTTTTTCCTTTTTTTCTTCTTTA
15486942 TTTTT
1 TTTTT
15486947 CTTGCACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTCCTTTTTTTCTTCTTTA
Found at i:15487469 original size:7 final size:7
Alignment explanation
Indices: 15487457--15487496 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
15487447 GTCACAATCA
15487457 TTTCTTT
1 TTTCTTT
15487464 TTTCTTT
1 TTTCTTT
15487471 TTTC--T
1 TTTCTTT
15487476 TTT-TTT
1 TTTCTTT
15487482 TTTC-TT
1 TTTCTTT
15487488 TTTCTTT
1 TTTCTTT
15487495 TT
1 TT
15487497 CACATGCCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 4 0.14
6 10 0.34
7 15 0.52
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTCTTT
Found at i:15487478 original size:6 final size:6
Alignment explanation
Indices: 15487457--15487497 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
15487447 GTCACAATCA
15487457 TTTCTTT TTTCTTT TTTCTT TTT-TT TTTCTT TTTCTT TTTC
1 TTTC-TT TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTC
15487498 ACATGCCTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.15
6 17 0.52
7 11 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:15487483 original size:17 final size:17
Alignment explanation
Indices: 15487461--15487496 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15487451 CAATCATTTC
15487461 TTTTTTCTTTTTTCTTTT
1 TTTTTTC-TTTTTCTTTT
15487479 TTTTTTCTTTTTCTTTT
1 TTTTTTCTTTTTCTTTT
15487496 T
1 T
15487497 CACATGCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTCTTTTTCTTTT
Found at i:15489869 original size:15 final size:16
Alignment explanation
Indices: 15489849--15489884 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
15489839 TGGGTAAAAT
15489849 CTTTTT-TTTTCCATA
1 CTTTTTCTTTTCCATA
*
15489864 CTTTTTCTTTTCCATG
1 CTTTTTCTTTTCCATA
15489880 CTTTT
1 CTTTT
15489885 ACTTCTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.08, C:0.22, G:0.03, T:0.67
Consensus pattern (16 bp):
CTTTTTCTTTTCCATA
Found at i:15491753 original size:16 final size:17
Alignment explanation
Indices: 15491734--15491777 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
15491724 AAATTCAAGG
*
15491734 TTTTAGGGTTT-TAAGT
1 TTTTAGGGTTTCAAAGT
* *
15491750 TTTTAAGGTTTCAAATT
1 TTTTAGGGTTTCAAAGT
15491767 TTTTAGGGTTT
1 TTTTAGGGTTT
15491778 AGGGTTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.20, C:0.02, G:0.20, T:0.57
Consensus pattern (17 bp):
TTTTAGGGTTTCAAAGT
Found at i:15491805 original size:8 final size:8
Alignment explanation
Indices: 15491730--15492063 Score: 81
Period size: 8 Copynumber: 41.9 Consensus size: 8
15491720 TTAAAAATTC
15491730 AAGGTTTT
1 AAGGTTTT
*
15491738 AGGGTTTT
1 AAGGTTTT
*
15491746 AAGTTTTT
1 AAGGTTTT
*
15491754 AAGGTTTC
1 AAGGTTTT
**
15491762 AAATTTTT
1 AAGGTTTT
* *
15491770 TAGGGTTT
1 AAGGTTTT
*
15491778 AGGGTTTT
1 AAGGTTTT
15491786 -A-GTTTT
1 AAGGTTTT
*
15491792 TA-GTTTT
1 AAGGTTTT
*
15491799 AAGGTTTCG
1 AAGGTTT-T
*
15491808 AATGTTTT
1 AAGGTTTT
*
15491816 -AGG-GTT
1 AAGGTTTT
* **
15491822 CAGACTTT
1 AAGGTTTT
15491830 AAGGTTTT
1 AAGGTTTT
* *
15491838 AAGATTTC
1 AAGGTTTT
*
15491846 AAGGTTTC
1 AAGGTTTT
15491854 AAGGTTTTT
1 AAGG-TTTT
* *
15491863 GAGTTTTT
1 AAGGTTTT
* *
15491871 AAAGTTTC
1 AAGGTTTT
*
15491879 GAGGTTTT
1 AAGGTTTT
*
15491887 ATGGTTTTT
1 AAGG-TTTT
15491896 GAA--TTTT
1 -AAGGTTTT
* *
15491903 TAGTGCTTT
1 AAG-GTTTT
* **
15491912 GATTTTTT
1 AAGGTTTT
*
15491920 ATGGTTTT
1 AAGGTTTT
*
15491928 -GGGTTTTT
1 AAGG-TTTT
* *
15491936 AGGGTTTC
1 AAGGTTTT
*
15491944 AAAGTTTT
1 AAGGTTTT
*
15491952 AAGATTTT
1 AAGGTTTT
*
15491960 AGGGTTTT
1 AAGGTTTT
* *
15491968 AAGATTTC
1 AAGGTTTT
* *
15491976 AAGGATTC
1 AAGGTTTT
*
15491984 AAGTTTTT
1 AAGGTTTT
* *
15491992 ATGGTTTC
1 AAGGTTTT
* *
15492000 GAGATTTT
1 AAGGTTTT
*
15492008 AGGGTTTT
1 AAGGTTTT
**
15492016 GAAATTTTT
1 -AAGGTTTT
*
15492025 AGGGTTTT
1 AAGGTTTT
*
15492033 AAGTTTTT
1 AAGGTTTT
*
15492041 AAGGTTTC
1 AAGGTTTT
15492049 AAGGTTTT
1 AAGGTTTT
*
15492057 AGGGTTT
1 AAGGTTT
15492064 CAGAATATTT
Statistics
Matches: 220, Mismatches: 92, Indels: 28
0.65 0.27 0.08
Matches are distributed among these distances:
6 8 0.04
7 17 0.08
8 167 0.76
9 27 0.12
10 1 0.00
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.51
Consensus pattern (8 bp):
AAGGTTTT
Found at i:15491816 original size:45 final size:47
Alignment explanation
Indices: 15491732--15491855 Score: 144
Period size: 45 Copynumber: 2.7 Consensus size: 47
15491722 AAAAATTCAA
*
15491732 GGTTTTAGGGTTTTAAGTTTTTAAGGTTTCAAATTTTTTAGGGTTTAG
1 GGTTTTA-GGTTTTAAGTTTTTAAGGTTTCAAATGTTTTAGGGTTTAG
* * *
15491780 GGTTTTA-GTTTTTAG-TTTTAAGGTTTCGAATGTTTTAGGGTTCAG
1 GGTTTTAGGTTTTAAGTTTTTAAGGTTTCAAATGTTTTAGGGTTTAG
** * * *
15491825 ACTTTAAGGTTTTAAGATTTCAAGGTTTCAA
1 GGTTTTAGGTTTTAAGTTTTTAAGGTTTCAA
15491856 GGTTTTTGAG
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 31 0.48
46 14 0.22
47 12 0.19
48 7 0.11
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (47 bp):
GGTTTTAGGTTTTAAGTTTTTAAGGTTTCAAATGTTTTAGGGTTTAG
Found at i:15491884 original size:33 final size:34
Alignment explanation
Indices: 15491834--15491904 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
15491824 GACTTTAAGG
*
15491834 TTTT-AAGATTTCAAGGTTTCAAGGTTTTTGAGT
1 TTTTAAAGATTTCAAGGTTTCAAGGTTTTTGAAT
* * *
15491867 TTTTAAAG-TTTCGAGGTTTTATGGTTTTTGAAT
1 TTTTAAAGATTTCAAGGTTTCAAGGTTTTTGAAT
15491900 TTTTA
1 TTTTA
15491905 GTGCTTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.23, C:0.04, G:0.20, T:0.54
Consensus pattern (34 bp):
TTTTAAAGATTTCAAGGTTTCAAGGTTTTTGAAT
Found at i:15491966 original size:16 final size:16
Alignment explanation
Indices: 15491947--15492063 Score: 101
Period size: 16 Copynumber: 7.2 Consensus size: 16
15491937 GGGTTTCAAA
15491947 GTTTTAAGATTTTAGG
1 GTTTTAAGATTTTAGG
* *
15491963 GTTTTAAGATTTCAAG
1 GTTTTAAGATTTTAGG
* * * *
15491979 GATTCAAGTTTTTATG
1 GTTTTAAGATTTTAGG
**
15491995 GTTTCGAGATTTTAGG
1 GTTTTAAGATTTTAGG
15492011 GTTTTGAA-ATTTTTAGG
1 GTTTT-AAGA-TTTTAGG
* *
15492028 GTTTTAAGTTTTTAAG
1 GTTTTAAGATTTTAGG
* *
15492044 GTTTCAAGGTTTTAGG
1 GTTTTAAGATTTTAGG
15492060 GTTT
1 GTTT
15492064 CAGAATATTT
Statistics
Matches: 80, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
16 67 0.84
17 13 0.16
ACGTcount: A:0.23, C:0.03, G:0.24, T:0.50
Consensus pattern (16 bp):
GTTTTAAGATTTTAGG
Found at i:15492412 original size:39 final size:40
Alignment explanation
Indices: 15492362--15492441 Score: 153
Period size: 39 Copynumber: 2.0 Consensus size: 40
15492352 TGAAAATTTA
15492362 TATTCTAAATTTTAATTTAATCTAACTTAATTAGTTTTTT
1 TATTCTAAATTTTAATTTAATCTAACTTAATTAGTTTTTT
15492402 TATT-TAAATTTTAATTTAATCTAACTTAATTAGTTTTTT
1 TATTCTAAATTTTAATTTAATCTAACTTAATTAGTTTTTT
15492441 T
1 T
15492442 TAATTCTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 36 0.90
40 4 0.10
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (40 bp):
TATTCTAAATTTTAATTTAATCTAACTTAATTAGTTTTTT
Found at i:15497602 original size:16 final size:16
Alignment explanation
Indices: 15497583--15497613 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15497573 TGTGATAACA
15497583 TATCTTTAACAATTGT
1 TATCTTTAACAATTGT
15497599 TATCTTTAACAATTG
1 TATCTTTAACAATTG
15497614 GTATGAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (16 bp):
TATCTTTAACAATTGT
Found at i:15498035 original size:22 final size:21
Alignment explanation
Indices: 15497994--15498035 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
15497984 TTTATAGCAA
* *
15497994 TTGGTATAGGAGCTTTAACAT
1 TTGGTATACGAGCTTAAACAT
15498015 TTGGTATAACGAGCTTAAACA
1 TTGGTAT-ACGAGCTTAAACA
15498036 AAAAGAGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (21 bp):
TTGGTATACGAGCTTAAACAT
Found at i:15499209 original size:20 final size:20
Alignment explanation
Indices: 15499155--15499209 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
15499145 TCTAGGATTT
15499155 AAAAAGGGATCGATCACTCA
1 AAAAAGGGATCGATCACTCA
**
15499175 AACTAGGGAATCGATCAC-CTA
1 AAAAAGGG-ATCGATCACTC-A
15499196 AAAAAGGGATCGAT
1 AAAAAGGGATCGAT
15499210 TGGCACAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (20 bp):
AAAAAGGGATCGATCACTCA
Found at i:15508169 original size:30 final size:31
Alignment explanation
Indices: 15508115--15508184 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
15508105 GTTTAAAAAC
*
15508115 TTGTGATTTTCTTTTAAAGATTACTTT-ATA
1 TTGTTATTTTCTTTTAAAGATTACTTTCATA
*
15508145 TAT-TTATTTTCTTTT-ATGATTTACTTTCATA
1 T-TGTTATTTTCTTTTAAAGA-TTACTTTCATA
15508176 TTGTTATTT
1 TTGTTATTT
15508185 ATTGTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
29 3 0.09
30 20 0.59
31 11 0.32
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (31 bp):
TTGTTATTTTCTTTTAAAGATTACTTTCATA
Done.