Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 49 of 193
Found at i:14917879 original size:10 final size:10
Alignment explanation
Indices: 14917852--14917899 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
14917842 TTATTAATAT
14917852 ATATATTTTAA
1 ATAT-TTTTAA
14917863 A-ATTTTTAA
1 ATATTTTTAA
*
14917872 ATATTTTTTA
1 ATATTTTTAA
14917882 ATAATTTTTATA
1 AT-ATTTTTA-A
14917894 ATATTT
1 ATATTT
14917900 AGAACTCCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 7 0.22
10 11 0.34
11 11 0.34
12 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:14917880 original size:20 final size:22
Alignment explanation
Indices: 14917852--14917899 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 22
14917842 TTATTAATAT
*
14917852 ATATATTTTAA-AATTTTTA-A
1 ATATTTTTTAATAATTTTTATA
14917872 ATATTTTTTAATAATTTTTATA
1 ATATTTTTTAATAATTTTTATA
14917894 ATATTT
1 ATATTT
14917900 AGAACTCCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.40
21 8 0.32
22 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTTAATAATTTTTATA
Found at i:14928007 original size:22 final size:24
Alignment explanation
Indices: 14927969--14928013 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
14927959 AGTGAAAAGA
14927969 ACAAAAAGAAAATGAGT-AGAAAT
1 ACAAAAAGAAAATGAGTAAGAAAT
14927992 ACAAAAAGAAAA-GAGTAAGAAA
1 ACAAAAAGAAAATGAGTAAGAAA
14928014 AAGTGTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.69, C:0.04, G:0.18, T:0.09
Consensus pattern (24 bp):
ACAAAAAGAAAATGAGTAAGAAAT
Found at i:14938704 original size:23 final size:22
Alignment explanation
Indices: 14938649--14938704 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
14938639 TTTATAAAAA
*
14938649 TTAAAATT-AAATTGTAATTTT
1 TTAAAATTAAAAATGTAATTTT
*
14938670 TATAATAA-TAAAAATGTACTTTT
1 T-TAA-AATTAAAAATGTAATTTT
14938693 TTAAGAATTAAA
1 TTAA-AATTAAA
14938705 TTAAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
23 18 0.64
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
TTAAAATTAAAAATGTAATTTT
Found at i:14938733 original size:30 final size:28
Alignment explanation
Indices: 14938635--14938755 Score: 83
Period size: 30 Copynumber: 4.4 Consensus size: 28
14938625 AAAATCAAAA
* *
14938635 ATATTTTATAAAAATTAAAATTAAATTGT
1 ATATTTT-TAAAAATTAAAATAAAATTTT
* * *
14938664 A-ATTTTT-ATAA-T--AATAAAAATGT
1 ATATTTTTAAAAATTAAAATAAAATTTT
* *
14938687 ACT-TTTTTAAGAATTAAATTAAAATTTT
1 A-TATTTTTAAAAATTAAAATAAAATTTT
*
14938715 ATTATTTTTAAAAGATTAAAATATAATTTT
1 A-TATTTTTAAAA-ATTAAAATAAAATTTT
14938745 ATATTTATTAA
1 ATATTT-TTAA
14938756 TTTAAAATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
23 10 0.14
24 5 0.07
25 4 0.06
26 4 0.06
27 1 0.01
28 15 0.21
29 14 0.19
30 19 0.26
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (28 bp):
ATATTTTTAAAAATTAAAATAAAATTTT
Found at i:14943290 original size:21 final size:21
Alignment explanation
Indices: 14943249--14943291 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14943239 TATACATATA
**
14943249 TATTATTTTTATTTTTTATTT
1 TATTATTTTTATTTTACATTT
14943270 TATTATTTATTA-TTTACATTT
1 TATTATTT-TTATTTTACATTT
14943291 T
1 T
14943292 GAAAGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (21 bp):
TATTATTTTTATTTTACATTT
Found at i:14944193 original size:21 final size:22
Alignment explanation
Indices: 14944162--14944202 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14944152 TTCTCTTTTG
*
14944162 TTTTTATTTAAGTCCTTTTATT
1 TTTTTATTTAAATCCTTTTATT
14944184 TTTTTA-TTAAATCCTTTTA
1 TTTTTATTTAAATCCTTTTA
14944203 AGATTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTATTTAAATCCTTTTATT
Found at i:14950375 original size:18 final size:18
Alignment explanation
Indices: 14950339--14950382 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14950329 TGATCTGATA
*
14950339 CAGTCACATACTTAGATG
1 CAGTCACATACTCAGATG
* *
14950357 CAGTCACATGCTCATATG
1 CAGTCACATACTCAGATG
*
14950375 CAGCCACA
1 CAGTCACA
14950383 ACAGACTGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (18 bp):
CAGTCACATACTCAGATG
Found at i:14967873 original size:3 final size:3
Alignment explanation
Indices: 14967865--14967932 Score: 61
Period size: 3 Copynumber: 22.7 Consensus size: 3
14967855 TGAGGTAGAG
*
14967865 GAA GAA GAAA GAA -AA GAA GAA GAAA GAA -AA GAA GAA GAA AAA GAA
1 GAA GAA G-AA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA
* *
14967910 G-A GAA GGAA GAA AAA TAA GAA GA
1 GAA GAA -GAA GAA GAA GAA GAA GA
14967933 TTGCCCCGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
2 6 0.11
3 39 0.72
4 9 0.17
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:14967885 original size:15 final size:15
Alignment explanation
Indices: 14967865--14967923 Score: 86
Period size: 15 Copynumber: 4.0 Consensus size: 15
14967855 TGAGGTAGAG
14967865 GAAGAAGAAAGAAAA
1 GAAGAAGAAAGAAAA
14967880 GAAGAAGAAAGAAAA
1 GAAGAAGAAAGAAAA
14967895 GAAGAAGAAA-AAGAA
1 GAAGAAGAAAGAA-AA
*
14967910 G-AGAAGGAAGAAAA
1 GAAGAAGAAAGAAAA
14967924 ATAAGAAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
14 11 0.27
15 30 0.73
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAAGAAAA
Found at i:14977260 original size:19 final size:20
Alignment explanation
Indices: 14977244--14977281 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14977234 CGAGAAAATA
14977244 AAAGAAAA-AAGGAAAAAAC
1 AAAGAAAAGAAGGAAAAAAC
14977263 AAAGAAAAGAAGGAAAAAA
1 AAAGAAAAGAAGGAAAAAA
14977282 TCAAGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAGAAAAGAAGGAAAAAAC
Found at i:14977905 original size:7 final size:7
Alignment explanation
Indices: 14977891--14977983 Score: 77
Period size: 7 Copynumber: 13.3 Consensus size: 7
14977881 GAGAAAAAAG
14977891 AAAG-AA
1 AAAGAAA
14977897 AAAGAAA
1 AAAGAAA
14977904 AAAGAAGA
1 AAAGAA-A
14977912 AAA-ATAA
1 AAAGA-AA
14977919 AAAGAAA
1 AAAGAAA
*
14977926 GAAGAAA
1 AAAGAAA
*
14977933 AATAAAAA
1 AA-AGAAA
*
14977941 GAAAGAAG
1 -AAAGAAA
14977949 AAAGAAA
1 AAAGAAA
*
14977956 AAAGTAA
1 AAAGAAA
14977963 AAA-AAA
1 AAAGAAA
*
14977969 AGAG-AA
1 AAAGAAA
14977975 AAAGAAA
1 AAAGAAA
14977982 AA
1 AA
14977984 GGAGTGATCG
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
6 13 0.19
7 41 0.59
8 13 0.19
9 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:14977926 original size:26 final size:24
Alignment explanation
Indices: 14977886--14977984 Score: 69
Period size: 25 Copynumber: 4.0 Consensus size: 24
14977876 CCCTAGAGAA
*
14977886 AAAAGAAAGAAAAAGAAA-AAAGAAG
1 AAAA-AAA-AAAAAGAAAGAAAAAAG
*
14977911 -AAAAATAAAAAGAAAGAAGAAAA-
1 AAAAAAAAAAAAGAAAGAA-AAAAG
*
14977934 ATAAAAAGAAAGAAGAAAGAAAAAAG
1 A-AAAAA-AAAAAAGAAAGAAAAAAG
* * *
14977960 TAAAAAAAAAGAGAAAAAGAAAAAG
1 AAAAAAAAAAAAGAAAGA-AAAAAG
14977985 GAGTGATCGA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
22 9 0.15
23 4 0.07
24 15 0.25
25 20 0.34
26 11 0.19
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (24 bp):
AAAAAAAAAAAAGAAAGAAAAAAG
Found at i:14977928 original size:19 final size:18
Alignment explanation
Indices: 14977882--14977981 Score: 96
Period size: 19 Copynumber: 5.3 Consensus size: 18
14977872 TTTGCCCTAG
*
14977882 AGAAAAAAGAAAGAAAAAGA
1 AGAAAGAAGAAA-AAAAA-A
*
14977902 AAAAAGAAGAAAAATAAAA
1 AGAAAGAAGAAAAA-AAAA
14977921 AGAAAGAAGAAAAATAAAA
1 AGAAAGAAGAAAAA-AAAA
*
14977940 AGAAAGAAGAAAGAAAAA
1 AGAAAGAAGAAAAAAAAA
14977958 AGTAAA-AA-AAAAGAGAAAA
1 AG-AAAGAAGAAAA-A-AAAA
14977977 AGAAA
1 AGAAA
14977982 AAGGAGTGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
17 3 0.04
18 12 0.17
19 43 0.61
20 13 0.18
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (18 bp):
AGAAAGAAGAAAAAAAAA
Found at i:14978433 original size:112 final size:112
Alignment explanation
Indices: 14978293--14978510 Score: 332
Period size: 112 Copynumber: 1.9 Consensus size: 112
14978283 AATTTTTGTT
* * * *
14978293 ATTTTTAATCTTTTCATTCATGCGAGCTTTTCCTCTAATAAAATTCAATTTTTTCCACCTTGC-A
1 ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
*
14978357 TCTTTGTTCAAGCATTTTTGTAC-TGAAATAACTGTTAGTGGACCGATG
66 TC-ATGTTCAAGCATTTTT-TACGTGAAATAACTGTTAGTGGACCGATG
14978405 ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
1 ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
* *
14978470 TCATGTTCAAGCATTTTTTGCGTTGAAATAGCTGTTAGTGG
66 TCATGTTCAAGCATTTTTTACG-TGAAATAACTGTTAGTGG
14978511 TCTAATTATA
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
111 2 0.02
112 74 0.77
113 20 0.21
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (112 bp):
ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
TCATGTTCAAGCATTTTTTACGTGAAATAACTGTTAGTGGACCGATG
Found at i:14979140 original size:49 final size:49
Alignment explanation
Indices: 14979043--14979164 Score: 147
Period size: 49 Copynumber: 2.5 Consensus size: 49
14979033 GAAAATCTTG
* ** *
14979043 TACCCTAGAGGTGCGGAGGGAAAGGTTGAAGTCGCAACGGTGATCCTTA
1 TACCCTAGAGGTGTGGAGGGAAAGGTTGAAGTCGCAACGACGAACCTTA
*
14979092 TACCCTATAGGTGTGGAGGGAAAGGTTGAAG-CTGCAACGACGAACCTTA
1 TACCCTAGAGGTGTGGAGGGAAAGGTTGAAGTC-GCAACGACGAACCTTA
* * * *
14979141 CACCTTAGAGATGTGAAGGGAAAG
1 TACCCTAGAGGTGTGGAGGGAAAG
14979165 ATTAAAGCCA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 61 0.98
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (49 bp):
TACCCTAGAGGTGTGGAGGGAAAGGTTGAAGTCGCAACGACGAACCTTA
Found at i:14980068 original size:47 final size:47
Alignment explanation
Indices: 14979922--14980121 Score: 238
Period size: 46 Copynumber: 4.4 Consensus size: 47
14979912 AATGGAGTAC
* *
14979922 GTCACCATCCAATCTTTT-CCCCTAAGTTAAG-AGGGGCAGA-TGAA
1 GTCACCATCCAATCTTTTACCCCTAAGTCAAGAAGAGGCAGATTGAA
* * * *
14979966 GTCACTATCCAATCTTTTTCCCCTAAGTCAAGATG-GGCAGATCGAA
1 GTCACCATCCAATCTTTTACCCCTAAGTCAAGAAGAGGCAGATTGAA
*
14980012 GTCATCATCCAATCTTTTACCCCTAAAGTCAA-AAGAGGCAGATTGAA
1 GTCACCATCCAATCTTTTACCCCT-AAGTCAAGAAGAGGCAGATTGAA
* * *
14980059 GCCACCATCCAATCTTTTACCCCTAAGTCAAGTA-AGGCAGATTTAA
1 GTCACCATCCAATCTTTTACCCCTAAGTCAAGAAGAGGCAGATTGAA
14980105 G---CCATCCAATCTTTTAC
1 GTCACCATCCAATCTTTTAC
14980122 TTCTAATTCA
Statistics
Matches: 137, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
43 16 0.12
44 17 0.12
45 18 0.13
46 46 0.34
47 40 0.29
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (47 bp):
GTCACCATCCAATCTTTTACCCCTAAGTCAAGAAGAGGCAGATTGAA
Found at i:14980073 original size:93 final size:90
Alignment explanation
Indices: 14979922--14980090 Score: 248
Period size: 93 Copynumber: 1.8 Consensus size: 90
14979912 AATGGAGTAC
* * * * * *
14979922 GTCACCATCCAATCTTTTCCCCTAAGTTAAGAGGGGCAGATGAAGTCACTATCCAATCTTTTTCC
1 GTCACCATCCAATCTTTTCCCCTAAGTCAAAAGAGGCAGATGAAGCCACCATCCAATCTTTTACC
14979987 CCTAAGTCAAGATGGGCAGATCGAA
66 CCTAAGTCAAGATGGGCAGATCGAA
*
14980012 GTCATCATCCAATCTTTTACCCCTAAAGTCAAAAGAGGCAGATTGAAGCCACCATCCAATCTTTT
1 GTCACCATCCAATCTTTT-CCCCT-AAGTCAAAAGAGGCAGA-TGAAGCCACCATCCAATCTTTT
14980077 ACCCCTAAGTCAAG
63 ACCCCTAAGTCAAG
14980091 TAAGGCAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 17 0.25
91 5 0.07
92 14 0.20
93 33 0.48
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (90 bp):
GTCACCATCCAATCTTTTCCCCTAAGTCAAAAGAGGCAGATGAAGCCACCATCCAATCTTTTACC
CCTAAGTCAAGATGGGCAGATCGAA
Found at i:14980098 original size:93 final size:90
Alignment explanation
Indices: 14979922--14980121 Score: 246
Period size: 93 Copynumber: 2.2 Consensus size: 90
14979912 AATGGAGTAC
* * * * * *
14979922 GTCACCATCCAATCTTTT-CCCCTAAGTTAAGAGGGGCAGATGAAGTCACTATCCAATCTTTTTC
1 GTCA-CATCCAATCTTTTACCCCTAAGTCAAAAGAGGCAGATGAAGCCACCATCCAATCTTTTAC
*
14979986 CCCTAAGTCAAGATGGGCAGATCGAA
65 CCCTAAGTCAAGATAGGCAGATCGAA
14980012 GTCATCATCCAATCTTTTACCCCTAAAGTCAAAAGAGGCAGATTGAAGCCACCATCCAATCTTTT
1 GTCA-CATCCAATCTTTTACCCCT-AAGTCAAAAGAGGCAGA-TGAAGCCACCATCCAATCTTTT
**
14980077 ACCCCTAAGTCAAG-TAAGGCAGATTTAA
63 ACCCCTAAGTCAAGAT-AGGCAGATCGAA
14980105 G-C-CATCCAATCTTTTAC
1 GTCACATCCAATCTTTTAC
14980122 TTCTAATTCA
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
90 32 0.33
91 5 0.05
92 16 0.17
93 43 0.45
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (90 bp):
GTCACATCCAATCTTTTACCCCTAAGTCAAAAGAGGCAGATGAAGCCACCATCCAATCTTTTACC
CCTAAGTCAAGATAGGCAGATCGAA
Found at i:14981962 original size:21 final size:22
Alignment explanation
Indices: 14981931--14981971 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14981921 TTCTGTTTTG
*
14981931 TTTTTATTTAAGTCCTTTTATT
1 TTTTTATTTAAATCCTTTTATT
14981953 TTTTTA-TTAAATCCTTTTA
1 TTTTTATTTAAATCCTTTTA
14981972 AGATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTATTTAAATCCTTTTATT
Found at i:14986757 original size:85 final size:85
Alignment explanation
Indices: 14986649--14986816 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 85
14986639 TCGCTTCATT
* * * *
14986649 GATTTGGTCTACTTCTCAATATCTCATTAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTA
1 GATTTGGTCTACTTCTCAATATCTCATCAGAAAGATGACCGCCTCATTGCTTTAACCCACTTCTA
*
14986714 TGTATCTTATCAGGAAGACG
66 TGTATCTCATCAGGAAGACG
** * * * *
14986734 GATTTGGT-TCACTTCTCCGTATCTCATCAGAAAGATGATCGCGTTATTGCTTTGACCCACTTCT
1 GATTTGGTCT-ACTTCTCAATATCTCATCAGAAAGATGACCGCCTCATTGCTTTAACCCACTTCT
*
14986798 TTGTATCTCATCAGGAAGA
65 ATGTATCTCATCAGGAAGA
14986817 TGGGGGTTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
84 1 0.01
85 69 0.99
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCAATATCTCATCAGAAAGATGACCGCCTCATTGCTTTAACCCACTTCTA
TGTATCTCATCAGGAAGACG
Found at i:14986940 original size:48 final size:48
Alignment explanation
Indices: 14986868--14986990 Score: 142
Period size: 48 Copynumber: 2.6 Consensus size: 48
14986858 AATTTGGTCT
* * * *
14986868 ACTTCTCTATATCTCATTAGGAAGACT-ATCGCCTAATTGT-TTTAATCC
1 ACTTCTCTGTATCTCATCAAGAAGA-TGATCGCCTAATT-TCTTTAACCC
* * *
14986916 ACTTCTCTGTATCTCATCAAGAAGATGATCGCTTTATTTCTTTGACCC
1 ACTTCTCTGTATCTCATCAAGAAGATGATCGCCTAATTTCTTTAACCC
*
14986964 ACTTCTTTGTATCTCATCAAGAAGATG
1 ACTTCTCTGTATCTCATCAAGAAGATG
14986991 GGGGTTTGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
47 2 0.03
48 63 0.97
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (48 bp):
ACTTCTCTGTATCTCATCAAGAAGATGATCGCCTAATTTCTTTAACCC
Found at i:14987029 original size:172 final size:171
Alignment explanation
Indices: 14986743--14987279 Score: 775
Period size: 172 Copynumber: 3.2 Consensus size: 171
14986733 GGATTTGGTT
* * *
14986743 CACTTCTCCGTATCTCATC-AGAAAGATGATCGCGTTATTGCTTTGACCCACTTCTTTGTATCTC
1 CACTTCTCTGTATCTCATCAAG-AAGATGATCGCTTTATTTCTTTGACCCACTTCTTTGTATCTC
* * *
14986807 ATCAGGAAGATGGGGGTTTGAAGTTTTACTCATATTGAGCTTCGCTTCATTAATTTGGTCTACTT
65 ATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTT
* *
14986872 CTCTATATCTCATTAGGAAGACTATCGCCTAATTGTTTTAATC
130 CTC-ATATCTCATTAGGAAGACGATCGCCTCATTGTTTTAATC
14986915 CACTTCTCTGTATCTCATCAAGAAGATGATCGCTTTATTTCTTTGACCCACTTCTTTGTATCTCA
1 CACTTCTCTGTATCTCATCAAGAAGATGATCGCTTTATTTCTTTGACCCACTTCTTTGTATCTCA
* * *
14986980 TCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTTAGCTTTGCTTCATTGATTTGGTCTACTTC
66 TCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTC
*
14987045 TCAATATCTCATCAGGAAGACGATCGCCTCATTGTTTTAATC
131 TC-ATATCTCATTAGGAAGACGATCGCCTCATTGTTTTAATC
* * * * * * *
14987087 CACTTCTCTATATCTCATCAGGAAGGTAACCGCTTTATTGT-TTTGACCCATTTCTCTGTATCTC
1 CACTTCTCTGTATCTCATCAAGAAGATGATCGCTTTATT-TCTTTGACCCACTTCTTTGTATCTC
* *
14987151 ATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGTTTCGTTGA--T--T-TACTT
65 ATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTT
14987211 CTCAGTATCTCATTAGGAAGACGA-CTGCCTCATTGTTTTAATC
130 CTCA-TATCTCATTAGGAAGACGATC-GCCTCATTGTTTTAATC
14987254 CACTTCTCTGTATCTCATCAAGAAGA
1 CACTTCTCTGTATCTCATCAAGAAGA
14987280 CGGATTTGGT
Statistics
Matches: 332, Mismatches: 29, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
166 2 0.01
167 66 0.20
168 1 0.00
170 1 0.00
172 259 0.78
173 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (171 bp):
CACTTCTCTGTATCTCATCAAGAAGATGATCGCTTTATTTCTTTGACCCACTTCTTTGTATCTCA
TCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTC
TCATATCTCATTAGGAAGACGATCGCCTCATTGTTTTAATC
Found at i:14987100 original size:48 final size:48
Alignment explanation
Indices: 14987040--14987160 Score: 143
Period size: 48 Copynumber: 2.5 Consensus size: 48
14987030 GATTTGGTCT
* * * *
14987040 ACTTCTCAATATCTCATCAGGAAGACGATCGCCTCATTGTTTTAATCC
1 ACTTCTCTATATCTCATCAGGAAGACAACCGCCTCATTGTTTTAACCC
** * * *
14987088 ACTTCTCTATATCTCATCAGGAAGGTAACCGCTTTATTGTTTTGACCC
1 ACTTCTCTATATCTCATCAGGAAGACAACCGCCTCATTGTTTTAACCC
* *
14987136 ATTTCTCTGTATCTCATCAGGAAGA
1 ACTTCTCTATATCTCATCAGGAAGA
14987161 TGGGGGTTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (48 bp):
ACTTCTCTATATCTCATCAGGAAGACAACCGCCTCATTGTTTTAACCC
Found at i:14992866 original size:59 final size:60
Alignment explanation
Indices: 14992745--14992866 Score: 160
Period size: 59 Copynumber: 2.0 Consensus size: 60
14992735 TGCCGAGGGT
* * * *
14992745 AAAATGGTAATTTAGGACTTTCGAGGGTAAAATGGTAATTTTAGAAAAATTTAGAGTTAA
1 AAAATGATAATTTAGGACATTCGAGGGTAAAATGGTAATTTTAGAAAAATTCAGAGTCAA
*
14992805 AAAATGATAATTTA-GACATTCGAGGGTAAAATTGTAATTTTTAGAAAAA-TCAG-GATCAA
1 AAAATGATAATTTAGGACATTCGAGGGTAAAATGGTAA-TTTTAGAAAAATTCAGAG-TCAA
14992864 AAA
1 AAA
14992867 CAAAATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
58 1 0.02
59 30 0.55
60 24 0.44
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (60 bp):
AAAATGATAATTTAGGACATTCGAGGGTAAAATGGTAATTTTAGAAAAATTCAGAGTCAA
Found at i:14992883 original size:59 final size:59
Alignment explanation
Indices: 14992753--14992904 Score: 148
Period size: 59 Copynumber: 2.6 Consensus size: 59
14992743 GTAAAATGGT
* * * * *
14992753 AATTTAGGACTTTCGAGGGTAAAATGGTAATTTTAGAAAAATTTAGAGTTAAAAAATGAT
1 AATTTA-GACATTCGAGGGTAAAATGGTAATTTTAGAAAAATTCAGAGATAAAAAATCAA
* *
14992813 AATTTAGACATTCGAGGGTAAAATTGTAATTTTTAGAAAAA-TCAG-GATCAAAAA-CAA
1 AATTTAGACATTCGAGGGTAAAATGGTAA-TTTTAGAAAAATTCAGAGATAAAAAATCAA
* * * *
14992870 AATTTTTGAACATTCGGGGGTAAAAAGGTATTTTT
1 AA-TTTAG-ACATTCGAGGGTAAAATGGTAATTTT
14992905 TTGTAAGTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
57 3 0.04
58 15 0.19
59 42 0.55
60 17 0.22
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (59 bp):
AATTTAGACATTCGAGGGTAAAATGGTAATTTTAGAAAAATTCAGAGATAAAAAATCAA
Found at i:14992935 original size:29 final size:28
Alignment explanation
Indices: 14992888--14993001 Score: 88
Period size: 30 Copynumber: 3.9 Consensus size: 28
14992878 AACATTCGGG
* * *
14992888 GGTAAAAAGGTATTTTTTTGTAAGTTTCGA
1 GGTAAAAATGTA-ATTTTTGGAAGTTT-GA
* *
14992918 GGTAAAAAAT-TGATTTTTTGGAA-TTTTA
1 GGT-AAAAATGT-AATTTTTGGAAGTTTGA
*
14992946 GGGTAAAAATGTAATTTTTGGAAGTTTTA
1 -GGTAAAAATGTAATTTTTGGAAGTTTGA
*
14992975 GGGTCAAAAATGTAATTTTTGTAAGTT
1 -GGT-AAAAATGTAATTTTTGGAAGTT
14993002 ATTTTTGGAA
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
28 17 0.23
29 16 0.22
30 34 0.47
31 6 0.08
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (28 bp):
GGTAAAAATGTAATTTTTGGAAGTTTGA
Found at i:14992986 original size:30 final size:29
Alignment explanation
Indices: 14992932--14993001 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 29
14992922 AAAAATTGAT
14992932 TTTTTGGAA-TTTTAGGGTAAAAATGTAA
1 TTTTTGGAAGTTTTAGGGTAAAAATGTAA
14992960 TTTTTGGAAGTTTTAGGGTCAAAAATGTAA
1 TTTTTGGAAGTTTTAGGGT-AAAAATGTAA
*
14992990 TTTTTGTAAGTT
1 TTTTTGGAAGTT
14993002 ATTTTTGGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 9 0.23
29 9 0.23
30 21 0.54
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.46
Consensus pattern (29 bp):
TTTTTGGAAGTTTTAGGGTAAAAATGTAA
Found at i:14995059 original size:33 final size:34
Alignment explanation
Indices: 14995004--14995076 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 34
14994994 TAAACTTATT
* * * *
14995004 TTTAAGTTTAAAAACCATTTTAAATTTAACTAAA
1 TTTAAATTTAAAAACAAATTTAAATTTAAATAAA
14995038 TTTAAATTT-AAAACAAATTTAAATTTAAATAAA
1 TTTAAATTTAAAAACAAATTTAAATTTAAATAAA
14995071 TTTAAA
1 TTTAAA
14995077 ATCAATTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (34 bp):
TTTAAATTTAAAAACAAATTTAAATTTAAATAAA
Found at i:14995078 original size:17 final size:16
Alignment explanation
Indices: 14995022--14995076 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
14995012 TAAAAACCAT
*
14995022 TTTAAATTTAACTAAA
1 TTTAAATTTAAATAAA
*
14995038 TTTAAATTTAAAACAAA
1 TTTAAATTT-AAATAAA
14995055 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
14995071 TTTAAA
1 TTTAAA
14995077 ATCAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
16 21 0.60
17 14 0.40
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:14995083 original size:27 final size:27
Alignment explanation
Indices: 14995040--14995097 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
14995030 TAACTAAATT
* *
14995040 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
14995067 TAAATTTAAAATC-AATTCAAACTTAAA
1 TAAATTTAAAA-CAAATTCAAACTTAAA
14995094 -AAAT
1 TAAAT
14995098 GAAAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 23 0.82
28 1 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:14995093 original size:33 final size:33
Alignment explanation
Indices: 14995023--14995093 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
14995013 AAAAACCATT
* * * *
14995023 TTAAATTTAACTAAATTTAAATTTAAAACAAAT
1 TTAAATTTAAATAAATTTAAAATCAAAACAAAC
**
14995056 TTAAATTTAAATAAATTTAAAATCAATTCAAAC
1 TTAAATTTAAATAAATTTAAAATCAAAACAAAC
14995089 TTAAA
1 TTAAA
14995094 AAATGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (33 bp):
TTAAATTTAAATAAATTTAAAATCAAAACAAAC
Found at i:14996168 original size:206 final size:206
Alignment explanation
Indices: 14995442--14996171 Score: 944
Period size: 206 Copynumber: 3.5 Consensus size: 206
14995432 TTGTCTTGTC
* * * * * ** * * *
14995442 CTTCTTCTTAGTATCTGATCAGGAAGACGACCGCGTCACTTGTTTTGATCCACTTCTCGGTGTTT
1 CTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCT
* * * * * * *
14995507 CAACAGAAAGACGGATTTGGTTCACTTCTCTGTGTCTTATCAGGAAGCTAACCACTTTATTGCTT
66 CAACAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCACTTTATTGCTT
* * * * *
14995572 TGACCTGTTTCTCAGTATCTCATTAGGAAGCTTGGGTTCGAAGACTTGCTCACATCGAGCTTGGG
131 TGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTTCTCACATCGAGCGTGGG
14995637 CTTT-ATTTGGT
196 -TTTGATTTGGT
* ** * * *
14995648 ATTCTTCTCAATATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTGTCTATATCT
1 CTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCT
* * * * *
14995713 CATCAGGAAGACGAATTTGGTCCGCTTCTCAATATCTCATTAGAAAGCTAACCATTTTATTGCTT
66 CAACAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCACTTTATTGCTT
* *
14995778 TGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGA-TTTGCTCATATCGAGCGTGG
131 TGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTT-CTCACATCGAGCGTGG
14995842 GTTTGATTTGGT
195 GTTTGATTTGGT
* ** * * *
14995854 CTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCACTGTGTTT
1 CTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCT
* * * *
14995919 CAACAGGAAGAC-AGATTTGGTTCACTTCTCTGTGTCTCATTAGGAAGCTAATCACTTTATTGCT
66 CAACAGGAAGACGA-ATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCACTTTATTGCT
* *
14995983 TCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTTCTCACATCGAGCGTAG
130 TTGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTTCTCACATCGAGCGTGG
14996048 GTTTGATTTGGT
195 GTTTGATTTGGT
* ** *
14996060 CTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCT
1 CTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCT
*
14996125 CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAG
66 CAACAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAG
14996172 TTGTGGTTCG
Statistics
Matches: 445, Mismatches: 74, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
205 6 0.01
206 435 0.98
207 4 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (206 bp):
CTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCT
CAACAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCACTTTATTGCTT
TGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTTCTCACATCGAGCGTGGG
TTTGATTTGGT
Found at i:14996274 original size:153 final size:154
Alignment explanation
Indices: 14995991--14996326 Score: 487
Period size: 153 Copynumber: 2.2 Consensus size: 154
14995981 CTTCGACCTG
* *
14995991 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTTCTCACATCGAGCGTAGGTTTGATT
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTTCTCACATCGAGC----GTTCGAGT
* * * **
14996056 TGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGT
62 TGGTATACTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGT
14996121 ATCTCATCAGGAAGACGAATTTGGTCCA
127 ATCTCATCAGGAAGACGAATTTGGTCCA
* * * *
14996149 CTTCTCAGTATCTCATTAGGAAGTTGTGGTTCGAAGA-TTTGCTCGCATCGAGC-TTCGAGTTGG
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTT-CTCACATCGAGCGTTCGAGTTGG
* *
14996212 TATACTTCTCTATATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATC
65 TATACTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATC
*
14996277 TCATTAGGAAGACGAATTTGGTCCA
130 TCATCAGGAAGACGAATTTGGTCCA
14996302 CTTCTCAGTATCTCATCAGGAAGCT
1 CTTCTCAGTATCTCATCAGGAAGCT
14996327 AACCATTTTA
Statistics
Matches: 161, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
153 113 0.70
157 3 0.02
158 45 0.28
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (154 bp):
CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTTCTCACATCGAGCGTTCGAGTTGGT
ATACTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCT
CATCAGGAAGACGAATTTGGTCCA
Found at i:14996306 original size:359 final size:359
Alignment explanation
Indices: 14995785--14996445 Score: 925
Period size: 359 Copynumber: 1.8 Consensus size: 359
14995775 CTTTGACCTG
* * *
14995785 CTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCATATCGAGCGTGGGTTTGATT
1 CTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGC----GTTCGAGT
* * **
14995850 TGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCACTGT
62 TGGTATACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCACTGT
* * * * * * *
14995915 GTTTCAACAGGAAGACAGATTTGGTTCACTTCTCTGTGTCTCATTAGGAAGCTAATCACTTTATT
127 ATCTCAACAGGAAGACAGATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATT
* * *
14995980 GCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGACTTTCTCACATCGAGCG
192 ACTTCGACCTGCTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGACTTGCTCA-ATCGAGCG
*
14996045 TAGGTTTGATTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATC
256 TAGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATC
14996110 CGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCA
321 CGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCA
* * *
14996149 CTTCTCAGTATCTCATTAGGAAGTTGTGG-TTCGAAGATTTGCTCGCATCGAGC-TTCGAGTTGG
1 CTTCTCAGTATCTCATCAGGAAGCTG-GGATTCGAAGATTTGCTCACATCGAGCGTTCGAGTTGG
* * *
14996212 TATACTTCTCTA-TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTAT
65 TATACTTCTC-AGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCACTGTAT
** *
14996276 CTCATTAGGAAGAC-GAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTA
129 CTCAACAGGAAGACAG-ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTA
* * * *
14996340 TTTCGACCTGCTTCTTAGTATCTCATCAGAAAGCTGGGGTTCGAAGACTTGCTCAATCGAGTGTG
193 CTTCGACCTGCTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGACTTGCTCAATCGAGCGTA
**
14996405 GGTTTGATTTGGTCTTCTTCTCTGTATCTCATCAGGAAGAT
258 GGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGAT
14996446 AATCACCTCA
Statistics
Matches: 261, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
358 47 0.18
359 165 0.63
360 1 0.00
364 46 0.18
365 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (359 bp):
CTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGCGTTCGAGTTGGT
ATACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCACTGTATCT
CAACAGGAAGACAGATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTACTT
CGACCTGCTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGACTTGCTCAATCGAGCGTAGGT
TTGATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTT
CTCTGTATCTCATCAGGAAGACGAATTTGGTCCA
Found at i:14996910 original size:48 final size:48
Alignment explanation
Indices: 14996833--14996945 Score: 154
Period size: 48 Copynumber: 2.3 Consensus size: 48
14996823 GCCATTGCGA
** *
14996833 CTTAAATCTTTCCCTTCAAATCTTCGTGGTACTGGATCCGCCGTCGCGG
1 CTTAAATCTTTCCCTT-GTATCTTCGTGGTACTGGATCCACCGTCGCGG
* * * *
14996882 CTTAGATCTTTTCCTTGTATCTTCGTGGTACTGGATCCACCGTTGTGG
1 CTTAAATCTTTCCCTTGTATCTTCGTGGTACTGGATCCACCGTCGCGG
14996930 CTTAAATCTTTCCCTT
1 CTTAAATCTTTCCCTT
14996946 CTTGTCTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
48 41 0.75
49 14 0.25
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (48 bp):
CTTAAATCTTTCCCTTGTATCTTCGTGGTACTGGATCCACCGTCGCGG
Found at i:14997065 original size:49 final size:48
Alignment explanation
Indices: 14996998--14997092 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 48
14996988 TTTCCCTTTG
*
14996998 TGGTCTGGATCCGCCGTTGCGGTCTTAGATCT-TCCCTTCATGTCTTCA
1 TGGTCTGGATCCGCCGTTGCGG-CTTAAATCTCTCCCTTCATGTCTTCA
* * *
14997046 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTCTCCCTTCTTGTCTT
1 TGGT-CTGGATCCGCCGTTGCGGCTTAAATCTCTCCCTTCATGTCTT
14997093 TTGAGATACA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
48 12 0.29
49 29 0.71
ACGTcount: A:0.11, C:0.27, G:0.22, T:0.40
Consensus pattern (48 bp):
TGGTCTGGATCCGCCGTTGCGGCTTAAATCTCTCCCTTCATGTCTTCA
Found at i:14997071 original size:139 final size:135
Alignment explanation
Indices: 14996858--14997188 Score: 454
Period size: 139 Copynumber: 2.4 Consensus size: 135
14996848 TCAAATCTTC
* * * *
14996858 GTGGTACTGGATCCGCCGTCGCGG-CTTAGATCTTTTCCTT-GTATCTTCGTGGTACTGGATCCA
1 GTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCATATCTTCATGGTACTGGATCCA
* * *
14996921 CCGTTGTGGCTTAAATCTTTCCCTTCTTGTCTTTTGAGGTACACGGTCCATTGTTGAGACTTAGA
66 CCGTTGCGGCTTAAATCTCTCCCTTCTTGTCTTTTGAGATACA--GT-C---GTTGAGACTTAGA
14996986 CCTTTCCCTTT
125 CCTTTCCCTTT
* * *
14996997 GTGGT-CTGGATCCGCCGTTGCGGTCTTAGATC-TTCCCTTCATGTCTTCATGGTACTGGATTCG
1 GTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCATATCTTCATGGTACTGGATCCA
* *
14997060 TCGTTGCGGCTTAAATCTCTCCCTTCTTGTCTTTTGAGATACAGTCGTTGCGACTTAGACCTTTC
66 CCGTTGCGGCTTAAATCTCTCCCTTCTTGTCTTTTGAGATACAGTCGTTGAGACTTAGACCTTTC
14997125 CCTTT
131 CCTTT
* *
14997130 GTGGTATTGGATCTGCCGTTGCGGTCTTAGATCTTTCCCTTCATATCTTCATGGTACTG
1 GTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCATATCTTCATGGTACTG
14997189 AGTCCTGTAG
Statistics
Matches: 173, Mismatches: 15, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
133 28 0.16
134 25 0.14
135 24 0.14
136 1 0.01
137 2 0.01
138 23 0.13
139 70 0.40
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.39
Consensus pattern (135 bp):
GTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTCATATCTTCATGGTACTGGATCCA
CCGTTGCGGCTTAAATCTCTCCCTTCTTGTCTTTTGAGATACAGTCGTTGAGACTTAGACCTTTC
CCTTT
Found at i:14998316 original size:12 final size:11
Alignment explanation
Indices: 14998293--14998406 Score: 89
Period size: 10 Copynumber: 10.7 Consensus size: 11
14998283 TCTCCTTTTC
14998293 TTTTTCTT-TT
1 TTTTTCTTCTT
14998303 TTTTTCTCTCTT
1 TTTTTCT-TCTT
*
14998315 TTTTCTTTTCTT
1 TTTT-TCTTCTT
*
14998327 TTTTTCTTCTAA
1 TTTTTCTTCT-T
*
14998339 TTCTTCTTC-T
1 TTTTTCTTCTT
14998349 TTTTTCTT-TT
1 TTTTTCTTCTT
*
14998359 TTCTT-TTCTT
1 TTTTTCTTCTT
*
14998369 TTTTTCCTC-T
1 TTTTTCTTCTT
14998379 TTTTT-TT-TT
1 TTTTTCTTCTT
* *
14998388 TTCTTGTTCTT
1 TTTTTCTTCTT
14998399 TTTTTCTT
1 TTTTTCTT
14998407 TTCTTCATTG
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
9 8 0.10
10 33 0.41
11 16 0.20
12 22 0.27
13 2 0.02
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.80
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:14998364 original size:49 final size:49
Alignment explanation
Indices: 14998290--14998410 Score: 124
Period size: 49 Copynumber: 2.4 Consensus size: 49
14998280 ACCTCTCCTT
*
14998290 TTCTTTTTCTTTTTT-TTTCTCTCTTTT-TTCTTTT-CT-TTTTTTCTTCTAA
1 TTCTTCTTCTTTTTTCTTT-TCTCTTTTCTTCTTTTCCTCTTTTTT-TT-T-A
* * *
14998339 TTCTTCTTCTTTTTTCTTTTTTCTTTTCTTTTTTTCCTCTTTTTTTTTT
1 TTCTTCTTCTTTTTTCTTTTCTCTTTTCTTCTTTTCCTCTTTTTTTTTA
*
14998388 TTCTTGTTCTTTTTTTCTTTTCT
1 TTCTTCTTC-TTTTTTCTTTTCT
14998411 TCATTGAATC
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
49 29 0.48
50 22 0.36
51 4 0.07
52 6 0.10
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (49 bp):
TTCTTCTTCTTTTTTCTTTTCTCTTTTCTTCTTTTCCTCTTTTTTTTTA
Found at i:14998392 original size:43 final size:43
Alignment explanation
Indices: 14998291--14998411 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 43
14998281 CCTCTCCTTT
* * *
14998291 TCTTTTTCTTTTTTT-TTCTCTCTTTTTTCTTTTCTTTTTTTCT
1 TCTTTTT-TTTTTTTCTTTTTTCTTTTTTCTTTTCTTTTTTTCC
** * *
14998334 TC-TAATTCTTCTTCTTTTTTCTTTTTTCTTTTCTTTTTTTCC
1 TCTTTTTTTTTTTTCTTTTTTCTTTTTTCTTTTCTTTTTTTCC
*
14998376 TCTTTTTTTTTTTTC-TTGTTCTTTTTTTCTTTTCTT
1 TCTTTTTTTTTTTTCTTTTTTC-TTTTTTCTTTTCTT
14998412 CATTGAATCC
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 5 0.08
42 34 0.54
43 24 0.38
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (43 bp):
TCTTTTTTTTTTTTCTTTTTTCTTTTTTCTTTTCTTTTTTTCC
Found at i:14998398 original size:55 final size:55
Alignment explanation
Indices: 14998287--14998392 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 55
14998277 TCGACCTCTC
14998287 CTTTTC-TTTTTCTTTTTTTTTCTCTCTTTTTTCTTTTCTTTTTTTCTTCTAATT
1 CTTTTCTTTTTTCTTTTTTTTTCTCTCTTTTTTCTTTTCTTTTTTTCTTCTAATT
* *
14998341 CTTCTTCTTTTTTCTTTTTTCTTT-TCTTTTTTTCCTCTTTTTTTTTTTTCTT
1 CTT-TTCTTTTTTCTTTTTT-TTTCTCTCTTTTT--TCTTTTCTTTTTTTCTT
14998393 GTTCTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
54 3 0.07
55 3 0.07
56 20 0.44
57 3 0.07
58 16 0.36
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (55 bp):
CTTTTCTTTTTTCTTTTTTTTTCTCTCTTTTTTCTTTTCTTTTTTTCTTCTAATT
Found at i:14998409 original size:55 final size:57
Alignment explanation
Indices: 14998288--14998411 Score: 143
Period size: 56 Copynumber: 2.2 Consensus size: 57
14998278 CGACCTCTCC
14998288 TTTTCTTTTTCTTTTTTTTTCTCTCTTTTTTCTTTTCTTTTTTTCTTCTAATTCTTCT
1 TTTTC-TTTTCTTTTTTTTTCTCTCTTTTTTCTTTTCTTTTTTTCTTCTAATTCTTCT
* **
14998346 TCTT-TTTTCTTTTTTCTTT-TCT-TTTTTTCCTCTTT-TTTTTTT-TTCTTGTTCTT-T
1 TTTTCTTTTCTTTTTT-TTTCTCTCTTTTTT-CT-TTTCTTTTTTTCTTCTAATTCTTCT
14998400 TTTTCTTTTCTT
1 TTTTCTTTTCTT
14998412 CATTGAATCC
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
54 4 0.07
55 22 0.38
56 23 0.40
57 6 0.10
58 3 0.05
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.80
Consensus pattern (57 bp):
TTTTCTTTTCTTTTTTTTTCTCTCTTTTTTCTTTTCTTTTTTTCTTCTAATTCTTCT
Found at i:15003708 original size:59 final size:57
Alignment explanation
Indices: 15003640--15003778 Score: 145
Period size: 59 Copynumber: 2.4 Consensus size: 57
15003630 ATTTGCGACT
* *
15003640 TTCGAGGGTAAAATGGTAATTTCAGAAAAAATTAGAGTTAAAAAATGACA-TTTTAGACA
1 TTCG-GGGTAAAATGGTAATTTCAG-AAAAA-TAGAGATAAAAAATGAAATTTTTAGACA
* * * * * *
15003699 TTCGCGGGTAAAACGATAATTTTTAGAAAAATCGAGATCAAAAATGAAATTTTTGGACA
1 TTCG-GGGTAAAATGGTAA-TTTCAGAAAAATAGAGATAAAAAATGAAATTTTTAGACA
*
15003758 TCCGGGGTAAAATGGTAATTT
1 TTCGGGGTAAAATGGTAATTT
15003779 TTGCAAGTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
57 3 0.05
58 26 0.39
59 32 0.48
60 5 0.08
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (57 bp):
TTCGGGGTAAAATGGTAATTTCAGAAAAATAGAGATAAAAAATGAAATTTTTAGACA
Found at i:15003777 original size:58 final size:60
Alignment explanation
Indices: 15003645--15003780 Score: 154
Period size: 58 Copynumber: 2.3 Consensus size: 60
15003635 CGACTTTCGA
* * * *
15003645 GGGTAAAATGGTAA-TTTCAGAAAAAATTAGAGTTAAAAAATGACATTTTAGACATTCGC
1 GGGTAAAATGGTAATTTTTAGAAAAAATTAGAGATAAAAAATGAAATTTTAGACATCCGC
* * * * *
15003704 GGGTAAAACGATAATTTTTAG-AAAAA-TCGAGATCAAAAATGAAATTTTTGGACATCCG-
1 GGGTAAAATGGTAATTTTTAGAAAAAATTAGAGATAAAAAATGAAA-TTTTAGACATCCGC
15003762 GGGTAAAATGGTAATTTTT
1 GGGTAAAATGGTAATTTTT
15003781 GCAAGTTTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 31 0.48
59 28 0.44
60 5 0.08
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (60 bp):
GGGTAAAATGGTAATTTTTAGAAAAAATTAGAGATAAAAAATGAAATTTTAGACATCCGC
Found at i:15003795 original size:29 final size:28
Alignment explanation
Indices: 15003774--15004161 Score: 274
Period size: 29 Copynumber: 13.3 Consensus size: 28
15003764 GTAAAATGGT
*
15003774 AATTTTTGCAAGTTTTAGGGTAAAAAATAG
1 AATTTTTGGAAGTTTTAGGGT-AAAAAT-G
* *
15003804 AATTTTTAGAA--TTTCGAGGTAAAAATG
1 AATTTTTGGAAGTTTTAG-GGTAAAAATG
*
15003831 TAATTTTTGGAAG-TTTCGGGATTAAAAATGG
1 -AATTTTTGGAAGTTTTAGGG--TAAAAAT-G
*
15003862 AATTTTTGAAAGTTTTAGGGTTAAAAAT-
1 AATTTTTGGAAGTTTTAGGG-TAAAAATG
* * * *
15003890 ATAATTTTGGAAATTTGAGAGTCAAAAATGG
1 A-ATTTTTGGAAGTTTTAGGGT-AAAAAT-G
15003921 AATTTTTGGAA-TTTTAGGGGTAAAAATG
1 AATTTTTGGAAGTTTTA-GGGTAAAAATG
**
15003949 TAATTTTTTAAAGTTTT-GAGGTCAAAAATAG
1 -AATTTTTGGAAGTTTTAG-GGT-AAAAAT-G
*
15003980 AATTTTTGGAAGTTTTAGGGTTAAAATGG
1 AATTTTTGGAAGTTTTAGGGTAAAAAT-G
*
15004009 AATTTTTGGAA-ATTTAGGGGTAAAATAT-
1 AATTTTTGGAAGTTTTA-GGGTAAAA-ATG
* *
15004037 AATTTTTAGAAGTTTTGGGGTTAAAAATGG
1 AATTTTTGGAAGTTTTAGGG-TAAAAAT-G
** **
15004067 AATTTTTGGAAGTTTGGGGGTAATGATG
1 AATTTTTGGAAGTTTTAGGGTAAAAATG
15004095 TAATTTTTGGAA-TTTT-GGGTCAAAAATGG
1 -AATTTTTGGAAGTTTTAGGGT-AAAAAT-G
* * * *
15004124 AATTTTTTGAAATTTGAGGGCAAAAATG
1 AATTTTTGGAAGTTTTAGGGTAAAAATG
15004152 TAATTTTTGG
1 -AATTTTTGG
15004162 CTAAAAAATG
Statistics
Matches: 292, Mismatches: 36, Indels: 61
0.75 0.09 0.16
Matches are distributed among these distances:
27 5 0.02
28 64 0.22
29 116 0.40
30 97 0.33
31 10 0.03
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (28 bp):
AATTTTTGGAAGTTTTAGGGTAAAAATG
Found at i:15003866 original size:88 final size:86
Alignment explanation
Indices: 15003738--15004161 Score: 386
Period size: 88 Copynumber: 4.9 Consensus size: 86
15003728 AATCGAGATC
* ** * *
15003738 AAAAATGAAATTTTTGGACA-TCCGGGGT-AAAATGGTAATTTTTGCAAGTTTTAGGGTAAAAAA
1 AAAAATGGAATTTTTGGA-ATTTAGGGGTAAAAATGG-AATTTTTGAAAGTTTTAGGGTTAAAAA
*
15003801 TAGAATTTTTAGAA-TTTCGAGGT
64 TAGAATTTTTGGAAGTTT-GAGGT
* * *
15003824 AAAAATGTAATTTTTGGAAGTTTCGGGATTAAAAATGGAATTTTTGAAAGTTTTAGGGTTAAAAA
1 AAAAATGGAATTTTTGGAA-TTTAGGG-GTAAAAATGGAATTTTTGAAAGTTTTAGGGTTAAAAA
* *
15003889 TATAA-TTTTGGAAATTTGAGAGT
64 TAGAATTTTTGGAAGTTTGAG-GT
* * *
15003912 CAAAAATGGAATTTTTGGAATTTTAGGGGTAAAAATGTAATTTTTTAAAGTTTT-GAGGTCAAAA
1 -AAAAATGGAATTTTTGGAA-TTTAGGGGTAAAAATGGAATTTTTGAAAGTTTTAG-GGTTAAAA
*
15003976 ATAGAATTTTTGGAAGTTTTAGGGT
63 ATAGAATTTTTGGAAGTTTGA-GGT
* *
15004001 TAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAT--AATTTTT-AGAAGTTTTGGGGTTAAAA
1 AAAAATGGAATTTTTGG-AATTTAGGGGTAAAA-ATGGAATTTTTGA-AAGTTTTAGGGTTAAAA
* *
15004063 ATGGAATTTTTGGAAGTTTGGGGGT
63 ATAGAATTTTTGGAAGTTT-GAGGT
** * * * *
15004088 AATGATGTAATTTTTGGAATTT-TGGGTCAAAAATGGAATTTTTTGAAA-TTTGAGGG-CAAAAA
1 AAAAATGGAATTTTTGGAATTTAGGGGT-AAAAATGGAA-TTTTTGAAAGTTTTAGGGTTAAAAA
15004150 T-GTAATTTTTGG
64 TAG-AATTTTTGG
15004162 CTAAAAAATG
Statistics
Matches: 287, Mismatches: 30, Indels: 42
0.80 0.08 0.12
Matches are distributed among these distances:
85 8 0.03
86 42 0.15
87 79 0.28
88 107 0.37
89 50 0.17
90 1 0.00
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.38
Consensus pattern (86 bp):
AAAAATGGAATTTTTGGAATTTAGGGGTAAAAATGGAATTTTTGAAAGTTTTAGGGTTAAAAATA
GAATTTTTGGAAGTTTGAGGT
Found at i:15003918 original size:59 final size:59
Alignment explanation
Indices: 15003766--15004161 Score: 334
Period size: 59 Copynumber: 6.8 Consensus size: 59
15003756 CATCCGGGGT
* * * * * * *
15003766 AAAATGGTAATTTTTGCAAGTTTTAGGGTAAAAAATAGAATTTTTAGAA--TTTCGAGG-TA
1 AAAATGG-AATTTTTGGAAATTTGA-GGTCAAAAATGGAATTTTTGGAAGTTTTAG-GGTTA
* * * *
15003825 AAAATGTAATTTTTGGAAGTTTCG-GGATTAAAAATGGAATTTTTGAAAGTTTTAGGGTTA
1 AAAATGGAATTTTTGGAAATTT-GAGG-TCAAAAATGGAATTTTTGGAAGTTTTAGGGTTA
** *
15003885 AAAATATAA-TTTTGGAAATTTGAGAGTCAAAAATGGAATTTTTGGAA-TTTTAGGGGTA
1 AAAATGGAATTTTTGGAAATTTGAG-GTCAAAAATGGAATTTTTGGAAGTTTTAGGGTTA
* * *
15003943 AAAATGTAATTTTT-TAAAGTTTTGAGGTCAAAAATAGAATTTTTGGAAGTTTTAGGGTT-
1 AAAATGGAATTTTTGGAAA--TTTGAGGTCAAAAATGGAATTTTTGGAAGTTTTAGGGTTA
* * *
15004002 AAAATGGAATTTTTGGAAATTTAGGGGT-AAAATAT--AATTTTTAGAAGTTTTGGGGTTA
1 AAAATGGAATTTTTGGAAATTT-GAGGTCAAAA-ATGGAATTTTTGGAAGTTTTAGGGTTA
* * ** * *
15004060 AAAATGGAATTTTTGGAAGTTTGGGGGT-AATGATGTAATTTTTGGAA-TTTT-GGGTCA
1 AAAATGGAATTTTTGGAAATTT-GAGGTCAAAAATGGAATTTTTGGAAGTTTTAGGGTTA
* * *
15004117 AAAATGGAATTTTTTGAAATTTGAGGGCAAAAATGTAATTTTTGG
1 AAAATGGAATTTTTGGAAATTTGAGGTCAAAAATGGAATTTTTGG
15004162 CTAAAAAATG
Statistics
Matches: 285, Mismatches: 34, Indels: 38
0.80 0.10 0.11
Matches are distributed among these distances:
56 3 0.01
57 64 0.22
58 92 0.32
59 93 0.33
60 33 0.12
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (59 bp):
AAAATGGAATTTTTGGAAATTTGAGGTCAAAAATGGAATTTTTGGAAGTTTTAGGGTTA
Found at i:15004206 original size:49 final size:49
Alignment explanation
Indices: 15004107--15004206 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
15004097 ATTTTTGGAA
* * **
15004107 TTTTGGGTCAAAAATGGAATTTTTTGAAATTTGAGGGCAAAAATGTAAT
1 TTTTGGCTAAAAAATGGAATTTTTTGAAATTTGAGGGCAAAAATACAAT
*
15004156 TTTTGGCTAAAAAATGTAATTTTTT-AAATTTCGAGGGTC-AAAATACAAT
1 TTTTGGCTAAAAAATGGAATTTTTTGAAATTT-GAGGG-CAAAAATACAAT
15004205 TT
1 TT
15004207 CTGGACAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
48 6 0.14
49 37 0.84
50 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (49 bp):
TTTTGGCTAAAAAATGGAATTTTTTGAAATTTGAGGGCAAAAATACAAT
Found at i:15005306 original size:3 final size:3
Alignment explanation
Indices: 15005298--15005336 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15005288 TTAATAAATG
15005298 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15005337 AAATAGTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15006131 original size:6 final size:6
Alignment explanation
Indices: 15006122--15006209 Score: 84
Period size: 6 Copynumber: 16.0 Consensus size: 6
15006112 TAAAAACCAT
**
15006122 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -ACAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
15006167 --TAAA TTTAAA TTTAAA -ACAAA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
15006210 ATCAATTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
4 10 0.15
5 10 0.15
6 46 0.70
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:15006211 original size:17 final size:16
Alignment explanation
Indices: 15006122--15006209 Score: 131
Period size: 16 Copynumber: 5.4 Consensus size: 16
15006112 TAAAAACCAT
*
15006122 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
*
15006138 TTTAAATTTAAAACAAA
1 TTTAAATTT-AAATAAA
15006155 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
*
15006171 TTTAAATTTAAAACAAA
1 TTTAAATTT-AAATAAA
15006188 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
15006204 TTTAAA
1 TTTAAA
15006210 ATCAATTCAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
16 36 0.55
17 29 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:15006225 original size:27 final size:27
Alignment explanation
Indices: 15006173--15006230 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
15006163 TAAATAAATT
* *
15006173 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
15006200 TAAATTTAAAATC-AATTCAAACTTAAA
1 TAAATTTAAAA-CAAATTCAAACTTAAA
15006227 -AAAT
1 TAAAT
15006231 CAAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 23 0.82
28 1 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:15006226 original size:33 final size:33
Alignment explanation
Indices: 15006104--15006209 Score: 167
Period size: 33 Copynumber: 3.2 Consensus size: 33
15006094 TAAACTTATT
* * * *
15006104 TTTAAGTTTAAAAACCATTTTAAATTTAATTAAA
1 TTTAAATTT-AAAACAAATTTAAATTTAAATAAA
15006138 TTTAAATTTAAAACAAATTTAAATTTAAATAAA
1 TTTAAATTTAAAACAAATTTAAATTTAAATAAA
15006171 TTTAAATTTAAAACAAATTTAAATTTAAATAAA
1 TTTAAATTTAAAACAAATTTAAATTTAAATAAA
15006204 TTTAAA
1 TTTAAA
15006210 ATCAATTCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
33 60 0.88
34 8 0.12
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (33 bp):
TTTAAATTTAAAACAAATTTAAATTTAAATAAA
Found at i:15018344 original size:7 final size:7
Alignment explanation
Indices: 15018328--15018356 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15018318 AAATTATATG
15018328 TTTTTA-
1 TTTTTAT
15018334 TTTTTAT
1 TTTTTAT
15018341 TTTTTAT
1 TTTTTAT
15018348 TTTTTAT
1 TTTTTAT
15018355 TT
1 TT
15018357 AAAATATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:15019990 original size:19 final size:19
Alignment explanation
Indices: 15019966--15020003 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15019956 TTTGTATATT
*
15019966 TTTTTAGATTTTTTTAAAA
1 TTTTTAGAATTTTTTAAAA
*
15019985 TTTTTATAATTTTTTAAAA
1 TTTTTAGAATTTTTTAAAA
15020004 AATATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTTAGAATTTTTTAAAA
Found at i:15020006 original size:21 final size:21
Alignment explanation
Indices: 15019963--15020004 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
15019953 CTCTTTGTAT
* *
15019963 ATTTTTTTAGATTTTTTTAAA
1 ATTTTTATAGATTTTTTAAAA
15019984 ATTTTTATA-ATTTTTTAAAA
1 ATTTTTATAGATTTTTTAAAA
15020004 A
1 A
15020005 ATATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTTTATAGATTTTTTAAAA
Found at i:15020039 original size:19 final size:20
Alignment explanation
Indices: 15019975--15020054 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
15019965 TTTTTTAGAT
* *
15019975 TTTTTTAAAATT-TTTATAAT
1 TTTTTAAAAATTATTT-TAAA
*
15019995 TTTTTAAAAAATATAAATTTTGAA
1 TTTTT-AAAAAT-T--ATTTTAAA
15020019 -TTTTAAAAATTATTTTAAA
1 TTTTTAAAAATTATTTTAAA
*
15020038 TTTTTGAAAATTATTTT
1 TTTTTAAAAATTATTTT
15020055 GTAATTTTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
19 7 0.14
20 20 0.41
21 6 0.12
22 7 0.14
23 4 0.08
24 2 0.04
25 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTAAA
Found at i:15020060 original size:21 final size:20
Alignment explanation
Indices: 15020011--15020064 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
15020001 AAAAATATAA
*
15020011 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTGAAAATT
*
15020030 ATTTTAAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
15020050 ATTTTGTAATTTTTG
1 ATTTTG-AATTTTTG
15020065 TTGAAAGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 7 0.23
20 15 0.50
21 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:15021947 original size:138 final size:138
Alignment explanation
Indices: 15021695--15021971 Score: 518
Period size: 138 Copynumber: 2.0 Consensus size: 138
15021685 TGTAAATGGA
15021695 ATTAATGATTGAACTATGGTTATTAAATTACCCAGCATTATACAAATAGATTATAGGCCATTTGT
1 ATTAATGATTGAACTATGGTTATTAAATTACCCAGCATTATACAAATAGATTATAGGCCATTTGT
*
15021760 CTATAAATGAAAAAAAAGCTAATCACCAGCTTGATTTATGAGGCCATTATTCCACTGCATGTTGA
66 CCATAAATGAAAAAAAAGCTAATCACCAGCTTGATTTATGAGGCCATTATTCCACTGCATGTTGA
15021825 AAGCTTAG
131 AAGCTTAG
15021833 ATTAATGATTGAACTATGGTTATTAAATTACCCAGCATTATACAAATAGATTATAGGCCATTTGT
1 ATTAATGATTGAACTATGGTTATTAAATTACCCAGCATTATACAAATAGATTATAGGCCATTTGT
* * *
15021898 CCATAAATGAAAAAAAAGTTAATCCCCAGCTTGATTTATGAGGCGATTATTCCACTGCATGTTGA
66 CCATAAATGAAAAAAAAGCTAATCACCAGCTTGATTTATGAGGCCATTATTCCACTGCATGTTGA
15021963 AAGCTTAG
131 AAGCTTAG
15021971 A
1 A
15021972 CTTTTGGAGC
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 135 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (138 bp):
ATTAATGATTGAACTATGGTTATTAAATTACCCAGCATTATACAAATAGATTATAGGCCATTTGT
CCATAAATGAAAAAAAAGCTAATCACCAGCTTGATTTATGAGGCCATTATTCCACTGCATGTTGA
AAGCTTAG
Found at i:15023592 original size:16 final size:17
Alignment explanation
Indices: 15023565--15023619 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
15023555 GTTTGGTTCA
*
15023565 CTGTAATAGAATAAGA-
1 CTGTAATGGAATAAGAG
*
15023581 CTGTGATGGAAT-AGAG
1 CTGTAATGGAATAAGAG
15023597 CTGTAATGGAAT-AGAG
1 CTGTAATGGAATAAGAG
*
15023613 CTATAAT
1 CTGTAAT
15023620 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 3 0.09
16 31 0.91
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.27
Consensus pattern (17 bp):
CTGTAATGGAATAAGAG
Found at i:15023748 original size:17 final size:17
Alignment explanation
Indices: 15023726--15023759 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15023716 AAAAAAAGTT
15023726 TAAATAACCAGAGTACC
1 TAAATAACCAGAGTACC
15023743 TAAATAACCAGAGTACC
1 TAAATAACCAGAGTACC
15023760 CTTAGCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (17 bp):
TAAATAACCAGAGTACC
Found at i:15023879 original size:59 final size:59
Alignment explanation
Indices: 15023805--15023968 Score: 201
Period size: 59 Copynumber: 2.8 Consensus size: 59
15023795 TTGTTATTAA
15023805 ATTTTAATA-AGATTATTATTAAATATAATTTAATAATAAATAATAAATAATTTA-ATCAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAA-AAATAATAAATAATTTATATCAT
* *
15023864 ATTTTAATATAATTATTATTAAATACAATTTAATAAAAATAATATATAATTTATTATCAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA-TATCAT
* * * *
15023924 -TCTTAATGTAAATATTATTAAAATATGAA-TTAATAAAAATCATAA
1 ATTTTAATATAATTATTATT-AAATAT-AATTTAATAAAAATAATAA
15023969 TATATAATAT
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
58 16 0.17
59 49 0.53
60 25 0.27
61 2 0.02
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (59 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTATATCAT
Found at i:15029014 original size:16 final size:16
Alignment explanation
Indices: 15028995--15029044 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
15028985 TTAAAGAACC
15028995 CAAAAATTAAACCCTT
1 CAAAAATTAAACCCTT
**
15029011 CAAATTTTAATA-CC--
1 CAAAAATTAA-ACCCTT
15029025 CAAAAATTAAACCCTT
1 CAAAAATTAAACCCTT
15029041 CAAA
1 CAAA
15029045 TTTTAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 1 0.04
14 10 0.38
16 14 0.54
17 1 0.04
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (16 bp):
CAAAAATTAAACCCTT
Found at i:15029027 original size:30 final size:30
Alignment explanation
Indices: 15028992--15029051 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15028982 AAGTTAAAGA
15028992 ACCCAAAAATTAAACCCTTCAAATTTTAAT
1 ACCCAAAAATTAAACCCTTCAAATTTTAAT
15029022 ACCCAAAAATTAAACCCTTCAAATTTTAAT
1 ACCCAAAAATTAAACCCTTCAAATTTTAAT
15029052 CAAAATGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (30 bp):
ACCCAAAAATTAAACCCTTCAAATTTTAAT
Found at i:15029050 original size:16 final size:16
Alignment explanation
Indices: 15029001--15029050 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
15028991 AACCCAAAAA
15029001 TTAAACCCTTCAAATT
1 TTAAACCCTTCAAATT
**
15029017 TTAATA-CC--CAAAAA
1 TTAA-ACCCTTCAAATT
15029031 TTAAACCCTTCAAATT
1 TTAAACCCTTCAAATT
15029047 TTAA
1 TTAA
15029051 TCAAAATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 1 0.04
14 10 0.38
16 14 0.54
17 1 0.04
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAACCCTTCAAATT
Found at i:15036634 original size:50 final size:49
Alignment explanation
Indices: 15036575--15036673 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 49
15036565 ATTGTAGGTT
*
15036575 CTGTGGGGATTGTCCAAAATCGTTCTCACGT-ATGGTACCTAACTAGAGGC
1 CTGTGGGGATTGTCCAAAATCGTTCCCAC-TAAT-GTACCTAACTAGAGGC
*
15036625 CTGTGGGGATTGTCCAATATCGTTCCCACTAATGTACCTAACTAGAGGC
1 CTGTGGGGATTGTCCAAAATCGTTCCCACTAATGTACCTAACTAGAGGC
15036674 TAGATTTCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 17 0.37
50 29 0.63
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (49 bp):
CTGTGGGGATTGTCCAAAATCGTTCCCACTAATGTACCTAACTAGAGGC
Found at i:15047305 original size:23 final size:23
Alignment explanation
Indices: 15047275--15047325 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
15047265 AAGCGGGAAC
15047275 GGGTTACTATGGACTTTGTTATA
1 GGGTTACTATGGACTTTGTTATA
15047298 GGGTTACTATGGACTTTGTTATA
1 GGGTTACTATGGACTTTGTTATA
15047321 GGGTT
1 GGGTT
15047326 GCTGGTGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.43
Consensus pattern (23 bp):
GGGTTACTATGGACTTTGTTATA
Found at i:15051604 original size:17 final size:17
Alignment explanation
Indices: 15051567--15051611 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
15051557 CATTAATTTA
*
15051567 CAATGACACATGGAAATG
1 CAATGACA-ATGCAAATG
*
15051585 CAATGACAATGCACATG
1 CAATGACAATGCAAATG
15051602 CAATGACAAT
1 CAATGACAAT
15051612 TAGAATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (17 bp):
CAATGACAATGCAAATG
Found at i:15051958 original size:20 final size:20
Alignment explanation
Indices: 15051933--15051972 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15051923 TGTGATCCTC
15051933 ATTAATTATAGTCACAACCT
1 ATTAATTATAGTCACAACCT
*
15051953 ATTAATTGTAGTCACAACCT
1 ATTAATTATAGTCACAACCT
15051973 CCGCCTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (20 bp):
ATTAATTATAGTCACAACCT
Found at i:15064217 original size:13 final size:13
Alignment explanation
Indices: 15064185--15064218 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15064175 TTACTGGTAA
*
15064185 GAAATTTCGAGAT
1 GAAATTTCGAGAC
15064198 GAAATTTCGAGAC
1 GAAATTTCGAGAC
*
15064211 GATATTTC
1 GAAATTTC
15064219 CTAAGGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (13 bp):
GAAATTTCGAGAC
Found at i:15066386 original size:21 final size:21
Alignment explanation
Indices: 15066345--15066416 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
15066335 GGAATTTTTA
*
15066345 GTATCGGTAGAAGTATGACTT
1 GTATCGGTAGAAGTATCACTT
*
15066366 GTTTCGGTAGAAGT-TACACTT
1 GTATCGGTAGAAGTAT-CACTT
* * * **
15066387 GTATCAGTAGAACTGTCACAA
1 GTATCGGTAGAAGTATCACTT
15066408 GTATCGGTA
1 GTATCGGTA
15066417 AAAATCTACA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 39 0.95
22 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAAGTATCACTT
Found at i:15070377 original size:25 final size:22
Alignment explanation
Indices: 15070349--15070404 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
15070339 TTTTAAAAAG
*
15070349 TTTATACATAATTTATAAGACATTA
1 TTTATACA-AATTT-TAA-ACAATA
15070374 TTTATACAAATTTTAAACAATA
1 TTTATACAAATTTTAAACAATA
*
15070396 TTAATACAA
1 TTTATACAA
15070405 CGATAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 13 0.45
23 3 0.10
24 5 0.17
25 8 0.28
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTATACAAATTTTAAACAATA
Found at i:15071498 original size:24 final size:24
Alignment explanation
Indices: 15071471--15071559 Score: 108
Period size: 24 Copynumber: 3.8 Consensus size: 24
15071461 AGTTTTTATT
*
15071471 TGCCTTTGTGGCATGCTTTTCCTC
1 TGCCTTTGTGGCACGCTTTTCCTC
*
15071495 TGCCTTTGTGGTACGCTTTTCCTC
1 TGCCTTTGTGGCACGCTTTTCCTC
* * *
15071519 TGTC-TTGTGGCACACTTTTCCTT
1 TGCCTTTGTGGCACGCTTTTCCTC
* *
15071542 TGACTTTGTGGCATGCTT
1 TGCCTTTGTGGCACGCTT
15071560 CTGCCTTATG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 19 0.35
24 36 0.65
ACGTcount: A:0.07, C:0.26, G:0.21, T:0.46
Consensus pattern (24 bp):
TGCCTTTGTGGCACGCTTTTCCTC
Found at i:15074554 original size:31 final size:31
Alignment explanation
Indices: 15074516--15074580 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
15074506 GAACAAATAT
15074516 ATTTGATTCGAATTTTC-TCTCACTC-AGCTCG
1 ATTTGATTCGAA-TTTCATCTCACTCGA-CTCG
*
15074547 ATTTGATTTGAATTTCATCTCACTCGACTCG
1 ATTTGATTCGAATTTCATCTCACTCGACTCG
15074578 ATT
1 ATT
15074581 CGAAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 4 0.13
31 26 0.84
32 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (31 bp):
ATTTGATTCGAATTTCATCTCACTCGACTCG
Found at i:15081757 original size:30 final size:30
Alignment explanation
Indices: 15081716--15081777 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
15081706 AACGTTTTCC
*
15081716 TTGTCAATATTTATAT-T-TATTATTATATTT
1 TTGTAAATATTTATATATATATT-TTA-ATTT
15081746 TTGTAAATATTTATATATATATTTTAATTT
1 TTGTAAATATTTATATATATATTTTAATTT
15081776 TT
1 TT
15081778 TAGAATTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 21 0.72
31 4 0.14
32 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (30 bp):
TTGTAAATATTTATATATATATTTTAATTT
Found at i:15082007 original size:21 final size:20
Alignment explanation
Indices: 15081975--15082014 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15081965 ATTACAAAAT
*
15081975 TTTTTATTTTAAATAATTTC
1 TTTTTATATTAAATAATTTC
*
15081995 TTTTTATAATTAAGTAATTT
1 TTTTTAT-ATTAAATAATTT
15082015 ACCTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTATATTAAATAATTTC
Found at i:15085458 original size:58 final size:57
Alignment explanation
Indices: 15085390--15085525 Score: 127
Period size: 58 Copynumber: 2.4 Consensus size: 57
15085380 TTTGGATACC
* *
15085390 CGAGGGTAAAATGGTAATTTT-GA-ACTCTCGGGGGCAAAATGGTAATTTTGGGTAAATT
1 CGAGGTTAAAATGGTAATTTTAGACA-TCT-AGGGGCAAAATGGTAATTTTGGG-AAATT
* * * * * *
15085448 TGGGGTTAAAAAT-G-ACATCTTAGACATCTAGGGGTAAAATGGTAATTTTTGGAAGTT
1 CGAGGTT-AAAATGGTA-ATTTTAGACATCTAGGGGCAAAATGGTAATTTTGGGAAATT
15085505 CGAGGTTAAAATGGTAATTTT
1 CGAGGTTAAAATGGTAATTTT
15085526 CAAAAGTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
56 5 0.08
57 15 0.25
58 30 0.49
59 10 0.16
60 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.33
Consensus pattern (57 bp):
CGAGGTTAAAATGGTAATTTTAGACATCTAGGGGCAAAATGGTAATTTTGGGAAATT
Found at i:15085524 original size:29 final size:30
Alignment explanation
Indices: 15085479--15085683 Score: 140
Period size: 30 Copynumber: 6.9 Consensus size: 30
15085469 AGACATCTAG
*
15085479 GGGT-AAAATGGTAATTTTTGGAAGTTCGA
1 GGGTAAAAATGGTAATTTTTGGAAGTTTGA
* *** *
15085508 -GGTTAAAATGGTAATTTTCAAAAGTTTTA
1 GGGTAAAAATGGTAATTTTTGGAAGTTTGA
* *
15085537 GGGTCAAAATTG-AGATTTTTAGG-AGTTTGA
1 GGGTAAAAATGGTA-ATTTTT-GGAAGTTTGA
*
15085567 GGGTAAAAATGG-AATTTTTGGAAGTTTAA
1 GGGTAAAAATGGTAATTTTTGGAAGTTTGA
*
15085596 GGGTAAAAAT-GTAATTTTTGAAAGTTTTG-
1 GGGTAAAAATGGTAATTTTTGGAAG-TTTGA
* * * *
15085625 GGGTCAAAAAT-ATAATTTTAGAAAAGTTTGG
1 GGGT-AAAAATGGTAATTTTTG-GAAGTTTGA
* * *
15085656 GGGTTAAAAT-TTATTTTTTGGATAGTTT
1 GGGTAAAAATGGTAATTTTTGGA-AGTTT
15085684 AGGAACCTCT
Statistics
Matches: 142, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
28 6 0.04
29 59 0.42
30 69 0.49
31 8 0.06
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (30 bp):
GGGTAAAAATGGTAATTTTTGGAAGTTTGA
Found at i:15085546 original size:59 final size:57
Alignment explanation
Indices: 15085479--15085621 Score: 139
Period size: 59 Copynumber: 2.4 Consensus size: 57
15085469 AGACATCTAG
* *
15085479 GGGTAAAATGGTAATTTTTGGAAGTTCGA-GGTTAAAATGGTAATTTTCAAAAGTTTTA
1 GGGTAAAAT-GTAATTTTTGGAAGTTCGAGGGTAAAAATGG-AATTTTCAAAAGTTTAA
* ***
15085537 GGGTCAAAAT-TGAGATTTTTAGG-AGTTTGAGGGTAAAAATGGAATTTTTGGAAGTTTAA
1 GGGT-AAAATGT-A-ATTTTT-GGAAGTTCGAGGGTAAAAATGGAATTTTCAAAAGTTTAA
*
15085596 GGGTAAAAATGTAATTTTTGAAAGTT
1 GGGT-AAAATGTAATTTTTGGAAGTT
15085622 TTGGGGTCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
57 2 0.03
58 15 0.21
59 40 0.57
60 13 0.19
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (57 bp):
GGGTAAAATGTAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTCAAAAGTTTAA
Found at i:15085641 original size:30 final size:29
Alignment explanation
Indices: 15085478--15085675 Score: 118
Period size: 29 Copynumber: 6.7 Consensus size: 29
15085468 TAGACATCTA
* *
15085478 GGGGT-AAAATGGTAATTTTTGGAAG-TTC
1 GGGGTAAAAAT-GTAATTTTTGAAAGTTTT
* * **
15085506 GAGGTTAAAATGGTAATTTTCAAAAGTTTT
1 GGGGTAAAAAT-GTAATTTTTGAAAGTTTT
* * *
15085536 AGGGTCAAAAT-TGAGATTTTT-AGGAG-TTT
1 GGGGTAAAAATGT-A-ATTTTTGA-AAGTTTT
* * *
15085565 GAGGGTAAAAATGGAATTTTTGGAAGTTTA
1 G-GGGTAAAAATGTAATTTTTGAAAGTTTT
*
15085595 AGGGTAAAAATGTAATTTTTGAAAGTTTT
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
* * *
15085624 GGGGTCAAAAATATAATTTTAGAAAAGTTTG
1 GGGGT-AAAAATGTAATTTTTG-AAAGTTTT
* * *
15085655 GGGGTTAAAATTTATTTTTTG
1 GGGGTAAAAATGTAATTTTTG
15085676 GATAGTTTAG
Statistics
Matches: 131, Mismatches: 28, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
28 5 0.04
29 59 0.45
30 55 0.42
31 12 0.09
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.38
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTTT
Found at i:15087340 original size:17 final size:17
Alignment explanation
Indices: 15087320--15087406 Score: 84
Period size: 17 Copynumber: 5.1 Consensus size: 17
15087310 TTTTAATATT
* *
15087320 AATAATTTTTAATTCAA
1 AATAAATTTAAATTCAA
* *
15087337 AATAAATTCAAATTTAA
1 AATAAATTTAAATTCAA
*
15087354 AATAAATTTAAATTCAT
1 AATAAATTTAAATTCAA
* * *
15087371 CATGAATTTAAATTTAA
1 AATAAATTTAAATTCAA
* *
15087388 AATAAATTCAAATTTAA
1 AATAAATTTAAATTCAA
15087405 AA
1 AA
15087407 ATTAAAAGTT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 56 1.00
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (17 bp):
AATAAATTTAAATTCAA
Found at i:15087358 original size:34 final size:34
Alignment explanation
Indices: 15087320--15087406 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 34
15087310 TTTTAATATT
* *
15087320 AATAATTTTTAATTCAAAATAAATTCAAATTTAA
1 AATAAATTTAAATTCAAAATAAATTCAAATTTAA
** * *
15087354 AATAAATTTAAATTCATCATGAATTTAAATTTAA
1 AATAAATTTAAATTCAAAATAAATTCAAATTTAA
* *
15087388 AATAAATTCAAATTTAAAA
1 AATAAATTTAAATTCAAAA
15087407 ATTAAAAGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (34 bp):
AATAAATTTAAATTCAAAATAAATTCAAATTTAA
Found at i:15089060 original size:14 final size:14
Alignment explanation
Indices: 15089041--15089079 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
15089031 GATTGGGGTT
15089041 TTTTAGTTTTAGAC
1 TTTTAGTTTTAGAC
*
15089055 TTTTAGTTTTAGCC
1 TTTTAGTTTTAGAC
15089069 TTTTAGATTTT
1 TTTTAG-TTTT
15089080 TATTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.18, C:0.08, G:0.13, T:0.62
Consensus pattern (14 bp):
TTTTAGTTTTAGAC
Found at i:15090321 original size:15 final size:15
Alignment explanation
Indices: 15090301--15090330 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15090291 GGTAGTGGGC
15090301 TAATATTATATATTA
1 TAATATTATATATTA
*
15090316 TAATATTATTTATTA
1 TAATATTATATATTA
15090331 ATTCGGTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATATTATATATTA
Found at i:15104163 original size:19 final size:17
Alignment explanation
Indices: 15104128--15104180 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
15104118 GGATGCTGAG
*
15104128 GAAGAGGAGGAAGAAGA
1 GAAGAGGAAGAAGAAGA
15104145 GAAGAGAGAAGAAGCAAGA
1 GAAGAG-GAAGAAG-AAGA
* * *
15104164 GAAAAAGAAAAAGAAGA
1 GAAGAGGAAGAAGAAGA
15104181 AGAATTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 10 0.33
18 12 0.40
19 8 0.27
ACGTcount: A:0.62, C:0.02, G:0.36, T:0.00
Consensus pattern (17 bp):
GAAGAGGAAGAAGAAGA
Found at i:15109201 original size:154 final size:150
Alignment explanation
Indices: 15109043--15109570 Score: 690
Period size: 154 Copynumber: 3.5 Consensus size: 150
15109033 TGATTAAAAC
* * *
15109043 AAAATCATTACTTTATTTCAAAATCAAAACTTTTATTTCGAAATAGCTAAAAAAAATCAAAACTT
1 AAAATCATTATTTTATTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
* * * * *
15109108 TGTTTAAAAATTTAAAATTTTTCTTTAAAATCATTAAAAAATAGATTTTTATTTTTAAAAATCTA
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATA
*
15109173 AAATTTCTCTTTTTTTTTATTAAG
131 AACTTTCTC--TTTTTTTA--AAG
* * *
15109197 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCATTATTTTATTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
* * * * * *
15109262 TGTTTAAAAAATTAAACTTTTTCCTTAAAATAACAAAAAAACATATTTTCATTTTTTTTAAAATA
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTT--TATTTTTAAAAATA
15109327 TAAACTTT-TCTTTTTTTAAAG
129 TAAACTTTCTCTTTTTTTAAAG
* * *
15109348 AAAATCATTATTTTAATTAAAAATCTAAACTTTTATTTCGAAATAGTT-AAAAAAATGAAAACTT
1 AAAATCATTATTTTATTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
*
15109412 TATTT-AAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATA
66 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATA
15109476 AACTTTCTC-TTTTTTAAAG
131 AACTTTCTCTTTTTTTAAAG
* * * * *
15109495 AAAATC-TCTATTTTATTTAAAAATAAAAACTTTTATTTTGAAATTGTTTATAAAAAACCAAAAC
1 AAAATCAT-TATTTTATTTAAAAATCAAAACTTTTATTTCGAAATAG-TTAAAAAAAATCAAAAC
*
15109559 TTT-TTTCAAAAT
64 TTTGTTTAAAAAT
15109571 CAAGCTATTT
Statistics
Matches: 330, Mismatches: 37, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
146 1 0.00
147 69 0.21
148 7 0.02
149 58 0.18
150 19 0.06
151 48 0.15
153 8 0.02
154 100 0.30
155 2 0.01
156 18 0.05
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (150 bp):
AAAATCATTATTTTATTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATATA
AACTTTCTCTTTTTTTAAAG
Found at i:15109929 original size:3 final size:3
Alignment explanation
Indices: 15109923--15109966 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
15109913 AATAATAATA
*
15109923 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
15109967 AATTTGGGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:15110491 original size:42 final size:42
Alignment explanation
Indices: 15110410--15110997 Score: 749
Period size: 42 Copynumber: 14.0 Consensus size: 42
15110400 ATACAATGAA
* * * * *
15110410 AAAAATAAATGGACCT-CACGCCTAGGTCTCTGAATGCAATG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
** * *
15110451 AAAAGTAAATGGACCTCCACACCTAAGTCTCTAAGTGCAATG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
* * * *
15110493 AAAAGTAAATGGACCTCTACAACTGGGACTCTAAATGCAACG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
* * *
15110535 AAAAGTAAATAGG-CCTCCAAACATGGGCCTTTAAATGCAATG
1 AAAAGTAAAT-GGACCTCCACACCTGGGCCTCTAAATGCAATG
* * *
15110577 AAAAGTAAATGGGCCTCTACACCTGGGCCTCTAAATACAATG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
* * *
15110619 AAAAGTAAATGGGCCTCCACACCTAGGCCTCTAAATGTAATG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
* *
15110661 AAAAGTAAATGGGCCTCCACACCTGGGCCTCTAAGTGCAATG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
* * * * *
15110703 AAAAGTAAATGGGCCTCTACACTTGGGCCTCTAAATACGATG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
*
15110745 AAAAGTAAATAGG-CCTCCACACCTAGGCCTCTAAATGCAATG
1 AAAAGTAAAT-GGACCTCCACACCTGGGCCTCTAAATGCAATG
*
15110787 AAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
*
15110829 AATAGTAAAT-GAGCCTCCACACCTGGGCCTCTAAATGCAATG
1 AAAAGTAAATGGA-CCTCCACACCTGGGCCTCTAAATGCAATG
* * *
15110871 AAAAGTAAAT-GAGCCTCTACACCAGGGTCTCTAAATGCAATG
1 AAAAGTAAATGGA-CCTCCACACCTGGGCCTCTAAATGCAATG
*
15110913 AAAAGTAAAT-GAGCCTCTACACCTGGGCCTCTAAATGCAATG
1 AAAAGTAAATGGA-CCTCCACACCTGGGCCTCTAAATGCAATG
*
15110955 AAAAGTAAATGG-GCTCCACACCTGGGCCTCTAAATGCAATG
1 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
15110996 AA
1 AA
15110998 TGCTTTCCTT
Statistics
Matches: 487, Mismatches: 53, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
41 50 0.10
42 432 0.89
43 5 0.01
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATG
Found at i:15120200 original size:51 final size:51
Alignment explanation
Indices: 15120136--15120240 Score: 113
Period size: 51 Copynumber: 2.1 Consensus size: 51
15120126 TGATTAAAAT
** * *
15120136 AAAATCACTACTTTACTGCAAAATCAAAAC-TTTTATTTCAAAATAGCTAAA
1 AAAATCAAAACTTTACTGAAAAATCAAAACTTTTTATTT-AAAATAACTAAA
* * ** *
15120187 AAAATCAAAACTTTGCTTAAAAATTTAAACTTTTTATTTAAAATAATTAAA
1 AAAATCAAAACTTTACTGAAAAATCAAAACTTTTTATTTAAAATAACTAAA
15120238 AAA
1 AAA
15120241 CATATTTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.82
52 8 0.18
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.34
Consensus pattern (51 bp):
AAAATCAAAACTTTACTGAAAAATCAAAACTTTTTATTTAAAATAACTAAA
Found at i:15120537 original size:52 final size:52
Alignment explanation
Indices: 15120184--15120546 Score: 165
Period size: 52 Copynumber: 7.1 Consensus size: 52
15120174 CAAAATAGCT
* * *
15120184 AAAAAAATCAAAACTTTGCTTAAAAATTTAAACTTTTTATTTAAAATAATTA
1 AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAATTA
* ** * * * ** **
15120236 AAAAACAT--ATTTTTATTTTTAAAAATCTAAACTTTCTCTTT--TTTTTTTA
1 AAAAAAATCAAAATTT-TGTTTAAAAATTTAAACTTTTTCTTTAAAATAATTA
* * * * ** * **
15120285 AAGAAAATCACTAGTTTT-CTTAAAAATCCAAAATTTTAT-TTCGAAATAATTA
1 AAAAAAATCA-AAATTTTGTTTAAAAATTTAAACTTTT-TCTTTAAAATAATTA
* * * *
15120337 AAAAAAATCAAAACTTTATTTAAAAATTTAAACTTTTTCCTTAAAATAACTA
1 AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAATTA
* **** * * * **
15120389 AAAAATAT-TTTTTTATTGTCTAAAAATATT-AACTTTCTCTTT---TTTTTTA
1 AAAAAAATCAAAATT-TTGTTTAAAAAT-TTAAACTTTTTCTTTAAAATAATTA
* ** ** ** ** *
15120438 AAGAAAATCACTATTTTACTTAAAAATCCAAACTTTTAT-TTCGAAATAGTTA
1 AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTT-TCTTTAAAATAATTA
*
15120490 AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTA
1 AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAATTA
15120542 AAAAA
1 AAAAA
15120547 TAGATTTTTA
Statistics
Matches: 214, Mismatches: 79, Indels: 36
0.65 0.24 0.11
Matches are distributed among these distances:
49 36 0.17
50 24 0.11
51 30 0.14
52 122 0.57
53 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.42
Consensus pattern (52 bp):
AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAATTA
Found at i:15120616 original size:153 final size:152
Alignment explanation
Indices: 15120103--15120615 Score: 719
Period size: 153 Copynumber: 3.4 Consensus size: 152
15120093 CTTCTTCTTC
* * ** * * ** *
15120103 TTTTAAAATTA-AAAATTT-TCTTTTGATTAAAATAAAATCACTACTTTACTGCAAAATCAAAAC
1 TTTTAAAAATATAAACTTTCTCTTTTTTTTAAAAGAAAATCACTATTTTACTTAAAAATCCAAAC
* * * *
15120166 TTTTATTTCAAAATAGCT-AAAAAAATCAAAACTTTGCTTAAAAATTTAAACTTTTTATTTAAAA
66 TTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAA
* *
15120230 TAATTAAAAAACATATTTTTAT
131 TAACTAAAAAATATATTTTTAT
* *
15120252 TTTTAAAAATCTAAACTTTCTCTTTTTTTTTTAAAGAAAATCACTAGTTTT-CTTAAAAATCCAA
1 TTTTAAAAATATAAACTTTCTC-TTTTTTTTAAAAGAAAATCACTA-TTTTACTTAAAAATCCAA
* * * *
15120316 AATTTTATTTCGAAATAATTAAAAAAAATCAAAACTTTATTTAAAAATTTAAACTTTTTCCTTAA
64 ACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAA
*
15120381 AATAACTAAAAAATATTTTTTTAT
129 AATAACTAAAAAATATATTTTTAT
* * *
15120405 TGTCTAAAAATATTAACTTTCTCTTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCCAAA
1 T-TTTAAAAATATAAACTTTCTCTTTTTTTTAAAAGAAAATCACTATTTTACTTAAAAATCCAAA
*
15120470 CTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAA
65 CTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAA
*
15120535 ATAACTAAAAAATAGATTTTTAT
130 ATAACTAAAAAATATATTTTTAT
*
15120558 TTTTAAAAATATAAATTTTCTCTTTTTTTTAAAAGAAAATCACTATTTTACTTAAAAA
1 TTTTAAAAATATAAACTTTCTCTTTTTTTTAAAAGAAAATCACTATTTTACTTAAAAA
15120616 AAACATTTAT
Statistics
Matches: 321, Mismatches: 36, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
149 9 0.03
150 6 0.02
151 2 0.01
152 102 0.32
153 184 0.57
154 18 0.06
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (152 bp):
TTTTAAAAATATAAACTTTCTCTTTTTTTTAAAAGAAAATCACTATTTTACTTAAAAATCCAAAC
TTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAA
TAACTAAAAAATATATTTTTAT
Found at i:15122396 original size:23 final size:23
Alignment explanation
Indices: 15122370--15122418 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
15122360 CATTTCTATA
*
15122370 CATCTACTAAGCATGATTAATTT
1 CATCTACCAAGCATGATTAATTT
15122393 CATCTACCAAGCATGATTAATTT
1 CATCTACCAAGCATGATTAATTT
15122416 CAT
1 CAT
15122419 GCTCAACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
CATCTACCAAGCATGATTAATTT
Found at i:15129479 original size:25 final size:26
Alignment explanation
Indices: 15129440--15129490 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
15129430 TTAGTAAAAT
* *
15129440 GAAAATGAAAATAACTTAAACTTAAA
1 GAAAATGAAAATAACTAAAACCTAAA
15129466 GAAAAT-AAAATAACTAAAACCTAAA
1 GAAAATGAAAATAACTAAAACCTAAA
15129491 TTACAAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.65, C:0.10, G:0.06, T:0.20
Consensus pattern (26 bp):
GAAAATGAAAATAACTAAAACCTAAA
Found at i:15129696 original size:21 final size:21
Alignment explanation
Indices: 15129670--15129716 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
15129660 TCAAGAGTCA
15129670 ATGTCGCGACACACAGAAGCC
1 ATGTCGCGACACACAGAAGCC
* *
15129691 ATGTCGCGACACACAGGAGCG
1 ATGTCGCGACACACAGAAGCC
15129712 ATGTC
1 ATGTC
15129717 ATGACATGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.28, T:0.13
Consensus pattern (21 bp):
ATGTCGCGACACACAGAAGCC
Found at i:15129722 original size:21 final size:21
Alignment explanation
Indices: 15129670--15129722 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
15129660 TCAAGAGTCA
*
15129670 ATGTCGCGACACACAGAAGCC
1 ATGTCACGACACACAGAAGCC
* * *
15129691 ATGTCGCGACACACAGGAGCG
1 ATGTCACGACACACAGAAGCC
*
15129712 ATGTCATGACA
1 ATGTCACGACA
15129723 TGGCAGGCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.26, T:0.13
Consensus pattern (21 bp):
ATGTCACGACACACAGAAGCC
Found at i:15139116 original size:6 final size:6
Alignment explanation
Indices: 15139105--15139129 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15139095 CTTATTTATT
15139105 AGTAGA AGTAGA AGTAGA AGTAGA A
1 AGTAGA AGTAGA AGTAGA AGTAGA A
15139130 ATTATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AGTAGA
Found at i:15146040 original size:18 final size:19
Alignment explanation
Indices: 15146009--15146045 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15145999 AAGAAATTAA
*
15146009 AAAAAGGAGAAGGAAGAAG
1 AAAAAGAAGAAGGAAGAAG
15146028 AAAAAGAAG-AGGAAGAAG
1 AAAAAGAAGAAGGAAGAAG
15146046 CCAGAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (19 bp):
AAAAAGAAGAAGGAAGAAG
Found at i:15147078 original size:3 final size:3
Alignment explanation
Indices: 15147070--15147104 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15147060 TCACATAAAA
15147070 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
15147105 AATAATAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15147840 original size:17 final size:17
Alignment explanation
Indices: 15147814--15147847 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15147804 AAATACTGAT
*
15147814 GAGGGAGGATCTTCTTC
1 GAGGGAGGATCATCTTC
*
15147831 GAGGGGGGATCATCTTC
1 GAGGGAGGATCATCTTC
15147848 CAGATTTCTG
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:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (17 bp):
GAGGGAGGATCATCTTC
Found at i:15170905 original size:25 final size:24
Alignment explanation
Indices: 15170857--15170907 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
15170847 CAAGTATTCA
*
15170857 AACTACCGATACTACTATGCATAG
1 AACTACCGATACTACTATCCATAG
15170881 AACTACCGATACCTACTA-CCAATAG
1 AACTACCGATA-CTACTATCC-ATAG
15170906 AA
1 AA
15170908 TTATTACTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (24 bp):
AACTACCGATACTACTATCCATAG
Found at i:15170917 original size:129 final size:129
Alignment explanation
Indices: 15170764--15171023 Score: 520
Period size: 129 Copynumber: 2.0 Consensus size: 129
15170754 ACAAGTATAA
15170764 CTACTACCAATAGAATTATTACTTCTACCGATACAATAAACTCCAGAGAGCTAATAAGTTTTACC
1 CTACTACCAATAGAATTATTACTTCTACCGATACAATAAACTCCAGAGAGCTAATAAGTTTTACC
15170829 CTGTAGCTTCTACCAATACAAGTATTCAAACTACCGATACTACTATGCATAGAACTACCGATAC
66 CTGTAGCTTCTACCAATACAAGTATTCAAACTACCGATACTACTATGCATAGAACTACCGATAC
15170893 CTACTACCAATAGAATTATTACTTCTACCGATACAATAAACTCCAGAGAGCTAATAAGTTTTACC
1 CTACTACCAATAGAATTATTACTTCTACCGATACAATAAACTCCAGAGAGCTAATAAGTTTTACC
15170958 CTGTAGCTTCTACCAATACAAGTATTCAAACTACCGATACTACTATGCATAGAACTACCGATAC
66 CTGTAGCTTCTACCAATACAAGTATTCAAACTACCGATACTACTATGCATAGAACTACCGATAC
15171022 CT
1 CT
15171024 CAGAGACTTA
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 131 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (129 bp):
CTACTACCAATAGAATTATTACTTCTACCGATACAATAAACTCCAGAGAGCTAATAAGTTTTACC
CTGTAGCTTCTACCAATACAAGTATTCAAACTACCGATACTACTATGCATAGAACTACCGATAC
Found at i:15171853 original size:94 final size:94
Alignment explanation
Indices: 15171691--15172093 Score: 544
Period size: 94 Copynumber: 4.3 Consensus size: 94
15171681 ATTGTCTATA
* * * *
15171691 TTACCAATATACGATGTTGCTCACACTAAGCTGAAGAGGACTCGCAACATATGCAATACCTTAAC
1 TTACCAATATACGATGCTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGATACCTTAGC
*
15171756 CATCGATACGGTATTTATACATATAACTG
66 CATCGATACGGTATCTATACATATAACTG
* * * * *
15171785 TTACCAGTATACGGTGCTGCTCACACTAAGCTGACGAGGACTCCCAACATATACGATACCTCAGC
1 TTACCAATATACGATGCTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGATACCTTAGC
*
15171850 CATCGATACGGCATCTATACATATAACTG
66 CATCGATACGGTATCTATACATATAACTG
* * * * *
15171879 TTACCAGTATACGATGCTGCTCACACTAAGCTAATGAGGACTCGTAACATATGCGGTACCTTAGC
1 TTACCAATATACGATGCTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGATACCTTAGC
*
15171944 CATCGATACGGTATCTATACATATAACTA
66 CATCGATACGGTATCTATACATATAACTG
* * *
15171973 TTACCAATATACGATGCTGCTCACACTAA-CTTGACGAGGATTAGCAACATATGCGGTACCTTAG
1 TTACCAATATACGATGCTGCTCACACTAAGC-TGACGAGGACTCGCAACATATGCGATACCTTAG
* * * *
15172037 CCATCGATATGGTATTTGTACATATAATTG
65 CCATCGATACGGTATCTATACATATAACTG
*
15172067 TT-CC-CTA-ACGATGCTGCTCACACTAAG
1 TTACCAATATACGATGCTGCTCACACTAAG
15172094 TTAACGAGAA
Statistics
Matches: 274, Mismatches: 33, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
91 19 0.07
92 2 0.01
93 3 0.01
94 250 0.91
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (94 bp):
TTACCAATATACGATGCTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGATACCTTAGC
CATCGATACGGTATCTATACATATAACTG
Found at i:15175967 original size:21 final size:20
Alignment explanation
Indices: 15175915--15175970 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
15175905 GTTGGGAAGG
15175915 TTCTACCGATACAAGTATGAC
1 TTCTA-CGATACAAGTATGAC
* * *
15175936 TACTATCGATACAATTATTAC
1 TTCTA-CGATACAAGTATGAC
15175957 TTCTACAGATACAA
1 TTCTAC-GATACAA
15175971 CAAACTCTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (20 bp):
TTCTACGATACAAGTATGAC
Found at i:15176932 original size:94 final size:94
Alignment explanation
Indices: 15176771--15177023 Score: 332
Period size: 94 Copynumber: 2.7 Consensus size: 94
15176761 GAGGACTAAG
* * * * *
15176771 CCATCGATATGGTATCTGCACATAAAACTGTTACCAGTATACGATGTTGCTCACACTAAGCTAAC
1 CCATCGATACGGTATCTGTACATATAACTGTTACCAGTATACGATGCTGCTCACACTAAGCTGAC
* * *
15176836 GAGGACTCGCAACATATGCTATACCTCAA
66 GAGGACTCACAACATATACGATACCTCAA
* *
15176865 CCATCGATACGGTATCTATATATATAACTGTTACCAGTATACGATGCTGCTCACACTAAGCTGAC
1 CCATCGATACGGTATCTGTACATATAACTGTTACCAGTATACGATGCTGCTCACACTAAGCTGAC
* *
15176930 GAGGACTCACAACATATACGGTACCTCAG
66 GAGGACTCACAACATATACGATACCTCAA
* * * * *
15176959 CCATCAATACGATATCTGTACATATAACT-TTTCC-CTA-ACGATGCTGCTCACATTAAGCTGAC
1 CCATCGATACGGTATCTGTACATATAACTGTTACCAGTATACGATGCTGCTCACACTAAGCTGAC
15177021 GAG
66 GAG
15177024 AATATGCAAA
Statistics
Matches: 140, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
91 27 0.19
92 2 0.01
93 4 0.03
94 107 0.76
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (94 bp):
CCATCGATACGGTATCTGTACATATAACTGTTACCAGTATACGATGCTGCTCACACTAAGCTGAC
GAGGACTCACAACATATACGATACCTCAA
Found at i:15179019 original size:18 final size:19
Alignment explanation
Indices: 15178996--15179034 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15178986 CGAATTTGTT
15178996 AATAAAAGAAAAGAA-AAA
1 AATAAAAGAAAAGAAGAAA
*
15179014 AATAAAGGAAAAGAAGAAA
1 AATAAAAGAAAAGAAGAAA
15179033 AA
1 AA
15179035 AATAAGAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (19 bp):
AATAAAAGAAAAGAAGAAA
Found at i:15182463 original size:26 final size:26
Alignment explanation
Indices: 15182427--15182478 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15182417 TCACACGCGA
15182427 AAGCGTCGAGGCATTATGCCCTAGAG
1 AAGCGTCGAGGCATTATGCCCTAGAG
15182453 AAGCGTCGAGGCATTATGCCCTAGAG
1 AAGCGTCGAGGCATTATGCCCTAGAG
15182479 CGGGCGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (26 bp):
AAGCGTCGAGGCATTATGCCCTAGAG
Found at i:15184450 original size:12 final size:12
Alignment explanation
Indices: 15184433--15184458 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15184423 TGAACAAAAG
15184433 AAATGATCTCTA
1 AAATGATCTCTA
15184445 AAATGATCTCTA
1 AAATGATCTCTA
15184457 AA
1 AA
15184459 GGCTAACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AAATGATCTCTA
Found at i:15186493 original size:30 final size:30
Alignment explanation
Indices: 15186459--15186516 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15186449 AAGGGGTCTT
* *
15186459 AAGGGTTTTAGTTTAGCCATAAAAATTAAA
1 AAGGGTTTTAATTAAGCCATAAAAATTAAA
*
15186489 AAGGGTTTTAATTAAGCCATAATAATTA
1 AAGGGTTTTAATTAAGCCATAAAAATTA
15186517 GTGTTTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (30 bp):
AAGGGTTTTAATTAAGCCATAAAAATTAAA
Found at i:15193840 original size:42 final size:42
Alignment explanation
Indices: 15193768--15193850 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
15193758 TGTTAAGATA
* *
15193768 GGAAAATATCATTCTTTGATCTACCTACTTCAATACCAATGG
1 GGAAAATATCATTCTATGATCTACCTACTTCAATAACAATGG
* *
15193810 GGAAAATATCATTCTATGTTCTA-GTGACTTCAATAACAATG
1 GGAAAATATCATTCTATGATCTACCT-ACTTCAATAACAATG
15193851 AGAAATTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (42 bp):
GGAAAATATCATTCTATGATCTACCTACTTCAATAACAATGG
Found at i:15198600 original size:25 final size:25
Alignment explanation
Indices: 15198566--15198624 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
15198556 TATCTTGTTA
* * * *
15198566 GAAGAGAGAAACTAAATGCTGAATT
1 GAAGAAAGAAAATAAAGGCAGAATT
*
15198591 GAAGAAAGAAAATAAAGGCAGACTT
1 GAAGAAAGAAAATAAAGGCAGAATT
*
15198616 GAAGGAAGA
1 GAAGAAAGA
15198625 GATTTTGAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.53, C:0.07, G:0.27, T:0.14
Consensus pattern (25 bp):
GAAGAAAGAAAATAAAGGCAGAATT
Found at i:15204508 original size:12 final size:13
Alignment explanation
Indices: 15204480--15204512 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15204470 GTTTCTCAAA
*
15204480 AAAGTCAACGATC
1 AAAGTCAAAGATC
15204493 AAAGTCAAAG-TC
1 AAAGTCAAAGATC
15204505 AAAGTCAA
1 AAAGTCAA
15204513 CGGGTCTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAGTCAAAGATC
Found at i:15205603 original size:4 final size:4
Alignment explanation
Indices: 15205587--15205624 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
15205577 ATGTATCATA
*
15205587 ATCT ATCT TTCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
15205625 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (4 bp):
ATCT
Found at i:15206103 original size:22 final size:20
Alignment explanation
Indices: 15206078--15206117 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
15206068 TAATCATGTT
15206078 AAAATCATTTTTTATAAATAAA
1 AAAAT-ATTTTTT-TAAATAAA
15206100 AAAATATTTTTTTAAATA
1 AAAATATTTTTTTAAATA
15206118 TGATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATATTTTTTTAAATAAA
Found at i:15206528 original size:19 final size:21
Alignment explanation
Indices: 15206490--15206531 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
15206480 ATAAGTTTAG
15206490 TTATTATTACTTGATATTTGA
1 TTATTATTACTTGATATTTGA
*
15206511 TTATT-TTAC-TGTTATTTGA
1 TTATTATTACTTGATATTTGA
15206530 TT
1 TT
15206532 TTAATAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (21 bp):
TTATTATTACTTGATATTTGA
Found at i:15206974 original size:20 final size:20
Alignment explanation
Indices: 15206936--15206983 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
15206926 CTTTTAATTC
*
15206936 ATTAAATAATATATTTTTA-TA
1 ATTAAA-AA-ATATATTTACTA
15206957 AGTTAAAAAATATATTTACTA
1 A-TTAAAAAATATATTTACTA
15206978 ATTAAA
1 ATTAAA
15206984 TGAGAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 13 0.54
21 6 0.25
22 5 0.21
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTAAAAAATATATTTACTA
Found at i:15208960 original size:34 final size:34
Alignment explanation
Indices: 15208892--15208961 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
15208882 CTTCTAACAA
*
15208892 AACCAAATTGCACACAAGTGTATCCGTCTCACAC
1 AACCAAATTGCACACAAGTGTATCCATCTCACAC
* *
15208926 AACCAAATTGCACATAAGTGTGTCCATC-CTACAC
1 AACCAAATTGCACACAAGTGTATCCATCTC-ACAC
15208960 AA
1 AA
15208962 TCAGAAAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.21
Consensus pattern (34 bp):
AACCAAATTGCACACAAGTGTATCCATCTCACAC
Found at i:15211540 original size:18 final size:19
Alignment explanation
Indices: 15211504--15211541 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
15211494 GGGAGATTGC
15211504 TTTAGTCTATATAAGACCTTT
1 TTTAGTCTATAT-A-ACCTTT
15211525 TTTAGTCTATAT-ACCTT
1 TTTAGTCTATATAACCTT
15211542 CCATTGGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.50
Consensus pattern (19 bp):
TTTAGTCTATATAACCTTT
Found at i:15217226 original size:34 final size:34
Alignment explanation
Indices: 15217183--15217252 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
15217173 TTTATAATTT
15217183 AATTTCATCCATATATGATTAGCAAAATGACATC
1 AATTTCATCCATATATGATTAGCAAAATGACATC
15217217 AATTTCATCCATATATGATTAGCAAAATGACATC
1 AATTTCATCCATATATGATTAGCAAAATGACATC
15217251 AA
1 AA
15217253 CGGGCAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (34 bp):
AATTTCATCCATATATGATTAGCAAAATGACATC
Found at i:15222508 original size:10 final size:10
Alignment explanation
Indices: 15222493--15222517 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15222483 TAAAATACGC
15222493 TCTCTCTTTT
1 TCTCTCTTTT
15222503 TCTCTCTTTT
1 TCTCTCTTTT
15222513 TCTCT
1 TCTCT
15222518 TTGTTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TCTCTCTTTT
Done.