Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002326.1 Hibiscus syriacus cultivar Beakdansim tig00004742_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135691
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:118 original size:24 final size:25
Alignment explanation
Indices: 81--127 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
71 AACTTACTTT
*
81 AAATGTAAATTAAACTTACAAATGG
1 AAATGTAAAATAAACTTACAAATGG
106 AAAT-TAAAATAAACTTACAAAT
1 AAATGTAAAATAAACTTACAAAT
128 TGCATTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (25 bp):
AAATGTAAAATAAACTTACAAATGG
Found at i:1988 original size:37 final size:37
Alignment explanation
Indices: 1931--2024 Score: 181
Period size: 37 Copynumber: 2.6 Consensus size: 37
1921 TAGGCTCGCG
1931 AGTTTTCGAG-TCGAGTCGAGTCGAGCTTAGATTTAT
1 AGTTTTCGAGTTCGAGTCGAGTCGAGCTTAGATTTAT
1967 AGTTTTCGAGTTCGAGTCGAGTCGAGCTTAGATTTAT
1 AGTTTTCGAGTTCGAGTCGAGTCGAGCTTAGATTTAT
2004 AGTTTTCGAGTTCGAGTCGAG
1 AGTTTTCGAGTTCGAGTCGAG
2025 CTCAGTAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 10 0.18
37 47 0.82
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (37 bp):
AGTTTTCGAGTTCGAGTCGAGTCGAGCTTAGATTTAT
Found at i:4595 original size:13 final size:13
Alignment explanation
Indices: 4577--4645 Score: 79
Period size: 13 Copynumber: 5.3 Consensus size: 13
4567 AAAACATATA
4577 ATAAATATATAAT
1 ATAAATATATAAT
4590 ATAAATATATAAT
1 ATAAATATATAAT
*
4603 ATAAATATAT-GT
1 ATAAATATATAAT
*
4615 TTAATACTATATAAT
1 ATAA-A-TATATAAT
*
4630 ATAAAAATA-AAT
1 ATAAATATATAAT
4642 ATAA
1 ATAA
4646 TACATATAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
12 11 0.23
13 27 0.56
14 6 0.12
15 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (13 bp):
ATAAATATATAAT
Found at i:4600 original size:24 final size:25
Alignment explanation
Indices: 4564--4654 Score: 71
Period size: 26 Copynumber: 3.6 Consensus size: 25
4554 CCTGATACCA
4564 AATAAAACATAT-A-ATAAATATAT
1 AATAAAACATATAATATAAATATAT
*
4587 AATATAAATATATAATATAAATATAT
1 AATA-AAACATATAATATAAATATAT
** * *
4613 GTTTAATACTATATAATATAAAAATA-
1 -AATAAAAC-ATATAATATAAATATAT
4639 AATATAATACATATAA
1 AATA-AA-ACATATAA
4655 CGGTATAATG
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
23 4 0.08
24 7 0.13
25 3 0.06
26 19 0.37
27 19 0.37
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (25 bp):
AATAAAACATATAATATAAATATAT
Found at i:4610 original size:11 final size:12
Alignment explanation
Indices: 4572--4611 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
4562 CAAATAAAAC
4572 ATATAATA-AAT
1 ATATAATATAAT
4583 ATATAATATAAAT
1 ATATAATAT-AAT
4596 ATATAATATAA-
1 ATATAATATAAT
4607 ATATA
1 ATATA
4612 TGTTTAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 13 0.48
12 2 0.07
13 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATAATATAAT
Found at i:4646 original size:27 final size:27
Alignment explanation
Indices: 4577--4654 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
4567 AAAACATATA
4577 ATAAATATATAATATAA-A-TATATAAT
1 ATAAATATA-AATATAATACTATATAAT
** *
4603 ATAAATATATGTTTAATACTATATAAT
1 ATAAATATAAATATAATACTATATAAT
*
4630 ATAAAAATAAATATAATAC-ATATAA
1 ATAAATATAAATATAATACTATATAA
4655 CGGTATAATG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 4 0.09
26 16 0.37
27 23 0.53
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (27 bp):
ATAAATATAAATATAATACTATATAAT
Found at i:7807 original size:45 final size:45
Alignment explanation
Indices: 7742--7920 Score: 263
Period size: 44 Copynumber: 4.0 Consensus size: 45
7732 TCCCCCTCCC
* *
7742 AAAGACCCCCTTAAACCCCCCCAACCATGCCACGGTCAATCAAAGAA
1 AAAGACCCCCTT--ACCCCCCCAACCATGTCACGGTCAACCAAAGAA
*
7789 AAAGACACCCTTA-CCCCCCAACCATGTCACGGTCAACCAAAGAA
1 AAAGACCCCCTTACCCCCCCAACCATGTCACGGTCAACCAAAGAA
*
7833 AAAGACCCCCTTACCCCTCCAACCATGTCAC-GTCAACCAAAGAA
1 AAAGACCCCCTTACCCCCCCAACCATGTCACGGTCAACCAAAGAA
* *
7877 AAAGACCCCCTTACCCCCCCCAACCATGTCACGGTAAATCAAAG
1 AAAGACCCCCTTA-CCCCCCCAACCATGTCACGGTCAACCAAAG
7921 GAAACAAAAC
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
44 67 0.55
45 34 0.28
46 9 0.07
47 11 0.09
ACGTcount: A:0.37, C:0.40, G:0.11, T:0.12
Consensus pattern (45 bp):
AAAGACCCCCTTACCCCCCCAACCATGTCACGGTCAACCAAAGAA
Found at i:11681 original size:31 final size:31
Alignment explanation
Indices: 11637--11703 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
11627 TGTAATATAA
* * *
11637 TCCCCCAATATTTAGTCCGTTTGCAATATGG
1 TCCCTCAACATTTAGTCCGTATGCAATATGG
11668 TCCCTCAACATTTAGTCCGTATGCAATATGG
1 TCCCTCAACATTTAGTCCGTATGCAATATGG
11699 TCCCT
1 TCCCT
11704 GACGTAACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (31 bp):
TCCCTCAACATTTAGTCCGTATGCAATATGG
Found at i:12182 original size:31 final size:31
Alignment explanation
Indices: 12146--12216 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
12136 CATTTAAAAC
12146 TTGCAATATAATCCCTCAACATTTAGTCCGT
1 TTGCAATATAATCCCTCAACATTTAGTCCGT
** *
12177 TTGCAATATGGTCCCTCCACATTTAGTCCGT
1 TTGCAATATAATCCCTCAACATTTAGTCCGT
*
12208 TTACAATAT
1 TTGCAATAT
12217 GGTCCCTGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (31 bp):
TTGCAATATAATCCCTCAACATTTAGTCCGT
Found at i:12217 original size:31 final size:31
Alignment explanation
Indices: 12157--12223 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
12147 TGCAATATAA
*
12157 TCCCTCAACATTTAGTCCGTTTGCAATATGG
1 TCCCTCAACATTTAGTCCGTTTACAATATGG
*
12188 TCCCTCCACATTTAGTCCGTTTACAATATGG
1 TCCCTCAACATTTAGTCCGTTTACAATATGG
12219 TCCCT
1 TCCCT
12224 GACGTAACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (31 bp):
TCCCTCAACATTTAGTCCGTTTACAATATGG
Found at i:16835 original size:28 final size:29
Alignment explanation
Indices: 16804--16875 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
16794 AATTGCCGTT
16804 CTCACCGGCTATTGCTC-AATTTGCCGCA
1 CTCACCGGCTATTGCTCAAATTTGCCGCA
* ** **
16832 CTCACCGGCTCTCCCTCAAATTTGCCGTT
1 CTCACCGGCTATTGCTCAAATTTGCCGCA
16861 CTCACCGGCTCATTG
1 CTCACCGGCT-ATTG
16876 TCGTCATACG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 14 0.41
29 19 0.56
30 1 0.03
ACGTcount: A:0.15, C:0.39, G:0.17, T:0.29
Consensus pattern (29 bp):
CTCACCGGCTATTGCTCAAATTTGCCGCA
Found at i:16864 original size:29 final size:28
Alignment explanation
Indices: 16796--16871 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
16786 CTGTCTTAAA
* **
16796 TTGCCGTTCTCACCGGCTATTGCTCAAT
1 TTGCCGTTCTCACCGGCTCTCCCTCAAT
**
16824 TTGCCGCACTCACCGGCTCTCCCTCAAAT
1 TTGCCGTTCTCACCGGCTCTCCCTC-AAT
16853 TTGCCGTTCTCACCGGCTC
1 TTGCCGTTCTCACCGGCTC
16872 ATTGTCGTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 20 0.50
29 20 0.50
ACGTcount: A:0.13, C:0.39, G:0.17, T:0.30
Consensus pattern (28 bp):
TTGCCGTTCTCACCGGCTCTCCCTCAAT
Found at i:17311 original size:23 final size:23
Alignment explanation
Indices: 17285--17348 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
17275 AAAGATATTA
*
17285 AATATTTATTTATCTTTAAAAA-T
1 AATATTTATTTAT-TATAAAAAGT
* *
17308 AATATTAAATTATTATAAAAAGT
1 AATATTTATTTATTATAAAAAGT
*
17331 AA-ATTTATTAATT-TAAAA
1 AATATTTATTTATTATAAAA
17349 TAAAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 5 0.15
22 15 0.44
23 14 0.41
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
AATATTTATTTATTATAAAAAGT
Found at i:18032 original size:102 final size:102
Alignment explanation
Indices: 17914--18109 Score: 267
Period size: 101 Copynumber: 1.9 Consensus size: 102
17904 AAATAAAAAA
* *
17914 AACATGAATTAAATAAAAAAAATGACCATATT-AAAAAA-GAAATAAAATGAATGGCGA-ATTTG
1 AACATGAATTAAAT---AAAAATGACCAAATTAAAAAAACGAAATAAAATGAATGG-GAGATTTA
* *
17976 AAAGAAAAAGAA-AAA-TTAAATTAAATTTAAAACATAATAT
62 AAAGAAAAAAAAGAAACTAAAATTAAA-TTAAAACATAATAT
*
18016 AACATGAATTAAATAAAAATGACCAAATTAAAAAAACGAAATAAAATGAATGGTAGATTTAAAAG
1 AACATGAATTAAATAAAAATGACCAAATTAAAAAAACGAAATAAAATGAATGGGAGATTTAAAAG
18081 AAAAAAAAGAAACTAAAATTAAATTAAAA
66 AAAAAAAAGAAACTAAAATTAAATTAAAA
18110 GCTCAAAAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
99 14 0.17
100 7 0.08
101 31 0.37
102 23 0.27
103 9 0.11
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (102 bp):
AACATGAATTAAATAAAAATGACCAAATTAAAAAAACGAAATAAAATGAATGGGAGATTTAAAAG
AAAAAAAAGAAACTAAAATTAAATTAAAACATAATAT
Found at i:19194 original size:27 final size:27
Alignment explanation
Indices: 19132--19201 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
19122 CAAATAAAAC
* * *
19132 ATATAATAAATATATAATATAAATATAT
1 ATATAAT-ACTATATAATATAAAAATAA
*
19160 GT-TCAATACTATATAATATAAAAATAA
1 ATAT-AATACTATATAATATAAAAATAA
19187 ATATAATAC-ATATAA
1 ATATAATACTATATAA
19202 CGGTATAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 6 0.17
27 24 0.69
28 5 0.14
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (27 bp):
ATATAATACTATATAATATAAAAATAA
Found at i:19342 original size:18 final size:18
Alignment explanation
Indices: 19305--19342 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19295 CATAATATGC
*
19305 AATATAAATATATTATAT
1 AATATAAATATATTACAT
19323 AATATAAATA-AGTTACAT
1 AATATAAATATA-TTACAT
19341 AA
1 AA
19343 GCATAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
AATATAAATATATTACAT
Found at i:25040 original size:12 final size:12
Alignment explanation
Indices: 25021--25052 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
25011 TTTTAATCAT
25021 TTTA-ATTTTAA
1 TTTATATTTTAA
25032 TTTATATTTTAA
1 TTTATATTTTAA
25044 TTTATATTT
1 TTTATATTT
25053 AAAATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATATTTTAA
Found at i:33273 original size:2 final size:2
Alignment explanation
Indices: 33229--33258 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33219 GTTCCAAAAG
33229 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33259 GTGTAAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35320 original size:23 final size:23
Alignment explanation
Indices: 35270--35316 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
35260 GAGGTATTGA
*
35270 ATAAGGAGTACTGAATATCTTTG
1 ATAAGGAGTACTGAAAATCTTTG
35293 ATAAGGAGTACT-AAAAGT-TTTG
1 ATAAGGAGTACTGAAAA-TCTTTG
35315 AT
1 AT
35317 TAAGAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.34
Consensus pattern (23 bp):
ATAAGGAGTACTGAAAATCTTTG
Found at i:35878 original size:30 final size:30
Alignment explanation
Indices: 35842--35911 Score: 124
Period size: 30 Copynumber: 2.3 Consensus size: 30
35832 ACTTTTAAGG
35842 CATAAAATTTTT-CTATCAAAGATACTTTAA
1 CATAAAATTTTTGC-ATCAAAGATACTTTAA
35872 CATAAAATTTTTGCATCAAAGATACTTTAA
1 CATAAAATTTTTGCATCAAAGATACTTTAA
35902 CATAAAATTT
1 CATAAAATTT
35912 AGATAAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (30 bp):
CATAAAATTTTTGCATCAAAGATACTTTAA
Found at i:40399 original size:4 final size:4
Alignment explanation
Indices: 40390--40416 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
40380 GGTAGCACAA
40390 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
40417 GTTAAGAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:46414 original size:23 final size:23
Alignment explanation
Indices: 46388--46432 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46378 CACCACAGCT
*
46388 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
46411 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
46433 ATATCATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:46683 original size:149 final size:149
Alignment explanation
Indices: 46413--46714 Score: 577
Period size: 149 Copynumber: 2.0 Consensus size: 149
46403 AAGTGCCCCG
* *
46413 TAGAATTGCACCGTAGTGCCATATCATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
*
46478 TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
46543 TATGTCCTAAAGAACCGAA
131 TATGTCCTAAAGAACCGAA
46562 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
46627 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
46692 TATGTCCTAAAGAACCGAA
131 TATGTCCTAAAGAACCGAA
46711 TAGA
1 TAGA
46715 CCCTCTACTC
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
TATGTCCTAAAGAACCGAA
Found at i:47309 original size:66 final size:67
Alignment explanation
Indices: 47192--47342 Score: 223
Period size: 67 Copynumber: 2.3 Consensus size: 67
47182 TTTTTTTCAT
* * * *
47192 GGGGGAATCGGTTCCCCCCCTAGGGGTATCGATTCCTCACTAGCATTCTGGAA-TTCATATTCGT
1 GGGGGTATCGGTT-CCCCCATAGGGGTATCGATTCCCCACTAGCATACTGGAAGTTCATATTCGT
47256 TGA
65 TGA
* * *
47259 GGGGGTATCGGTTCCCCCATGGGGGTATCGATTCCCCTCTAGTATACTGGAAGTTCATATTCGTT
1 GGGGGTATCGGTTCCCCCATAGGGGTATCGATTCCCCACTAGCATACTGGAAGTTCATATTCGTT
47324 GA
66 GA
47326 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
47343 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
66 33 0.43
67 43 0.57
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.30
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCATAGGGGTATCGATTCCCCACTAGCATACTGGAAGTTCATATTCGTT
GA
Found at i:53411 original size:23 final size:23
Alignment explanation
Indices: 53385--53429 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
53375 CACCACAGCT
*
53385 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
53408 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
53430 ATATCATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:53680 original size:149 final size:149
Alignment explanation
Indices: 53410--53711 Score: 577
Period size: 149 Copynumber: 2.0 Consensus size: 149
53400 AAGTGCCCCG
* *
53410 TAGAATTGCACCGTAGTGCCATATCATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
*
53475 TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
53540 TATGTCCTAAAGAACCGAA
131 TATGTCCTAAAGAACCGAA
53559 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
53624 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
53689 TATGTCCTAAAGAACCGAA
131 TATGTCCTAAAGAACCGAA
53708 TAGA
1 TAGA
53712 CCCTCTACTC
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
TATGTCCTAAAGAACCGAA
Found at i:54306 original size:66 final size:68
Alignment explanation
Indices: 54190--54340 Score: 225
Period size: 66 Copynumber: 2.2 Consensus size: 68
54180 TTTTTTCATA
* * * *
54190 GGGGAATCGGTTCACCCCCTGGGGGTATCGATTCCTCACTAGCATTCTGGAA-TTCATATTCGTT
1 GGGGTATCGGTTC-CCCCATGGGGGTATCGATTCCCCACTAGCATACTGGAAGTTCATATTCGTT
54254 GA-G
65 GAGG
* *
54257 GGGGTATCGGTTCCCCCATGGGGGTATCGATTCCCCTCTAGTATACTGGAAGTTCATATTCGTTG
1 GGGGTATCGGTTCCCCCATGGGGGTATCGATTCCCCACTAGCATACTGGAAGTTCATATTCGTTG
54322 AGG
66 AGG
54325 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
54341 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
66 33 0.43
67 26 0.34
68 17 0.22
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.30
Consensus pattern (68 bp):
GGGGTATCGGTTCCCCCATGGGGGTATCGATTCCCCACTAGCATACTGGAAGTTCATATTCGTTG
AGG
Found at i:57091 original size:21 final size:21
Alignment explanation
Indices: 57049--57091 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
57039 TTTCTGGGCT
*
57049 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
57070 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
57091 A
1 A
57092 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:57144 original size:20 final size:20
Alignment explanation
Indices: 57119--57156 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57109 GAACGCTAGA
*
57119 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
57139 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
57157 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:57820 original size:103 final size:103
Alignment explanation
Indices: 57638--57958 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
57628 GTAGAGGGTC
*
57638 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACACGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
57703 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
* *
57741 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
57806 TTGATCCTTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
*
57844 TATGTAGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
57909 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
57947 TATGTGGTCCTT
1 TATGTGGTCCTT
57959 ATGGATATTA
Statistics
Matches: 208, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 208 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:58009 original size:23 final size:23
Alignment explanation
Indices: 57975--58037 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
57965 ATTATTATAT
*
57975 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
57998 GGCACT-CTGGTGCAATTCTACGT
1 GGCACTAC-GGTGCAATTCTACGC
58021 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
58038 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 1 0.03
23 33 0.94
24 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:64116 original size:21 final size:21
Alignment explanation
Indices: 64074--64116 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
64064 TTTCTGGGCT
*
64074 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
64095 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
64116 A
1 A
64117 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:64169 original size:20 final size:20
Alignment explanation
Indices: 64144--64181 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64134 GAACGCTAGA
*
64144 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
64164 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
64182 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:64793 original size:21 final size:20
Alignment explanation
Indices: 64767--64807 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
64757 TTAAGGAATG
*
64767 ATATGTGGTCTTTCGGAACAT
1 ATATGTAGTCTTT-GGAACAT
*
64788 ATATGTATTCTTTGGAACAT
1 ATATGTAGTCTTTGGAACAT
64808 GTGTGAGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (20 bp):
ATATGTAGTCTTTGGAACAT
Found at i:64993 original size:103 final size:103
Alignment explanation
Indices: 64665--64985 Score: 570
Period size: 103 Copynumber: 3.1 Consensus size: 103
64655 GTAGAGGGTC
*
64665 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
64730 TTGATCCTTGATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
* * *
64768 TATGTGGTCTTTCGGAACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
64833 TTGATCCTTCGTATATGTATATGATTCTTAATGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
64871 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
64936 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
64974 TATGTGGTCCTT
1 TATGTGGTCCTT
64986 ATGGACATTA
Statistics
Matches: 205, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 205 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:65035 original size:23 final size:23
Alignment explanation
Indices: 65002--65063 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
64992 ATTATTATAT
65002 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
65025 GGCACTCCGGTGCAA-TCTACGT
1 GGCACTACGGTGCAATTCTACGC
65047 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
65064 ATATGAGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:65935 original size:18 final size:17
Alignment explanation
Indices: 65901--65961 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
65891 AGCAAAAAGG
65901 AAAAAAGAAAAAGAAAT
1 AAAAAAGAAAAAGAAAT
*
65918 AAAAAAG-CAAAG-AA-
1 AAAAAAGAAAAAGAAAT
*
65932 AAATAAGAAAAAGAAAT
1 AAAAAAGAAAAAGAAAT
**
65949 AGCAAAGAAAAAG
1 AAAAAAGAAAAAG
65962 GAACAAGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 6 0.17
15 6 0.17
16 6 0.17
17 17 0.49
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAGAAAT
Found at i:65954 original size:26 final size:25
Alignment explanation
Indices: 65894--65960 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
65884 AACAAAGAGC
* *
65894 AAAAAGGAAA-AAAGAAAAAGAAATA
1 AAAAAGCAAAGAAA-AATAAGAAATA
65919 AAAAAGCAAAGAAAAATAAGAAA-A
1 AAAAAGCAAAGAAAAATAAGAAATA
65943 AGAAATAGCAAAGAAAAA
1 A-AAA-AGCAAAGAAAAA
65961 GGAACAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
24 2 0.05
25 20 0.54
26 15 0.41
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAAAGCAAAGAAAAATAAGAAATA
Found at i:68343 original size:149 final size:149
Alignment explanation
Indices: 68160--68463 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
68150 GGGTAGAGGG
* * *
68160 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCGGTTCTTTGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
68225 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATACATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
68290 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
68309 TCTACGCGGTTCTTTGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
68374 ACTTGATACATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATACATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
68439 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
68458 TCTACG
1 TCTACG
68464 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (149 bp):
TCTACGCGGTTCTTTGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATACATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:68486 original size:23 final size:23
Alignment explanation
Indices: 68442--68486 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
68432 ATCATTATAT
*
68442 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
68465 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
68487 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:74076 original size:20 final size:20
Alignment explanation
Indices: 74039--74076 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
74029 TCCTCTCATT
*
74039 TCTTCTTCCTTCTTTTCTTA
1 TCTTCTTCCTTCTCTTCTTA
74059 TCTTCTTCTCTTC-CTTCT
1 TCTTCTTC-CTTCTCTTCT
74077 CCAAACGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (20 bp):
TCTTCTTCCTTCTCTTCTTA
Found at i:75441 original size:23 final size:23
Alignment explanation
Indices: 75397--75441 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
75387 ATCATTATAT
*
75397 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
75420 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
75442 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:76356 original size:36 final size:36
Alignment explanation
Indices: 76283--76378 Score: 113
Period size: 36 Copynumber: 2.6 Consensus size: 36
76273 AAACAAAGGG
*
76283 TTGTCTCGCTCGAGACGAGTTTTCACAAAAACAAATT
1 TTGTCTCGCTAGAGAC-AGTTTTCACAAAAACAAATT
* **
76320 TTGTCTCGCTTGAGACAGTCTTT-TTAAAAACAAATT
1 TTGTCTCGCTAGAGACAGT-TTTCACAAAAACAAATT
* *
76356 TCGTCTCGCTAGAGACAATTTTC
1 TTGTCTCGCTAGAGACAGTTTTC
76379 CTTAAAACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
35 3 0.06
36 30 0.59
37 18 0.35
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (36 bp):
TTGTCTCGCTAGAGACAGTTTTCACAAAAACAAATT
Found at i:76563 original size:65 final size:66
Alignment explanation
Indices: 76487--76639 Score: 231
Period size: 65 Copynumber: 2.3 Consensus size: 66
76477 AACAAAATTG
* *
76487 ATAAACTTTGAGATTGTTTCTCTTGAAATAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAA-
1 ATAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
76551 A
66 A
* *
76552 ATAAACTTTGAGAATGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 ATAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
76617 A
66 A
*
76618 A-AATCTTTGA-ATCTGTTTCCCT
1 ATAAACTTTGAGAT-TGTTTCCCT
76640 CAAGATTTGT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
64 1 0.01
65 77 0.96
66 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (66 bp):
ATAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
A
Found at i:76840 original size:39 final size:38
Alignment explanation
Indices: 76787--76931 Score: 177
Period size: 39 Copynumber: 3.8 Consensus size: 38
76777 TTGCTTAAAG
* *
76787 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAA
1 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC-A
* *
76826 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACA
1 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACA
* *
76864 GAAGATTTTATCTCGCTTGAGATAGTTTCGCTCGAAAC-
1 -AAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACA
* * *
76902 AA-ATTTTGTCTCCCTTGAGACAGTCTCCCT
1 AAGATTTTGTCTCGCTTGAGATAGTTTCCCT
76932 TGAGACAGTT
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
36 23 0.23
37 2 0.02
38 1 0.01
39 73 0.74
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (38 bp):
AAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACA
Found at i:76929 original size:15 final size:15
Alignment explanation
Indices: 76909--76949 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
76899 AACAAATTTT
76909 GTCTCCCTTGAGACA
1 GTCTCCCTTGAGACA
76924 GTCTCCCTTGAGACA
1 GTCTCCCTTGAGACA
*
76939 GTTTCCCTTGA
1 GTCTCCCTTGA
76950 AACAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.32, G:0.20, T:0.32
Consensus pattern (15 bp):
GTCTCCCTTGAGACA
Found at i:76942 original size:51 final size:51
Alignment explanation
Indices: 76874--76974 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
76864 GAAGATTTTA
* * *
76874 TCTCGCTTGAGATAGTTTCGCTCGAAACAAATTTTGTCTCCCTTGAGACAG
1 TCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCCCTTGAGACAG
*
76925 TCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 TCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCCCTTGAGACA
76975 AATTCCCTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (51 bp):
TCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:76968 original size:21 final size:21
Alignment explanation
Indices: 76942--77042 Score: 82
Period size: 21 Copynumber: 5.4 Consensus size: 21
76932 TGAGACAGTT
76942 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
*
76963 TCCCTTGAGACAAA-----T-
1 TCCCTTGAAACAAATTTTGTC
76978 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
76999 TCCCTTGAGAC--A-GTT-TC
1 TCCCTTGAAACAAATTTTGTC
77016 T--CTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
*
77035 TCCATTGA
1 TCCCTTGA
77043 GATAGTTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
15 20 0.33
16 1 0.02
17 4 0.07
18 4 0.07
19 4 0.07
20 1 0.02
21 27 0.44
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:76982 original size:51 final size:51
Alignment explanation
Indices: 76873--76985 Score: 165
Period size: 51 Copynumber: 2.2 Consensus size: 51
76863 AGAAGATTTT
* * *
76873 ATCTCGCTTGAGATAGTTTCGCTCGAAACAAATTTTGTCTCCCTTGAGACA
1 ATCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCCCTTGAGACA
* *
76924 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAA
1 ATCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCCCTTGAGAC-A
76976 AT-TCCCTTGA
1 ATCTCCCTTGA
76986 AACAAATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 53 0.96
52 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (51 bp):
ATCTCCCTTGAGACAGTTTCCCTCGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:76983 original size:15 final size:15
Alignment explanation
Indices: 76963--76993 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
76953 AAATTTTGTC
*
76963 TCCCTTGAGACAAAT
1 TCCCTTGAAACAAAT
76978 TCCCTTGAAACAAAT
1 TCCCTTGAAACAAAT
76993 T
1 T
76994 TTGTCTCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (15 bp):
TCCCTTGAAACAAAT
Found at i:77149 original size:39 final size:36
Alignment explanation
Indices: 76924--77139 Score: 252
Period size: 36 Copynumber: 5.8 Consensus size: 36
76914 CCTTGAGACA
76924 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTT
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTT
**
76960 GTCTCCCTTGAGACAAATTCCCTTGAAACAAATTTT
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTT
*
76996 GTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTT
1 GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTT
* * *
77032 GTCTCCATTGAGATAGTTTTCCCTCGAAACAAAAGATTTT
1 GTCTCCCTTGAGACAG-TTTCCCTTGAAAC--AA-ATTTT
* * *
77072 GTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
1 GTCTCCCTTGAGACAGTTTCCCTTGAAAC--AA-ATTTT
** * *
77111 GTCTTGCTTGAGATAATTTCCCTTGAAAC
1 GTCTCCCTTGAGACAGTTTCCCTTGAAAC
77140 TGAGGATTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
36 81 0.50
37 11 0.07
39 50 0.31
40 19 0.12
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (36 bp):
GTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTT
Found at i:77494 original size:20 final size:21
Alignment explanation
Indices: 77468--77529 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
77458 TTTCTTGATT
77468 TGTAAGTCCTCCGGGCCATCA
1 TGTAAGTCCTCCGGGCCATCA
* * *
77489 -GTAAGTCTTCCGAG-CATGA
1 TGTAAGTCCTCCGGGCCATCA
77508 TGTGTAAGTCCTCCGGGCCATC
1 --TGTAAGTCCTCCGGGCCATC
77530 CATAAGACCT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
19 4 0.13
20 12 0.39
22 12 0.39
23 3 0.10
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (21 bp):
TGTAAGTCCTCCGGGCCATCA
Found at i:77529 original size:132 final size:132
Alignment explanation
Indices: 77375--77652 Score: 529
Period size: 132 Copynumber: 2.1 Consensus size: 132
77365 GAGTTTCTTA
*
77375 ATGTGTAAGTCCTCCGGGCCATCCATAATACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAG
1 ATGTGTAAGTCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAG
77440 AAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTCCGGGCCATCAGTAAGTCTTCCGAGCA
66 AAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTCCGGGCCATCAGTAAGTCTTCCGAGCA
77505 TG
131 TG
77507 ATGTGTAAGTCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAG
1 ATGTGTAAGTCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAG
*
77572 AAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTCCGGGCTATCAGTAAGTCTTCCGAGCA
66 AAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTCCGGGCCATCAGTAAGTCTTCCGAGCA
77637 TG
131 TG
*
77639 ATGCGTAAGTCCTC
1 ATGTGTAAGTCCTC
77653 TGTGTCACAC
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 143 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (132 bp):
ATGTGTAAGTCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAG
AAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTCCGGGCCATCAGTAAGTCTTCCGAGCA
TG
Found at i:79895 original size:18 final size:18
Alignment explanation
Indices: 79869--79903 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79859 TCGAAAGGAC
*
79869 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
79887 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
79904 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:86343 original size:8 final size:8
Alignment explanation
Indices: 86330--86354 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
86320 TCAAATTGTT
86330 CTTTTAAA
1 CTTTTAAA
86338 CTTTTAAA
1 CTTTTAAA
86346 CTTTTAAA
1 CTTTTAAA
86354 C
1 C
86355 ATTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (8 bp):
CTTTTAAA
Found at i:86435 original size:60 final size:60
Alignment explanation
Indices: 86340--86454 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
86330 CTTTTAAACT
* * *
86340 TTTAAACTTTTAAACATTTCAATTTCATTCTTAAATTATGACTCTCATTATAAATCAGTC
1 TTTAAACTTTTAAACATTTCAATTTCATCCCTAAATTATGACTCTAATTATAAATCAGTC
* * * * *
86400 TTTAAACTTTTAGATATTTTAATTTCATCCCTAAATTATGATTTTAATTATAAAT
1 TTTAAACTTTTAAACATTTCAATTTCATCCCTAAATTATGACTCTAATTATAAAT
86455 TGGTCCCCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.48
Consensus pattern (60 bp):
TTTAAACTTTTAAACATTTCAATTTCATCCCTAAATTATGACTCTAATTATAAATCAGTC
Found at i:86467 original size:60 final size:60
Alignment explanation
Indices: 86343--86470 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
86333 TTAAACTTTT
* * * ***
86343 AAACTTTTAAACATTTCAATTTCATTCTTAAATTATGACTCTCATTATAAATCAGTCTTT
1 AAACTTTTAAACATTTCAATTTCATCCCTAAATTATGACTCTAATTATAAATCAGTCCCC
* * * * * **
86403 AAACTTTTAGATATTTTAATTTCATCCCTAAATTATGATTTTAATTATAAATTGGTCCCC
1 AAACTTTTAAACATTTCAATTTCATCCCTAAATTATGACTCTAATTATAAATCAGTCCCC
86463 AAACTTTT
1 AAACTTTT
86471 GAATCTTCAA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (60 bp):
AAACTTTTAAACATTTCAATTTCATCCCTAAATTATGACTCTAATTATAAATCAGTCCCC
Found at i:86720 original size:60 final size:58
Alignment explanation
Indices: 86619--86764 Score: 154
Period size: 60 Copynumber: 2.4 Consensus size: 58
86609 TATAGTTTGA
* * * *
86619 GATGGAATTGAAATGTTCAAAAAGTTTGGGACCAATTTAGAATGA-AGATCATACTTT-GG
1 GATGAAATTGAAAT-TTC-AAAAGTTTGGGACCAATCTAGAATGACAG-TCATAATTTAAG
*
86678 GCATGAAATTGAAATATTCAAAAGTTTGAGGACTAATCTAGAATGACAGTCATAATTTAAG
1 G-ATGAAATTGAAAT-TTCAAAAGTTTG-GGACCAATCTAGAATGACAGTCATAATTTAAG
86739 GATGAAATTGGAAAGTTT-AAAAGTTT
1 GATGAAATT-GAAA-TTTCAAAAGTTT
86765 AGAGATTAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
59 10 0.13
60 54 0.72
61 10 0.13
62 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (58 bp):
GATGAAATTGAAATTTCAAAAGTTTGGGACCAATCTAGAATGACAGTCATAATTTAAG
Found at i:86783 original size:60 final size:60
Alignment explanation
Indices: 86619--86794 Score: 148
Period size: 60 Copynumber: 2.9 Consensus size: 60
86609 TATAGTTTGA
* * * * * * *
86619 GATGGAATTGAAATGTTCAAAAAGTTTG-GGACCAATTTAGAATGA-AGATCATACTTT-GG
1 GATGAAATTGAAATATTC-AAAAGTTTGAGGACTAATCTAAAATGACAG-TCATAATTTAAG
*
86678 GCATGAAATTGAAATATTCAAAAGTTTGAGGACTAATCTAGAATGACAGTCATAATTTAAG
1 G-ATGAAATTGAAATATTCAAAAGTTTGAGGACTAATCTAAAATGACAGTCATAATTTAAG
* * **
86739 GATGAAATTGGAAAGT-TT-AAAAGTTT-AGAGATTAATTTAAAATGAGTGTCATAATT
1 GATGAAATT-GAAA-TATTCAAAAGTTTGAG-GACTAATCTAAAATGACAGTCATAATT
86795 GAATGACGTG
Statistics
Matches: 99, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
59 12 0.12
60 76 0.77
61 10 0.10
62 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (60 bp):
GATGAAATTGAAATATTCAAAAGTTTGAGGACTAATCTAAAATGACAGTCATAATTTAAG
Found at i:91812 original size:23 final size:23
Alignment explanation
Indices: 91786--91841 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
91776 TTCGTGTTCG
*
91786 TGTTCGTTTAACGT-TCATAAACA
1 TGTTTGTTTAACGTAT-ATAAACA
* *
91809 TGTTTGTTTAATGTATATGAACA
1 TGTTTGTTTAACGTATATAAACA
91832 TGTTTGTTTA
1 TGTTTGTTTA
91842 TATGTTTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (23 bp):
TGTTTGTTTAACGTATATAAACA
Found at i:96457 original size:45 final size:47
Alignment explanation
Indices: 96405--96493 Score: 155
Period size: 45 Copynumber: 1.9 Consensus size: 47
96395 TCGAATAAAT
96405 GCATGCGAACTAGATATCATGCGGTTA-GATTTATTTTT-TGAACAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
*
96450 GCATGCGAATTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
96494 TAACAAAGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 26 0.63
46 11 0.27
47 4 0.10
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.37
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
Found at i:106229 original size:17 final size:15
Alignment explanation
Indices: 106195--106267 Score: 60
Period size: 17 Copynumber: 4.7 Consensus size: 15
106185 AAAAGAAAGA
**
106195 AAAAGAAGAAAAGGG
1 AAAAGAAGAAAAATG
106210 AAAAGGGAAGAAAAATG
1 AAAA--GAAGAAAAATG
*
106227 AAAA-ATGAAAAATG
1 AAAAGAAGAAAAATG
106241 AAAA-AAGAAAAAAATG
1 AAAAGAAG--AAAAATG
*
106257 AAAAAAAGAAA
1 AAAAGAAGAAA
106268 TAAAAGGAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
14 15 0.31
15 7 0.14
16 11 0.22
17 16 0.33
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
AAAAGAAGAAAAATG
Found at i:106260 original size:6 final size:7
Alignment explanation
Indices: 106219--106252 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
106209 GAAAAGGGAA
106219 GAAAAAT
1 GAAAAAT
106226 GAAAAAT
1 GAAAAAT
106233 GAAAAAT
1 GAAAAAT
*
106240 GAAAAAA
1 GAAAAAT
106247 GAAAAA
1 GAAAAA
106253 AATGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (7 bp):
GAAAAAT
Found at i:107652 original size:51 final size:51
Alignment explanation
Indices: 107592--108203 Score: 816
Period size: 51 Copynumber: 11.8 Consensus size: 51
107582 AAATTCGTTT
*
107592 GTTGAAGATTGAGTCCTATACTCTCTGGATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
*
107643 GTTGAAGATTGAGTCATATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
107694 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
*
107745 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
107796 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
107847 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
* *
107898 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAAGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
* * ** *
107949 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTC
* * * **
108001 GTTGAAGATTGTTCGAGTTCTGTACTCTCTG-ATAGAATAGAGAGCGGACCCGTTC
1 GTTGAAGA---TT-GAGTCCTATACTCTCTGAAT-GAATAGGGAGCGGACAAGTTC
* * * *
108056 GTTGAAGATTGTTTGAGTCC--TGCTCTCTGAAGGAATAGGGAGCGGACATGTTT
1 GTTGAAGA----TTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
* * * * * * * *
108109 ATTGAAGATCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACACGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
* *
108160 GTTGAAGATTGTTTGAGTCTTATACTCCCTGAATGAATAGGGAG
1 GTTGAAGA----TTGAGTCCTATACTCTCTGAATGAATAGGGAG
108204 AAGACACGTT
Statistics
Matches: 511, Mismatches: 36, Indels: 24
0.89 0.06 0.04
Matches are distributed among these distances:
49 6 0.01
51 378 0.74
52 10 0.02
53 32 0.06
54 1 0.00
55 48 0.09
56 36 0.07
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
Found at i:111625 original size:45 final size:47
Alignment explanation
Indices: 111573--111661 Score: 155
Period size: 45 Copynumber: 1.9 Consensus size: 47
111563 TCGAATAAAT
111573 GCATGCGAACTAGATATCATGCGGTTA-GATTTATTTTT-TGAACAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
*
111618 GCATGCGAATTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
111662 TAACAAAGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 26 0.63
46 11 0.27
47 4 0.10
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.37
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
Found at i:121759 original size:16 final size:17
Alignment explanation
Indices: 121737--121779 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 17
121727 ATTACAAGAG
121737 TAAATATATATTAATTA
1 TAAATATATATTAATTA
121754 -AAATAT-T-TT-ATTA
1 TAAATATATATTAATTA
121767 TAAATATATATTA
1 TAAATATATATTA
121780 TTGAAGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 2 0.09
16 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATATATATTAATTA
Found at i:121780 original size:16 final size:16
Alignment explanation
Indices: 121737--121781 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
121727 ATTACAAGAG
121737 TAAATATATATTAATTA
1 TAAATATATATT-ATTA
121754 -AAATAT-T-TTATTA
1 TAAATATATATTATTA
121767 TAAATATATATTATT
1 TAAATATATATTATT
121782 GAAGTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 2 0.08
16 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATATATATTATTA
Found at i:121958 original size:18 final size:18
Alignment explanation
Indices: 121935--121970 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
121925 TATTAAAAAC
121935 AAAAAATATTTA-AATTAT
1 AAAAAA-ATTTATAATTAT
121953 AAAAAAATTTATAATTAT
1 AAAAAAATTTATAATTAT
121971 GAATAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAAAATTTATAATTAT
Found at i:122167 original size:15 final size:17
Alignment explanation
Indices: 122141--122173 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
122131 AATTCAATCT
122141 AAAAATTGAAAAT-GAA
1 AAAAATTGAAAATAGAA
122157 AAAAATT-AAAATAGAA
1 AAAAATTGAAAATAGAA
122173 A
1 A
122174 CAAAGGTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (17 bp):
AAAAATTGAAAATAGAA
Found at i:127954 original size:20 final size:19
Alignment explanation
Indices: 127929--127982 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
127919 GCGAAATAAA
127929 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
127949 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
127969 AATCGCAACGCGAT
1 AATCGCAACGCGAT
127983 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:128117 original size:20 final size:20
Alignment explanation
Indices: 128032--128303 Score: 237
Period size: 20 Copynumber: 13.5 Consensus size: 20
128022 GATTTTTCAT
**
128032 AATCGCAACGCGAA-CATATA
1 AATCGCAACGCGAATC-CGTA
* *
128052 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATCCGTA
* * *
128071 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATCCGT-A
*
128093 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
128113 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
* *
128134 AATCGCAACGCGTATCCATA
1 AATCGCAACGCGAATCCGTA
** *
128154 AATCGCAACGAAAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
128174 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATCCGTA
* *
128194 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* * *
128214 AATCGTAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
128234 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATCCGTA
128254 AATCGCAACGCGAA-CACGTA
1 AATCGCAACGCGAATC-CGTA
* *
128274 AATCGCAATGCGAATCTGTA
1 AATCGCAACGCGAATCCGTA
128294 AATCGCAACG
1 AATCGCAACG
128304 AGATTCTGAC
Statistics
Matches: 202, Mismatches: 41, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
19 1 0.00
20 165 0.82
21 35 0.17
22 1 0.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:128188 original size:40 final size:40
Alignment explanation
Indices: 128073--128303 Score: 295
Period size: 40 Copynumber: 5.7 Consensus size: 40
128063 GATTCTGACT
* *
128073 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* *
128114 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCATAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* *
128155 ATCGCAACGAAAATACGTAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* *
128195 ATCGCAACGAGAATACGTAAATCGTAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * *
128235 ATCGCAATGCGAATACGTAAATCGCAACGCG-AACACGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATC-CGTAA
* *
128275 ATCGCAATGCGAAT-CTGTAAATCGCAACG
1 ATCGCAACGAGAATAC-GTAAATCGCAACG
128304 AGATTCTGAC
Statistics
Matches: 172, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 115 0.67
41 54 0.31
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:128368 original size:19 final size:17
Alignment explanation
Indices: 128334--128382 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
128324 CTGAATTTCA
*
128334 AATTCGCAACTCGTTTCT
1 AATTCGCAACACGTTT-T
*
128352 GAATTCGCAACAGGTTTT
1 -AATTCGCAACACGTTTT
128370 AATTTCGCAACAC
1 AA-TTCGCAACAC
128383 AAATGTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.08
18 10 0.38
19 14 0.54
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (17 bp):
AATTCGCAACACGTTTT
Found at i:129194 original size:24 final size:24
Alignment explanation
Indices: 129162--129215 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
129152 GTATTCTAAA
*
129162 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
129186 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
129210 TTTGAT
1 TTTGAT
129216 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:131789 original size:19 final size:19
Alignment explanation
Indices: 131765--131850 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
131755 GCAACGAGAG
*
131765 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
131784 AATCGCAA--CG---TGAA
1 AATCGCAACGCGAAATGAA
*
131798 AATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATGAA
* *
131818 TATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
131837 AATCGCAACGCGAA
1 AATCGCAACGCGAA
131851 TTTAGTTTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
14 12 0.22
16 1 0.02
17 3 0.05
19 27 0.49
20 12 0.22
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:131789 original size:33 final size:34
Alignment explanation
Indices: 131732--131848 Score: 110
Period size: 33 Copynumber: 3.3 Consensus size: 34
131722 CTTAATGTCT
* ** *
131732 ATCGCAACGCGGAAATTACTATCGCAACGAGAGA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGAAA
* *
131766 ATCGCAATGC-GAAATGAAAATCGCAACGTGAAA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGAAA
**
131799 ATCGCAACGCGGAAATGACTATCGCAATGCGAAATGAAA
1 ATCGCAACGCGGAAATGAAAATCGCAA--CG--A-GAAA
131838 ATCGCAACGCG
1 ATCGCAACGCG
131849 AATTTAGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
33 27 0.40
34 23 0.34
36 2 0.03
39 15 0.22
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (34 bp):
ATCGCAACGCGGAAATGAAAATCGCAACGAGAAA
Found at i:131799 original size:14 final size:14
Alignment explanation
Indices: 131780--131807 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
131770 CAATGCGAAA
131780 TGAAAATCGCAACG
1 TGAAAATCGCAACG
131794 TGAAAATCGCAACG
1 TGAAAATCGCAACG
131808 CGGAAATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:131814 original size:14 final size:14
Alignment explanation
Indices: 131781--131814 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
131771 AATGCGAAAT
*
131781 GAAAATCGCAACGT
1 GAAAATCGCAACGC
131795 GAAAATCGCAACGC
1 GAAAATCGCAACGC
*
131809 GGAAAT
1 GAAAAT
131815 GACTATCGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGC
Found at i:131881 original size:19 final size:19
Alignment explanation
Indices: 131846--131923 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 19
131836 AAATCGCAAC
*
131846 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
131865 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
131884 GCGATTTT--TGT--CGTT
1 GCGATTTTAGTTTCGCGTT
* *
131899 GCGATTTTAATTTCGCATT
1 GCGATTTTAGTTTCGCGTT
131918 GCGATT
1 GCGATT
131924 CTCTCGTTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
15 12 0.24
17 4 0.08
19 35 0.69
ACGTcount: A:0.14, C:0.15, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:131936 original size:33 final size:33
Alignment explanation
Indices: 131861--131955 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
131851 TTTAGTTTCG
* * * *
131861 CGTTGCGATTTTAGTTTCGCGTTGCGATTTTTGT
1 CGTTGCGATTTTAATTTCGCATTGCGA-TTCTCT
131895 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
*
131928 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTAATTTCGCATTGCGAT
131956 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 31 0.55
34 25 0.45
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
Found at i:131954 original size:19 final size:17
Alignment explanation
Indices: 131846--131955 Score: 77
Period size: 19 Copynumber: 6.3 Consensus size: 17
131836 AAATCGCAAC
*
131846 GCGAATTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
131865 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
*
131884 GCGATTTT-TGTCG-TT
1 GCGATTTTATTTCGCTT
131899 GCGATTTTAATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
* *
131918 GCGA--TTCTCTCG-TT
1 GCGATTTTATTTCGCTT
131932 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
131951 GCGAT
1 GCGAT
131956 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.08
15 10 0.13
16 6 0.08
17 14 0.19
19 39 0.52
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (17 bp):
GCGATTTTATTTCGCTT
Found at i:135503 original size:19 final size:19
Alignment explanation
Indices: 135417--135548 Score: 130
Period size: 19 Copynumber: 7.1 Consensus size: 19
135407 GCTTTTGGTT
*
135417 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
135436 GAGAATGAAAATCGTAATGC
1 GA-AATGAAAATCGCAACGC
**
135456 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
135474 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
135490 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
135509 GAAATTAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
*
135528 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
135547 GA
1 GA
135549 TTTTGGTTTC
Statistics
Matches: 94, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 2 0.02
17 1 0.01
18 2 0.02
19 52 0.55
20 25 0.27
21 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:135577 original size:19 final size:19
Alignment explanation
Indices: 135544--135584 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
135534 AAAATCGCAA
**
135544 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
135563 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
135582 TGC
1 TGC
135585 AATCTCTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.20, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Done.