Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 108 of 121
Found at i:18357914 original size:47 final size:47
Alignment explanation
Indices: 18357851--18358177 Score: 363
Period size: 47 Copynumber: 6.7 Consensus size: 47
18357841 GACTCATCTT
*
18357851 AGCAGAGGCTCAACAACTTTAAAATATT-ATCTGGAAAAGCTCCTCTC
1 AGCAGAGGCTCCACAACTTTAAAAT-TTCATCTGGAAAAGCTCCTCTC
* *
18357898 AGCAAAGGCTCCACAACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTGCTCTC
1 AGCAGAGGCTCCACAACTTTAAAATT-TCATC-TGGAAAAG---CTC--CTCTC
* * * *
18357952 AACAGAGGCTCAACAACTTTAAAATCTCATCT-GAAAATGTTCCTCTC
1 AGCAGAGGCTCCACAACTTTAAAATTTCATCTGGAAAA-GCTCCTCTC
* * * * *
18357999 AGCAGAGGCTCCACAATTTTAAAATTCTTATATTGAAAAAGCTCCTATC
1 AGCAGAGGCTCCACAACTTTAAAATT-TCAT-CTGGAAAAGCTCCTCTC
18358048 AGCAGAGGCTCCACAACTTTAAAATTTCATCT-GAAAATGCTCCTCTC
1 AGCAGAGGCTCCACAACTTTAAAATTTCATCTGGAAAA-GCTCCTCTC
*
18358095 AGCAGAGGCTCTACAACTTTAAAATTCTCATCTTGGAAAAAGCTCCTCTC
1 AGCAGAGGCTCCACAACTTTAAAATT-TCATC-TGG-AAAAGCTCCTCTC
*
18358145 AGCAGAGGCTCTACAACTTTAAAATTCTCATCT
1 AGCAGAGGCTCCACAACTTTAAAATT-TCATCT
18358178 TGTTTTCAAA
Statistics
Matches: 239, Mismatches: 24, Indels: 32
0.81 0.08 0.11
Matches are distributed among these distances:
46 5 0.02
47 85 0.36
48 14 0.06
49 44 0.18
50 46 0.19
51 8 0.03
52 5 0.02
53 5 0.02
54 27 0.11
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (47 bp):
AGCAGAGGCTCCACAACTTTAAAATTTCATCTGGAAAAGCTCCTCTC
Found at i:18358099 original size:96 final size:96
Alignment explanation
Indices: 18357851--18358177 Score: 460
Period size: 96 Copynumber: 3.3 Consensus size: 96
18357841 GACTCATCTT
*
18357851 AGCAGAGGCTCAACAACTTTAAAATATT-ATCTGGAAAA-GCTCCTCTCAGCAAAGGCTCCACAA
1 AGCAGAGGCTCAACAACTTTAAAAT-TTCATCT-GAAAATGCTCCTCTCAGCAGAGGCTCCACAA
18357914 CTTTAAAATTCTCATCTTGAAAAAGCTCCTCTGCTCTC
64 CTTTAAAATTCTCATCTTGAAAAAG---CTC--CTCTC
* * * *
18357952 AACAGAGGCTCAACAACTTTAAAATCTCATCTGAAAATGTTCCTCTCAGCAGAGGCTCCACAATT
1 AGCAGAGGCTCAACAACTTTAAAATTTCATCTGAAAATGCTCCTCTCAGCAGAGGCTCCACAACT
* * *
18358017 TTAAAATTCTTATATTGAAAAAGCTCCTATC
66 TTAAAATTCTCATCTTGAAAAAGCTCCTCTC
* *
18358048 AGCAGAGGCTCCACAACTTTAAAATTTCATCTGAAAATGCTCCTCTCAGCAGAGGCTCTACAACT
1 AGCAGAGGCTCAACAACTTTAAAATTTCATCTGAAAATGCTCCTCTCAGCAGAGGCTCCACAACT
18358113 TTAAAATTCTCATCTTGGAAAAAGCTCCTCTC
66 TTAAAATTCTCATCTT-GAAAAAGCTCCTCTC
*
18358145 AGCAGAGGCTCTACAACTTTAAAATTCTCATCT
1 AGCAGAGGCTCAACAACTTTAAAATT-TCATCT
18358178 TGTTTTCAAA
Statistics
Matches: 204, Mismatches: 18, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
96 77 0.38
97 39 0.19
98 9 0.04
100 6 0.03
101 73 0.36
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (96 bp):
AGCAGAGGCTCAACAACTTTAAAATTTCATCTGAAAATGCTCCTCTCAGCAGAGGCTCCACAACT
TTAAAATTCTCATCTTGAAAAAGCTCCTCTC
Found at i:18359628 original size:58 final size:57
Alignment explanation
Indices: 18359564--18359835 Score: 342
Period size: 58 Copynumber: 4.7 Consensus size: 57
18359554 TTGTGTAGGA
*
18359564 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTCGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT-GAAAATTTATTTCTAAGG
*
18359622 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATCTTTTTTTTTTGAAAATTTA-TTCTAAGG
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAA----TATTTTTTGAAAATTTATTTCTAAGG
* *
18359682 AAAATTGATACTTTCAA-TTTTTCCCCAAAATGATTTTTTGGAAATTTATTTCTAAGGGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAT-ATTTTTTGAAAATTTATTTCTAA--GG
*
18359741 AAAA-TGATACTTTTCAAC-TTTTCCTAAAAAT-TTTTTTGAAAATTTTATTT-TAAGG
1 AAAATTGATAC-TTTCAACTTTTTCCCAAAAATATTTTTTGAAAA-TTTATTTCTAAGG
18359796 AAAATTGATTACTTTCAACTTTTTCCCAAAAATATTTTTT
1 AAAATTGA-TACTTTCAACTTTTTCCCAAAAATATTTTTT
18359836 TTGGAAAAGT
Statistics
Matches: 188, Mismatches: 9, Indels: 34
0.81 0.04 0.15
Matches are distributed among these distances:
55 7 0.04
56 24 0.13
57 40 0.21
58 43 0.23
59 28 0.15
60 30 0.16
61 9 0.05
62 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
Found at i:18359711 original size:118 final size:113
Alignment explanation
Indices: 18359564--18359835 Score: 381
Period size: 118 Copynumber: 2.3 Consensus size: 113
18359554 TTGTGTAGGA
*
18359564 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTCGAAAATTTATTTTTAA-GGAAAATT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT-GAAAATTTATTTCTAAGGGAAAA-T
18359628 GATAC-TTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAA-TTTATTCTAAGG
64 GATACTTTTCAACTTTTCCT-AAAAA-----TTTTTTTGAAAATTTTATTCTAAGG
* *
18359682 AAAATTGATACTTTCAA-TTTTTCCCCAAAATGATTTTTTGGAAATTTATTTCTAAGGGGAAAAT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAT-ATTTTTTGAAAATTTATTTCTAA-GGGAAAAT
*
18359746 GATACTTTTCAACTTTTCCTAAAAATTTTTTTGAAAATTTTATTTTAAGG
64 GATACTTTTCAACTTTTCCTAAAAATTTTTTTGAAAATTTTATTCTAAGG
18359796 AAAATTGATTACTTTCAACTTTTTCCCAAAAATATTTTTT
1 AAAATTGA-TACTTTCAACTTTTTCCCAAAAATATTTTTT
18359836 TTGGAAAAGT
Statistics
Matches: 142, Mismatches: 5, Indels: 17
0.87 0.03 0.10
Matches are distributed among these distances:
113 12 0.08
114 19 0.13
115 16 0.11
116 13 0.09
117 27 0.19
118 35 0.25
119 20 0.14
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (113 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGGAAAATGA
TACTTTTCAACTTTTCCTAAAAATTTTTTTGAAAATTTTATTCTAAGG
Found at i:18359837 original size:118 final size:114
Alignment explanation
Indices: 18359564--18359842 Score: 379
Period size: 117 Copynumber: 2.4 Consensus size: 114
18359554 TTGTGTAGGA
* * *
18359564 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTCGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTG
18359629 ATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAATTTATTCTAAGG
66 ATACTTTCAACTTTTCCTCAAAAA----TTTTTTTTGAAAATTTATTCTAAGG
*
18359682 AAAATTGATACTTTCAA-TTTTTCCCCAAAATGA-TTTTTTGGAAATTTATTTCTAAGGGGAAAA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAT-ATTTTTTTGGAAATTTATTTCTAA--GGAAAA
*
18359745 -TGATACTTTTCAACTTTTCCT-AAAAA-TTTTTTTGAAAATTTTATTTTAAGG
63 TTGATAC-TTTCAACTTTTCCTCAAAAATTTTTTTTGAAAA-TTTATTCTAAGG
18359796 AAAATTGATTACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAA
1 AAAATTGA-TACTTTCAACTTTTTCCCAAAAATA-TTTTTTTGGAAA
18359843 AGTTTGATTT
Statistics
Matches: 146, Mismatches: 6, Indels: 19
0.85 0.04 0.11
Matches are distributed among these distances:
113 12 0.08
114 19 0.13
115 10 0.07
116 13 0.09
117 43 0.29
118 29 0.20
119 20 0.14
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAAATTTATTCTAAGG
Found at i:18359889 original size:6 final size:6
Alignment explanation
Indices: 18359865--18359927 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
18359855 ATTTGATAAG
* * * * *
18359865 AAAATA GAATAATA AAAATA TAAATA AAAATA ATAAGA AAAGT- AAAACA
1 AAAATA -AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
18359914 AAAATA AAAATA AA
1 AAAATA AAAATA AA
18359928 TTAAGATTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
5 3 0.07
6 33 0.75
7 4 0.09
8 4 0.09
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:18361090 original size:19 final size:19
Alignment explanation
Indices: 18361068--18361121 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
18361058 AATAAAACAC
*
18361068 AAAAGAAGAAAAAAAAAAG
1 AAAAAAAGAAAAAAAAAAG
* * *
18361087 AAAAAAAGAAAATAATAAT
1 AAAAAAAGAAAAAAAAAAG
* *
18361106 AATACAAGAAAAAAAA
1 AAAAAAAGAAAAAAAA
18361122 TTACATCAGG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAAAGAAAAAAAAAAG
Found at i:18361166 original size:20 final size:21
Alignment explanation
Indices: 18361143--18361181 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18361133 TTACCCCATT
18361143 TGGGCCAGG-CCCAATTGGTC
1 TGGGCCAGGACCCAATTGGTC
*
18361163 TGGGCCTGGACCCAATTGG
1 TGGGCCAGGACCCAATTGG
18361182 GTGTCTACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (21 bp):
TGGGCCAGGACCCAATTGGTC
Found at i:18366550 original size:15 final size:15
Alignment explanation
Indices: 18366530--18366576 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
18366520 TTGTAAGTGT
18366530 AATGAATGAGAATGC
1 AATGAATGAGAATGC
*
18366545 AATGAATGAGAATGT
1 AATGAATGAGAATGC
18366560 AATGAATGAGAAATGC
1 AATGAATGAG-AATGC
18366576 A
1 A
18366577 TGTATGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.26, T:0.21
Consensus pattern (15 bp):
AATGAATGAGAATGC
Found at i:18370037 original size:57 final size:57
Alignment explanation
Indices: 18369745--18370198 Score: 610
Period size: 57 Copynumber: 7.7 Consensus size: 57
18369735 TTTTTTGTAG
*
18369745 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTT--ATTTCT-AA
* *
18369804 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA----TATTTTTTGAAAATTTATTTCTAA
18369865 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTT--ATTTCT-AA
*
18369926 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGAAAATTTATTTCTAA
* * *
18369985 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTGGAATTTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
* * *
18370042 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATGTTTTTTTTG-AAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAAATTTATTTCTAA
*
18370100 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
*
18370157 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTT
18370199 TTGGAATTTT
Statistics
Matches: 357, Mismatches: 19, Indels: 39
0.86 0.05 0.09
Matches are distributed among these distances:
56 9 0.03
57 100 0.28
58 49 0.14
59 90 0.25
60 2 0.01
61 90 0.25
62 1 0.00
63 15 0.04
64 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
Found at i:18370140 original size:115 final size:118
Alignment explanation
Indices: 18369745--18370182 Score: 676
Period size: 120 Copynumber: 3.7 Consensus size: 118
18369735 TTTTTTGTAG
*
18369745 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTTTCAAGGAAAA
18369810 TTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTTTGAAAATTTATTTCTAA
66 TTGATACTTTCAACTTTTCCTCAAAAA--CCTTTTTTTTGAAAATTTATTTCTAA
18369865 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTCGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTTCGATTTTCAAGGAA
*
18369930 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
64 AATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAAATTTATTTCTAA
* * *
18369985 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTG-GAATTT-TA-TTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTTTC-AAGGAAA
** *
18370047 ATTGATACTTTCAACTTTTCC-CTAAAAATGTTTTTTTTG-AAATTTATTTCTGA
65 ATTGATACTTTCAACTTTTCCTC-AAAAACCTTTTTTTTGAAAATTTATTTCTAA
*
18370100 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--A-TTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTTTC-AAGGAAA
18370162 ATTGATACTTTCAACTTTTCC
65 ATTGATACTTTCAACTTTTCC
18370183 CTAAAAATAT
Statistics
Matches: 302, Mismatches: 11, Indels: 15
0.92 0.03 0.05
Matches are distributed among these distances:
115 93 0.31
116 47 0.16
117 5 0.02
118 6 0.02
120 94 0.31
122 57 0.19
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAAATTTATTTCTAA
Found at i:18370199 original size:115 final size:118
Alignment explanation
Indices: 18369745--18370182 Score: 676
Period size: 115 Copynumber: 3.7 Consensus size: 118
18369735 TTTTTTGTAG
*
18369745 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTC-ATTTTCAAGGAAAA
18369810 TTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTTTGAAAATTTATTTCTAA
65 TTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTTTGAAAATTTATTTCTAA
18369865 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTCGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTTC-ATTTTCAAGGAA
18369930 AATTGATACTTTCAACTTTTCCTCAAAAACCC-TTTTTTTGAAAATTTATTTCTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
* * *
18369985 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTG-GAATTTTA-TTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCATTTTC-AAGGAAAA
** *
18370048 TTGATACTTTCAACTTTTCC-CTAAAAA-TGTTTTTTTTG-AAATTTATTTCTGA
65 TTGATACTTTCAACTTTTCCTC-AAAAACCCTTTTTTTTGAAAATTTATTTCTAA
*
18370100 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-A-TTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCATTTTC-AAGGAAAA
18370163 TTGATACTTTCAACTTTTCC
65 TTGATACTTTCAACTTTTCC
18370183 CTAAAAATAT
Statistics
Matches: 303, Mismatches: 9, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
115 93 0.31
116 47 0.16
117 5 0.02
118 6 0.02
120 92 0.30
121 3 0.01
122 57 0.19
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
Found at i:18370317 original size:1 final size:1
Alignment explanation
Indices: 18370283--18370337 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
18370273 TCTAATAAAT
* * * * * *
18370283 AAAAAATAAAATAAACAAATAAACAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18370338 CCTGGAGCGG
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.04, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:18370698 original size:19 final size:20
Alignment explanation
Indices: 18370655--18370699 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
18370645 AACACCGGTG
* *
18370655 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
*
18370675 TCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
18370694 CCGGAA
1 CCGGAA
18370700 GTTGGCCGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:18370790 original size:31 final size:31
Alignment explanation
Indices: 18370752--18370822 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
18370742 ACTGGGCAGG
* ** *
18370752 TCGCCGGAAACTTCAATGTTGGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
18370783 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
18370814 TCGCCGGAA
1 TCGCCGGAA
18370823 TCTGGAAATT
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:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAACTTCGCCGGAATTT
Found at i:18371606 original size:116 final size:117
Alignment explanation
Indices: 18371475--18371923 Score: 660
Period size: 116 Copynumber: 3.8 Consensus size: 117
18371465 AATAAAAATC
* *
18371475 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAAAG
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAA
18371539 TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
66 TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
** *
18371591 AAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCCAAAAAA
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAA
*
18371655 TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAA
66 TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-A
* * *
18371708 AAAAAAAGA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGGAAATCAAAGTTTCAAAAAA
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTTCAAAAAA
* *
18371772 ATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTT-A
65 ATAT-TTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
* * *
18371825 AAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAA-TTTCAAAAA
1 AAAAAA-AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTCAAAAA
18371889 AATAATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
64 AAT-ATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
18371924 TCCTACACAA
Statistics
Matches: 304, Mismatches: 19, Indels: 20
0.89 0.06 0.06
Matches are distributed among these distances:
115 4 0.01
116 165 0.54
117 19 0.06
118 32 0.11
119 47 0.15
120 37 0.12
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (117 bp):
AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAA
TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
Found at i:18371927 original size:59 final size:59
Alignment explanation
Indices: 18371473--18371923 Score: 620
Period size: 59 Copynumber: 7.7 Consensus size: 59
18371463 TAAATAAAAA
18371473 TCAAAAAAAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
1 TCAAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* *
18371531 TC-AAAAAGT-ATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATAATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
***
18371588 TCAAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TT
1 TCAAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* * *
18371646 TCCAAAAAAT-ATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTT
1 TCAAAAAAATAATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* * * *
18371704 TCAAAAAAA-AAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGGAAATCAAAGTT
1 TCAAAAAAATAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTT
*
18371764 TCAAAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TT
1 TCAAAAAAATA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* *
18371823 T-AAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAA-TT
1 TCAAAAAAATA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTT
18371882 TCAAAAAAATAATTTTTG-GGAAAAGTTGAAAGTATCAATTTT
1 TCAAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
18371924 TCCTACACAA
Statistics
Matches: 356, Mismatches: 23, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
56 2 0.01
57 94 0.26
58 96 0.27
59 97 0.27
60 28 0.08
61 38 0.11
62 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (59 bp):
TCAAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
Found at i:18372687 original size:20 final size:20
Alignment explanation
Indices: 18372650--18372688 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18372640 ATAACTATTA
* *
18372650 AAATAAATTATAATTATTTT
1 AAATAAATTAAAAATATTTT
*
18372670 AAATAATTTAAAAATATTT
1 AAATAAATTAAAAATATTT
18372689 AATTTAAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATAAATTAAAAATATTTT
Found at i:18374330 original size:30 final size:30
Alignment explanation
Indices: 18374296--18374381 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 30
18374286 TGTTAAAAGC
*
18374296 TTATTTAGA-TATAAATTAAAAGATAAGGAT
1 TTATTT-GACTATAAATTAAAAGATAAAGAT
* * *
18374326 TTATTTGACTGTAAATTAAAA-TTAAATAT
1 TTATTTGACTATAAATTAAAAGATAAAGAT
* * *
18374355 TTATTTGAGTAAAAATTAAAAGTTAAA
1 TTATTTGACTATAAATTAAAAGATAAA
18374382 AGCTTATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 25 0.53
30 22 0.47
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (30 bp):
TTATTTGACTATAAATTAAAAGATAAAGAT
Found at i:18374362 original size:29 final size:30
Alignment explanation
Indices: 18374308--18374381 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
18374298 ATTTAGATAT
* ** **
18374308 AAATTAAAAGATAAGGATTTATTTGACTGT
1 AAATTAAAAGTTAAATATTTATTTGACTAA
*
18374338 AAATTAAAA-TTAAATATTTATTTGAGTAA
1 AAATTAAAAGTTAAATATTTATTTGACTAA
18374367 AAATTAAAAGTTAAA
1 AAATTAAAAGTTAAA
18374382 AGCTTATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 23 0.62
30 14 0.38
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.36
Consensus pattern (30 bp):
AAATTAAAAGTTAAATATTTATTTGACTAA
Found at i:18374389 original size:30 final size:30
Alignment explanation
Indices: 18374287--18374390 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
18374277 TTCAATTCAT
18374287 GTTAAAAGCTTATTT-AGATATAAATTAAAA
1 GTTAAAAGCTTATTTGAG-TATAAATTAAAA
* * * * *
18374317 GAT-AAGGATTTATTTGACTGTAAATTAAAA
1 GTTAAAAG-CTTATTTGAGTATAAATTAAAA
* *
18374347 -TTAAATA-TTTATTTGAGTAAAAATTAAAA
1 GTTAAA-AGCTTATTTGAGTATAAATTAAAA
18374376 GTTAAAAGCTTATTT
1 GTTAAAAGCTTATTT
18374391 AAATGTAATA
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
29 24 0.42
30 32 0.56
31 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (30 bp):
GTTAAAAGCTTATTTGAGTATAAATTAAAA
Found at i:18374983 original size:20 final size:20
Alignment explanation
Indices: 18374955--18374993 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18374945 CATACTTATA
*
18374955 TAGACCATCTTAGTCTCCTC
1 TAGACCATCTTAATCTCCTC
*
18374975 TAGATCATCTTAATCTCCT
1 TAGACCATCTTAATCTCCT
18374994 ATAGTCCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (20 bp):
TAGACCATCTTAATCTCCTC
Found at i:18377100 original size:18 final size:19
Alignment explanation
Indices: 18377077--18377116 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18377067 AAAAAAATCT
* *
18377077 CAAAAA-TATATTTTTAAA
1 CAAAAATTAAATTTTAAAA
18377095 CAAAAATTAAATTTTAAAA
1 CAAAAATTAAATTTTAAAA
18377114 CAA
1 CAA
18377117 TAAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
CAAAAATTAAATTTTAAAA
Found at i:18378094 original size:10 final size:11
Alignment explanation
Indices: 18378079--18378145 Score: 55
Period size: 12 Copynumber: 5.9 Consensus size: 11
18378069 TTCGTTTAAG
18378079 TTAAATAAAT-
1 TTAAATAAATA
18378089 TTAAATAAATA
1 TTAAATAAATA
**
18378100 TATTTATAAATA
1 T-TAAATAAATA
18378112 TTAAATAAATAA
1 TTAAATAAAT-A
** *
18378124 TTTCATGAATA
1 TTAAATAAATA
18378135 TATAAATAAAT
1 T-TAAATAAAT
18378146 TAATTTTCAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 10 0.23
11 10 0.23
12 23 0.53
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAAATAAATA
Found at i:18378117 original size:23 final size:23
Alignment explanation
Indices: 18378083--18378151 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
18378073 TTTAAGTTAA
18378083 ATAAAT-TTAAATAAATATATTT-
1 ATAAATATTAAATAAATA-ATTTC
18378105 ATAAATATTAAATAAATAATTTC
1 ATAAATATTAAATAAATAATTTC
*
18378128 ATGAATATATAAATAAATTAATTT
1 ATAAATAT-TAAATAAA-TAATTT
18378152 TCAACATGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
22 10 0.24
23 18 0.43
24 8 0.19
25 6 0.14
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (23 bp):
ATAAATATTAAATAAATAATTTC
Found at i:18379928 original size:27 final size:27
Alignment explanation
Indices: 18379890--18379943 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
18379880 TGATATTAGG
18379890 CCTAAGTTTTTGCCAACTTGTCCGATA
1 CCTAAGTTTTTGCCAACTTGTCCGATA
* *
18379917 CCTAAGTTTTTGCCAATTTGTTCGATA
1 CCTAAGTTTTTGCCAACTTGTCCGATA
18379944 TGACTCAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (27 bp):
CCTAAGTTTTTGCCAACTTGTCCGATA
Found at i:18380344 original size:20 final size:21
Alignment explanation
Indices: 18380315--18380364 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
18380305 AAAATAAAAT
18380315 TATT-ATATATT-TTTTA-CAA
1 TATTAATATATTATTTTATC-A
18380334 TATTAATATATTATTTTATCA
1 TATTAATATATTATTTTATCA
18380355 TATTTAATAT
1 TA-TTAATAT
18380365 TTAAGATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.15
20 7 0.26
21 8 0.30
22 8 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTAATATATTATTTTATCA
Found at i:18381404 original size:10 final size:11
Alignment explanation
Indices: 18381389--18381455 Score: 55
Period size: 12 Copynumber: 5.9 Consensus size: 11
18381379 TTCGTTTAAG
18381389 TTAAATAAAT-
1 TTAAATAAATA
18381399 TTAAATAAATA
1 TTAAATAAATA
**
18381410 TATTTATAAATA
1 T-TAAATAAATA
18381422 TTAAATAAATAA
1 TTAAATAAAT-A
** *
18381434 TTTCATGAATA
1 TTAAATAAATA
18381445 TATAAATAAAT
1 T-TAAATAAAT
18381456 TAATTTTCAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 10 0.23
11 10 0.23
12 23 0.53
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAAATAAATA
Found at i:18381427 original size:23 final size:23
Alignment explanation
Indices: 18381393--18381461 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
18381383 TTTAAGTTAA
18381393 ATAAAT-TTAAATAAATATATTT-
1 ATAAATATTAAATAAATA-ATTTC
18381415 ATAAATATTAAATAAATAATTTC
1 ATAAATATTAAATAAATAATTTC
*
18381438 ATGAATATATAAATAAATTAATTT
1 ATAAATAT-TAAATAAA-TAATTT
18381462 TCAACATGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
22 10 0.24
23 18 0.43
24 8 0.19
25 6 0.14
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (23 bp):
ATAAATATTAAATAAATAATTTC
Found at i:18381524 original size:3 final size:3
Alignment explanation
Indices: 18381516--18381553 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
18381506 CTTGGATACT
*
18381516 ATA ATA ATA ATA ATA ATA ATA ATGA A-A ATA TTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT
18381554 TTAATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18382949 original size:22 final size:20
Alignment explanation
Indices: 18382906--18382949 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 20
18382896 TTAGATTTTT
*
18382906 CCAAAAATTC-AACCTAAAC
1 CCAAAAATTCAAACCGAAAC
18382925 CCAAAAATTCAAACTCAGAAAC
1 CCAAAAATTCAAAC-C-GAAAC
18382947 CCA
1 CCA
18382950 GAACTTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 1 0.05
22 7 0.33
ACGTcount: A:0.52, C:0.32, G:0.02, T:0.14
Consensus pattern (20 bp):
CCAAAAATTCAAACCGAAAC
Found at i:18383608 original size:20 final size:21
Alignment explanation
Indices: 18383579--18383628 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
18383569 AAAATAAAAT
18383579 TATT-ATATATT-TTTTA-CAA
1 TATTAATATATTATTTTATC-A
18383598 TATTAATATATTATTTTATCA
1 TATTAATATATTATTTTATCA
18383619 TATTTAATAT
1 TA-TTAATAT
18383629 TTAAGATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.15
20 7 0.26
21 8 0.30
22 8 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTAATATATTATTTTATCA
Found at i:18384673 original size:10 final size:11
Alignment explanation
Indices: 18384658--18384724 Score: 55
Period size: 12 Copynumber: 5.9 Consensus size: 11
18384648 TTCGTTTAAG
18384658 TTAAATAAAT-
1 TTAAATAAATA
18384668 TTAAATAAATA
1 TTAAATAAATA
**
18384679 TATTTATAAATA
1 T-TAAATAAATA
18384691 TTAAATAAATAA
1 TTAAATAAAT-A
** *
18384703 TTTCATGAATA
1 TTAAATAAATA
18384714 TATAAATAAAT
1 T-TAAATAAAT
18384725 TAATTTTCAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 10 0.23
11 10 0.23
12 23 0.53
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAAATAAATA
Found at i:18384696 original size:23 final size:23
Alignment explanation
Indices: 18384662--18384730 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
18384652 TTTAAGTTAA
18384662 ATAAAT-TTAAATAAATATATTT-
1 ATAAATATTAAATAAATA-ATTTC
18384684 ATAAATATTAAATAAATAATTTC
1 ATAAATATTAAATAAATAATTTC
*
18384707 ATGAATATATAAATAAATTAATTT
1 ATAAATAT-TAAATAAA-TAATTT
18384731 TCAACATGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
22 10 0.24
23 18 0.43
24 8 0.19
25 6 0.14
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (23 bp):
ATAAATATTAAATAAATAATTTC
Found at i:18386054 original size:22 final size:21
Alignment explanation
Indices: 18385990--18386054 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
18385980 ATTACCAACA
*
18385990 ATTTAAT-AGAAATAATTCATT
1 ATTTAATGATAAATAATTCA-T
*
18386011 ATTTAATGATAAATTATTCAT
1 ATTTAATGATAAATAATTCAT
*
18386032 AGTTTAATGATAAATCATTCAT
1 A-TTTAATGATAAATAATTCAT
18386054 A
1 A
18386055 AATTAGAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.23
22 30 0.77
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTTAATGATAAATAATTCAT
Found at i:18386099 original size:22 final size:21
Alignment explanation
Indices: 18386041--18386099 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
18386031 TAGTTTAATG
18386041 ATAAATCATTCATAAATTAGA
1 ATAAATCATTCATAAATTAGA
* * * *
18386062 AGAAATTTATTGATAATTTAGTA
1 ATAAA-TCATTCATAAATTAG-A
*
18386085 ATAAATCATTTATAA
1 ATAAATCATTCATAA
18386100 CTTAATAGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 4 0.14
22 20 0.69
23 5 0.17
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (21 bp):
ATAAATCATTCATAAATTAGA
Found at i:18386579 original size:26 final size:22
Alignment explanation
Indices: 18386514--18386660 Score: 111
Period size: 22 Copynumber: 6.6 Consensus size: 22
18386504 AATTGCTAAT
*
18386514 CTTAGTAGTAAATCATAAATAA
1 CTTAATAGTAAATCATAAATAA
18386536 CTTAATAGTAAATCATAAATAA
1 CTTAATAGTAAATCATAAATAA
* *
18386558 CTTAATAGTTAATCA-ATGATAA
1 CTTAATAGTAAATCATA-AATAA
* * * *
18386580 TTTAGTAGTGAATCATTAGA-AA
1 CTTAATAGTAAATCA-TAAATAA
* * **
18386602 TTTAAAAGTAAATCA-ATGTAA
1 CTTAATAGTAAATCATAAATAA
*
18386623 CTTAATAGTAATTAGTCATCAATAA
1 CTTAATAGTAA--A-TCATAAATAA
*
18386648 CTTAATACTAAAT
1 CTTAATAGTAAAT
18386661 TTTGGATAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
20 1 0.01
21 12 0.12
22 66 0.66
23 4 0.04
24 4 0.04
25 13 0.13
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (22 bp):
CTTAATAGTAAATCATAAATAA
Found at i:18386822 original size:22 final size:22
Alignment explanation
Indices: 18386762--18386879 Score: 84
Period size: 22 Copynumber: 5.4 Consensus size: 22
18386752 AAAAACTAAG
*
18386762 TAGTAAATCAATAATAATATAA
1 TAGTAAATCATTAATAATATAA
18386784 TAG-ATAATGCA-TAATAATATAA
1 TAGTA-AAT-CATTAATAATATAA
* *
18386806 TAGTAAATCATTGATAATTTAGA
1 TAGTAAATCATTAATAATATA-A
*
18386829 T-GTAAAGT-ATTAATAACT-TAG
1 TAGTAAA-TCATTAATAA-TATAA
* * * *
18386850 TTGTAAATCAGTGATAATTTAA
1 TAGTAAATCATTAATAATATAA
18386872 TAGTAAAT
1 TAGTAAAT
18386880 TAATTAATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
21 6 0.08
22 65 0.83
23 7 0.09
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.36
Consensus pattern (22 bp):
TAGTAAATCATTAATAATATAA
Found at i:18386843 original size:44 final size:45
Alignment explanation
Indices: 18386740--18386887 Score: 112
Period size: 44 Copynumber: 3.4 Consensus size: 45
18386730 AATGATTTTG
* * * * *
18386740 TAGTAAA-TAATCAAAAAC-TAAGTAGTAAATCAATAATAATATAA
1 TAGTAAAGTAATTAATAACTTAA-TAGTAAATCAGTGATAATTTAA
* * *
18386784 TAGATAATG-CA-TAATAA-TATAATAGTAAATCATTGATAATTTAGA
1 TAG-TAAAGTAATTAATAACT-TAATAGTAAATCAGTGATAATTTA-A
* *
18386829 T-GTAAAGT-ATTAATAACTTAGTTGTAAATCAGTGATAATTTAA
1 TAGTAAAGTAATTAATAACTTAATAGTAAATCAGTGATAATTTAA
*
18386872 TAGTAAATTAATTAAT
1 TAGTAAAGTAATTAAT
18386888 TACTGATAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
43 7 0.09
44 59 0.72
45 16 0.20
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (45 bp):
TAGTAAAGTAATTAATAACTTAATAGTAAATCAGTGATAATTTAA
Found at i:18387065 original size:22 final size:22
Alignment explanation
Indices: 18386893--18387085 Score: 113
Period size: 22 Copynumber: 8.8 Consensus size: 22
18386883 TTAATTACTG
*
18386893 ATAACTTTA-TAATAAATCATCA
1 ATAA-TTTAGTAATAAATCATTA
* * * *
18386915 GTAAATTAATAATGAATCAGTT-
1 ATAATTTAGTAATAAATCA-TTA
* * *
18386937 ATAACTTTA-TAACAGATCATCA
1 ATAA-TTTAGTAATAAATCATTA
* * * *
18386959 ATAACTTACTAGTAAATCATCA
1 ATAATTTAGTAATAAATCATTA
* *
18386981 ATAATTTAGTAAAAAATCATTC
1 ATAATTTAGTAATAAATCATTA
* * *
18387003 ATAACTTAGTAATAAATCAATG
1 ATAATTTAGTAATAAATCATTA
* * *
18387025 CTAATTTAGTAGTAAATTATTA
1 ATAATTTAGTAATAAATCATTA
* * *
18387047 ATAATTTAGTAATATATTATTC
1 ATAATTTAGTAATAAATCATTA
* *
18387069 ATAGTTTAGTAGTAAAT
1 ATAATTTAGTAATAAAT
18387086 TACTGATAAC
Statistics
Matches: 129, Mismatches: 37, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
21 7 0.05
22 118 0.91
23 4 0.03
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAATTTAGTAATAAATCATTA
Found at i:18387616 original size:27 final size:27
Alignment explanation
Indices: 18387576--18387631 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
18387566 ATCGAAGACT
*
18387576 ATCAAAATTTTATCAAAAGTTATCAAA
1 ATCAAAATTATATCAAAAGTTATCAAA
18387603 ATCAAAATTATATCAAAAGTTATCAAA
1 ATCAAAATTATATCAAAAGTTATCAAA
18387630 AT
1 AT
18387632 TTTATTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (27 bp):
ATCAAAATTATATCAAAAGTTATCAAA
Found at i:18387618 original size:17 final size:16
Alignment explanation
Indices: 18387587--18387631 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
18387577 TCAAAATTTT
18387587 ATCAAAAGTTATCAAA
1 ATCAAAAGTTATCAAA
18387603 ATCAAAA-TTAT----
1 ATCAAAAGTTATCAAA
18387614 ATCAAAAGTTATCAAA
1 ATCAAAAGTTATCAAA
18387630 AT
1 AT
18387632 TTTATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
11 7 0.29
12 4 0.17
15 4 0.17
16 9 0.38
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (16 bp):
ATCAAAAGTTATCAAA
Found at i:18387636 original size:11 final size:10
Alignment explanation
Indices: 18387575--18387633 Score: 54
Period size: 11 Copynumber: 6.1 Consensus size: 10
18387565 TATCGAAGAC
18387575 TATCAAAATTT
1 TATCAAAA-TT
*
18387586 TATCAAAAGT
1 TATCAAAATT
18387596 TATC-AAA--
1 TATCAAAATT
18387603 -ATCAAAATT
1 TATCAAAATT
*
18387612 ATATCAAAAGT
1 -TATCAAAATT
18387623 TATCAAAATT
1 TATCAAAATT
18387633 T
1 T
18387634 TATTTATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
9 3 0.08
10 15 0.38
11 16 0.40
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (10 bp):
TATCAAAATT
Found at i:18388483 original size:4 final size:4
Alignment explanation
Indices: 18388476--18388532 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
18388466 TTTTTTGTAT
* * *
18388476 TTTA TTTA TTTTC TTATA TTTA TTTA TTTG TTTG TTTA TTTA TTTTA TTT-
1 TTTA TTTA -TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
18388526 TTTA TTT
1 TTTA TTT
18388533 TTATGCATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 3 0.07
4 32 0.71
5 10 0.22
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:18388503 original size:8 final size:8
Alignment explanation
Indices: 18388476--18388532 Score: 53
Period size: 9 Copynumber: 6.9 Consensus size: 8
18388466 TTTTTTGTAT
18388476 TTTATTTA
1 TTTATTTA
*
18388484 TTTTCTTATA
1 -TTTATT-TA
18388494 TTTATTTA
1 TTTATTTA
* *
18388502 TTTGTTTG
1 TTTATTTA
18388510 TTTATTTA
1 TTTATTTA
18388518 TTTTATTT-
1 -TTTATTTA
18388526 TTTATTT
1 TTTATTT
18388533 TTATGCATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
7 7 0.17
8 14 0.35
9 17 0.43
10 2 0.05
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (8 bp):
TTTATTTA
Found at i:18389215 original size:23 final size:24
Alignment explanation
Indices: 18389167--18389215 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
18389157 AATTCACATA
* *
18389167 TATATAAAAATTAAAAATAAATTT
1 TATATAAAAATCAAAAATAAAGTT
*
18389191 TATATAAAAA-CAAAAATTAAGTT
1 TATATAAAAATCAAAAATAAAGTT
18389214 TA
1 TA
18389216 AGAAAGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TATATAAAAATCAAAAATAAAGTT
Found at i:18391597 original size:30 final size:31
Alignment explanation
Indices: 18391557--18391680 Score: 125
Period size: 30 Copynumber: 4.1 Consensus size: 31
18391547 GAGAGTTTAG
* *
18391557 TTTTATGGTTTGAAA-GGTTTAAGATTTTGA
1 TTTTAAGGTTTGAAAGGGTTTAAGGTTTTGA
* *
18391587 TTTTAGGGTTT-AAAGGGTTTTAAGGTTTCGA
1 TTTTAAGGTTTGAAAGGG-TTTAAGGTTTTGA
18391618 TTTTAAGG-TT-AAAGGGTTTAAGGTTTT-A
1 TTTTAAGGTTTGAAAGGGTTTAAGGTTTTGA
* * *
18391646 GTTTTAAGGTTTG-GAGAGTTTAGGGTTTTGA
1 -TTTTAAGGTTTGAAAGGGTTTAAGGTTTTGA
18391677 TTTT
1 TTTT
18391681 GGGGTTTGGA
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.01
29 21 0.26
30 39 0.49
31 19 0.24
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.48
Consensus pattern (31 bp):
TTTTAAGGTTTGAAAGGGTTTAAGGTTTTGA
Found at i:18391687 original size:14 final size:14
Alignment explanation
Indices: 18391661--18391729 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
18391651 AAGGTTTGGA
*
18391661 GAGTTTAGGGTTTT
1 GAGTTTAGGGTTTG
* *
18391675 GATTTTGGGGTTTG
1 GAGTTTAGGGTTTG
*
18391689 GAGTTTAGGGTTTC
1 GAGTTTAGGGTTTG
* * *
18391703 AATTTTATGGTTTG
1 GAGTTTAGGGTTTG
*
18391717 GAATTTAGGGTTT
1 GAGTTTAGGGTTT
18391730 TAATTTAGGA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.49
Consensus pattern (14 bp):
GAGTTTAGGGTTTG
Found at i:18391701 original size:28 final size:28
Alignment explanation
Indices: 18391633--18391774 Score: 117
Period size: 28 Copynumber: 4.9 Consensus size: 28
18391623 AGGTTAAAGG
* * *
18391633 GTTTAAGGTTTTAGTTTTAAGGTTTGGAGA
1 GTTTAGGGTTTTAATTTTAGGGTTT-G-GA
* *
18391663 GTTTAGGGTTTTGATTTTGGGGTTTGGA
1 GTTTAGGGTTTTAATTTTAGGGTTTGGA
* *
18391691 GTTTAGGGTTTCAATTTTATGGTTTGGA
1 GTTTAGGGTTTTAATTTTAGGGTTTGGA
* *
18391719 ATTTAGGGTTTTAA-TTTAGGATTTAAAGG-
1 GTTTAGGGTTTTAATTTTAGGGTTT---GGA
**
18391748 GTTTAGGGTTTCGATTTTAGGGATTTG
1 GTTTAGGGTTTTAATTTTAGGG-TTTG
18391775 AGGATCTAGT
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
27 8 0.09
28 39 0.43
29 12 0.13
30 28 0.31
31 3 0.03
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (28 bp):
GTTTAGGGTTTTAATTTTAGGGTTTGGA
Found at i:18391736 original size:13 final size:13
Alignment explanation
Indices: 18391664--18391775 Score: 62
Period size: 14 Copynumber: 7.9 Consensus size: 13
18391654 GTTTGGAGAG
*
18391664 TTTAGGGTTTTGAT
1 TTTAGGG-TTTGAA
* *
18391678 TTTGGGGTTTGGAG
1 TTTAGGGTTT-GAA
*
18391692 TTTAGGGTTTCAA
1 TTTAGGGTTTGAA
*
18391705 TTTTATGGTTTGGAA
1 -TTTAGGGTTT-GAA
*
18391720 TTTAGGGTTTTAA
1 TTTAGGGTTTGAA
* *
18391733 TTTAGGATTTAAA
1 TTTAGGGTTTGAA
*
18391746 GGGTTTAGGGTTTCGAT
1 ---TTTAGGGTTT-GAA
18391763 TTTAGGGATTTGA
1 TTTAGGG-TTTGA
18391776 GGATCTAGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
13 17 0.22
14 44 0.58
15 5 0.07
16 9 0.12
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (13 bp):
TTTAGGGTTTGAA
Found at i:18392088 original size:19 final size:18
Alignment explanation
Indices: 18392044--18392128 Score: 50
Period size: 19 Copynumber: 4.4 Consensus size: 18
18392034 GAAAAAAAAT
*
18392044 TTTATTACTCTATTTTATA
1 TTTATTA-TATATTTTATA
* *
18392063 ATCATTATATATATTTATA
1 TTTATTATATAT-TTTATA
18392082 TTTATTAT-TATTATTATTA
1 TTTATTATATATT-TTA-TA
18392101 TTAGTATTAT-TATTATTAT-
1 TT--TATTATATATT-TTATA
18392120 TATTATTAT
1 T-TTATTAT
18392129 TCTATAAGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.02
18 16 0.29
19 22 0.40
20 2 0.04
21 14 0.25
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTATTATATATTTTATA
Found at i:18392091 original size:3 final size:3
Alignment explanation
Indices: 18392083--18392129 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
18392073 ATATTTATAT
*
18392083 TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18392130 CTATAAGGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:18392209 original size:19 final size:19
Alignment explanation
Indices: 18392187--18392239 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
18392177 CTATATACTC
18392187 ATTATTTATTT-TTATTTTT
1 ATTATTT-TTTATTATTTTT
*
18392206 ATTATTTTTTATTATTTTC
1 ATTATTTTTTATTATTTTT
18392225 ATT-TTTTTTATTATT
1 ATTATTTTTTATTATT
18392240 AAAAACAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (19 bp):
ATTATTTTTTATTATTTTT
Found at i:18393988 original size:2 final size:2
Alignment explanation
Indices: 18393981--18394006 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18393971 TGAATATCAC
18393981 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
18394007 TTCAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18394704 original size:21 final size:20
Alignment explanation
Indices: 18394680--18394736 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
18394670 CTATAATTTT
18394680 AATTTTGATAATCTTTGTTAA
1 AATTTTGATAAT-TTTGTTAA
*
18394701 AATTTTGATAAATTTTGCTAA
1 AATTTTGAT-AATTTTGTTAA
*
18394722 AATTTTAATAATTTT
1 AATTTTGATAATTTT
18394737 CATTATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 6 0.18
21 24 0.73
22 3 0.09
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.53
Consensus pattern (20 bp):
AATTTTGATAATTTTGTTAA
Found at i:18396449 original size:22 final size:22
Alignment explanation
Indices: 18396399--18396472 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 22
18396389 TGACAAATCA
* *
18396399 ATTG-TAACATAGTAGCAAATGT
1 ATTGATAATATAGTAGTAAAT-T
*
18396421 A-TAATAATATAGTAGTAAATT
1 ATTGATAATATAGTAGTAAATT
* *
18396442 ATTGATAATTTTGTTA-TAAATT
1 ATTGATAATATAG-TAGTAAATT
*
18396464 AGTGATAAT
1 ATTGATAAT
18396473 TTAGACAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.07
22 37 0.88
23 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (22 bp):
ATTGATAATATAGTAGTAAATT
Found at i:18396611 original size:22 final size:22
Alignment explanation
Indices: 18396555--18396625 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
18396545 TCAATTCGTG
* *
18396555 ATAATTTAATAATAAATGAATA
1 ATAATTTAGTAGTAAATGAATA
18396577 ATAATTTAGTAGTAAAT-AATTA
1 ATAATTTAGTAGTAAATGAA-TA
** *
18396599 ATAATTTTTTAGTAAATCAATA
1 ATAATTTAGTAGTAAATGAATA
*
18396621 GTAAT
1 ATAAT
18396626 GTGATAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.05
22 38 0.90
23 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATGAATA
Found at i:18396681 original size:22 final size:22
Alignment explanation
Indices: 18396654--18396713 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
18396644 TACTTTGATG
* * *
18396654 GTAAATCAATTATAATATAGTT
1 GTAAATCAATAATAACATAGTC
18396676 GTAAATGC-ATAATAACATAGTC
1 GTAAAT-CAATAATAACATAGTC
* *
18396698 CTAAATCAATGATAAC
1 GTAAATCAATAATAAC
18396714 TTAACAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.32
Consensus pattern (22 bp):
GTAAATCAATAATAACATAGTC
Found at i:18396861 original size:22 final size:22
Alignment explanation
Indices: 18396836--18397243 Score: 158
Period size: 22 Copynumber: 18.8 Consensus size: 22
18396826 TAAATCATAA
18396836 ATAATTTAATAGTAAATCAATG
1 ATAATTTAATAGTAAATCAATG
* **
18396858 ATAAATTGGTAGTAAAT-AATTG
1 ATAATTTAATAGTAAATCAA-TG
* ** * * ** *
18396880 ACAATTTAGCAATTAATCTTTA
1 ATAATTTAATAGTAAATCAATG
* * * *
18396902 AAAACTTAAAAGTAAATTAAT-
1 ATAATTTAATAGTAAATCAATG
* *
18396923 ATAACTTAGTAGTAAATCAATG
1 ATAATTTAATAGTAAATCAATG
** * *
18396945 ATAACATATTAGTTAATCAATG
1 ATAATTTAATAGTAAATCAATG
* *
18396967 ATAACTTAATAATAAATC-ATG
1 ATAATTTAATAGTAAATCAATG
*
18396988 CATAATTTAATA-TAAAT-AATTA
1 -ATAATTTAATAGTAAATCAA-TG
* * *
18397010 ACAACTTAATAGTGAATC-ATAG
1 ATAATTTAATAGTAAATCAAT-G
* **
18397032 ATAATTTAGT-GATAAATCGGTG
1 ATAATTTAATAG-TAAATCAATG
* *
18397054 ATAATTTTATAGTAAAT-AATC
1 ATAATTTAATAGTAAATCAATG
* * * * *
18397075 AAAAATTATGTAGTAAATCATTA
1 ATAATTTA-ATAGTAAATCAATG
* *
18397098 ATAATATAATAGTAAAT-ATATA
1 ATAATTTAATAGTAAATCA-ATG
* * *
18397120 AAAATATAATAGTAAATCATTG
1 ATAATTTAATAGTAAATCAATG
*
18397142 ATAATTTAATAGTAAAT---TA
1 ATAATTTAATAGTAAATCAATG
* * * *
18397161 ATAACTTAACAGTAAATCACTA
1 ATAATTTAATAGTAAATCAATG
** * * *
18397183 ATAATGCAATAGTAAATTACTA
1 ATAATTTAATAGTAAATCAATG
* *
18397205 ATAATTTAGAT-GTGAATCAGTG
1 ATAATTTA-ATAGTAAATCAATG
*
18397227 ACAATTTAATAGTAAAT
1 ATAATTTAATAGTAAAT
18397244 TAAATAATCA
Statistics
Matches: 285, Mismatches: 80, Indels: 42
0.70 0.20 0.10
Matches are distributed among these distances:
19 16 0.06
21 48 0.17
22 209 0.73
23 12 0.04
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCAATG
Found at i:18397117 original size:12 final size:12
Alignment explanation
Indices: 18397100--18397136 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18397090 AATCATTAAT
18397100 AATATAATAGTA
1 AATATAATAGTA
*
18397112 AATAT-ATA-AA
1 AATATAATAGTA
18397122 AATATAATAGTA
1 AATATAATAGTA
18397134 AAT
1 AAT
18397137 CATTGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.29
11 6 0.29
12 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (12 bp):
AATATAATAGTA
Found at i:18397187 original size:41 final size:43
Alignment explanation
Indices: 18397086--18397201 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 43
18397076 AAAATTATGT
*
18397086 AGTAAATCATTAATAATATAATAGTAAATATATAAAAATATAAT
1 AGTAAATCATTAATAATATAATAGTAAAT-TATAAAAATATAAC
* * * *
18397130 AGTAAATCATTGATAATTTAATAGTAAATTA-ATAACT-TAAC
1 AGTAAATCATTAATAATATAATAGTAAATTATAAAAATATAAC
* **
18397171 AGTAAATCACTAATAATGCAATAGTAAATTA
1 AGTAAATCATTAATAATATAATAGTAAATTA
18397202 CTAATAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 30 0.48
42 4 0.06
43 2 0.03
44 27 0.43
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (43 bp):
AGTAAATCATTAATAATATAATAGTAAATTATAAAAATATAAC
Found at i:18397198 original size:85 final size:85
Alignment explanation
Indices: 18397086--18397246 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 85
18397076 AAAATTATGT
* * * *
18397086 AGTAAATCATTAATAATATAATAGTAAATATA-TAAAAATATA-ATAGTAAATCATTGATAATTT
1 AGTAAATCACTAATAATACAATAGTAAAT-TACTAAAAATATAGAT-GTAAATCAGTGACAATTT
18397149 AATAGTAAATTAATAACTTAAC
64 AATAGTAAATTAATAACTTAAC
* * * *
18397171 AGTAAATCACTAATAATGCAATAGTAAATTACTAATAATTTAGATGTGAATCAGTGACAATTTAA
1 AGTAAATCACTAATAATACAATAGTAAATTACTAAAAATATAGATGTAAATCAGTGACAATTTAA
18397236 TAGTAAATTAA
66 TAGTAAATTAA
18397247 ATAATCATTG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
84 2 0.03
85 62 0.94
86 2 0.03
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (85 bp):
AGTAAATCACTAATAATACAATAGTAAATTACTAAAAATATAGATGTAAATCAGTGACAATTTAA
TAGTAAATTAATAACTTAAC
Found at i:18397382 original size:22 final size:22
Alignment explanation
Indices: 18397351--18397470 Score: 104
Period size: 22 Copynumber: 5.5 Consensus size: 22
18397341 ACCAACAATG
*
18397351 TAATAG-AAATCATTCATTATT
1 TAATAGTAAATCATTCATAATT
18397372 TAAT-GATAAATCATTCATAATT
1 TAATAG-TAAATCATTCATAATT
*
18397394 TAATAGTAAATCATTCATAAAT
1 TAATAGTAAATCATTCATAATT
* * *
18397416 TAGA-AGAAAATTATTGATAATT
1 TA-ATAGTAAATCATTCATAATT
* * *
18397438 TAGTCA-TAAATAATTCATAACT
1 TAAT-AGTAAATCATTCATAATT
*
18397460 TAGTAGTAAAT
1 TAATAGTAAAT
18397471 AGCTTATAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
20 1 0.01
21 5 0.06
22 72 0.89
23 3 0.04
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (22 bp):
TAATAGTAAATCATTCATAATT
Found at i:18397436 original size:44 final size:45
Alignment explanation
Indices: 18397351--18397470 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 45
18397341 ACCAACAATG
* * *
18397351 TAATAG-AAATCATTCATTATTTA-ATGATAAATCATTCATAATT
1 TAATAGTAAATCATTCATAAATTAGAAGATAAATCATTCATAATT
* *
18397394 TAATAGTAAATCATTCATAAATTAGAAGA-AAATTATTGATAATT
1 TAATAGTAAATCATTCATAAATTAGAAGATAAATCATTCATAATT
* * * *
18397438 TAGTCA-TAAATAATTCATAACTTAGTAG-TAAAT
1 TAAT-AGTAAATCATTCATAAATTAGAAGATAAAT
18397471 AGCTTATAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 6 0.09
44 54 0.84
45 4 0.06
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (45 bp):
TAATAGTAAATCATTCATAAATTAGAAGATAAATCATTCATAATT
Found at i:18397912 original size:22 final size:22
Alignment explanation
Indices: 18397887--18397993 Score: 76
Period size: 22 Copynumber: 4.8 Consensus size: 22
18397877 TAAATCATAA
*
18397887 ATAACTTAATAGTTAATCAATG
1 ATAACTTAATAGTAAATCAATG
* * * *
18397909 ATAATTTAGTAGTCAATCATTAG
1 ATAACTTAATAGTAAATCAAT-G
* *
18397932 A-AATTTAAAAGTAAATCAATG
1 ATAACTTAATAGTAAATCAATG
*
18397953 -TAACTTAATAGTAATTAATC-ATCA
1 ATAACTTAATAGT-A--AATCAAT-G
18397977 ATAACTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
18397994 TATAAATAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
21 10 0.15
22 36 0.54
23 4 0.06
24 5 0.07
25 12 0.18
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATG
Found at i:18397927 original size:44 final size:45
Alignment explanation
Indices: 18397871--18397993 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 45
18397861 TTGCTAAACC
* *
18397871 TAGTAATAAATCATAAATAACTTAATAGTTAATCAATGATAA-TT-
1 TAGTAATCAATCATAAATAACTTAATAGTAAATCAATG-TAACTTA
* * * *
18397915 TAGTAGTCAATCATTAGA-AATTTAAAAGTAAATCAATGTAACTTAA
1 TAGTAATCAATCA-TAAATAACTTAATAGTAAATCAATGTAACTT-A
* *
18397961 TAGTAATTAATCATCAATAACTTAATAGTAAAT
1 TAGTAATCAATCATAAATAACTTAATAGTAAAT
18397994 TATAAATAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
43 3 0.05
44 30 0.48
45 5 0.08
46 24 0.39
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (45 bp):
TAGTAATCAATCATAAATAACTTAATAGTAAATCAATGTAACTTA
Found at i:18398007 original size:22 final size:21
Alignment explanation
Indices: 18397976--18398016 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18397966 ATTAATCATC
*
18397976 AATAACTTAATAGTAAATTATA
1 AATAACTTAACA-TAAATTATA
*
18397998 AATAATTTAACATAAATTA
1 AATAACTTAACATAAATTA
18398017 GTGATAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
AATAACTTAACATAAATTATA
Found at i:18398121 original size:22 final size:22
Alignment explanation
Indices: 18398096--18398146 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
18398086 AACTAAGTAA
18398096 TAAATCAATAATAATATAACAG
1 TAAATCAATAATAATATAACAG
**
18398118 TAAATGC-ATAATAATATATTAG
1 TAAAT-CAATAATAATATAACAG
18398140 TAAATCA
1 TAAATCA
18398147 TTGATAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (22 bp):
TAAATCAATAATAATATAACAG
Found at i:18398180 original size:22 final size:21
Alignment explanation
Indices: 18398155--18398212 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
18398145 CATTGATAGT
*
18398155 TTAGATGTAAATTATTAATAAC
1 TTAG-TGTAAATTACTAATAAC
* *
18398177 TTAGTAGTGAATCACTAATAAC
1 TTAGT-GTAAATTACTAATAAC
18398199 TTAGTTGTAAATTA
1 TTAG-TGTAAATTA
18398213 GTGATAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (21 bp):
TTAGTGTAAATTACTAATAAC
Found at i:18398219 original size:22 final size:22
Alignment explanation
Indices: 18398161--18398234 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
18398151 TAGTTTAGAT
*
18398161 GTAAATTATTAATAACTTAGTA
1 GTAAATTACTAATAACTTAGTA
* * *
18398183 GTGAATCACTAATAACTTAGTT
1 GTAAATTACTAATAACTTAGTA
* * * *
18398205 GTAAATTAGTGATAATTTTGTA
1 GTAAATTACTAATAACTTAGTA
18398227 GTAAATTA
1 GTAAATTA
18398235 ATTAATTGTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (22 bp):
GTAAATTACTAATAACTTAGTA
Found at i:18398340 original size:22 final size:22
Alignment explanation
Indices: 18398304--18398423 Score: 91
Period size: 22 Copynumber: 5.5 Consensus size: 22
18398294 CTTTATAACA
* *
18398304 AATAACTTACTAGTAAATCATC
1 AATAATTTAGTAGTAAATCATC
* * *
18398326 AACAATTTAGTAGTACATTATTC
1 AATAATTTAGTAGTAAATCA-TC
** *
18398349 -ATAATTTAGTAAAAAATCATT
1 AATAATTTAGTAGTAAATCATC
* * *
18398370 TATAACTTAGTAATAAATCAAT-
1 AATAATTTAGTAGTAAATC-ATC
* *
18398392 ATTAATTTAGTAGTAAATCATT
1 AATAATTTAGTAGTAAATCATC
18398414 AATAATTTAG
1 AATAATTTAG
18398424 CAATATATTC
Statistics
Matches: 76, Mismatches: 18, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
21 3 0.04
22 69 0.91
23 4 0.05
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (22 bp):
AATAATTTAGTAGTAAATCATC
Found at i:18398453 original size:66 final size:66
Alignment explanation
Indices: 18398329--18398453 Score: 144
Period size: 66 Copynumber: 1.9 Consensus size: 66
18398319 AATCATCAAC
* * * * * *
18398329 AATTTAGTAGTACATTATTCATAATTTAGTAAAAAATCATTTATAACTTAGTAATAAATCAATAT
1 AATTTAGTAGTAAATCATTAATAATTTAGCAAAAAATCATTCATAACTTAGCAATAAATCAATAT
18398394 T
66 T
* * * *
18398395 AATTTAGTAGTAAATCATTAATAATTTAGCAATATATTC-TTCATAGCTTAGCAGTAAAT
1 AATTTAGTAGTAAATCATTAATAATTTAGCAA-AAAATCATTCATAACTTAGCAATAAAT
18398454 TACGAATAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
66 44 0.92
67 4 0.08
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (66 bp):
AATTTAGTAGTAAATCATTAATAATTTAGCAAAAAATCATTCATAACTTAGCAATAAATCAATAT
T
Found at i:18398980 original size:16 final size:17
Alignment explanation
Indices: 18398959--18398992 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18398949 CCAAAATATT
18398959 ATCAAAAGT-TATCAAA
1 ATCAAAAGTATATCAAA
*
18398975 ATCAAAATTATATCAAA
1 ATCAAAAGTATATCAAA
18398992 A
1 A
18398993 GTTATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.26
Consensus pattern (17 bp):
ATCAAAAGTATATCAAA
Found at i:18400552 original size:23 final size:24
Alignment explanation
Indices: 18400522--18400587 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
18400512 TCGATTCACA
18400522 TATATATAAATTAAAAATAAAA-T
1 TATATATAAATTAAAAATAAAAGT
*
18400545 TATATATAAAAATTAAGAATAAAAGT
1 TATATAT--AAATTAAAAATAAAAGT
*
18400571 TATATA-AAAATAAAAAT
1 TATATATAAATTAAAAAT
18400588 TAAGTTTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 16 0.43
25 14 0.38
26 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (24 bp):
TATATATAAATTAAAAATAAAAGT
Found at i:18400557 original size:25 final size:25
Alignment explanation
Indices: 18400521--18400587 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
18400511 TTCGATTCAC
* *
18400521 ATATATATAAATTAAAAATAAAATT
1 ATATATAAAAATTAAAAATAAAAGT
*
18400546 ATATATAAAAATTAAGAATAAAAGT
1 ATATATAAAAATTAAAAATAAAAGT
18400571 -TATATAAAAA-TAAAAAT
1 ATATATAAAAATTAAAAAT
18400588 TAAGTTTAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.16
24 10 0.26
25 22 0.58
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (25 bp):
ATATATAAAAATTAAAAATAAAAGT
Found at i:18403331 original size:18 final size:17
Alignment explanation
Indices: 18403303--18403369 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
18403293 TTAACTCACT
18403303 TTTTTTC-TTTTGTTTTC
1 TTTTTTCATTTT-TTTTC
*
18403320 TTTTTTCATTTTTTCTC
1 TTTTTTCATTTTTTTTC
* *
18403337 TTTCTTTAATTTTTTTATA
1 TTT-TTTCATTTTTTT-TC
18403356 TTCTTTTCATTTTT
1 TT-TTTTCATTTTT
18403370 CTACTCTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 14 0.34
18 14 0.34
19 12 0.29
20 1 0.02
ACGTcount: A:0.09, C:0.12, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTTTTCATTTTTTTTC
Found at i:18403367 original size:19 final size:19
Alignment explanation
Indices: 18403322--18403369 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
18403312 TTGTTTTCTT
*
18403322 TTTTCATTTTTTCTCTTTC
1 TTTTCATTTTTTCTATTTC
*
18403341 -TTTAATTTTTT-TATATTC
1 TTTTCATTTTTTCTAT-TTC
18403359 TTTTCATTTTT
1 TTTTCATTTTT
18403370 CTACTCTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 2 0.08
18 13 0.54
19 9 0.38
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTCATTTTTTCTATTTC
Found at i:18403916 original size:14 final size:13
Alignment explanation
Indices: 18403893--18403931 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
18403883 CAGTGAGCTA
*
18403893 TTTTTTATTTTAT
1 TTTTTTATTTTAC
18403906 TTTTATTATTTTTAC
1 TTTT-TTA-TTTTAC
18403921 TTTTTTATTTT
1 TTTTTTATTTT
18403932 TTTNNNNNNN
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTATTTTAC
Found at i:18403932 original size:14 final size:14
Alignment explanation
Indices: 18403893--18403932 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
18403883 CAGTGAGCTA
*
18403893 TTTTTTA-TTTTAT
1 TTTTTTATTTTTAC
18403906 TTTTATTATTTTTAC
1 TTTT-TTATTTTTAC
18403921 TTTTTTATTTTT
1 TTTTTTATTTTT
18403933 TTNNNNNNNN
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 11 0.46
15 9 0.38
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTATTTTTAC
Found at i:18408909 original size:29 final size:28
Alignment explanation
Indices: 18408849--18408937 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
18408839 ATTTATTATT
* * *
18408849 TTAGTCATATTCT-TTGTATATATTTATG
1 TTAGTCATA-TCTATTGTGTATATTCATA
18408877 TTAGTCATATCTATTCGTGTATATTCATA
1 TTAGTCATATCTATT-GTGTATATTCATA
* * *
18408906 TTAGTCGTGTCTATTTGTGTATATCCATA
1 TTAGTCATATCTA-TTGTGTATATTCATA
18408935 TTA
1 TTA
18408938 TTCGTATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
27 3 0.06
28 11 0.21
29 36 0.69
30 2 0.04
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (28 bp):
TTAGTCATATCTATTGTGTATATTCATA
Found at i:18408915 original size:19 final size:20
Alignment explanation
Indices: 18408881--18408920 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
18408871 TTTATGTTAG
*
18408881 TCATATCTATTCGTGTATAT
1 TCATATCTAGTCGTGTATAT
*
18408901 TCATAT-TAGTCGTGTCTAT
1 TCATATCTAGTCGTGTATAT
18408920 T
1 T
18408921 TGTGTATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (20 bp):
TCATATCTAGTCGTGTATAT
Found at i:18408949 original size:29 final size:29
Alignment explanation
Indices: 18408877--18408950 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
18408867 TATATTTATG
* *
18408877 TTAGTCATATCTATTCGTGTATATTCATA
1 TTAGTCGTATCTATTCGTGTATATCCATA
* *
18408906 TTAGTCGTGTCTATTTGTGTATATCCATA
1 TTAGTCGTATCTATTCGTGTATATCCATA
* *
18408935 TTATTCGTATTTATTC
1 TTAGTCGTATCTATTC
18408951 ATTTAGTGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (29 bp):
TTAGTCGTATCTATTCGTGTATATCCATA
Found at i:18410250 original size:20 final size:20
Alignment explanation
Indices: 18410225--18410273 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
18410215 TCAGTCCCTA
18410225 ATTATCTTTGCTAAATAATG
1 ATTATCTTTGCTAAATAATG
18410245 ATTATCTTTGCTAAATAATG
1 ATTATCTTTGCTAAATAATG
18410265 ATTATCTTT
1 ATTATCTTT
18410274 TATTACAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (20 bp):
ATTATCTTTGCTAAATAATG
Found at i:18413236 original size:24 final size:25
Alignment explanation
Indices: 18413161--18413241 Score: 94
Period size: 24 Copynumber: 3.3 Consensus size: 25
18413151 ATATTTTTTA
* **
18413161 AAATATAAAATTTATTTTTTAATAT
1 AAATATAAAATTAATTAATTAATAT
* *
18413186 AAATATAAAATTAAATAAAT-ATAT
1 AAATATAAAATTAATTAATTAATAT
18413210 AAATATAAAATTAATTAATTAAT-T
1 AAATATAAAATTAATTAATTAATAT
*
18413234 AAAAATAA
1 AAATATAA
18413242 TTGTTTATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 30 0.64
25 17 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAATATAAAATTAATTAATTAATAT
Found at i:18420977 original size:31 final size:32
Alignment explanation
Indices: 18420900--18420977 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 32
18420890 CTATAATTTA
* * *
18420900 TTTAAA-TTTATTATTAATTTATTATTGATAT
1 TTTAAATTTTATAATAAATTTATCATTGATAT
18420931 TATT--ATTTTGA-AATAAATTTATCATT-ATAT
1 T-TTAAATTTT-ATAATAAATTTATCATTGATAT
18420961 TTTAAATTTTATAATAA
1 TTTAAATTTTATAATAA
18420978 TTAAAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
29 2 0.05
30 7 0.18
31 26 0.68
32 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (32 bp):
TTTAAATTTTATAATAAATTTATCATTGATAT
Found at i:18421239 original size:13 final size:13
Alignment explanation
Indices: 18421221--18421246 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18421211 GCCATATTAT
18421221 TTTTAAAATTGTA
1 TTTTAAAATTGTA
18421234 TTTTAAAATTGTA
1 TTTTAAAATTGTA
18421247 ACACAGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TTTTAAAATTGTA
Found at i:18421566 original size:2 final size:2
Alignment explanation
Indices: 18421559--18421596 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18421549 AAATGATGAG
18421559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18421597 AGAAAAATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18429353 original size:16 final size:15
Alignment explanation
Indices: 18429300--18429364 Score: 60
Period size: 15 Copynumber: 4.1 Consensus size: 15
18429290 TCTCTCTCAC
*
18429300 ATAAATTTTT-GAAA
1 ATAAATTTTTAAAAA
*
18429314 ATGAATTTTTAAAAAA
1 ATAAATTTTT-AAAAA
*
18429330 TTATAAATCTTTTCAAAA
1 --ATAAAT-TTTTAAAAA
18429348 ATAAATTTTTAAAAA
1 ATAAATTTTTAAAAA
18429363 AT
1 AT
18429365 CATAAACTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 9 0.22
15 10 0.24
16 9 0.22
18 9 0.22
19 4 0.10
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATTTTTAAAAA
Found at i:18429383 original size:34 final size:33
Alignment explanation
Indices: 18429299--18429383 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 33
18429289 TTCTCTCTCA
*
18429299 CATAAA-TTTTTGAAAATGAATTTTTAAAAAAT
1 CATAAACTTTTTGAAAATAAATTTTTAAAAAAT
* **
18429331 TATAAATCTTTTCAAAAATAAATTTTTAAAAAAT
1 CATAAA-CTTTTTGAAAATAAATTTTTAAAAAAT
18429365 CATAAACTTTGTTGAAAAT
1 CATAAACTTT-TTGAAAAT
18429384 TCATTTATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 5 0.12
33 4 0.09
34 34 0.79
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (33 bp):
CATAAACTTTTTGAAAATAAATTTTTAAAAAAT
Found at i:18429549 original size:33 final size:33
Alignment explanation
Indices: 18429486--18429549 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
18429476 CATATGATTT
* * *
18429486 TTTTAAAATTTATTTTCGAAAAGGTTTATAAAG
1 TTTTAAAATTTATTTTAGAAAAGATATATAAAG
18429519 TTTTAAAATTTTATTTTAGAAAA-ATATATAA
1 TTTTAAAA-TTTATTTTAGAAAAGATATATAA
18429550 TTTTTTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 14 0.52
34 13 0.48
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (33 bp):
TTTTAAAATTTATTTTAGAAAAGATATATAAAG
Found at i:18429560 original size:18 final size:19
Alignment explanation
Indices: 18429538--18429579 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18429528 TTTATTTTAG
*
18429538 AAAAATA-TATAATTTTTT
1 AAAAATATTATAAATTTTT
*
18429556 GAAAA-ATTATAAATTTTT
1 AAAAATATTATAAATTTTT
18429574 AAAAAT
1 AAAAAT
18429580 TTGTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAAATATTATAAATTTTT
Found at i:18429586 original size:18 final size:18
Alignment explanation
Indices: 18429531--18429580 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
18429521 TTAAAATTTT
*
18429531 ATTTTAGAAAAATATATAA
1 ATTTTTGAAAAAT-TATAA
*
18429550 TTTTTTGAAAAATTATAA
1 ATTTTTGAAAAATTATAA
18429568 ATTTTT-AAAAATT
1 ATTTTTGAAAAATT
18429581 TGTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 7 0.25
18 10 0.36
19 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
ATTTTTGAAAAATTATAA
Found at i:18437797 original size:3 final size:3
Alignment explanation
Indices: 18437791--18437833 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
18437781 TCTTTTTTTA
* ** *
18437791 ATT ATT ATT ATT AAT ATT ATT ATT AAA ATT ATT ATT AAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18437834 AACTGAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:18437808 original size:12 final size:12
Alignment explanation
Indices: 18437788--18437833 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
18437778 TCTTCTTTTT
18437788 TTAATTATTATTA
1 TTAA-TATTATTA
18437801 TTAATATTATTA
1 TTAATATTATTA
*
18437813 TTAAAATTATTA
1 TTAATATTATTA
18437825 TTAATATTA
1 TTAATATTA
18437834 AACTGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 27 0.87
13 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:18437842 original size:24 final size:24
Alignment explanation
Indices: 18437794--18437843 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
18437784 TTTTTTAATT
* *
18437794 ATTATTATTAATATTATTATTAAA
1 ATTATTATTAATATTATAATGAAA
18437818 ATTATTATTAATATTA-AACTGAAA
1 ATTATTATTAATATTATAA-TGAAA
18437842 AT
1 AT
18437844 GAAGATAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTATTATTAATATTATAATGAAA
Found at i:18437999 original size:13 final size:12
Alignment explanation
Indices: 18437973--18438024 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
18437963 TTCTTAAAAG
* *
18437973 TTTTTCTTTCTT
1 TTTTTTTTTATT
18437985 TTTTTTTGTTATT
1 TTTTTTT-TTATT
18437998 TTTATTTTTTA-T
1 TTT-TTTTTTATT
*
18438010 TATTTTTTTATT
1 TTTTTTTTTATT
18438022 TTT
1 TTT
18438025 GAAAAGCTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 7 0.21
12 12 0.36
13 10 0.30
14 4 0.12
ACGTcount: A:0.10, C:0.04, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTATT
Found at i:18438023 original size:16 final size:15
Alignment explanation
Indices: 18437983--18438023 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
18437973 TTTTTCTTTC
*
18437983 TTTTTTTTTGTTATT
1 TTTTTTTTTATTATT
18437998 TTTATTTTTTATTATT
1 TTT-TTTTTTATTATT
18438014 TTTTTATTTT
1 TTTTT-TTTT
18438024 TGAAAAGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTATTATT
Found at i:18438190 original size:46 final size:49
Alignment explanation
Indices: 18438026--18438206 Score: 233
Period size: 49 Copynumber: 3.8 Consensus size: 49
18438016 TTTATTTTTG
* * *
18438026 AAAAGCTCTTCTCAATAGAGGCTCAACAATTTTAAAATTCTCATCTTGA
1 AAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGA
* * * * * *
18438075 AAGAGCTCCTCTCAACAGATGTTTAATAACTTTAAAATTCTCATCTTGG
1 AAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGA
*
18438124 AAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAA-T-TC-TCTTGA
1 AAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGA
**
18438170 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAA
1 AAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
18438207 AATTTTCATC
Statistics
Matches: 113, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
46 39 0.35
47 2 0.02
48 1 0.01
49 71 0.63
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (49 bp):
AAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGA
Found at i:18450995 original size:19 final size:19
Alignment explanation
Indices: 18450964--18451009 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
18450954 ATCCAGTTAC
18450964 CACCGGATGCCATCGTCGGT
1 CACCGG-TGCCATCGTCGGT
18450984 CACCGGTGCCATCGTCGGT
1 CACCGGTGCCATCGTCGGT
*
18451003 TACCGGT
1 CACCGGT
18451010 AAGTGTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.13, C:0.35, G:0.30, T:0.22
Consensus pattern (19 bp):
CACCGGTGCCATCGTCGGT
Found at i:18451574 original size:3 final size:3
Alignment explanation
Indices: 18451568--18451612 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
18451558 TTTTTTAATT
** *
18451568 TTA TTA TTA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18451613 AACTGAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:18454909 original size:168 final size:168
Alignment explanation
Indices: 18454626--18454948 Score: 515
Period size: 168 Copynumber: 1.9 Consensus size: 168
18454616 GGATGTTTAG
* * * *
18454626 CTACCAGTCTAATGCTCCCATTCAATCTGATTAGATTCTTTCCTAACATTTGCCTGTTGAAACTA
1 CTACCAGTCTAATGCCCCCATTCAATCTGATTAGAGTCTCTCCTAACATTCGCCTGTTGAAACTA
* *
18454691 ACAAAAGGCTGCTCACACTTACATTAAAAAAAAATGCAAGTAATTTGCACCACAAAAACATGATT
66 ACAAAAGGCTGCTCACACGTACATTAAAAAAAAATGCAAGTAAATTGCACCACAAAAACATGATT
*
18454756 TTTATTTTCACATGAATTTACATATGTTATTGAATTAA
131 TTTATTTTCACATGAATTAACATATGTTATTGAATTAA
* *
18454794 CTACCAGTCTAATGCCCCCATTCAATCTGTTTAGAGTCTCTCCTAACCTTCGCCTGTTGAAA-TC
1 CTACCAGTCTAATGCCCCCATTCAATCTGATTAGAGTCTCTCCTAACATTCGCCTGTTGAAACT-
* *
18454858 AACTAAAGGCTGCTGCACACGTACATT-AAAAAAAATGCAAGTAAATTGCACCCCAAAAACATGA
65 AACAAAAGGCTGCT-CACACGTACATTAAAAAAAAATGCAAGTAAATTGCACCACAAAAACATGA
18454922 TTTTTATTTTCACATGAATTAACATAT
129 TTTTTATTTTCACATGAATTAACATAT
18454949 TCCTATTCAA
Statistics
Matches: 142, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
167 1 0.01
168 130 0.92
169 11 0.08
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (168 bp):
CTACCAGTCTAATGCCCCCATTCAATCTGATTAGAGTCTCTCCTAACATTCGCCTGTTGAAACTA
ACAAAAGGCTGCTCACACGTACATTAAAAAAAAATGCAAGTAAATTGCACCACAAAAACATGATT
TTTATTTTCACATGAATTAACATATGTTATTGAATTAA
Found at i:18458880 original size:2 final size:2
Alignment explanation
Indices: 18458869--18458920 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
18458859 TATTATTAAA
* * * *
18458869 AT AT AT -T AT AT AT GT AT GAT AT AC AC AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
18458911 AT AT AT AT AT
1 AT AT AT AT AT
18458921 CCTATAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:18462683 original size:16 final size:16
Alignment explanation
Indices: 18462659--18462747 Score: 51
Period size: 16 Copynumber: 5.8 Consensus size: 16
18462649 TCTCATTCCT
*
18462659 AAACTCTAAAACCTCA
1 AAACCCTAAAACCTCA
* *
18462675 AAACCCT-AAATCTCG
1 AAACCCTAAAACCTCA
* *
18462690 AAATCCTAAAA-CACA
1 AAACCCTAAAACCTCA
* *
18462705 AAA-CCTAAAACTTCG
1 AAACCCTAAAACCTCA
**
18462720 AAACTTTAAAA-CTCCA
1 AAACCCTAAAACCT-CA
*
18462736 AAACCTTAAAAC
1 AAACCCTAAAAC
18462748 GAGATCCTAA
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
14 7 0.13
15 22 0.41
16 25 0.46
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (16 bp):
AAACCCTAAAACCTCA
Found at i:18462709 original size:30 final size:31
Alignment explanation
Indices: 18462664--18462747 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 31
18462654 TTCCTAAACT
* *
18462664 CTAAAACCTCAAAACCCTAAATC-TCGAAATC
1 CTAAAACCACAAAA-CCTAAAACTTCGAAATC
18462695 CTAAAA-CACAAAACCTAAAACTTCGAAA-C
1 CTAAAACCACAAAACCTAAAACTTCGAAATC
*
18462724 TTTAAAACTC-CAAAACCTTAAAAC
1 -CTAAAAC-CACAAAACC-TAAAAC
18462748 GAGATCCTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
29 8 0.18
30 17 0.38
31 13 0.29
32 7 0.16
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (31 bp):
CTAAAACCACAAAACCTAAAACTTCGAAATC
Found at i:18466026 original size:106 final size:107
Alignment explanation
Indices: 18465913--18466112 Score: 278
Period size: 106 Copynumber: 1.9 Consensus size: 107
18465903 GATAACAATA
* * *
18465913 AAAAAATTATAATTATTAAAATTTAAATTTTAAATTTA-TAATATGTTATTTTTAAAAATAATTA
1 AAAAAATTATAATTACTAAAATTTAAATCTTAAATTTATTAA-ATGTTACTTTTAAAAATAATTA
* *
18465977 TA-AAATTAATTGAATTAAGTATCAAATTTTTTTTACATATAT
65 AATAAATTAATTGAATTAAATATCAAATTTTTTTTACATATAT
** * *
18466019 AAAAAATTATAATTACTAGGATTTGAATCTTAAATTTATTGAATGTTACTTTTAAAAATAATTAA
1 AAAAAATTATAATTACTAAAATTTAAATCTTAAATTTATTAAATGTTACTTTTAAAAATAATTAA
* *
18466084 ATAAATTAATTGAGTTAAATATTAAATTT
66 ATAAATTAATTGAATTAAATATCAAATTT
18466113 ATATATATCA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
106 55 0.68
107 26 0.32
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (107 bp):
AAAAAATTATAATTACTAAAATTTAAATCTTAAATTTATTAAATGTTACTTTTAAAAATAATTAA
ATAAATTAATTGAATTAAATATCAAATTTTTTTTACATATAT
Found at i:18467461 original size:23 final size:24
Alignment explanation
Indices: 18467435--18467488 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
18467425 TCGATTAAGT
18467435 TCGATTAATATA-TAAA-AATAAAC
1 TCGATTAATATATTAAATAA-AAAC
**
18467458 TCGATTCTTATATTAAATAAAAAC
1 TCGATTAATATATTAAATAAAAAC
18467482 TCGATTA
1 TCGATTA
18467489 TTTGTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 10 0.38
24 14 0.54
25 2 0.08
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (24 bp):
TCGATTAATATATTAAATAAAAAC
Found at i:18468739 original size:2 final size:2
Alignment explanation
Indices: 18468734--18468771 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
18468724 AAACGATCGT
* *
18468734 GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
18468772 CAAAACGATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18474982 original size:34 final size:32
Alignment explanation
Indices: 18474924--18474987 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
18474914 ATAAAATTTA
*
18474924 ATTCAAATAAAATTAATTTTAAAATATTATTG
1 ATTCAAATAAAATTAATTTAAAAATATTATTG
* *
18474956 ATTCAAATTCAAATTAAATTTAAAAATTTTAT
1 ATTCAAA-TAAAATT-AATTTAAAAATATTAT
18474988 AATATTATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 7 0.26
33 6 0.22
34 14 0.52
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (32 bp):
ATTCAAATAAAATTAATTTAAAAATATTATTG
Found at i:18486808 original size:80 final size:80
Alignment explanation
Indices: 18486675--18486833 Score: 282
Period size: 80 Copynumber: 2.0 Consensus size: 80
18486665 ATAGTTATTG
18486675 CTTCTCAATCTTATTTGATCCAATTATGGAAGTTCTTAATTATGGGCATTTCAAGCTTTAAGCTT
1 CTTCTCAATCTTATTTGATCCAATTATGGAAGTTCTTAATTATGGGCATTTCAAGCTTTAAGCTT
18486740 TACTTGACACTAACA
66 TACTTGACACTAACA
* * * *
18486755 CTTCTCAATCTTATTTGTTCCAATTATGGAAGTTCTTAATTGTGGGCGTTTCAAGCTTTAAGTTT
1 CTTCTCAATCTTATTTGATCCAATTATGGAAGTTCTTAATTATGGGCATTTCAAGCTTTAAGCTT
18486820 TACTTGACACTAAC
66 TACTTGACACTAAC
18486834 CCTTTGGAAC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (80 bp):
CTTCTCAATCTTATTTGATCCAATTATGGAAGTTCTTAATTATGGGCATTTCAAGCTTTAAGCTT
TACTTGACACTAACA
Found at i:18490538 original size:20 final size:20
Alignment explanation
Indices: 18490495--18490532 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18490485 TTTTATTTGG
*
18490495 ATTAAAAATTAAAATTTTAA
1 ATTAAAAAGTAAAATTTTAA
*
18490515 ATTAAAAAGTCAAATTTT
1 ATTAAAAAGTAAAATTTT
18490533 TTATTATTTA
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:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTAAAAAGTAAAATTTTAA
Found at i:18493726 original size:13 final size:13
Alignment explanation
Indices: 18493708--18493735 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18493698 TATGCTTTCC
18493708 TTTTTTCACTTTT
1 TTTTTTCACTTTT
18493721 TTTTTTCACTTTT
1 TTTTTTCACTTTT
18493734 TT
1 TT
18493736 GAGACATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTCACTTTT
Found at i:18503755 original size:30 final size:29
Alignment explanation
Indices: 18503721--18503778 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
18503711 TAAGGGTTTA
18503721 ATTGAGTCAAAATAAAAGATTAAAAATTTG
1 ATTGA-TCAAAATAAAAGATTAAAAATTTG
* * *
18503751 ATTGATTATAATAAAATATTAAAAATTT
1 ATTGATCAAAATAAAAGATTAAAAATTT
18503779 AAATGATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (29 bp):
ATTGATCAAAATAAAAGATTAAAAATTTG
Found at i:18503771 original size:29 final size:29
Alignment explanation
Indices: 18503731--18503788 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
18503721 ATTGAGTCAA
* *
18503731 AATAAAAGATTAAAAATTTGATTGATTAT
1 AATAAAAGATTAAAAATTTAAATGATTAT
*
18503760 AATAAAATATTAAAAATTTAAATGATTAT
1 AATAAAAGATTAAAAATTTAAATGATTAT
18503789 TGAATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (29 bp):
AATAAAAGATTAAAAATTTAAATGATTAT
Found at i:18509733 original size:18 final size:18
Alignment explanation
Indices: 18509707--18509746 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18509697 ATGCATTCTC
* *
18509707 AAAAATTCATTTATTATT
1 AAAAATTCAATAATTATT
*
18509725 AAAAGTTCAATAATTATT
1 AAAAATTCAATAATTATT
18509743 AAAA
1 AAAA
18509747 TTATTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAAATTCAATAATTATT
Found at i:18519747 original size:21 final size:22
Alignment explanation
Indices: 18519700--18519749 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
18519690 TATAAAAATA
* *
18519700 TAAAATATATTTTTAATTTTAT
1 TAAAATTTATTTATAATTTTAT
18519722 T-AAATTTATTTATAATTTT-T
1 TAAAATTTATTTATAATTTTAT
18519742 TAAAATTT
1 TAAAATTT
18519750 TAATTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 22 0.88
22 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TAAAATTTATTTATAATTTTAT
Found at i:18520298 original size:26 final size:26
Alignment explanation
Indices: 18520269--18520320 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
18520259 ATAAATAAAT
18520269 AAATTTAATAAATTATAAAT-TATTTA
1 AAATTT-ATAAATTATAAATATATTTA
* *
18520295 AAATTTTTAAATTTTAAATATATTTA
1 AAATTTATAAATTATAAATATATTTA
18520321 TTTAAAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
AAATTTATAAATTATAAATATATTTA
Found at i:18520548 original size:41 final size:38
Alignment explanation
Indices: 18520433--18520548 Score: 92
Period size: 41 Copynumber: 2.9 Consensus size: 38
18520423 TAATAATCTA
* * *
18520433 AATATTTAT-TTTTAAAATTTAAAATTTTCAAATATAAT
1 AATATTTATCTTTTAAAA-TTAAATTTTTAAAATTTAAT
* * * *
18520471 AATATATTATCCTTTACAA-TGAATTTCATAATAATTTAAAT
1 AATAT-TTATCTTTTAAAATTAAATTT-TTAA-AATTT-AAT
18520512 ATATATTTATCTTTTAAAATTAAATTTTTAACAATTT
1 A-ATATTTATCTTTTAAAATTAAATTTTTAA-AATTT
18520549 TGATAAATAT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
38 10 0.17
39 6 0.10
40 10 0.17
41 23 0.39
42 10 0.17
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (38 bp):
AATATTTATCTTTTAAAATTAAATTTTTAAAATTTAAT
Found at i:18520970 original size:20 final size:21
Alignment explanation
Indices: 18520932--18520971 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
18520922 GCCTAATTGA
18520932 TAATTTGATAACACATTTAAT
1 TAATTTGATAACACATTTAAT
18520953 TAATTATGAT-AC-CATTTAA
1 TAATT-TGATAACACATTTAA
18520972 AATTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (21 bp):
TAATTTGATAACACATTTAAT
Found at i:18521922 original size:30 final size:30
Alignment explanation
Indices: 18521854--18521959 Score: 90
Period size: 30 Copynumber: 3.6 Consensus size: 30
18521844 AATAAACATG
* *
18521854 AACTAAATTTTTTAAAAAATAATATTATAAG
1 AACTAAATTTCTT-AAAAATAATATTATAAA
*** * *
18521885 GGTTAAATTTCTTAAAAATAATATTACAAT
1 AACTAAATTTCTTAAAAATAATATTATAAA
* * * *
18521915 AACTAAATTTATT-TAAGTAATACTATAAA
1 AACTAAATTTCTTAAAAATAATATTATAAA
18521944 AACTAAATTTC-TAAAA
1 AACTAAATTTCTTAAAA
18521960 TCGAAGAATA
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
28 1 0.02
29 23 0.40
30 24 0.42
31 9 0.16
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.38
Consensus pattern (30 bp):
AACTAAATTTCTTAAAAATAATATTATAAA
Found at i:18523587 original size:34 final size:34
Alignment explanation
Indices: 18523544--18523612 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
18523534 CAGCTAAGGC
18523544 TTTGTCAATCTGAGTCAGAACCTACGCAAACGCA
1 TTTGTCAATCTGAGTCAGAACCTACGCAAACGCA
18523578 TTTGTCAATCTGAGTCAGAACCTACGCAAACGCA
1 TTTGTCAATCTGAGTCAGAACCTACGCAAACGCA
18523612 T
1 T
18523613 CATTGCTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (34 bp):
TTTGTCAATCTGAGTCAGAACCTACGCAAACGCA
Done.