Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003452.1 Hibiscus syriacus cultivar Beakdansim tig00007299_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: 178458
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:4245 original size:31 final size:31
Alignment explanation
Indices: 4207--4362 Score: 253
Period size: 31 Copynumber: 5.0 Consensus size: 31
4197 AGGGTCGAGG
4207 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4238 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4269 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4300 GTTTACCTATG-TCTTTCGGGACATATGGACT
1 GTTTACCTATGTTC-TTCGGGACATATGGACT
* * *
4331 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
4362 G
1 G
4363 GTCCTTCGGG
Statistics
Matches: 119, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
30 2 0.02
31 114 0.96
32 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:8596 original size:18 final size:18
Alignment explanation
Indices: 8569--8623 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
8559 AAGAAGAAAT
8569 AAAA-GAGAAAAAATGAA
1 AAAATGAGAAAAAATGAA
8586 AAAATGAGAAAAAA-G-A
1 AAAATGAGAAAAAATGAA
8602 AAAATGATGGAAAAAATGAA
1 AAAATGA--GAAAAAATGAA
8622 AA
1 AA
8624 GAAAAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 8 0.24
17 5 0.15
18 16 0.48
19 1 0.03
20 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAATGAGAAAAAATGAA
Found at i:8628 original size:12 final size:13
Alignment explanation
Indices: 8611--8648 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
8601 AAAAATGATG
8611 GAAAAAATGAAAA
1 GAAAAAATGAAAA
8624 GAAAAAA--AAGAA
1 GAAAAAATGAA-AA
8636 GAAAAAATGAAAA
1 GAAAAAATGAAAA
8649 AGGGAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.09
12 9 0.41
13 9 0.41
14 2 0.09
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (13 bp):
GAAAAAATGAAAA
Found at i:8655 original size:19 final size:19
Alignment explanation
Indices: 8633--8678 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
8623 AGAAAAAAAA
8633 GAAGAAAAAATGAAAAAGG
1 GAAGAAAAAATGAAAAAGG
* * *
8652 GAAGGAAAAATGGAAAATG
1 GAAGAAAAAATGAAAAAGG
8671 GAA-AAAAA
1 GAAGAAAAA
8679 GAAAAATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (19 bp):
GAAGAAAAAATGAAAAAGG
Found at i:8677 original size:61 final size:60
Alignment explanation
Indices: 8557--8698 Score: 146
Period size: 61 Copynumber: 2.3 Consensus size: 60
8547 ATATTTTGCT
* * *
8557 TGAAGAAGAAATAAAAG-AGAAAAAATGAAAAAATGAGAAAAAAGAAAAATGATGGAAAAAA
1 TGAA-AAGAAAAAAAAGAAGAAAAAATGAAAAAAGGAGAAAAAAGAAAAATGA-GAAAAAAA
* * *
8618 TGAAAAGAAAAAAAAGAAGAAAAAATGAAAAAGGGAAGGAAAAATGGAAAATG-GAAAAAAA
1 TGAAAAGAAAAAAAAGAAGAAAAAATGAAAAAAGG-A-GAAAAAAGAAAAATGAGAAAAAAA
8679 -GAAAAATGAAAAAAAGAGAA
1 TG-AAAA-GAAAAAAA-AGAA
8699 ATAAAAGGAG
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
60 12 0.17
61 31 0.45
62 9 0.13
63 17 0.25
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (60 bp):
TGAAAAGAAAAAAAAGAAGAAAAAATGAAAAAAGGAGAAAAAAGAAAAATGAGAAAAAAA
Found at i:8692 original size:8 final size:8
Alignment explanation
Indices: 8575--8649 Score: 62
Period size: 8 Copynumber: 8.8 Consensus size: 8
8565 AAATAAAAGA
8575 GAAAAAAT
1 GAAAAAAT
8583 GAAAAAAT
1 GAAAAAAT
*
8591 GAGAAAAAA
1 GA-AAAAAT
8600 GAAAAATGAT
1 GAAAAA--AT
8610 GGAAAAAAT
1 -GAAAAAAT
8619 GAAAAGAA-
1 GAAAA-AAT
* *
8627 AAAAAAGAA
1 GAAAAA-AT
8636 GAAAAAAT
1 GAAAAAAT
8644 GAAAAA
1 GAAAAA
8650 GGGAAGGAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
7 1 0.02
8 31 0.56
9 16 0.29
10 1 0.02
11 6 0.11
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (8 bp):
GAAAAAAT
Found at i:10064 original size:24 final size:24
Alignment explanation
Indices: 10037--10143 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
10027 AAACGGAGAT
*
10037 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
10061 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
10085 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
10109 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
10133 ATCAGAAATCA
1 ATCAGAAATCA
10144 GATAAAATAT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:10143 original size:48 final size:48
Alignment explanation
Indices: 10037--10145 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
10027 AAACGGAGAT
* * * *
10037 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
10085 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
10133 ATCAGAAATCAGA
1 ATCAGAAATCAGA
10146 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:12616 original size:7 final size:7
Alignment explanation
Indices: 12604--12642 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
12594 TGGTCAACTC
12604 CGGTCAA
1 CGGTCAA
12611 CGGTCAA
1 CGGTCAA
12618 CGGTCAA
1 CGGTCAA
12625 CGGGTCAA
1 C-GGTCAA
12633 CGGTCAA
1 CGGTCAA
12640 CGG
1 CGG
12643 GTCGGGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:12632 original size:15 final size:15
Alignment explanation
Indices: 12604--12658 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
12594 TGGTCAACTC
12604 CGGTCAAC-GGTCAA
1 CGGTCAACGGGTCAA
12618 CGGTCAACGGGTCAA
1 CGGTCAACGGGTCAA
12633 CGGTCAACGGGTC--
1 CGGTCAACGGGTCAA
*
12646 GGGTCAACGGGTC
1 CGGTCAACGGGTC
12659 GGGTGAGGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
13 12 0.31
14 8 0.21
15 19 0.49
ACGTcount: A:0.22, C:0.27, G:0.36, T:0.15
Consensus pattern (15 bp):
CGGTCAACGGGTCAA
Found at i:12687 original size:30 final size:30
Alignment explanation
Indices: 12634--12708 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
12624 ACGGGTCAAC
*
12634 GGTCAACGGGTCGGGTCAACGGGTCGGGT-G
1 GGTCAACGGGTC-GGTAAACGGGTCGGGTCG
12664 AGGTCAACGGGTCGGTAAACGGGTCGGGTCG
1 -GGTCAACGGGTCGGTAAACGGGTCGGGTCG
12695 GGTCAACGGGTCGG
1 GGTCAACGGGTCGG
12709 GTCGGGTTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 29 0.69
31 13 0.31
ACGTcount: A:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (30 bp):
GGTCAACGGGTCGGTAAACGGGTCGGGTCG
Found at i:12711 original size:13 final size:13
Alignment explanation
Indices: 12619--12693 Score: 62
Period size: 13 Copynumber: 5.3 Consensus size: 13
12609 AACGGTCAAC
*
12619 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
12634 GGTCAACGGGTCG
1 GGTCAACGGGTCG
12647 GGTCAACGGGTCGGGTG
1 GGTCAACGGGTC----G
12664 AGGTCAACGGGTC-
1 -GGTCAACGGGTCG
*
12677 GGTAAACGGGTCG
1 GGTCAACGGGTCG
12690 GGTC
1 GGTC
12694 GGGTCAACGG
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
12 11 0.22
13 15 0.29
15 12 0.24
17 1 0.02
18 12 0.24
ACGTcount: A:0.19, C:0.21, G:0.44, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:12711 original size:18 final size:18
Alignment explanation
Indices: 12640--12715 Score: 85
Period size: 18 Copynumber: 4.6 Consensus size: 18
12630 CAACGGTCAA
12640 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
12658 CGGGT-GAGGTCAA-----
1 CGGGTCG-GGTCAACGGGT
*
12671 CGGGTC-GGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
12688 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
12706 CGGGTCGGGT
1 CGGGTCGGGT
12716 TGTGACCGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
12 5 0.10
13 5 0.10
17 7 0.15
18 31 0.65
ACGTcount: A:0.13, C:0.20, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:14359 original size:55 final size:54
Alignment explanation
Indices: 14225--14749 Score: 529
Period size: 55 Copynumber: 9.7 Consensus size: 54
14215 TTTATGAAGA
* * *
14225 TCGAG-TCTTATACTCTCTGAAGGAATAGGGAGCGGACATGTTTGTTAAAGA--T
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATTT
* * *
14277 T-GAGTCCTATACTCTCTGAAAGAATAGGGAGCAGACCTGTTTATTGAAGATTT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATTT
* *
14330 TCCAAGTTCTATACTCTCTGAAAGAATAGGGAGCGGACCTGTTTATTGAAGATTT
1 T-CGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATTT
* *
14385 TCCGAGTTCTATACTTTCTGAAAGAATAGGGAGCGGACCTGTTTATTGAAGATTT
1 T-CGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATTT
** * * * *
14440 TCCGAGTTCTATACTCTCTGAATAAATAGAGAGCGGACCCGTTTTATGGAAAATTGT
1 T-CGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCTG-TTTATTGAAGATT-T
* *
14497 TCAAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAC-GTTTATTGAAGA---
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGAC-CTGTTTATTGAAGATTT
* * *
14548 TCGAG-TCTTATACTCTCTGAAGGAATATGGAGCGGACCCGATTATTGAAGATTAT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATT-T
* * * *
14603 TCGAGTTCTATACTCTCTGAAGGAATAGAGACCGGACCCGTTTGTTGAAGATTAT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATT-T
* * * *
14658 TTGAG-TCTTATACTCTCTGAATGAATAGAGAGCAGACACAT-TTTA-TGAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGAC-C-TGTTTATTGAAGATT-T
* * *
14713 TCGAG-TCTTTACT-TCCTGAAGGAATGGGGAGCAGACC
1 TCGAGTTCTATACTCT-CTGAAGGAATAGGGAGCGGACC
14750 CGCCATTTGA
Statistics
Matches: 408, Mismatches: 46, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
50 2 0.00
51 84 0.21
52 2 0.00
53 4 0.01
54 25 0.06
55 239 0.59
56 49 0.12
57 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (54 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCTGTTTATTGAAGATTT
Found at i:27070 original size:43 final size:43
Alignment explanation
Indices: 26950--27079 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
26940 CTAAAGTTCA
* * ** * *
26950 CGGCGTTTGTTAACGAAAAACGCCGCAATAGGTGACGATATATAG
1 CGGCGTTTGTTGA--AAAAACGACGCAATAGGTGTTGCTATTTAG
*
26995 CGGCGTTTGTTGAAAAAACGCCGCAATAGGTGTTGCTATTTAG
1 CGGCGTTTGTTGAAAAAACGACGCAATAGGTGTTGCTATTTAG
* *
27038 CGGCGTTTGTCT-TAAAAATGACGCAATAGGTGTTGCTATTTA
1 CGGCGTTTGT-TGAAAAAACGACGCAATAGGTGTTGCTATTTA
27080 ACTCTGATAA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 63 0.83
44 1 0.01
45 12 0.16
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
CGGCGTTTGTTGAAAAAACGACGCAATAGGTGTTGCTATTTAG
Found at i:31539 original size:2 final size:2
Alignment explanation
Indices: 31532--31578 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
31522 TTTGACTTCT
31532 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31574 TA TA T
1 TA TA T
31579 TATTTTTGGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31892 original size:49 final size:49
Alignment explanation
Indices: 31833--32138 Score: 266
Period size: 49 Copynumber: 6.2 Consensus size: 49
31823 GTGCATTCCG
** * * *
31833 TTGCTCTTCAGGGTAGGTCAGATTAGGAAAAGAAGGGTGATATGCTCTA
1 TTGCTCTTCAGGGTAGGTCAGATTAGGAAAAGAAATGAGATTTGCTCCA
* * *
31882 TTGCTATTCAGGGTAGGTCAGATGAGGAAAAGAAATGAGATTTGCTCCG
1 TTGCTCTTCAGGGTAGGTCAGATTAGGAAAAGAAATGAGATTTGCTCCA
* * * * *
31931 TTTCTCTTCACGGTAGGTTAGATT-GAAAAAAGAAATGAGATATGCTCCGA
1 TTGCTCTTCAGGGTAGGTCAGATTAG-GAAAAGAAATGAGATTTGCTCC-A
* * ** *
31981 -TGCTCTTCAAGGTAGGTTAGATCGGGAAAAG-AATGAGGATTTGCTCCG
1 TTGCTCTTCAGGGTAGGTCAGATTAGGAAAAGAAATGA-GATTTGCTCCA
* * * * *
32029 TTGCTCTTAAGGGCAGGTTAGA-TCGAGAAAAGAATTGAGATTTGCTCTGC-
1 TTGCTCTTCAGGGTAGGTCAGATTAG-GAAAAGAAATGAGATTTGCTC--CA
* * *
32079 TT-CTCTTCAGGGTAGGTCAGATCAGGAAAAG-AATGGTGATCTGCTCCA
1 TTGCTCTTCAGGGTAGGTCAGATTAGGAAAAGAAAT-GAGATTTGCTCCA
32127 TTGCTCTTCAGG
1 TTGCTCTTCAGG
32139 AAAAGAAGTG
Statistics
Matches: 208, Mismatches: 36, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
47 1 0.00
48 11 0.05
49 187 0.90
50 8 0.04
51 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (49 bp):
TTGCTCTTCAGGGTAGGTCAGATTAGGAAAAGAAATGAGATTTGCTCCA
Found at i:32009 original size:98 final size:99
Alignment explanation
Indices: 31829--32138 Score: 337
Period size: 98 Copynumber: 3.2 Consensus size: 99
31819 AGGGGTGCAT
* ** * * *
31829 TCCGTTGCTCTTCAGGGTAGGTCAGATT-AGGAAAAGAAGGGTGATATGCT-CTATTGCTATTCA
1 TCCGTTGCTCTTCAGGGTAGGTTAGATTGA-GAAAAGAAATGAGATATGCTCCGA-TGCTCTTCA
31892 GGGTAGGTCAGAT-GAGGAAAAGAAATGA-GATTTGC
64 GGGTAGGTCAGATCG-GGAAAAGAAATGAGGATTTGC
* * * *
31927 TCCGTTTCTCTTCACGGTAGGTTAGATTGAAAAAAGAAATGAGATATGCTCCGATGCTCTTCAAG
1 TCCGTTGCTCTTCAGGGTAGGTTAGATTGAGAAAAGAAATGAGATATGCTCCGATGCTCTTCAGG
*
31992 GTAGGTTAGATCGGGAAAAG-AATGAGGATTTGC
66 GTAGGTCAGATCGGGAAAAGAAATGAGGATTTGC
* * * * * * * *
32025 TCCGTTGCTCTTAAGGGCAGGTTAGATCGAGAAAAGAATTGAGATTTGCTCTGCTTCTCTTCAGG
1 TCCGTTGCTCTTCAGGGTAGGTTAGATTGAGAAAAGAAATGAGATATGCTCCGATGCTCTTCAGG
* *
32090 GTAGGTCAGATCAGGAAAAG-AATG-GTGATCTGC
66 GTAGGTCAGATCGGGAAAAGAAATGAG-GATTTGC
*
32123 TCCATTGCTCTTCAGG
1 TCCGTTGCTCTTCAGG
32139 AAAAGAAGTG
Statistics
Matches: 179, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
97 6 0.03
98 169 0.94
99 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (99 bp):
TCCGTTGCTCTTCAGGGTAGGTTAGATTGAGAAAAGAAATGAGATATGCTCCGATGCTCTTCAGG
GTAGGTCAGATCGGGAAAAGAAATGAGGATTTGC
Found at i:32059 original size:147 final size:147
Alignment explanation
Indices: 31829--32100 Score: 350
Period size: 147 Copynumber: 1.9 Consensus size: 147
31819 AGGGGTGCAT
* * * * * *
31829 TCCGTTGCTCTTCAGGGTAGGTCAGATTAGGAAAAGAAGGGTGATATGCTCTATTGCTATTCAGG
1 TCCGATGCTCTTCAAGGTAGGTCAGATCAGGAAAAGAAGAGTGATATGCTCCATTGCTATTAAGG
* * *
31894 GTAGGTCAGATGAGGAAAAGAAATGAGATTTGCTCCGTTTCTCTTCACGGTAGGTTAGATTGAAA
66 GCAGGTCAGATGAGGAAAAGAAATGAGATTTGCTCCGCTTCTCTTCACGGTAGGTCAGATTGAAA
31959 AAAGAAATGAGATATGC
131 AAAGAAATGAGATATGC
* * * * *
31976 TCCGATGCTCTTCAAGGTAGGTTAGATCGGGAAAAGAATGAG-GATTTGCTCCGTTGCTCTTAAG
1 TCCGATGCTCTTCAAGGTAGGTCAGATCAGGAAAAGAA-GAGTGATATGCTCCATTGCTATTAAG
* * * *
32040 GGCAGGTTAGATCGA-GAAAAGAATTGAGATTTGCTCTGCTTCTCTTCAGGGTAGGTCAGAT
65 GGCAGGTCAGAT-GAGGAAAAGAAATGAGATTTGCTCCGCTTCTCTTCACGGTAGGTCAGAT
32101 CAGGAAAAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
147 101 0.96
148 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (147 bp):
TCCGATGCTCTTCAAGGTAGGTCAGATCAGGAAAAGAAGAGTGATATGCTCCATTGCTATTAAGG
GCAGGTCAGATGAGGAAAAGAAATGAGATTTGCTCCGCTTCTCTTCACGGTAGGTCAGATTGAAA
AAAGAAATGAGATATGC
Found at i:32109 original size:147 final size:147
Alignment explanation
Indices: 31829--32136 Score: 338
Period size: 147 Copynumber: 2.1 Consensus size: 147
31819 AGGGGTGCAT
* * * * * *
31829 TCCGTTGCTCTTCAGGGTAGGTCAGATTAGGAAAAGAAGGGTGATATGCTCTATTGCTATTCAGG
1 TCCGATGCTCTTCAAGGTAGGTCAGATCAGGAAAAGAAGAGTGATATGCTCCATTGCTATTAAGG
* * * *
31894 GTAGGTCAGATGAGGAAAAGAAATGAGATTTGCTCCGTTTCTCTTCACGGTAGGTTAGATTGAAA
66 GCAGGTCAGATGAGGAAAAGAAATGAGATTTGCTCCGCTTCTCTTCACGGTAGGTCAGATAGAAA
31959 AAAGAAAT-GAGATATGC
131 AAAG-AATGGAGATATGC
* * * * *
31976 TCCGATGCTCTTCAAGGTAGGTTAGATCGGGAAAAGAATGAG-GATTTGCTCCGTTGCTCTTAAG
1 TCCGATGCTCTTCAAGGTAGGTCAGATCAGGAAAAGAA-GAGTGATATGCTCCATTGCTATTAAG
* * * *
32040 GGCAGGTTAGATCGA-GAAAAGAATTGAGATTTGCTCTGCTTCTCTTCAGGGTAGGTCAGATCAG
65 GGCAGGTCAGAT-GAGGAAAAGAAATGAGATTTGCTCCGCTTCTCTTCACGGTAGGTCAGAT-AG
* * *
32104 -GAAAAGAATGGTGATCTGC
128 AAAAAAGAATGGAGATATGC
32123 TCC-ATTGCTCTTCA
1 TCCGA-TGCTCTTCA
32137 GGAAAAGAAG
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
146 4 0.03
147 125 0.93
148 5 0.04
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (147 bp):
TCCGATGCTCTTCAAGGTAGGTCAGATCAGGAAAAGAAGAGTGATATGCTCCATTGCTATTAAGG
GCAGGTCAGATGAGGAAAAGAAATGAGATTTGCTCCGCTTCTCTTCACGGTAGGTCAGATAGAAA
AAAGAATGGAGATATGC
Found at i:32847 original size:29 final size:29
Alignment explanation
Indices: 32805--32864 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
32795 TCTGTAGACC
32805 AGTATGTAGTTGACATTGTTGCAGTTCAA
1 AGTATGTAGTTGACATTGTTGCAGTTCAA
32834 AGTATGTAGTTGACATTGTTGCAGTTCAA
1 AGTATGTAGTTGACATTGTTGCAGTTCAA
32863 AG
1 AG
32865 CGTAGTAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (29 bp):
AGTATGTAGTTGACATTGTTGCAGTTCAA
Found at i:33497 original size:26 final size:27
Alignment explanation
Indices: 33462--33513 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
33452 TTTAGACTGT
33462 TGTTAAAGAAA-ATGCACGTGTATTGC
1 TGTTAAAGAAATATGCACGTGTATTGC
33488 TGTTAAAGAAATATGCACGTGTATTG
1 TGTTAAAGAAATATGCACGTGTATTG
33514 AATAGGCGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (27 bp):
TGTTAAAGAAATATGCACGTGTATTGC
Found at i:47234 original size:24 final size:24
Alignment explanation
Indices: 47207--47255 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47197 CCTGGATGAA
47207 ACCACTAGAATGATCATGTTGCCC
1 ACCACTAGAATGATCATGTTGCCC
47231 ACCACTAGAATGATCATGTTGCCC
1 ACCACTAGAATGATCATGTTGCCC
47255 A
1 A
47256 TTAGCATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (24 bp):
ACCACTAGAATGATCATGTTGCCC
Found at i:48581 original size:21 final size:20
Alignment explanation
Indices: 48554--48652 Score: 63
Period size: 21 Copynumber: 4.8 Consensus size: 20
48544 AATCAGTTTC
48554 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
48575 GAAAATCGCAATGGGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* ** *
48596 CAAATTCGCATTGCGATTATC
1 CAAAATCGCAACGCGATT-TT
* *
48617 CAAAATCGCAACGCGAATAT
1 CAAAATCGCAACGCGATTTT
*
48637 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
48653 ACACATAAAT
Statistics
Matches: 58, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
20 15 0.26
21 43 0.74
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:48643 original size:20 final size:20
Alignment explanation
Indices: 48619--48928 Score: 334
Period size: 20 Copynumber: 15.5 Consensus size: 20
48609 CGATTATCCA
* ** *
48619 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
48639 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
48659 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
48679 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * **
48699 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGAGAATCCGT
* * *
48719 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
48739 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
48759 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
48779 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
48799 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
* *
48819 AAATCGCAACGATAATCTGT
1 AAATCGCAACGAGAATCCGT
*
48839 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
48859 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
48879 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
48899 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
48919 AAATCACAAC
1 AAATCGCAAC
48929 ACTGAAATTT
Statistics
Matches: 256, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 255 1.00
21 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:49650 original size:24 final size:24
Alignment explanation
Indices: 49611--49657 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49601 AAATTTGGTC
49611 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
49635 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
49658 TATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:52144 original size:19 final size:19
Alignment explanation
Indices: 52122--52335 Score: 229
Period size: 19 Copynumber: 12.4 Consensus size: 19
52112 CGGAAATTAC
*
52122 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
52141 AATCCCAA--C---ATG-A
1 AATCGCAATGCGAAATGAA
52154 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
52173 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
52187 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
52205 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
52224 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
52238 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
52257 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
52276 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
52290 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
52309 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
52328 AATCGCAA
1 AATCGCAA
52336 CGAGAGAATC
Statistics
Matches: 166, Mismatches: 8, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
13 8 0.05
14 33 0.20
15 4 0.02
16 6 0.04
17 8 0.05
18 19 0.11
19 88 0.53
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:52196 original size:33 final size:32
Alignment explanation
Indices: 52122--52316 Score: 191
Period size: 33 Copynumber: 5.8 Consensus size: 32
52112 CGGAAATTAC
* *
52122 AATCGCAACGCGAAATGAAAATCCCAAC-ATGA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GA
52154 AATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGA
* *
52186 GAATCGCAATGCG-AATGAAAATCGCAATGCGA
1 -AATCGCAATGCGAAATGAAAATCGCAACGAGA
* * *
52218 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-G-A
52257 AATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGA
52289 GAATCGCAATGCGAAATGAAAATCGCAA
1 -AATCGCAATGCGAAATGAAAATCGCAA
52317 TGCGAAATGA
Statistics
Matches: 137, Mismatches: 11, Indels: 29
0.77 0.06 0.16
Matches are distributed among these distances:
30 3 0.02
31 10 0.07
32 47 0.34
33 49 0.36
34 1 0.01
35 1 0.01
36 2 0.01
38 9 0.07
39 8 0.06
40 7 0.05
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (32 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGA
Found at i:52277 original size:52 final size:52
Alignment explanation
Indices: 52153--52357 Score: 403
Period size: 52 Copynumber: 4.0 Consensus size: 52
52143 TCCCAACATG
52153 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCG-AATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
52204 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
52256 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
52308 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
52358 TATAAACGCA
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
51 46 0.30
52 107 0.70
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
Found at i:52346 original size:33 final size:33
Alignment explanation
Indices: 52205--52357 Score: 159
Period size: 33 Copynumber: 4.5 Consensus size: 33
52195 TGCGAATGAA
52205 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
52238 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
52270 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
52309 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
52342 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
52358 TATAAACGCA
Statistics
Matches: 98, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 56 0.57
34 1 0.01
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:52422 original size:19 final size:19
Alignment explanation
Indices: 52382--52479 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
52372 GATTCTCTCG
52382 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
52402 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
52421 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
52435 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
52454 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
52473 TTGCGAT
1 TTGCGAT
52480 AGCATTTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:52476 original size:52 final size:53
Alignment explanation
Indices: 52364--52479 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
52354 AAATTATAAA
*
52364 CGCATTGTGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
52417 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
52469 CGCATTGCGAT
1 CGCATTGCGAT
52480 AGCATTTTTG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:52606 original size:13 final size:14
Alignment explanation
Indices: 52579--52614 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
52569 CATCAATTAC
52579 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
52593 ACAAATCATC-TTT
1 ACAAATCAACTTTT
52606 ACAAATCAA
1 ACAAATCAA
52615 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:52696 original size:12 final size:12
Alignment explanation
Indices: 52679--52714 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
52669 AACTTTTACA
52679 AATCAATTAAAC
1 AATCAATTAAAC
**
52691 AATCAAAAAAAC
1 AATCAATTAAAC
52703 AATCAATTAAAC
1 AATCAATTAAAC
52715 TATTGAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:54075 original size:181 final size:182
Alignment explanation
Indices: 53725--54088 Score: 696
Period size: 181 Copynumber: 2.0 Consensus size: 182
53715 AAGCCTACAT
53725 ATGACGCCATGTGAATCGGGCTCTTGAATGGTGGGAGGGACCTCTTCAATGATGACAGTGGCCTC
1 ATGACGCCATGTGAATCGGGCTCTTGAATGGTGGGAGGGACCTCTTCAA-GATGACAGTGGCCTC
53790 TTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGGGGCCTCTCAACGATAGGAGTGGACTC
65 TTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGGGGCCTCTCAACGATAGGAGTGGACTC
53855 TTGAGGGATGACAGGCGAGTCGGGCTTCTTCTTGCGGTGTCTTCGCACTATTG
130 TTGAGGGATGACAGGCGAGTCGGGCTTCTTCTTGCGGTGTCTTCGCACTATTG
53908 ATGACGCCATGTGAATCGGGCTCTTGAATGGTGGGAGGGACCTCTTC-A-ATGACAGTGGCCTCT
1 ATGACGCCATGTGAATCGGGCTCTTGAATGGTGGGAGGGACCTCTTCAAGATGACAGTGGCCTCT
53971 TGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGGGGCCTCTTCAACGATAGGAGTGGACTC
66 TGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGGGGCCTC-TCAACGATAGGAGTGGACTC
54036 TTGAGGGATGACAGGCGAGTCGGGCTTCTTCTTGCGGTGTCTTCGCACTATTG
130 TTGAGGGATGACAGGCGAGTCGGGCTTCTTCTTGCGGTGTCTTCGCACTATTG
54089 GGGTGTACGG
Statistics
Matches: 180, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
180 59 0.33
181 73 0.41
182 1 0.01
183 47 0.26
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.25
Consensus pattern (182 bp):
ATGACGCCATGTGAATCGGGCTCTTGAATGGTGGGAGGGACCTCTTCAAGATGACAGTGGCCTCT
TGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGGGGCCTCTCAACGATAGGAGTGGACTCT
TGAGGGATGACAGGCGAGTCGGGCTTCTTCTTGCGGTGTCTTCGCACTATTG
Found at i:54538 original size:19 final size:19
Alignment explanation
Indices: 54445--54578 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
54435 TAGTTTACTT
* *
54445 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
54465 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
54484 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
54503 TCGC-A--CGACAT---AA
1 TCGCAACGCGAAATGAAAA
*
54516 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
54535 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
54549 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
54568 TCGCAATGCGA
1 TCGCAACGCGA
54579 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
13 6 0.06
14 9 0.09
16 16 0.17
17 6 0.06
18 1 0.01
19 45 0.47
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:54560 original size:33 final size:33
Alignment explanation
Indices: 54482--54573 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
54472 GCGAAACCAA
* *
54482 AATCGCAACGCGAAATGAAAATCGC-ACGACAT
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
54514 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
54547 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
54574 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 24 0.44
33 31 0.56
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:54590 original size:19 final size:19
Alignment explanation
Indices: 54574--54702 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
54564 AAAATCGCAA
54574 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
54593 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
54607 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
54626 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
** *
54640 TGCGATTTTTATTTCGCAT
1 TGCGATTTTGGTTTCGCGT
54659 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
54678 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
54698 TGCGA
1 TGCGA
54703 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:54616 original size:33 final size:33
Alignment explanation
Indices: 54574--54665 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
54564 AAAATCGCAA
54574 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
54607 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
54640 TGCGATTTTTATTTCGCATTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
54666 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:54923 original size:59 final size:61
Alignment explanation
Indices: 54830--54951 Score: 230
Period size: 60 Copynumber: 2.0 Consensus size: 61
54820 GGCAGCAACC
54830 GAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAA
1 GAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAA
54890 GAACAAATTTA-TTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAA
1 GAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAA
54950 GA
1 GA
54952 TACACAGTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 26 0.43
60 35 0.57
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (61 bp):
GAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAA
Found at i:56700 original size:14 final size:14
Alignment explanation
Indices: 56681--56737 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
56671 TTGAAATGAA
56681 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
56695 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
56714 AATCGCAACGAGAG
1 AATCGCAACGAGAG
56728 AATCGCAACG
1 AATCGCAACG
56738 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:56712 original size:33 final size:33
Alignment explanation
Indices: 56673--56753 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
56663 GTCTTTGGTT
56673 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
56706 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
56739 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
56754 TGCGATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 9 0.19
33 39 0.81
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:56719 original size:19 final size:19
Alignment explanation
Indices: 56695--56758 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 19
56685 GCAACGAGAG
56695 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
56714 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
56728 AATCGCAACGCGAAATG-A
1 AATCGCAACGCGAAATGAA
*
56746 AATCGCAATGCGA
1 AATCGCAACGCGA
56759 TTTTGGTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 13 0.35
19 9 0.24
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:56816 original size:19 final size:18
Alignment explanation
Indices: 56765--56819 Score: 64
Period size: 14 Copynumber: 3.2 Consensus size: 18
56755 GCGATTTTGG
56765 TTTCGCGTTGCGA-TTC-
1 TTTCGCGTTGCGATTTCA
*
56781 --TCTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
56797 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
56816 TTTC
1 TTTC
56820 TCTCGTTGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 10 0.31
15 3 0.09
18 10 0.31
19 9 0.28
ACGTcount: A:0.09, C:0.24, G:0.20, T:0.47
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:56861 original size:19 final size:20
Alignment explanation
Indices: 56778--56868 Score: 93
Period size: 19 Copynumber: 4.7 Consensus size: 20
56768 CGCGTTGCGA
56778 TTCTCTCGTTGCGATTTCA-
1 TTCTCTCGTTGCGATTTCAT
*
56797 TT-TCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGA-TTTCAT
**
56817 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGA-TTTCAT
56837 -TCTCTCGTTGCGA-TTCAT
1 TTCTCTCGTTGCGATTTCAT
*
56855 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
56869 CTCTTCTGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 10 0.17
19 32 0.53
20 2 0.03
21 13 0.22
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
TTCTCTCGTTGCGATTTCAT
Found at i:57008 original size:32 final size:33
Alignment explanation
Indices: 56942--57011 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
56932 AATACTAACT
*
56942 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
56975 TGAAAATCGCAACGACAGAATCG-TACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
57007 TGAAA
1 TGAAA
57012 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:57243 original size:22 final size:22
Alignment explanation
Indices: 57191--57245 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
57181 TGGTTGTGAG
**
57191 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
57213 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
57235 GGATTTCTTCG
1 GGATTTCTTCG
57246 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:57555 original size:20 final size:20
Alignment explanation
Indices: 57390--57544 Score: 204
Period size: 20 Copynumber: 7.7 Consensus size: 20
57380 CTTTAAATAT
57390 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
57410 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
57432 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
57451 CGTGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
57471 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
57491 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
57511 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
57531 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
57545 TGTGTTCGCG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
19 2 0.02
20 96 0.84
21 14 0.12
22 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:57555 original size:60 final size:60
Alignment explanation
Indices: 57392--57562 Score: 227
Period size: 60 Copynumber: 2.9 Consensus size: 60
57382 TTAAATATCG
** *
57392 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * * *** *
57453 TGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
57513 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCG-TGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
57563 CATATTCGCG
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
59 8 0.09
60 59 0.64
61 25 0.27
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:57577 original size:19 final size:19
Alignment explanation
Indices: 57389--57581 Score: 102
Period size: 20 Copynumber: 9.7 Consensus size: 19
57379 GCTTTAAATA
*
57389 TCGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTA-GTAT
*
57409 ACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGA-TTTA-GTAT
** *
57430 TATCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTA-GTAT
* * * *
57450 ACGTGTTGCGATATACGGAT
1 TCGCGTTGCGATTTA-GTAT
* * **
57470 ACGCATTGCGATTTACCCAT
1 TCGCGTTGCGATTTA-GTAT
* *
57490 ACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTA-GTAT
* * *
57510 ACACGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTA-GTAT
* *
57530 ACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTA-GTAT
57550 TCGCG-TGCGATTTCA-TAT
1 TCGCGTTGCGATTT-AGTAT
57568 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
57582 TGGAAAATCG
Statistics
Matches: 142, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
18 7 0.05
19 16 0.11
20 104 0.73
21 15 0.11
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (19 bp):
TCGCGTTGCGATTTAGTAT
Found at i:59527 original size:21 final size:21
Alignment explanation
Indices: 59484--59528 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
59474 CGGTTATAAA
* *
59484 TTACCTAAAACATTATTATTT
1 TTACCTAAAACATAATTAGTT
59505 TTACCTAAAACATCAATT-GTT
1 TTACCTAAAACAT-AATTAGTT
59526 TTA
1 TTA
59529 ACATTTCCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (21 bp):
TTACCTAAAACATAATTAGTT
Found at i:65668 original size:9 final size:9
Alignment explanation
Indices: 65654--65752 Score: 63
Period size: 10 Copynumber: 10.3 Consensus size: 9
65644 AGGGTTGGAA
65654 ACCGGTTTG
1 ACCGGTTTG
*
65663 ACCGGTTTTCA
1 ACCGG-TTT-G
*
65674 ATCGGTTCTG
1 ACCGGTT-TG
*
65684 ACTGGTTTG
1 ACCGGTTTG
*
65693 ACCAGTTTTG
1 ACC-GGTTTG
*
65703 ACCGGTTCG
1 ACCGGTTTG
65712 AACCGGTTTG
1 -ACCGGTTTG
*
65722 ACCGGTCTG
1 ACCGGTTTG
*
65731 AACCAGTTTG
1 -ACCGGTTTG
* *
65741 ACTGGTCTG
1 ACCGGTTTG
65750 ACC
1 ACC
65753 CGACCCGACT
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
9 29 0.43
10 33 0.49
11 5 0.07
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.32
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:65709 original size:19 final size:19
Alignment explanation
Indices: 65693--65750 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
65683 GACTGGTTTG
65693 ACCAGTTTTGACCGGT-TCGA
1 ACCAG-TTTGACCGGTCT-GA
*
65713 ACCGGTTTGACCGGTCTGA
1 ACCAGTTTGACCGGTCTGA
*
65732 ACCAGTTTGACTGGTCTGA
1 ACCAGTTTGACCGGTCTGA
65751 CCCGACCCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 29 0.85
20 5 0.15
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (19 bp):
ACCAGTTTGACCGGTCTGA
Found at i:65719 original size:29 final size:31
Alignment explanation
Indices: 65653--65724 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
65643 GAGGGTTGGA
* *
65653 AACCGGTTTGACCGGTTTTCAATCGGTTCTG
1 AACCGGTTTGACCAGTTTTCAACCGGTTCTG
* *
65684 -ACTGGTTTGACCAGTTTT-GACCGGTTC-G
1 AACCGGTTTGACCAGTTTTCAACCGGTTCTG
65712 AACCGGTTTGACC
1 AACCGGTTTGACC
65725 GGTCTGAACC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.03
29 18 0.51
30 16 0.46
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (31 bp):
AACCGGTTTGACCAGTTTTCAACCGGTTCTG
Found at i:65766 original size:14 final size:14
Alignment explanation
Indices: 65747--65775 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
65737 TTTGACTGGT
65747 CTGACCCGACCCGA
1 CTGACCCGACCCGA
65761 CTGACCCGACCCGA
1 CTGACCCGACCCGA
65775 C
1 C
65776 CCTTAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.52, G:0.21, T:0.07
Consensus pattern (14 bp):
CTGACCCGACCCGA
Found at i:71744 original size:15 final size:16
Alignment explanation
Indices: 71714--71746 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
71704 ATAATATATT
*
71714 ATATTTTATGTTTTTA
1 ATATATTATGTTTTTA
71730 ATATATTAT-TTTTTA
1 ATATATTATGTTTTTA
71745 AT
1 AT
71747 GATTTGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATATATTATGTTTTTA
Found at i:73288 original size:35 final size:35
Alignment explanation
Indices: 73241--73326 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
73231 AAAACAGTCA
* * *
73241 TCAATTTCATTCTAAACCCCAATTTCTAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
* * *
73276 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
*
73311 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
73327 ATACTTCAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
Found at i:73320 original size:21 final size:21
Alignment explanation
Indices: 73295--73337 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
73285 TTCTAAACCC
73295 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
73316 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
73337 T
1 T
73338 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:73491 original size:15 final size:17
Alignment explanation
Indices: 73460--73491 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
73450 TATTAATGTA
73460 TGAATCATTTATATTTT
1 TGAATCATTTATATTTT
73477 TGAAT-ATTT-TATTTT
1 TGAATCATTTATATTTT
73492 AATAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TGAATCATTTATATTTT
Found at i:74160 original size:130 final size:130
Alignment explanation
Indices: 73957--74204 Score: 388
Period size: 130 Copynumber: 1.9 Consensus size: 130
73947 AATTTTCTTC
* * *
73957 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATAATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATAATCATGTGCTAACACATGTCAGAT
* *
74022 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTATGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * * *
74087 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATAATCATGTGCTAACACATGTCAGAT
* *
74152 CTTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGATCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
74205 TATATAAATA
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 106 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATAATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:76377 original size:18 final size:19
Alignment explanation
Indices: 76351--76387 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
76341 ACGTTAACAT
76351 GTTGATTGAGA-TATGATA
1 GTTGATTGAGATTATGATA
*
76369 GTTGCTTGAGATTATGATA
1 GTTGATTGAGATTATGATA
76388 TTATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.41
Consensus pattern (19 bp):
GTTGATTGAGATTATGATA
Found at i:84417 original size:21 final size:21
Alignment explanation
Indices: 84375--84417 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
84365 TTTCTGGGCT
* *
84375 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
84396 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
84417 A
1 A
84418 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:84470 original size:20 final size:20
Alignment explanation
Indices: 84445--84482 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84435 GAATGCTAGA
*
84445 GGGGAATCGATACCCCCAAG
1 GGGGAACCGATACCCCCAAG
*
84465 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
84483 TAATGAAAAA
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:0.26, C:0.34, G:0.29, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAAG
Found at i:85630 original size:30 final size:30
Alignment explanation
Indices: 85569--85668 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
85559 ATAAGGAACA
* * * *
85569 TATGGATAGTTTACCTAGGTTCTTCAGGACC
1 TATGGATAG-TTACCGAGGATCTTTATGACC
*
85600 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
*
85630 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
*
85660 TCTGGATAG
1 TATGGATAG
85669 GTCCTTCGGA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 54 0.87
31 8 0.13
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGATAGTTACCGAGGATCTTTATGACC
Found at i:89040 original size:21 final size:21
Alignment explanation
Indices: 88998--89040 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
88988 TTTCTGGGCT
* *
88998 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
89019 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
89040 A
1 A
89041 ACGAAAATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:89093 original size:20 final size:20
Alignment explanation
Indices: 89068--89105 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89058 GAATGCTAGA
*
89068 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
89088 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
89106 TAATGAAAAA
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:90259 original size:30 final size:30
Alignment explanation
Indices: 90225--90327 Score: 188
Period size: 30 Copynumber: 3.4 Consensus size: 30
90215 GGTTCTTCGG
* *
90225 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
90255 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
90285 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
90315 GACCTCTGGATAG
1 GACCTCTGGATAG
90328 GTCCTTCGGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:94609 original size:143 final size:143
Alignment explanation
Indices: 94351--94639 Score: 569
Period size: 143 Copynumber: 2.0 Consensus size: 143
94341 TAGCGCACTC
*
94351 GATCTCTTTTAGTATGAAATACTAAAATCTATGGTACTACGTAACGCTATTTAGCTCACGTTCAT
1 GATCTCTTTTAGTATGAAATACTAAAATCTATGGTACTACGCAACGCTATTTAGCTCACGTTCAT
94416 ACAGTAACACAAAAACACCACTGACAGGGCTTGACTGACCTAGCTAAATCACTTAGTGTTCGTGC
66 ACAGTAACACAAAAACACCACTGACAGGGCTTGACTGACCTAGCTAAATCACTTAGTGTTCGTGC
94481 ATGAATGCATATG
131 ATGAATGCATATG
94494 GATCTCTTTTAGTATGAAATACTAAAATCTATGGTACTACGCAACGCTATTTAGCTCACGTTCAT
1 GATCTCTTTTAGTATGAAATACTAAAATCTATGGTACTACGCAACGCTATTTAGCTCACGTTCAT
94559 ACAGTAACACAAAAACACCACTGACAGGGCTTGACTGACCTAGCTAAATCACTTAGTGTTCGTGC
66 ACAGTAACACAAAAACACCACTGACAGGGCTTGACTGACCTAGCTAAATCACTTAGTGTTCGTGC
94624 ATGAATGCATATG
131 ATGAATGCATATG
94637 GAT
1 GAT
94640 GGAATCATAG
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 145 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (143 bp):
GATCTCTTTTAGTATGAAATACTAAAATCTATGGTACTACGCAACGCTATTTAGCTCACGTTCAT
ACAGTAACACAAAAACACCACTGACAGGGCTTGACTGACCTAGCTAAATCACTTAGTGTTCGTGC
ATGAATGCATATG
Found at i:95898 original size:7 final size:8
Alignment explanation
Indices: 95881--95908 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
95871 GAAGTTTAAG
95881 TTTTTATT
1 TTTTTATT
95889 TTTTTATT
1 TTTTTATT
95897 TTTTTATT
1 TTTTTATT
95905 TTTT
1 TTTT
95909 GATAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:100571 original size:17 final size:18
Alignment explanation
Indices: 100545--100581 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
100535 TCTCTAAATA
*
100545 ATTTTTAATATAATT-AT
1 ATTTTAAATATAATTCAT
100562 ATTTTAAATATAATTCAT
1 ATTTTAAATATAATTCAT
100580 AT
1 AT
100582 ATAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAAATATAATTCAT
Found at i:100586 original size:17 final size:17
Alignment explanation
Indices: 100551--100589 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
100541 AATAATTTTT
*
100551 AATATAATTATATTTTA
1 AATATAATTATATTATA
100568 AATATAATTCATA-TATA
1 AATATAATT-ATATTATA
100585 AATAT
1 AATAT
100590 TTGAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATAATTATATTATA
Found at i:100694 original size:2 final size:2
Alignment explanation
Indices: 100687--100727 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
100677 ACCTAAATTT
100687 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100728 TATGTTTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106827 original size:3 final size:3
Alignment explanation
Indices: 106819--106909 Score: 94
Period size: 3 Copynumber: 30.3 Consensus size: 3
106809 AATTATTTTT
* * * *
106819 TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TTA TTA TTA TTA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
106865 TTA T-A TAA TAA TTA TTA TAA TAA TAA TTA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
106910 GGGTAAAAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 2 0.02
3 76 0.94
4 3 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (3 bp):
TAA
Found at i:107192 original size:122 final size:119
Alignment explanation
Indices: 107055--107326 Score: 343
Period size: 124 Copynumber: 2.3 Consensus size: 119
107045 TCTTCTCTTT
* * * *
107055 CTTCAAATGAGTTCTTCTCATTATGAACTTTCCGCTGAGGAA-GATG-T-TGACCTATTTCCTTC
1 CTTCAGATGAGTTCTTCTCATTATGAACTTT-CGCTG-GAAAGGATGCTCTAACCTATCTCCTTC
* *
107117 TGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTC
64 TGTGATAGAATCATGCAAAAGGTTGAATAAGCTCTTCTCATTATGAA---CTT-TTTCTC
* * * *
107177 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGCTGCTAATCTATCTGCTTCT
1 CTTCAGATGAGTTCTTCTCATTATGAACTTTCGCTGGAAAGGATGCT-CTAACCTATCTCCTTCT
* * *
107242 GTGATAGAATTATGCAAAAGGTTGAATAAGCTCTTCTCATTGTGAACTTTTTCTT
65 GTGATAGAATCATGCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTTTTCTC
107297 CTTCAGATGAGTTCTTCTCATTATGAACTT
1 CTTCAGATGAGTTCTTCTCATTATGAACTT
107327 CTTCTTTTTC
Statistics
Matches: 133, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
120 38 0.29
121 10 0.08
122 31 0.23
124 54 0.41
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (119 bp):
CTTCAGATGAGTTCTTCTCATTATGAACTTTCGCTGGAAAGGATGCTCTAACCTATCTCCTTCTG
TGATAGAATCATGCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTTTTCTC
Found at i:107313 original size:36 final size:36
Alignment explanation
Indices: 107273--107364 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 36
107263 TTGAATAAGC
* *
107273 TCTTCTCATTGTGAACTTTTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
*
107309 TCTTCTCATTATGAACTTCTTCTTTTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
107345 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
107365 CTGGAAAAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:107330 original size:17 final size:17
Alignment explanation
Indices: 107308--107364 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
107298 TTCAGATGAG
107308 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
** *
107325 TTCTTCTTTTTCA-GATGAG
1 TTCTTCTCATT-ATGA--AC
107344 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
107361 TTCT
1 TTCT
107365 CTGGAAAAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 16 0.53
18 2 0.07
19 12 0.40
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.51
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:107629 original size:113 final size:111
Alignment explanation
Indices: 107308--107739 Score: 507
Period size: 113 Copynumber: 3.9 Consensus size: 111
107298 TTCAGATGAG
*
107308 TTCTTCTCATTATGAAC-TTCTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTC--TCTGGA
1 TTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTATCTGGA
* * * * *
107370 AAAGCTGATCTATCAAGTGATGGTTTTGAGCAAAAAGTTGAACAAA
66 AAAGCTGATCCATCAAATGATGGATTTGAACAAAAGGTTGAACAAA
* *
107416 TTCTTCTTATTATGAA-TTTCTTCTTCTTCAGATGACAAGTTCTTCTCATTATGAAC-TCTACCT
1 TTCTTCTCATTATGAACTTTCTTCTTCTTCAGATG---AGTTCTTCTCATTATGAACTTCTATCT
* * * * * *
107479 GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
63 GGAAAAGCTGATCCATCAAATGATGGATTTGAACAAAAGGTTGAACAAA
* * *
107528 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TCGAACT
1 TTCTTCTCATTATGAAC-T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTATCT
* *
107592 GGTAAAGCTGATCCATCAAATGATGGATTTGATCAAAAGGTTGAACAAA
63 GGAAAAGCTGATCCATCAAATGATGGATTTGAACAAAAGGTTGAACAAA
* * * * *
107641 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTTATTATGAACTTTTTTTC
1 TTCTTCTCATTATGAA-CT-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTATC
*
107706 TGGAAAAGTTGATCCATCAAATGATGGATTTGAA
62 TGGAAAAGCTGATCCATCAAATGATGGATTTGAA
107740 TCTTTGCTAA
Statistics
Matches: 276, Mismatches: 35, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
108 31 0.11
110 2 0.01
111 19 0.07
112 55 0.20
113 118 0.43
114 1 0.00
115 38 0.14
116 12 0.04
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (111 bp):
TTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTATCTGGA
AAAGCTGATCCATCAAATGATGGATTTGAACAAAAGGTTGAACAAA
Found at i:108591 original size:115 final size:115
Alignment explanation
Indices: 108472--108785 Score: 565
Period size: 115 Copynumber: 2.7 Consensus size: 115
108462 TTGGTTCTGT
* * *
108472 GGTTCCTACCGAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTGGGTCTTCTT
1 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
108537 ATTTCTACTATGAGCACATTCATCTTTCAAATCCAATAATTGGTTTTTGG
66 ATTTCTACTATGAGCACATTCATCTTTCAAATCCAATAATTGGTTTTTGG
* * *
108587 GGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGACGATGTTATTGGGTCTTCTT
1 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
*
108652 ATTTCTACTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTTGG
66 ATTTCTACTATGAGCACATTCATCTTTCAAATCCAATAATTGGTTTTTGG
108702 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
1 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
108767 ATTTCTACTATGAGCACAT
66 ATTTCTACTATGAGCACAT
108786 GGCACTTGCT
Statistics
Matches: 189, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 189 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (115 bp):
GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
ATTTCTACTATGAGCACATTCATCTTTCAAATCCAATAATTGGTTTTTGG
Found at i:110059 original size:1 final size:1
Alignment explanation
Indices: 110053--110124 Score: 81
Period size: 1 Copynumber: 72.0 Consensus size: 1
110043 TCTTGACCCC
* * * * * * *
110053 TTTTTTTTCTTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTTTTTTTTTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
110118 TTTTTTT
1 TTTTTTT
110125 CTTTAAGCGT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:110067 original size:7 final size:7
Alignment explanation
Indices: 110055--110122 Score: 113
Period size: 7 Copynumber: 9.9 Consensus size: 7
110045 TTGACCCCTT
110055 TTTTTTC
1 TTTTTTC
110062 TTTTTTTC
1 -TTTTTTC
110070 TTTTTTC
1 TTTTTTC
110077 TTTTTTC
1 TTTTTTC
110084 TTTTTTC
1 TTTTTTC
110091 TTTTTTC
1 TTTTTTC
110098 TTTTTT-
1 TTTTTTC
110104 TTTTTT-
1 TTTTTTC
110110 TTTTTTC
1 TTTTTTC
110117 TTTTTT
1 TTTTTT
110123 TTCTTTAAGC
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
6 12 0.20
7 40 0.68
8 7 0.12
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTTC
Found at i:121364 original size:23 final size:23
Alignment explanation
Indices: 121338--121381 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
121328 AATAATTTAT
*
121338 ATATATATATATTTATAAATAAA
1 ATATATATATATTTAGAAATAAA
* *
121361 ATATTTATTTATTTAGAAATA
1 ATATATATATATTTAGAAATA
121382 TCAGAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATATATATATATTTAGAAATAAA
Found at i:123035 original size:3 final size:3
Alignment explanation
Indices: 123027--123080 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
123017 TAATTATTTT
123027 TAA TAA TAA TAA TAA T-A TATA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
123072 TAA TAA TAA
1 TAA TAA TAA
123081 AAATGGGTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:124556 original size:187 final size:182
Alignment explanation
Indices: 124243--124616 Score: 475
Period size: 187 Copynumber: 2.0 Consensus size: 182
124233 TTAGAGGAGC
* * * *
124243 ATCTCCGGGGATATAGGATCTTTACAGCTTTATATTTTCCAAAAATTACAATTATCTGACATGAT
1 ATCTCCGGAGATATAGGATATGTACAGCTTTACATTTTCCAAAAATTACAATTATCTGACATGAT
* * * *
124308 TTTTAATAAGACCAAAATCAATTAACCGTGAATCACATCAATGAAGCCTATCTGTCCTATCAATC
66 TTCTAATAAGACCAAAATCAACTAACAGTGAATCACATCAATGAAGCCTATCTATCCTATCAATC
* **
124373 TATCGATAATCATCATAATTCTACGCCTAATGATAACAAGAAGAATTATTATAAA
131 TATCGATAATCATCATAATTATACGCCTAACAATAACAAG-AG--TTATTATAAA
* * *
124428 ATCTCCGGAGATATAGGATATGTAGAGTTTTACATTTTCCAAAAAAATTAGAATTATCTGACATG
1 ATCTCCGGAGATATAGGATATGTACAGCTTTACATTTTCC--AAAAATTACAATTATCTGACATG
* * * * *
124493 GTTTCTGATAAGATCAAAATCAACTGACAGTTG-ATCACATCAATCTAA-CCTA-CTTATCCTAT
64 ATTTCTAATAAGACCAAAATCAACTAACAG-TGAATCACATCAAT-GAAGCCTATC-TATCCTAT
*
124555 CAATCTATCGATAATCATCATAATTATATGCCTAACAATAACAAGAGTTATTATAAA
126 CAATCTATCGATAATCATCATAATTATACGCCTAACAATAACAAGAGTTATTATAAA
124612 ATCTC
1 ATCTC
124617 GGGAATCAAA
Statistics
Matches: 164, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
184 15 0.09
185 34 0.21
186 3 0.02
187 108 0.66
188 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (182 bp):
ATCTCCGGAGATATAGGATATGTACAGCTTTACATTTTCCAAAAATTACAATTATCTGACATGAT
TTCTAATAAGACCAAAATCAACTAACAGTGAATCACATCAATGAAGCCTATCTATCCTATCAATC
TATCGATAATCATCATAATTATACGCCTAACAATAACAAGAGTTATTATAAA
Found at i:130661 original size:3 final size:3
Alignment explanation
Indices: 130653--130734 Score: 101
Period size: 3 Copynumber: 26.7 Consensus size: 3
130643 ATGTTATTTA
* * *
130653 TAT TAT TAT TAT TAT AAT TAT AAT TAT TAT TAT TAT TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
130701 TAT TAT TAT TAA TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TA
130735 CAAAACCCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 61 0.91
4 6 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:136137 original size:15 final size:15
Alignment explanation
Indices: 136117--136148 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
136107 ATCAATACCT
136117 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
136132 TTTTGCATACATTCA
1 TTTTGCATACATGCA
136147 TT
1 TT
136149 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:144116 original size:83 final size:83
Alignment explanation
Indices: 143977--144372 Score: 645
Period size: 83 Copynumber: 4.7 Consensus size: 83
143967 GAACAAATGC
143977 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
144042 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
*
144060 AATGTGCTCATAGCATCTCCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
144125 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
144143 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
144208 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
*
144226 AATGTGCTCATAGCATCTTCTGGAAGTGTT-TCTTGAGTTATCTGATCTGGTTGGTATGAACCCT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCT-TTGAGTTATCTGATCTGG-T--T-TG----GT
*
144290 AAAAACCAATCATTAAATTTGAAAGATG
57 -AAAACCAATCATTGAATTTGAAAGATG
*
144318 AA--TGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
144373 TGAAACCACA
Statistics
Matches: 296, Mismatches: 6, Indels: 24
0.91 0.02 0.07
Matches are distributed among these distances:
81 1 0.00
82 2 0.01
83 212 0.72
84 1 0.00
86 3 0.01
87 3 0.01
89 1 0.00
90 43 0.15
91 2 0.01
92 28 0.09
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGAAAGATG
Found at i:144601 original size:207 final size:203
Alignment explanation
Indices: 144235--144618 Score: 560
Period size: 205 Copynumber: 1.9 Consensus size: 203
144225 GAATGTGCTC
*
144235 ATAGCATCTTCTGGAAGTGTTTCTTGAGTTATCTGATCTGGTTGGTATGAACCCTAAAAACCAAT
1 ATAGCATCTTCTGAAAGTGTTTCTTGAGTTATCTGATCTGGTTGGTATGAACCC-AAAAACCAAT
*
144300 CATTAAATTTGAAAGATGAATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
65 CATTAAATTTGAAAGAGGAATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* *
144365 GTTTGGTATGAAACCACAGAACCATCATTGGATATTGAAAA-ATGAATTTGCTCATAGTAGAAAT
130 GTTTGATATAAAACCACAGAACCATCATTGGA-ATT-AAAAGATGAATTTGCTCATAGTAGAAAT
144429 AAGGAGACCCA
193 AAGGAGACCCA
*
144440 ATAGCATCTTCTGAAAGTG-TTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCACAGAACCA
1 ATAGCATCTTCTGAAAGTGTTTC-TTGAGTTATCTGATCTGG-TTGGTATGAACCCA-AAAACCA
* * * * *
144503 GTTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
63 ATCATTAAATTTGAAAGAGGAA--TGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
*
144568 TTTGGTTTGATATAAAACC-CAGAACCAATCATTGGAATTAAAAGATGAATT
126 TCTGGTTTGATATAAAACCACAGAACC-ATCATTGGAATTAAAAGATGAATT
144619 GCATGATCGT
Statistics
Matches: 161, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
204 4 0.02
205 65 0.40
206 27 0.17
207 65 0.40
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (203 bp):
ATAGCATCTTCTGAAAGTGTTTCTTGAGTTATCTGATCTGGTTGGTATGAACCCAAAAACCAATC
ATTAAATTTGAAAGAGGAATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTTGATATAAAACCACAGAACCATCATTGGAATTAAAAGATGAATTTGCTCATAGTAGAAATAAG
GAGACCCA
Found at i:145517 original size:110 final size:112
Alignment explanation
Indices: 145330--145836 Score: 683
Period size: 110 Copynumber: 4.7 Consensus size: 112
145320 GTCAGTTAGT
145330 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT--GAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
145393 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTT-CCAGAGAAA
145441 GTTCAT-A-GA-AAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
145503 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTT-CCAGAGAAA
*
145551 ATTCATAATGAGAA-AACTCATCTGAAGAAGGAAGAAG-AATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
145614 ACC-TTTGCTCAAATCCATCA-TT--T-GATCAGCTTCTCCAGAAAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTT-TCCAGAGAAA
* *
145657 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-CTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * * * * *
145721 A-CTTTTCGCTCGAATTCATC-CTCGATAGATCAACTTTTCAGAG--A
66 ACCTTTT-GCTCAAATCCATCACTTGATGGATCAGCTTTCCAGAGAAA
* * ** **
145765 GTTC--AATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTTG
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
145828 ACCTTTTGC
66 ACCTTTTGC
145837 ATGACTCTAT
Statistics
Matches: 363, Mismatches: 17, Indels: 36
0.87 0.04 0.09
Matches are distributed among these distances:
106 79 0.22
107 42 0.12
108 76 0.21
109 4 0.01
110 91 0.25
111 44 0.12
112 25 0.07
113 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (112 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTCCAGAGAAA
Found at i:146178 original size:3 final size:3
Alignment explanation
Indices: 146170--146248 Score: 113
Period size: 3 Copynumber: 25.7 Consensus size: 3
146160 ATGTTATTTA
* *
146170 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT AAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
146218 TAT TAT TAT TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TA
146249 CAAAACCCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
3 62 0.91
4 6 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:148341 original size:2 final size:2
Alignment explanation
Indices: 148334--148363 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
148324 TAAAAATAAT
148334 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
148364 TAATAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:148400 original size:32 final size:33
Alignment explanation
Indices: 148328--148425 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 33
148318 AAATATTAAA
* *
148328 AATAATTATATATATATATATATATATATATAATATT
1 AATAATTATATAT-T-TA-ATTTAAATATAT-ATATT
148365 AATAAATT-TA-ATTTAATTTAAA-ATATATATAT
1 AAT-AATTATATATTTAATTTAAATATATATAT-T
*
148397 AATATTTATATATTTAATTTAAATATATA
1 AATAATTATATATTTAATTTAAATATATA
148426 CACCCGGCCC
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
31 7 0.13
32 10 0.19
33 17 0.32
34 7 0.13
35 1 0.02
36 2 0.04
37 5 0.09
38 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
AATAATTATATATTTAATTTAAATATATATATT
Found at i:150698 original size:2 final size:2
Alignment explanation
Indices: 150691--150747 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
150681 CACGATCAAA
* *
150691 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT TT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
150732 A- AT TT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
150748 CTCGACCCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:150935 original size:11 final size:11
Alignment explanation
Indices: 150919--150950 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
150909 GGGGACCAAT
*
150919 ACCCGGCCTGA
1 ACCCGGCCCGA
150930 ACCCGGCCCGA
1 ACCCGGCCCGA
150941 ACCCGGCCCG
1 ACCCGGCCCG
150951 TTGCCATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.53, G:0.28, T:0.03
Consensus pattern (11 bp):
ACCCGGCCCGA
Found at i:151251 original size:19 final size:19
Alignment explanation
Indices: 151211--151252 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
151201 ACCTGCACAC
*
151211 AAAGTTTCGAAACTCTAGG
1 AAAGTTTCGAAACTCTACG
* *
151230 AAAGTTTTGAAACTCTTCG
1 AAAGTTTCGAAACTCTACG
151249 AAAG
1 AAAG
151253 AGCAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (19 bp):
AAAGTTTCGAAACTCTACG
Found at i:151537 original size:2 final size:2
Alignment explanation
Indices: 151530--151595 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
151520 TTTTACACAA
*
151530 AT AT AT AT AT AG 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 AT AT AT AT AT AT
*
151572 AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
151596 TATCAAAATC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:155184 original size:22 final size:23
Alignment explanation
Indices: 155159--155219 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
155149 TATTATGAAG
*
155159 ATTTATGTTGAATATTTT-GGAT
1 ATTTATGTTGAATATTTTAGCAT
*
155181 ATTTATGATGGATATATTTTAGCAT
1 ATTTATG-TTGA-ATATTTTAGCAT
*
155206 ATCATATGTTGAAT
1 AT-TTATGTTGAAT
155220 TATTATTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
22 7 0.23
23 3 0.10
24 9 0.29
25 8 0.26
26 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.49
Consensus pattern (23 bp):
ATTTATGTTGAATATTTTAGCAT
Found at i:155223 original size:25 final size:23
Alignment explanation
Indices: 155162--155223 Score: 54
Period size: 25 Copynumber: 2.6 Consensus size: 23
155152 TATGAAGATT
* *
155162 TATGTTGAA-TATTTTGGATATT
1 TATGTTGAATTATTTTGCATATA
* *
155184 TATGATGGATATATTTTAGCATATCA
1 TATGTTGAAT-TATTTT-GCATAT-A
155210 TATGTTGAATTATT
1 TATGTTGAATTATT
155224 ATTATCTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
22 7 0.23
24 6 0.20
25 9 0.30
26 8 0.27
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (23 bp):
TATGTTGAATTATTTTGCATATA
Found at i:156592 original size:20 final size:21
Alignment explanation
Indices: 156561--156599 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
156551 ACTTTACAAT
156561 TTTGGAAAGTTTCAAAACTCC
1 TTTGGAAAGTTTCAAAACTCC
*
156582 TTTGG-AAGTTTCGAAACT
1 TTTGGAAAGTTTCAAAACT
156600 TCTGGTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (21 bp):
TTTGGAAAGTTTCAAAACTCC
Found at i:159325 original size:4 final size:4
Alignment explanation
Indices: 159318--159348 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
159308 AACAAAAACA
159318 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
159349 GGAAGGAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:160930 original size:30 final size:30
Alignment explanation
Indices: 160871--160973 Score: 136
Period size: 30 Copynumber: 3.4 Consensus size: 30
160861 CCCGAAGGAC
* *
160871 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
160900 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
160930 CTGTCCAGAGGCCATAAAGATCCTCGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
* *
160961 CTGTCCATAGGTC
1 CTATCCAGAGGTC
160974 CCGAAGAACC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 19 0.29
30 34 0.52
31 13 0.20
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:160966 original size:31 final size:30
Alignment explanation
Indices: 160874--160998 Score: 119
Period size: 30 Copynumber: 4.1 Consensus size: 30
160864 GAAGGACCTA
* * *
160874 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGCCACAAAGATCCTCGGTAACTG
* *
160903 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGCCACAAAGATCCTCGGTAACTG
*
160933 TCCAGAGGCCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGCCACAAAGATCCTCGGT-AACTG
* * * *
160964 TCCATAGGTCC-CGAAGAACCTAGGTAAACTG
1 TCCAGAGG-CCACAAAGATCCTCGGT-AACTG
160995 TCCA
1 TCCA
160999 TATGTCTCGA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
29 16 0.19
30 34 0.40
31 32 0.38
32 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (30 bp):
TCCAGAGGCCACAAAGATCCTCGGTAACTG
Found at i:160999 original size:31 final size:31
Alignment explanation
Indices: 160946--161023 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
160936 AGAGGCCATA
* *
160946 AAGATCCTCGGTAAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAAACTGTCCATAGGTCCCG
* *
160977 AAGAACCTAGGTAAACTGTCCATATGTCTCG
1 AAGAACCTAGGTAAACTGTCCATAGGTCCCG
*
161008 AA-AGACATAGGTAAAC
1 AAGA-ACCTAGGTAAAC
161024 CCTCGACTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (31 bp):
AAGAACCTAGGTAAACTGTCCATAGGTCCCG
Found at i:162124 original size:21 final size:21
Alignment explanation
Indices: 162094--162138 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
162084 ATTCTGTCGT
* *
162094 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
162115 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
162136 TTG
1 TTG
162139 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:163547 original size:11 final size:11
Alignment explanation
Indices: 163531--163573 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
163521 AAATAATTAC
*
163531 GATTCAAATTT
1 GATTCAAATAT
163542 GATTCAAATAT
1 GATTCAAATAT
163553 GATTCAAATAT
1 GATTCAAATAT
163564 GATTCAAATA
1 GATTCAAATA
163574 CATAACTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (11 bp):
GATTCAAATAT
Found at i:167522 original size:17 final size:17
Alignment explanation
Indices: 167500--167543 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
167490 CTGTAAAAAT
167500 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
167517 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
167534 AAATATTTAA
1 AAATATTTAA
167544 TCAAATAGTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:168485 original size:24 final size:24
Alignment explanation
Indices: 168458--168591 Score: 104
Period size: 24 Copynumber: 5.9 Consensus size: 24
168448 TTATCTTACA
168458 TAATTTATTTATTTTAATAATAGT
1 TAATTTATTTATTTTAATAATAGT
* *
168482 TAATTTTTTTATTTTAATAATAAT
1 TAATTTATTTATTTTAATAATAGT
*
168506 T--TTTA-TTA--TTAATAATAAT
1 TAATTTATTTATTTTAATAATAGT
* * * * *
168525 TTATTGAATGATTTTAAT-A-CG-
1 TAATTTATTTATTTTAATAATAGT
*
168546 TAATTTTTTTATTTTAATAATAGT
1 TAATTTATTTATTTTAATAATAGT
* * *
168570 TGAGTAATTTATTTTAATAATA
1 TAATTTATTTATTTTAATAATA
168592 ATTTATTGAG
Statistics
Matches: 85, Mismatches: 17, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
19 12 0.14
21 19 0.22
22 6 0.07
23 2 0.02
24 46 0.54
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (24 bp):
TAATTTATTTATTTTAATAATAGT
Found at i:168607 original size:24 final size:22
Alignment explanation
Indices: 168457--168617 Score: 75
Period size: 24 Copynumber: 7.2 Consensus size: 22
168447 TTTATCTTAC
168457 ATAATTTATT-T-ATTTTAATA
1 ATAATTTATTATGATTTTAATA
* * * *
168477 ATAGTTAATTTTTTTATTTTAATA
1 ATAATT--TATTATGATTTTAATA
*
168501 ATAATTT-TTAT--TATTAATA
1 ATAATTTATTATGATTTTAATA
168520 ATAATTTATTGAATGATTTTAATA
1 ATAATTTATT--ATGATTTTAATA
* *
168544 CGTAATTT-TT-TTATTTTAATA
1 -ATAATTTATTATGATTTTAATA
* * * *
168565 ATAGTTGAGTAATTTATTTTAATA
1 ATAATTTA-TTA-TGATTTTAATA
*
168589 ATAATTTATTGAGTGATTTTTAATG
1 ATAATTTATT-A-TGA-TTTTAATA
168614 ATAA
1 ATAA
168618 AAGAATATAT
Statistics
Matches: 107, Mismatches: 18, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
19 14 0.13
20 11 0.10
21 13 0.12
22 7 0.07
23 2 0.02
24 43 0.40
25 17 0.16
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (22 bp):
ATAATTTATTATGATTTTAATA
Found at i:172489 original size:60 final size:60
Alignment explanation
Indices: 172397--172516 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 60
172387 TAGTATCATG
* * *
172397 TTAAGGATATTAACTCTCTT-TTCTTGTTGTTGTCATTTCTCATATTAACTTTTCCAATT
1 TTAAGGATAATAACTCTCTTCTCCTTGTTGTTGTCATTTCTCATATAAACTTTTCCAATT
* *
172456 TTAAGGATAAATATCTCTCTTCTCCTGTTGTTGTTGTCTTTTCTCATATAAACTTTTCCAA
1 TTAAGGAT-AATAACTCTCTTCTCC--TTGTTGTTGTCATTTCTCATATAAACTTTTCCAA
172517 CAAGTCAGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
59 8 0.15
60 10 0.19
61 2 0.04
63 32 0.62
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (60 bp):
TTAAGGATAATAACTCTCTTCTCCTTGTTGTTGTCATTTCTCATATAAACTTTTCCAATT
Done.