Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009618.1 Hibiscus syriacus cultivar Beakdansim tig00117007_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: 1135495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:7479 original size:8 final size:8
Alignment explanation
Indices: 7466--7493 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7456 AGATTCTCCC
7466 ATATGTAT
1 ATATGTAT
7474 ATATGTAT
1 ATATGTAT
7482 ATATGTAT
1 ATATGTAT
7490 ATAT
1 ATAT
7494 CTTCTTTTTC
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:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:11019 original size:13 final size:13
Alignment explanation
Indices: 11002--11035 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
10992 AGTGAAAATG
*
11002 AAAAAAGAAAAAAT
1 AAAAAA-AAATAAT
11016 AAAAAAAAATAAT
1 AAAAAAAAATAAT
11029 AAAAAAA
1 AAAAAAA
11036 TGAAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (13 bp):
AAAAAAAAATAAT
Found at i:11024 original size:10 final size:10
Alignment explanation
Indices: 11009--11043 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
10999 ATGAAAAAAG
11009 AAAAAATAAA
1 AAAAAATAAA
11019 AAAAAATAATA
1 AAAAAATAA-A
11030 AAAAAATGAAA
1 AAAAAAT-AAA
11041 AAA
1 AAA
11044 TGGAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.39
11 12 0.52
12 2 0.09
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:12137 original size:55 final size:55
Alignment explanation
Indices: 12053--12642 Score: 744
Period size: 55 Copynumber: 10.7 Consensus size: 55
12043 AACGATAATC
* * *
12053 GAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* *
12108 GAAGATTGTTCGAGTCTTATACTCTCTGAAAAAAATAGGGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTG-AAGAAATAGGGAGCAGACACGATTGAT
* * * *
12164 GAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATATGGAGCAGACACGATGGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* * * *
12219 GAAGATTGTTCGAGTCTTGTACTCTCTGAAGAAATAGGGAGCAGACGCAATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
*
12274 GAAGATTGTTCGAGTCTTATACTCTCTGCA-AAATAGGGAGCAGACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
**
12328 GAAGATTGTTCGAGTCTTATACTCTCTGCGGAAATAGGGAGCAGACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* *
12383 GAAGATTGTTCAAGTCTTATACTCTCTGAA-AGAATGGGGAGCAGACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACACGATTGAT
* * * *
12438 GAAGATTGTTTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGAT
* * * *
12494 GAAGATGGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
* * ** * * * * *
12549 GAAGATTCTTCAAGT-TCCTACTCCCT-AAGAAAGAGGGAAC-GAACCCG-TTGACA
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGA-T
* *
12602 GAAGATTGTTCGAGT-TCTATACTCCCTGAAGAAAGAGGGAG
1 GAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAG
12643 TGAACTCGTT
Statistics
Matches: 471, Mismatches: 55, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
52 5 0.01
53 29 0.06
54 67 0.14
55 266 0.56
56 104 0.22
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGAT
Found at i:12392 original size:164 final size:164
Alignment explanation
Indices: 12053--12555 Score: 774
Period size: 164 Copynumber: 3.0 Consensus size: 164
12043 AACGATAATC
*
12053 GAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
*
12118 CGAGTCTTATACTCTCTGAAAAAAATAGGGAGCAGACACGATTGTTGAAAATTGTTCGAGTCTTA
66 CGAGTCTTATACTCTCTG--AAAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTA
* * *
12183 TACTCTCTGCAGAAATATGGAGCAGACACGATGGAT
129 TACTCTCTGCGGAAATAGGGAGCAGACACGATTGAT
* *
12219 GAAGATTGTTCGAGTCTTGTACTCTCTGAAGAAATAGGGAGCAGACGCAATTGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
* *
12284 CGAGTCTTATACTCTCTGCAAAATAGGGAGCAGACACGATTGATGAAGATTGTTCGAGTCTTATA
66 CGAGTCTTATACTCTCTGAAAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATA
12349 CTCTCTGCGGAAATAGGGAGCAGACACGATTGAT
131 CTCTCTGCGGAAATAGGGAGCAGACACGATTGAT
* * * *
12383 GAAGATTGTTCAAGTCTTATACTCTCTGAA-AGAATGGGGAGCAGACACGATTGATGAAGATTGT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACGCGATTGTTGAAGATTGT
* * * * * *
12447 TTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTTGTTGAAGATGGTTTGGGTCTT
65 TCGAGTCTTATACTCTCTGAA-AAATAGGGAGCAGACACGA-TTGTTGAAGATTGTTCGAGTCTT
*
12512 ATACTCTCTGAGGAAATAGGGAGCAGACACGATTGAT
128 ATACTCTCTGCGGAAATAGGGAGCAGACACGATTGAT
12549 GAAGATT
1 GAAGATT
12556 CTTCAAGTTC
Statistics
Matches: 310, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
163 1 0.00
164 149 0.48
165 18 0.06
166 142 0.46
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (164 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
CGAGTCTTATACTCTCTGAAAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATA
CTCTCTGCGGAAATAGGGAGCAGACACGATTGAT
Found at i:12563 original size:166 final size:164
Alignment explanation
Indices: 12053--12563 Score: 765
Period size: 166 Copynumber: 3.1 Consensus size: 164
12043 AACGATAATC
* *
12053 GAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
1 GAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
*
12118 CGAGTCTTATACTCTCTGAAAAAAATAGGGAGCAGACACGATTGTTGAAAATTGTTCGAGTCTTA
66 CGAGTCTTATACTCTCTG--AAAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTA
* *
12183 TACTCTCTGCA-GAAATATGGAGCAGACACGATGGAT
129 TACTCTCTG-AGGAAATAGGGAGCAGACACGATTGAT
* * *
12219 GAAGATTGTTCGAGTCTTGTACTCTCTGAAGAAATAGGGAGCAGACGCAATTGTTGAAGATTGTT
1 GAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
* *
12284 CGAGTCTTATACTCTCTGCAAAATAGGGAGCAGACACGATTGATGAAGATTGTTCGAGTCTTATA
66 CGAGTCTTATACTCTCTGAAAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATA
*
12349 CTCTCTGCGGAAATAGGGAGCAGACACGATTGAT
131 CTCTCTGAGGAAATAGGGAGCAGACACGATTGAT
* * *
12383 GAAGATTGTTCAAGTCTTATACTCTCTGAA-AGAATGGGGAGCAGACACGATTGATGAAGATTGT
1 GAAGATTGTTCAAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACGCGATTGTTGAAGATTGT
* * * * * *
12447 TTGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTTGTTGAAGATGGTTTGGGTCTT
65 TCGAGTCTTATACTCTCTGAA-AAATAGGGAGCAGACACGA-TTGTTGAAGATTGTTCGAGTCTT
12512 ATACTCTCTGAGGAAATAGGGAGCAGACACGATTGAT
128 ATACTCTCTGAGGAAATAGGGAGCAGACACGATTGAT
*
12549 GAAGATTCTTCAAGT
1 GAAGATTGTTCAAGT
12564 TCCTACTCCC
Statistics
Matches: 316, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
163 1 0.00
164 148 0.47
165 18 0.06
166 149 0.47
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (164 bp):
GAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
CGAGTCTTATACTCTCTGAAAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATA
CTCTCTGAGGAAATAGGGAGCAGACACGATTGAT
Found at i:12659 original size:55 final size:54
Alignment explanation
Indices: 12549--12706 Score: 205
Period size: 55 Copynumber: 2.9 Consensus size: 54
12539 CACGATTGAT
* * * * *
12549 GAAGATTCTTCAAGTTC-CTACTCCCTAAGAAAGAGGGAACGAACCCGTTGACA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACTCGTTGACA
*
12602 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACTCGTTCG-CA
1 GAAGATTGTTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACTCGTT-GACA
*
12657 GAAAATTGTTCGAGTTCTATACTCCCTAA-AAATGAGGGAGCGAACTCGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAA-GAGGGAGCGAACTCGTT
12707 TTCCGAATAT
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
53 18 0.19
54 26 0.28
55 48 0.52
56 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (54 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACTCGTTGACA
Found at i:15670 original size:24 final size:25
Alignment explanation
Indices: 15629--15675 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
15619 AATAGATTGA
15629 AGATGAAAGGAGTGTGTTGTGTAAG
1 AGATGAAAGGAGTGTGTTGTGTAAG
15654 AGATGAAA-GAGTGTGTTGTGTA
1 AGATGAAAGGAGTGTGTTGTGTA
15676 CGAGTTCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30
Consensus pattern (25 bp):
AGATGAAAGGAGTGTGTTGTGTAAG
Found at i:19069 original size:17 final size:17
Alignment explanation
Indices: 19049--19091 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
19039 TGTGCTTGCA
19049 GGTCACGGGTGCGAGCT
1 GGTCACGGGTGCGAGCT
19066 GGTCACGGGTGCGAGCT
1 GGTCACGGGTGCGAGCT
19083 GGTCACGGG
1 GGTCACGGG
19092 CTTCAGGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.23, G:0.49, T:0.16
Consensus pattern (17 bp):
GGTCACGGGTGCGAGCT
Found at i:19853 original size:55 final size:55
Alignment explanation
Indices: 19769--20184 Score: 461
Period size: 55 Copynumber: 7.6 Consensus size: 55
19759 CTCCATAGTC
* *
19769 CTTCAGAGAGTATAAGACCCGAACAATCTTTAACAATCGCGTCTGCCCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTT
*
19824 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTT
* * * * *
19879 CTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCACGCCTTCCCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTT
* * * *
19932 CTTCAGAGAGTATAAGACTCGAACCATCTTCAACAATCGTGTCGGCTCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTT
* * * * *
19987 CTGCATAGAGTATAAGACTCGAACAATTTTCAACAATCGTGTCTGCTCCCC-ATTC
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGC-CCCCTATTT
* * * *
20042 CTTCGGAGAGTATAAGACTCAAACAATCTTCATCAATCGCGTCTGCTCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTT
* * ** * * * *
20097 CTTCAGGGAGTAT-AGAACTTGAA-AATCTTCTGCAAACGGGTTCT-CTCCCTCTTT
1 CTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCG-TCTGCCCCCTATTT
*
20151 CTTCAGGGGAGTAT-AGAACTCGAAC-ATCTTCAAC
1 CTTCA-GAGAGTATAAG-ACTCGAACAATCTTCAAC
20185 TGGGTTCGCT
Statistics
Matches: 307, Mismatches: 46, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
53 46 0.15
54 34 0.11
55 224 0.73
56 3 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (55 bp):
CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTT
Found at i:19985 original size:163 final size:165
Alignment explanation
Indices: 19769--20110 Score: 483
Period size: 163 Copynumber: 2.1 Consensus size: 165
19759 CTCCATAGTC
* * *
19769 CTTCAGAGAGTATAAGACCCGAACAATCTTTAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAG
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCGGCCCCCTATTTCTGCAGAGAG
* *
19834 TATAAGACTCGAACAATCTTCAACGATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATAAGAC-
66 TATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCC-ATTCCTTCAGAGAGTATAAGACT
* *
19897 C-CACAATCTTCATCAATCACGCCTTCCCCCTATTT
130 CAAACAATCTTCATCAATCACGCCTGCCCCCTATTT
* * * * *
19932 CTTCAGAGAGTATAAGACTCGAACCATCTTCAACAATCGTGTCGGCTCCCTATTTCTGCATAGAG
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCGGCCCCCTATTTCTGCAGAGAG
* * *
19997 TATAAGACTCGAACAATTTTCAACAATCGTGTCTGCTCCCCATTCCTTCGGAGAGTATAAGACTC
66 TATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCCATTCCTTCAGAGAGTATAAGACTC
* * *
20062 AAACAATCTTCATCAATCGCGTCTGCTCCCTATTT
131 AAACAATCTTCATCAATCACGCCTGCCCCCTATTT
*
20097 CTTCAGGGAGTATA
1 CTTCAGAGAGTATA
20111 GAACTTGAAA
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
163 110 0.70
164 5 0.03
165 42 0.27
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (165 bp):
CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCGGCCCCCTATTTCTGCAGAGAG
TATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCCATTCCTTCAGAGAGTATAAGACTC
AAACAATCTTCATCAATCACGCCTGCCCCCTATTT
Found at i:20227 original size:51 final size:50
Alignment explanation
Indices: 20086--20496 Score: 335
Period size: 51 Copynumber: 7.9 Consensus size: 50
20076 AATCGCGTCT
* * * * *
20086 GCTCCCTATTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAACGGGTTC
1 GCTCCCTTTTTCTTTAAGGAGTATAGAACTCGAACATC-T-T-C-AACGGGTTC
* * * *
20140 TCTCCCTCTTTCTTCAGGGGAGTATAGAACTCGAACATCTTCAACTGGGTTC
1 GCTCCCTTTTTCTTTA-AGGAGTATAGAACTCGAACATCTTCAAC-GGGTTC
* * *
20192 GCTCCCTTTTTCTTTACGGAGTATAGAGCTCGAACATCTTCGACAGGGTTC
1 GCTCCCTTTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAC-GGGTTC
* * * * *
20243 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTC
1 GCTCCCTTTTTCTTTAAGGAGTATAGAACTC--GAA-CATCTTC-AACGGGTTC
*
20297 GCT--CTTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTC
1 GCTCCCTTT-T-TCTTTAAGGAGTATAGAACTCGAACATCTTC-AACGGGTTC
* * * *
20348 GCTCCCTTCTTTCTTTAAGGAGTATGGGACTCGGATATCTTCACACGGGTTC
1 GCTCCCTT-TTTCTTTAAGGAGTATAGAACTCGAACATCTTCA-ACGGGTTC
* * * * *
20400 GCTCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTTCAAACGGGTTC
1 GCTCCCTTTTTCTTTAAGGAGTATAGAACTCGA-ACA--TCTTC-AACGGGTTC
* * *
20453 GCT-CCTTCTTTCTTTAAGGAGAACAGAACTCGAATATCTTCAAC
1 GCTCCCTT-TTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAC
20497 AATCGTGTCT
Statistics
Matches: 295, Mismatches: 44, Indels: 40
0.78 0.12 0.11
Matches are distributed among these distances:
50 3 0.01
51 106 0.36
52 70 0.24
53 43 0.15
54 51 0.17
55 22 0.07
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (50 bp):
GCTCCCTTTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAACGGGTTC
Found at i:20294 original size:157 final size:156
Alignment explanation
Indices: 20086--20549 Score: 519
Period size: 157 Copynumber: 2.9 Consensus size: 156
20076 AATCGCGTCT
* * * *
20086 GCTCCCTATTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAACGGGTTCTCTCCCTCTTT
1 GCTCCCTATTTCTTCAGGGAGTATAGAACTTAAAAATCTTCTTCAAACGGGTTCGCTCCTTCTTT
* * *
20151 CTTCAGGGGAGTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCCTT-TTTCTTTACGGAGTA
66 CTTTA-AGGAGTATAGAACTCGAACATCTTCAAC-GGGTTCGCTCCCTTCTTTCTTTAAGGAGTA
20215 T-AGAGCTCGAACATCTTCGACA-GGGTTC
129 TGAGA-CTCGAACATCTTC-ACACGGGTTC
* * ** * *
20243 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCTTTCTCT
1 GCTCCCTATTTCTTCAGGGAGTATAGAACTTAAAAATCTTCTTCAAACGGGTTCGCTCCTTCTTT
*
20308 CTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTTCTTTCTTTAAGGAGTAT
66 CTTTAAGGAGTATAGAACTCGAACATCTTC-AACGGGTTCGCTCCCTTCTTTCTTTAAGGAGTAT
* * *
20373 GGGACTCGGATATCTTCACACGGGTTC
130 GAGACTCGAACATCTTCACACGGGTTC
* * * *
20400 GCTCCCTCTTTC-TCTAGGGAGTATGGAACTTAGACATC-TCTTCAAACGGGTTCGCTCCTTCTT
1 GCTCCCTATTTCTTC-AGGGAGTATAGAACTTAAAAATCTTCTTCAAACGGGTTCGCTCCTTCTT
* * * ** * *
20463 TCTTTAAGGAGAACAGAACTCGAATATCTTCAACAATCGTGTCTGCTCCC-TATTTC-TTCAGAG
65 TCTTTAAGGAGTATAGAACTCGAACATCTTCAAC--GGGT-TC-GCTCCCTTCTTTCTTTAAG-G
20526 AGTATGAGACTCGAACGATCTTCA
125 AGTATGAGACTCGAAC-ATCTTCA
20550 ACGATCGTGT
Statistics
Matches: 259, Mismatches: 37, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
155 3 0.01
156 90 0.35
157 130 0.50
158 23 0.09
159 13 0.05
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (156 bp):
GCTCCCTATTTCTTCAGGGAGTATAGAACTTAAAAATCTTCTTCAAACGGGTTCGCTCCTTCTTT
CTTTAAGGAGTATAGAACTCGAACATCTTCAACGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATG
AGACTCGAACATCTTCACACGGGTTC
Found at i:20319 original size:105 final size:101
Alignment explanation
Indices: 20104--20496 Score: 310
Period size: 105 Copynumber: 3.8 Consensus size: 101
20094 TTTCTTCAGG
* * * *
20104 GAGTATAGAACTTGAAAATCTTCTGCAAACGGGTTCTCTCCCTCTTTCTTCAGGGGAGTATAGAA
1 GAGTATAGAACTCGAACATC-T-T-CAAACGGGTTCGCTCCCTTTTTCTTCA-GGGAGTATAGAA
* * **
20169 CTCGAACATCTTCAACTGGGTTCGCTCCCTTTTTCTTTACG
62 CTCAAAAATCTTCAACTGGGTTCGCT-CCTTTTTCTTTAAA
* *
20210 GAGTATAGAGCTCGAACATCTTC-GACAGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTC
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTC
**
20274 AAAAATCTTCTTCTTACGGGTTCGCT-CTTTCTCTCTTTAAA
65 AAAAATCTTCAAC-T--GGGTTCGCTCCTTT-T-TCTTTAAA
* * * *
20315 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATGGGACTC
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTT-TTTCTTCAGGGAGTATAGAACTC
** * * * **
20380 GGATATCTTCACAC-GGGTTCGCTCCCTCTTTCTCTAGG
65 AAAAATCTTCA-ACTGGGTTCGCT-CCTTTTTCTTTAAA
* * * * * *
20418 GAGTATGGAACT-TAGACATCTCTTCAAACGGGTTCGCT-CCTTCTTTCTTTAAGGAGAACAGAA
1 GAGTATAGAACTCGA-ACA--TCTTCAAACGGGTTCGCTCCCTT-TTTCTTCAGGGAGTATAGAA
* *
20481 CTCGAATATCTTCAAC
62 CTCAAAAATCTTCAAC
20497 AATCGTGTCT
Statistics
Matches: 239, Mismatches: 34, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
102 27 0.11
103 56 0.23
104 37 0.15
105 73 0.31
106 45 0.19
107 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (101 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCA
AAAATCTTCAACTGGGTTCGCTCCTTTTTCTTTAAA
Found at i:20561 original size:55 final size:55
Alignment explanation
Indices: 20480--20659 Score: 231
Period size: 55 Copynumber: 3.3 Consensus size: 55
20470 GGAGAACAGA
*
20480 ACTCGAA-TATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
* * * ** *
20534 ACTCGAACGATCTTCAACGATCGTGTCTGCCCCCCTACATCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTG-CTCCCTATTTCTTCAGAGAGTATGAG
* * * *
20590 AC-C-CACAATCTTCATCAATTGCGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
20643 ACTCGAACAATCTTCAA
1 ACTCGAACAATCTTCAA
20660 TAATTGCTGG
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
53 24 0.23
54 26 0.25
55 30 0.29
56 24 0.23
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
Found at i:21610 original size:8 final size:8
Alignment explanation
Indices: 21592--21629 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
21582 CCTTCTTCTT
21592 TTTTTTCCA
1 TTTTTT-CA
21601 TTTTTTCA
1 TTTTTTCA
21609 TTTTTT-A
1 TTTTTTCA
*
21616 TTTTTTTA
1 TTTTTTCA
21624 TTTTTT
1 TTTTTT
21630 TTTACTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.25
8 15 0.54
9 6 0.21
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTCA
Found at i:21618 original size:15 final size:15
Alignment explanation
Indices: 21600--21629 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21590 TTTTTTTTCC
21600 ATTTTTTCATTTTTT
1 ATTTTTTCATTTTTT
*
21615 ATTTTTTTATTTTTT
1 ATTTTTTCATTTTTT
21630 TTTACTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTCATTTTTT
Found at i:25165 original size:8 final size:8
Alignment explanation
Indices: 25152--25179 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
25142 GAAAAAGAAG
25152 ATATATAC
1 ATATATAC
25160 ATATATAC
1 ATATATAC
25168 ATATATAC
1 ATATATAC
25176 ATAT
1 ATAT
25180 GGGAGAATCT
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:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:34676 original size:17 final size:17
Alignment explanation
Indices: 34656--34698 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
34646 TGTGCTTGCA
34656 GGTCACGGGTGCGAGCT
1 GGTCACGGGTGCGAGCT
34673 GGTCACGGGTGCGAGCT
1 GGTCACGGGTGCGAGCT
34690 GGTCACGGG
1 GGTCACGGG
34699 CTTCAGGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.23, G:0.49, T:0.16
Consensus pattern (17 bp):
GGTCACGGGTGCGAGCT
Found at i:36603 original size:2 final size:2
Alignment explanation
Indices: 36596--36627 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36586 TTTGTTTAGG
36596 AT 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
36628 GTAAAATCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47298 original size:4 final size:4
Alignment explanation
Indices: 47289--47332 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
47279 TCTCTTGCAT
*
47289 TTTA TTTA TTTA TTTC TTTA TTTA TTTA TTATA TATTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA TTTA TTT
47333 CTTTCTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
4 26 0.74
5 5 0.14
6 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:54658 original size:16 final size:16
Alignment explanation
Indices: 54637--54676 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
54627 GGATTTTAGA
*
54637 CTCTGGTTGTGGATTT
1 CTCTGGTTGTGGATGT
54653 CTCTGGTTGTGGATGT
1 CTCTGGTTGTGGATGT
54669 CTCTGGTT
1 CTCTGGTT
54677 TCGTCGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.05, C:0.15, G:0.33, T:0.47
Consensus pattern (16 bp):
CTCTGGTTGTGGATGT
Found at i:55688 original size:55 final size:54
Alignment explanation
Indices: 55617--56662 Score: 1329
Period size: 55 Copynumber: 19.3 Consensus size: 54
55607 AACATAAGTG
* * * *
55617 AGACTCAAACAGTCTTCTGCAAACGCGTCTGCTCCCC-ATTTCTTCAGAGAGTATG
1 AGACTCGAACAATCTTCT-CAATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATA
* * * * * *
55672 AGACTCAAACAATCTTCATAAATTGCGTCTTCTCCCC-ATTCCTTCAGAGAGTATG
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATA
* * * *
55727 AGACTCGAACAATCTTCATCAATCGCGTTTTCTCCCC-ATTCCTTCAGAGAGTATG
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATA
* *
55782 AGACTCGAACAATCTTCATCAATCGCGTCTTCTCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
55837 AGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
**
55890 AGACTCGAACAATC-T-TCAA-C-AATCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTCTCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * *
55940 AGACTCGAACATTCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
55995 AGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
56048 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* *
56103 AGACTCGAACAATCTTCAACAATCGCGTCTGGCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
56158 AGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* *
56213 AGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * **
56268 AGACTCGAACAATCTTCAACGATCGCGTCTGCCTTCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * * * *
56323 AGAC-C-CACAATCTTCAACAATCGTGTCTACCCCCTGTTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
56376 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * *
56431 AGACTCGAACAATCTTCAACGATCGCGTCTGCCTCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* *
56486 AGAC-C-CACAATCTT-TAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTCT--CAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
56539 AGACTC--ACAATCTTCATCAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATA
1 AGACTCGAACAATCTTC-TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * *
56592 AGACTTGAACAATCTTCAAT-AATCGTGTCTGCACCCTATTTCTTCAGAGAGTATA
1 AGACTCGAACAATCTTC--TCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
56647 AGACTCGAATAATCTT
1 AGACTCGAACAATCTT
56663 TTTTTGCCTC
Statistics
Matches: 904, Mismatches: 66, Indels: 42
0.89 0.07 0.04
Matches are distributed among these distances:
50 41 0.05
51 2 0.00
52 4 0.00
53 236 0.26
54 13 0.01
55 605 0.67
56 3 0.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (54 bp):
AGACTCGAACAATCTTCTCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
Found at i:55897 original size:108 final size:110
Alignment explanation
Indices: 55617--56662 Score: 1486
Period size: 110 Copynumber: 9.6 Consensus size: 110
55607 AACATAAGTG
* * * * *
55617 AGACTCAAACAGTCTTC-TGCAAACGCGTCTGCTCCCC-ATTTCTTCAGAGAGTATGAGACTCAA
1 AGACTCGAACAATCTTCAT-CAATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATAAGACTCGA
* * * *
55680 ACAATCTTCATA-AATTGCGTCTTCTCCCC-ATTCCTTCAGAGAGTATG
64 ACAATCTTCA-ACAATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATA
* * * *
55727 AGACTCGAACAATCTTCATCAATCGCGTTTTCTCCCC-ATTCCTTCAGAGAGTATGAGACTCGAA
1 AGACTCGAACAATCTTCATCAATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATAAGACTCGAA
* * *
55791 CAATCTTCATCAATCGCGTCTTCTCCCTATTTCTTCAGAGAGTATA
65 CAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
55837 AGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
55900 AATCTTCAACAA-----TCTGCCCCCTATTTCTTCAGAGAGTATA
66 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * * *
55940 AGACTCGAACATTCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CAC
1 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
56003 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
66 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
56048 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
56113 AATCTTCAACAATCGCGTCTGGCCCCTATTTCTTCAGAGAGTATA
66 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
56158 AGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
56223 AATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATA
66 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * ** *
56268 AGACTCGAACAATCTTCAACGATCGCGTCTGCCTTCTATTTCTTCAGAGAGTATAAGAC-C-CAC
1 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
56331 AATCTTCAACAATCGTGTCTACCCCCTGTTTCTTCAGAGAGTATA
66 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
56376 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
56441 AATCTTCAACGATCGCGTCTGCCTCCTATTTCTTCAGAGAGTATA
66 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * * *
56486 AGAC-C-CACAATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTC--AC
1 AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
56547 AATCTTCATCAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATA
66 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * *
56592 AGACTTGAACAATCTTCAAT-AATCGTGTCTGCACCCTATTTCTTCAGAGAGTATAAGACTCGAA
1 AGACTCGAACAATCTTC-ATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA
*
56656 TAATCTT
65 CAATCTT
56663 TTTTTGCCTC
Statistics
Matches: 851, Mismatches: 65, Indels: 40
0.89 0.07 0.04
Matches are distributed among these distances:
103 43 0.05
104 2 0.00
105 48 0.06
106 47 0.06
107 4 0.00
108 341 0.40
109 9 0.01
110 356 0.42
111 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (110 bp):
AGACTCGAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
Found at i:55897 original size:163 final size:162
Alignment explanation
Indices: 55617--56650 Score: 1530
Period size: 163 Copynumber: 6.4 Consensus size: 162
55607 AACATAAGTG
* * ** * * * *
55617 AGACTCAAACAGTCTTCTGCAAACGCGTCTGCTCCCCATTTCTTCAGAGAGTATGAGACTCAAAC
1 AGACTCGAACAATCTTCAACAATCGCGTCTGC-CCCTATTTCTTCAGAGAGTATAAGAC-C-CAC
* * * *
55682 AATCTTCATA-AATTGCGTCTTCTCCCC-ATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCA
63 AATCTTCA-ACAATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA
* * * *
55745 TCAATCGCGTTTTCTCCCC-ATTCCTTCAGAGAGTATG
126 TCAATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATA
* *
55782 AGACTCGAACAATCTTCATCAATCGCGTCTTCTCCCTATTTCTTCAGAGAGTATAAGACCCACAA
1 AGACTCGAACAATCTTCAACAATCGCGTCTGC-CCCTATTTCTTCAGAGAGTATAAGACCCACAA
* *
55847 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
65 TCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAA
55912 -----TCTGCCCCCTATTTCTTCAGAGAGTATA
130 TCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* *
55940 AGACTCGAACATTCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAA
1 AGACTCGAACAATCTTCAACAATCGCGTCTG-CCCCTATTTCTTCAGAGAGTATAAGACCCACAA
*
56005 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAA
65 TCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAA
56070 TCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
130 TCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
56103 AGACTCGAACAATCTTCAACAATCGCGTCTGGCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AGACTCGAACAATCTTCAACAATCGCGTCT-GCCCCTATTTCTTCAGAGAGTATAAGAC-C-CAC
*
56168 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
63 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATC
*
56233 AATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATA
128 AATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* *
56268 AGACTCGAACAATCTTCAACGATCGCGTCTGCCTTCTATTTCTTCAGAGAGTATAAGACCCACAA
1 AGACTCGAACAATCTTCAACAATCGCGTCTGCC-CCTATTTCTTCAGAGAGTATAAGACCCACAA
* * *
56333 TCTTCAACAATCGTGTCTACCCCCTGTTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAA
65 TCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAA
56398 TCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
130 TCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
*
56431 AGACTCGAACAATCTTCAACGATCGCGTCTGCCTCCTATTTCTTCAGAGAGTATAAGACCCACAA
1 AGACTCGAACAATCTTCAACAATCGCGTCTGCC-CCTATTTCTTCAGAGAGTATAAGACCCACAA
* *
56496 TCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTC--ACAATCTTCATCAA
65 TCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAA
*
56559 TCGCGTCTGCCCCCTATTTATTCAGAGAGTATA
130 TCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * *
56592 AGACTTGAACAATCTTCAATAATCGTGTCTGCACCCTATTTCTTCAGAGAGTATAAGAC
1 AGACTCGAACAATCTTCAACAATCGCGTCTGC-CCCTATTTCTTCAGAGAGTATAAGAC
56651 TCGAATAATC
Statistics
Matches: 808, Mismatches: 47, Indels: 32
0.91 0.05 0.04
Matches are distributed among these distances:
157 4 0.00
158 142 0.18
159 1 0.00
161 99 0.12
162 5 0.01
163 347 0.43
164 7 0.01
165 203 0.25
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (162 bp):
AGACTCGAACAATCTTCAACAATCGCGTCTGCCCCTATTTCTTCAGAGAGTATAAGACCCACAAT
CTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAAT
CGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
Found at i:58371 original size:123 final size:121
Alignment explanation
Indices: 58162--58392 Score: 268
Period size: 123 Copynumber: 1.9 Consensus size: 121
58152 TCTTATATTG
* **
58162 GTACGAGTCTTCAAAATGCCCCAAAACCTCAATTTGTAAGGCTCAATCAACGCCTTCTTGATCTG
1 GTACGAGCCTTCAAAATGCCCC--AACCTCAAAATGTAAGGCTCAATCAACGCCTTCTTGATCTG
* ** * *
58227 AATCTTGTCGTCTCATCATGATGTGGGTTCAATCGTGCCCCAACTTTATCTTTTGCAA
64 AATCTTGTCATCTCAAAATGATGGGGGTTCAATCATGCCCCAACTTTATCTTTTGCAA
* * * *
58285 GTACGAGCCTTCAAAATG-CCC-ACCTCAAAATGTAAGGCTCATTCTCAATGCCTTTTTGGTCTG
1 GTACGAGCCTTCAAAATGCCCCAACCTCAAAATGTAAGGCTCA--ATCAACGCCTTCTTGATCTG
* *
58348 AATATTTTGTCATCTCAAAATGATGGGGGTTCAGTCATGCCCCAA
64 -A-ATCTTGTCATCTCAAAATGATGGGGGTTCAATCATGCCCCAA
58393 TGTGGGTATT
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
119 18 0.20
121 16 0.18
122 4 0.04
123 52 0.58
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (121 bp):
GTACGAGCCTTCAAAATGCCCCAACCTCAAAATGTAAGGCTCAATCAACGCCTTCTTGATCTGAA
TCTTGTCATCTCAAAATGATGGGGGTTCAATCATGCCCCAACTTTATCTTTTGCAA
Found at i:62385 original size:21 final size:21
Alignment explanation
Indices: 62308--62462 Score: 149
Period size: 21 Copynumber: 7.4 Consensus size: 21
62298 CCATGTGATG
* *
62308 TGGTCTTCTCGTCTTTACGAA
1 TGGTCTTCTCGTCTTGATGAA
*
62329 -GGTCTTCTCGTCGTT-ATAAA
1 TGGTCTTCTCGTC-TTGATGAA
*
62349 AGGTCTTCTCGTCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
62370 TGGTCTTCTCGTCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
* *
62391 TGGCCTCCTCGTCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
*
62412 T-GACATTC-CTGTCTTGATGAA
1 TGGTC-TTCTC-GTCTTGATGAA
* *
62433 T-GACATTCTCATCTTGATGAA
1 TGGTC-TTCTCGTCTTGATGAA
*
62454 TGCTCTTCT
1 TGGTCTTCT
62463 TGTCCTTGGT
Statistics
Matches: 116, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
20 20 0.17
21 94 0.81
22 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (21 bp):
TGGTCTTCTCGTCTTGATGAA
Found at i:66018 original size:16 final size:16
Alignment explanation
Indices: 65997--66036 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
65987 GGATTTTAGA
*
65997 CTCTGGTTGTGGATTT
1 CTCTGGTTGTGGATGT
66013 CTCTGGTTGTGGATGT
1 CTCTGGTTGTGGATGT
66029 CTCTGGTT
1 CTCTGGTT
66037 TCGTCGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.05, C:0.15, G:0.33, T:0.47
Consensus pattern (16 bp):
CTCTGGTTGTGGATGT
Found at i:69144 original size:44 final size:44
Alignment explanation
Indices: 69038--69228 Score: 278
Period size: 44 Copynumber: 4.3 Consensus size: 44
69028 GGAATATGGT
* *
69038 TTATGGA-ATAATGGCAAGTGTATTGGTAAAATAAGCTTACGAG-
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* * *
69081 ATATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTATGAGT
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
69125 TTATGGATAAATGGTAAGTATATTAGTAAAATAAGCTTACAAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
69169 TTATGGATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
69213 TTATGGGATAAATGGT
1 TTAT-GGATAAATGGT
69229 GAATTTATTG
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 37 0.28
44 85 0.64
45 11 0.08
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:69750 original size:7 final size:7
Alignment explanation
Indices: 69740--69782 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
69730 GTTCACAAGG
69740 CACTGTT
1 CACTGTT
69747 CACTGTT
1 CACTGTT
69754 -ACTGTT
1 CACTGTT
69760 CACTGTT
1 CACTGTT
69767 CGA-TGTT
1 C-ACTGTT
69774 CACTGTT
1 CACTGTT
69781 CA
1 CA
69783 TAAAAAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 7 0.21
7 25 0.76
8 1 0.03
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (7 bp):
CACTGTT
Found at i:69775 original size:14 final size:14
Alignment explanation
Indices: 69740--69782 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
69730 GTTCACAAGG
69740 CACTGTTCACTGTT
1 CACTGTTCACTGTT
69754 -ACTGTTCACTGTT
1 CACTGTTCACTGTT
69767 CGA-TGTTCACTGTT
1 C-ACTGTTCACTGTT
69781 CA
1 CA
69783 TAAAAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 14 0.52
14 12 0.44
15 1 0.04
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (14 bp):
CACTGTTCACTGTT
Found at i:79488 original size:112 final size:111
Alignment explanation
Indices: 79288--79550 Score: 364
Period size: 112 Copynumber: 2.3 Consensus size: 111
79278 GTTCGATCCT
* * *
79288 AATTCAATGGATCAACTCCCACAGATATGATATTCCCTTTCAAAGAAGCGGAACAGATCTCTCTC
1 AATTCAATGGATCAACTCCC-CAGATATGATATTCCCTTTCAAAGAAGAGAAACAGATCCCTCTC
*
79353 TTCCAAGATTTGATAGTCACTGAGTGATAGCGGAACAAGTCTACCCC
65 TTCCAAGATTTGATAGTCACTGAGTGACAGCGGAACAAGTCTACCCC
* * * * *
79400 GATTCAATGGATCAACTCCCTCAGATTTGATATTCTCTTTCAAAGAAGAGAAACATATCCCTTTC
1 AATTCAATGGATCAACTCCC-CAGATATGATATTCCCTTTCAAAGAAGAGAAACAGATCCCTCTC
* * * *
79465 TTCCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCT
65 TTCCAAGATTTGATAGTCACTGAGTGACAGCGGAACAAGTCTACCCC
* *
79512 AATTCAATGGATCATCTCACCCAGATCTGATATTCCCTT
1 AATTCAATGGATCAACTC-CCCAGATATGATATTCCCTT
79551 CAGAGTAAGC
Statistics
Matches: 132, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
112 130 0.98
113 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (111 bp):
AATTCAATGGATCAACTCCCCAGATATGATATTCCCTTTCAAAGAAGAGAAACAGATCCCTCTCT
TCCAAGATTTGATAGTCACTGAGTGACAGCGGAACAAGTCTACCCC
Found at i:79737 original size:113 final size:113
Alignment explanation
Indices: 79534--79893 Score: 540
Period size: 113 Copynumber: 3.2 Consensus size: 113
79524 CATCTCACCC
* ** * *
79534 AGATCTGATATTCCCTTCAGAGTAAGCAGAACAAATCTGCCTCGATTCAATGGATCAACTCCCCC
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCC
79599 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTTTCCA
66 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTTTCCA
* *
79647 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTAAATGGGTCAACTCCCCC
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCC
* * * *
79712 AAATCTGATATTCCCTTCAGAGTAAGCGGAACAACTATTTCTTTTCCA
66 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTTTCCA
* * * *
79760 AGATTTGTTATTCCCTTCAGAGCAAGTGGAATAAGTCTGCCCCGATTCAATGGATCAACTGCCCC
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCC
* * * * *
79825 AGATATGATATTCCCTTCAGAGTAAACAGAACATGTCTCTCTTCTCCA
66 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTTTCCA
79873 AGATTTGATATTCCCTTCAGA
1 AGATTTGATATTCCCTTCAGA
79894 AAGAAACAGA
Statistics
Matches: 220, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 220 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (113 bp):
AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCC
AGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTTTCCA
Found at i:79927 original size:48 final size:48
Alignment explanation
Indices: 79830--79936 Score: 132
Period size: 48 Copynumber: 2.2 Consensus size: 48
79820 GCCCCAGATA
*
79830 TGATATTCCCTTCAGAGTAAACAGAACATGTCTCTCTTCTCCAAGATT
1 TGATATTCCCTTCAGAGTAAACAGAACATGTCTCTCTTCTCCAAAATT
*
79878 TGATATTCCCTTCAGAAAG-AAACAGAACA-GATC-CAT-TTCTTCAAAATT
1 TGATATTCCCTTCAG--AGTAAACAGAACATG-TCTC-TCTTCTCCAAAATT
79926 TGATATTCCCT
1 TGATATTCCCT
79937 AAGTGACAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
48 38 0.72
49 13 0.25
50 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (48 bp):
TGATATTCCCTTCAGAGTAAACAGAACATGTCTCTCTTCTCCAAAATT
Found at i:80820 original size:2 final size:2
Alignment explanation
Indices: 80809--80886 Score: 71
Period size: 2 Copynumber: 42.5 Consensus size: 2
80799 AAATATTTAA
* *
80809 AT AT -T AT AT AT AT AT AT AT AT AT AT AT -T A- AT TT AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
80847 AA AT TT AT -T A- AT AT -T 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
80886 A
1 A
80887 AAATAATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
1 7 0.11
2 54 0.89
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:80842 original size:48 final size:47
Alignment explanation
Indices: 80783--80883 Score: 161
Period size: 48 Copynumber: 2.1 Consensus size: 47
80773 TCGGGTCGGG
80783 TATATA-TATTTAAATTAAATATT-TAAATATTATATATATATATATA
1 TATATATTATTTAAATTAAAT-TTATAAATATTATATATATATATATA
*
80829 TATATATTAATTTAAATTAAATTTATTAATATTATATATATATATATA
1 TATATATT-ATTTAAATTAAATTTATAAATATTATATATATATATATA
80877 TATATAT
1 TATATAT
80884 ATAAAATAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
46 6 0.12
47 3 0.06
48 42 0.82
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (47 bp):
TATATATTATTTAAATTAAATTTATAAATATTATATATATATATATA
Found at i:80895 original size:48 final size:47
Alignment explanation
Indices: 80793--80906 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 47
80783 TATATATATT
* **
80793 TAAATTAAATATTTAAATATTATATATATATATATATATATATTAATT
1 TAAATTAAAT-TTTTAATATTATATATATATATATATATATATTAAAA
80841 TAAATTAAATTTATTAATATTATATATATATATATATATATATATAAAA
1 TAAATTAAATTT-TTAATATTATATATATATATATATATATAT-TAAAA
80890 T-AATT--ATTTTTAATATT
1 TAAATTAAATTTTTAATATT
80907 TATCGGGCCG
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
45 8 0.13
46 4 0.07
47 2 0.03
48 43 0.70
49 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (47 bp):
TAAATTAAATTTTTAATATTATATATATATATATATATATATTAAAA
Found at i:84432 original size:42 final size:40
Alignment explanation
Indices: 84343--84473 Score: 118
Period size: 41 Copynumber: 3.1 Consensus size: 40
84333 TATTCGATTG
* * *
84343 TTTATGTTTACAAATAAATTGTTTATGGGTTTATTTTAATTCA
1 TTTATATTTACAAATAAATTATTTAT--GTTTA-TTTAATTAA
* *
84386 TTTATATTTACGAATAAATTCATTTATGTTTATTTATTTAA
1 TTTATATTTACAAATAAATT-ATTTATGTTTATTTAATTAA
* ** * * *
84427 TTTTATATTTTCTTATAAATTATTTATTTTTATTTTATTCA
1 -TTTATATTTACAAATAAATTATTTATGTTTATTTAATTAA
84468 TTTATA
1 TTTATA
84474 ATTATTAATA
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
40 6 0.08
41 23 0.31
42 22 0.30
43 18 0.24
44 5 0.07
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (40 bp):
TTTATATTTACAAATAAATTATTTATGTTTATTTAATTAA
Found at i:84504 original size:31 final size:30
Alignment explanation
Indices: 84437--84504 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
84427 TTTTATATTT
*
84437 TCTTATAAATTATTTATTTTTATTTTATTCA
1 TCTTAT-AATTATTTATTTTTATTTGATTCA
*
84468 T-TTATAATTATTAATATTTTTGTTTGATT-A
1 TCTTATAATTATT--TATTTTTATTTGATTCA
84498 TCTTATA
1 TCTTATA
84505 TTTAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 7 0.22
30 6 0.19
31 19 0.59
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.63
Consensus pattern (30 bp):
TCTTATAATTATTTATTTTTATTTGATTCA
Found at i:84875 original size:29 final size:30
Alignment explanation
Indices: 84843--84906 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
84833 AAATCAAAAC
84843 GACCACCAAACT-TTTAATTAAATCAATCA
1 GACCACCAAACTATTTAATTAAATCAATCA
* *
84872 GACCACCAAACTATTTAATTGATTCAATCA
1 GACCACCAAACTATTTAATTAAATCAATCA
*
84902 AACCA
1 GACCA
84907 ACTGCCGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.27
Consensus pattern (30 bp):
GACCACCAAACTATTTAATTAAATCAATCA
Found at i:85733 original size:123 final size:123
Alignment explanation
Indices: 85595--85983 Score: 370
Period size: 123 Copynumber: 3.0 Consensus size: 123
85585 TTTTCGTTTG
* * * *
85595 ATTAACTGAACCGAATTCACCAAATTTTTGCTTCGATTAATTCGATTAATAATTTAAAAAAATCA
1 ATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATAATTTAAAAAAATCG
* *
85660 TTTAATTTGGGTTGGTTAATAATTTTCAAATTAATTAGGTTCGGTTAATAATTTTCAA
66 GTTAATTTAGGTTGGTTAATAATTTTCAAATTAATTAGGTTCGGTTAATAATTTTCAA
* ** * * * *
85718 ATTAACCGAATCGAATTAACTGAATTTTTTCTTGGATTATTTCGGTTAATATTTTTTAAAAAAA-
1 ATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATA--ATTTAAAAAAAT
* * * * *
85782 -GGTTAATTCAGTTTGGTTAATAATTTTCAAATAAATTTGCTTCGGTTAATAATTTTCAAATAAA
64 CGGTTAATTTAGGTTGGTTAATAATTTTCAAATTAATTAGGTTCGGTTAATAATTTTC------A
85846 TTTTGGTTCA
123 ---------A
*
85856 ATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATAATTTTCAAAAACAT
1 ATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATAA-TTT-AAAAA-AA
* * *
85921 TCGGTTAA-TTCGGTTCGATTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTTCAA
63 TCGGTTAATTTAGGTT-GGTTAATAATTTTCAAATTAATTAGGTTCGGTTAATAATTTTCAA
85982 AT
1 AT
85984 GAACAATATT
Statistics
Matches: 210, Mismatches: 33, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
123 91 0.43
125 10 0.05
126 3 0.01
129 1 0.00
135 1 0.00
137 3 0.01
138 51 0.24
139 1 0.00
140 4 0.02
141 45 0.21
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (123 bp):
ATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATAATTTAAAAAAATCG
GTTAATTTAGGTTGGTTAATAATTTTCAAATTAATTAGGTTCGGTTAATAATTTTCAA
Found at i:85944 original size:141 final size:138
Alignment explanation
Indices: 85717--85983 Score: 372
Period size: 138 Copynumber: 1.9 Consensus size: 138
85707 ATAATTTTCA
* ** * * * * *
85717 AATTAACCGAATCGAATTAACTGAATTTTTTCTTGGATTATTTCGGTTAATATTTTTTAAAAAAA
1 AATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATAATTTTCAAAAAAA
* * *
85782 GGTTAATTCAGTTTGGTTAATAATTTTCAAATAAATTTGCTTCGGTTAATAATTTTCAAATAAAT
66 GGTTAATTCAGTTCGATTAATAATTTTCAAATAAATTCGCTTCGGTTAATAATTTTCAAATAAAT
85847 TTTGGTTC
131 TTTGGTTC
85855 AATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATAATTTTCAAAAACA
1 AATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATAATTTTCAAAAA-A
* * * *
85920 TTCGGTTAATTCGGTTCGATTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTTCAAAT
65 --AGGTTAATTCAGTTCGATTAATAATTTTCAAATAAATTCGCTTCGGTTAATAATTTTCAAAT
85984 GAACAATATT
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
138 55 0.50
139 1 0.01
141 55 0.50
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (138 bp):
AATTAACCGAACCGAATTAACCAAATTTTTGCTTCGATTAATTCGGTTAATAATTTTCAAAAAAA
GGTTAATTCAGTTCGATTAATAATTTTCAAATAAATTCGCTTCGGTTAATAATTTTCAAATAAAT
TTTGGTTC
Found at i:85971 original size:29 final size:29
Alignment explanation
Indices: 85925--85983 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
85915 AAACATTCGG
85925 TTAATTCGGTTCGATTAATAATTTTCAAA
1 TTAATTCGGTTCGATTAATAATTTTCAAA
*
85954 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCGATTAATAATTTTCAAA
85983 T
1 T
85984 GAACAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (29 bp):
TTAATTCGGTTCGATTAATAATTTTCAAA
Found at i:86831 original size:182 final size:179
Alignment explanation
Indices: 86490--86871 Score: 642
Period size: 182 Copynumber: 2.1 Consensus size: 179
86480 ATTAACGGCC
86490 GGTGGTCTGATTGAATCAATTAAATAATTTGGGAGCTAATTGATTTCTACCACTTCAAGGTATAC
1 GGTGGTCTGATTGAATCAATTAAATAATTTGGGAGCTAATTGATTTCTACCACTTCAAGGTATAC
* *
86555 TCTTTTTCCTCCAAATTAGGTTTAGGAAGGTTTTTTAATGATGACCTTGTTGTGGTGTACTTTGT
66 TATTTTTCCTCCAAATTAGGTTTAGGAAGGTTTTTTAATGATGACCTTGTTGTGATGTACTTTGT
86620 TTATGTCTTAATACAAAGTACCATTTTCAAAAAAAAAAAAATTAAATAATTT
131 TTATGTCTTAATACAAAGTACCATTTTC---AAAAAAAAAATTAAATAATTT
* *
86672 GGTGGCCTGATTGAATCAATTAAATAATTTGGGAGCTAATTGATTTCTACCACTTTAAGGTATAC
1 GGTGGTCTGATTGAATCAATTAAATAATTTGGGAGCTAATTGATTTCTACCACTTCAAGGTATAC
*
86737 TATTTTTCCTCCAAATTAGGTTTAGGAAGGTTTTTTTAATGATGTCCTTGTTGTGATGTACTTTG
66 TATTTTTCCTCCAAATTAGGTTTAGGAAGG-TTTTTTAATGATGACCTTGTTGTGATGTACTTTG
*
86802 -TT-TGTCTTAATACAAAGTACCATTTTTCAAAAAAAAATTTAAATAATTT
130 TTTATGTCTTAATACAAAGTACCA-TTTTCAAAAAAAAAATTAAATAATTT
*
86851 GGTGGTCTGATTGATTCAATT
1 GGTGGTCTGATTGAATCAATT
86872 GAAAGCTCGG
Statistics
Matches: 190, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
179 39 0.21
181 20 0.11
182 99 0.52
183 32 0.17
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (179 bp):
GGTGGTCTGATTGAATCAATTAAATAATTTGGGAGCTAATTGATTTCTACCACTTCAAGGTATAC
TATTTTTCCTCCAAATTAGGTTTAGGAAGGTTTTTTAATGATGACCTTGTTGTGATGTACTTTGT
TTATGTCTTAATACAAAGTACCATTTTCAAAAAAAAAATTAAATAATTT
Found at i:88951 original size:18 final size:18
Alignment explanation
Indices: 88930--88972 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
88920 GATGGATTAT
*
88930 GGTATCCTCCTGGAGGAG
1 GGTATCCCCCTGGAGGAG
88948 GGTATCCCCCTGGAGGAG
1 GGTATCCCCCTGGAGGAG
*
88966 GATATCC
1 GGTATCC
88973 AGCTGGTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.21
Consensus pattern (18 bp):
GGTATCCCCCTGGAGGAG
Found at i:88978 original size:18 final size:18
Alignment explanation
Indices: 88932--88978 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
88922 TGGATTATGG
* *
88932 TATCCTCCTGGAGGAGGG
1 TATCCACCTGGAGGAGGA
*
88950 TATCCCCCTGGAGGAGGA
1 TATCCACCTGGAGGAGGA
*
88968 TATCCAGCTGG
1 TATCCACCTGG
88979 TGGATATCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (18 bp):
TATCCACCTGGAGGAGGA
Found at i:88995 original size:30 final size:30
Alignment explanation
Indices: 88955--89023 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
88945 GAGGGTATCC
*
88955 CCCTGGAGGAGGATATCC-AGCTGGTGGATAT
1 CCCT-GAGGAGGATAGCCTAG-TGGTGGATAT
* *
88986 CCCTGAGGAGGGTAGCCTTGTGGTGGATAT
1 CCCTGAGGAGGATAGCCTAGTGGTGGATAT
*
89016 CCATGAGG
1 CCCTGAGG
89024 GCCTTGTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 28 0.85
31 5 0.15
ACGTcount: A:0.20, C:0.19, G:0.38, T:0.23
Consensus pattern (30 bp):
CCCTGAGGAGGATAGCCTAGTGGTGGATAT
Found at i:89052 original size:15 final size:15
Alignment explanation
Indices: 89032--89086 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
89022 GGGCCTTGTG
89032 GTGGTGGATATCCTT
1 GTGGTGGATATCCTT
* *
89047 GTGGTGGGTAGCCTT
1 GTGGTGGATATCCTT
*
89062 GCT-GTGGATATCCAT
1 G-TGGTGGATATCCTT
*
89077 GTGGAGGATA
1 GTGGTGGATA
89087 ATGCCCAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.16, C:0.13, G:0.38, T:0.33
Consensus pattern (15 bp):
GTGGTGGATATCCTT
Found at i:90439 original size:6 final size:6
Alignment explanation
Indices: 90424--90490 Score: 89
Period size: 6 Copynumber: 10.7 Consensus size: 6
90414 ATGTTTAAGT
* *
90424 AAAAGCA AAAAGA AAAAGA AAAAGC AAAAGCA AAAAGA AAAAGA AAAAGC
1 AAAAG-A AAAAGA AAAAGA AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA
90474 AAAAGCA AAAAGA AAAA
1 AAAAG-A AAAAGA AAAA
90491 CACACACCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
6 39 0.72
7 15 0.28
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:90448 original size:19 final size:19
Alignment explanation
Indices: 90424--90490 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 19
90414 ATGTTTAAGT
90424 AAAAGCAAAAAG-AAAAAGA
1 AAAAG-AAAAAGCAAAAAGA
*
90443 AAAAGCAAAAGCAAAAAGA
1 AAAAGAAAAAGCAAAAAGA
90462 AAAAGAAAAAGC-AAAAGCA
1 AAAAGAAAAAGCAAAAAG-A
90481 AAAAGAAAAA
1 AAAAGAAAAA
90491 CACACACCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.23
19 34 0.77
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAGCAAAAAGA
Found at i:90458 original size:25 final size:25
Alignment explanation
Indices: 90424--90490 Score: 134
Period size: 25 Copynumber: 2.7 Consensus size: 25
90414 ATGTTTAAGT
90424 AAAAGCAAAAAGAAAAAGAAAAAGC
1 AAAAGCAAAAAGAAAAAGAAAAAGC
90449 AAAAGCAAAAAGAAAAAGAAAAAGC
1 AAAAGCAAAAAGAAAAAGAAAAAGC
90474 AAAAGCAAAAAGAAAAA
1 AAAAGCAAAAAGAAAAA
90491 CACACACCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (25 bp):
AAAAGCAAAAAGAAAAAGAAAAAGC
Found at i:90591 original size:6 final size:6
Alignment explanation
Indices: 90575--90610 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
90565 TCATTGTAGT
*
90575 TTTTTC TTTTTTC TTTTTC TTTTCC TTTTTC TTTTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
90611 ACTGAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:90603 original size:18 final size:18
Alignment explanation
Indices: 90576--90610 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
90566 CATTGTAGTT
*
90576 TTTTCTTTTTTCTTTTTC
1 TTTTCCTTTTTCTTTTTC
90594 TTTTCCTTTTTCTTTTT
1 TTTTCCTTTTTCTTTTT
90611 ACTGAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTCCTTTTTCTTTTTC
Found at i:91185 original size:111 final size:112
Alignment explanation
Indices: 90991--91192 Score: 334
Period size: 111 Copynumber: 1.8 Consensus size: 112
90981 AAATCTGGGG
* * * *
90991 CAGACTTGTTCCGCTGTCACTCGGGGAATATCAAATCTTGGAAGCGAGTGATATGTTCCGCTTCT
1 CAGACTTATTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGATATGTTCCGCTTCT
*
91056 TCTAAGGGAATATTAGATCTG-GGGAAGTTGATCCATTAAATCGAGA
66 TCTAAGGGAATATCAGATCTGAGGGAAGTTGATCCATTAAATCGAGA
* *
91102 CAGACTTATTCCGCTGTCACTTAGAGAATATCAAATCTTTGAAGAGAGTGATATGTTCCGCTTCT
1 CAGACTTATTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGATATGTTCCGCTTCT
91167 TCTAAGGGAATATCAGATCTGAGGGA
66 TCTAAGGGAATATCAGATCTGAGGGA
91193 GTTAATCATT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
111 79 0.95
112 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (112 bp):
CAGACTTATTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGATATGTTCCGCTTCT
TCTAAGGGAATATCAGATCTGAGGGAAGTTGATCCATTAAATCGAGA
Found at i:91739 original size:2 final size:2
Alignment explanation
Indices: 91734--91761 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
91724 AAAAAAATGA
91734 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
91762 TGCATATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93471 original size:12 final size:12
Alignment explanation
Indices: 93454--93535 Score: 67
Period size: 12 Copynumber: 6.6 Consensus size: 12
93444 CTCATGATGC
*
93454 GAGGGAGGGAGG
1 GAGGGAGGGAGA
93466 GAGGGAGGGAGA
1 GAGGGAGGGAGA
* *
93478 GAGAGAGGGGGA
1 GAGGGAGGGAGA
*
93490 GGGGGAAGAGAGAGA
1 GAGGG-AG-G-GAGA
* *
93505 GAGAGAGGGGGA
1 GAGGGAGGGAGA
93517 GAGGGAGAGG-GA
1 GAGGGAG-GGAGA
93529 GAGGGAG
1 GAGGGAG
93536 AGATACACTT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
12 42 0.75
13 5 0.09
14 3 0.05
15 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (12 bp):
GAGGGAGGGAGA
Found at i:97844 original size:19 final size:19
Alignment explanation
Indices: 97822--97860 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
97812 GACACACAAG
97822 GTTTATACCCTAAAACCTT
1 GTTTATACCCTAAAACCTT
97841 GTTTATACCCTAAAACCTT
1 GTTTATACCCTAAAACCTT
97860 G
1 G
97861 CTTACACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (19 bp):
GTTTATACCCTAAAACCTT
Found at i:99042 original size:15 final size:15
Alignment explanation
Indices: 99019--99071 Score: 97
Period size: 15 Copynumber: 3.5 Consensus size: 15
99009 GGAGAGGTAG
*
99019 GCATAAAGTGATAAC
1 GCATCAAGTGATAAC
99034 GCATCAAGTGATAAC
1 GCATCAAGTGATAAC
99049 GCATCAAGTGATAAC
1 GCATCAAGTGATAAC
99064 GCATCAAG
1 GCATCAAG
99072 CGAATGTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (15 bp):
GCATCAAGTGATAAC
Found at i:107546 original size:30 final size:30
Alignment explanation
Indices: 107509--107835 Score: 290
Period size: 30 Copynumber: 11.0 Consensus size: 30
107499 GTGGTTGTTA
*
107509 TGAAAGTGGTGGTGTAG-AAGTGGATAATGC
1 TGAAAGTGGTAGTGTAGAAAG-GGATAATGC
* * *
107539 TAAAAGTGGTGGTGTAGAAATGGATAATGC
1 TGAAAGTGGTAGTGTAGAAAGGGATAATGC
* * * * *
107569 TGAAATTCGTGGTGTAGAAATGGATACTGC
1 TGAAAGTGGTAGTGTAGAAAGGGATAATGC
* *
107599 TTAATG-GGTAGTGTAGAAAGGGATAATGC
1 TGAAAGTGGTAGTGTAGAAAGGGATAATGC
* *
107628 TGAAA-TGGGTAGTGTTGAAAGGGATAATGT
1 TGAAAGT-GGTAGTGTAGAAAGGGATAATGC
* *
107658 TGAAAGTGGTGGTGTAGAAATGGATAATGC
1 TGAAAGTGGTAGTGTAGAAAGGGATAATGC
*
107688 TGAAA-TGAGTAGTGTAGAAAGGGACAATGC
1 TGAAAGTG-GTAGTGTAGAAAGGGATAATGC
* *
107718 TGAAA-TATGTAGTGTAGAAAGGGACAATGC
1 TGAAAGT-GGTAGTGTAGAAAGGGATAATGC
* * * *
107748 TGAATG-GGTAGTGTTGAAAGGGACAATGT
1 TGAAAGTGGTAGTGTAGAAAGGGATAATGC
* * * *
107777 TGAAAGTGTTGGTGTAAAAATGGATAATGC
1 TGAAAGTGGTAGTGTAGAAAGGGATAATGC
* * * *
107807 T-AAAATGGGTAATGTTGAAAGGGACAATG
1 TGAAAGT-GGTAGTGTAGAAAGGGATAATG
107836 AGAAAGACAA
Statistics
Matches: 243, Mismatches: 45, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
29 53 0.22
30 187 0.77
31 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.34, T:0.27
Consensus pattern (30 bp):
TGAAAGTGGTAGTGTAGAAAGGGATAATGC
Found at i:107646 original size:15 final size:15
Alignment explanation
Indices: 107601--107707 Score: 67
Period size: 15 Copynumber: 7.1 Consensus size: 15
107591 GATACTGCTT
*
107601 AATGGGTAGTGTAGA
1 AATGGGTAGTGTTGA
* *
107616 AA-GGGATAATGCTGA
1 AATGGG-TAGTGTTGA
107631 AATGGGTAGTGTTGA
1 AATGGGTAGTGTTGA
*
107646 AA-GGGATAATGTTGA
1 AATGGG-TAGTGTTGA
* *
107661 AA-GTGGTGGTGTAGA
1 AATG-GGTAGTGTTGA
* * *
107676 AATGGATAATGCTGA
1 AATGGGTAGTGTTGA
* *
107691 AATGAGTAGTGTAGA
1 AATGGGTAGTGTTGA
107706 AA
1 AA
107708 GGGACAATGC
Statistics
Matches: 68, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
14 6 0.09
15 56 0.82
16 6 0.09
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.26
Consensus pattern (15 bp):
AATGGGTAGTGTTGA
Found at i:107671 original size:89 final size:89
Alignment explanation
Indices: 107520--107835 Score: 307
Period size: 89 Copynumber: 3.5 Consensus size: 89
107510 GAAAGTGGTG
* * * * * *
107520 GTGTAG-AAGTGGATAATGCT-AAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATTCGTGGTG
1 GTGTAGAAAG-GGATAATGCTGAAATG-GGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTGGTG
*
107583 TAGAAATGGATACTGCTTAATGGGTA
64 TAGAAATGGATAATGCTTAATGGGTA
* * *
107609 GTGTAGAAAGGGATAATGCTGAAATGGGTAGTGTTGAAAGGGATAATGTTGAAAGTGGTGGTGTA
1 GTGTAGAAAGGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTGGTGTA
* *
107674 GAAATGGATAATGCTGAAATGAGTA
66 GAAATGGATAATGCT-TAATGGGTA
* ** * * *
107699 GTGTAGAAAGGGACAATGCTGAAATATGTAGTGTAGAAAGGGACAATGCTGAATG-GGTAGTGTT
1 GTGTAGAAAGGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTGGTGTA
* * * * *
107763 GAAAGGGACAATG-TTGAAAGTGTTG
66 GAAATGGATAATGCTT-AATG-GGTA
* * * * *
107788 GTGTAAAAATGGATAATGCTAAAATGGGTAATGTTGAAAGGGACAATG
1 GTGTAGAAAGGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATG
107836 AGAAAGACAA
Statistics
Matches: 188, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
88 4 0.02
89 122 0.65
90 62 0.33
ACGTcount: A:0.35, C:0.04, G:0.34, T:0.27
Consensus pattern (89 bp):
GTGTAGAAAGGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTGGTGTA
GAAATGGATAATGCTTAATGGGTA
Found at i:107703 original size:119 final size:119
Alignment explanation
Indices: 107530--107835 Score: 425
Period size: 119 Copynumber: 2.6 Consensus size: 119
107520 GTGTAGAAGT
* * ** * * *
107530 GGATAATGCTAAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATTCGTGGTGTAGAAATGGATA
1 GGATAATGTTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGAGTAGTGTAGAAAGGGACA
* * * *
107595 CTGCT-TAATGGGTAGTGTAGAAAGGGATAATGCTGAAATGGGTAGTGTTGAAAG
66 ATGCTGAAATAGGTAGTGTAGAAAGGGACAATGCTG-AATGGGTAGTGTTGAAAG
107649 GGATAATGTTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGAGTAGTGTAGAAAGGGACA
1 GGATAATGTTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGAGTAGTGTAGAAAGGGACA
*
107714 ATGCTGAAATATGTAGTGTAGAAAGGGACAATGCTGAATGGGTAGTGTTGAAAG
66 ATGCTGAAATAGGTAGTGTAGAAAGGGACAATGCTGAATGGGTAGTGTTGAAAG
* * * * * * *
107768 GGACAATGTTGAAAGTGTTGGTGTAAAAATGGATAATGCTAAAATGGGTAATGTTGAAAGGGACA
1 GGATAATGTTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGAGTAGTGTAGAAAGGGACA
107833 ATG
66 ATG
107836 AGAAAGACAA
Statistics
Matches: 167, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 141 0.84
120 26 0.16
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (119 bp):
GGATAATGTTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGAGTAGTGTAGAAAGGGACA
ATGCTGAAATAGGTAGTGTAGAAAGGGACAATGCTGAATGGGTAGTGTTGAAAG
Found at i:107755 original size:149 final size:149
Alignment explanation
Indices: 107509--107781 Score: 397
Period size: 149 Copynumber: 1.8 Consensus size: 149
107499 GTGGTTGTTA
* * * *
107509 TGAAAGTGGTGGTGTAGAAGTGGATAATGCTAAAAGTGGTGGTGTAGAAATGGATAATGCTGAAA
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTAAAAGTGGTAGTGTAGAAAGGGACAATGCTGAAA
* * * * * *
107574 TTCGTGGTGTAGAAATGGATACTGCTTAATGGGTAGTGTAGAAAGGGATAATGCTGAAATGGGTA
66 TTCGTAGTGTAGAAAGGGACAATGCTGAATGGGTAGTGTAGAAAGGGACAATGCTGAAATGGGTA
107639 GTGTTGAAAGGGATAATGT
131 GTGTTGAAAGGGATAATGT
*
107658 TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAA-TGAGTAGTGTAGAAAGGGACAATGCTGAA
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTAAAAGTG-GTAGTGTAGAAAGGGACAATGCTGAA
* *
107722 ATAT-GTAGTGTAGAAAGGGACAATGCTGAATGGGTAGTGTTGAAAGGGACAATGTTGAAA
65 AT-TCGTAGTGTAGAAAGGGACAATGCTGAATGGGTAGTGTAGAAAGGGACAATGCTGAAA
107782 GTGTTGGTGT
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
148 2 0.02
149 106 0.97
150 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.34, T:0.26
Consensus pattern (149 bp):
TGAAAGTGGTGGTGTAGAAATGGATAATGCTAAAAGTGGTAGTGTAGAAAGGGACAATGCTGAAA
TTCGTAGTGTAGAAAGGGACAATGCTGAATGGGTAGTGTAGAAAGGGACAATGCTGAAATGGGTA
GTGTTGAAAGGGATAATGT
Found at i:107779 original size:15 final size:15
Alignment explanation
Indices: 107734--107782 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
107724 ATGTAGTGTA
*
107734 GAAAGGGACAATGCT
1 GAAAGGGACAATGTT
* * *
107749 GAATGGG-TAGTGTT
1 GAAAGGGACAATGTT
107763 GAAAGGGACAATGTT
1 GAAAGGGACAATGTT
107778 GAAAG
1 GAAAG
107783 TGTTGGTGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.20
Consensus pattern (15 bp):
GAAAGGGACAATGTT
Found at i:109677 original size:10 final size:10
Alignment explanation
Indices: 109664--109699 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
109654 TAAGATATGT
109664 TGTTGAAATA
1 TGTTGAAATA
*
109674 TGTTGAGATA
1 TGTTGAAATA
109684 TGTTGAAATA
1 TGTTGAAATA
109694 TGTTGA
1 TGTTGA
109700 GACCATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (10 bp):
TGTTGAAATA
Found at i:109689 original size:20 final size:20
Alignment explanation
Indices: 109664--109701 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
109654 TAAGATATGT
109664 TGTTGAAATATGTTGAGATA
1 TGTTGAAATATGTTGAGATA
109684 TGTTGAAATATGTTGAGA
1 TGTTGAAATATGTTGAGA
109702 CCATTTGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.39
Consensus pattern (20 bp):
TGTTGAAATATGTTGAGATA
Found at i:110880 original size:22 final size:21
Alignment explanation
Indices: 110848--110888 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
110838 CTTGCAGTTC
110848 AATGCAAAATGAAGAAAAATTA
1 AATGCAAAATGAA-AAAAATTA
* *
110870 AATGCACAATGCAAAAAAT
1 AATGCAAAATGAAAAAAAT
110889 CAAAGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.17
Consensus pattern (21 bp):
AATGCAAAATGAAAAAAATTA
Found at i:110986 original size:14 final size:14
Alignment explanation
Indices: 110967--110996 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
110957 AAACACATAC
110967 AAACTTCCATTACA
1 AAACTTCCATTACA
110981 AAACTTCCATTACA
1 AAACTTCCATTACA
110995 AA
1 AA
110997 GCTTTAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
AAACTTCCATTACA
Found at i:111958 original size:21 final size:21
Alignment explanation
Indices: 111797--111959 Score: 75
Period size: 21 Copynumber: 7.6 Consensus size: 21
111787 AAATTTCGCT
*
111797 AAGGA-CATCATATATGTCCTG
1 AAGGACCA-CATATATGTCCTA
* * *
111818 GAGGACCACATATATGACCCGA
1 AAGGACCACATATATG-TCCTA
* *
111840 AA-GACCATATATAATTCTCCTTA
1 AAGGACCACATAT-A-TGTCC-TA
*
111863 AA-GACCACATATATATTCC-A
1 AAGGACCACATATAT-GTCCTA
* * *
111883 AAGGACCAAATATGTGTCCCA
1 AAGGACCACATATATGTCCTA
* *
111904 AAGAATCGCATATATATGTTCC-A
1 AAGGA-C-CACATATATG-TCCTA
** *
111927 AAGGATTACATATATGTCCTG
1 AAGGACCACATATATGTCCTA
111948 AAGGACCACATA
1 AAGGACCACATA
111960 GAACCCTCAA
Statistics
Matches: 106, Mismatches: 24, Indels: 24
0.69 0.16 0.16
Matches are distributed among these distances:
20 9 0.08
21 55 0.52
22 13 0.12
23 26 0.25
24 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (21 bp):
AAGGACCACATATATGTCCTA
Found at i:112604 original size:19 final size:19
Alignment explanation
Indices: 112577--112613 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
112567 ATGCTTCATT
112577 TGCTGTGGTATCGATACCA
1 TGCTGTGGTATCGATACCA
*
112596 TGCTTTGGTATCGATACC
1 TGCTGTGGTATCGATACC
112614 CTTTCCTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (19 bp):
TGCTGTGGTATCGATACCA
Found at i:119691 original size:21 final size:20
Alignment explanation
Indices: 119667--119722 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
119657 AGCATTATCT
*
119667 TTTTTCTTTATTATTGTAT-TA
1 TTTTTCTTTATT-TT-TATGGA
119688 TTTTAT-TTTATTTTTATGGA
1 TTTT-TCTTTATTTTTATGGA
119708 TTTATTCTTTATTTT
1 TTT-TTCTTTATTTT
119723 CCCCCTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 3 0.10
20 7 0.23
21 19 0.63
22 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (20 bp):
TTTTTCTTTATTTTTATGGA
Found at i:120288 original size:12 final size:12
Alignment explanation
Indices: 120268--120327 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
120258 GGAAAGAAAA
*
120268 AAAAATAAAGAT
1 AAAATTAAAGAT
*
120280 AAAATTAAAGGT
1 AAAATTAAAGAT
*
120292 ATAA-TAAA-AT
1 AAAATTAAAGAT
*
120302 AAAATAAAAGAT
1 AAAATTAAAGAT
120314 AAAATATAAA-AT
1 AAAAT-TAAAGAT
120326 AA
1 AA
120328 TAAATTATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
10 4 0.11
11 7 0.18
12 24 0.63
13 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (12 bp):
AAAATTAAAGAT
Found at i:120398 original size:18 final size:18
Alignment explanation
Indices: 120377--120419 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
120367 GTTGTTTTTA
*
120377 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
* *
120395 AAATAAAATAAAATAATT
1 AAATAAAAGAAAAGAATT
120413 AAATAAA
1 AAATAAA
120420 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:127331 original size:60 final size:61
Alignment explanation
Indices: 127221--127399 Score: 276
Period size: 60 Copynumber: 3.0 Consensus size: 61
127211 CCGGATTAGC
* * *
127221 ACTAGAGTGTATA-CCAAGACACTTAGTGTAGGTGGTGGGCATGACTTTATGTGTCATAAT
1 ACTAGAGTGCATACCCAAGACACTTAGTGTCGGTGGTGGGCATGACCTTATGTGTCATAAT
*
127281 ACTA-AGTGCATACCCAAGACACTTAGTGTCGGTGGTGGGCATGACCTTATGTGTCATAGT
1 ACTAGAGTGCATACCCAAGACACTTAGTGTCGGTGGTGGGCATGACCTTATGTGTCATAAT
127341 ACTAGAGT-CTATACCCAAGACACTTAGTG-CAGGTGGTGGGCATGACCTTATGTGTCATA
1 ACTAGAGTGC-ATACCCAAGACACTTAGTGTC-GGTGGTGGGCATGACCTTATGTGTCATA
127400 GCACTACGGT
Statistics
Matches: 111, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
59 7 0.06
60 54 0.49
61 50 0.45
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (61 bp):
ACTAGAGTGCATACCCAAGACACTTAGTGTCGGTGGTGGGCATGACCTTATGTGTCATAAT
Found at i:127384 original size:61 final size:61
Alignment explanation
Indices: 127221--127405 Score: 279
Period size: 61 Copynumber: 3.1 Consensus size: 61
127211 CCGGATTAGC
* * * *
127221 ACTAGAGTGTATA-CCAAGACACTTAGTGTAGGTGGTGGGCATGACTTTATGTGTCATAAT
1 ACTAGAGTCTATACCCAAGACACTTAGTGCAGGTGGTGGGCATGACCTTATGTGTCATAGT
127281 ACTA-AGTGC-ATACCCAAGACACTTAGTGTC-GGTGGTGGGCATGACCTTATGTGTCATAGT
1 ACTAGAGT-CTATACCCAAGACACTTAGTG-CAGGTGGTGGGCATGACCTTATGTGTCATAGT
*
127341 ACTAGAGTCTATACCCAAGACACTTAGTGCAGGTGGTGGGCATGACCTTATGTGTCATAGC
1 ACTAGAGTCTATACCCAAGACACTTAGTGCAGGTGGTGGGCATGACCTTATGTGTCATAGT
127402 ACTA
1 ACTA
127406 CGGTGCATAT
Statistics
Matches: 114, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
59 6 0.05
60 53 0.46
61 55 0.48
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (61 bp):
ACTAGAGTCTATACCCAAGACACTTAGTGCAGGTGGTGGGCATGACCTTATGTGTCATAGT
Found at i:127713 original size:18 final size:19
Alignment explanation
Indices: 127692--127735 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
127682 GTATACTACA
*
127692 TATATAGTTTATATAT-AC
1 TATATAGTTTACATATAAC
127710 TATATAGTTTACATATGAAC
1 TATATAGTTTACATAT-AAC
127730 TATATA
1 TATATA
127736 TAAAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.65
20 8 0.35
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (19 bp):
TATATAGTTTACATATAAC
Found at i:127782 original size:18 final size:18
Alignment explanation
Indices: 127743--127988 Score: 173
Period size: 18 Copynumber: 14.3 Consensus size: 18
127733 ATATAAAAAC
* * *
127743 TATATTTAAAGTATATGG
1 TATATATAAACTATATAG
*
127761 TATATACAAACTATATA-
1 TATATATAAACTATATAG
**
127778 T-TATAT-AGTTAT-TAG
1 TATATATAAACTATATAG
*
127793 TATATATAAACTATATAA
1 TATATATAAACTATATAG
* *
127811 TAAAAATAAACTATATA-
1 TATATATAAACTATATAG
**
127828 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
127844 TATATATAAACTATAT-G
1 TATATATAAACTATATAG
*
127861 TATATATAAACTATACA-
1 TATATATAAACTATATAG
**
127878 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
127894 TATATATAAACTATATAG
1 TATATATAAACTATATAG
127912 TATATATAAACTATA-AGG
1 TATATATAAACTATATA-G
* *
127930 TATATATAAACTATACAT
1 TATATATAAACTATATAG
**
127948 TATATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
*
127965 TATATATAAACTATATAT
1 TATATATAAACTATATAG
127983 TATATA
1 TATATA
127989 GTTCATTAGT
Statistics
Matches: 176, Mismatches: 32, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
14 2 0.01
15 12 0.07
16 23 0.13
17 50 0.28
18 88 0.50
19 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (18 bp):
TATATATAAACTATATAG
Found at i:127804 original size:32 final size:30
Alignment explanation
Indices: 127732--127814 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 30
127722 ATATGAACTA
*
127732 TATATAAAAACTATAT-TTAAAGTATATGG
1 TATATAAAAACTATATATTAAAGTATATAG
*
127761 TATATACAAACTATATATTATATAGT-TATTAG
1 TATATAAAAACTATATATTA-A-AGTATA-TAG
* *
127793 TATATATAAACTATATAATAAA
1 TATATAAAAACTATATATTAAA
127815 AATAAACTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 15 0.33
30 4 0.09
31 4 0.09
32 23 0.50
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (30 bp):
TATATAAAAACTATATATTAAAGTATATAG
Found at i:127822 original size:50 final size:51
Alignment explanation
Indices: 127743--128014 Score: 324
Period size: 50 Copynumber: 5.3 Consensus size: 51
127733 ATATAAAAAC
* * * *
127743 TATATTTAAAGTATATGGTATATACAAACTATATATTATATAGTT-ATTAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
* * *
127793 TATATATAAACTATATAATAAAAATAAACTATATATTATATAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
*
127844 TATATATAAACTATAT-GTATATATAAACTATACATTATATAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
* *
127894 TATATATAAACTATATAGTATATATAAACTATAAGGTATATATAAACTATACATTA-
1 TATATATAAACTATATAGTATATATAAACTAT-A--TAT-TATATAGT-T-CATTAG
*
127950 TATATAGT--TC-AT-TAGTATATATAAACTATATATTATATAGTTCATTAG
1 TATATA-TAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
*
127998 TATATATAACCTATATA
1 TATATATAAACTATATA
128015 TTAATTTATT
Statistics
Matches: 190, Mismatches: 18, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
47 6 0.03
48 7 0.04
49 7 0.04
50 89 0.47
51 38 0.20
52 2 0.01
53 17 0.09
54 4 0.02
55 7 0.04
56 7 0.04
57 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (51 bp):
TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
Found at i:127968 original size:71 final size:68
Alignment explanation
Indices: 127841--127988 Score: 251
Period size: 71 Copynumber: 2.1 Consensus size: 68
127831 TATAGTTCAT
*
127841 TAGTATATATAAACTATATGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACT
1 TAGTATATATAAACTATAGGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACT
127906 ATA
66 ATA
127909 TAGTATATATAAACTATAAGGTATATATAAACTATACATTATATATAGTTCATTAGTATATATAA
1 TAGTATATATAAACTAT-AGGTATATATAAACTATACA-T-TATATAGTTCATTAGTATATATAA
127974 ACTATA
63 ACTATA
*
127980 TATTATATA
1 TAGTATATA
127989 GTTCATTAGT
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
68 17 0.23
69 19 0.25
70 1 0.01
71 38 0.51
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (68 bp):
TAGTATATATAAACTATAGGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACT
ATA
Found at i:127970 original size:17 final size:17
Alignment explanation
Indices: 127948--128005 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
127938 AACTATACAT
127948 TATATATAGTTCATTAG
1 TATATATAGTTCATTAG
**
127965 TATATATA-AAC-TATA-
1 TATATATAGTTCAT-TAG
127980 TATTATATAGTTCATTAG
1 TA-TATATAGTTCATTAG
127998 TATATATA
1 TATATATA
128006 ACCTATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (17 bp):
TATATATAGTTCATTAG
Found at i:127989 original size:33 final size:33
Alignment explanation
Indices: 127760--128017 Score: 204
Period size: 33 Copynumber: 7.6 Consensus size: 33
127750 AAAGTATATG
*
127760 GTATATACAAACTATATATTATATAGTT-ATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
* * * ** *
127792 GTATATATAAACTATATAATA-AAAATAAACTA
1 GTATATATAAACTATATATTATATAGTTCATTA
* * * **
127824 -TATATTATATAGT-TCATTAGTATATA-TAAACTATA
1 GTATA-TATAAACTAT-A-TATTATATAGTTCA-T-TA
*
127859 TGTATATATAAACTATACATTATATAGTTCATTA
1 -GTATATATAAACTATATATTATATAGTTCATTA
** *
127893 GTATATATAAACTATATAGTATATATA-AACTATAA
1 GTATATATAAACTATATA-T-TATATAGTTC-ATTA
*
127928 GGTATATATAAACTATACATTATATATAGTTCATTA
1 -GTATATATAAACTATATA-T-TATATAGTTCATTA
127964 GTATATATAAACTATATATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
*
127997 GTATATATAACCTATATATTA
1 GTATATATAAACTATATATTA
128018 ATTTATTAAT
Statistics
Matches: 182, Mismatches: 28, Indels: 31
0.76 0.12 0.13
Matches are distributed among these distances:
31 8 0.04
32 29 0.16
33 59 0.32
34 7 0.04
35 36 0.20
36 37 0.20
37 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (33 bp):
GTATATATAAACTATATATTATATAGTTCATTA
Found at i:127994 original size:104 final size:101
Alignment explanation
Indices: 127743--128014 Score: 329
Period size: 104 Copynumber: 2.7 Consensus size: 101
127733 ATATAAAAAC
* * *
127743 TATATTTAAAGTATATGGTATATACAAACTATATATTATATAGTT-ATTAGTATATATAAACTAT
1 TATATATAAACTATAT-GTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTAT
* *
127807 ATAATAAAAATAAACTATATATTATATAGTTCATTAG
65 ATAATAAAAATAAACTATATATTATAAACTTCATTAG
*
127844 TATATATAAACTATATGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACTATA
1 TATATATAAACTATATGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
* * *
127909 TAGTATATATAAACTATAAGGTATATATAAACTATACATTA-
66 TAATAAAAATAAACTAT-A--TAT-TATAAACT-T-CATTAG
** *
127950 TATATAGTTCA-T-TA-GTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTAT
1 TATATA-TAAACTATATGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTAT
128012 ATA
65 ATA
128015 TTAATTTATT
Statistics
Matches: 150, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
100 26 0.17
101 48 0.32
102 1 0.01
104 52 0.35
105 8 0.05
106 8 0.05
107 7 0.05
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (101 bp):
TATATATAAACTATATGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
TAATAAAAATAAACTATATATTATAAACTTCATTAG
Found at i:128154 original size:60 final size:60
Alignment explanation
Indices: 128074--128209 Score: 177
Period size: 60 Copynumber: 2.2 Consensus size: 60
128064 TATACGGATC
*
128074 AAATTGAACAAATTTTAAATATAAAGCTTAAATTAATAAATAT-AACATTAAATTTAGACT
1 AAATTGAACAAATTTTAAATATAAAGCTTAAATTAATAAAT-TCAACAATAAATTTAGACT
* * * * *
128134 AAATTGAA-GAATTTTGAAATATGAAGCTTAAATTAATATATTGCATCAATAAATTTGGACT
1 AAATTGAACAAATTTT-AAATATAAAGCTTAAATTAATAAATT-CAACAATAAATTTAGACT
128195 AAATTGAACAAATTT
1 AAATTGAACAAATTT
128210 AAAACTAAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
59 7 0.11
60 31 0.48
61 22 0.34
62 5 0.08
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (60 bp):
AAATTGAACAAATTTTAAATATAAAGCTTAAATTAATAAATTCAACAATAAATTTAGACT
Found at i:128900 original size:36 final size:36
Alignment explanation
Indices: 128848--128920 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
128838 AACTAAAACC
* *
128848 CTAAACTTGAATCTAAAACC-AAACCCTAACCCTAAA
1 CTAAACTTGAAACTAAAACCTAAACCCAAACCC-AAA
*
128884 CTAAACTTGAAACTAAACCCTAAACCCAAACCCAAA
1 CTAAACTTGAAACTAAAACCTAAACCCAAACCCAAA
128920 C
1 C
128921 ACGAACCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 22 0.67
37 11 0.33
ACGTcount: A:0.48, C:0.33, G:0.03, T:0.16
Consensus pattern (36 bp):
CTAAACTTGAAACTAAAACCTAAACCCAAACCCAAA
Found at i:132720 original size:42 final size:42
Alignment explanation
Indices: 132654--132737 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
132644 ATATTATATC
* * *
132654 CGCTCCTCTGACTAGCCAAGACATCCTTCTGACACCCATACT
1 CGCTCCTCTGACTAACCAAAACATCCTGCTGACACCCATACT
*
132696 CGCTCCTCTGACTAACCAAAACATCCTGCTGACGCCCATACT
1 CGCTCCTCTGACTAACCAAAACATCCTGCTGACACCCATACT
132738 TGCCTCCTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (42 bp):
CGCTCCTCTGACTAACCAAAACATCCTGCTGACACCCATACT
Found at i:134774 original size:18 final size:18
Alignment explanation
Indices: 134739--134781 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
134729 AAAGATATTA
*
134739 AAAT-AATAAAAGCGATT
1 AAATAAATAAAAGCAATT
*
134756 AAATAAATAAAAGTAATT
1 AAATAAATAAAAGCAATT
134774 AAAGTAAA
1 AAA-TAAA
134782 AATAAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAGCAATT
Found at i:145518 original size:21 final size:21
Alignment explanation
Indices: 145494--145533 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
145484 AAGACTCTAT
145494 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
145515 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
145534 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:161248 original size:37 final size:37
Alignment explanation
Indices: 161175--161249 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
161165 GTTGAAAAAT
*
161175 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
161212 ATTTATATAATTTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
161249 A
1 A
161250 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:163215 original size:21 final size:21
Alignment explanation
Indices: 163191--163251 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
163181 TTCAAAGAAA
163191 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
163212 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
163226 CATTTACCAAACTTTAAAAAC
1 CATTTACCAAACTTTGAAAAC
163247 CATTT
1 CATTT
163252 TTTTAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
20 7 0.23
21 10 0.33
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:163225 original size:35 final size:35
Alignment explanation
Indices: 163143--163252 Score: 150
Period size: 35 Copynumber: 3.1 Consensus size: 35
163133 CCATTATCAT
* * **
163143 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTTT
1 TTTTCAAAGAAACATTTACCAAACTTTG-AAAAC-CA
163179 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
*
163214 TTTTCAAAGAAACATTTACCAAACTTTAAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
163249 TTTT
1 TTTT
163253 TTTAAAGTTG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 38 0.56
36 10 0.15
37 20 0.29
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.33
Consensus pattern (35 bp):
TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
Found at i:173117 original size:19 final size:19
Alignment explanation
Indices: 173095--173196 Score: 54
Period size: 19 Copynumber: 5.4 Consensus size: 19
173085 GTTTAAATAG
173095 GTTTTAGTATTTTAATTAA
1 GTTTTAGTATTTTAATTAA
*
173114 GTTTTAGGATATTATT-TTTATA
1 GTTTTA-G-TATT-TTAATTA-A
* *
173136 -TTTTA-TATTTGT-TTTAG
1 GTTTTAGTATTT-TAATTAA
* *
173153 GTATTT--TATTTTAAATAG
1 GT-TTTAGTATTTTAATTAA
173171 GTTTTAGTATTTTAATTAA
1 GTTTTAGTATTTTAATTAA
*
173190 GATTTAG
1 GTTTTAG
173197 AATATTATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
17 5 0.08
18 20 0.30
19 25 0.38
20 1 0.02
21 12 0.18
22 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (19 bp):
GTTTTAGTATTTTAATTAA
Found at i:173139 original size:32 final size:34
Alignment explanation
Indices: 173096--173164 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
173086 TTTAAATAGG
173096 TTTTAGTATTTTA-ATTAAGTTTTAGG-ATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGGTATATTAT
* *
173129 TTTTA-TATTTTATATTTGTTTTAGGTATTTTAT
1 TTTTAGTATTTTATATTAGTTTTAGGTATATTAT
173162 TTT
1 TTT
173165 AAATAGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (34 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATATTAT
Found at i:173371 original size:13 final size:12
Alignment explanation
Indices: 173343--173367 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
173333 TATCTCTCTC
173343 ATCTGAAAATAA
1 ATCTGAAAATAA
173355 ATCTGAAAATAA
1 ATCTGAAAATAA
173367 A
1 A
173368 ATCTTCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
ATCTGAAAATAA
Found at i:173757 original size:20 final size:20
Alignment explanation
Indices: 173732--173774 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
173722 CCGAGTTGAC
*
173732 AGCAAAGAATTGTCCTTGTA
1 AGCAAAGAATTATCCTTGTA
173752 AGCAAAGAATTATCCTTGTA
1 AGCAAAGAATTATCCTTGTA
173772 AGC
1 AGC
173775 CGACGTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (20 bp):
AGCAAAGAATTATCCTTGTA
Found at i:173901 original size:17 final size:17
Alignment explanation
Indices: 173876--173914 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
173866 CTTTATCTCA
*
173876 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
173893 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
173910 -TTTAT
1 ATTTAT
173915 CTCATTATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:179639 original size:2 final size:2
Alignment explanation
Indices: 179628--179672 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
179618 AAAAAAATAC
*
179628 AT AT AA AT AT AT 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
179670 AT A
1 AT A
179673 GATTAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:181627 original size:9 final size:9
Alignment explanation
Indices: 181613--181643 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
181603 TGGACTGAGA
181613 AAGGAAAAG
1 AAGGAAAAG
181622 AAGGAAAAG
1 AAGGAAAAG
*
181631 AAGGAAAAA
1 AAGGAAAAG
181640 AAGG
1 AAGG
181644 TTCAAGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
AAGGAAAAG
Found at i:186494 original size:60 final size:60
Alignment explanation
Indices: 186375--186534 Score: 162
Period size: 60 Copynumber: 2.7 Consensus size: 60
186365 CTTCATTTTT
* ** * *
186375 AATTGGTCCTTAAACTTAT-AAATATTCTAATTTCATCCCCAAATTATGACTCTTATTCTA
1 AATTGGTCCTTAAACTTTTGAAA-ATTCTAATTTCATCCCCAAACAATGACACCTATTCTA
* * *
186435 AATTAGTCCTTAAACTTTTGAAAATTCTAGTTTCATCCCTAAACAATGACACACT-TTCTA
1 AATTGGTCCTTAAACTTTTGAAAATTCTAATTTCATCCCCAAACAATGACAC-CTATTCTA
** * * * *
186495 AATTGGTCCCCAAAATTTTGAATATTCCAATTTTATCCCC
1 AATTGGTCCTTAAACTTTTGAAAATTCTAATTTCATCCCC
186535 CAATTCATCC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
60 77 0.95
61 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (60 bp):
AATTGGTCCTTAAACTTTTGAAAATTCTAATTTCATCCCCAAACAATGACACCTATTCTA
Found at i:186609 original size:3 final size:3
Alignment explanation
Indices: 186601--186669 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
186591 CTTTTCAAGC
186601 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
186649 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
186670 TAACTTGGCC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:186847 original size:60 final size:61
Alignment explanation
Indices: 186727--186849 Score: 171
Period size: 60 Copynumber: 2.0 Consensus size: 61
186717 TGTATAGCTT
** * *
186727 GGGATGAAATTGGAATGTTCAAAATGTTTGGGGAGCAATTTAGAATGTTGGTCATAGTTTA
1 GGGATGAAATTGGAATGTTCAAAATGTTTAAGGAGCAATTTAGAATGATAGTCATAGTTTA
186788 GGGATGAAATTGTG-ATGTTCAAAA-GTTTAAGGA-CTAATTTAGAATGATAGTCATAGTTTA
1 GGGATGAAATTG-GAATGTTCAAAATGTTTAAGGAGC-AATTTAGAATGATAGTCATAGTTTA
186848 GG
1 GG
186850 AATAAAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
59 1 0.02
60 32 0.57
61 22 0.39
62 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (61 bp):
GGGATGAAATTGGAATGTTCAAAATGTTTAAGGAGCAATTTAGAATGATAGTCATAGTTTA
Found at i:187805 original size:60 final size:60
Alignment explanation
Indices: 187683--187812 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 60
187673 AACATAATGA
* *
187683 ATAGTCG-AGTGACCATTTTGAAACTTTTAATAGTCAAGAAACTCAACAAAGAAATACTCT
1 ATAGTCGAAG-GACAATTTTGAAACTTTTAATAGTCAAGAAACTCAACAAAGAAATACCCT
* * * * * * * * *
187743 ATAGTCGAAGGACAATTTTGTAATTTTTAATAGTCGAGAGACTTAATAAAGCAGTGCCCT
1 ATAGTCGAAGGACAATTTTGAAACTTTTAATAGTCAAGAAACTCAACAAAGAAATACCCT
187803 ATAGTC-AAGG
1 ATAGTCGAAGG
187813 GATCATTTGT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 4 0.07
60 52 0.90
61 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (60 bp):
ATAGTCGAAGGACAATTTTGAAACTTTTAATAGTCAAGAAACTCAACAAAGAAATACCCT
Found at i:188187 original size:17 final size:17
Alignment explanation
Indices: 188142--188190 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
188132 TTTAGAGATT
*
188142 AATTTAAAATATATTAA
1 AATTTAAACTATATTAA
* *
188159 AATTTATCAACTATTTTAC
1 AATTTA--AACTATATTAA
188178 AATTTAAACTATA
1 AATTTAAACTATA
188191 GTTTAGGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 12 0.46
19 14 0.54
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTTAAACTATATTAA
Found at i:190699 original size:24 final size:23
Alignment explanation
Indices: 190642--190701 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
190632 ATATTTTTAA
190642 AATTATTA-A-TAAATATATTTT
1 AATTATTATATTAAATATATTTT
*
190663 AATTATTTTTATTAAA-ATATTATT
1 AATTA-TTATATTAAATATATT-TT
190687 AGATTATTATATTAA
1 A-ATTATTATATTAA
190702 TATTAAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 5 0.16
22 2 0.06
23 6 0.19
24 15 0.47
25 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AATTATTATATTAAATATATTTT
Found at i:190824 original size:21 final size:21
Alignment explanation
Indices: 190768--190824 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
190758 TTAAATTAGT
*
190768 AAATAATATA-AATATTATTA
1 AAATAAAATATAATATTATTA
** *
190788 ATAATTTATTAT-ATATTATTA
1 A-AATAAAATATAATATTATTA
190809 AAATAAAATATAATAT
1 AAATAAAATATAATAT
190825 AACTGACCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 5
0.69 0.18 0.13
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAAAATATAATATTATTA
Found at i:190824 original size:23 final size:21
Alignment explanation
Indices: 190772--190825 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
190762 ATTAGTAAAT
190772 AATATAA-ATATTATTAATAA
1 AATATAATATATTATTAATAA
** *
190792 TTTATTATATATTATTAAAATAA
1 AATATAATATATTATT--AATAA
190815 AATATAATATA
1 AATATAATATA
190826 ACTGACCATA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 4 0.16
21 8 0.32
23 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATATAATATATTATTAATAA
Found at i:190865 original size:22 final size:23
Alignment explanation
Indices: 190837--190883 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
190827 CTGACCATAT
190837 TATTATAAT-ATTAAAAATA-TAA
1 TATTAT-ATCATTAAAAATATTAA
190859 TATTATATCATTAAAAATATTAA
1 TATTATATCATTAAAAATATTAA
190882 TA
1 TA
190884 AATATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTATATCATTAAAAATATTAA
Found at i:190888 original size:22 final size:22
Alignment explanation
Indices: 190846--190888 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
190836 TTATTATAAT
*
190846 ATTAAAAATATAATATTATATC
1 ATTAAAAATATAATATAATATC
190868 ATTAAAAATATTAATA-AATAT
1 ATTAAAAATA-TAATATAATAT
190889 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTAAAAATATAATATAATATC
Found at i:190895 original size:23 final size:23
Alignment explanation
Indices: 190838--190917 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
190828 TGACCATATT
*
190838 ATTATAATATTAAAAATA-TAAT-
1 ATTAT-ATTTTAAAAATATTAATA
*
190860 ATTATATCATTAAAAATATTAATA
1 ATTATAT-TTTAAAAATATTAATA
*
190884 AATATATTTTAAATAAT-TTAATA
1 ATTATATTTTAAA-AATATTAATA
190907 ATTAATATTTT
1 ATT-ATATTTT
190918 TTATTAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.04
22 15 0.30
23 17 0.34
24 16 0.32
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTATATTTTAAAAATATTAATA
Found at i:191224 original size:17 final size:17
Alignment explanation
Indices: 191202--191236 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
191192 CTTCACCTCT
191202 CTAGCTTTCCAAGAGAA
1 CTAGCTTTCCAAGAGAA
*
191219 CTAGCTTTCCAGGAGAA
1 CTAGCTTTCCAAGAGAA
191236 C
1 C
191237 AGTCCCACGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (17 bp):
CTAGCTTTCCAAGAGAA
Found at i:196630 original size:17 final size:18
Alignment explanation
Indices: 196588--196637 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
196578 TTATAAGGAA
196588 TATATGAAATTAAATTAAG
1 TATAT-AAATTAAATTAAG
*
196607 TAAATAAATTAAATT-AG
1 TATATAAATTAAATTAAG
*
196624 TATATAAATAAAAT
1 TATATAAATTAAAT
196638 ACTGTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 14 0.50
18 10 0.36
19 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
TATATAAATTAAATTAAG
Found at i:201763 original size:17 final size:18
Alignment explanation
Indices: 201741--201783 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
201731 CACCAGTCAA
*
201741 CGGGTCGGGTTAAC-GAT
1 CGGGTCGGGTCAACGGAT
*
201758 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGAT
201776 CGGGTCGG
1 CGGGTCGG
201784 TTCGGGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.12, C:0.21, G:0.49, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGAT
Found at i:201774 original size:13 final size:13
Alignment explanation
Indices: 201758--201804 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
201748 GGTTAACGAT
201758 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
201771 CGGGTCGGGT---
1 CGGGTCGGGTCAA
*
201781 CGGTTCGGGTCAA
1 CGGGTCGGGTCAA
201794 CGGGTCGGGTC
1 CGGGTCGGGTC
201805 GTGACCGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 9 0.31
13 20 0.69
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:201788 original size:23 final size:23
Alignment explanation
Indices: 201757--201805 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
201747 GGGTTAACGA
201757 TCGGGTCGGGTCAACGGGTCGGG
1 TCGGGTCGGGTCAACGGGTCGGG
*
201780 TCGGTTCGGGTCAACGGGTCGGG
1 TCGGGTCGGGTCAACGGGTCGGG
201803 TCG
1 TCG
201806 TGACCGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.08, C:0.22, G:0.49, T:0.20
Consensus pattern (23 bp):
TCGGGTCGGGTCAACGGGTCGGG
Found at i:201814 original size:23 final size:23
Alignment explanation
Indices: 201765--201816 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
201755 GATCGGGTCG
* *
201765 GGTCAACGGGTCGGGTCGGTTCG
1 GGTCAACGGGTCGGGTCGGTACC
201788 GGTCAACGGGTCGGGTC-GTGACC
1 GGTCAACGGGTCGGGTCGGT-ACC
201811 GGTCAA
1 GGTCAA
201817 ACCGGTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.19
Consensus pattern (23 bp):
GGTCAACGGGTCGGGTCGGTACC
Found at i:201828 original size:10 final size:10
Alignment explanation
Indices: 201808--201851 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
201798 TCGGGTCGTG
201808 ACCGGTC-AA
1 ACCGGTCAAA
201817 ACCGGTCAAA
1 ACCGGTCAAA
*
201827 ACCGGT-TAA
1 ACCGGTCAAA
201836 ACCGGTCAAA
1 ACCGGTCAAA
201846 ACCGGT
1 ACCGGT
201852 TTCCAGCGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.34, C:0.30, G:0.23, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:201852 original size:19 final size:19
Alignment explanation
Indices: 201808--201852 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
201798 TCGGGTCGTG
*
201808 ACCGGTCAAACCGGTCAAA
1 ACCGGTTAAACCGGTCAAA
201827 ACCGGTTAAACCGGTCAAA
1 ACCGGTTAAACCGGTCAAA
201846 ACCGGTT
1 ACCGGTT
201853 TCCAGCGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (19 bp):
ACCGGTTAAACCGGTCAAA
Found at i:208962 original size:17 final size:18
Alignment explanation
Indices: 208936--208978 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
208926 CACCAGTCAA
*
208936 CGGGTTGGGTCAAC-GGT
1 CGGGTCGGGTCAACGGGT
208953 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
208971 CGGGTCGG
1 CGGGTCGG
208979 TTCGGGTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.09, C:0.21, G:0.51, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:208969 original size:13 final size:13
Alignment explanation
Indices: 208953--208999 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
208943 GGTCAACGGT
208953 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
208966 CGGGTCGGGT---
1 CGGGTCGGGTCAA
*
208976 CGGTTCGGGTCAA
1 CGGGTCGGGTCAA
208989 CGGGTCGGGTC
1 CGGGTCGGGTC
209000 GTGACCGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 9 0.31
13 20 0.69
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:208977 original size:23 final size:23
Alignment explanation
Indices: 208950--209000 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
208940 TTGGGTCAAC
208950 GGTCGGGTCGGGTCAACGGGTCG
1 GGTCGGGTCGGGTCAACGGGTCG
*
208973 GGTCGGTTCGGGTCAACGGGTCG
1 GGTCGGGTCGGGTCAACGGGTCG
208996 GGTCG
1 GGTCG
209001 TGACCGGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.22, G:0.51, T:0.20
Consensus pattern (23 bp):
GGTCGGGTCGGGTCAACGGGTCG
Done.