Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 177 of 199
Found at i:51576858 original size:7 final size:6
Alignment explanation
Indices: 51576842--51576892 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
51576832 ATTTTCCTGC
* *
51576842 AAAAAT AAAAAT GAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
51576892 A
1 A
51576893 TGAAATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.13
6 22 0.56
7 7 0.18
8 5 0.13
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:51583063 original size:40 final size:38
Alignment explanation
Indices: 51583030--51583156 Score: 166
Period size: 37 Copynumber: 3.3 Consensus size: 38
51583020 TGAAACACGA
*
51583030 GAAATTTTTTGTTTGAAAACACGAGAATTTTGAAACACAA
1 GAAATTTTTT-TTTGAAAACACGAGAATTTTGAAA-ACAG
* * * *
51583070 TAACTTTTTTTTTGAAAACACGAAAATTTT-AAAACAT
1 GAAATTTTTTTTTGAAAACACGAGAATTTTGAAAACAG
51583107 GAAATTTTTTTTTGAAAACACGAGAATTTTTCGAAAACAG
1 GAAATTTTTTTTTGAAAACACGAGAA-TTTT-GAAAACAG
51583147 GAAATTTTTT
1 GAAATTTTTT
51583157 GAAACATGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
37 26 0.34
38 7 0.09
39 19 0.25
40 24 0.32
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
GAAATTTTTTTTTGAAAACACGAGAATTTTGAAAACAG
Found at i:51583115 original size:16 final size:17
Alignment explanation
Indices: 51583078--51583339 Score: 88
Period size: 17 Copynumber: 14.5 Consensus size: 17
51583068 AATAACTTTT
51583078 TTTTTGAAAACACGAAA
1 TTTTTGAAAACACGAAA
* *
51583095 ATTTT-AAAACATGAAA
1 TTTTTGAAAACACGAAA
51583111 TTTTTTTTTGAAAACACGAGAA
1 ----TTTTTGAAAACACGA-AA
*
51583133 TTTTTCGAAAACAGGAAA
1 TTTTT-GAAAACACGAAA
* *
51583151 TTTTTTG-AAACATGAACTTT
1 -TTTTTGAAAACACGAA---A
*
51583171 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACAC-GAAA
* *
51583189 TTTATG-AAACGCGAGAA
1 TTTTTGAAAACACGA-AA
*
51583206 TTTTTTTTTGAAAACTC-AAA
1 ----TTTTTGAAAACACGAAA
*** * *
51583226 TTTTT-TTTACGCAAAAA
1 TTTTTGAAAACAC-GAAA
* *
51583243 TTGTTGAAAACACGAATT
1 TTTTTGAAAACACGAA-A
* *
51583261 TTTTTG-GAACACGAATT
1 TTTTTGAAAACACGAA-A
51583278 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACAC-GAAA
* *
51583296 TTTCTGAAATAC-CGGAA
1 TTTTTGAAA-ACACGAAA
*
51583313 TTTTTGAAAACACAAAGA
1 TTTTTGAAAACACGAA-A
51583331 TTTTTGAAA
1 TTTTTGAAA
51583340 CATGAATTTT
Statistics
Matches: 182, Mismatches: 35, Indels: 55
0.67 0.13 0.20
Matches are distributed among these distances:
15 3 0.02
16 18 0.10
17 57 0.31
18 45 0.25
19 25 0.14
20 11 0.06
21 16 0.09
22 7 0.04
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.36
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:51583155 original size:39 final size:38
Alignment explanation
Indices: 51583019--51583156 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 38
51583009 CGTGATCCGA
*
51583019 TTGAAACACGAGAAATTTTTTGTTTGAAAACACGAGAATT
1 TTGAAA-ACAAGAAATTTTTT-TTTGAAAACACGAGAATT
* * *
51583059 TTGAAACACAATAACTTTTTTTTTGAAAACACGAAAATT
1 TTGAAA-ACAAGAAATTTTTTTTTGAAAACACGAGAATT
*
51583098 TT-AAAACATGAAATTTTTTTTTGAAAACACGAGAATTT
1 TTGAAAACAAGAAATTTTTTTTTGAAAACACGAGAA-TT
*
51583136 TTCGAAAACAGGAAATTTTTT
1 TT-GAAAACAAGAAATTTTTT
51583157 GAAACATGAA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
37 26 0.30
38 7 0.08
39 19 0.22
40 34 0.40
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (38 bp):
TTGAAAACAAGAAATTTTTTTTTGAAAACACGAGAATT
Found at i:51583172 original size:56 final size:56
Alignment explanation
Indices: 51583077--51583183 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
51583067 CAATAACTTT
* *
51583077 TTTTTTGAAAACACGAAAATTTTAAAACATGAAATTTTTTTTTGAAAACACGAGAA
1 TTTTTCGAAAACACGAAAATTTTAAAACATGAAACTTTTTTTTGAAAACACGAGAA
* * *
51583133 TTTTTCGAAAACAGGAAATTTTTTGAAACATG-AACTTTTTTTTGAAAACAC
1 TTTTTCGAAAACACGAAA-ATTTTAAAACATGAAACTTTTTTTTGAAAACAC
51583184 AAAAATTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
56 34 0.76
57 11 0.24
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (56 bp):
TTTTTCGAAAACACGAAAATTTTAAAACATGAAACTTTTTTTTGAAAACACGAGAA
Found at i:51583212 original size:56 final size:57
Alignment explanation
Indices: 51583083--51583197 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 57
51583073 CTTTTTTTTT
* * * * * *
51583083 GAAAACACGAAA-ATTTTAAAACATGAAATTTTTTTTTGAAAACACGAGAATTTTTC
1 GAAAACAGGAAATTTTTTAAAACATGAAACTTTTTTTTGAAAACACAAAAATTTATC
*
51583139 GAAAACAGGAAATTTTTTGAAACATG-AACTTTTTTTTGAAAACACAAAAATTTAT-
1 GAAAACAGGAAATTTTTTAAAACATGAAACTTTTTTTTGAAAACACAAAAATTTATC
51583194 GAAA
1 GAAA
51583198 CGCGAGAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 4 0.08
56 36 0.71
57 11 0.22
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (57 bp):
GAAAACAGGAAATTTTTTAAAACATGAAACTTTTTTTTGAAAACACAAAAATTTATC
Found at i:51583320 original size:17 final size:18
Alignment explanation
Indices: 51583240--51583339 Score: 68
Period size: 18 Copynumber: 5.7 Consensus size: 18
51583230 TTTTACGCAA
*
51583240 AAATTGTTGAAAACAC-G
1 AAATTTTTGAAAACACGG
* *
51583257 AATTTTTTTG-GAACAC-G
1 AA-ATTTTTGAAAACACGG
*
51583274 AATTTTTTTGAAAACACGG
1 AA-ATTTTTGAAAACACGG
*
51583293 AAATTTCTGAAATAC-CGG
1 AAATTTTTGAAA-ACACGG
*
51583311 -AATTTTTGAAAACAC-A
1 AAATTTTTGAAAACACGG
51583327 AAGATTTTTGAAA
1 AA-ATTTTTGAAA
51583340 CATGAATTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.03
17 30 0.44
18 31 0.46
19 5 0.07
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (18 bp):
AAATTTTTGAAAACACGG
Found at i:51584104 original size:6 final size:6
Alignment explanation
Indices: 51584095--51584149 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
51584085 ATTTTTATTT
* *
51584095 TTTTTC TTTTT- TCTTTC TTCTTTC TTTTTC --TTTC TTTTTC TTCTTC
1 TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
51584141 TTCTTC TTT
1 TTTTTC TTT
51584150 GGGCCGAACC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.10
5 4 0.10
6 27 0.66
7 6 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:51584292 original size:22 final size:22
Alignment explanation
Indices: 51584248--51584304 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
51584238 TTCTCTTTTA
*
51584248 TTTTTCTTCTTTGCTTGTTTTT
1 TTTTTCTTCTTTGCTTGTATTT
*
51584270 TTTTTCTT-TTTGTTTGCTATTT
1 TTTTTCTTCTTTGCTTG-TATTT
*
51584292 TTTTT-GTCTTTGC
1 TTTTTCTTCTTTGC
51584305 CCTTTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.02, C:0.12, G:0.11, T:0.75
Consensus pattern (22 bp):
TTTTTCTTCTTTGCTTGTATTT
Found at i:51584877 original size:30 final size:30
Alignment explanation
Indices: 51584800--51584909 Score: 116
Period size: 30 Copynumber: 3.7 Consensus size: 30
51584790 AGGAAAATAT
* *
51584800 GGGGCCAAAATGTAATTTTTAGAAAGTTGA
1 GGGGCTAAAATGTAATTTTTAAAAAGTTGA
* * *
51584830 -GGGTTAAAATGTCATTTTTAAAAAGTTTA
1 GGGGCTAAAATGTAATTTTTAAAAAGTTGA
* *
51584859 GGGGCTAAAATATAATTTTTGAAAAGTTGA
1 GGGGCTAAAATGTAATTTTTAAAAAGTTGA
* *
51584889 GAGG-TCAAAATGTACTTTTTA
1 GGGGCT-AAAATGTAATTTTTA
51584910 TTTTTTGTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
29 25 0.39
30 39 0.61
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.35
Consensus pattern (30 bp):
GGGGCTAAAATGTAATTTTTAAAAAGTTGA
Found at i:51592386 original size:17 final size:17
Alignment explanation
Indices: 51592344--51592424 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 17
51592334 AATTCAATTT
*
51592344 TAATATAAAT-ATTCAA
1 TAATATAAATAATTTAA
51592360 T-ATGACTAAATAATTTAA
1 TAAT-A-TAAATAATTTAA
*
51592378 TAATATAAATAATATAA
1 TAATATAAATAATTTAA
*
51592395 -AATGTGAAATTTAATTTAA
1 TAATAT-AAA--TAATTTAA
51592414 TAATATAAATA
1 TAATATAAATA
51592425 GTAGATATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
15 2 0.04
16 6 0.12
17 21 0.40
18 7 0.13
19 12 0.23
20 4 0.08
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (17 bp):
TAATATAAATAATTTAA
Found at i:51592674 original size:30 final size:30
Alignment explanation
Indices: 51592631--51592688 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51592621 AGGTGGGATG
* *
51592631 GGAATGAAATAAAAGTTTTAGGGGAAAAGT
1 GGAAGGAAATAAAAATTTTAGGGGAAAAGT
* *
51592661 GGAAGGAAGTAAAAATTTTGGGGGAAAA
1 GGAAGGAAATAAAAATTTTAGGGGAAAA
51592689 TAAAATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.21
Consensus pattern (30 bp):
GGAAGGAAATAAAAATTTTAGGGGAAAAGT
Found at i:51593395 original size:9 final size:9
Alignment explanation
Indices: 51593378--51593414 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
51593368 TGAGTTTTCG
51593378 AATTCGAAT
1 AATTCGAAT
*
51593387 AACTCGAAT
1 AATTCGAAT
51593396 AATTCGAAT
1 AATTCGAAT
51593405 AATTCGAAT
1 AATTCGAAT
51593414 A
1 A
51593415 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:51599638 original size:372 final size:372
Alignment explanation
Indices: 51598948--51599683 Score: 1330
Period size: 372 Copynumber: 2.0 Consensus size: 372
51598938 AAGGGAAGTG
* * *
51598948 GGAAATGTACCATGCAATTCACAATCTTCAAGAGAGAGATATGTTAAAGCAGATAAATTTGCCAA
1 GGAAATGAACCATGCAATTCACAAGCGTCAAGAGAGAGATATGTTAAAGCAGATAAATTTGCCAA
*
51599013 ACTCTGAGGGATTGTTGAAGATACATTTACCATGTCAAGATCAAGAATCTTGAGGTTCAATAACC
66 ACTCTGAGGGATTGTCGAAGATACATTTACCATGTCAAGATCAAGAATCTTGAGGTTCAATAACC
* *
51599078 TCTCGGATAAACTTTTCAAACTTGGGTTTCGGAGCTCTAATGGATTCCCAGAGAGATCAAGTCTC
131 TCTCGGATAAACTTTTCAAACTTGGGTTTCGGAGCTCTAATCGATTCCCAGAGAGATCAAGTATC
**
51599143 ACCAGGTTTGAAAGCTGTAGAACTTCATATGGAATTTGACCTGTAAAGCCAGACGAGGAGAGGTC
196 ACCAGGTTTGAAAGCAATAGAACTTCATATGGAATTTGACCTGTAAAGCCAGACGAGGAGAGGTC
*
51599208 CAACCGTGATAGCCTTGTAAGGTTAGCAATTGCAGAAGGGATTTCAGAGCCGTTGAAGTCATTGT
261 CAACCGTGATAGCCTTGTAAGGTTACCAATTGCAGAAGGGATTTCAGAGCCGTTGAAGTCATTGT
51599273 CCGAAAGGCTGAGCCTTCTAAGGTGATGGAGCTGGAAAACTTCAATA
326 CCGAAAGGCTGAGCCTTCTAAGGTGATGGAGCTGGAAAACTTCAATA
51599320 GGAAATGAACCATGCAATTCACAAGCGTCAAGAGAGAGATATGTTAAAGCAGATAAATTTGCCAA
1 GGAAATGAACCATGCAATTCACAAGCGTCAAGAGAGAGATATGTTAAAGCAGATAAATTTGCCAA
*
51599385 ACTCTGAGGGATTGTCGACGATACATTTACCATGTCAAGATCAAGAATCTTGAGGTTCAATAACC
66 ACTCTGAGGGATTGTCGAAGATACATTTACCATGTCAAGATCAAGAATCTTGAGGTTCAATAACC
* *
51599450 TCTCGGATAAACTTTTCAAGCTTGGGTTTCGGAGCTCTAATCGATTCCTAGAGAGATCAAGTATC
131 TCTCGGATAAACTTTTCAAACTTGGGTTTCGGAGCTCTAATCGATTCCCAGAGAGATCAAGTATC
51599515 ACCAGGTTTGAAAGCAATAGAACTTCATATGGAATTTGACCTGTAAAGCCAGACGAGGAGAGGTC
196 ACCAGGTTTGAAAGCAATAGAACTTCATATGGAATTTGACCTGTAAAGCCAGACGAGGAGAGGTC
*
51599580 CAACCGTGATAGCCTTGTAAGGTTACCAATTGCAGAAGGGATTTCAGAG-CGATTGAAGTTATTG
261 CAACCGTGATAGCCTTGTAAGGTTACCAATTGCAGAAGGGATTTCAGAGCCG-TTGAAGTCATTG
*
51599644 TCCGAAAGGTTGAGCCTTCTAAGGTGATGGAGCTGGAAAA
325 TCCGAAAGGCTGAGCCTTCTAAGGTGATGGAGCTGGAAAA
51599684 GGCTGTTGTT
Statistics
Matches: 349, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
371 2 0.01
372 347 0.99
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (372 bp):
GGAAATGAACCATGCAATTCACAAGCGTCAAGAGAGAGATATGTTAAAGCAGATAAATTTGCCAA
ACTCTGAGGGATTGTCGAAGATACATTTACCATGTCAAGATCAAGAATCTTGAGGTTCAATAACC
TCTCGGATAAACTTTTCAAACTTGGGTTTCGGAGCTCTAATCGATTCCCAGAGAGATCAAGTATC
ACCAGGTTTGAAAGCAATAGAACTTCATATGGAATTTGACCTGTAAAGCCAGACGAGGAGAGGTC
CAACCGTGATAGCCTTGTAAGGTTACCAATTGCAGAAGGGATTTCAGAGCCGTTGAAGTCATTGT
CCGAAAGGCTGAGCCTTCTAAGGTGATGGAGCTGGAAAACTTCAATA
Found at i:51600110 original size:12 final size:12
Alignment explanation
Indices: 51600093--51600121 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
51600083 AATCAAGTTG
51600093 TGTATATGCGTA
1 TGTATATGCGTA
51600105 TGTATATGCGTA
1 TGTATATGCGTA
51600117 TGTAT
1 TGTAT
51600122 GCATCATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (12 bp):
TGTATATGCGTA
Found at i:51602491 original size:79 final size:79
Alignment explanation
Indices: 51602399--51602549 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 79
51602389 ATGCATAGTT
* * * * ** *
51602399 ATAAATCAAAATCAGTAACAATTAGTCTAACATATTCAGATATTGTGTATTCCTCATCAACAAAG
1 ATAAATCAAAATCAGTAACAATCAATCTAACATAATCAAATATCATATATTCCTCATCAACAAAG
51602464 TAACGTAAAGGGTC
66 TAACGTAAAGGGTC
* * * *
51602478 ATAAATCAGAATCAGTAACAATCAATTTAACATAATCAAATGTCATATATTCTTCATCAACAAAG
1 ATAAATCAAAATCAGTAACAATCAATCTAACATAATCAAATATCATATATTCCTCATCAACAAAG
51602543 TAACGTA
66 TAACGTA
51602550 GAGATGTATC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (79 bp):
ATAAATCAAAATCAGTAACAATCAATCTAACATAATCAAATATCATATATTCCTCATCAACAAAG
TAACGTAAAGGGTC
Found at i:51608317 original size:21 final size:21
Alignment explanation
Indices: 51608291--51608340 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
51608281 GGTCTACAAG
51608291 CCCGTGTGTGAGCTACACACA
1 CCCGTGTGTGAGCTACACACA
*
51608312 CCCGTGTCTGAGCTACACACA
1 CCCGTGTGTGAGCTACACACA
*
51608333 TCCGTGTG
1 CCCGTGTG
51608341 AAGGGGATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.34, G:0.24, T:0.22
Consensus pattern (21 bp):
CCCGTGTGTGAGCTACACACA
Found at i:51609850 original size:13 final size:13
Alignment explanation
Indices: 51609832--51609882 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
51609822 AGTTCTTCAT
51609832 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
51609845 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
51609858 TGCTGTGGAGAAG
1 TGCTTTTGAAAAG
51609871 TGCTTTTGAAAA
1 TGCTTTTGAAAA
51609883 TTTTGAGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:51621318 original size:30 final size:30
Alignment explanation
Indices: 51621282--51621342 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
51621272 ACGGGCACGG
51621282 ACACGATCGTGTGTCCCTATTTCGAATGTT
1 ACACGATCGTGTGTCCCTATTTCGAATGTT
* *
51621312 ACACGATCGTGTTTCCCTATTTTGAATGTT
1 ACACGATCGTGTGTCCCTATTTCGAATGTT
51621342 A
1 A
51621343 TACGGCTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (30 bp):
ACACGATCGTGTGTCCCTATTTCGAATGTT
Found at i:51622596 original size:21 final size:21
Alignment explanation
Indices: 51622570--51622624 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
51622560 AACAGCGGTG
*
51622570 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
51622591 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
51622612 GTGGTGAGATTAG
1 GCGGTGAGATTAG
51622625 AAACAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:51622938 original size:22 final size:22
Alignment explanation
Indices: 51622887--51622938 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
51622877 TTTTATAGTT
*
51622887 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
51622910 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
51622932 ATAATAA
1 ATAATAA
51622939 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:51632099 original size:21 final size:22
Alignment explanation
Indices: 51632049--51632099 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
51632039 ATATATATAT
* *
51632049 ATATTAATTATTTTTTTAAGAA
1 ATATTATTTATTTTTGTAAGAA
* *
51632071 A-ATAATTTCTTTTTGTAA-AA
1 ATATTATTTATTTTTGTAAGAA
51632091 ATATTATTT
1 ATATTATTT
51632100 TTATTTCCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 3 0.13
21 19 0.83
22 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
ATATTATTTATTTTTGTAAGAA
Found at i:51632530 original size:24 final size:26
Alignment explanation
Indices: 51632499--51632567 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
51632489 ATTATATATT
51632499 AAATATATTTTTTAATTTTTAATCAA
1 AAATATATTTTTTAATTTTTAATCAA
*
51632525 AAATATATTTTTTTATTTTTAATCAA
1 AAATATATTTTTTAATTTTTAATCAA
* *
51632551 ATATATA-TATTTAATTT
1 AAATATATTTTTTAATTT
51632568 ATATTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 8 0.21
26 31 0.79
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (26 bp):
AAATATATTTTTTAATTTTTAATCAA
Found at i:51633772 original size:4 final size:4
Alignment explanation
Indices: 51633763--51633800 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
51633753 TGAGGTCTCT
51633763 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
51633801 CACATACAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:51642372 original size:22 final size:21
Alignment explanation
Indices: 51642292--51642412 Score: 54
Period size: 25 Copynumber: 5.3 Consensus size: 21
51642282 AGATATTGTG
51642292 ATAATTATACATTTAAAAATAATT
1 ATAATT-TA-ATTT-AAAATAATT
51642316 ATAATTTAA--TAAAAT--TT
1 ATAATTTAATTTAAAATAATT
*
51642333 GTAATAATTACACGTTTAGAAATAATT
1 ATAAT--TTA-A--TTTA-AAATAATT
51642360 ATAATTTAATTTACAAATATTACTT
1 ATAATTTAATTTA-AAATA--A-TT
*
51642385 AAAATTTTTAA-TTAAAATAATT
1 ATAA--TTTAATTTAAAATAATT
51642407 ATAATT
1 ATAATT
51642413 GAAGTAAAAG
Statistics
Matches: 77, Mismatches: 5, Indels: 34
0.66 0.04 0.29
Matches are distributed among these distances:
17 6 0.08
19 8 0.10
20 4 0.05
22 15 0.19
23 3 0.04
24 10 0.13
25 17 0.22
26 3 0.04
27 11 0.14
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAATTTAATTTAAAATAATT
Found at i:51642875 original size:31 final size:29
Alignment explanation
Indices: 51642837--51642906 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
51642827 ACTATTAAAA
* *
51642837 TAGTCACTTTTGTTTGTCTAAGGTTACATTT
1 TAGTCACTTATGTTTG--AAAGGTTACATTT
* *
51642868 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
51642897 TAGTCACTTA
1 TAGTCACTTA
51642907 CGCTATCCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 20 0.57
31 15 0.43
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.49
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:51643212 original size:20 final size:20
Alignment explanation
Indices: 51643191--51643227 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
51643181 TTCTTTTTCT
51643191 TTTTCTTTTTCT-TCTTCCC
1 TTTTCTTTTTCTCTCTTCCC
*
51643210 TTTTGTTTTTCTCTCTTC
1 TTTTCTTTTTCTCTCTTC
51643228 TCATATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTCTTTTTCTCTCTTCCC
Found at i:51644369 original size:15 final size:15
Alignment explanation
Indices: 51644349--51644377 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51644339 TACTCTAATA
51644349 AAAATTCGTTCAAAT
1 AAAATTCGTTCAAAT
51644364 AAAATTCGTTCAAA
1 AAAATTCGTTCAAA
51644378 GTACACATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
AAAATTCGTTCAAAT
Found at i:51647886 original size:19 final size:19
Alignment explanation
Indices: 51647862--51647898 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
51647852 TTAATAGAAA
51647862 TTAAA-TTATTCTAATTTCT
1 TTAAATTTATTC-AATTTCT
51647881 TTAAATTTATTCAATTTC
1 TTAAATTTATTCAATTTC
51647899 GAAATCACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAAATTTATTCAATTTCT
Found at i:51649519 original size:20 final size:20
Alignment explanation
Indices: 51649483--51649520 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51649473 ATGAGATTTG
*
51649483 TAAAATAATATAAATATGTT
1 TAAAATAATAAAAATATGTT
51649503 TAAAA-AATAAAATATATG
1 TAAAATAATAAAA-ATATG
51649521 CCATAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
TAAAATAATAAAAATATGTT
Found at i:51649919 original size:14 final size:14
Alignment explanation
Indices: 51649896--51649930 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
51649886 ATTAAAAGAT
51649896 TTAATTATGTT-AA
1 TTAATTATGTTAAA
51649909 TTAACTTATGTTAAA
1 TTAA-TTATGTTAAA
51649924 TTAATTA
1 TTAATTA
51649931 ATCTAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 10 0.50
15 6 0.30
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (14 bp):
TTAATTATGTTAAA
Found at i:51650670 original size:4 final size:4
Alignment explanation
Indices: 51650661--51650725 Score: 94
Period size: 4 Copynumber: 16.2 Consensus size: 4
51650651 TGATTTCTTT
* * * *
51650661 TGTA TGTA TGTA TGTG TGTG TGTG TGTA TGTA TATA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
51650709 TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA T
51650726 TGGCATGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:51651314 original size:41 final size:43
Alignment explanation
Indices: 51651269--51651362 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 43
51651259 ATATAATAAT
* *
51651269 AATTATATTAAGAATGTTATT-AATTA-TA-TATTATTTTATTA
1 AATTATATTAA-AATATGATTAAATTATTATTATTATTTTATTA
*
51651310 AATTATATTAAAATATGATTAAATTATTTATTTTTATTTTATTA
1 AATTATATTAAAATATGATTAAATTA-TTATTATTATTTTATTA
*
51651354 AAATATATT
1 AATTATATT
51651363 TCACCATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
40 7 0.16
41 16 0.36
43 2 0.04
44 20 0.44
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (43 bp):
AATTATATTAAAATATGATTAAATTATTATTATTATTTTATTA
Found at i:51652856 original size:97 final size:96
Alignment explanation
Indices: 51652681--51652970 Score: 365
Period size: 97 Copynumber: 3.0 Consensus size: 96
51652671 AAATAAGGGT
* * * * * *
51652681 TTAGTGTTTAAGGTTTCTTAATTAAATTAATTATAAATTTTT-CAAAATTAGA-TAAGGGTTTCG
1 TTAGAGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAA-GGTTTAG
* *
51652744 TGTTTATGGTTTTTAAGGAAAAATTAAATAAA
65 TGTTTAGGGTTTTTAAGGAAAAATAAAATAAA
*
51652776 TTAGAGTTTAGGGTTACTTAAGTAAATTGATTATAAATTTTTTAAAAAATTAGATTAAGGTTTAG
1 TTAGAGTTTAGGGTTACTTAAGTAAATTAATTATAAA-TTTTTAAAAAATTAGATTAAGGTTTAG
*
51652841 TGTTAAGGGTTTTTAAGGAAAAATAAAATAAA
65 TGTTTAGGGTTTTTAAGGAAAAATAAAATAAA
* * * *
51652873 TTA-AGGTTTAGGGTTACTTGAGTAAATTAATTATAAA--TTAAAAAAAATAGATTAGGGTTTAG
1 TTAGA-GTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAAGGTTTAG
* *
51652935 TATTTAGGGTTTTTAAGGAAAAAATCAAATAAA
65 TGTTTAGGGTTTTTAAGG-AAAAATAAAATAAA
51652968 TTA
1 TTA
51652971 AGGTTTGGGG
Statistics
Matches: 172, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
94 38 0.22
95 48 0.28
96 6 0.03
97 77 0.45
98 3 0.02
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (96 bp):
TTAGAGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAAGGTTTAGT
GTTTAGGGTTTTTAAGGAAAAATAAAATAAA
Found at i:51653019 original size:102 final size:95
Alignment explanation
Indices: 51652686--51653020 Score: 359
Period size: 97 Copynumber: 3.4 Consensus size: 95
51652676 AGGGTTTAGT
* * * ** * * *
51652686 GTTTAAGGTTTCTTAATTAAATTAATTATAAATTTTTCAAAATTAGATAAGGGTTTCGTGTTTAT
1 GTTTAGGGTTACTTAAGTAAATTAATTATAAA-TTTAAAAAATTAGATTAGGGTTTAGTGTTTAG
* *
51652751 GGTTTTTAAGGAAAAATTAAATAAATT-AGA
65 GGTTTTTAAGGAAAAATCAAATAAATTAAGG
* * *
51652781 GTTTAGGGTTACTTAAGTAAATTGATTATAAATTTTTTAAAAAATTAGATTAAGGTTTAGTGTTA
1 GTTTAGGGTTACTTAAGTAAATTAATTATAAA---TTTAAAAAATTAGATTAGGGTTTAGTGTTT
*
51652846 AGGGTTTTTAAGGAAAAATAAAATAAATTAA-G
63 AGGGTTTTTAAGGAAAAATCAAATAAATTAAGG
* * * *
51652878 GTTTAGGGTTACTTGAGTAAATTAATTATAAATTAAAAAAAATAGATTAGGGTTTAGTATTTAGG
1 GTTTAGGGTTACTTAAGTAAATTAATTATAAATTTAAAAAATTAGATTAGGGTTTAGTGTTTAGG
51652943 GTTTTTAAGGAAAAAATCAAATAAATTAAGGTTTGGG
66 GTTTTTAAGG-AAAAATCAAATAAATTAA------GG
* * * *
51652980 GTTTAGGGTTACTTAATTAAATTATTTGTTAATTTAAAAAA
1 GTTTAGGGTTACTTAAGTAAATTAATTATAAATTTAAAAAA
51653021 GCTCTCACGT
Statistics
Matches: 202, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
94 38 0.19
95 45 0.22
97 82 0.41
98 1 0.00
102 36 0.18
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (95 bp):
GTTTAGGGTTACTTAAGTAAATTAATTATAAATTTAAAAAATTAGATTAGGGTTTAGTGTTTAGG
GTTTTTAAGGAAAAATCAAATAAATTAAGG
Found at i:51653245 original size:126 final size:126
Alignment explanation
Indices: 51653019--51653310 Score: 415
Period size: 126 Copynumber: 2.3 Consensus size: 126
51653009 TAATTTAAAA
* * * *
51653019 AAGCTCTCACGTGGAAGCTCTTTTGCTATAGTAGCTCCTAAAAAAATAATTTGGAGAAGACGTTC
1 AAGCTCCCACATGGAAGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTGGAGAAGACGTTC
* *
51653084 CTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGTTTTATCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
* * * * * * *
51653145 AAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAGATAATTTTGAGAAGATGTTT
1 AAGCTCCCACATGGAAGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTGGAGAAGACGTTC
*
51653210 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
* * *
51653271 AAACTCCTA-AGTGGAAGCTCTTTTGTTACAGTAGTTCCTA
1 AAGCTCCCACA-TGGAAGCTCTTTTGCTACAGTAGTTCCTA
51653311 TTTGGCCTGA
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
125 1 0.01
126 144 0.99
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (126 bp):
AAGCTCCCACATGGAAGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTGGAGAAGACGTTC
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
Found at i:51654480 original size:18 final size:18
Alignment explanation
Indices: 51654454--51654496 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
51654444 GACTAGAAAA
* * *
51654454 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
51654472 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
51654490 AGGATAC
1 AGGATAC
51654497 GCACCTGGCA
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:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:51655112 original size:7 final size:7
Alignment explanation
Indices: 51655102--51655126 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51655092 TTATATACAT
51655102 AATACTA
1 AATACTA
51655109 AATACTA
1 AATACTA
51655116 AATACTA
1 AATACTA
51655123 AATA
1 AATA
51655127 TGTAATGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:51655703 original size:19 final size:19
Alignment explanation
Indices: 51655681--51655721 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51655671 ATGAAATAAA
51655681 AGAATAG-AAAAAGAGAAAC
1 AGAATAGCAAAAA-AGAAAC
*
51655700 AGAATAGCTAAAAAGAAAC
1 AGAATAGCAAAAAAGAAAC
51655719 AGA
1 AGA
51655722 GAACAGACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.66, C:0.07, G:0.20, T:0.07
Consensus pattern (19 bp):
AGAATAGCAAAAAAGAAAC
Found at i:51656226 original size:21 final size:20
Alignment explanation
Indices: 51656200--51656260 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
51656190 GCTTTGCCGA
51656200 TCAGGCACTTTATGTGTCGTT
1 TCAGGCAC-TTATGTGTCGTT
**
51656221 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCA-CTTATGTGTCGTT
*
51656242 ACAGGCACTTATGTGTCGT
1 TCAGGCACTTATGTGTCGT
51656261 ATATTGATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.29
21 23 0.68
22 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (20 bp):
TCAGGCACTTATGTGTCGTT
Found at i:51658344 original size:14 final size:13
Alignment explanation
Indices: 51658311--51658341 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
51658301 TGAAATTTTT
*
51658311 ATAATTTTAAAAA
1 ATAAATTTAAAAA
51658324 ATAAATTTAAAAA
1 ATAAATTTAAAAA
51658337 ATAAA
1 ATAAA
51658342 ATTAGAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAAATTTAAAAA
Found at i:51658393 original size:11 final size:11
Alignment explanation
Indices: 51658379--51658408 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
51658369 GAGAGCTTTG
51658379 AGAGAAATTTT
1 AGAGAAATTTT
51658390 AGAGAAATTTT
1 AGAGAAATTTT
51658401 AGAGAAAT
1 AGAGAAAT
51658409 ATGAGAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (11 bp):
AGAGAAATTTT
Found at i:51658415 original size:11 final size:11
Alignment explanation
Indices: 51658375--51658417 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
51658365 TAAAGAGAGC
51658375 TTTGAGAGAAA
1 TTTGAGAGAAA
*
51658386 TTTTAGAGAAA
1 TTTGAGAGAAA
*
51658397 TTTTAGAGAAA
1 TTTGAGAGAAA
*
51658408 TATGAGAGAA
1 TTTGAGAGAA
51658418 TATTGAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:51659467 original size:5 final size:5
Alignment explanation
Indices: 51659447--51659494 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
51659437 CGAAATAATT
* *
51659447 ATATA ATGAAA ATATA ATATA ATATA ATAAA ATATA A-A-A ATATA ATAT
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT
51659495 CAACATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 28 0.78
6 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (5 bp):
ATATA
Found at i:51659472 original size:10 final size:10
Alignment explanation
Indices: 51659447--51659493 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
51659437 CGAAATAATT
51659447 ATATAATGAAA
1 ATATAAT-AAA
*
51659458 ATATAATATA
1 ATATAATAAA
51659468 ATATAATAAA
1 ATATAATAAA
51659478 ATAT-A-AAA
1 ATATAATAAA
51659486 ATATAATA
1 ATATAATA
51659494 TCAACATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 7 0.22
9 2 0.06
10 16 0.50
11 7 0.22
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (10 bp):
ATATAATAAA
Found at i:51659490 original size:18 final size:20
Alignment explanation
Indices: 51659447--51659493 Score: 71
Period size: 18 Copynumber: 2.4 Consensus size: 20
51659437 CGAAATAATT
51659447 ATATAATGAAAATATAATATA
1 ATATAAT-AAAATATAATATA
51659468 ATATAATAAAATATAA-A-A
1 ATATAATAAAATATAATATA
51659486 ATATAATA
1 ATATAATA
51659494 TCAACATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.35
19 1 0.04
20 9 0.35
21 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
ATATAATAAAATATAATATA
Found at i:51660024 original size:24 final size:24
Alignment explanation
Indices: 51659996--51660047 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
51659986 TTTCTAGAAC
*
51659996 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
*
51660020 ATTTAGTATTTATTAGCATAATTT
1 ATTTAGTATTTATTAGCATAATAT
51660044 ATTT
1 ATTT
51660048 GACCTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:51669655 original size:9 final size:10
Alignment explanation
Indices: 51669631--51669680 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
51669621 GTATTTTACT
*
51669631 AAAATAATAC
1 AAAAAAATAC
51669641 AAAAAAATA-
1 AAAAAAATAC
51669650 AAAAAAATACC
1 AAAAAAATA-C
51669661 AAAATAATATAC
1 AAAA-AA-ATAC
51669673 AAAAAAAT
1 AAAAAAAT
51669681 TTATTTACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 9 0.26
10 10 0.29
11 6 0.17
12 7 0.20
13 3 0.09
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:51669676 original size:22 final size:19
Alignment explanation
Indices: 51669631--51669680 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 19
51669621 GTATTTTACT
*
51669631 AAAATAATACAAAAAAATA
1 AAAAAAATACAAAAAAATA
51669650 AAAAAAATACCAAAATAATATA
1 AAAAAAATA-CAAAA-AA-ATA
51669672 CAAAAAAAT
1 -AAAAAAAT
51669681 TTATTTACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 2 0.08
22 3 0.12
23 8 0.31
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAAAAATACAAAAAAATA
Found at i:51669959 original size:151 final size:151
Alignment explanation
Indices: 51669780--51670587 Score: 1074
Period size: 151 Copynumber: 5.3 Consensus size: 151
51669770 AACATGTTCG
* * * *
51669780 TATTTCAGCCATTTATTCGTATTTTTTTCTTGAATTTTATTACTTTAAAAAATATATTATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTC-CGAATTTTATTACTTTAAAAAATATATTATTTTCT
* *
51669845 AATATATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
65 AATTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
** *
51669910 TTTAAA-TTAAAAAAAAACCTT
130 AATAAATTTAAAAAAAAACCCT
* *
51669931 TATTTTGGCCCTTTGTTCGTATTTTTTTCAG-ATTTTATTACTTTCAATAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCGAATTTTATTACTTT--A-AAAAATATATTATTTT
* * *
51669995 CGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTT
63 C-TAATTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
* *
51670060 TTAAATAAATTTTAAAAAAAACTCT
127 TTAAATAAATTTAAAAAAAAACCCT
* * * * *
51670085 TATTTTGGCGCTTTGTTCGTATTTTTTCCCCGAATTTTATTACTTT-AAAAA-ACACTATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTT-TCCGAATTTTATTACTTTAAAAAATATATTATTTTCT
51670148 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTTT
65 AA-TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
* * *
51670212 ATATAAAATTAAAAAAAAATCCT
129 AAATAAATTTAAAAAAAAACCCT
* *
51670235 TATTTCGGTCCTTTGTTCGTATTTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATT
1 TATTTCGGCCCTTTGTTCGTA-TTTTTTT-CCGAATTTTATTACTTT--A-AAAAATATATTATT
* * * * *
51670300 TGTGTATTTTATTATTTTACATTATTTTATTACATTATGTTTGAAATGTATTAATTTACTGTGTT
61 T-TCTAATTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
**
51670365 TTTTAAATAAATTTAGTAAAAAACCCT
125 TTTTAAATAAATTTAAAAAAAAACCCT
* * * *
51670392 TATTTCGGCCCTCTGTTCGTATTTTTTT-CGGATTTTATTA-TTTTAAAAA-ATACTATTTTCTA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCGAATTTTATTACTTTAAAAAATATATTATTTTCTA
51670454 ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
66 A-TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
51670519 AATAAATTTAGAAAAAAAACCCT
130 AATAAATTTA-AAAAAAAACCCT
*
51670542 TATTTCGGCCCTTTGTTCGTATTTTTTTACCGGATTTTATTACTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCGAATTTTATTACTTT
51670588 CAATAAAAAA
Statistics
Matches: 576, Mismatches: 59, Indels: 42
0.85 0.09 0.06
Matches are distributed among these distances:
148 3 0.01
149 91 0.16
150 86 0.15
151 111 0.19
152 34 0.06
153 71 0.12
154 48 0.08
155 7 0.01
156 80 0.14
157 45 0.08
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (151 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCGAATTTTATTACTTTAAAAAATATATTATTTTCTA
ATTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAA
ATAAATTTAAAAAAAAACCCT
Found at i:51670369 original size:307 final size:303
Alignment explanation
Indices: 51669795--51670596 Score: 1238
Period size: 307 Copynumber: 2.6 Consensus size: 303
51669785 CAGCCATTTA
* * *
51669795 TTCGTATTTTTTTCTTGAATTTTATTACTTTAAAAAATATATTATTTTCTAA-TATATTATTTTA
1 TTCGTA-TTTTTTCTCGAATTTTATTACTTT-AAAAA-ATACTATTTTCTAATTTTATTATTTTA
* *
51669859 TATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT-TATTTAAATTAAAAA
63 CATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTATA-TAAAATTAAAAA
*
51669923 AAAACCTTTATTTTGGCCCTTTGTTCGTATTTTTTT-CAGATTTTATTACTTTCAATAAAAATAT
127 AAAACC-TTATTTCGGCCCTTTGTTCGTATTTTTTTCCAGATTTTATTACTTTCAATAAAAATAT
51669987 ATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAC
191 ATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAC
* * * *
51670052 TGTGTTTTTTAAATAAATTTTA-AAAAAAACTCTTATTTTGGCGCTTTG
256 TGTGTTTTTTAAATAAA-TTTAGAAAAAAACCCTTATTTCGGCCCTCTG
* *
51670100 TTCGTATTTTTTCCCCGAATTTTATTACTTTAAAAAACACTATTTTCTAATTTTATTATTTTACA
1 TTCGTATTTTTT-CTCGAATTTTATTACTTTAAAAAATACTATTTTCTAATTTTATTATTTTACA
51670165 TTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTATATAAAATTAAAAAAAA
65 TTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTATATAAAATTAAAAAAAA
* *
51670230 ATCCTTATTTCGGTCCTTTGTTCGTATTTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATA
130 A-CCTTATTTCGGCCCTTTGTTCGTA-TTTTTTT-CCAGATTTTATTACTTTCAATAAAAATATA
*
51670295 TTATTTGT-GTATTTTATTATTTTACATTATTTTATTACATTATGTTTGAAATGTATTAATTTAC
192 TTATTT-TCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAC
*
51670359 TGTGTTTTTTAAATAAATTTAGTAAAAAACCCTTATTTCGGCCCTCTG
256 TGTGTTTTTTAAATAAATTTAGAAAAAAACCCTTATTTCGGCCCTCTG
* *
51670407 TTCGTATTTTTT-TCGGATTTTATTATTTTAAAAAATACTATTTTCTAATTTTATTATTTTACAT
1 TTCGTATTTTTTCTCGAATTTTATTACTTTAAAAAATACTATTTTCTAATTTTATTATTTTACAT
* *
51670471 TATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAGAAAAAA
66 TATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTTTATATAAAATTA-AAAAAA
*
51670536 AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTACCGGATTTTATTACTTTCAATAAAAA
129 AA-CCTTATTTCGGCCCTTTGTTCGTATTTTTTT-CCAGATTTTATTACTTTCAATAAAAA
51670597 ACACACTAAA
Statistics
Matches: 459, Mismatches: 27, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
303 12 0.03
304 105 0.23
305 122 0.27
306 49 0.11
307 170 0.37
308 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.52
Consensus pattern (303 bp):
TTCGTATTTTTTCTCGAATTTTATTACTTTAAAAAATACTATTTTCTAATTTTATTATTTTACAT
TATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTATATAAAATTAAAAAAAAA
CCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTAT
TTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGT
TTTTTAAATAAATTTAGAAAAAAACCCTTATTTCGGCCCTCTG
Found at i:51670856 original size:19 final size:19
Alignment explanation
Indices: 51670834--51670873 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51670824 AATAAACTTT
51670834 TTTTTATATTATTTTGGTA
1 TTTTTATATTATTTTGGTA
* * *
51670853 TTTTTTTATTTTTTTTGTA
1 TTTTTATATTATTTTGGTA
51670872 TT
1 TT
51670874 ACTTTAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTTTATATTATTTTGGTA
Found at i:51682562 original size:40 final size:39
Alignment explanation
Indices: 51682504--51682648 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 39
51682494 GCGGTATTTT
51682504 TAGCGGCG-TTTGATAAAAAACACCGCTATAGATCGAGCA-
1 TAGCGGCGCTTT--TAAAAAACACCGCTATAGATCGAGCAC
** * *
51682543 TAGCGGCGCTTATTAAAAAAGGCCGCTATAGATCAAGCAT
1 TAGCGGCGCTT-TTAAAAAACACCGCTATAGATCGAGCAC
* * * * * *
51682583 TAGCGGCGCTTTTCCAGAAACGCCGCTATAGGTTGACCAC
1 TAGCGGCGCTTTT-AAAAAACACCGCTATAGATCGAGCAC
51682623 TAGCGGCGCCTTTTAAAAAACACCGC
1 TAGCGGCG-CTTTTAAAAAACACCGC
51682649 AAAAAGATTA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
39 33 0.38
40 48 0.55
41 6 0.07
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (39 bp):
TAGCGGCGCTTTTAAAAAACACCGCTATAGATCGAGCAC
Found at i:51682731 original size:40 final size:40
Alignment explanation
Indices: 51682676--51682757 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
51682666 CGCTTTAGTG
51682676 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
* * *
51682716 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
51682756 GC
1 GC
51682758 TTTATGGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
Found at i:51682827 original size:21 final size:21
Alignment explanation
Indices: 51682780--51682824 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
51682770 GGTTTTAGGG
* *
51682780 TTTATGATTTAAGGGTTGAGA
1 TTTAAGATTTAAGGGTTAAGA
*
51682801 TTTAAGATTTAGGGGTTAAAGA
1 TTTAAGATTTAAGGGTT-AAGA
51682823 TT
1 TT
51682825 AAGGGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (21 bp):
TTTAAGATTTAAGGGTTAAGA
Found at i:51682870 original size:7 final size:7
Alignment explanation
Indices: 51682860--51682886 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
51682850 ATTTAGGGTT
51682860 TAAGGGA
1 TAAGGGA
51682867 TAAGGGA
1 TAAGGGA
51682874 TAAGGGA
1 TAAGGGA
51682881 TAAGGG
1 TAAGGG
51682887 TTTAGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (7 bp):
TAAGGGA
Found at i:51683024 original size:14 final size:14
Alignment explanation
Indices: 51682986--51683012 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51682976 TAATTATCAT
51682986 TATAGTTTAGGGTA
1 TATAGTTTAGGGTA
51683000 TATAGTTTAGGGT
1 TATAGTTTAGGGT
51683013 TTAAGATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (14 bp):
TATAGTTTAGGGTA
Found at i:51683059 original size:15 final size:14
Alignment explanation
Indices: 51683039--51683087 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
51683029 ACTATTTTAA
51683039 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
51683053 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
* *
51683068 GATTTATGGTTTAT
1 GGTTTATGGATTAT
51683082 GGTTTA
1 GGTTTA
51683088 AGGGTTGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:51683084 original size:7 final size:7
Alignment explanation
Indices: 51683034--51683087 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
51683024 GAGTTACTAT
*
51683034 TTTAAGG
1 TTTATGG
51683041 TTTATGG
1 TTTATGG
*
51683048 ATTATGGG
1 TTTAT-GG
*
51683056 TTTAGGG
1 TTTATGG
* *
51683063 ATTATGA
1 TTTATGG
51683070 TTTATGG
1 TTTATGG
51683077 TTTATGG
1 TTTATGG
51683084 TTTA
1 TTTA
51683088 AGGGTTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:51683099 original size:14 final size:15
Alignment explanation
Indices: 51683082--51683117 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
51683072 TATGGTTTAT
51683082 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
51683096 GGTTTAAGGGTTAGG
1 GGTTTAAGGGTTAGG
51683111 GGTTTAA
1 GGTTTAA
51683118 AATTTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:51683113 original size:21 final size:21
Alignment explanation
Indices: 51683075--51683114 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
51683065 TATGATTTAT
* *
51683075 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGGTTAAGGGTTGG
*
51683096 GGTTTAAGGGTTAGGGGTT
1 GGTTTAAGGGTTAAGGGTT
51683115 TAAAATTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGGTTAAGGGTTGG
Found at i:51683738 original size:40 final size:40
Alignment explanation
Indices: 51683681--51683803 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 40
51683671 TGAAAAAAAG
* * * *
51683681 GCCGCAAAAGGTA-AGCAATAGCGGTGTTTTT-CGCAAAC
1 GCCGCAAAAAGTAGAGCAATAGTGATGTTTTTGCCCAAAC
* *
51683719 GCCGCAAAAAAGTTGAGCAATAGTGACGTTTTTGGCCCAAAC
1 GCCGC-AAAAAGTAGAGCAATAGTGATGTTTTT-GCCCAAAC
* **
51683761 GCCGCTAAAAGTAGAGCAATAGTGATGTTTTTTTCCAAAC
1 GCCGCAAAAAGTAGAGCAATAGTGATGTTTTTGCCCAAAC
51683801 GCC
1 GCC
51683804 ACGAATATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 5 0.07
39 6 0.09
40 24 0.34
41 24 0.34
42 11 0.16
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCGCAAAAAGTAGAGCAATAGTGATGTTTTTGCCCAAAC
Found at i:51683793 original size:42 final size:42
Alignment explanation
Indices: 51683714--51683792 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 42
51683704 GTGTTTTTCG
*
51683714 CAAACGCCGCAAAAAAGTTGAGCAATAGTGACGTTTTTGGCC
1 CAAACGCCGCAAAAAAGTAGAGCAATAGTGACGTTTTTGGCC
* *
51683756 CAAACGCCGC-TAAAAGTAGAGCAATAGTGATGTTTTT
1 CAAACGCCGCAAAAAAGTAGAGCAATAGTGACGTTTTT
51683793 TTCCAAACGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 24 0.71
42 10 0.29
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (42 bp):
CAAACGCCGCAAAAAAGTAGAGCAATAGTGACGTTTTTGGCC
Found at i:51684335 original size:11 final size:11
Alignment explanation
Indices: 51684313--51684359 Score: 76
Period size: 11 Copynumber: 4.2 Consensus size: 11
51684303 AACTAATCCT
51684313 CTCTCAAATTTC
1 CTCTC-AATTTC
51684325 CTCTCAATTTC
1 CTCTCAATTTC
*
51684336 CTCTAAATTTC
1 CTCTCAATTTC
51684347 CTCTCAATTTC
1 CTCTCAATTTC
51684358 CT
1 CT
51684360 TTTAAATTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
11 28 0.85
12 5 0.15
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:51684345 original size:22 final size:23
Alignment explanation
Indices: 51684313--51684388 Score: 88
Period size: 22 Copynumber: 3.4 Consensus size: 23
51684303 AACTAATCCT
51684313 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
51684336 CTCT-AAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
* *
51684358 CTTTTAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
51684380 CTCTCAAAT
1 CTCTCAAAT
51684389 CCATATTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.02
22 33 0.72
23 12 0.26
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:51684358 original size:33 final size:33
Alignment explanation
Indices: 51684312--51684386 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
51684302 AAACTAATCC
* *
51684312 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
* *
51684345 TCCTCTCAATTTCCTTTTAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
51684379 TCTCTCAA
1 TCTCTCAA
51684387 ATCCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:51684387 original size:11 final size:11
Alignment explanation
Indices: 51684312--51684388 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
51684302 AAACTAATCC
51684312 TCTCTCAAATT
1 TCTCTCAAATT
51684323 TCCTCTC-AATT
1 T-CTCTCAAATT
51684334 TC-CTCTAAATT
1 TCTCTC-AAATT
51684345 TCCTCTC-AATT
1 T-CTCTCAAATT
* *
51684356 TCCTTTTAAATT
1 T-CTCTCAAATT
*
51684368 CCT-TCCAAATT
1 TCTCT-CAAATT
51684379 TCTCTCAAAT
1 TCTCTCAAAT
51684389 CCATATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
9 3 0.06
10 2 0.04
11 34 0.64
12 11 0.21
13 3 0.06
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:51684467 original size:10 final size:10
Alignment explanation
Indices: 51684442--51684481 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
51684432 CTTAACTCCC
51684442 TTTTTTAAAT
1 TTTTTTAAAT
**
51684452 AATTTTAAAT
1 TTTTTTAAAT
51684462 TTTTTTAAAAT
1 TTTTTT-AAAT
51684473 TTTTTTAAA
1 TTTTTTAAA
51684482 CCATAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:51685590 original size:7 final size:7
Alignment explanation
Indices: 51685578--51685610 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
51685568 TAATCGATTG
51685578 GTATTTA
1 GTATTTA
51685585 GTATTTA
1 GTATTTA
51685592 GTATTTA
1 GTATTTA
51685599 GTATTTA
1 GTATTTA
51685606 GTATT
1 GTATT
51685611 CTTTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:51686286 original size:18 final size:18
Alignment explanation
Indices: 51686259--51686297 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
51686249 CAGGTGCGTT
*
51686259 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
51686277 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
51686295 TCC
1 TCC
51686298 CTTTCCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:51690175 original size:125 final size:125
Alignment explanation
Indices: 51689949--51690326 Score: 648
Period size: 125 Copynumber: 3.0 Consensus size: 125
51689939 CCCAAATATG
*
51689949 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
*
51690014 TAGAAGTGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
*
51690074 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCACCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
51690139 TAGAAGCGATTTTATACTATTTGCTCAAAAATGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * *
51690199 CTACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
51690264 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCTAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
51690324 CTA
1 CTA
51690327 AAACCCTAGA
Statistics
Matches: 238, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 238 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:51693361 original size:9 final size:9
Alignment explanation
Indices: 51693347--51693404 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
51693337 TTTGGTTAAA
51693347 AATTAACCG
1 AATTAACCG
*
51693356 AATTAACTG
1 AATTAACCG
51693365 AATTAACCG
1 AATTAACCG
*
51693374 AATTACCCG
1 AATTAACCG
*
51693383 AATTACCCG
1 AATTAACCG
51693392 AATTAACCG
1 AATTAACCG
51693401 AATT
1 AATT
51693405 GAATCACTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:51694162 original size:23 final size:23
Alignment explanation
Indices: 51694128--51694194 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
51694118 ACCCATATGA
51694128 CTGCAAATTGAAGCGTTTAAA-TG
1 CTGCAAATTGAAGCG-TTAAAGTG
* *
51694151 CTGTAAATTGAAGTGTTAAAGTG
1 CTGCAAATTGAAGCGTTAAAGTG
*
51694174 CTGCAAATTGAAGTGTTAAAG
1 CTGCAAATTGAAGCGTTAAAG
51694195 GGCAAACATC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 5 0.12
23 35 0.88
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (23 bp):
CTGCAAATTGAAGCGTTAAAGTG
Found at i:51694980 original size:43 final size:42
Alignment explanation
Indices: 51694933--51695045 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
51694923 TTTTCATGAC
* * *
51694933 CTTTAGCAGCGTTTGTGGGAAAAGCGTCGTTAAAGGTCATGTT
1 CTTTAGC-GCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTT
* *
51694976 CTTTAGCGACGTTTGTAGAAAAAGCGCCGCTAAATGTCATGTT
1 CTTTAGCG-CGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTT
* *
51695019 CTTTAGCGGCATTTTTAGGAAAAGCGC
1 CTTTAGC-GCGTTTGTAGGAAAAGCGC
51695046 AACTCAATGA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 58 0.97
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
CTTTAGCGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTT
Found at i:51697215 original size:18 final size:17
Alignment explanation
Indices: 51697182--51697215 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
51697172 ATATTTTCAA
*
51697182 TTTAAATTATAATTATT
1 TTTAAATTAAAATTATT
51697199 TTTAAATTTAAAATTAT
1 TTTAAA-TTAAAATTAT
51697216 CATAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATTAAAATTATT
Found at i:51698018 original size:34 final size:34
Alignment explanation
Indices: 51697975--51698040 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
51697965 ATAAGTAAGA
51697975 AAAAAAAAAAGAGATTAAATCACTATTTGGGGAG
1 AAAAAAAAAAGAGATTAAATCACTATTTGGGGAG
51698009 AAAAAAAAAAGAGATTAAATCACTATTTGGGG
1 AAAAAAAAAAGAGATTAAATCACTATTTGGGG
51698041 CCTAAAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.21
Consensus pattern (34 bp):
AAAAAAAAAAGAGATTAAATCACTATTTGGGGAG
Found at i:51698347 original size:58 final size:59
Alignment explanation
Indices: 51698244--51698385 Score: 200
Period size: 58 Copynumber: 2.4 Consensus size: 59
51698234 TTTTCAAAGA
* *
51698244 CTAACTTGGACAAAAAAAA-TTGCAAGTCCTAATGTGAGAACAATTGTCAAGTTCAGGGC
1 CTAACTTGGACAAAAAAAAGTT-CAAGTCCCAATGTGAGAACAATTGCCAAGTTCAGGGC
* *
51698303 CTAACTTGGA-AAAAAAAAGTT-AAGGTCCCAATTTGGGAACAATTGCCAAGTTCAGGGC
1 CTAACTTGGACAAAAAAAAGTTCAA-GTCCCAATGTGAGAACAATTGCCAAGTTCAGGGC
51698361 CTAACTTGGACAAACAAAAAGTTCA
1 CTAACTTGGACAAA-AAAAAGTTCA
51698386 GGCTCCAACA
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
57 2 0.03
58 48 0.65
59 15 0.20
60 8 0.11
61 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (59 bp):
CTAACTTGGACAAAAAAAAGTTCAAGTCCCAATGTGAGAACAATTGCCAAGTTCAGGGC
Found at i:51698528 original size:23 final size:23
Alignment explanation
Indices: 51698498--51698543 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
51698488 AAGATGACAC
51698498 AGACATATTCATGGGTTAGGCTA
1 AGACATATTCATGGGTTAGGCTA
51698521 AGACATATTCATGGGTTAGGCTA
1 AGACATATTCATGGGTTAGGCTA
51698544 CCTATCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (23 bp):
AGACATATTCATGGGTTAGGCTA
Found at i:51703036 original size:19 final size:17
Alignment explanation
Indices: 51703012--51703055 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
51703002 CAATGCATCA
*
51703012 AATAATTATGCATATTACC
1 AATAATAATGCA-ATT-CC
*
51703031 AATAATAATTCAATTCC
1 AATAATAATGCAATTCC
51703048 AATAATAA
1 AATAATAA
51703056 AACACACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 3 0.13
19 10 0.43
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (17 bp):
AATAATAATGCAATTCC
Found at i:51718091 original size:19 final size:20
Alignment explanation
Indices: 51718050--51718091 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
51718040 TTTAACATTT
**
51718050 ATAATATATTTATAATTGTA
1 ATAATATATTTATAATTAAA
*
51718070 ATAA-ATATTTATTATTAAA
1 ATAATATATTTATAATTAAA
51718089 ATA
1 ATA
51718092 TTAATATTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAATATATTTATAATTAAA
Found at i:51718592 original size:36 final size:35
Alignment explanation
Indices: 51718548--51718673 Score: 96
Period size: 36 Copynumber: 3.5 Consensus size: 35
51718538 GCAGAGAACC
51718548 TCTC-CTATTCATTTTTGTCTTTGCTATGCAAGGGA
1 TCTCACTATTCATTTTTGTCTTTGCTATGC-AGGGA
* * * *
51718583 TCTCACTATTCATTCTTG--GTTGCTTTTGCCAGTGAA
1 TCTCACTATTCATTTTTGTCTTTGC-TATG-CAG-GGA
* * * * *
51718619 TCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAA
1 TCTCAC-TATTCATTTTTGTCTTTGCTATGCAGGG-A
51718656 TCTCACTATTCATTTTTG
1 TCTCACTATTCATTTTTG
51718674 GTTGCATTTG
Statistics
Matches: 67, Mismatches: 16, Indels: 15
0.68 0.16 0.15
Matches are distributed among these distances:
34 4 0.06
35 9 0.13
36 30 0.45
37 17 0.25
38 3 0.04
39 4 0.06
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (35 bp):
TCTCACTATTCATTTTTGTCTTTGCTATGCAGGGA
Found at i:51718640 original size:73 final size:73
Alignment explanation
Indices: 51718549--51718732 Score: 246
Period size: 73 Copynumber: 2.5 Consensus size: 73
51718539 CAGAGAACCT
* *
51718549 CTCCTATTCATTTTTGTCTTTGCTATGCAAGGG-ATCTCACTATTCATTCTTGGTTGC-TTTTGC
1 CTCCTGTTCATTTTTGTCTTTGCTATGC-AGGGAATCTCACTATTCATTCTTGGTTGCATTTGGC
*
51718612 CAGTGAATCA
65 AAG-GAATCA
* * * *
51718622 CTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAATCTCACTATTCATTTTTGGTTGCATTTGGCA
1 CTCCTGTTCATTTTTGTCTTTGCTATGCAGGGAATCTCACTATTCATTCTTGGTTGCATTTGGCA
51718687 AGGAATCA
66 AGGAATCA
* * *
51718695 CTCCTGTTCATTTTTGTCTTTGCTCTGTAGAGAATCTC
1 CTCCTGTTCATTTTTGTCTTTGCTATGCAGGGAATCTC
51718733 CCTTGTTCAT
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
72 4 0.04
73 87 0.89
74 7 0.07
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (73 bp):
CTCCTGTTCATTTTTGTCTTTGCTATGCAGGGAATCTCACTATTCATTCTTGGTTGCATTTGGCA
AGGAATCA
Found at i:51718657 original size:37 final size:36
Alignment explanation
Indices: 51718616--51718742 Score: 96
Period size: 37 Copynumber: 3.5 Consensus size: 36
51718606 TTTTGCCAGT
51718616 GAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGG
1 GAATCACTCTTGTTCATTT-TGTCTTTGCTCTGCAGG
* * * ** * *
51718653 GAATCTCAC-TATTCATTTT-TGGTTGCATTTGGCAAG
1 GAATCACTCTTGTTCATTTTGTCTTTGC-TCT-GCAGG
* * *
51718689 GAATCACTCCTGTTCATTTTTGTCTTTGCTCTGTAGA
1 GAATCACTCTTGTTCA-TTTTGTCTTTGCTCTGCAGG
* *
51718726 GAATCTCCCTTGTTCAT
1 GAATCACTCTTGTTCAT
51718743 CTTTTGTTTT
Statistics
Matches: 66, Mismatches: 19, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
34 5 0.08
35 3 0.05
36 20 0.30
37 27 0.41
38 6 0.09
39 5 0.08
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (36 bp):
GAATCACTCTTGTTCATTTTGTCTTTGCTCTGCAGG
Found at i:51719677 original size:5 final size:6
Alignment explanation
Indices: 51719661--51719685 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
51719651 TTAAATATTT
51719661 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
51719686 TATTAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:51730418 original size:18 final size:18
Alignment explanation
Indices: 51730395--51730430 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51730385 GAGTGTTAAT
*
51730395 TTTTTTTTATTTTCATTA
1 TTTTTTCTATTTTCATTA
*
51730413 TTTTTTCTATTTTTATTA
1 TTTTTTCTATTTTCATTA
51730431 ATTTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTATTTTCATTA
Found at i:51733437 original size:21 final size:24
Alignment explanation
Indices: 51733397--51733439 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
51733387 GAGAGGTCCA
51733397 TTCTACTTAAAGTAGAATATTATT
1 TTCTACTTAAAGTAGAATATTATT
51733421 TTCTA-TTAAA-TA-AATATTA
1 TTCTACTTAAAGTAGAATATTA
51733440 CTTGCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 5 0.26
24 5 0.26
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (24 bp):
TTCTACTTAAAGTAGAATATTATT
Found at i:51740629 original size:28 final size:27
Alignment explanation
Indices: 51740570--51740629 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
51740560 TTAAAAAAAA
51740570 TAAAAAATTGGTTTCACTATTTTCACT
1 TAAAAAATTGGTTTCACTATTTTCACT
* * *
51740597 AAAAAAATTGTTTTTCA-TAATTTTCAGT
1 TAAAAAATTG-GTTTCACT-ATTTTCACT
51740625 TAAAA
1 TAAAA
51740630 TTTTAAAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (27 bp):
TAAAAAATTGGTTTCACTATTTTCACT
Found at i:51741177 original size:23 final size:24
Alignment explanation
Indices: 51741134--51741178 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
51741124 CGTCAAGTTG
* *
51741134 CCGTCGGGCTACTGTTGACCACTA
1 CCGTCGGGCCACTGTTAACCACTA
51741158 CCGTC-GGCCACTGTTAACCAC
1 CCGTCGGGCCACTGTTAACCAC
51741179 CTTTGTTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.18, C:0.38, G:0.22, T:0.22
Consensus pattern (24 bp):
CCGTCGGGCCACTGTTAACCACTA
Found at i:51742736 original size:3 final size:3
Alignment explanation
Indices: 51742708--51742823 Score: 106
Period size: 3 Copynumber: 38.7 Consensus size: 3
51742698 AAATTTGATG
* * * * * *
51742708 TTA TTA TGA TTA TGA TTA TGA TTA TTA TTA TTA TTA TCA TCA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
51742756 GTA TTA TCA TTA GTA TTA TTA TTA TTA TTA TCA TTA GTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
51742804 TCA TTA GTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
51742824 TTAAATTTTA
Statistics
Matches: 89, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:51743425 original size:71 final size:71
Alignment explanation
Indices: 51743309--51743452 Score: 243
Period size: 71 Copynumber: 2.0 Consensus size: 71
51743299 CTTTTCAAAC
* *
51743309 TCAAGTTTTAAACGATCTCGAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCA
1 TCAAGTTTTAAACGATCTCGAGAATTAAGAAAAAATCGTGTCCTAACTTACTGGGCATGATCCCA
51743374 TTTTTT
66 TTTTTT
* **
51743380 TCAAGTTTTAAACGATCTCGGGAATTAAGAAAAAATCGTGTCCTAACTTACTGGGCATGATCCTT
1 TCAAGTTTTAAACGATCTCGAGAATTAAGAAAAAATCGTGTCCTAACTTACTGGGCATGATCCCA
51743445 TTTTTT
66 TTTTTT
51743451 TC
1 TC
51743453 GAGATAGCTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (71 bp):
TCAAGTTTTAAACGATCTCGAGAATTAAGAAAAAATCGTGTCCTAACTTACTGGGCATGATCCCA
TTTTTT
Found at i:51744342 original size:19 final size:18
Alignment explanation
Indices: 51744318--51744356 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
51744308 AGTAAAATTG
51744318 TTATTCCCAGAAAATAAAT
1 TTATT-CCAGAAAATAAAT
*
51744337 TTATTCTAGAAAATAAAT
1 TTATTCCAGAAAATAAAT
51744355 TT
1 TT
51744357 CCACTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (18 bp):
TTATTCCAGAAAATAAAT
Found at i:51746742 original size:25 final size:25
Alignment explanation
Indices: 51746691--51746742 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
51746681 CTTGCATTTC
* *
51746691 TTCTTTCTTTCTTTTCCTTTTTCTT
1 TTCTTTCTTTCCTTTCCTGTTTCTT
51746716 TTCTTTCTTTCCTTT-CTGTTTCGTT
1 TTCTTTCTTTCCTTTCCTGTTTC-TT
51746741 TT
1 TT
51746743 GGCTTGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.73
Consensus pattern (25 bp):
TTCTTTCTTTCCTTTCCTGTTTCTT
Found at i:51750071 original size:61 final size:58
Alignment explanation
Indices: 51750006--51750131 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 58
51749996 TAATATTATT
*
51750006 TTAATATATTTAATATTAAATTAAATTTAATATTTATCTTGTAGATAAATATTC-TATTAAC
1 TTAATATATTTAATATTAAATTAAATCTAATATTTATC-T-T-GATAAATA-TCATATTAAC
* * *
51750067 TTAATCA-CTTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATCATATTAAT
1 TTAAT-ATATTTAATATTAAATTAAATCTAATATTTATCTTGATAAATATCATATTAAC
51750125 TTAATAT
1 TTAATAT
51750132 TAAAGTGATT
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
57 3 0.05
58 19 0.33
59 1 0.02
60 1 0.02
61 33 0.57
62 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.49
Consensus pattern (58 bp):
TTAATATATTTAATATTAAATTAAATCTAATATTTATCTTGATAAATATCATATTAAC
Found at i:51751945 original size:20 final size:20
Alignment explanation
Indices: 51751908--51751950 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
51751898 CCAATGCTGA
*
51751908 TAGCATATCCCTCGAGCTAC
1 TAGCATATCCCTCAAGCTAC
*
51751928 TAGCATATCACC-CAAGCTGC
1 TAGCATATC-CCTCAAGCTAC
51751948 TAG
1 TAG
51751951 TTTTCTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (20 bp):
TAGCATATCCCTCAAGCTAC
Found at i:51754042 original size:13 final size:13
Alignment explanation
Indices: 51754016--51754048 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
51754006 CAAATGTTTC
*
51754016 ATTTA-TTATTTT
1 ATTTATTTATCTT
51754028 ATTTATTTATCTT
1 ATTTATTTATCTT
51754041 ATTTATTT
1 ATTTATTT
51754049 CTTTATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTATTTATCTT
Found at i:51756203 original size:13 final size:13
Alignment explanation
Indices: 51756168--51756192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51756158 ATCATCAAAT
51756168 AAAAAGTGTTCTG
1 AAAAAGTGTTCTG
51756181 AAAAAGTGTTCT
1 AAAAAGTGTTCT
51756193 TGAATAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (13 bp):
AAAAAGTGTTCTG
Found at i:51756871 original size:33 final size:32
Alignment explanation
Indices: 51756816--51756888 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 32
51756806 TATATAGTAA
* * *
51756816 AAAAATTAAAATATTTATTTTAGACATGATA-TT
1 AAAAATTAAAAAAATTAATTTAG--ATGATATTT
51756849 AAAAATTAAAAAAATTAATTTAGATGATATTT
1 AAAAATTAAAAAAATTAATTTAGATGATATTT
51756881 AAATAATT
1 AAA-AATT
51756889 GAATATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 6 0.17
32 5 0.14
33 24 0.69
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.40
Consensus pattern (32 bp):
AAAAATTAAAAAAATTAATTTAGATGATATTT
Found at i:51757236 original size:9 final size:9
Alignment explanation
Indices: 51757224--51757302 Score: 52
Period size: 9 Copynumber: 8.1 Consensus size: 9
51757214 TTAAAAGTTC
51757224 AAAAATTAT
1 AAAAATTAT
51757233 AAAAATTATTTTT
1 AAAAATTA----T
*
51757246 AAAAAATA-
1 AAAAATTAT
*
51757254 AAAAATCATT
1 AAAAATTA-T
*
51757264 AAAAAAGTAT
1 -AAAAATTAT
51757274 AAAAATTAT
1 AAAAATTAT
*
51757283 AAAAATGAT
1 AAAAATTAT
51757292 AAAAATATAT
1 AAAAAT-TAT
51757302 A
1 A
51757303 TTTAAAATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
8 6 0.11
9 30 0.56
10 4 0.07
11 6 0.11
13 8 0.15
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:51757285 original size:19 final size:19
Alignment explanation
Indices: 51757245--51757302 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 19
51757235 AAATTATTTT
*
51757245 TAAAAAA-TA-AAAAATCA
1 TAAAAAAGTATAAAAATTA
51757262 TTAAAAAAGTATAAAAATTA
1 -TAAAAAAGTATAAAAATTA
*
51757282 TAAAAATG-ATAAAAATATA
1 TAAAAAAGTATAAAAAT-TA
51757301 TA
1 TA
51757303 TTTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 15 0.43
19 13 0.37
20 7 0.20
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (19 bp):
TAAAAAAGTATAAAAATTA
Found at i:51758608 original size:3 final size:3
Alignment explanation
Indices: 51758600--51758647 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
51758590 GCATATCCTC
51758600 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
51758648 CCTTTAGAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:51762927 original size:18 final size:18
Alignment explanation
Indices: 51762881--51762928 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
51762871 TCAAACACAC
51762881 CAGTAAACAGTAATCATAA
1 CAGT-AACAGTAATCATAA
* *
51762900 CGGTAGCAGTAA-CATGAA
1 CAGTAACAGTAATCAT-AA
51762918 CAGTAACAGTA
1 CAGTAACAGTA
51762929 TTCAACACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (18 bp):
CAGTAACAGTAATCATAA
Found at i:51762969 original size:45 final size:45
Alignment explanation
Indices: 51762906--51763055 Score: 239
Period size: 45 Copynumber: 3.3 Consensus size: 45
51762896 ATAACGGTAG
* *
51762906 CAGTAACA-TGAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
1 CAGTAACAGT-AACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
51762951 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
*
51762996 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
51763041 CAGTAACAGTAACAG
1 CAGTAACAGTAACAG
51763056 AAGTTGGCAC
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 96 0.99
46 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:51764868 original size:24 final size:23
Alignment explanation
Indices: 51764833--51764892 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 23
51764823 TGTTATGTCT
51764833 TAATTAATTAATTAAT-TAATTTTA
1 TAATTAA-TAATTAATATAA-TTTA
51764857 TAATATAATAATTAATATAATTTA
1 TAAT-TAATAATTAATATAATTTA
51764881 TAATTTAATAAT
1 TAA-TTAATAAT
51764893 AGATAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 26 0.79
25 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATTAATAATTAATATAATTTA
Found at i:51768232 original size:44 final size:46
Alignment explanation
Indices: 51768182--51768271 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
51768172 AACTATTCCC
*
51768182 TTCAACCAAACACAAT-AAT-ACT-ATTACAGTTCTATTCCATTACA
1 TTCAACCAAACA-AATGAATCACTGATTACAATTCTATTCCATTACA
*
51768226 TTCAACCAAACAATTGAATCACTGATTACAATTCTATTCCATTACA
1 TTCAACCAAACAAATGAATCACTGATTACAATTCTATTCCATTACA
51768272 GCCCTATTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 2 0.05
44 15 0.37
45 3 0.07
46 21 0.51
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.32
Consensus pattern (46 bp):
TTCAACCAAACAAATGAATCACTGATTACAATTCTATTCCATTACA
Found at i:51768271 original size:16 final size:16
Alignment explanation
Indices: 51768259--51768300 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
51768249 GATTACAATT
*
51768259 CTATTCCATTACAGCC
1 CTATTCCATTACAACC
*
51768275 CTATTCCATTACAACA
1 CTATTCCATTACAACC
*
51768291 GTATTCCATT
1 CTATTCCATT
51768301 CCAATGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.31, G:0.05, T:0.36
Consensus pattern (16 bp):
CTATTCCATTACAACC
Found at i:51771977 original size:166 final size:166
Alignment explanation
Indices: 51771748--51772076 Score: 541
Period size: 166 Copynumber: 2.0 Consensus size: 166
51771738 TTTTAACCAA
* * * * *
51771748 TTTTATATTTAAAACTAGGTTTCATGCATATTTAAGCATAATCATAAGTTTGTTCAGTTTCAAAC
1 TTTTATATTAAAAACCAGGTTTAATGCATATTTAAGCATAATCATAAATTTGTCCAGTTTCAAAC
51771813 ATTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACCCACGCCACAATCCAAATAAATTA
66 ATTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACCCACGCCACAATCCAAATAAATTA
*
51771878 TTACAATCCCCAAATAAAAATTGATAAATTAAATTT
131 TTACAACCCCCAAATAAAAATTGATAAATTAAATTT
*
51771914 TTTTGTATTAAAAACCAGGTTTAATGCATATTTAAGCATAATCATAAATTTGTCCAGTTTCAAAC
1 TTTTATATTAAAAACCAGGTTTAATGCATATTTAAGCATAATCATAAATTTGTCCAGTTTCAAAC
* * * *
51771979 GTTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACTCATGCCACAATCCAAATAATTTA
66 ATTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACCCACGCCACAATCCAAATAAATTA
* *
51772044 TTACAGCCCCCAAATAGAAATTGATAAATTAAA
131 TTACAACCCCCAAATAAAAATTGATAAATTAAA
51772077 GTAAAAATAC
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
166 150 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (166 bp):
TTTTATATTAAAAACCAGGTTTAATGCATATTTAAGCATAATCATAAATTTGTCCAGTTTCAAAC
ATTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACCCACGCCACAATCCAAATAAATTA
TTACAACCCCCAAATAAAAATTGATAAATTAAATTT
Found at i:51775217 original size:32 final size:32
Alignment explanation
Indices: 51775145--51775224 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 32
51775135 ATATATAGTA
* *
51775145 AAAAATTAAAATATATATTTTAGACGTGATATT
1 AAAAATTAAAATAAATAATTTAGAC-TGATATT
51775178 AAAAATTAAAA-AAATAATTTAGA-TGATATTT
1 AAAAATTAAAATAAATAATTTAGACTGATA-TT
51775209 AAATAATTAAATATAA
1 AAA-AATTAAA-ATAA
51775225 TATAGCAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 5 0.12
31 5 0.12
32 17 0.41
33 12 0.29
34 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (32 bp):
AAAAATTAAAATAAATAATTTAGACTGATATT
Found at i:51775225 original size:30 final size:30
Alignment explanation
Indices: 51775145--51775225 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 30
51775135 ATATATAGTA
51775145 AAAAATTAAAATATATATTTTAGACGTGATATT
1 AAAAATTAAAATATA-A-TTTAGAC-TGATATT
*
51775178 AAAAATTAAAAAAATAATTTAGA-TGATATTT
1 AAAAATT-AAAATATAATTTAGACTGATA-TT
51775209 AAATAATT-AAATATAAT
1 AAA-AATTAAAATATAAT
51775226 ATAGCAAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
30 13 0.30
31 5 0.12
32 10 0.23
33 8 0.19
34 7 0.16
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (30 bp):
AAAAATTAAAATATAATTTAGACTGATATT
Found at i:51775667 original size:21 final size:21
Alignment explanation
Indices: 51775634--51775692 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
51775624 TTAAAAGTTC
*
51775634 AAAAATTATAAAAATTATTTTA
1 AAAAAATATAAAAATTA-TTTA
*
51775656 AAAAAATA-AAAAATCA-TTA
1 AAAAAATATAAAAATTATTTA
*
51775675 AAAAAGTATAAAAATTAT
1 AAAAAATATAAAAATTAT
51775693 AAAAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 10 0.32
20 7 0.23
21 7 0.23
22 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAAATATAAAAATTATTTA
Found at i:51775675 original size:19 final size:19
Alignment explanation
Indices: 51775653--51775702 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
51775643 AAAAATTATT
51775653 TTAAAAAAATAAAAAATCA
1 TTAAAAAAATAAAAAATCA
* *
51775672 TTAAAAAAGTATAAAAATTA
1 TTAAAAAAATA-AAAAATCA
*
51775692 -TAAAAATATAA
1 TTAAAAAAATAA
51775703 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.04
19 18 0.69
20 7 0.27
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
TTAAAAAAATAAAAAATCA
Found at i:51777426 original size:28 final size:27
Alignment explanation
Indices: 51777394--51777451 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
51777384 TATCTATATA
* *
51777394 TTTTTAATAAT-TTTATTTTTATGATACT
1 TTTTTAA-AATATTTATGTATAT-ATACT
*
51777422 TTTTTTAAATATTTATGTATATATACT
1 TTTTTAAAATATTTATGTATATATACT
51777449 TTT
1 TTT
51777452 GTGCTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTTAAAATATTTATGTATATATACT
Found at i:51793532 original size:42 final size:42
Alignment explanation
Indices: 51793470--51793575 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
51793460 CCACCAGTAT
* * *
51793470 TTGCAAATAAACTACTAGAAATATGTGGATAAATCACCAAAA
1 TTGCAAATAAAATACCAGAAATATGTGGATAAACCACCAAAA
* * *
51793512 TTGTAGATAAATTACCAGAAATATGTGGATAAACCACCAAAA
1 TTGCAAATAAAATACCAGAAATATGTGGATAAACCACCAAAA
51793554 TTGCAAATAAAATACCAGAAAT
1 TTGCAAATAAAATACCAGAAAT
51793576 TTTCTCCTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (42 bp):
TTGCAAATAAAATACCAGAAATATGTGGATAAACCACCAAAA
Found at i:51793543 original size:22 final size:22
Alignment explanation
Indices: 51793476--51793544 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
51793466 GTATTTGCAA
* *
51793476 ATAAACTACTAGAAATATGTGG
1 ATAAATTACCAGAAATATGTGG
* *
51793498 ATAAATCACCA-AAAT-TGTAG
1 ATAAATTACCAGAAATATGTGG
51793518 ATAAATTACCAGAAATATGTGG
1 ATAAATTACCAGAAATATGTGG
51793540 ATAAA
1 ATAAA
51793545 CCACCAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 14 0.36
21 8 0.21
22 17 0.44
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.26
Consensus pattern (22 bp):
ATAAATTACCAGAAATATGTGG
Found at i:51793550 original size:22 final size:21
Alignment explanation
Indices: 51793488--51793554 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 21
51793478 AAACTACTAG
*
51793488 AAATATGTGGATAAATCACCA
1 AAATATGTGGATAAACCACCA
* **
51793509 AAAT-TGTAGATAAATTACCA
1 AAATATGTGGATAAACCACCA
51793529 GAAATATGTGGATAAACCACCA
1 -AAATATGTGGATAAACCACCA
51793551 AAAT
1 AAAT
51793555 TGCAAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 14 0.36
21 12 0.31
22 13 0.33
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (21 bp):
AAATATGTGGATAAACCACCA
Found at i:51799355 original size:10 final size:10
Alignment explanation
Indices: 51799338--51799379 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
51799328 AATCAAAATC
51799338 AAAA-GAAAA
1 AAAAGGAAAA
51799347 AAAAGGAAAA
1 AAAAGGAAAA
*
51799357 GAAAGGAAAA
1 AAAAGGAAAA
*
51799367 GAAAAAGAAAA
1 -AAAAGGAAAA
51799378 AA
1 AA
51799380 TATATAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 4 0.14
10 16 0.57
11 8 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAGGAAAA
Found at i:51803403 original size:84 final size:86
Alignment explanation
Indices: 51803275--51803522 Score: 376
Period size: 85 Copynumber: 2.9 Consensus size: 86
51803265 TTTACAAACC
* * * *
51803275 AAAAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTA-CAAAAAAACGCCGCTAAAGAACATG
1 AAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCATG
*
51803339 TTCTTCAGCGGCGCTCAG-AA
66 TTCTTTAGCGGCGCTCAGAAA
* *
51803359 AAAAATGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCTCTAAAGACCATG
1 AAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCATG
*
51803424 TTCTTTAGCGGCGCTTAGAAA
66 TTCTTTAGCGGCGCTCAGAAA
*
51803445 AAAAACGCCT-CTAAAGACCATGTTCATTAGCGGCGCTTAGATAAAAAAACGCCGCTAAAGACCA
1 AAAAACG-CTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AAAAAAACGCCGCTAAAGACCA
51803509 TGTTCTTTAGCGGC
64 TGTTCTTTAGCGGC
51803523 ATTTATTCTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
84 36 0.24
85 38 0.26
86 38 0.26
87 37 0.25
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (86 bp):
AAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGACCATG
TTCTTTAGCGGCGCTCAGAAA
Found at i:51803404 original size:43 final size:43
Alignment explanation
Indices: 51803275--51803522 Score: 383
Period size: 43 Copynumber: 5.8 Consensus size: 43
51803265 TTTACAAACC
* *
51803275 AAAAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTA-CAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
* * *
51803317 AAAAACGCCGCTAAAGAACATGTTCTTCAGCGGCGCTCAG-AA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
* *
51803359 AAAAATGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
*
51803402 AAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
* *
51803445 AAAAACGCCTCTAAAGACCATGTTCATTAGCGGCGCTTAGATAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AA
51803489 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGC
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGC
51803523 ATTTATTCTT
Statistics
Matches: 188, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 72 0.38
43 82 0.44
44 34 0.18
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
Found at i:51803955 original size:21 final size:21
Alignment explanation
Indices: 51803929--51803974 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
51803919 TTTTGGTCTG
51803929 CTCTGCTTCCCTCGCTG-CGGC
1 CTCTGCTTCCCTCGCTGTC-GC
51803950 CTCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
51803971 CTCT
1 CTCT
51803975 ACTTTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.00, C:0.48, G:0.20, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:51809469 original size:9 final size:9
Alignment explanation
Indices: 51809455--51809539 Score: 79
Period size: 9 Copynumber: 9.9 Consensus size: 9
51809445 AAGTTATACA
51809455 TTATGTAAG
1 TTATGTAAG
51809464 TTATGTAAG
1 TTATGTAAG
51809473 TTATGTAAG
1 TTATGTAAG
*
51809482 TTGTGTAAG
1 TTATGTAAG
*
51809491 TTGTGT-A-
1 TTATGTAAG
* *
51809498 TTATGAAAC
1 TTATGTAAG
51809507 TTATGTAAG
1 TTATGTAAG
**
51809516 TTGCGTAAG
1 TTATGTAAG
*
51809525 TTGTGT-A-
1 TTATGTAAG
51809532 TTATGTAA
1 TTATGTAA
51809540 CTTACCCTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
7 9 0.14
8 4 0.06
9 51 0.80
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:51809492 original size:43 final size:43
Alignment explanation
Indices: 51809444--51809531 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
51809434 GATTTAGGAA
* * *
51809444 TAAGTTATACATTATGTAAGTTATGTAAGTTATGTAAGTTGTG
1 TAAGTTATACATTATGAAACTTATGTAAGTTACGTAAGTTGTG
* ** *
51809487 TAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTG
1 TAAGTTATACATTATGAAACTTATGTAAGTTACGTAAGTTGTG
51809530 TA
1 TA
51809532 TTATGTAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.43
Consensus pattern (43 bp):
TAAGTTATACATTATGAAACTTATGTAAGTTACGTAAGTTGTG
Done.