Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 521 of 770
Found at i:161675161 original size:28 final size:27
Alignment explanation
Indices: 161675098--161675167 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
161675088 ATAGTGAGTC
161675098 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
161675125 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
161675153 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
161675168 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:161682149 original size:40 final size:39
Alignment explanation
Indices: 161682105--161682371 Score: 357
Period size: 40 Copynumber: 6.8 Consensus size: 39
161682095 CGATATAGCT
* *
161682105 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTA
* * *
161682145 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTA
*
161682185 ACTCGCACAAATGCCTTCGGGACTT-GCCC-GAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAGTA
*
161682223 ACTCGCACAAATGCCTTC-GGACTTAG-CCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAGTA
*
161682261 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAGTA
*
161682301 ACTCGCACAAATGCCTTC-GGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAGTA
161682340 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
161682372 TATCATCCGA
Statistics
Matches: 210, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
37 8 0.04
38 51 0.24
39 57 0.27
40 94 0.45
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTA
Found at i:161682286 original size:116 final size:119
Alignment explanation
Indices: 161682105--161682370 Score: 418
Period size: 116 Copynumber: 2.3 Consensus size: 119
161682095 CGATATAGCT
* * * *
161682105 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
161682170 AGCCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTT-GCCC-GAATTAGTA
66 AGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGGAATTAGTA
161682223 ACTCGCACAAATGCCTTC-GGACTTAG-CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACT
161682285 TAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGAATTAGTA
65 TAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGAATTAGTA
161682340 ACTCGCACAAATGCCTTCGGGACTT-GCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
161682371 TTATCATCCG
Statistics
Matches: 137, Mismatches: 6, Indels: 10
0.90 0.04 0.07
Matches are distributed among these distances:
115 7 0.05
116 68 0.50
117 35 0.26
118 27 0.20
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (119 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGAATTAGTA
Found at i:161682370 original size:78 final size:78
Alignment explanation
Indices: 161682105--161682370 Score: 421
Period size: 78 Copynumber: 3.4 Consensus size: 78
161682095 CGATATAGCT
* * * *
161682105 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACCAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGAC-TTGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGACT
* *
161682169 TAGCCCGGATTTGGTA
63 TAGCCCGGAATTAGTA
161682185 ACTCGCACAAATGCCTTCGGGACTTGCCC-GAATTAGTAACTCGCACAAATGCCTTCGGACTTAG
1 ACTCGCACAAATGCCTTCGGGACTTGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGACTTAG
161682249 -CCGGAATTAGTA
66 CCCGGAATTAGTA
161682261 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAATTAGTAACTCGCACAAATGCCTTCGGACTTA
161682326 GCCCGGAATTAGTA
65 GCCCGGAATTAGTA
161682340 ACTCGCACAAATGCCTTCGGGACTTGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTGCCCGG
161682371 TTATCATCCG
Statistics
Matches: 176, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
76 35 0.20
77 12 0.07
78 64 0.36
79 43 0.24
80 22 0.12
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (78 bp):
ACTCGCACAAATGCCTTCGGGACTTGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGACTTAG
CCCGGAATTAGTA
Found at i:161691179 original size:40 final size:40
Alignment explanation
Indices: 161691134--161691320 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
161691124 ATAACCACAA
* * *
161691134 GCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
161691174 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
161691214 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
161691254 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
161691294 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
161691321 GTATCATTCA
Statistics
Matches: 136, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 9 0.07
40 125 0.92
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:161691218 original size:80 final size:79
Alignment explanation
Indices: 161691114--161691324 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 79
161691104 TCTTCGGAAT
* * *
161691114 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
161691178 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
161691193 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
161691258 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
161691273 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
161691325 CATTCAATTG
Statistics
Matches: 119, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
79 17 0.14
80 101 0.85
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:161694324 original size:46 final size:46
Alignment explanation
Indices: 161694274--161694449 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
161694264 TATTTGGGCA
161694274 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
161694320 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
161694367 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
161694413 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161694450 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:161694429 original size:93 final size:93
Alignment explanation
Indices: 161694270--161694441 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
161694260 TGGATATTTG
* *
161694270 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
161694335 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
161694363 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
161694428 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
161694442 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:161697419 original size:15 final size:15
Alignment explanation
Indices: 161697399--161697467 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
161697389 GTATCTTGGG
161697399 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
161697414 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
161697429 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
161697444 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
161697459 TTTCTTTAT
1 TTTCTTTAT
161697468 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:161697468 original size:30 final size:30
Alignment explanation
Indices: 161697390--161697477 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
161697380 CATAGTATCG
* * * *
161697390 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
161697420 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
161697450 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
161697478 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:161699902 original size:46 final size:46
Alignment explanation
Indices: 161699849--161700024 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
161699839 TATTTGGGCA
161699849 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
161699895 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
161699942 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
161699988 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161700025 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:161700004 original size:93 final size:93
Alignment explanation
Indices: 161699845--161700016 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
161699835 GGGATATTTG
* *
161699845 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
161699910 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
161699938 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
161700003 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
161700017 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:161701460 original size:29 final size:29
Alignment explanation
Indices: 161701418--161701575 Score: 176
Period size: 29 Copynumber: 5.4 Consensus size: 29
161701408 NNNCGAGATT
161701418 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
161701447 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
*
161701476 GCACTAAGTGTGCATGCTGGAAATATACG
1 GCACTAAGTGTGCATGCTGGAAATATATG
** * ***
161701505 GCACTGGGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGC-ATGCTGGAAATATATG
* ** * *
161701534 GCACTATGTGTGCGGGCT-TAAATCACATG
1 GCACTAAGTGTGCATGCTGGAAAT-ATATG
161701563 GCACTAAGTGTGC
1 GCACTAAGTGTGC
161701576 GAAATCGAGT
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
28 2 0.02
29 106 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:161709600 original size:29 final size:29
Alignment explanation
Indices: 161709567--161709725 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
161709557 GTGACGAGAT
161709567 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
161709596 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
161709625 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
161709654 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* * * *
161709683 TGGCACTATGTGTGC-GGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
161709711 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
161709726 GCAATCGAGT
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
27 2 0.02
28 18 0.16
29 90 0.81
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:161714253 original size:34 final size:34
Alignment explanation
Indices: 161714215--161714283 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
161714205 GGGAGGAAAG
161714215 GCATGTTAAGTCCGCGGTTCATTGGGCCTTATCA
1 GCATGTTAAGTCCGCGGTTCATTGGGCCTTATCA
161714249 GCATGTTAAGTCCGCGGTTCATTGGGCCTTATCA
1 GCATGTTAAGTCCGCGGTTCATTGGGCCTTATCA
161714283 G
1 G
161714284 ATTCTTAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.32
Consensus pattern (34 bp):
GCATGTTAAGTCCGCGGTTCATTGGGCCTTATCA
Found at i:161714292 original size:34 final size:34
Alignment explanation
Indices: 161714215--161714292 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
161714205 GGGAGGAAAG
*
161714215 GCATGTTAAGTCCGCGGTTCATTGGGCCTTATCA
1 GCATCTTAAGTCCGCGGTTCATTGGGCCTTATCA
*
161714249 GCATGTTAAGTCCGCGGTTCATTGGGCCTTATCA
1 GCATCTTAAGTCCGCGGTTCATTGGGCCTTATCA
161714283 G-ATTCTTAAG
1 GCA-TCTTAAG
161714293 CGAGTGGGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
33 1 0.02
34 41 0.98
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (34 bp):
GCATCTTAAGTCCGCGGTTCATTGGGCCTTATCA
Found at i:161715539 original size:27 final size:27
Alignment explanation
Indices: 161715505--161715635 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 27
161715495 TGTAGGGCAG
* *
161715505 AATTACCAAAATACCCTTGATTAGCAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
161715532 AATCACCAAACTACTCCTAG-TTTGTAA
1 AATTACCAAAATAC-CCTTGATTTGTAA
* *
161715559 AATTATCAAAATA-CCTCTGGTTTGTAA
1 AATTACCAAAATACCCT-TGATTTGTAA
* *
161715586 AATTACCAAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
161715613 AATTACCAAAGTACCCCTGATTT
1 AATTACCAAAATACCCTTGATTT
161715636 ACAGAATTAC
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
25 3 0.04
26 1 0.01
27 72 0.87
28 7 0.08
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:161715643 original size:27 final size:27
Alignment explanation
Indices: 161715586--161715684 Score: 82
Period size: 27 Copynumber: 3.6 Consensus size: 27
161715576 TGGTTTGTAA
161715586 AATTACCAAAATA-CCCTCGACTTGTA-A-
1 AATTACC-AAATACCCCTCGA-TT-TACAG
161715613 AATTACCAAAGTACCCCT-GATTTACAG
1 AATTACCAAA-TACCCCTCGATTTACAG
**
161715640 AATTACCATTTTA-CCCTCGATTTACAG
1 AATTACCA-AATACCCCTCGATTTACAG
*
161715667 AATTATCGAAATACCCCT
1 AATTA-CCAAATACCCCT
161715685 ATAGGGTAGG
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
25 2 0.03
26 10 0.17
27 37 0.63
28 10 0.17
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAATACCCCTCGATTTACAG
Found at i:161715644 original size:54 final size:54
Alignment explanation
Indices: 161715505--161715647 Score: 146
Period size: 54 Copynumber: 2.6 Consensus size: 54
161715495 TGTAGGGCAG
* * * *
161715505 AATTACCAAAATACCCTTGA-TTAGCAAAATCACCAAACTACTCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGATTTA-CAAAATTACCAAAATACTCCTAGCTTGTAA
* * * ** *
161715559 AATTATCAAAATACCTCTGGTTTGTAAAATTACCAAAATAC-CCTCGACTTGTAA
1 AATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACTCCTAG-CTTGTAA
* *
161715613 AATTACCAAAGTACCCCTGATTTACAGAATTACCA
1 AATTACCAAAATACCCCTGATTTACAAAATTACCA
161715648 TTTTACCCTC
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
53 4 0.06
54 64 0.91
55 2 0.03
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACTCCTAGCTTGTAA
Found at i:161720894 original size:20 final size:20
Alignment explanation
Indices: 161720869--161720913 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
161720859 AGGAACTAAA
*
161720869 ATGAAAAGTTATAAAATTTG
1 ATGAAAAATTATAAAATTTG
* *
161720889 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTATAAAATTTG
161720909 ATGAA
1 ATGAA
161720914 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:161731584 original size:40 final size:39
Alignment explanation
Indices: 161731511--161731691 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
161731501 CGAATGATGA
*
161731511 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTG-TGAGTTACTAAAT
* *
161731551 CCGGACTAAGATCCGAAGACATTTGTGTGAGTTACT-AAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGTGAGTTACTAAAT
* * *
161731590 CCGGGCTAAGCCCGAAGGTATTGGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGTGAGTTACTAAAT
* * * *
161731629 CTGGGTTAAGTCCCGAAGGCATTTGTGCGACTTACTATAA-
1 CCGGGCTAAGT-CCGAAGGCATTTGTGTGAGTTACTA-AAT
*
161731669 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGT-CCGAAGGCATT
161731692 CGAACGAGTA
Statistics
Matches: 118, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 21 0.18
39 23 0.19
40 65 0.55
41 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGTGAGTTACTAAAT
Found at i:161731645 original size:78 final size:80
Alignment explanation
Indices: 161731510--161731688 Score: 215
Period size: 78 Copynumber: 2.3 Consensus size: 80
161731500 TCGAATGATG
161731510 ACCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGACATTT
1 ACCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGACATTT
* *
161731575 GTGTGAGTTACTA-A
66 GTGCGACTTACTATA
* * * ** *
161731589 TCCGGGCTAAG-CCCGAAGG-TATTGGTG-TGAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCA
1 ACCGGGCTAAGTCCCGAAGGCT-TT-GTGCTAAGTTACTAAATCCGGACTAAGAT-CCGAAGACA
161731650 TTTGTGCGACTTACTATA
63 TTTGTGCGACTTACTATA
*
161731668 ACCGGGCTATGTCCCGAAGGC
1 ACCGGGCTAAGTCCCGAAGGC
161731689 ATTCGAACGA
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
77 2 0.02
78 51 0.61
79 23 0.27
80 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ACCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGACATTT
GTGCGACTTACTATA
Found at i:161733971 original size:21 final size:20
Alignment explanation
Indices: 161733943--161733981 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
161733933 CAAAACTTAT
161733943 GTAACTATCATCAAACATTC
1 GTAACTATCATCAAACATTC
*
161733963 GTAATCTATCATTAAACAT
1 GTAA-CTATCATCAAACAT
161733982 AAAATACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (20 bp):
GTAACTATCATCAAACATTC
Found at i:161735176 original size:36 final size:36
Alignment explanation
Indices: 161735116--161735191 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
161735106 AATATATGTG
* * *
161735116 TGGTCTTGTTATATATATAATATATACATACGTCTA
1 TGGTCCTGATATATATATAATATATACATACCTCTA
* *
161735152 TGGTCCTGATATATATA-ATATATATATATGCCTCTA
1 TGGTCCTGATATATATATA-ATATATACATACCTCTA
161735188 TGGT
1 TGGT
161735192 TCTATTACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (36 bp):
TGGTCCTGATATATATATAATATATACATACCTCTA
Found at i:161735204 original size:36 final size:34
Alignment explanation
Indices: 161735130--161735221 Score: 87
Period size: 36 Copynumber: 2.6 Consensus size: 34
161735120 CTTGTTATAT
* * *
161735130 ATATAATATATACATACGTCTATGGTCCTGATAT
1 ATATAATATATATATACCTCTATGGTCCTGATAC
*
161735164 ATATAATATATATATATGCCTCTATGGTTCT-ATTAC
1 ATATAATATATATATA--CCTCTATGGTCCTGA-TAC
161735200 ATATATACTTATATATATACCT
1 ATATA-A--TATATATATACCT
161735222 TTAGGGATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
34 15 0.31
35 1 0.02
36 18 0.38
37 4 0.08
39 10 0.21
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (34 bp):
ATATAATATATATATACCTCTATGGTCCTGATAC
Found at i:161738806 original size:79 final size:82
Alignment explanation
Indices: 161738666--161738850 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
161738656 TCGAATGATG
* * *
161738666 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
161738730 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
161738746 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
161738808 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
161738826 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
161738851 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:161738858 original size:40 final size:40
Alignment explanation
Indices: 161738667--161738858 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
161738657 CGAATGATGT
* * * * *
161738667 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
161738707 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
161738747 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
161738786 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
161738826 CCGGGCTT-TGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
161738859 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:161750469 original size:28 final size:28
Alignment explanation
Indices: 161750404--161750504 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
161750394 ATAGTGAATC
*
161750404 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
161750433 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
161750461 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
161750491 CGCACACTTAGTGC
1 CGCACACTTAGTGC
161750505 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:161758426 original size:28 final size:28
Alignment explanation
Indices: 161758361--161758461 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
161758351 ATAGTGAATC
*
161758361 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
161758390 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
161758418 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
161758448 CGCACACTTAGTGC
1 CGCACACTTAGTGC
161758462 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:161769688 original size:29 final size:29
Alignment explanation
Indices: 161769646--161769701 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
161769636 CCTAGACTTC
161769646 GTAATGATCATAAAATAATTATTTTAATT
1 GTAATGATCATAAAATAATTATTTTAATT
161769675 GTAATGATCATAAAATAATTATTTTAA
1 GTAATGATCATAAAATAATTATTTTAA
161769702 CATCATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (29 bp):
GTAATGATCATAAAATAATTATTTTAATT
Found at i:161771853 original size:28 final size:27
Alignment explanation
Indices: 161771790--161771859 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
161771780 ATAGTGAGTC
161771790 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
161771817 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
161771845 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
161771860 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:161779088 original size:28 final size:27
Alignment explanation
Indices: 161779025--161779094 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
161779015 ATAGTGAGTC
161779025 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
161779052 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
161779080 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
161779095 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:161784310 original size:46 final size:46
Alignment explanation
Indices: 161784257--161784432 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
161784247 TATTTGGGCA
161784257 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
161784303 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
161784348 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
161784396 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161784433 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:161784412 original size:93 final size:93
Alignment explanation
Indices: 161784253--161784424 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
161784243 GGGATATTTG
* *
161784253 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
161784318 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
161784346 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
161784411 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
161784425 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:161787400 original size:15 final size:15
Alignment explanation
Indices: 161787380--161787448 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
161787370 GTATCTTGGG
161787380 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
161787395 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
161787410 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
161787425 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
161787440 TTTCTTTAT
1 TTTCTTTAT
161787449 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:161787449 original size:30 final size:30
Alignment explanation
Indices: 161787371--161787458 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
161787361 CATAGTATCG
* * * *
161787371 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
161787401 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
161787431 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
161787459 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:161790006 original size:46 final size:46
Alignment explanation
Indices: 161789843--161790015 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
161789833 ATTTGGGCAT
*
161789843 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
161789887 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
161789932 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
161789980 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161790016 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 5 0.05
43 2 0.02
44 28 0.25
45 1 0.01
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:161797668 original size:19 final size:19
Alignment explanation
Indices: 161797646--161797685 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
161797636 AGTAAAAAGT
*
161797646 AAAAGATGAAATGAAAATA
1 AAAAGATGAAATAAAAATA
161797665 AAAAGATGAAATAAAAATA
1 AAAAGATGAAATAAAAATA
161797684 AA
1 AA
161797686 TAACAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (19 bp):
AAAAGATGAAATAAAAATA
Found at i:161798603 original size:16 final size:16
Alignment explanation
Indices: 161798573--161798620 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
161798563 GAAAATTAAT
161798573 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
161798588 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
161798605 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
161798620 A
1 A
161798621 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:161798619 original size:11 final size:11
Alignment explanation
Indices: 161798564--161798634 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
161798554 ATAGCTTAAG
*
161798564 AAAATTAATAT
1 AAAATTAAAAT
161798575 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
161798587 AATAA-T-AATT
1 AA-AATTAAAAT
*
161798597 AAAAAT-AAAT
1 AAAATTAAAAT
161798607 AAAATTAAAAT
1 AAAATTAAAAT
*
161798618 AAACTTAAAAT
1 AAAATTAAAAT
*
161798629 AGAATT
1 AAAATT
161798635 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:161803266 original size:26 final size:26
Alignment explanation
Indices: 161803237--161803287 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
161803227 AAATTAATGC
161803237 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
161803263 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
161803288 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:161804706 original size:27 final size:28
Alignment explanation
Indices: 161804669--161804808 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
161804659 AGCATGGCTG
* *
161804669 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
161804695 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
161804723 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
161804750 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
161804777 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
161804804 CCAGA
1 CCAGA
161804809 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:161806466 original size:26 final size:26
Alignment explanation
Indices: 161806429--161806537 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
161806419 ATGAAATTCC
*
161806429 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
161806455 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
161806481 TATCATGGAACATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACCCAT
*
161806507 TATCATGGAACATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACCCAT
161806533 TATCA
1 TATCA
161806538 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:161808216 original size:26 final size:26
Alignment explanation
Indices: 161808187--161808237 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
161808177 AAATTAATGC
161808187 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
161808213 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
161808238 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:161817254 original size:26 final size:26
Alignment explanation
Indices: 161817225--161817275 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
161817215 AAATTAATGC
161817225 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
161817251 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
161817276 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:161819336 original size:26 final size:26
Alignment explanation
Indices: 161819307--161819357 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
161819297 AAATTAATGC
161819307 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
161819333 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
161819358 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:161821207 original size:40 final size:39
Alignment explanation
Indices: 161821095--161821246 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
161821085 GGATATAGCG
* * * * ***
161821095 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAG-CCGGATATGGGA
* * *
161821135 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTT-AGCCGGATATGGGA
**
161821175 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAG-CCGGATATGGGA
*
161821215 ACTTAGCACAAA-GCCTTCGGGACTTAGCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCGGA
161821247 CATCATTCGA
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
39 9 0.10
40 70 0.77
41 12 0.13
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCGGATATGGGA
Found at i:161824648 original size:26 final size:26
Alignment explanation
Indices: 161824619--161824669 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
161824609 AAATTAATGC
161824619 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
161824645 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
161824670 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:161826522 original size:40 final size:39
Alignment explanation
Indices: 161826410--161826561 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
161826400 GGATATAGCG
* * * * ***
161826410 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAG-CCGGATATGGGA
* * *
161826450 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTT-AGCCGGATATGGGA
**
161826490 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAG-CCGGATATGGGA
*
161826530 ACTTAGCACAAA-GCCTTCGGGACTTAGCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCGGA
161826562 CATCATTCGA
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
39 9 0.10
40 70 0.77
41 12 0.13
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCGGATATGGGA
Found at i:161829962 original size:26 final size:26
Alignment explanation
Indices: 161829933--161829983 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
161829923 AAATTAATGC
161829933 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
161829959 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
161829984 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:161831838 original size:40 final size:39
Alignment explanation
Indices: 161831726--161831877 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
161831716 GGATATAGCG
* * * * ***
161831726 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAG-CCGGATATGGGA
* * *
161831766 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTT-AGCCGGATATGGGA
**
161831806 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAG-CCGGATATGGGA
*
161831846 ACTTAGCACAAA-GCCTTCGGGACTTAGCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCGGA
161831878 CATCATTCGA
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
39 9 0.10
40 70 0.77
41 12 0.13
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCGGATATGGGA
Found at i:161835278 original size:26 final size:26
Alignment explanation
Indices: 161835249--161835299 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
161835239 AAATTAATGC
161835249 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
161835275 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
161835300 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:161845658 original size:40 final size:39
Alignment explanation
Indices: 161845604--161845805 Score: 246
Period size: 40 Copynumber: 5.1 Consensus size: 39
161845594 TGAATGATAC
* * *
161845604 CCGGGCTAAG-CCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
* *
161845643 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTAAAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
161845683 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-TGTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGT-TATAT
* * *
161845722 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* **
161845762 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
161845802 CCGG
1 CCGG
161845806 CTAAATTCCG
Statistics
Matches: 141, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
39 45 0.32
40 94 0.67
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:161845818 original size:79 final size:80
Alignment explanation
Indices: 161845600--161845809 Score: 309
Period size: 79 Copynumber: 2.7 Consensus size: 80
161845590 CAATTGAATG
* * * *
161845600 ATACCCGGGCTAAG-CCCGAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
161845664 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
161845679 AAATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
161845743 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* *
161845758 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAA
161845810 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 89 0.77
80 26 0.23
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:161857112 original size:40 final size:40
Alignment explanation
Indices: 161857038--161857299 Score: 420
Period size: 40 Copynumber: 6.6 Consensus size: 40
161857028 AACCCAAGTA
* *
161857038 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
161857077 CCTTTGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
161857117 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
161857157 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
161857197 CCTTCAGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
161857237 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
161857277 CCTTCGGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
161857300 CATTTGAATA
Statistics
Matches: 206, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 11 0.05
40 192 0.93
41 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:161865097 original size:40 final size:40
Alignment explanation
Indices: 161865035--161865292 Score: 375
Period size: 40 Copynumber: 6.6 Consensus size: 40
161865025 AACCCAAGTA
* * *
161865035 CCTTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
161865074 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* **
161865114 CCTTCGGGATTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
161865154 CCTTCGAGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
161865194 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
161865234 CCTTCGGGACTTAGCCC-GATATAGTCAAT---ACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
161865270 CCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
161865293 CATTCGAATA
Statistics
Matches: 200, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
36 23 0.12
37 5 0.03
39 24 0.12
40 145 0.73
41 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:161867048 original size:48 final size:49
Alignment explanation
Indices: 161866992--161867166 Score: 243
Period size: 48 Copynumber: 3.6 Consensus size: 49
161866982 TAAAGTACCA
* *
161866992 ATGCCATGTCCCTGACATGGTCTTACATGAATC-CACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGTCG
*
161867040 ATGCCATGTCCCAGACATGGTCTAACACTG--GCACACATATCATCG-CGG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGAAGCACACATATCATCGTC-G
* * *
161867088 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGTCG
161867136 ATGCCATGTCCCAGACATGGTCTTACATGAA
1 ATGCCATGTCCCAGACATGGTCTTACATGAA
161867167 ATCTCATTTA
Statistics
Matches: 112, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
47 2 0.02
48 106 0.95
49 4 0.04
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGTCG
Found at i:161872510 original size:25 final size:25
Alignment explanation
Indices: 161872481--161872528 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
161872471 TTATAATATG
* * *
161872481 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
161872506 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
161872529 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:161872597 original size:20 final size:20
Alignment explanation
Indices: 161872572--161872630 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
161872562 TAAATATGGT
161872572 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
161872592 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
161872612 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
161872631 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:161872612 original size:11 final size:11
Alignment explanation
Indices: 161872576--161872630 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
161872566 TATGGTATGT
161872576 ATGATATGCAC
1 ATGATATGCAC
* *
161872587 ATGAAATG--T
1 ATGATATGCAC
161872596 ATGATATGCAC
1 ATGATATGCAC
*
161872607 ATGATATG--T
1 ATGATATGCAC
161872616 ATGATATGCAC
1 ATGATATGCAC
161872627 ATGA
1 ATGA
161872631 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:161872711 original size:23 final size:24
Alignment explanation
Indices: 161872681--161872775 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
161872671 GAGGAAGTGA
161872681 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
161872704 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
161872728 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
161872752 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
161872776 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:161872749 original size:47 final size:49
Alignment explanation
Indices: 161872682--161872775 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
161872672 AGGAAGTGAA
*
161872682 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
161872729 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
161872776 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:161873010 original size:38 final size:38
Alignment explanation
Indices: 161872967--161873129 Score: 223
Period size: 38 Copynumber: 4.4 Consensus size: 38
161872957 CGTTTACAGT
*
161872967 AAAGGCTTCGGCCTAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
161873005 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
161873036 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
161873074 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
161873112 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
161873130 GCATGATTGA
Statistics
Matches: 111, Mismatches: 6, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 67 0.60
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:161873029 original size:31 final size:31
Alignment explanation
Indices: 161872991--161873106 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
161872981 AGTATTATGA
161872991 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
161873022 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
161873058 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
161873091 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
161873107 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:161873043 original size:69 final size:69
Alignment explanation
Indices: 161872967--161873106 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
161872957 CGTTTACAGT
*
161872967 AAAGGCTTCGGCCTAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
161873032 ATGA
66 ATGA
*
161873036 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
161873101 ATGA
66 ATGA
161873105 AA
1 AA
161873107 TACGAAAAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:161880859 original size:25 final size:25
Alignment explanation
Indices: 161880830--161880877 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
161880820 TTATAATATG
* * *
161880830 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
161880855 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
161880878 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:161880946 original size:20 final size:20
Alignment explanation
Indices: 161880921--161880979 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
161880911 TAAATATGGT
161880921 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
161880941 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
161880961 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
161880980 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:161881060 original size:23 final size:24
Alignment explanation
Indices: 161881030--161881124 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
161881020 GAGGAAGTGA
161881030 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
161881053 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
161881077 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
161881101 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
161881125 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:161881098 original size:47 final size:49
Alignment explanation
Indices: 161881031--161881124 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
161881021 AGGAAGTGAA
*
161881031 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
161881078 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
161881125 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:161881367 original size:38 final size:38
Alignment explanation
Indices: 161881316--161881478 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
161881306 CGTTTACAGT
161881316 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
161881354 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
161881385 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
161881423 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
161881461 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
161881479 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:161881378 original size:31 final size:31
Alignment explanation
Indices: 161881340--161881455 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
161881330 AGTATTATGA
161881340 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
161881371 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
161881407 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
161881440 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
161881456 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:161881392 original size:69 final size:69
Alignment explanation
Indices: 161881316--161881455 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
161881306 CGTTTACAGT
161881316 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
161881381 ATGA
66 ATGA
*
161881385 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
161881450 ATGA
66 ATGA
161881454 AA
1 AA
161881456 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:161886463 original size:40 final size:39
Alignment explanation
Indices: 161886318--161886541 Score: 211
Period size: 40 Copynumber: 5.6 Consensus size: 39
161886308 TATTCGGATG
* *
161886318 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
*
161886358 ATATTCGGGCTAAGTCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGC---TAG-TGACT
*
161886400 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
* * * * * *
161886440 ATTTCCGAGCTAAGACTCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTC-CGAAGGCATTTGTGCTAGTGACT
* * *
161886480 ATATCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTG-CG
1 ATATCCGGGCTAAGTCC-GAAGGCATTTGTGCTAG-TGACT
*
161886520 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGT-CCGAAGG
161886542 TACTTGGTTT
Statistics
Matches: 153, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 31 0.20
40 87 0.57
41 1 0.01
42 17 0.11
43 17 0.11
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACT
Found at i:161895593 original size:27 final size:26
Alignment explanation
Indices: 161895549--161895600 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
161895539 CTCATTACAA
*
161895549 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
161895576 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
161895601 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:161895701 original size:27 final size:26
Alignment explanation
Indices: 161895649--161895708 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
161895639 ATATATATAT
*
161895649 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
161895675 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
161895702 ATATCTG
1 ATATCTG
161895709 GCAGTCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:161902110 original size:39 final size:39
Alignment explanation
Indices: 161902029--161902190 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
161902019 TATGGTAACC
* *
161902029 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
161902069 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
161902108 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
161902147 CGCACAATTGCCTTCGGGCTTAGCCC-GATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
161902185 CGCACA
1 CGCACA
161902191 TTCATACACA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 17 0.15
39 79 0.70
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:161908173 original size:40 final size:40
Alignment explanation
Indices: 161908109--161908299 Score: 208
Period size: 39 Copynumber: 4.8 Consensus size: 40
161908099 GCTACTCGTT
* * * ***
161908109 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
161908149 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * * *
161908189 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
161908228 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
161908267 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
161908300 TTCGCACATT
Statistics
Matches: 133, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.66
40 45 0.34
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:161908234 original size:39 final size:39
Alignment explanation
Indices: 161908145--161908307 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
161908135 TATGGTAACC
* *
161908145 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
161908185 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
161908224 CACACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
161908263 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
161908302 CGCACA
1 CGCACA
161908308 TTCATACACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:161910185 original size:14 final size:14
Alignment explanation
Indices: 161910166--161910239 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
161910156 TGACAGCCCG
161910166 ATTTATATGTGTGA
1 ATTTATATGTGTGA
*
161910180 ATTTATATGTGTTTTAA
1 ATTTATATGTG---TGA
* * *
161910197 AATTATTTTTTGTG-
1 ATTTA-TATGTGTGA
161910211 -TTTATTATGTGTGA
1 ATTTA-TATGTGTGA
161910225 ATTTATATGTGTGA
1 ATTTATATGTGTGA
161910239 A
1 A
161910240 ATTTTCGTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
13 10 0.22
14 21 0.46
15 5 0.11
17 6 0.13
18 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (14 bp):
ATTTATATGTGTGA
Found at i:161912286 original size:25 final size:25
Alignment explanation
Indices: 161912258--161912336 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
161912248 CGAATGGCCA
161912258 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* * * *
161912283 ATGTGAT-AAGGCCGAATG-GCCA---
1 ATGTGATGAATG-TGAAAGTG-TATGT
161912305 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
161912330 ATGTGAT
1 ATGTGAT
161912337 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
22 12 0.31
23 4 0.10
24 4 0.10
25 19 0.49
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:161912382 original size:27 final size:27
Alignment explanation
Indices: 161912352--161912434 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
161912342 CGAATGGCCA
161912352 ATGTGATGAATGTGAAGGTGTATGTAT
1 ATGTGATGAATGTGAAGGTGTATGTAT
* *
161912379 ATGTGAT-AAGGCTGAA--TG---GCCA-
1 ATGTGATGAATG-TGAAGGTGTATG-TAT
161912401 ATGTGATGAATGTGAAGGTGTATGTAT
1 ATGTGATGAATGTGAAGGTGTATGTAT
161912428 ATGTGAT
1 ATGTGAT
161912435 AAGGCCGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 12 0.28
23 4 0.09
24 2 0.05
25 2 0.05
26 4 0.09
27 19 0.44
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAGGTGTATGTAT
Found at i:161912401 original size:49 final size:47
Alignment explanation
Indices: 161912226--161912613 Score: 629
Period size: 47 Copynumber: 8.2 Consensus size: 47
161912216 ATTGATGTAG
161912226 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
161912273 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
161912320 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
161912367 AGGTGTATGTATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
161912416 AGGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
161912465 AAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
161912514 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
161912561 AA--GTATATATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGG
1 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGA
161912606 AAGTGTAT
1 AAGTGTAT
161912614 AACTGTGATA
Statistics
Matches: 328, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
45 37 0.11
46 3 0.01
47 146 0.45
49 142 0.43
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:161912416 original size:22 final size:22
Alignment explanation
Indices: 161912343--161912416 Score: 53
Period size: 22 Copynumber: 3.1 Consensus size: 22
161912333 TGATAAGGCC
161912343 GAATGGCCAATGTGATGAATGT
1 GAATGGCCAATGTGATGAATGT
* *
161912365 GAAGGTGTATG-TATATGTGAT-AAGGCT
1 GAA--TG---GCCA-ATGTGATGAATG-T
161912392 GAATGGCCAATGTGATGAATGT
1 GAATGGCCAATGTGATGAATGT
161912414 GAA
1 GAA
161912417 GGTGTATGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 15 0.38
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 12 0.31
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.28
Consensus pattern (22 bp):
GAATGGCCAATGTGATGAATGT
Found at i:161912459 original size:98 final size:96
Alignment explanation
Indices: 161912226--161912613 Score: 646
Period size: 98 Copynumber: 4.1 Consensus size: 96
161912216 ATTGATGTAG
161912226 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG--TATGTGA
1 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGA
161912289 TAAGGCCGAATGGCCAATGTGATGAATGTGA
66 TAAGGCCGAATGGCCAATGTGATGAATGTGA
*
161912320 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGA
1 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGA
*
161912385 TAAGGCTGAATGGCCAATGTGATGAATGTGA
66 TAAGGCCGAATGGCCAATGTGATGAATGTGA
*
161912416 AGGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGT
1 AAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGT
161912481 GATAAGGCCGAATGGCCAATGTGATGAATGTGA
64 GATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
161912514 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTA--TATATATGA
1 AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGA
* *
161912575 TAAGGCCGAATGGTCAATGTGATGGAA-GTGG
66 TAAGGCCGAATGGCCAATGTGAT-GAATGTGA
161912606 AAGTGTAT
1 AAGTGTAT
161912614 AACTGTGATA
Statistics
Matches: 280, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
92 41 0.15
93 3 0.01
94 58 0.21
96 85 0.30
98 93 0.33
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (96 bp):
AAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGA
TAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:161912597 original size:22 final size:22
Alignment explanation
Indices: 161912524--161912597 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
161912514 AAGTGTATGT
*
161912524 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGTCA
* * * *
161912546 ATGTGATGAATG-TGAA-AGTATA
1 ATGTGAT-AAGGCCGAATGGT-CA
*
161912568 TATATGATAAGGCCGAATGGTCA
1 -ATGTGATAAGGCCGAATGGTCA
161912591 ATGTGAT
1 ATGTGAT
161912598 GGAAGTGGAA
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
21 1 0.03
22 20 0.56
23 13 0.36
24 2 0.06
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGTCA
Found at i:161916128 original size:42 final size:42
Alignment explanation
Indices: 161916049--161916128 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
161916039 GCCATGGGCG
* *
161916049 AACCTGCCAAAACAACACTGGCATTCGACATGGCCGTGGGAA
1 AACCTGCCAAAACAACACTGGCATTCGACAAGCCCGTGGGAA
*
161916091 AACCTGCCAAAACAACAC-GGGAGTTCGACAAGCCCGTG
1 AACCTGCCAAAACAACACTGGCA-TTCGACAAGCCCGTG
161916129 CCTCAAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 3 0.09
42 31 0.91
ACGTcount: A:0.34, C:0.30, G:0.24, T:0.12
Consensus pattern (42 bp):
AACCTGCCAAAACAACACTGGCATTCGACAAGCCCGTGGGAA
Found at i:161918259 original size:70 final size:71
Alignment explanation
Indices: 161918108--161918270 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
161918098 GAGATGTATC
161918108 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
161918173 AGGACA
66 AGGACA
161918179 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
161918243 CGGACA
66 AGGACA
161918249 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
161918271 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:161925325 original size:70 final size:71
Alignment explanation
Indices: 161925174--161925336 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
161925164 GAGATGTATC
161925174 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
161925239 AGGACA
66 AGGACA
161925245 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
161925309 CGGACA
66 AGGACA
161925315 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
161925337 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:161930434 original size:40 final size:40
Alignment explanation
Indices: 161930307--161930436 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
161930297 ATGCTGGAAA
* *
161930307 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
161930347 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
161930387 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
161930427 TTATATCCGG
1 TTATATCCGG
161930437 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:161937844 original size:40 final size:40
Alignment explanation
Indices: 161937723--161937845 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 40
161937713 TGAATGATAC
* * * ***
161937723 CCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
* * *
161937762 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
161937802 CCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTTATAT
161937842 CCGG
1 CCGG
161937846 TTGTATTCCG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 13 0.19
40 56 0.81
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
Found at i:161941195 original size:39 final size:40
Alignment explanation
Indices: 161941137--161941419 Score: 294
Period size: 40 Copynumber: 7.1 Consensus size: 40
161941127 ACCCACTTAT
** * *
161941137 CTTCGGGAT-TTAG-CCGGATATAACCACTCTCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTCGCACAAATGC
* * *
161941175 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
161941215 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
161941255 CTTCGGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* *
161941295 CTTCGGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATA-TAGTCACTCGCACAAATGC
*
161941335 CTTCGAGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCG-GGTCTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * *
161941375 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGTCTTAGCCCGGATA-TAGTCACTCGCACAAATGC
161941415 CTTCG
1 CTTCG
161941420 AGACTTAACC
Statistics
Matches: 223, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.00
38 11 0.05
39 18 0.08
40 191 0.86
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:161941227 original size:40 final size:40
Alignment explanation
Indices: 161941173--161941426 Score: 352
Period size: 40 Copynumber: 6.3 Consensus size: 40
161941163 CTCTCACAAG
* * * * *
161941173 GCCTTCGGGTCTTAGTCCGG-ATATGGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAAT
161941213 GCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAAT
*
161941253 GCCTTCGGGGCTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
*
161941293 GCCTTCGGGGCTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
161941333 GCCTTCGAGG-CTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCG-GGACTTAGCCCGGAATTAGTAACTCGCACAAAT
* * *
161941373 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
* *
161941413 GTCTTCGAGACTTA
1 GCCTTCGGGACTTA
161941427 ACCCCGTTAG
Statistics
Matches: 200, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 194 0.97
41 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
Found at i:161948486 original size:28 final size:28
Alignment explanation
Indices: 161948443--161948511 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
161948433 TTTAAAACCC
161948443 TAGGGGT-ATTTCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
* *
161948470 TAGGGGTAATTTTGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
161948498 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
161948512 TGATCTACGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:161950340 original size:19 final size:18
Alignment explanation
Indices: 161950303--161950346 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
161950293 ATACATACAG
161950303 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
161950320 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
161950339 TACTAATT
1 TAATAATT
161950347 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:161952611 original size:40 final size:40
Alignment explanation
Indices: 161952546--161952809 Score: 338
Period size: 40 Copynumber: 6.7 Consensus size: 40
161952536 GGATATAACC
* * * * *
161952546 ACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
161952585 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAA-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
161952624 ACTCGCACAAATGCCTTCGGGGCTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
**
161952664 ACTCATACAAATGCCTTC-GGAGCTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTA
161952704 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
161952744 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
161952784 ACTAGCACAAATGTCTTCGAGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
161952810 ACCCCGTTAG
Statistics
Matches: 199, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 43 0.22
40 152 0.76
41 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:161965907 original size:46 final size:46
Alignment explanation
Indices: 161965852--161966032 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
161965842 TAGGATGGTT
161965852 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
161965898 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
161965944 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
161965991 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161966033 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:161966013 original size:93 final size:93
Alignment explanation
Indices: 161965854--161966024 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
161965844 GGATGGTTGA
* *
161965854 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
161965919 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
161965947 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
161966012 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
161966025 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:161969020 original size:15 final size:15
Alignment explanation
Indices: 161968981--161969059 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
161968971 GTATCTTGGG
*
161968981 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
161968996 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
161969011 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
161969025 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
161969040 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
161969054 TTTCTT
1 TTTCTT
161969060 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:161969044 original size:29 final size:29
Alignment explanation
Indices: 161968972--161969058 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
161968962 CATAGTATCG
* * * *
161968972 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
161969002 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
161969031 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
161969059 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:161971480 original size:46 final size:46
Alignment explanation
Indices: 161971425--161971605 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
161971415 TAGGATGGTT
161971425 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
161971471 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
161971517 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
161971564 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161971606 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:161971586 original size:93 final size:93
Alignment explanation
Indices: 161971427--161971597 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
161971417 GGATGGTTGA
* *
161971427 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
161971492 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
161971520 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
161971585 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
161971598 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:161980671 original size:29 final size:29
Alignment explanation
Indices: 161980639--161980714 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
161980629 CTGGAAATAT
* *
161980639 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
161980668 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
161980697 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
161980715 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:161986621 original size:6 final size:6
Alignment explanation
Indices: 161986610--161986649 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
161986600 TACATTTCTA
* *
161986610 GAAATG GAAATG GAAAT- GAAATG AAAATT GAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
161986650 AATCCATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (6 bp):
GAAATG
Found at i:161994324 original size:2 final size:2
Alignment explanation
Indices: 161994317--161994354 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
161994307 ACCAGAACAG
161994317 AT 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
161994355 GTGTGTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:161995007 original size:26 final size:27
Alignment explanation
Indices: 161994978--161995039 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
161994968 TCACACAAGT
*
161994978 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
161995004 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
*
161995031 TAGTAATTT
1 TAGTCATTT
161995040 TACCCCACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:161995151 original size:56 final size:56
Alignment explanation
Indices: 161995033--161995178 Score: 188
Period size: 56 Copynumber: 2.6 Consensus size: 56
161995023 GGGCAAAATA
* * * * *
161995033 GTAATTTTACCCCACAAGGGTATCTCGGTAATTC--TACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTATACCCTACAAGGGTATTTCG
*
161995087 GTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTATACCCTACAAGGGTATTTCG
* * * *
161995143 GTAATTCTATCCTATAGGGGTATTTCAATAATTCTA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
161995179 GTACTTATCC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 29 0.37
56 50 0.63
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (56 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTATACCCTACAAGGGTATTTCG
Found at i:161995164 original size:27 final size:27
Alignment explanation
Indices: 161995033--161995178 Score: 175
Period size: 27 Copynumber: 5.3 Consensus size: 27
161995023 GGGCAAAATA
* * *
161995033 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
161995060 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
161995087 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
161995114 GTAATTCTATACCCTACAAGGGTATTTCG
1 GTAATTC--TACCCTACAAGGGTATTTCG
* * * *
161995143 GTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
*
161995170 ATAATTCTA
1 GTAATTCTA
161995179 GTACTTATCC
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 77 0.75
29 26 0.25
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:161998343 original size:29 final size:29
Alignment explanation
Indices: 161998310--161998374 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
161998300 GTGACGAGAT
161998310 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
161998339 TGGCACTAAGTGTGCATGCTGGAGATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
161998368 CGGCACT
1 TGGCACT
161998375 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:161998480 original size:2 final size:2
Alignment explanation
Indices: 161998475--161998505 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
161998465 GTGTGTACTC
*
161998475 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
161998506 CTCCGATCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:162005002 original size:27 final size:25
Alignment explanation
Indices: 162004954--162005012 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
162004944 GCGAAGCTGC
*
162004954 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACC-GA-A
* * *
162004981 CAGATATTGTGGCTAGGCCACCGAA
1 CAGATATTGTGACGAAGCCACCGAA
162005006 CAGATAT
1 CAGATAT
162005013 ATATATGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.29
26 2 0.07
27 18 0.64
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (25 bp):
CAGATATTGTGACGAAGCCACCGAA
Found at i:162005729 original size:26 final size:27
Alignment explanation
Indices: 162005700--162005753 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
162005690 TCACACAAGT
*
162005700 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
162005726 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
162005753 T
1 T
162005754 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:162005856 original size:54 final size:54
Alignment explanation
Indices: 162005758--162005871 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
162005748 CAAAATGGTA
*
162005758 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAAT
* * * *
162005811 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAAT
*
162005865 AATTCTA
1 ATTTCTA
162005872 GTCCTTATCC
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
53 4 0.07
54 50 0.93
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAAT
Found at i:162005867 original size:27 final size:27
Alignment explanation
Indices: 162005755--162005871 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
162005745 GGGCAAAATG
* * * * *
162005755 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
162005782 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
162005809 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
162005836 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
162005863 ATAATTCTA
1 GTAATTCTA
162005872 GTCCTTATCC
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:162010258 original size:29 final size:29
Alignment explanation
Indices: 162010225--162010325 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
162010215 GTGACGAGAT
162010225 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
162010254 TGGCACTAAGTGTGC-TGCTGGAAATAT-
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
162010281 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
162010310 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
162010326 AGCTCGGAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 15 0.23
28 22 0.34
29 27 0.42
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:162010301 original size:28 final size:27
Alignment explanation
Indices: 162010223--162010305 Score: 130
Period size: 28 Copynumber: 3.0 Consensus size: 27
162010213 TGGTGACGAG
162010223 ATTGGCACTAAGTGTGCGTGCTGGAAAT
1 ATTGGCACTAAGTGTGC-TGCTGGAAAT
162010251 ATATGGCACTAAGTGTGCTGCTGGAAAT
1 AT-TGGCACTAAGTGTGCTGCTGGAAAT
*
162010279 ATTGGCACTAAGTGTGCAAGCTGGAAA
1 ATTGGCACTAAGTGTGC-TGCTGGAAA
162010306 AATACGGCAC
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
27 15 0.29
28 22 0.42
29 15 0.29
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (27 bp):
ATTGGCACTAAGTGTGCTGCTGGAAAT
Found at i:162018125 original size:28 final size:28
Alignment explanation
Indices: 162018093--162018176 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
162018083 CGGTGACGAG
*
162018093 ATGGCACTAAGTGTGCGTGCTGGAAATA
1 ATGGCACTAAGTGTGCATGCTGGAAATA
162018121 ATGGCACTAAGTGTGCATGCTGGAAATA
1 ATGGCACTAAGTGTGCATGCTGGAAATA
* * *
162018149 TTGGCACTAAGTGTGCAAGCTGAAAATA
1 ATGGCACTAAGTGTGCATGCTGGAAATA
162018177 CGGCACTGGG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCATGCTGGAAATA
Found at i:162020846 original size:80 final size:80
Alignment explanation
Indices: 162020762--162020910 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
162020752 TATGGTAACC
* * * *
162020762 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
162020826 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
162020842 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
162020907 CCGG
66 CCGG
162020911 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:162020852 original size:40 final size:38
Alignment explanation
Indices: 162020803--162020910 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
162020793 ATCACGATTT
*
162020803 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
162020843 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
162020883 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
162020911 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:162028962 original size:80 final size:80
Alignment explanation
Indices: 162028878--162029026 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
162028868 TATGGTAACC
* * * *
162028878 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
162028942 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
162028958 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
162029023 CCGG
66 CCGG
162029027 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:162028968 original size:40 final size:38
Alignment explanation
Indices: 162028919--162029026 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
162028909 ATCACGATTT
*
162028919 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
162028959 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
162028999 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
162029027 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Done.