Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 50 of 214
Found at i:13755161 original size:10 final size:10
Alignment explanation
Indices: 13755146--13755187 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
13755136 ATTTTTTCTT
13755146 TTTCTTTTTA
1 TTTCTTTTTA
13755156 TTTCTTTTTA
1 TTTCTTTTTA
*
13755166 TTTATTATTTA
1 TTTCTT-TTTA
13755177 TATT-TTTTTA
1 T-TTCTTTTTA
13755187 T
1 T
13755188 GCTTTAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 20 0.69
11 7 0.24
12 2 0.07
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTTTA
Found at i:13755161 original size:16 final size:17
Alignment explanation
Indices: 13755135--13755175 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
13755125 CTCCAAATTA
* *
13755135 TATTTTTTCTTTTTCTT
1 TATTATTTCTTTTTATT
13755152 T-TTATTTCTTTTTATT
1 TATTATTTCTTTTTATT
13755168 TATTATTT
1 TATTATTT
13755176 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (17 bp):
TATTATTTCTTTTTATT
Found at i:13755894 original size:16 final size:16
Alignment explanation
Indices: 13755873--13755924 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
13755863 TTTGGTTCAC
13755873 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13755889 TGTATTGAATTAGAGG
1 TGTATTGGATTAGAGG
* *
13755905 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
13755921 TGTA
1 TGTA
13755925 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13756011 original size:39 final size:43
Alignment explanation
Indices: 13755905--13756014 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
13755895 GAATTAGAGG
13755905 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
** * ***
13755950 TGTAATGGAATAGAGGCATAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
13755990 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
13756015 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:13756169 original size:25 final size:25
Alignment explanation
Indices: 13756137--13756191 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
13756127 TAATTTAATC
*
13756137 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
13756161 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
13756186 ATATAT
1 ATATAT
13756192 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:13756424 original size:88 final size:89
Alignment explanation
Indices: 13756332--13756542 Score: 268
Period size: 88 Copynumber: 2.4 Consensus size: 89
13756322 AATTTAAAAT
* * * *
13756332 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
13756397 GTTAAT-A-ATATATAATTTCATAA
65 GTTAATAAGATATATAATTTCATAA
* * *
13756420 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
13756485 TTTAATAATGATATATAATTTCATAA
65 GTTAATAA-GATATATAATTTCATAA
* *
13756511 AATTCTTAATAATAAA--ATGTTATATGAATTTA
1 AATT-ATAATAATAAATTATCTTATATGAATTTA
13756543 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
88 60 0.57
89 17 0.16
91 28 0.27
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (89 bp):
AATTATAATAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAAG
TTAATAAGATATATAATTTCATAA
Found at i:13756505 original size:44 final size:43
Alignment explanation
Indices: 13756366--13756505 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 43
13756356 TATGAATTTG
* * *
13756366 TATAATTTAAAATAATTATTATTACATATAAGTTAATAATATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
* * * * ** *
13756409 TA-ATTTCATAAAATTATTGATAAT-AAT-TTTTCTTATATGAATTTA
1 TATAATT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
13756454 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
13756498 TATAATTT
1 TATAATTT
13756506 CATAAAATTC
Statistics
Matches: 70, Mismatches: 18, Indels: 17
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.06
43 10 0.14
44 38 0.54
45 13 0.19
46 5 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:13760022 original size:17 final size:17
Alignment explanation
Indices: 13760000--13760040 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
13759990 CCAAATAAGT
13760000 AATAAA-TAATAAAATAA
1 AATAAAGTAAT-AAATAA
13760017 AATAAAGTAATAAATAA
1 AATAAAGTAATAAATAA
*
13760034 AGTAAAG
1 AATAAAG
13760041 AAACAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (17 bp):
AATAAAGTAATAAATAA
Found at i:13767494 original size:21 final size:21
Alignment explanation
Indices: 13767468--13767510 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13767458 TGGGTGAATT
13767468 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
13767489 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
13767510 A
1 A
13767511 ACTTTTGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:13771908 original size:21 final size:21
Alignment explanation
Indices: 13771861--13771908 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
13771851 TGGAGACGGT
* *
13771861 GATAAATGTTACGTGTTTATA
1 GATAAATGTTACATGTTTACA
*
13771882 GTTAAATGTTACATGTTTACA
1 GATAAATGTTACATGTTTACA
13771903 GATAAA
1 GATAAA
13771909 AAAAGTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (21 bp):
GATAAATGTTACATGTTTACA
Found at i:13775043 original size:21 final size:21
Alignment explanation
Indices: 13775014--13775057 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13775004 TGGGTGAATT
*
13775014 AGCTTTTACGAGCGTCTATTC
1 AGCTCTTACGAGCGTCTATTC
* *
13775035 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCGTCTATTC
13775056 AG
1 AG
13775058 GTTTTGAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (21 bp):
AGCTCTTACGAGCGTCTATTC
Found at i:13779339 original size:26 final size:26
Alignment explanation
Indices: 13779310--13779370 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
13779300 AATTTAGTTA
*
13779310 GTGGAATGAG-ATGGTGTTATGTATAG
1 GTGGAATG-GTATGGTGCTATGTATAG
*
13779336 GTGG-ATGGTTTTGGTGCTATGTATAG
1 GTGGAATGG-TATGGTGCTATGTATAG
13779362 GTGG-ATGGT
1 GTGGAATGGT
13779371 TTAGTTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 1 0.03
25 4 0.13
26 26 0.84
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.38
Consensus pattern (26 bp):
GTGGAATGGTATGGTGCTATGTATAG
Found at i:13779371 original size:26 final size:26
Alignment explanation
Indices: 13779321--13779372 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
13779311 TGGAATGAGA
*
13779321 TGGTGTTATGTATAGGTGGATGGTTT
1 TGGTGCTATGTATAGGTGGATGGTTT
13779347 TGGTGCTATGTATAGGTGGATGGTTT
1 TGGTGCTATGTATAGGTGGATGGTTT
13779373 AGTTAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.44
Consensus pattern (26 bp):
TGGTGCTATGTATAGGTGGATGGTTT
Found at i:13780272 original size:39 final size:38
Alignment explanation
Indices: 13780228--13780473 Score: 271
Period size: 39 Copynumber: 6.3 Consensus size: 38
13780218 TGGAATACCG
*
13780228 AATATACTGAATTATTGCTCAATTGAGCAAGACTTACTA
1 AATATACTGAATTATTGCTCAATCGAGCAA-ACTTACTA
* * *
13780267 AATATATTGAATTATTGCTCAATCAAGCAAGACTTACTG
1 AATATACTGAATTATTGCTCAATCGAGCAA-ACTTACTA
* * *
13780306 AATATACTGAATTGTTGCTCAATCGAGGAAAACTTACTG
1 AATATACTGAATTATTGCTCAATCGA-GCAAACTTACTA
* *
13780345 AATATAATGAATTGTTGCTCAATCGAGCAAAGCTTACTA
1 AATATACTGAATTATTGCTCAATCGAGCAAA-CTTACTA
* * * **
13780384 AATATACTGCAA-TGTTGCTCAAACAAGCAAACTTACCG
1 AATATACTG-AATTATTGCTCAATCGAGCAAACTTACTA
*
13780422 AATATACTGAA-TACTGCTCAATCGAGCAAAACTTACTGAA
1 AATATACTGAATTATTGCTCAATCGAGC-AAACTTACT--A
13780462 AATATACTGAAT
1 AATATACTGAAT
13780474 ACTATTCCAG
Statistics
Matches: 178, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
37 14 0.08
38 26 0.15
39 122 0.69
40 16 0.09
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (38 bp):
AATATACTGAATTATTGCTCAATCGAGCAAACTTACTA
Found at i:13780466 original size:117 final size:117
Alignment explanation
Indices: 13780227--13780473 Score: 340
Period size: 117 Copynumber: 2.1 Consensus size: 117
13780217 ATGGAATACC
* * *
13780227 GAATATACTGAATTATTGCTCAATTGAGCAAGACTTACTAAATATATTGAATTATTGCTCAATCA
1 GAATATACTGAATTATTGCTCAATCGAGCAAGACTTACTAAATATACTGAATTATTGCTCAAACA
* ** *
13780292 AGCAAGACTTACTGAATATACTGAATTGTTGCTCAATCGAGGAAAACTTACT
66 AGCAAGACTTACCGAATATACTGAATTACTGCTCAATCGAGCAAAACTTACT
* * *
13780344 GAATATAATGAATTGTTGCTCAATCGAGCAA-AGCTTACTAAATATACTGCAA-TGTTGCTCAAA
1 GAATATACTGAATTATTGCTCAATCGAGCAAGA-CTTACTAAATATACTG-AATTATTGCTCAAA
13780407 CAAGCAA-ACTTACCGAATATACTGAA-TACTGCTCAATCGAGCAAAACTTACT
64 CAAGCAAGACTTACCGAATATACTGAATTACTGCTCAATCGAGCAAAACTTACT
13780459 GAAAATATACTGAAT
1 G--AATATACTGAAT
13780474 ACTATTCCAG
Statistics
Matches: 115, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
115 24 0.21
116 19 0.17
117 70 0.61
118 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (117 bp):
GAATATACTGAATTATTGCTCAATCGAGCAAGACTTACTAAATATACTGAATTATTGCTCAAACA
AGCAAGACTTACCGAATATACTGAATTACTGCTCAATCGAGCAAAACTTACT
Found at i:13781541 original size:17 final size:17
Alignment explanation
Indices: 13781500--13781541 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
13781490 GTGTTACTTG
* *
13781500 TAATTATGGAATTTAAT
1 TAATTATTGAATGTAAT
13781517 TAATTATTGAATGTAAT
1 TAATTATTGAATGTAAT
*
13781534 TGATTATT
1 TAATTATT
13781542 AATTGTTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
TAATTATTGAATGTAAT
Found at i:13789328 original size:16 final size:18
Alignment explanation
Indices: 13789297--13789329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13789287 ATGTCCATGA
13789297 ATAATTTATGATATGATT
1 ATAATTTATGATATGATT
13789315 ATAATTT-TGA-ATGAT
1 ATAATTTATGATATGAT
13789330 ACAAGGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (18 bp):
ATAATTTATGATATGATT
Found at i:13791961 original size:24 final size:24
Alignment explanation
Indices: 13791934--13792025 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
13791924 CCGTTATTAT
13791934 CTCTCATGAGCATCCCGATATTGG
1 CTCTCATGAGCATCCCGATATTGG
* *
13791958 CTCTCTTGAGC-TACCCAATATATGG
1 CTCTCATGAGCAT-CCCGATAT-TGG
* * * * *
13791983 CTCTCACGAGCCTCCCGTTAATAG
1 CTCTCATGAGCATCCCGATATTGG
*
13792007 CTCTTATGAGCATCCCGAT
1 CTCTCATGAGCATCCCGAT
13792026 TTCATTGTGA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
23 1 0.02
24 34 0.64
25 17 0.32
26 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (24 bp):
CTCTCATGAGCATCCCGATATTGG
Found at i:13792324 original size:16 final size:16
Alignment explanation
Indices: 13792303--13792339 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
13792293 GTATATACAT
*
13792303 GAAACAATATTAGTTC
1 GAAACAATATCAGTTC
13792319 GAAACAATATCAGTTC
1 GAAACAATATCAGTTC
13792335 GAAAC
1 GAAAC
13792340 GAACTATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (16 bp):
GAAACAATATCAGTTC
Found at i:13801786 original size:50 final size:50
Alignment explanation
Indices: 13801709--13801949 Score: 240
Period size: 50 Copynumber: 4.9 Consensus size: 50
13801699 CATTTGGGTA
* * *
13801709 AAGAGGTCCCATGTAAGACCATTTCTGGGACATGGCGTTGGTACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
13801759 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAG-T
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * * *
13801808 GAGAGGTCCTC-CGTAAGACCATGTTTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * *
13801858 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGAT
** * * *
13801908 AA-ACATCTCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
13801950 TGTTTTTATC
Statistics
Matches: 159, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
49 75 0.47
50 81 0.51
51 2 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:13801885 original size:99 final size:99
Alignment explanation
Indices: 13801721--13801900 Score: 263
Period size: 99 Copynumber: 1.8 Consensus size: 99
13801711 GAGGTCCCAT
* * * ** *
13801721 GTAAGACCATTTCTGGGACATGGCGTTGGTACCGAGATAAGAGGTCCCATGTAAGACCATGTCTG
1 GTAAGACCATTTCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCTG
13801786 GGACATGGCATTGGCATCGAGTGAGAGGTCCTCC
66 GGACATGGCATTGGCATCGAGTGAGAGGTCCTCC
* *
13801820 GTAAGACCATGTT-TGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCT
1 GTAAGACCAT-TTCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCT
*
13801884 GGGATATGGCATTGGCA
65 GGGACATGGCATTGGCA
13801901 GTACAGAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 69 0.97
100 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (99 bp):
GTAAGACCATTTCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCTG
GGACATGGCATTGGCATCGAGTGAGAGGTCCTCC
Found at i:13801923 original size:99 final size:100
Alignment explanation
Indices: 13801718--13801942 Score: 244
Period size: 99 Copynumber: 2.3 Consensus size: 100
13801708 AAAGAGGTCC
* * * ** *
13801718 CATGTAAGACCAT-TTCTGGGACATGGCGTTGGTACCGAGATAAGAGGTCCCATGTAAGACCATG
1 CATGTAAGACCATGTT-TGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATA
* * **
13801782 TCTGGGACATGGCATTGGCATCGAGTGAGAGGTCCT
65 TCTGGGACATGGCATTGGCATCGAGTAAAACATCCT
* * *
13801818 C-CGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATAT
1 CATGTAAGACCATGTTTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATAT
*
13801882 CTGGGATATGGCATTGGCAGTAC-AG-AAAACAT-CT
66 CTGGGACATGGCATTGGCA-T-CGAGTAAAACATCCT
* *
13801916 CATGTAAGACCATGTCTAGGACATGGC
1 CATGTAAGACCATGTTTGGGACATGGC
13801943 TTTGGCATGT
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
98 3 0.03
99 94 0.90
100 6 0.06
101 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (100 bp):
CATGTAAGACCATGTTTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATAT
CTGGGACATGGCATTGGCATCGAGTAAAACATCCT
Found at i:13801942 original size:49 final size:48
Alignment explanation
Indices: 13801768--13801949 Score: 147
Period size: 49 Copynumber: 3.7 Consensus size: 48
13801758 TAAGAGGTCC
* **
13801768 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGTGAGAGGTCCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCAGTAC-A--GAAAACT-CT
* * * * * *
13801818 C-CGTAAGACCATGTTTGGGACATGGCATGGGCACCGATA-TGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA--G-TACAGAAAACTCT
* *
13801867 CATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGAAAACATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCAGTACAGAAAAC-TCT
* *
13801916 CATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
13801950 TGTTTTTATC
Statistics
Matches: 105, Mismatches: 19, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
47 2 0.02
48 6 0.06
49 63 0.60
50 33 0.31
53 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCAGTACAGAAAACTCT
Found at i:13804651 original size:24 final size:23
Alignment explanation
Indices: 13804624--13804732 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 23
13804614 CAGCTCGCAA
* *
13804624 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCATCCCGATATT-GCTCTCAT
* *
13804648 GAGCATCTCGATATTGACTCTCTT
1 GAGCATCCCGATATTG-CTCTCAT
*
13804672 GAGC-TACCCGATATATGGCTCTCAC
1 GAGCAT-CCCGATAT-T-GCTCTCAT
* * *
13804697 GAGCCTCCCGTTAATTGCTCTTAT
1 GAGCATCCCGAT-ATTGCTCTCAT
13804721 GAGCATCCCGAT
1 GAGCATCCCGAT
13804733 TTGGTTGTGA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.03
24 45 0.67
25 16 0.24
26 4 0.06
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.31
Consensus pattern (23 bp):
GAGCATCCCGATATTGCTCTCAT
Found at i:13813768 original size:23 final size:23
Alignment explanation
Indices: 13813724--13813769 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
13813714 CCGAGCTGAT
* *
13813724 AAACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAAAGCTG
13813747 AAACGGTAAGCT-CATACAAGCTG
1 AAACGGTAAGCTCCATA-AAGCTG
13813770 TGGTGAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAAAGCTG
Found at i:13816528 original size:41 final size:41
Alignment explanation
Indices: 13816471--13816550 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
13816461 GAGAATGCTA
*
13816471 CGAACAAAGTAAACTGCAGCAACTATTAACTATTTTTCCTG
1 CGAACAAAGCAAACTGCAGCAACTATTAACTATTTTTCCTG
13816512 CGAACAAAGCAAACTGCAGCAACTATTAACTATTTTTCC
1 CGAACAAAGCAAACTGCAGCAACTATTAACTATTTTTCC
13816551 CTTCTCCGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.28
Consensus pattern (41 bp):
CGAACAAAGCAAACTGCAGCAACTATTAACTATTTTTCCTG
Found at i:13818360 original size:18 final size:18
Alignment explanation
Indices: 13818334--13818370 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13818324 AATCTGATGC
13818334 ATGCCAAAATCAAATTCG
1 ATGCCAAAATCAAATTCG
*
13818352 ATGCTAAAATCAAATTCG
1 ATGCCAAAATCAAATTCG
13818370 A
1 A
13818371 ACAATGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (18 bp):
ATGCCAAAATCAAATTCG
Found at i:13818809 original size:40 final size:40
Alignment explanation
Indices: 13818754--13818959 Score: 187
Period size: 40 Copynumber: 5.3 Consensus size: 40
13818744 AAAATTCTAC
*
13818754 TTTGCGGCGTTTTTCTCCTAGCGCGGCTAATGCTCGACCT
1 TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
* * *
13818794 TTTGCTGCGTTTTTCTTCTAGCGCCGCTAATGCTTGACCT
1 TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
**
13818834 TTTGCGGCAATTTTCTCCTA-----GC---TG-TCGACCT
1 TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
* * * *
13818865 TTTGTGGCATTTTTCTCCTAGCGCCGCTAATGTTTGACCT
1 TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
* * * * * * *
13818905 TTTGTGGCGTATTTCTCATAGACGTCGCTAGTGCTTGATCT
1 TTTGCGGCGTTTTTCTCCTAG-CGCCGCTAATGCTCGACCT
13818946 TTTGCGGCGTTTTT
1 TTTGCGGCGTTTTT
13818960 AAGAAAAACG
Statistics
Matches: 135, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
31 24 0.18
32 2 0.01
35 2 0.01
36 2 0.01
39 2 0.01
40 76 0.56
41 27 0.20
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.41
Consensus pattern (40 bp):
TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
Found at i:13818948 original size:41 final size:40
Alignment explanation
Indices: 13818860--13819019 Score: 113
Period size: 41 Copynumber: 3.9 Consensus size: 40
13818850 CCTAGCTGTC
* * * *
13818860 GACCTTTTGTGGCATTTTTCTCCTAGCGCCGCTAATGTTT
1 GACCTTTTGTGGCGTATTTCTCATAGCGCCGCTAATGCTT
* *
13818900 GACCTTTTGTGGCGTATTTCTCATAGACGTCGCTAGTGCTT
1 GACCTTTTGTGGCGTATTTCTCATAG-CGCCGCTAATGCTT
* * * *** *
13818941 GATCTTTTGCGGCGTTTTTAAGAAAAACGCCGCCGCTAATGCTT
1 GACCTTTTGTGGCGTATTT--CTCATA-G-CGCCGCTAATGCTT
* * * *
13818985 GACTTTTTGCGGCGTTTTTCTCATAAACGCCGCTA
1 GACCTTTTGTGGCGTATTTCTCAT-AGCGCCGCTA
13819020 TTAATTTTCT
Statistics
Matches: 92, Mismatches: 23, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
40 23 0.25
41 35 0.38
42 1 0.01
43 3 0.03
44 30 0.33
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.38
Consensus pattern (40 bp):
GACCTTTTGTGGCGTATTTCTCATAGCGCCGCTAATGCTT
Found at i:13819013 original size:44 final size:44
Alignment explanation
Indices: 13818886--13819017 Score: 128
Period size: 44 Copynumber: 3.1 Consensus size: 44
13818876 TTTCTCCTAG
* * * * *
13818886 CGCCGCTAATGTTTGACCTTTTGTGGCGTATTTCTCAT--A-GA
1 CGCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAACGC
* * *** *
13818927 CGTCGCTAGTGCTTGA-TCTTTTGCGGCGTTTTTAAGAAAAACGC
1 CGCCGCTAATGCTTGACT-TTTTGCGGCGTTTTTCTCATAAACGC
13818971 CGCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAACGC
1 CGCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAACGC
13819015 CGC
1 CGC
13819018 TATTAATTTT
Statistics
Matches: 69, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
41 27 0.39
43 1 0.01
44 40 0.58
45 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (44 bp):
CGCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAACGC
Found at i:13820079 original size:19 final size:19
Alignment explanation
Indices: 13820055--13820092 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13820045 GTGATTTCAA
*
13820055 CTTTTATTTCTCTGTTTCT
1 CTTTTATTTCTCAGTTTCT
*
13820074 CTTTTATTTTTCAGTTTCT
1 CTTTTATTTCTCAGTTTCT
13820093 TTAGTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.18, G:0.05, T:0.68
Consensus pattern (19 bp):
CTTTTATTTCTCAGTTTCT
Found at i:13820875 original size:3 final size:3
Alignment explanation
Indices: 13820867--13820922 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
13820857 TAATGTTACC
* * *
13820867 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT AAT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
13820915 ATC ATT AT
1 ATT ATT AT
13820923 GTTTCCATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:13821445 original size:38 final size:35
Alignment explanation
Indices: 13821370--13821451 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 35
13821360 TTTTATAATT
* *
13821370 TTTATCTATATTCCTTTTTTATGTTCATTTATGTA
1 TTTATTTATATTCCATTTTTATGTTCATTTATGTA
* *
13821405 TTTATTTATATGTCCATTTTTATGCTTTAGTTTATTTA
1 TTTATTTATAT-TCCATTTTTATG-TTCA-TTTATGTA
13821443 TTTATTTAT
1 TTTATTTAT
13821452 TTGCTATGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 10 0.25
36 11 0.28
37 3 0.08
38 16 0.40
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (35 bp):
TTTATTTATATTCCATTTTTATGTTCATTTATGTA
Found at i:13821533 original size:21 final size:18
Alignment explanation
Indices: 13821500--13821539 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
13821490 CGTTTTTTGT
13821500 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
13821519 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
13821539 T
1 T
13821540 GCATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:13821774 original size:109 final size:109
Alignment explanation
Indices: 13821574--13822109 Score: 831
Period size: 109 Copynumber: 4.9 Consensus size: 109
13821564 AAGAAATTTT
* * * * * *
13821574 TTCT-AAATGAGGCAATATTTAGCATTTGGAAATTCGAGGAAACGTGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
13821638 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
*
13821682 TTCCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* *
13821747 CGATTTTCCTCGTTCAACCAAATAGCTAAATATCTTTCTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
13821791 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
13821856 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
* * *
13821900 TTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCTAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
13821965 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
* * * * *
13822009 TTTTAAAACAAGACAATGTTTTGTGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
13822074 CGATTTTTCTCGTTTAACCAAATTGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
13822110 CTTGAATTTT
Statistics
Matches: 399, Mismatches: 28, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
108 3 0.01
109 396 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
Found at i:13824800 original size:25 final size:27
Alignment explanation
Indices: 13824748--13824796 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
13824738 ATAAAATACA
*
13824748 TCTTTGCATTCCTTTTTGAGCTAATAT
1 TCTTTGCATTCCTTTTTGAGATAATAT
13824775 TCTTT-CATT-CTTTTTGA-ATAAT
1 TCTTTGCATTCCTTTTTGAGATAAT
13824797 TATTTCAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGATAATAT
Found at i:13825452 original size:29 final size:30
Alignment explanation
Indices: 13825416--13825471 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
13825406 AAGGGAAGAA
* *
13825416 AAAGAAAAATC-AAAGTCAAAATGAAAATG
1 AAAGAAAAATCAAAAATCAAAATAAAAATG
13825445 AAA-AAAAATCAAAAATCAAAATAAAAA
1 AAAGAAAAATCAAAAATCAAAATAAAAA
13825472 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.12
Consensus pattern (30 bp):
AAAGAAAAATCAAAAATCAAAATAAAAATG
Found at i:13825472 original size:21 final size:21
Alignment explanation
Indices: 13825444--13825502 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
13825434 AAATGAAAAT
13825444 GAAAAAAAATCAAAAATCAAA
1 GAAAAAAAATCAAAAATCAAA
13825465 -ATAAAAAAAT-AAAAA--AAA
1 GA-AAAAAAATCAAAAATCAAA
13825483 GAAGAAAAAATC-AAAATCAA
1 GAA-AAAAAATCAAAAATCAA
13825503 GATCAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
18 4 0.12
19 12 0.38
20 6 0.19
21 10 0.31
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (21 bp):
GAAAAAAAATCAAAAATCAAA
Found at i:13825478 original size:29 final size:28
Alignment explanation
Indices: 13825414--13825482 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
13825404 AAAAGGGAAG
* *
13825414 AAAAAGAAAAATCAAAGTCAAAATGAAA
1 AAAAAAAAAAATCAAAATCAAAATGAAA
** *
13825442 ATGAAAAAAAATCAAAAATCAAAATAAAA
1 AAAAAAAAAAATC-AAAATCAAAATGAAA
13825471 AAATAAAAAAAA
1 AAA-AAAAAAAA
13825483 GAAGAAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
28 10 0.31
29 14 0.44
30 8 0.25
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.12
Consensus pattern (28 bp):
AAAAAAAAAAATCAAAATCAAAATGAAA
Found at i:13825510 original size:20 final size:20
Alignment explanation
Indices: 13825446--13825510 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
13825436 ATGAAAATGA
*
13825446 AAAAAAATCAAAAATCAAAAT
1 AAAAAAATC-AAAATCAAGAT
**
13825467 AAAAAAAT-AAAAAAAAGA-
1 AAAAAAATCAAAATCAAGAT
13825485 AGAAAAAATCAAAATCAAGAT
1 A-AAAAAATCAAAATCAAGAT
13825506 CAAAA
1 -AAAA
13825511 TAAAAATGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.03
19 14 0.40
20 8 0.23
21 11 0.31
22 1 0.03
ACGTcount: A:0.77, C:0.08, G:0.05, T:0.11
Consensus pattern (20 bp):
AAAAAAATCAAAATCAAGAT
Found at i:13827863 original size:50 final size:50
Alignment explanation
Indices: 13827784--13828071 Score: 238
Period size: 50 Copynumber: 5.8 Consensus size: 50
13827774 GGCGGTGCAG
* *
13827784 TAAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGTGGT
1 TAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGTAGT
* * * ** * * * *
13827834 TAAAAAGATTAAAGCTACATCAGCAAATCTTACCTCTCAGGCAGTGTAGT
1 TAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGTAGT
** * * *
13827884 GGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACATTGCAGT
1 TAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGTAGT
* * * ** * **** *
13827934 TAAAAAGATTAAAGCTACAGCAGTGAATCTTATCTCTCAGGTGGTGCAGT
1 TAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGTAGT
* *
13827984 AAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTC-CTTGACATTG-CGAT
1 TAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTC-TGACATTGTAG-T
** * * *
13828034 TAAAAAGATTAAAGTTACAACAGCGAATCTTACCTCTC
1 TAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTC
13828072 AAGCGGTGCA
Statistics
Matches: 178, Mismatches: 57, Indels: 5
0.74 0.24 0.02
Matches are distributed among these distances:
49 2 0.01
50 175 0.98
51 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (50 bp):
TAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGTAGT
Found at i:13827963 original size:100 final size:100
Alignment explanation
Indices: 13827763--13828164 Score: 468
Period size: 100 Copynumber: 4.0 Consensus size: 100
13827753 AAAACAAAGC
* * * * *
13827763 CTTACTTCCCAGGCGGTGCAGT-AAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACA
1 CTTACCTCTCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA
** *
13827827 TTGTGGTTAAAAAGATTAAAGCTACATCAGCAAAT
66 TTGCAGTTAAAAAGATTAAAGCTACATCAGCGAAT
* * * **
13827862 CTTACCTCTCAGGCAGTGTAGTGGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACA
1 CTTACCTCTCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA
* *
13827927 TTGCAGTTAAAAAGATTAAAGCTACAGCAGTGAAT
66 TTGCAGTTAAAAAGATTAAAGCTACATCAGCGAAT
* * ** *
13827962 CTTATCTCTCAGGTGGTGCAGTAAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCTTGACA
1 CTTACCTCTCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA
* *
13828027 TTGC-GATTAAAAAGATTAAAGTTACAACAGCGAAT
66 TTGCAG-TTAAAAAGATTAAAGCTACATCAGCGAAT
* * * * * *
13828062 CTTACCTCTCAAGCGGTGCAGTGGAACAGATTAAAACCATATCGGTGAATCTTGCTTCCCCT-AC
1 CTTACCTCTCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTGAC
* * * * *
13828126 ATTACAGTTAAAAGGATTAAAGCTATATCGGTGAAT
65 ATTGCAGTTAAAAAGATTAAAGCTACATCAGCGAAT
13828162 CTT
1 CTT
13828165 GATTAAAGCT
Statistics
Matches: 257, Mismatches: 42, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
99 19 0.07
100 234 0.91
101 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (100 bp):
CTTACCTCTCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA
TTGCAGTTAAAAAGATTAAAGCTACATCAGCGAAT
Found at i:13828136 original size:200 final size:199
Alignment explanation
Indices: 13827772--13828164 Score: 547
Period size: 200 Copynumber: 2.0 Consensus size: 199
13827762 CCTTACTTCC
* * *
13827772 CAGGCGGTGCAGTAAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGTGGTTAA
1 CAGGCGGTGCAGTAAAAAGATTAAAGCCACAACGGTGAATCTTGCTCCTCTGACATTGCGATTAA
* * * * *
13827837 AAAGATTAAAGCTACATCAGCAAATCTTACCTCTCAGGCAGTGTAGTGGAATAGATTAAAGCCAC
66 AAAGATTAAAGCTACAACAGCAAATCTTACCTCTCAAGCAGTGCAGTGGAACAGATTAAAACCAC
** *
13827902 AACGGTGAATCTTGCCTCTTTGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGTGAATCTTAT
131 AACGGTGAATCTTGCCTCCCTGACATTACAGTTAAAAAGATTAAAGCTACAGCAGTGAATCTTAT
13827967 CTCT
196 CTCT
*
13827971 CAGGTGGTGCAGTAAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCT-TGACATTGCGATT
1 CAGGCGGTGCAGT-AAAAAGATTAAAGCCACAACGGTGAATCTTG-CTCCTCTGACATTGCGATT
* * *
13828035 AAAAAGATTAAAGTTACAACAGCGAATCTTACCTCTCAAGCGGTGCAGTGGAACAGATTAAAACC
64 AAAAAGATTAAAGCTACAACAGCAAATCTTACCTCTCAAGCAGTGCAGTGGAACAGATTAAAACC
* * * * * * *
13828100 ATATCGGTGAATCTTGCTTCCCCT-ACATTACAGTTAAAAGGATTAAAGCTATATCGGTGAATCT
129 ACAACGGTGAATCTTGCCT-CCCTGACATTACAGTTAAAAAGATTAAAGCTACAGCAGTGAATCT
13828164 T
193 T
13828165 GATTAAAGCT
Statistics
Matches: 169, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
199 12 0.07
200 151 0.89
201 6 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (199 bp):
CAGGCGGTGCAGTAAAAAGATTAAAGCCACAACGGTGAATCTTGCTCCTCTGACATTGCGATTAA
AAAGATTAAAGCTACAACAGCAAATCTTACCTCTCAAGCAGTGCAGTGGAACAGATTAAAACCAC
AACGGTGAATCTTGCCTCCCTGACATTACAGTTAAAAAGATTAAAGCTACAGCAGTGAATCTTAT
CTCT
Found at i:13828186 original size:25 final size:25
Alignment explanation
Indices: 13828140--13828189 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13828130 CAGTTAAAAG
* * * *
13828140 GATTAAAGCTATATCGGTGAATCTT
1 GATTAAAGCTACAACAGCGAATCTT
13828165 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCTACAACAGCGAATCTT
13828190 ACTCCTCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (25 bp):
GATTAAAGCTACAACAGCGAATCTT
Found at i:13828262 original size:125 final size:125
Alignment explanation
Indices: 13828040--13828273 Score: 362
Period size: 125 Copynumber: 1.9 Consensus size: 125
13828030 CGATTAAAAA
* * *
13828040 GATTAAAGTTACAACAGCGAATCTTACCTCTCAAGCGGTGCAGTGGAACAGATTAAAACCATATC
1 GATTAAAGCTACAACAGCGAATCTTACCTCTCAAGCGATGCAGTGGAACAGATTAAAACCAAATC
* *
13828105 GGTGAATCTTGCTTCCCCTACATTACAGTTAAAAGGATTAAAGCTATATCGGTGAATCTT
66 GGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTATATCGGTGAATCTT
*
13828165 GATTAAAGCTACAACAGCGAATCTTA-CTCCTCAAGCGATGCAGTGGAACAGATTAAAGCCAAAT
1 GATTAAAGCTACAACAGCGAATCTTACCT-CTCAAGCGATGCAGTGGAACAGATTAAAACCAAAT
* * * *
13828229 TGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGC
65 CGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGC
13828274 CACAATGGCG
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
124 2 0.02
125 96 0.98
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (125 bp):
GATTAAAGCTACAACAGCGAATCTTACCTCTCAAGCGATGCAGTGGAACAGATTAAAACCAAATC
GGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTATATCGGTGAATCTT
Found at i:13828439 original size:44 final size:43
Alignment explanation
Indices: 13828310--13829297 Score: 362
Period size: 44 Copynumber: 22.9 Consensus size: 43
13828300 AGTTTCAAGT
* * ** *
13828310 TACAAATCCTATCTCCCTGATA-TTACAGTGGAGTGGATCGAAG
1 TACAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAG
* * *
13828353 AACCAAAGTCTTATC-CCCTTGAAGATGCAGTGG-GACAAATTGAAGG
1 TA-CAAA-TCTTATCTCCC-TGAAGTTGCAGTGGAG-CAGATTGAA-G
* *
13828399 TACAAATCTTATCTCCCTGATGTTACAGTGGAGCAGATTGAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * * *
13828442 CAGATAATCCTATTTCCCTGAAGTTACAGAGGAGCGGATTGAAG
1 TACA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * ** *
13828486 TAGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-TCACA-
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
** * *
13828529 T-CAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTG-AG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * *
13828570 TAATCAAGTCTTAACCCCCTGAAGTTACAGTGCG-GCAGATCGAAG
1 T-A-CAAATCTTATCTCCCTGAAGTTGCAGTG-GAGCAGATTGAAG
* * *
13828615 ATGACAAATCTTATCTCCCTGAGGTTGCAGAGGAGCAAATTGAAG
1 -T-ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * *
13828660 -CCGATAATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
1 TAC-A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
* * * * * * *
13828705 CACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-T-CAC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* *
13828746 TAC-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAG
* * * * * *
13828788 -AAATCAATCTTATCTCTCTAAAGTTGCAGTGGAGCGGATTAAAAC
1 TACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
* * * * * *
13828833 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG-GTCACA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
* * ***
13828875 T-CCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * *
13828917 -AAATCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAAC
1 TACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
* * * * *
13828962 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
* * * * *
13829004 T-CCAGTCTTATCTCCCTGAAGTTGCAATGAAGCAGA-CGAAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAG
* * * * * * *
13829046 -AAATCAATCCTATCTCTCTGAAGTTGCAGAGGAGCGGATTAAAAC
1 TACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
** * * * * *
13829091 CCCAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCACA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
* * * **
13829133 T-CCAGTCTTATCTCCCTGAAGTTACAGTGGAGCA-AACGAAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAG
* * * * * * * *
13829175 -AAATCAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAAC
1 TACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
* * * * * * *
13829220 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * ** *
13829262 TTC-AGTCTTATCTCCCAAAATTTGCAGTGGAGCAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
13829298 CGAAAAAAAT
Statistics
Matches: 692, Mismatches: 194, Indels: 120
0.69 0.19 0.12
Matches are distributed among these distances:
40 30 0.04
41 144 0.21
42 10 0.01
43 16 0.02
44 403 0.58
45 77 0.11
46 12 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
Found at i:13828931 original size:85 final size:84
Alignment explanation
Indices: 13828491--13829248 Score: 305
Period size: 85 Copynumber: 8.8 Consensus size: 84
13828481 TGAAGTAGTA
* * * *
13828491 AATCTTATCTCTCTGAAGTTGCAGTAGAG-TGGATCACAT-CAGGTCTTATCTCCCTGAAGTTGT
1 AATCCTATCTCTCTGAAGTTGCAGTAGAGCAGGATCAAATCCA-GTCTTATCTCCCTGAAGTTGC
* **
13828554 AGTGGAGCAGACTGAGTAATC
65 AGTGGAGCAGAC-AAAAAATC
* * * * * * * * *
13828575 AAGTCTTAACCCCCTGAAGTTACAGT-GCGGCA-GATCGAAGATGACAAATCTTATCTCCCTGAG
1 AA-TCCTATCTCTCTGAAGTTGCAGTAG-AGCAGGATC-AA-AT--CCAGTCTTATCTCCCTGAA
* * * ***
13828638 GTTGCAGAGGAGCAAATTGAAGCCGAT-
60 GTTGCAGTGGAGCAGA--CAA-AAAATC
* * * * * *
13828665 AATCATATCTCCCTGAAGTTGCAGTGGAGC-GGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCTCTGAAGTTGCAGTAGAGCAGGA-TCAAATC-CAG-TCTTATCTCCCTGAAGTT
* * **
13828729 ACAGTAGAGCAGATC--ACTA-C
63 GCAGTGGAGCAGA-CAAAAAATC
* * * * ** * * *
13828749 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAAT-CAATCTTATCTCTCTAAAGTT
1 AATCCTATCTCTCTGAAGTTGCAGTAGAGCAG--G-ATCAAATCCAGTCTTATCTCCCTGAAGTT
* * *
13828813 GCAGTGGAGCGGATTAAAACCA-C
63 GCAGTGGAGCAGA-CAAAA-AATC
* *
13828836 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG-TCACATCCAGTCTTATCTCCCTGAAGTTGC
1 A-ATCCTATCTCTCTGAAGTTGCAGTAGAGCAGGATCAAATCCAGTCTTATCTCCCTGAAGTTGC
13828900 AGTGGAGCAGACAAAAGAAATC
65 AGTGGAGCAGAC-AAA-AAATC
* * * * * *
13828922 AATCCTATCTCCCTGAAGTTGTAGTGGAGC-GGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCTCTGAAGTTGCAGTAGAGCAGGA-TCAAATC-CAG-TCTTATCTCCCTGAAGTT
* *
13828986 GCAGTAGAGCAGATC---ACATCC
63 GCAGTGGAGCAGA-CAAAAAAT-C
* * * * ** * * *
13829007 AGTCTTATCTCCCTGAAGTTGCAAT-GAAGCAGACGAAAGAAAT-CAATCCTATCTCTCTGAAGT
1 AATCCTATCTCTCTGAAGTTGCAGTAG-AGCAG--G-ATCAAATCCAGTCTTATCTCCCTGAAGT
* * * ***
13829070 TGCAGAGGAGCGGATTAAAACCCC
62 TGCAGTGGAGCAGA-CAAAAAATC
* * * *
13829094 AGATCTTATCTCTCTAAAGTTGCAGTAGAGCA-GATCACATCCAGTCTTATCTCCCTGAAGTTAC
1 A-ATCCTATCTCTCTGAAGTTGCAGTAGAGCAGGATCAAATCCAGTCTTATCTCCCTGAAGTTGC
*
13829158 AGTGGAGCAAACGAAAGAAATC
65 AGTGGAGCAGAC-AAA-AAATC
* * * * * *
13829180 AATCCTATCTCTCTAAAGTTACAGTGGAGC-GGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCTCTGAAGTTGCAGTAGAGCAGGA-TCAAATC-CAG-TCTTATCTCCCTGAAGTT
13829244 GCAGT
63 GCAGT
13829249 AGAGTAGATC
Statistics
Matches: 510, Mismatches: 112, Indels: 100
0.71 0.16 0.14
Matches are distributed among these distances:
84 74 0.15
85 198 0.39
86 21 0.04
87 19 0.04
88 135 0.26
89 55 0.11
90 6 0.01
91 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (84 bp):
AATCCTATCTCTCTGAAGTTGCAGTAGAGCAGGATCAAATCCAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACAAAAAATC
Found at i:13829391 original size:129 final size:129
Alignment explanation
Indices: 13828665--13829375 Score: 1093
Period size: 129 Copynumber: 5.5 Consensus size: 129
13828655 TGAAGCCGAT
* * *
13828665 AATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
1 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
*
13828730 CAGTAGAGCAGATCAC-TACAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* *
13828793 AATCTTATCTCTCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
13828858 CAGTAGAGCAGGTCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* *
13828922 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
13828987 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAATGAAGCAGACGAAAGAAATC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* * *
13829051 AATCCTATCTCTCTGAAGTTGCAGAGGAGCGGATTAAAACCCCAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
13829116 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACGAAAGAAATC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* *
13829180 AATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * * ** * * *
13829245 CAGTAGAGTAGATCGCATTCAGTCTTATCTCCCAAAATTTGCAGTGGAGCAGACGAAAAAAATT
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* ** ** * *
13829309 AATCCTATCT-TCCTGAAGTTGCAGTGAAGCGGATTAAAATGATGGATCTTATCTATCTGGAGTT
1 AATCCTATCTCT-CTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
13829373 GCA
65 GCA
13829376 ATATAGCATA
Statistics
Matches: 533, Mismatches: 48, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
128 77 0.14
129 456 0.86
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (129 bp):
AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
Found at i:13830348 original size:19 final size:19
Alignment explanation
Indices: 13830324--13830361 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13830314 GTGATTTCAA
*
13830324 CTTTTATTTCTCTGTTTCT
1 CTTTTATTTCTCAGTTTCT
*
13830343 CTTTTATTTTTCAGTTTCT
1 CTTTTATTTCTCAGTTTCT
13830362 TTAGTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.18, G:0.05, T:0.68
Consensus pattern (19 bp):
CTTTTATTTCTCAGTTTCT
Found at i:13831104 original size:3 final size:3
Alignment explanation
Indices: 13831096--13831172 Score: 118
Period size: 3 Copynumber: 25.7 Consensus size: 3
13831086 AAATGTTACC
*
13831096 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
13831144 ATT AAT ATT AAT ATT ATT ATT ATC ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13831173 GTTTCCATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13831786 original size:21 final size:18
Alignment explanation
Indices: 13831753--13831792 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
13831743 CGTTTTTTGT
13831753 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
13831772 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
13831792 T
1 T
13831793 GCATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:13832032 original size:115 final size:109
Alignment explanation
Indices: 13831831--13832150 Score: 489
Period size: 115 Copynumber: 2.9 Consensus size: 109
13831821 AATTTTTTCT
* * * * * *
13831831 AAATGAGGCAATATTTAGCATTTGGAAATTCGAGGAAACGTGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
13831896 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
13831940 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCATGCCCTAAGGTGCTGGGTG
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-AAA-A----CATGCCCTAAGGTGCTGGGTG
13832005 TCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
60 TCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
*
13832055 AAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* *
13832120 TTTCTCGTTTAACCAAATTG-TCAAATATCCT
66 TTTCTCGTTCAACCAAATAGCT-AAATATCCT
13832151 CTTGAATTTT
Statistics
Matches: 195, Mismatches: 9, Indels: 14
0.89 0.04 0.06
Matches are distributed among these distances:
108 1 0.01
109 84 0.43
110 2 0.01
111 1 0.01
113 1 0.01
114 3 0.02
115 103 0.53
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
Found at i:13834230 original size:30 final size:31
Alignment explanation
Indices: 13834194--13834251 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
13834184 TGGAGAATTC
13834194 TTGCTCAACTA-GCTTCGTGGCTAGGAACAT
1 TTGCTCAACTAGGCTTCGTGGCTAGGAACAT
* * *
13834224 TTGCTCAATTAGGCTTTGTGGCTGGGAA
1 TTGCTCAACTAGGCTTCGTGGCTAGGAA
13834252 TGGGAGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (31 bp):
TTGCTCAACTAGGCTTCGTGGCTAGGAACAT
Found at i:13836742 original size:26 final size:26
Alignment explanation
Indices: 13836678--13836743 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
13836668 TAACTGTATA
* *
13836678 TGCTCACACGAGATGTGAAATGAGTC
1 TGCTCACACGAGCTGTGAAATGAGCC
13836704 TGCTCACACGAGCTGTGAAATGAGCC
1 TGCTCACACGAGCTGTGAAATGAGCC
*
13836730 TGCTCACATGAGCT
1 TGCTCACACGAGCT
13836744 ATGGGTCAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGAGCC
Found at i:13840653 original size:19 final size:20
Alignment explanation
Indices: 13840629--13840671 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13840619 TTTAATTATA
13840629 AAAAATAATT-TA-AAAAAAT
1 AAAAAT-ATTATAGAAAAAAT
*
13840648 AAAAATTTTATAGAAAAAAT
1 AAAAATATTATAGAAAAAAT
13840668 AAAA
1 AAAA
13840672 GAAAATCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 8 0.38
20 11 0.52
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATATTATAGAAAAAAT
Found at i:13841527 original size:22 final size:23
Alignment explanation
Indices: 13841497--13841546 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
13841487 AAAAGCTATC
13841497 TACAAAATCAAATC-TCTAAGAT
1 TACAAAATCAAATCTTCTAAGAT
* *
13841519 TACAGAATCATATCTTCTAAGAT
1 TACAAAATCAAATCTTCTAAGAT
13841542 TACAA
1 TACAA
13841547 GTATCTCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (23 bp):
TACAAAATCAAATCTTCTAAGAT
Found at i:13856733 original size:26 final size:26
Alignment explanation
Indices: 13856699--13856756 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13856689 CAAAAAATAA
* * *
13856699 AAGCCTTTGTGGCGTATTTGAAATGG
1 AAGCCTTTGTGGAGTATCTAAAATGG
*
13856725 AAGCTTTTGTGGAGTATCTAAAATGG
1 AAGCCTTTGTGGAGTATCTAAAATGG
13856751 AAGCCT
1 AAGCCT
13856757 CTATGGTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (26 bp):
AAGCCTTTGTGGAGTATCTAAAATGG
Found at i:13865519 original size:17 final size:18
Alignment explanation
Indices: 13865472--13865521 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
13865462 TTAACCCATA
13865472 TGGGCCCACACGCCCGTG
1 TGGGCCCACACGCCCGTG
*
13865490 TGGGCCTACACGCCCGTG
1 TGGGCCCACACGCCCGTG
*
13865508 T-GGCCCATACGCCC
1 TGGGCCCACACGCCC
13865522 TAATTCAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.12, C:0.44, G:0.30, T:0.14
Consensus pattern (18 bp):
TGGGCCCACACGCCCGTG
Found at i:13867833 original size:21 final size:21
Alignment explanation
Indices: 13867807--13867846 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13867797 GGGACAGGTG
13867807 ACGTGGCCAGTTAACTAGCTA
1 ACGTGGCCAGTTAACTAGCTA
*
13867828 ACGTGGCTAGTTAACTAGC
1 ACGTGGCCAGTTAACTAGC
13867847 CATGTTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
ACGTGGCCAGTTAACTAGCTA
Found at i:13876085 original size:2 final size:2
Alignment explanation
Indices: 13876078--13876114 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13876068 ATAAATGAAA
13876078 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13876115 AAATGAAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13881803 original size:9 final size:9
Alignment explanation
Indices: 13881789--13881920 Score: 72
Period size: 9 Copynumber: 13.9 Consensus size: 9
13881779 TTATATTTTC
13881789 TTATAAAAT
1 TTATAAAAT
13881798 TTATAAAAAT
1 TTAT-AAAAT
13881808 ATTA-AAAA-
1 -TTATAAAAT
*
13881816 TTATATAAAC
1 TTATA-AAAT
*
13881826 TTATAAAAA
1 TTATAAAAT
* *
13881835 ATAAAAAAT
1 TTATAAAAT
* *
13881844 CATAAAAAAT
1 -TTATAAAAT
*
13881854 TTATAAATT
1 TTATAAAAT
13881863 TTATAAAATT
1 TTATAAAA-T
13881873 TTATAATAAGT
1 TTATAA-AA-T
*
13881884 TCTAT-TAAT
1 T-TATAAAAT
13881893 TTATAAAAT
1 TTATAAAAT
*
13881902 ATATTTAAAAT
1 -T-TATAAAAT
13881913 TTATAAAA
1 TTATAAAA
13881921 AATTAGAAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 24
0.73 0.10 0.18
Matches are distributed among these distances:
7 3 0.03
8 4 0.04
9 44 0.45
10 30 0.31
11 14 0.14
12 3 0.03
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (9 bp):
TTATAAAAT
Found at i:13881806 original size:10 final size:10
Alignment explanation
Indices: 13881789--13881921 Score: 68
Period size: 10 Copynumber: 13.9 Consensus size: 10
13881779 TTATATTTTC
13881789 TTAT-AAAAT
1 TTATAAAAAT
13881798 TTATAAAAAT
1 TTATAAAAAT
*
13881808 AT-TAAAAA-
1 TTATAAAAAT
* *
13881816 TTATATAAAC
1 TTATAAAAAT
13881826 TTATAAAAA-
1 TTATAAAAAT
*
13881835 --ATAAAAAA
1 TTATAAAAAT
*
13881843 TCATAAAAAAT
1 TTAT-AAAAAT
*
13881854 TTAT-AAATT
1 TTATAAAAAT
*
13881863 TTATAAAATT
1 TTATAAAAAT
* *
13881873 TTATAATAAG
1 TTATAAAAAT
* **
13881883 TTCTATTAAT
1 TTATAAAAAT
13881893 TTATAAAATAT
1 TTATAAAA-AT
13881904 ATT-T-AAAAT
1 -TTATAAAAAT
13881913 TTATAAAAA
1 TTATAAAAA
13881922 ATTAGAAATT
Statistics
Matches: 96, Mismatches: 16, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.07
8 3 0.03
9 26 0.27
10 47 0.49
11 11 0.11
12 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (10 bp):
TTATAAAAAT
Found at i:13881819 original size:18 final size:18
Alignment explanation
Indices: 13881792--13881937 Score: 59
Period size: 18 Copynumber: 7.8 Consensus size: 18
13881782 TATTTTCTTA
*
13881792 TAAAATTTATAAAAATAT
1 TAAAAATTATAAAAATAT
*
13881810 TAAAAATTATATAAACT-T
1 TAAAAATTATA-AAAATAT
*
13881828 ATAAAAAATA-AAAAATCAT
1 -TAAAAATTATAAAAAT-AT
* * *
13881847 AAAAAATT-TATAAATTT
1 TAAAAATTATAAAAATAT
*
13881864 TATAAAATTTTATAATAAGT-T
1 TA-AAAA--TTATAA-AAATAT
* *
13881885 CTATTAATTTATAAAATATATT
1 -TA-AAAATTATAAAA-ATA-T
*
13881907 TAAAATTTATAAAAA-AT
1 TAAAAATTATAAAAATAT
*
13881924 TAGAAATTATAAAA
1 TAAAAATTATAAAA
13881938 GAAATCGTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
17 19 0.20
18 28 0.29
19 16 0.16
20 20 0.21
21 5 0.05
22 9 0.09
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (18 bp):
TAAAAATTATAAAAATAT
Found at i:13881821 original size:37 final size:39
Alignment explanation
Indices: 13881779--13881878 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 39
13881769 TGATTTACTC
* *
13881779 TTATATTTTCTTATAAAATTTATAAAAAT-ATTAAAAA-
1 TTATATATTCTTATAAAATTTATAAAAATCATAAAAAAT
** **
13881816 TTATATAAACTTATAAAAAATA-AAAAATCATAAAAAAT
1 TTATATATTCTTATAAAATTTATAAAAATCATAAAAAAT
*
13881854 TTATAAATT-TTATAAAATTTTATAA
1 TTATATATTCTTATAAAA-TTTATAA
13881879 TAAGTTCTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
36 6 0.12
37 32 0.67
38 8 0.17
39 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (39 bp):
TTATATATTCTTATAAAATTTATAAAAATCATAAAAAAT
Found at i:13881824 original size:20 final size:19
Alignment explanation
Indices: 13881793--13881937 Score: 81
Period size: 20 Copynumber: 7.7 Consensus size: 19
13881783 ATTTTCTTAT
13881793 AAAATTTATAAAAATATTA
1 AAAATTTATAAAAATATTA
**
13881812 AAAATTATATAAACTTA-TA
1 AAAATT-TATAAAAATATTA
* *
13881831 AAAA-ATA-AAAAATCATAA
1 AAAATTTATAAAAAT-ATTA
*
13881849 AAAATTTAT--AAATTTTA
1 AAAATTTATAAAAATATTA
*
13881866 TAAAATTTTATAATAAGT-TCTA
1 -AAAA-TTTATAA-AAATAT-TA
** *
13881888 TTAATTTATAAAATATATTT
1 AAAATTTATAAAA-ATATTA
13881908 AAAATTTATAAAAA-ATTA
1 AAAATTTATAAAAATATTA
*
13881926 GAAA-TTATAAAA
1 AAAATTTATAAAA
13881938 GAAATCGTTT
Statistics
Matches: 95, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
16 4 0.04
17 13 0.14
18 19 0.20
19 22 0.23
20 28 0.29
21 4 0.04
22 5 0.05
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (19 bp):
AAAATTTATAAAAATATTA
Found at i:13881857 original size:28 final size:28
Alignment explanation
Indices: 13881793--13881860 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
13881783 ATTTTCTTAT
* *
13881793 AAAATTTATAAAAATATTAAAAATTATA
1 AAAATTTATAAAAATATAAAAAATCATA
* *
13881821 TAAACTTATAAAAA-ATAAAAAATCATAA
1 AAAATTTATAAAAATATAAAAAATCAT-A
13881849 AAAATTTATAAA
1 AAAATTTATAAA
13881861 TTTTATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 10 0.30
28 23 0.70
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATTTATAAAAATATAAAAAATCATA
Found at i:13884060 original size:18 final size:18
Alignment explanation
Indices: 13884037--13884074 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13884027 TTGAGCATAC
13884037 ATGATTTAAAACCAATTA
1 ATGATTTAAAACCAATTA
13884055 ATGATTTAAAACCAATTA
1 ATGATTTAAAACCAATTA
13884073 AT
1 AT
13884075 CCCTTCGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (18 bp):
ATGATTTAAAACCAATTA
Found at i:13885815 original size:38 final size:39
Alignment explanation
Indices: 13885773--13885866 Score: 129
Period size: 38 Copynumber: 2.4 Consensus size: 39
13885763 ATAGAAAAAC
* * *
13885773 ACAAAAG-AAAAAATTTTAACTAATAAACTGAAAATGAA
1 ACAAAAGAAAAAAAATTGAACTAATAAACTGAAAACGAA
13885811 AC-AAAGAAAAAAAATTGAACTAATAAACTGAAAACGAA
1 ACAAAAGAAAAAAAATTGAACTAATAAACTGAAAACGAA
*
13885849 ACAAAACAAATAAAAATT
1 ACAAAAGAAA-AAAAATT
13885867 TAAAAATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 4 0.08
38 32 0.65
39 6 0.12
40 7 0.14
ACGTcount: A:0.66, C:0.10, G:0.07, T:0.17
Consensus pattern (39 bp):
ACAAAAGAAAAAAAATTGAACTAATAAACTGAAAACGAA
Found at i:13888966 original size:41 final size:40
Alignment explanation
Indices: 13888834--13888967 Score: 112
Period size: 37 Copynumber: 3.4 Consensus size: 40
13888824 ATCAGTTTGG
* * * * *
13888834 CACCCAGTACCTCATCGAGTAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGACTAATCCGAAATAGTAAATTGA
* * * * * *
13888874 CACCTAGTGTCTCATCGGCTAAACTG--A-AGTAAATTGG
1 CACCCAGTGCCTCATCGACTAATCCGAAATAGTAAATTGA
* *
13888911 CACCTAGTGCCTCATCGAATTAATCCGAAATAGTAAATTGA
1 CACCCAGTGCCTCATCG-ACTAATCCGAAATAGTAAATTGA
*
13888952 CACCCAGTGTCTCATC
1 CACCCAGTGCCTCATC
13888968 AACTCGAAGT
Statistics
Matches: 71, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
37 24 0.34
38 5 0.07
40 19 0.27
41 23 0.32
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGACTAATCCGAAATAGTAAATTGA
Found at i:13889824 original size:22 final size:22
Alignment explanation
Indices: 13889799--13889861 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
13889789 CCTTTGTTTT
13889799 TTTCTCTTTTTCTTTTTCTTTC
1 TTTCTCTTTTTCTTTTTCTTTC
*
13889821 TTTC-C-CTTTCTGTTTTCGTTTC
1 TTTCTCTTTTTCT-TTTTC-TTTC
*
13889843 TATCT-TTGTTTCTTTTTCT
1 TTTCTCTT-TTTCTTTTTCT
13889862 ATTTCTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
20 5 0.15
21 6 0.18
22 12 0.36
23 5 0.15
24 5 0.15
ACGTcount: A:0.02, C:0.22, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTCTCTTTTTCTTTTTCTTTC
Found at i:13895103 original size:14 final size:14
Alignment explanation
Indices: 13895084--13895110 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13895074 TTGTCATTCT
13895084 CCTATTAAAAAATG
1 CCTATTAAAAAATG
13895098 CCTATTAAAAAAT
1 CCTATTAAAAAAT
13895111 TGATAAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.30
Consensus pattern (14 bp):
CCTATTAAAAAATG
Found at i:13902316 original size:40 final size:40
Alignment explanation
Indices: 13902272--13902347 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
13902262 ATAAAAAATC
* *
13902272 GAGCATTAGCGGCGATTTAGCC-AAAGCGCCGCTAAAGGTA
1 GAGCATCAGCAGCGA-TTAGCCGAAAGCGCCGCTAAAGGTA
* *
13902312 GAGCATCAGCAGCGATTATCCGGAAGCGCCGCTAAA
1 GAGCATCAGCAGCGATTAGCCGAAAGCGCCGCTAAA
13902348 AATAGGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.16
40 26 0.84
ACGTcount: A:0.30, C:0.25, G:0.29, T:0.16
Consensus pattern (40 bp):
GAGCATCAGCAGCGATTAGCCGAAAGCGCCGCTAAAGGTA
Found at i:13902645 original size:41 final size:41
Alignment explanation
Indices: 13902427--13902638 Score: 219
Period size: 41 Copynumber: 5.2 Consensus size: 41
13902417 TTTTTTAAAC
* * * *
13902427 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCCGAT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
* ** * ** * ***
13902468 CTTTAGCGGC-TCTTTCACAAAAACGCCGCTAATGCCCCAAT
1 CTTTAGCGGCGTTTTTGTC-TATGCGCCGCTAATGCTCGGGT
* * * * * *
13902509 CTTTAACGGCGATTTCGTCTAAGCTCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
*
13902550 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTGGGGT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
13902591 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
13902632 CTTTAGC
1 CTTTAGC
13902639 AACGTTTCTA
Statistics
Matches: 141, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
40 4 0.03
41 134 0.95
42 3 0.02
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
Found at i:13902664 original size:82 final size:82
Alignment explanation
Indices: 13902427--13902705 Score: 204
Period size: 82 Copynumber: 3.4 Consensus size: 82
13902417 TTTTTTAAAC
* * ** * * *
13902427 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCCGATCTTTAGCGGC-TCTT-TCACAAAA
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCAACGT-TTCTAAC-TAT
* * * ***
13902490 ACGCCGCTAATGCCCCAAT
64 GCGCCACTAATGCTCGGGT
* * * * ** * **
13902509 CTTTAACGGCGATTTCGTCTAAGCTCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCAACGTTTCTAACTATGC
* *
13902574 GCCGCTAATGCTGGGGT
66 GCCACTAATGCTCGGGT
* *
13902591 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGTCTTTAGCAACGTTTCTAACTGA-G
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCAACGTTTCTAACT-ATG
* * **
13902655 TGCCACTAATTCTCTTGT
65 CGCCACTAATGCTCGGGT
* * * *
13902673 CTTCAGCAGCGTTTGTATCTAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
13902706 ATATTTACCT
Statistics
Matches: 156, Mismatches: 38, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
82 152 0.97
83 4 0.03
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCAACGTTTCTAACTATGC
GCCACTAATGCTCGGGT
Found at i:13902705 original size:41 final size:41
Alignment explanation
Indices: 13902427--13902705 Score: 184
Period size: 41 Copynumber: 6.8 Consensus size: 41
13902417 TTTTTTAAAC
* * * * *
13902427 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCCGAT
1 CTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATGCTCGGGT
* * * * * ***
13902468 CTTTAGCGGC-TCTTTCA-CAAAAACGCCGCTAATGCCCCAAT
1 CTTTAGCAGCGT-TTTTATC-TAAGCGCCGCTAATGCTCGGGT
* * * ** * *
13902509 CTTTAACGGCGATTTCGTCTAAGCTCCGCTAATGCTCGGAT
1 CTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATGCTCGGGT
* * * *
13902550 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTGGGGT
1 CTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATGCTCGGGT
* * *
13902591 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATGCTCGGGT
* * * * * * * **
13902632 CTTTAGCAACGTTTCTAACTGAGTGCCACTAATTCTCTTGT
1 CTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATGCTCGGGT
* *
13902673 CTTCAGCAGCGTTTGTATCTAAGCGCCGCTAAT
1 CTTTAGCAGCGTTTTTATCTAAGCGCCGCTAAT
13902706 ATATTTACCT
Statistics
Matches: 191, Mismatches: 43, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
40 1 0.01
41 189 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (41 bp):
CTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATGCTCGGGT
Found at i:13903242 original size:15 final size:15
Alignment explanation
Indices: 13903221--13903258 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13903211 TTTAAGGTTA
13903221 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
13903236 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
13903251 ATTTAGGG
1 ATTTAGGG
13903259 TTAATTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:13904626 original size:37 final size:38
Alignment explanation
Indices: 13904558--13904629 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
13904548 AAATTTGGTG
*
13904558 TTTAGGGGTTAGTGGGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGTGGGATTTAGGGTTAAAGGGTTATGC
13904596 TTTAGGGGTTA-TGGGATTTAAGGG-TAAAGGGTTA
1 TTTAGGGGTTAGTGGGATTT-AGGGTTAAAGGGTTA
13904630 GGGGGTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.22, C:0.01, G:0.39, T:0.38
Consensus pattern (38 bp):
TTTAGGGGTTAGTGGGATTTAGGGTTAAAGGGTTATGC
Found at i:13904795 original size:37 final size:38
Alignment explanation
Indices: 13904727--13904798 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
13904717 AAATTTGATG
* *
13904727 TTTAGGGGTTATGAGGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGGAGGATTTAGGGTTAAAGGGTTATGC
13904765 TTTAGGGGTTAGGA-GATTTAAGGG-TAAAGGGTTA
1 TTTAGGGGTTAGGAGGATTT-AGGGTTAAAGGGTTA
13904799 GGGGGTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 14 0.45
38 17 0.55
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (38 bp):
TTTAGGGGTTAGGAGGATTTAGGGTTAAAGGGTTATGC
Found at i:13904826 original size:169 final size:169
Alignment explanation
Indices: 13904547--13904889 Score: 602
Period size: 169 Copynumber: 2.0 Consensus size: 169
13904537 TGTGTAATTG
*
13904547 AAAATTTGGTGTTTAGGGGTTAGTGGGATTTAGGGTTTAAGGGTTATGCTTTAGGGGTTATGGGA
1 AAAATTTGATGTTTAGGGGTTAGTGGGATTTAGGGTTTAAGGGTTATGCTTTAGGGGTTATGGGA
13904612 TTTAAGGGTAAAGGGTTAGGGGGTTATGGATTTGAAGTTTAGGGTTTCAACAGTTATGTTAGAGT
66 TTTAAGGGTAAAGGGTTAGGGGGTTATGGATTTGAAGTTTAGGGTTTCAACAGTTATGTTAGAGT
13904677 TTAAGTTATTAGATTAATTAGTTTTATTAATTTTTATAT
131 TTAAGTTATTAGATTAATTAGTTTTATTAATTTTTATAT
13904716 AAAATTTGATGTTTAGGGGTTA-TGAGGATTTAGGGTTTAAGGGTTATGCTTTAGGGGTTA-GGA
1 AAAATTTGATGTTTAGGGGTTAGTG-GGATTTAGGGTTTAAGGGTTATGCTTTAGGGGTTATGG-
* *
13904779 GATTTAAGGGTAAAGGGTTAGGGGGTTATGGATTTG-GGATTTAGGGTTTCAACGGTTATGTTAG
64 GATTTAAGGGTAAAGGGTTAGGGGGTTATGGATTTGAAG-TTTAGGGTTTCAACAGTTATGTTAG
13904843 AGTTTAAGTTATTAGATTAATTAGTTTTATTAATTTTTATAT
128 AGTTTAAGTTATTAGATTAATTAGTTTTATTAATTTTTATAT
*
13904885 CAAAT
1 AAAAT
13904890 ATGTTCTTAT
Statistics
Matches: 167, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
168 5 0.03
169 162 0.97
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (169 bp):
AAAATTTGATGTTTAGGGGTTAGTGGGATTTAGGGTTTAAGGGTTATGCTTTAGGGGTTATGGGA
TTTAAGGGTAAAGGGTTAGGGGGTTATGGATTTGAAGTTTAGGGTTTCAACAGTTATGTTAGAGT
TTAAGTTATTAGATTAATTAGTTTTATTAATTTTTATAT
Found at i:13905026 original size:34 final size:36
Alignment explanation
Indices: 13904969--13905037 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
13904959 AATTTATTTA
*
13904969 TTTATCAATAAAATTAAATATTATAA-ATTTCAAAC
1 TTTATCAATAAAATTAAATATTATAATATTACAAAC
13905004 TTTATACAA-AAAA-TAAATATTATAATATTACAAA
1 TTTAT-CAATAAAATTAAATATTATAATATTACAAA
13905038 TTAAAAGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 12 0.39
35 16 0.52
36 3 0.10
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (36 bp):
TTTATCAATAAAATTAAATATTATAATATTACAAAC
Found at i:13907987 original size:56 final size:56
Alignment explanation
Indices: 13907919--13908385 Score: 790
Period size: 56 Copynumber: 8.2 Consensus size: 56
13907909 ATACATAAAT
*
13907919 TACATAACATACATTGATATTATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
13907975 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
13908031 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
13908087 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
* *
13908143 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
* *
13908199 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
* * *
13908255 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATAT---T--A
*
13908316 TTACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 -TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
*
13908373 TACATAACTTACA
1 TACATAACATACA
13908386 ACTTACATAA
Statistics
Matches: 396, Mismatches: 9, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
56 341 0.86
57 1 0.00
59 2 0.01
61 1 0.00
62 51 0.13
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (56 bp):
TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
Found at i:13908161 original size:22 final size:22
Alignment explanation
Indices: 13908133--13908178 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
13908123 AACTTAGTTA
*
13908133 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
13908155 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
13908177 AT
1 AT
13908179 AACTTAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:13908218 original size:22 final size:22
Alignment explanation
Indices: 13908190--13908234 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
13908180 ACTTAGTTAT
*
13908190 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
13908212 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
13908234 T
1 T
13908235 AACTTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:13908274 original size:22 final size:22
Alignment explanation
Indices: 13908246--13908352 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 22
13908236 ACTTAGTTAT
*
13908246 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
13908268 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
* * *
13908290 -TAACT-TAATTA-GTTAATATACA
1 TTAA-TATTA-TACATAAAT-TACA
13908312 -TAA-A-T-TACATAACA-TACA
1 TTAATATTATACATAA-ATTACA
13908330 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
13908352 T
1 T
13908353 AACTTAGTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
18 6 0.09
19 5 0.07
20 2 0.03
21 11 0.16
22 43 0.64
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:13908397 original size:9 final size:9
Alignment explanation
Indices: 13908373--13908505 Score: 86
Period size: 9 Copynumber: 15.7 Consensus size: 9
13908363 TTTAATATTA
13908373 TACATAACT
1 TACATAACT
13908382 TAC--AACT
1 TACATAACT
13908389 TACATAACT
1 TACATAACT
**
13908398 TACATATTTT
1 TACATA-ACT
*
13908408 TA-ATTA-T
1 TACATAACT
* *
13908415 T-CGTAAAT
1 TACATAACT
13908423 TACATAACT
1 TACATAACT
* *
13908432 TACTTAATT
1 TACATAACT
*
13908441 TTCATAA--
1 TACATAACT
*
13908448 TAAATAACT
1 TACATAACT
13908457 TACATAACT
1 TACATAACT
13908466 TAC--AACT
1 TACATAACT
13908473 TACATAACT
1 TACATAACT
* **
13908482 TATACGACT
1 TACATAACT
13908491 TACATAACT
1 TACATAACT
13908500 TACATA
1 TACATA
13908506 GCATACTTTT
Statistics
Matches: 93, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
7 23 0.25
8 2 0.02
9 65 0.70
10 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:13908401 original size:25 final size:25
Alignment explanation
Indices: 13908373--13908505 Score: 71
Period size: 25 Copynumber: 5.2 Consensus size: 25
13908363 TTTAATATTA
13908373 TACATAACTTACAACTTACATAACT
1 TACATAACTTACAACTTACATAACT
* ** * *
13908398 TACAT-ATTTTTAA-TTATTCGTAAAT
1 TACATAACTTACAACTTA--CATAACT
* *
13908423 TACATAACTTACTTAATTTTCATAA--
1 TACATAACTTAC--AACTTACATAACT
*
13908448 TAAATAACTTACATAACTTAC--AACT
1 TACATAACTTAC--AACTTACATAACT
*
13908473 TACATAACTTATACGACTTACATAACT
1 TACATAAC-T-TACAACTTACATAACT
13908500 TACATA
1 TACATA
13908506 GCATACTTTT
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
23 5 0.06
24 5 0.06
25 45 0.56
26 4 0.05
27 17 0.21
28 2 0.03
29 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (25 bp):
TACATAACTTACAACTTACATAACT
Found at i:13908405 original size:34 final size:32
Alignment explanation
Indices: 13908367--13908505 Score: 86
Period size: 34 Copynumber: 4.1 Consensus size: 32
13908357 TAGTTATTTA
13908367 ATATTATACATAACTTACAACTTACATAACTTAC
1 ATATT-TACATAA-TTACAACTTACATAACTTAC
* *
13908401 ATATTT--TTAATTATTCGTAAATTACATAACTTAC
1 ATATTTACATAATTA--C--AACTTACATAACTTAC
* * * *
13908435 TTAATTTTCATAATAAATAACTTACATAACTTAC
1 AT-ATTTACATAAT-TACAACTTACATAACTTAC
* *
13908469 A-ACTTACATAACTTATACGACTTACATAACTTAC
1 ATATTTACATAA--T-TACAACTTACATAACTTAC
13908503 ATA
1 ATA
13908506 GCATACTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
30 3 0.04
31 3 0.04
32 9 0.11
33 1 0.01
34 55 0.68
35 5 0.06
37 4 0.05
38 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.39
Consensus pattern (32 bp):
ATATTTACATAATTACAACTTACATAACTTAC
Found at i:13908472 original size:16 final size:16
Alignment explanation
Indices: 13908453--13908503 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
13908443 CATAATAAAT
13908453 AACTTACATAACTTAC
1 AACTTACATAACTTAC
13908469 AACTTACATAACTTATAC
1 AACTTACATAAC-T-TAC
*
13908487 GACTTACATAACTTAC
1 AACTTACATAACTTAC
13908503 A
1 A
13908504 TAGCATACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 15 0.48
17 2 0.06
18 14 0.45
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:13908535 original size:25 final size:26
Alignment explanation
Indices: 13908507--13908563 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
13908497 ACTTACATAG
* *
13908507 CATACTTTTCATAAT-ACACAACTTA
1 CATAATTTTCATAATAAAACAACTTA
*
13908532 CATAATTTTCATAATAAAATAACTTA
1 CATAATTTTCATAATAAAACAACTTA
13908558 CATAAT
1 CATAAT
13908564 GCATAACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.37
Consensus pattern (26 bp):
CATAATTTTCATAATAAAACAACTTA
Found at i:13914112 original size:66 final size:65
Alignment explanation
Indices: 13914005--13914175 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
13913995 GAGCAAATTA
* * * * *
13914005 CACAACTTAAAGCGGATGCAACATCGAGAGAAGCTAAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAACAACTCCA
13914069 G
65 G
* *
13914070 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAACAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCA
13914135 G
65 G
* * * *
13914136 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
13914176 CGGCAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAG
Found at i:13914172 original size:21 final size:21
Alignment explanation
Indices: 13914146--13914218 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
13914136 CAGCAGCTTA
*
13914146 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
*
13914167 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCAAGAG
* * * * * *
13914188 AAGTACAGGCTGTAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
13914209 AAGCAGAGGC
1 AAGCAGAGGC
13914219 TAAAGCGAGG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.42, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:13914219 original size:21 final size:21
Alignment explanation
Indices: 13914166--13914237 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
13914156 GGCAGCAAGA
* * *
13914166 GAAGCAGAGGCGGCAGCGAGA
1 GAAGCAGAGGCTGAAGCGAGG
* * *
13914187 GAAGTACAGGCTGTAGCGAGG
1 GAAGCAGAGGCTGAAGCGAGG
*
13914208 GAAGCAGAGGCTAAAGCGAGG
1 GAAGCAGAGGCTGAAGCGAGG
13914229 GAAGCAGAG
1 GAAGCAGAG
13914238 CAGCATCAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.44, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTGAAGCGAGG
Found at i:13914677 original size:85 final size:84
Alignment explanation
Indices: 13914562--13914872 Score: 362
Period size: 85 Copynumber: 3.7 Consensus size: 84
13914552 GCATTTTCTT
* * * *
13914562 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAAATAAGGGTCT-TTAGCGGCATTT-ATGGAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATT-GCGGCGTTTCA-GG-GA
13914625 AAGCGCCACTAAAG-ATCATGGTC
63 AAGCGCCACTAAAGAAT-A-GGTC
* * * * * *
13914648 TTTAGCGGCGTTTGTGAT-AAAGCGCCGCTACAGATTAGAGTCTATTGCGGCGTTTGAGGGGAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTTCA-GGGAAA
*
13914712 GCGCCGCTAAAGAATAGGTC
65 GCGCCACTAAAGAATAGGTC
* * *
13914732 TTTAGTGGTGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTCAGGGAAAG
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTTCAGGGAAAG
*
13914797 CGCTACTAAAGAATAGGTTC
66 CGCCACTAAAGAATAGG-TC
* *
13914817 TTTAGTGGCGTTTGTGGT-ATAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTT
1 TTTAGTGGCGTTTGTGGTCA-AAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTT
13914873 GAGATAAAAA
Statistics
Matches: 198, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
84 42 0.21
85 134 0.68
86 22 0.11
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (84 bp):
TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTTCAGGGAAAG
CGCCACTAAAGAATAGGTC
Found at i:13914844 original size:170 final size:170
Alignment explanation
Indices: 13914562--13914894 Score: 433
Period size: 170 Copynumber: 2.0 Consensus size: 170
13914552 GCATTTTCTT
*
13914562 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAAATAAGGGTCTTTAGCGGCATTTATGGAAAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAAATAAGGGTCTTTAGCGGCATTTATGGAAAAA
*
13914627 GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGATAAAGCGCCGCTACAGATTAGAGTCTA
66 GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGATAAAGCGCCGCTACAGATCAGAGTCTA
* * *
13914692 TTGCGGCGTTTGAGGGGAAAGCGCCGCTAAAGAATAGGTC
131 TTGCGGCGTTTGAGAGAAAAACGCCGCTAAAGAATAGGTC
* * * * * *
13914732 TTTAGTGGTGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTCA-GG-GA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAAATAAGGGTCT-TTAGCGGCATTT-ATGGAAA
* * * * *
13914794 AAGCGCTACTAAAGA--ATAGGTTCTTTAGTGGCGTTTGTGGTATAAGCGCCGCTATAGATCAGG
64 AAGCGCCACTAAAGATCAT-GG-TCTTTAGCGGCGTTTGTGATA-AAGCGCCGCTACAGATCAGA
*
13914857 GTCTATTGCGGCGTTTGAGATAAAAACGCCGCTAAAGA
126 GTCTATTGCGGCGTTTGAGAGAAAAACGCCGCTAAAGA
13914895 CCCTTCTCCC
Statistics
Matches: 141, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
167 2 0.01
168 2 0.01
169 34 0.24
170 100 0.71
171 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (170 bp):
TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAAATAAGGGTCTTTAGCGGCATTTATGGAAAAA
GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGATAAAGCGCCGCTACAGATCAGAGTCTA
TTGCGGCGTTTGAGAGAAAAACGCCGCTAAAGAATAGGTC
Found at i:13914873 original size:43 final size:42
Alignment explanation
Indices: 13914562--13914894 Score: 264
Period size: 43 Copynumber: 7.8 Consensus size: 42
13914552 GCATTTTCTT
* * * *
13914562 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAAATAAGGGTC
1 TTTAGCGGCGTTTGTGGT-AAAGCGCCGCTAAAGATCAGGGTC
* * * * *
13914605 TTTAGCGGCATTTATGGAAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGG-TAAAGCGCCGCTAAAGATCAGGGTC
* * * *
13914648 TTTAGCGGCGTTTGTGATAAAGCGCCGCTACAGATTAGAGTC
1 TTTAGCGGCGTTTGTGGTAAAGCGCCGCTAAAGATCAGGGTC
* *
13914690 TATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGAAT-A-GGTC
1 T-TTAGCGGCGTTTG-TGGTAAAGCGCCGCTAAAG-ATCAGGGTC
* * *
13914732 TTTAGTGGTGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGT-AAAGCGCCGCTAAAGATCAGGGTC
** * ** *
13914775 TATT-GCGGCGTTTCAGGGAAAGCGCTACTAAAGAAT-AGGTTC
1 T-TTAGCGGCGTTTGTGGTAAAGCGCCGCTAAAG-ATCAGGGTC
* *
13914817 TTTAGTGGCGTTTGTGGTATAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGTA-AAGCGCCGCTAAAGATCAGGGTC
* * *
13914860 TATT-GCGGCGTTTGAGATAAAAACGCCGCTAAAGA
1 T-TTAGCGGCGTTTGTGGT-AAAGCGCCGCTAAAGA
13914895 CCCTTCTCCC
Statistics
Matches: 226, Mismatches: 49, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
41 8 0.04
42 88 0.39
43 123 0.54
44 7 0.03
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGTAAAGCGCCGCTAAAGATCAGGGTC
Found at i:13918798 original size:30 final size:30
Alignment explanation
Indices: 13918764--13918936 Score: 211
Period size: 30 Copynumber: 5.7 Consensus size: 30
13918754 GTATATGTTT
* *
13918764 TATACATTTCCGAATTGATTTGTACAAAGA
1 TATACATTGCCGAATTGATTTGTATAAAGA
13918794 TATACATTGCCGAATTGATTTGTATAAAGA
1 TATACATTGCCGAATTGATTTGTATAAAGA
* * *
13918824 TATACATTGTCGAATTTATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATAAAGA
* *
13918854 TATACATTGCCAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATAAAGA
* * * **
13918884 TATACATTACCGAATTTGGTTCGTATATGGA
1 TATACATTGCCGAA-TTGATTTGTATAAAGA
* *
13918915 TATATATTGCTGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
13918937 AGCATTGGAT
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
30 100 0.81
31 24 0.19
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATAAAGA
Found at i:13921613 original size:21 final size:17
Alignment explanation
Indices: 13921570--13921603 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13921560 TATTTAATAT
13921570 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
13921587 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
13921604 TGAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATTTGATTAAAAA
Found at i:13921921 original size:29 final size:26
Alignment explanation
Indices: 13921888--13921944 Score: 69
Period size: 29 Copynumber: 2.1 Consensus size: 26
13921878 TAGGAATAGG
*
13921888 AAATTCTATTAGGATAGCTTAGGTTAATT
1 AAATTCCATTAGGATA---TAGGTTAATT
*
13921917 AAATTCCATTAGGTTATAGGTTAATT
1 AAATTCCATTAGGATATAGGTTAATT
13921943 AA
1 AA
13921945 TTTAATTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 12 0.46
29 14 0.54
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (26 bp):
AAATTCCATTAGGATATAGGTTAATT
Found at i:13923957 original size:21 final size:20
Alignment explanation
Indices: 13923920--13923958 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13923910 GAAACAATAA
* *
13923920 TTCATATTTTTTTGTTTTCT
1 TTCATATTCTTTAGTTTTCT
13923940 TTCATTATTCTTTAGTTTT
1 TTCA-TATTCTTTAGTTTT
13923959 ATTGAGTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (20 bp):
TTCATATTCTTTAGTTTTCT
Found at i:13924573 original size:29 final size:29
Alignment explanation
Indices: 13924540--13924608 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
13924530 TAGGAATAGG
*
13924540 AAATTTTATTAGGATATCTTAGGTTAATT
1 AAATTTAATTAGGATATCTTAGGTTAATT
* * * *
13924569 AAATTTCATTAGGTTATTTTAGGTTCATT
1 AAATTTAATTAGGATATCTTAGGTTAATT
13924598 -AATTTAATTAG
1 AAATTTAATTAG
13924609 TTTAATTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (29 bp):
AAATTTAATTAGGATATCTTAGGTTAATT
Found at i:13926862 original size:19 final size:19
Alignment explanation
Indices: 13926827--13926865 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13926817 ATTTCACACA
*
13926827 TTAATTGAGTTATTATTAT
1 TTAATTGAATTATTATTAT
13926846 TTAATTGATATTA-TATTAT
1 TTAATTGA-ATTATTATTAT
13926865 T
1 T
13926866 ATATTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TTAATTGAATTATTATTAT
Found at i:13926973 original size:19 final size:19
Alignment explanation
Indices: 13926951--13927006 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
13926941 AGTTGTAATA
13926951 TATTTATTTAATTATTTTT
1 TATTTATTTAATTATTTTT
* *
13926970 TATTT-TAGTAAATATATTTT
1 TATTTAT-TTAATTAT-TTTT
*
13926990 TATTATATTAAATTATT
1 TATT-TATTTAATTATT
13927007 AAATTAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
18 1 0.04
19 11 0.39
20 9 0.32
21 6 0.21
22 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTATTTAATTATTTTT
Found at i:13926988 original size:21 final size:20
Alignment explanation
Indices: 13926960--13927006 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13926950 ATATTTATTT
*
13926960 AATTATTTTTTATTTTAGTA
1 AATTATTTTTTATTATAGTA
*
13926980 AA-TATATTTTTATTATATTA
1 AATTAT-TTTTTATTATAGTA
13927000 AATTATT
1 AATTATT
13927007 AAATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTATTTTTTATTATAGTA
Found at i:13943410 original size:9 final size:9
Alignment explanation
Indices: 13943390--13943431 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
13943380 AAATATGCAT
13943390 TTTAATTAAA
1 TTTAA-TAAA
13943400 TTTAATAAA
1 TTTAATAAA
*
13943409 TTTAA-AAT
1 TTTAATAAA
13943417 TTTAATAAA
1 TTTAATAAA
*
13943426 TATAAT
1 TTTAAT
13943432 TGATTTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 7 0.25
9 16 0.57
10 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAATAAA
Found at i:13952651 original size:115 final size:110
Alignment explanation
Indices: 13952467--13952769 Score: 294
Period size: 115 Copynumber: 2.7 Consensus size: 110
13952457 AATAAATTAG
* ** * * *
13952467 GGTTT-AAGGTACATTTTTAATTTTT-TAATTATTATTTATTTGTTTGATTTATAAACCTTATTA
1 GGTTTAAAGGAACATTTTT--TTTTTGTAACAATTATTTATTTGTTTGTTTTGT-AATCTTATTA
* * * * *
13952530 TTTGTCCTATTTTGA-GGTTTTGGAAAGGGAGGAGG-CAGCAGATTAA
63 ATTGTCCTATTTTGATGATTTTGGAAAGAGAGGAGGACAACAGACTAA
13952576 GGTTTAAAGGAACATTTGTAATGTTTTTCCGTAACAATTATTTATTTGTTTGTTTTGTAATCTTC
1 GGTTTAAAGGAACATTT-T--T-TTTTT--GTAACAATTATTTATTTGTTTGTTTTGTAATCTT-
* *
13952641 ATTAAATGTCCCATTTT-ATGATTTTGGAAAGAGAGGAGGCAACAACAGACTAA
59 ATTAATTGTCCTATTTTGATGATTTTGGAAAGAGAGGAGG--ACAACAGACTAA
* ** *
13952694 GGTTTAAAGGTACATTTTTTTTTTGTAATTATTATTTGTTTGTTTGTTTTGTAATCCTTATT-AT
1 GGTTTAAAGGAACATTTTTTTTTTGTAACAATTATTTATTTGTTTGTTTTGTAAT-CTTATTAAT
13952758 TGTCCTATTTTG
65 TGTCCTATTTTG
13952770 TGGTGTTGTG
Statistics
Matches: 160, Mismatches: 20, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
109 5 0.03
110 10 0.06
111 12 0.08
112 36 0.22
113 4 0.03
114 11 0.07
115 56 0.35
117 1 0.01
118 25 0.16
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (110 bp):
GGTTTAAAGGAACATTTTTTTTTTGTAACAATTATTTATTTGTTTGTTTTGTAATCTTATTAATT
GTCCTATTTTGATGATTTTGGAAAGAGAGGAGGACAACAGACTAA
Found at i:13952748 original size:112 final size:112
Alignment explanation
Indices: 13952427--13952773 Score: 332
Period size: 112 Copynumber: 3.1 Consensus size: 112
13952417 GTGAAGAAAG
* * * * * *
13952427 TTTTATGGTATTGGAAGGAGAGGAGACAACAATAAATTAGGGTTT-AAGGTACATTTTTAATTTT
1 TTTTATGGTTTTGGAAAGAGAGGAGGCAACAACAGATTAAGGTTTAAAGGTACATTTTT-ATTTT
* * * ** *
13952491 T-TAATTATTATTTATTTGTTTGATTTATAAACCTTATTATTTGTCCTA
65 TGTAATTATTATTTATTTGTTTGTTTTGT-AATCTTATTAAATGTCCCA
* * * *
13952539 TTTTGA-GGTTTTGGAAAGGGAGGAGG---CAGCAGATTAAGGTTTAAAGGAACATTTGTAATGT
1 TTTT-ATGGTTTTGGAAAGAGAGGAGGCAACAACAGATTAAGGTTTAAAGGTACATTT-T--TAT
**
13952600 TTTTCCGTAACAATTATTTATTTGTTTGTTTTGTAATCTTCATTAAATGTCCCA
62 TTTT--GTAATTATTATTTATTTGTTTGTTTTGTAATCTT-ATTAAATGTCCCA
* *
13952654 TTTTATGATTTTGGAAAGAGAGGAGGCAACAACAGACTAAGGTTTAAAGGTACATTTTT-TTTTT
1 TTTTATGGTTTTGGAAAGAGAGGAGGCAACAACAGATTAAGGTTTAAAGGTACATTTTTATTTTT
* * *
13952718 GTAATTATTATTTGTTTGTTTGTTTTGTAATCCTTATT-ATTGTCCTA
66 GTAATTATTATTTATTTGTTTGTTTTGTAAT-CTTATTAAATGTCCCA
*
13952765 TTTTGTGGT
1 TTTTATGGT
13952774 GTTGTGTTAT
Statistics
Matches: 191, Mismatches: 30, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
109 12 0.06
110 10 0.05
111 15 0.08
112 56 0.29
113 5 0.03
114 11 0.06
115 56 0.29
117 1 0.01
118 25 0.13
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (112 bp):
TTTTATGGTTTTGGAAAGAGAGGAGGCAACAACAGATTAAGGTTTAAAGGTACATTTTTATTTTT
GTAATTATTATTTATTTGTTTGTTTTGTAATCTTATTAAATGTCCCA
Found at i:13953105 original size:16 final size:16
Alignment explanation
Indices: 13953065--13953111 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
13953055 TTTCTTCAAC
*
13953065 ATTATTATTTTTT-CA
1 ATTATTATTTTTTGTA
**
13953080 ATTACAATTTTTTGTA
1 ATTATTATTTTTTGTA
13953096 ATTATTATTTATTTGT
1 ATTATTATTT-TTTGT
13953112 TTGAATGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 11 0.44
16 9 0.36
17 5 0.20
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (16 bp):
ATTATTATTTTTTGTA
Found at i:13962870 original size:14 final size:14
Alignment explanation
Indices: 13962850--13962882 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13962840 ATGAGTGAAT
13962850 GGAAGCCAT-TTTG
1 GGAAGCCATGTTTG
13962863 GTGAAGCCATGTTTG
1 G-GAAGCCATGTTTG
13962878 GGAAG
1 GGAAG
13962883 GTCTGATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 12 0.67
15 5 0.28
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (14 bp):
GGAAGCCATGTTTG
Found at i:13966868 original size:31 final size:31
Alignment explanation
Indices: 13966830--13966947 Score: 136
Period size: 31 Copynumber: 3.9 Consensus size: 31
13966820 ATCAACTTAA
*
13966830 GAAAAAGTGTCAAGTTTAGGTACTAAATTAG
1 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
*
13966861 GAAAAAGTGTCAAGTTTGGGTACCAAATTA-
1 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
** *
13966891 GATAAAA---AAAAGTTTAGATACCAAATTAG
1 GA-AAAAGTGTCAAGTTTAGGTACCAAATTAG
* *
13966920 AAAAAAGTGTCAAGTTCAGGTACCAAAT
1 GAAAAAGTGTCAAGTTTAGGTACCAAAT
13966948 ATTATATTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
28 21 0.30
29 1 0.01
30 2 0.03
31 47 0.66
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.25
Consensus pattern (31 bp):
GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
Found at i:13966912 original size:28 final size:27
Alignment explanation
Indices: 13966872--13966925 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
13966862 AAAAAGTGTC
* *
13966872 AAGTTTGGGTACCAAATTAGATAAAAAA
1 AAGTTTAGATACCAAATTAGA-AAAAAA
13966900 AAGTTTAGATACCAAATTAGAAAAAA
1 AAGTTTAGATACCAAATTAGAAAAAA
13966926 GTGTCAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (27 bp):
AAGTTTAGATACCAAATTAGAAAAAAA
Found at i:13966961 original size:12 final size:12
Alignment explanation
Indices: 13966944--13966969 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13966934 TTCAGGTACC
13966944 AAATATTATATT
1 AAATATTATATT
13966956 AAATATTATATT
1 AAATATTATATT
13966968 AA
1 AA
13966970 GCTTAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATATTATATT
Found at i:13967949 original size:30 final size:29
Alignment explanation
Indices: 13967913--13967969 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
13967903 AGGAGAAAAA
13967913 GTTGTGTTT-GGGATTTGAGAAAAAATTAGT
1 GTTGTGTTTAGGG-TTTGA-AAAAAATTAGT
13967943 GTTGTGTTTAGGGTTTGAAAAAAATTA
1 GTTGTGTTTAGGGTTTGAAAAAAATTA
13967970 ATTAAGAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 9 0.35
30 14 0.54
31 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (29 bp):
GTTGTGTTTAGGGTTTGAAAAAAATTAGT
Found at i:13968309 original size:49 final size:49
Alignment explanation
Indices: 13968256--13968476 Score: 345
Period size: 49 Copynumber: 4.5 Consensus size: 49
13968246 TGTTTTATTT
13968256 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAA
1 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAA
* *
13968305 TTTTTATGTAATTTATTTTTCATATGTGTTTTAGGTTTATTAGATTTAA
1 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAA
* *
13968354 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTTAA
1 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAA
* * * *
13968403 TTTTTATGTAATTTA-TTATCATATGTGTTTTAAGTTTATTAGATTTATT
1 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTA-A
*
13968452 TTTTTATGTAATTTATTTGGCATGT
1 TTTTTATGTAATTTATTTGTCATGT
13968477 TATTTTTATT
Statistics
Matches: 158, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
48 28 0.18
49 124 0.78
50 6 0.04
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.61
Consensus pattern (49 bp):
TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAA
Found at i:13968318 original size:16 final size:16
Alignment explanation
Indices: 13968299--13968417 Score: 66
Period size: 16 Copynumber: 7.3 Consensus size: 16
13968289 GGTTTATTAG
13968299 ATTTAATTTTTATGTA
1 ATTTAATTTTTATGTA
*
13968315 ATTTATTTTTCATATGT-
1 ATTTAATTTT--TATGTA
* * **
13968332 GTTTTAGGTTTAT-TA
1 ATTTAATTTTTATGTA
13968347 GATTTAATTTTTATGTA
1 -ATTTAATTTTTATGTA
*
13968364 ATTT-ATTTTTCATGTGT
1 ATTTAATTTTT-ATGT-A
* * **
13968381 GTTTTAGATTTAT-TA
1 ATTTAATTTTTATGTA
13968396 GATTTAATTTTTATGTA
1 -ATTTAATTTTTATGTA
13968413 ATTTA
1 ATTTA
13968418 TTATCATATG
Statistics
Matches: 74, Mismatches: 19, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
14 1 0.01
15 9 0.12
16 41 0.55
17 14 0.19
18 9 0.12
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (16 bp):
ATTTAATTTTTATGTA
Found at i:13968563 original size:26 final size:27
Alignment explanation
Indices: 13968527--13968579 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
13968517 AGGTAAAAGA
*
13968527 TGAGATCATTGAGATGAAATTTGTGAG
1 TGAGATCATTGAGATGAAATTTATGAG
*
13968554 TGAGA-CATTGAGTTGAAATTTATGAG
1 TGAGATCATTGAGATGAAATTTATGAG
13968580 ATAAATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (27 bp):
TGAGATCATTGAGATGAAATTTATGAG
Found at i:13970104 original size:14 final size:14
Alignment explanation
Indices: 13970085--13970119 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
13970075 CATATTTTTT
*
13970085 TTCTAATGGTACTA
1 TTCTAATGATACTA
13970099 TTCTAATGATACTA
1 TTCTAATGATACTA
13970113 TTCTAAT
1 TTCTAAT
13970120 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:13970785 original size:24 final size:24
Alignment explanation
Indices: 13970733--13970797 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
13970723 TTGGGGCATA
13970733 CGAGCCAAAGCTTGAGCCCAAGCC
1 CGAGCCAAAGCTTGAGCCCAAGCC
* *
13970757 TGAGCCTAAGCTTGA-CCCTGAA-CC
1 CGAGCCAAAGCTTGAGCCC--AAGCC
* *
13970781 CGAGCCAGAGCCTGAGC
1 CGAGCCAAAGCTTGAGC
13970798 GGTCGCATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.26, C:0.35, G:0.26, T:0.12
Consensus pattern (24 bp):
CGAGCCAAAGCTTGAGCCCAAGCC
Found at i:13970975 original size:33 final size:33
Alignment explanation
Indices: 13970933--13970998 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
13970923 TATAACACCC
* *
13970933 GTATCCACCGCATTACTCTACTCCTCCCGGCTT
1 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
13970966 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
1 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
13970999 AAGTTTATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.42, G:0.11, T:0.29
Consensus pattern (33 bp):
GTATCCACCGCAATACTCTACTCCTCCCAGCTT
Found at i:13971419 original size:48 final size:49
Alignment explanation
Indices: 13971253--13971459 Score: 269
Period size: 49 Copynumber: 4.3 Consensus size: 49
13971243 GTATTTATTT
* * **
13971253 AATTAGATTA-ATTGCAATATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGA-TACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
*
13971302 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTGATCATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
* * *
13971351 AATTAGATGCATTACAACATTAAAACTTGGAACAGACTCTGTAAT-ATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
** * *
13971399 AATTAGATACATTACAACATTAAAACGAGGAAC-AACTTTGCAAT-TTA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
13971446 AATTAGATACATTA
1 AATTAGATACATTA
13971460 AATTACATAA
Statistics
Matches: 143, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 24 0.17
48 35 0.24
49 84 0.59
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (49 bp):
AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
Found at i:13975054 original size:51 final size:49
Alignment explanation
Indices: 13974921--13975106 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
13974911 GTGAAAGTGA
* **
13974921 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATA-G-T
* * * *
13974971 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAG-T
* *
13975021 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGATAGT
*
13975071 GATGGTCACATGTATAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
13975107 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
50 42 0.37
51 71 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGT
Done.