Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 51 of 172
Found at i:13703386 original size:24 final size:22
Alignment explanation
Indices: 13703344--13703410 Score: 57
Period size: 25 Copynumber: 3.0 Consensus size: 22
13703334 AGAAACTGTG
* *
13703344 ATTTCAAATTTTAAAATAATAATC
1 ATTTCTAATTTT-ATATAATAA-C
13703368 ATTTTCTAATTTTATATAATTAAC
1 A-TTTCTAATTTTATATAA-TAAC
*
13703392 A-TTATAATTTT-TATAATAA
1 ATTTCTAATTTTATATAATAA
13703411 ATATTTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.08
21 5 0.13
22 9 0.24
24 8 0.21
25 13 0.34
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTCTAATTTTATATAATAAC
Found at i:13704554 original size:18 final size:17
Alignment explanation
Indices: 13704514--13704594 Score: 65
Period size: 19 Copynumber: 4.4 Consensus size: 17
13704504 GAAAATATAA
13704514 ATTAAAATTC-AAAAAT
1 ATTAAAATTCAAAAAAT
*
13704530 AGATAAAAGTTCAAAAAAT
1 A-TTAAAA-TTCAAAAAAT
13704549 ATTAAAATTCATAAAAAAT
1 ATTAAAATTC--AAAAAAT
*
13704568 ATAGAAAATACTCAAAAAAT
1 AT-TAAAAT--TCAAAAAAT
*
13704588 TTTAAAA
1 ATTAAAA
13704595 AAATTGACCT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
16 1 0.02
17 8 0.15
18 8 0.15
19 20 0.38
20 13 0.25
22 2 0.04
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (17 bp):
ATTAAAATTCAAAAAAT
Found at i:13704564 original size:19 final size:18
Alignment explanation
Indices: 13704514--13704569 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 18
13704504 GAAAATATAA
* *
13704514 ATTAAAATTCAAAAATAG
1 ATTAAAATTCAAAAAAAT
13704532 A-TAAAAGTTC-AAAAAAT
1 ATTAAAA-TTCAAAAAAAT
13704549 ATTAAAATTCATAAAAAAT
1 ATTAAAATTCA-AAAAAAT
13704568 AT
1 AT
13704570 AGAAAATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 14 0.44
18 9 0.28
19 9 0.28
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (18 bp):
ATTAAAATTCAAAAAAAT
Found at i:13704584 original size:20 final size:20
Alignment explanation
Indices: 13704540--13704587 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
13704530 AGATAAAAGT
* *
13704540 TCAAAAAATATTAAAATTCA
1 TCAAAAAATATGAAAATACA
13704560 T-AAAAAATATAGAAAATAC-
1 TCAAAAAATAT-GAAAATACA
13704579 TCAAAAAAT
1 TCAAAAAAT
13704588 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (20 bp):
TCAAAAAATATGAAAATACA
Found at i:13704594 original size:19 final size:20
Alignment explanation
Indices: 13704540--13704594 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
13704530 AGATAAAAGT
* *
13704540 TCAAAAAATATTAAAATTCA
1 TCAAAAAATTTTAAAATACA
**
13704560 T-AAAAAATATAGAAAATAC-
1 TCAAAAAAT-TTTAAAATACA
13704579 TCAAAAAATTTTAAAA
1 TCAAAAAATTTTAAAA
13704595 AAATTGACCT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
TCAAAAAATTTTAAAATACA
Found at i:13705350 original size:8 final size:9
Alignment explanation
Indices: 13705337--13705378 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
13705327 TATTTTATAT
13705337 ATTTTTAAA
1 ATTTTTAAA
13705346 A-TTTTAAA
1 ATTTTTAAA
13705354 ATTTTTAAA
1 ATTTTTAAA
13705363 ATTTTTAAA
1 ATTTTTAAA
13705372 ATTTTTA
1 ATTTTTA
13705379 TGTATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:13705350 original size:26 final size:26
Alignment explanation
Indices: 13705306--13705386 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
13705296 AAATTTTAAA
* **
13705306 TATATATTTATAATTTTTTAGTATTT
1 TATATATTTTTAAAATTTTAGTATTT
**
13705332 TATATATTTTTAAAATTTTAAAATTT
1 TATATATTTTTAAAATTTTAGTATTT
*
13705358 T-TAAAATTTTTAAAATTTTTATGTATTT
1 TAT-ATATTTTTAAAA-TTTTA-GTATTT
13705386 T
1 T
13705387 TTGAATTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.02
26 33 0.75
27 5 0.11
28 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TATATATTTTTAAAATTTTAGTATTT
Found at i:13705393 original size:19 final size:20
Alignment explanation
Indices: 13705371--13705408 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
13705361 AAATTTTTAA
*
13705371 AATTTTTATGTAT-TTTTTG
1 AATTTATATGTATATTTTTG
*
13705390 AATTTATATTTATATTTTT
1 AATTTATATGTATATTTTT
13705409 TTTGTAACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
AATTTATATGTATATTTTTG
Found at i:13713695 original size:79 final size:82
Alignment explanation
Indices: 13713584--13713768 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
13713574 GCTACTCGTT
* *
13713584 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
13713647 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
13713664 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
13713727 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
13713744 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13713769 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:13713768 original size:40 final size:40
Alignment explanation
Indices: 13713565--13713768 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
13713555 CGGAATTTAA
** *
13713565 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13713605 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
13713645 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13713684 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13713724 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13713764 CCGGA
1 CCGGA
13713769 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13722094 original size:31 final size:29
Alignment explanation
Indices: 13722059--13722116 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
13722049 AATAGTATTT
*
13722059 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
13722090 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
13722117 GTAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:13726070 original size:25 final size:25
Alignment explanation
Indices: 13726040--13726102 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
13726030 AGCATATGTG
13726040 TGTTTAAAATGGTAATAATATATAAA
1 TGTTTAAAATGGTAAT-ATATATAAA
*
13726066 T-TTT-AAATGGTAATATATATATA
1 TGTTTAAAATGGTAATATATATAAA
*
13726089 TGCTTAAAATGGTA
1 TGTTTAAAATGGTA
13726103 GGAGTATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 9 0.27
24 12 0.36
25 11 0.33
26 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.41
Consensus pattern (25 bp):
TGTTTAAAATGGTAATATATATAAA
Found at i:13727218 original size:22 final size:22
Alignment explanation
Indices: 13727188--13727230 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13727178 CAAAGTAAAA
*
13727188 TTTATTATTCAT-GCCAGAGAAT
1 TTTACTATTCATCG-CAGAGAAT
13727210 TTTACTATTCATCGCAGAGAA
1 TTTACTATTCATCGCAGAGAA
13727231 CCTTCACTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TTTACTATTCATCGCAGAGAAT
Found at i:13732175 original size:34 final size:34
Alignment explanation
Indices: 13732107--13732171 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
13732097 ATATATAGTG
*
13732107 TTTTAATTTTTTGTAAATAATTAAATATTTTTAA
1 TTTTAATTTTTTGTAAATAACTAAATATTTTTAA
** *
13732141 TTTTAA-TTTTTGTAGTTAACTAAATTTTTTT
1 TTTTAATTTTTTGTAAATAACTAAATATTTTT
13732172 TAATATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (34 bp):
TTTTAATTTTTTGTAAATAACTAAATATTTTTAA
Found at i:13734152 original size:27 final size:26
Alignment explanation
Indices: 13734096--13734161 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
13734086 CATATCTATC
*
13734096 TATATAATCATTT-CATATAACACTT
1 TATATAATTATTTCCATATAACACTT
*
13734121 CATATAATTATTTCCATATAAC-CGATT
1 TATATAATTATTTCCATATAACAC--TT
13734148 TATATAATTATTTC
1 TATATAATTATTTC
13734162 GTTTATCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.34
26 8 0.23
27 15 0.43
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (26 bp):
TATATAATTATTTCCATATAACACTT
Found at i:13734181 original size:40 final size:40
Alignment explanation
Indices: 13734137--13734213 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
13734127 ATTATTTCCA
* * *
13734137 TATAACCGATTTATATAATTATT-TCGTTTATCTATTTTCG
1 TATAACCGATTCATATAACTATTCT-GTATATCTATTTTCG
**
13734177 TATAATTGATTCATATAACTATTCTGTATATCTATTT
1 TATAACCGATTCATATAACTATTCTGTATATCTATTT
13734214 CTATATAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (40 bp):
TATAACCGATTCATATAACTATTCTGTATATCTATTTTCG
Found at i:13734221 original size:40 final size:40
Alignment explanation
Indices: 13734141--13734228 Score: 81
Period size: 40 Copynumber: 2.2 Consensus size: 40
13734131 TTTCCATATA
* * * *
13734141 ACCGATTTATATAATTATTTCGTTTATCTATTT-TCGTATA
1 ACCGATTCATATAACTATTTCGTATATCTATTTCT-ATATA
**
13734181 ATTGATTCATATAACTA-TTCTGTATATCTATTTCTATATA
1 ACCGATTCATATAACTATTTC-GTATATCTATTTCTATATA
*
13734221 ACCAATTC
1 ACCGATTC
13734229 TTACAATCAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
39 3 0.08
40 33 0.89
41 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.49
Consensus pattern (40 bp):
ACCGATTCATATAACTATTTCGTATATCTATTTCTATATA
Found at i:13735889 original size:45 final size:44
Alignment explanation
Indices: 13735840--13736118 Score: 261
Period size: 45 Copynumber: 6.2 Consensus size: 44
13735830 TACTCTAACA
* * * *
13735840 CTTATTTATTTCTAACATAATGCCATGGTGTTTTTCAACTATGGT
1 CTTATTTATTTCTATC-TATTGCCATAGTGTCTTTCAACTATGGT
* * * *
13735885 CTTATTCATTTCTAGTCATGTTGTCATAATGTCTTTCAACTATGGT
1 CTTATTTATTTCTA-TC-TATTGCCATAGTGTCTTTCAACTATGGT
* * *
13735931 CTTATTTATTTCTCGTCATATTGCCATAGTGTCTTTCAAATATGGC
1 CTTATTTATTTCT-ATC-TATTGCCATAGTGTCTTTCAACTATGGT
* * * * * *
13735977 CTTATTCATTTCCGATCTATTGCCATAGTTTCTTTCAAATACGAT
1 CTTATTTATTT-CTATCTATTGCCATAGTGTCTTTCAACTATGGT
* * * * *
13736022 CTTTTTTATTTCCAATCTTTTGCCATATTGTCTTTTAACTATGGT
1 CTTATTTATTT-CTATCTATTGCCATAGTGTCTTTCAACTATGGT
* *
13736067 CATATTTATTTCCGATCTATTGCCATAGTGTCTTTCAACTATGGT
1 CTTATTTATTT-CTATCTATTGCCATAGTGTCTTTCAACTATGGT
*
13736112 TTTATTT
1 CTTATTT
13736119 GTCTGAATCG
Statistics
Matches: 191, Mismatches: 40, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
45 116 0.61
46 74 0.39
47 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.48
Consensus pattern (44 bp):
CTTATTTATTTCTATCTATTGCCATAGTGTCTTTCAACTATGGT
Found at i:13735896 original size:21 final size:21
Alignment explanation
Indices: 13735872--13735942 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
13735862 CCATGGTGTT
13735872 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
* * *
13735893 TTTCTAGTCATGTTGTCATAATGTC-
1 TTTCAACT-ATG--GTC-TTAT-TCA
*
13735918 TTTCAACTATGGTCTTATTTA
1 TTTCAACTATGGTCTTATTCA
13735939 TTTC
1 TTTC
13735943 TCGTCATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
20 1 0.03
21 13 0.35
22 6 0.16
24 6 0.16
25 9 0.24
26 2 0.05
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (21 bp):
TTTCAACTATGGTCTTATTCA
Found at i:13736136 original size:90 final size:90
Alignment explanation
Indices: 13735952--13736148 Score: 218
Period size: 90 Copynumber: 2.2 Consensus size: 90
13735942 CTCGTCATAT
* *
13735952 TGCCATAGTGTCTTTCAAATATGGCCTTATTCATTTCCGATCTATTGCCATAGTTTCTTTCAAAT
1 TGCCATAGTGTCTTTCAAATATGGCCATATTCATTTCCGATCTATTGCCATAGTGTCTTTCAAAT
* **
13736017 ACGATCTTTTTTATTTCCAATCTTT
66 ACGATCTTTTTTATCTCCAATCTGA
* * * * * *
13736042 TGCCATATTGTCTTTTAACTATGGTCATATTTATTTCCGATCTATTGCCATAGTGTCTTTCAACT
1 TGCCATAGTGTCTTTCAAATATGGCCATATTCATTTCCGATCTATTGCCATAGTGTCTTTCAAAT
* * * *
13736107 ATGGT-TTTATTTGTCT-GAATCGTGA
66 ACGATCTTT-TTTATCTCCAATC-TGA
*
13736132 TGCCATAGCGTCTTTCA
1 TGCCATAGTGTCTTTCA
13736149 GCTATAGCCA
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
89 7 0.08
90 80 0.92
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (90 bp):
TGCCATAGTGTCTTTCAAATATGGCCATATTCATTTCCGATCTATTGCCATAGTGTCTTTCAAAT
ACGATCTTTTTTATCTCCAATCTGA
Found at i:13745585 original size:391 final size:389
Alignment explanation
Indices: 13744866--13745648 Score: 1137
Period size: 391 Copynumber: 2.0 Consensus size: 389
13744856 AATTTAATAA
* *
13744866 TAAATTCTCAAATCTGCAATCCCTTGGGTATGATCCTCAGAATACTTACTAGTGTTCCATTGTAA
1 TAAATTCTCAAATCTGCAATCACTTGGGTATGATCCTCAGAATACTTACTAGTGTTCCATTATAA
* * * *
13744931 TACTTCTATATTACAAATTGCATTGTACGCTTATAGACACCACCGATTTAATTATATATATTTTT
66 TACTTATATATTACAAATTGCATCGTACACTTACAGACACCACCGATTTAATTATATATATTTTT
* * * * * * *
13744996 GGTGTGATATTTATACTGTAAATAATAACACGTTTATAGGCGGTCAGTCACTGTCATGGGTCACA
131 GGTGTGATATTTATACTATAAACAATAACACATTTACAAGCAGTCAGTCACTGCCATGGGTCACA
* * *
13745061 TTCTTCATAAACTCCGTCATATTTGGATTATCTGAATCAAAATTGTACTCACCAGTTTCCTTAAT
196 TTCTCCATAAACTCCATCATATTTGGATTATCCGAATCAAAATTGTACTCACCAGTTTCCTTAAT
*
13745126 GAGTAAGATTTCTCTTATAAGTAAAAGTACTATCATTGGGCTACTTAAAAGATGTTTACATTTTT
261 GAGTAAGATTTCTCTTATAAGTAAAAGTACTATCATTGAGCTACTTAAAAGATGTTTACATTTTT
*
13745191 GTAGGACCTCTATTTTTCCAATTAGCTTGCTTACTATCACCACTTTTAAG-GAACTTATTAAAAG
326 GTAGGACCTCTATTTTTCCAATTAGATTGCTTACTATCACCA-TTTTAAGAGAACTTATTAAAAG
* * * * * *
13745255 TAAATTCTCTAATCTGTAATCACTTTGTTATGATCCTCATAATACTTACT-GATGTTCCGTTATA
1 TAAATTCTCAAATCTGCAATCACTTGGGTATGATCCTCAGAATACTTACTAG-TGTTCCATTATA
* *
13745319 ATACTTATATATTACAAATTAGC-TCGTACACTTGCGGACACCACCGATTTAATTATAAATATAT
65 ATACTTATATATTACAAATT-GCATCGTACACTTACAGACACCACCGATTTAATTAT--ATATAT
* *
13745383 TTTTGGTTTGATATTTATACTATAAACGATAACACATTTACAAGCAGTCAGTCACTGCCATGGGT
127 TTTTGGTGTGATATTTATACTATAAACAATAACACATTTACAAGCAGTCAGTCACTGCCATGGGT
*
13745448 CACATTCTCCATAAACTCCATCATATTTGGATTATCCGAATCAAAATTGTACTCACCATTTTCCT
192 CACATTCTCCATAAACTCCATCATATTTGGATTATCCGAATCAAAATTGTACTCACCAGTTTCCT
13745513 TGAA-GAGTAAGATTTCTCTT-TAAAG-AAGAAGTACTATCATTGAGCTACTTAAAAGATGTTTA
257 T-AATGAGTAAGATTTCTCTTAT-AAGTAA-AAGTACTATCATTGAGCTACTTAAAAGATGTTTA
* ** * *
13745575 CGTTTTTGTAGGAGTTTTATTTTTCCAATTAGATTGCTTACTATCACCATTTTTAGAGAACTTAT
319 CATTTTTGTAGGACCTCTATTTTTCCAATTAGATTGCTTACTATCACCATTTTAAGAGAACTTAT
*
13745640 TAGAAG
384 TAAAAG
13745646 TAA
1 TAA
13745649 GAGGCAGTTT
Statistics
Matches: 351, Mismatches: 35, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
388 1 0.00
389 101 0.29
390 11 0.03
391 236 0.67
392 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (389 bp):
TAAATTCTCAAATCTGCAATCACTTGGGTATGATCCTCAGAATACTTACTAGTGTTCCATTATAA
TACTTATATATTACAAATTGCATCGTACACTTACAGACACCACCGATTTAATTATATATATTTTT
GGTGTGATATTTATACTATAAACAATAACACATTTACAAGCAGTCAGTCACTGCCATGGGTCACA
TTCTCCATAAACTCCATCATATTTGGATTATCCGAATCAAAATTGTACTCACCAGTTTCCTTAAT
GAGTAAGATTTCTCTTATAAGTAAAAGTACTATCATTGAGCTACTTAAAAGATGTTTACATTTTT
GTAGGACCTCTATTTTTCCAATTAGATTGCTTACTATCACCATTTTAAGAGAACTTATTAAAAG
Found at i:13751943 original size:16 final size:16
Alignment explanation
Indices: 13751922--13751953 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13751912 ATTGGGTTGA
*
13751922 GAAAATTATTTAATTT
1 GAAAATTAATTAATTT
13751938 GAAAATTAATTAATTT
1 GAAAATTAATTAATTT
13751954 CATTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
GAAAATTAATTAATTT
Found at i:13754842 original size:58 final size:57
Alignment explanation
Indices: 13754639--13754846 Score: 220
Period size: 57 Copynumber: 3.6 Consensus size: 57
13754629 ATGTTTGTAA
* * * * * * * *
13754639 ATGTTGTTTTAATTTCTGTAAATGTTTATTTTTAAGTTGTTTGAATATGGAGAATGG
1 ATGTTGTCTTAATGTCTTTAAATGTGTATTTTTATGTTGTCTGAATGTGAAGAATGG
* *
13754696 CTGTTGTCTTAATGTCTTTAAATGTGTATTTTTATGTTGTCTGAATGTGGAGAATGG
1 ATGTTGTCTTAATGTCTTTAAATGTGTATTTTTATGTTGTCTGAATGTGAAGAATGG
* *** ** *
13754753 TTGCAATCTTAATGTCTTTAAATGTGTATTTTTATGTTGTCTTCATGTTGAATAATGG
1 ATGTTGTCTTAATGTCTTTAAATGTGTATTTTTATGTTGTCTGAATG-TGAAGAATGG
* *
13754811 ATGTTGTCTTAATGGCTTCAAATGT-TCATTTTTATG
1 ATGTTGTCTTAATGTCTTTAAATGTGT-ATTTTTATG
13754847 CTGCAAATGC
Statistics
Matches: 127, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
57 91 0.72
58 36 0.28
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.50
Consensus pattern (57 bp):
ATGTTGTCTTAATGTCTTTAAATGTGTATTTTTATGTTGTCTGAATGTGAAGAATGG
Found at i:13758926 original size:21 final size:21
Alignment explanation
Indices: 13758900--13758941 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13758890 ATTTTGCCAA
* *
13758900 AAATGTGTATTGGATTGAATT
1 AAATGTGAATTGGATTAAATT
*
13758921 AAATGTGAATTGTATTAAATT
1 AAATGTGAATTGGATTAAATT
13758942 GAGTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
AAATGTGAATTGGATTAAATT
Found at i:13759282 original size:24 final size:25
Alignment explanation
Indices: 13759255--13759310 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
13759245 CCCGATAATA
*
13759255 GCTCTCATGAACATCCTGATAT-TG
1 GCTCTCATGAACATCCTAATATATG
** *
13759279 GCTCTTTTGAGCATCCTAATATATG
1 GCTCTCATGAACATCCTAATATATG
*
13759304 ACTCTCA
1 GCTCTCA
13759311 CGAGCTTCTC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (25 bp):
GCTCTCATGAACATCCTAATATATG
Found at i:13759495 original size:24 final size:24
Alignment explanation
Indices: 13759458--13759511 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
13759448 TTCTCAACTA
* *
13759458 ATGGCTCTCCTGAGCTTCCTG-AT
1 ATGGCTCGCATGAGCTTCCTGAAT
13759481 ATTGGCTCGCATGAGCTTCCTGAAT
1 A-TGGCTCGCATGAGCTTCCTGAAT
13759506 ATGGCT
1 ATGGCT
13759512 TTTATAAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 23 0.85
25 3 0.11
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (24 bp):
ATGGCTCGCATGAGCTTCCTGAAT
Found at i:13768971 original size:25 final size:25
Alignment explanation
Indices: 13768929--13768985 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
13768919 AGCTTGTGAA
*
13768929 AGCATACCGATCTTCAGCTCAAATG
1 AGCATACCGATCTACAGCTCAAATG
**
13768954 AGCATACCGAT-TCACAGCTCGTATG
1 AGCATACCGATCT-ACAGCTCAAATG
13768979 AGCATAC
1 AGCATAC
13768986 ATGTACATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (25 bp):
AGCATACCGATCTACAGCTCAAATG
Found at i:13771096 original size:18 final size:18
Alignment explanation
Indices: 13771054--13771098 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
13771044 AACTGTTTCT
*
13771054 AAAAGTCTTGCCTTGAAA
1 AAAAGTGTTGCCTTGAAA
*
13771072 AAAAGTGTTGCCTTGAAG
1 AAAAGTGTTGCCTTGAAA
13771090 AAAAGTGTT
1 AAAAGTGTT
13771099 ATTAGACCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (18 bp):
AAAAGTGTTGCCTTGAAA
Found at i:13777527 original size:21 final size:22
Alignment explanation
Indices: 13777488--13777528 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13777478 GTCAATGTGG
13777488 AATTAAAATTAACTTTTTAAGA
1 AATTAAAATTAACTTTTTAAGA
13777510 AATTAAAATTAA-TTTTTAA
1 AATTAAAATTAACTTTTTAA
13777529 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTAAAATTAACTTTTTAAGA
Found at i:13777966 original size:111 final size:116
Alignment explanation
Indices: 13777776--13777985 Score: 290
Period size: 111 Copynumber: 1.9 Consensus size: 116
13777766 GGATGTTATC
*
13777776 AAAACTTAAGTATGTATATTTTTATTCTTTTAATTTATTTATAAATTAAGAAAAAAAACTCTACT
1 AAAACTTAAGTATGTATATTTTTATTCTATTAATTTATTTATAAATTAAGAAAAAAAACTCTACT
*
13777841 GAGAATGTTTATAAAAAACTTTTAGATTGATAAAAAATTTCTATTGAGAATA
66 GAGAATGTTTATAAAAAACTTTTAGACTGA-AAAAAATTTCTATTGAGAATA
* * * *
13777893 AAAACTTAAGTATGTAT-TTTTT-TT-TATTAATTTATTTGTAAGTTAA-AAAATAATC-CTA-T
1 AAAACTTAAGTATGTATATTTTTATTCTATTAATTTATTTATAAATTAAGAAAAAAAACTCTACT
*
13777952 GA-AGATGTTTATAAAAACCTTTTAGACTGAAAAA
66 GAGA-ATGTTTATAAAAAACTTTTAGACTGAAAAA
13777986 GTAAAATAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
110 5 0.06
111 27 0.32
112 3 0.04
113 7 0.08
114 19 0.22
115 2 0.02
116 5 0.06
117 17 0.20
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.41
Consensus pattern (116 bp):
AAAACTTAAGTATGTATATTTTTATTCTATTAATTTATTTATAAATTAAGAAAAAAAACTCTACT
GAGAATGTTTATAAAAAACTTTTAGACTGAAAAAAATTTCTATTGAGAATA
Found at i:13779774 original size:35 final size:36
Alignment explanation
Indices: 13779719--13779787 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
13779709 TGTCAATCAT
13779719 TTCAATATCCAACAACCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAACCTTAAAACATAATCAATAAA
* *
13779754 TTCATTATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAACCTTAAAACATAATCAATA
13779788 TCTAACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.51, C:0.20, G:0.01, T:0.28
Consensus pattern (36 bp):
TTCAATATCCAACAACCTTAAAACATAATCAATAAA
Found at i:13781784 original size:39 final size:37
Alignment explanation
Indices: 13781721--13781805 Score: 120
Period size: 39 Copynumber: 2.3 Consensus size: 37
13781711 TATTTAACAT
13781721 ATTATTTAT-AAAAAAATATACATTAACA-AAAGTTTG
1 ATTATTTATAAAAAAAATATACATTAACAGAAA-TTTG
13781757 ATTATTTATAAAAAAAATATATACATTAACAGAAATTTG
1 ATTATTTAT-AAAAAAA-ATATACATTAACAGAAATTTG
*
13781796 ATTATATATA
1 ATTATTTATA
13781806 TGAGTTAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 9 0.20
38 7 0.16
39 25 0.57
40 3 0.07
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (37 bp):
ATTATTTATAAAAAAAATATACATTAACAGAAATTTG
Found at i:13782707 original size:28 final size:28
Alignment explanation
Indices: 13782656--13782712 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
13782646 TCTCTAGCAT
**
13782656 CAAATACTAACAGATCATTAAGTGCTAA
1 CAAATACTAACAGATCAGCAAGTGCTAA
*
13782684 CAAATACTAACAGATCAGCCAGTGCTAA
1 CAAATACTAACAGATCAGCAAGTGCTAA
13782712 C
1 C
13782713 CAGAGAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (28 bp):
CAAATACTAACAGATCAGCAAGTGCTAA
Found at i:13788471 original size:18 final size:19
Alignment explanation
Indices: 13788433--13788483 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
13788423 ATTAATATCC
13788433 AAAT-AAGTAATAAATAATA
1 AAATAAAGTAA-AAATAATA
13788452 AAATAAAGTAAAAA-AATA
1 AAATAAAGTAAAAATAATA
*
13788470 AAA-AAAATAAAAAT
1 AAATAAAGTAAAAAT
13788484 TGGGTTGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.31
18 7 0.24
19 7 0.24
20 6 0.21
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (19 bp):
AAATAAAGTAAAAATAATA
Found at i:13794945 original size:15 final size:14
Alignment explanation
Indices: 13794924--13794959 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
13794914 ATAATTCTTA
*
13794924 ATAATTATCTTAAT
1 ATAATTATCCTAAT
13794938 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
13794953 ATAATTA
1 ATAATTA
13794960 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:13796669 original size:17 final size:15
Alignment explanation
Indices: 13796639--13796672 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
13796629 TTGTATAATT
13796639 GAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAA
13796654 GAAAAAGAAGAAAAAAA
1 GAAAAA-AA-AAAAAAA
13796671 GA
1 GA
13796673 GTGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 2 0.12
17 9 0.53
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAAAAA
Found at i:13796986 original size:3 final size:3
Alignment explanation
Indices: 13796978--13797012 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
13796968 GATTTAATTA
*
13796978 CTT CTT CTT CTT CTT CTT CTA CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
13797013 CTAGGTCTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:13799922 original size:22 final size:20
Alignment explanation
Indices: 13799876--13799943 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
13799866 ATTCTAGAAA
13799876 ATTTT-TAATTTTTTAAATT
1 ATTTTATAATTTTTTAAATT
13799895 -TCTTTATATATTTTTTAGAATT
1 AT-TTTATA-ATTTTTTA-AATT
* **
13799917 ATTTTAAAAAATTTTATAATT
1 ATTTTATAATTTTTTA-AATT
13799938 ATTTTA
1 ATTTTA
13799944 AAAATATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.03
19 3 0.08
20 2 0.05
21 24 0.60
22 9 0.22
23 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (20 bp):
ATTTTATAATTTTTTAAATT
Found at i:13799931 original size:21 final size:21
Alignment explanation
Indices: 13799907--13799947 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13799897 TTTATATATT
13799907 TTTTAGAATTATTTTAAAAAA
1 TTTTAGAATTATTTTAAAAAA
*
13799928 TTTTATAATTATTTTAAAAA
1 TTTTAGAATTATTTTAAAAA
13799948 TATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTAGAATTATTTTAAAAAA
Found at i:13800001 original size:19 final size:18
Alignment explanation
Indices: 13799972--13800016 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
13799962 TTTTTATAAA
13799972 TATTTTGAATTCTAAAAAT
1 TATTTT-AATTCTAAAAAT
* *
13799991 TAATTTTAATTTTGAAAAT
1 T-ATTTTAATTCTAAAAAT
13800010 TATTTTA
1 TATTTTA
13800017 CATTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 12 0.52
20 5 0.22
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATTTTAATTCTAAAAAT
Found at i:13800021 original size:19 final size:19
Alignment explanation
Indices: 13799986--13800022 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13799976 TTGAATTCTA
13799986 AAAATTAATTTTAATTTTG
1 AAAATTAATTTTAATTTTG
13800005 AAAATT-ATTTTACATTTT
1 AAAATTAATTTTA-ATTTT
13800023 TTATTGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (19 bp):
AAAATTAATTTTAATTTTG
Found at i:13801684 original size:18 final size:19
Alignment explanation
Indices: 13801636--13801685 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
13801626 AAGATTTACT
*
13801636 AAAATATTAAAAATTTGTAA
1 AAAATATT-AAAATTAGTAA
*
13801656 AACATTATTAAAATTAG-AA
1 AA-AATATTAAAATTAGTAA
13801675 AAAATATTAAA
1 AAAATATTAAA
13801686 TAAGATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 9 0.35
21 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
AAAATATTAAAATTAGTAA
Found at i:13803738 original size:28 final size:28
Alignment explanation
Indices: 13803711--13803811 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
13803701 CCCTTTGTTT
* *
13803711 TGTTAAGCACTACGGTGCTATTCTGTTT
1 TGTTAAGCACTACGGTGCTATTCTGATA
* *
13803739 TGTTATA-CACTTCGGTGCTGTTCTGATA
1 TGTTA-AGCACTACGGTGCTATTCTGATA
* * *
13803767 TGATAAGCACTTCAGTGCTATTCTGATA
1 TGTTAAGCACTACGGTGCTATTCTGATA
*
13803795 TGCTAAGCACTACGGTG
1 TGTTAAGCACTACGGTG
13803812 TTGTTATGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
27 1 0.02
28 59 0.97
29 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (28 bp):
TGTTAAGCACTACGGTGCTATTCTGATA
Found at i:13803811 original size:56 final size:56
Alignment explanation
Indices: 13803714--13803854 Score: 133
Period size: 56 Copynumber: 2.5 Consensus size: 56
13803704 TTTGTTTTGT
* * * * * * *
13803714 TAAGCACTACGGTGCTATTCTGTTTTGTTATACACTTCGGTGCTGTTCTGATATGA
1 TAAGCACTTCAGTGCTATTCTGATATGCTATACACTACGGTGCTGTTATGATATGA
* * *
13803770 TAAGCACTTCAGTGCTATTCTGATATGCTA-AGCACTACGGTGTTGTTATGTTCTGA
1 TAAGCACTTCAGTGCTATTCTGATATGCTATA-CACTACGGTGCTGTTATGATATGA
*
13803826 TAACGCACCTT-AGTGCCATTCTGCATATG
1 TAA-GCA-CTTCAGTGCTATTCTG-ATATG
13803855 TTCCGTATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
55 1 0.01
56 47 0.67
57 14 0.20
58 8 0.11
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (56 bp):
TAAGCACTTCAGTGCTATTCTGATATGCTATACACTACGGTGCTGTTATGATATGA
Found at i:13804252 original size:31 final size:31
Alignment explanation
Indices: 13804214--13804276 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
13804204 TTGGTTTAGT
13804214 TTGGCATGTACATACGTAACATGGTATGAGA
1 TTGGCATGTACATACGTAACATGGTATGAGA
13804245 TTGGCATGTACATACGTAACATGGTATGAGA
1 TTGGCATGTACATACGTAACATGGTATGAGA
13804276 T
1 T
13804277 ATCGATATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (31 bp):
TTGGCATGTACATACGTAACATGGTATGAGA
Found at i:13804788 original size:6 final size:6
Alignment explanation
Indices: 13804777--13804801 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13804767 AAGTTAAAAG
13804777 TATGTA TATGTA TATGTA TATGTA T
1 TATGTA TATGTA TATGTA TATGTA T
13804802 TATATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TATGTA
Found at i:13811976 original size:42 final size:43
Alignment explanation
Indices: 13811866--13812008 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
13811856 AGCTCGTACA
* * *
13811866 ATGCCAAC-GTCCCAGACGTGGTCTTACATGAAATCAAATATTG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
13811909 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
13811951 ATGTCGA-TGTCCCAGACATGGTCTTACTCGTAAATCTCAA-ATCG
1 ATG-CCACTGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
*
13811995 ATGCCAATGTCCCA
1 ATGCCACTGTCCCA
13812009 AACGTTGTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
42 26 0.32
43 42 0.52
44 13 0.16
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:13814504 original size:19 final size:19
Alignment explanation
Indices: 13814466--13814505 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13814456 AAAATATCAT
* *
13814466 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
13814485 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
13814504 AT
1 AT
13814506 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:13818455 original size:42 final size:42
Alignment explanation
Indices: 13818307--13818474 Score: 221
Period size: 42 Copynumber: 3.9 Consensus size: 42
13818297 CGTTTACAAA
* *
13818307 AAAAAAACGCCGCTAAAGACCAAGTTCTTTAGCGGCGCTTTG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTG
*
13818349 -AAAAAACGGCGCTAAAGAACATGTTCTTTTCTTTAGCGGCGCTTTG
1 AAAAAAACGCCGCTAAAGAACATG-----TTCTTTAGCGGCGCTTTG
*
13818395 AAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
1 -AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTG
* *
13818438 AAAAAAACGCCGCTAAAGAACATGATGTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
13818475 TTTTTTTTGG
Statistics
Matches: 112, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
41 20 0.18
42 35 0.31
43 17 0.15
46 18 0.16
48 22 0.20
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTG
Found at i:13824366 original size:25 final size:25
Alignment explanation
Indices: 13824335--13824439 Score: 113
Period size: 25 Copynumber: 4.2 Consensus size: 25
13824325 TAATATATAT
*
13824335 TTATGTATTAAGTAAATTATGTAGG
1 TTATGTATTAAGTAAATTATGTAAG
* *
13824360 TTATGTACGTATA-TAAGTTATGTAAG
1 TTATGTA-TTA-AGTAAATTATGTAAG
* *
13824386 TTTTGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
13824411 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
13824436 TTAT
1 TTAT
13824440 CAAAGTAATG
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.68
26 19 0.29
27 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:13824385 original size:9 final size:9
Alignment explanation
Indices: 13824346--13824587 Score: 128
Period size: 9 Copynumber: 27.8 Consensus size: 9
13824336 TATGTATTAA
*
13824346 GTAAATTAT
1 GTAAGTTAT
*
13824355 GTAGGTTAT
1 GTAAGTTAT
*
13824364 GTACG-TAT
1 GTAAGTTAT
*
13824372 ATAAGTTAT
1 GTAAGTTAT
*
13824381 GTAAGTTTT
1 GTAAGTTAT
*
13824390 GT-A-TTAA
1 GTAAGTTAT
**
13824397 GTAAACTAT
1 GTAAGTTAT
*
13824406 GTAAGTTGT
1 GTAAGTTAT
13824415 GT-A-TTAT
1 GTAAGTTAT
*
13824422 GTAACTTAT
1 GTAAGTTAT
13824431 GTAAGTTAT
1 GTAAGTTAT
** *
13824440 CAAAGTAAT
1 GTAAGTTAT
*
13824449 GTATGTTAT
1 GTAAGTTAT
13824458 GTAAG-T-T
1 GTAAGTTAT
13824465 GTAAGTTAT
1 GTAAGTTAT
*
13824474 -TATGTATTAT
1 GTAAG--TTAT
* * *
13824484 ATAACTTCT
1 GTAAGTTAT
13824493 GTAAGTTAT
1 GTAAGTTAT
* *
13824502 GTGAGTTGT
1 GTAAGTTAT
*
13824511 GTAAGCTAT
1 GTAAGTTAT
* *
13824520 TTTAGTTAT
1 GTAAGTTAT
13824529 GTAAGCTT-T
1 GTAAG-TTAT
*
13824538 G-CA-TTAT
1 GTAAGTTAT
13824545 GTAAGTTAT
1 GTAAGTTAT
* *
13824554 GTAGGTTAA
1 GTAAGTTAT
*
13824563 GTAAGTTGT
1 GTAAGTTAT
*
13824572 GTAAATTAT
1 GTAAGTTAT
13824581 GTAAGTT
1 GTAAGTT
13824588 CTTGTACATA
Statistics
Matches: 168, Mismatches: 51, Indels: 28
0.68 0.21 0.11
Matches are distributed among these distances:
6 2 0.01
7 17 0.10
8 17 0.10
9 124 0.74
10 6 0.04
11 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:13824407 original size:51 final size:50
Alignment explanation
Indices: 13824338--13824437 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
13824328 TATATATTTA
* * *
13824338 TGTATTAAGTAAATTATGTAGGTTATGTACGTATATAAGTTATGTAAGTTT
1 TGTATTAAGTAAACTATGTAAGTTATGTA-GTATATAACTTATGTAAGTTT
* * *
13824389 TGTATTAAGTAAACTATGTAAGTTGTGTATTATGTAACTTATGTAAGTT
1 TGTATTAAGTAAACTATGTAAGTTATGTAGTATATAACTTATGTAAGTT
13824438 ATCAAAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 17 0.40
51 26 0.60
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (50 bp):
TGTATTAAGTAAACTATGTAAGTTATGTAGTATATAACTTATGTAAGTTT
Found at i:13824761 original size:26 final size:26
Alignment explanation
Indices: 13824732--13824833 Score: 80
Period size: 26 Copynumber: 3.9 Consensus size: 26
13824722 TTTATAGCGG
* *
13824732 GTAATGTATTCAAGTAACATATTTAA
1 GTAATATATTCAAGTAATATATTTAA
* * * ** *
13824758 GTAAAAAATTTAACCAA-ATTTTAGTAA
1 GTAATATATTCAAGTAATATATT--TAA
* * *
13824785 GTAATGTATTTAAGTAATTTATTTAA
1 GTAATATATTCAAGTAATATATTTAA
13824811 GTAATATATTCAAGTAATATATT
1 GTAATATATTCAAGTAATATATT
13824834 AAGAGTAAAA
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
25 4 0.07
26 34 0.61
27 15 0.27
28 3 0.05
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (26 bp):
GTAATATATTCAAGTAATATATTTAA
Found at i:13824800 original size:13 final size:13
Alignment explanation
Indices: 13824782--13824833 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
13824772 CAAATTTTAG
*
13824782 TAAGTAATGTATT
1 TAAGTAATATATT
*
13824795 TAAGTAATTTATT
1 TAAGTAATATATT
13824808 TAAGTAATATATT
1 TAAGTAATATATT
*
13824821 CAAGTAATATATT
1 TAAGTAATATATT
13824834 AAGAGTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:13825012 original size:100 final size:100
Alignment explanation
Indices: 13824902--13825807 Score: 1633
Period size: 100 Copynumber: 9.1 Consensus size: 100
13824892 TATACTTAAA
*
13824902 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
13824967 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* * *
13825002 ATATATATTTAAGTCATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
13825067 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
13825102 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
13825167 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* * *
13825202 ATATATATTGAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
13825267 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
*
13825302 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
13825367 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
**
13825402 ATATATATTCCCA-TAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTA
1 ATATATATT-TAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTA
13825466 GTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
65 GTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* *
13825502 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
13825567 TAATAAGTTAAATTAAATTGTAAAAATATTAAC--
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* *
13825600 ATATATATTTAAGTCATGTAACATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
13825665 TAATAAGTTAAATTAAATTGTAAAAATATTAAC--
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
*
13825698 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
13825763 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
13825798 ATATATATTT
1 ATATATATTT
13825808 TTTTAATATT
Statistics
Matches: 780, Mismatches: 22, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
98 193 0.25
99 1 0.00
100 585 0.75
101 1 0.00
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (100 bp):
ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
Found at i:13825835 original size:46 final size:44
Alignment explanation
Indices: 13825785--13825870 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
13825775 TTAAATTGTA
*
13825785 AAAATATTAACATATATATATTTTTTTAATATTAATAAGTTATGAT
1 AAAATA-TAACA-ATATATACTTTTTTAATATTAATAAGTTATGAT
**
13825831 AAAATATATGAATATATACTTTTTTAATATTAATAAGTTA
1 AAAATATAACAATATATACTTTTTTAATATTAATAAGTTA
13825871 AATAAAAACT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 28 0.76
45 3 0.08
46 6 0.16
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (44 bp):
AAAATATAACAATATATACTTTTTTAATATTAATAAGTTATGAT
Found at i:13826235 original size:7 final size:7
Alignment explanation
Indices: 13826210--13826296 Score: 93
Period size: 7 Copynumber: 12.3 Consensus size: 7
13826200 CATTTCATTC
13826210 AACAGAA
1 AACAGAA
*
13826217 AATAGCAA
1 AACAG-AA
13826225 AACAGAA
1 AACAGAA
*
13826232 AACAAAA
1 AACAGAA
*
13826239 AATAGAA
1 AACAGAA
13826246 AACAGAA
1 AACAGAA
13826253 AACAGAA
1 AACAGAA
**
13826260 TGCAGAA
1 AACAGAA
*
13826267 AATAGAA
1 AACAGAA
*
13826274 AACAAAA
1 AACAGAA
*
13826281 AACAAAA
1 AACAGAA
13826288 AACAGAA
1 AACAGAA
13826295 AA
1 AA
13826297 TAAAGAAACA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
7 59 0.91
8 6 0.09
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.05
Consensus pattern (7 bp):
AACAGAA
Found at i:13826245 original size:14 final size:14
Alignment explanation
Indices: 13826223--13826313 Score: 74
Period size: 14 Copynumber: 6.4 Consensus size: 14
13826213 AGAAAATAGC
*
13826223 AAAACAGAAAACAA
1 AAAATAGAAAACAA
*
13826237 AAAATAGAAAACAG
1 AAAATAGAAAACAA
* ** *
13826251 AAAACAGAATGCAG
1 AAAATAGAAAACAA
13826265 AAAATAGAAAACAA
1 AAAATAGAAAACAA
* * *
13826279 AAAACAAAAAACAG
1 AAAATAGAAAACAA
*
13826293 AAAATAAAGAAACATA
1 AAAATAGA-AAACA-A
13826309 AAAAT
1 AAAAT
13826314 GGTACAGAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
14 51 0.84
15 5 0.08
16 5 0.08
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAATAGAAAACAA
Found at i:13826256 original size:28 final size:28
Alignment explanation
Indices: 13826213--13826298 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
13826203 TTCATTCAAC
* *
13826213 AGAAAATAGCAAAACAGAAAACAAAAAAT
1 AGAAAACAG-AAAACAGAAAACAGAAAAT
**
13826242 AGAAAACAGAAAACAGAATGCAGAAAAT
1 AGAAAACAGAAAACAGAAAACAGAAAAT
* *
13826270 AGAAAACAAAAAACAAAAAACAGAAAAT
1 AGAAAACAGAAAACAGAAAACAGAAAAT
13826298 A
1 A
13826299 AAGAAACATA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 41 0.84
29 8 0.16
ACGTcount: A:0.72, C:0.10, G:0.12, T:0.06
Consensus pattern (28 bp):
AGAAAACAGAAAACAGAAAACAGAAAAT
Found at i:13826287 original size:6 final size:7
Alignment explanation
Indices: 13826223--13826312 Score: 54
Period size: 7 Copynumber: 12.6 Consensus size: 7
13826213 AGAAAATAGC
*
13826223 AAAACAG
1 AAAACAA
13826230 AAAACAA
1 AAAACAA
* *
13826237 AAAATAG
1 AAAACAA
*
13826244 AAAACAG
1 AAAACAA
*
13826251 AAAACAG
1 AAAACAA
** *
13826258 AATGCAG
1 AAAACAA
* *
13826265 AAAATAG
1 AAAACAA
13826272 AAAACAA
1 AAAACAA
13826279 AAAACAA
1 AAAACAA
*
13826286 AAAACAG
1 AAAACAA
*
13826293 AAAATAA
1 AAAACAA
13826300 AGAAACATA
1 A-AAACA-A
13826309 AAAA
1 AAAA
13826313 TGGTACAGAA
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
7 57 0.86
8 7 0.11
9 2 0.03
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.06
Consensus pattern (7 bp):
AAAACAA
Found at i:13826289 original size:21 final size:21
Alignment explanation
Indices: 13826223--13826312 Score: 90
Period size: 21 Copynumber: 4.2 Consensus size: 21
13826213 AGAAAATAGC
* *
13826223 AAAACAGAAAACAAAAAATAG
1 AAAACAGAAAACAAAAAACAA
* ** *
13826244 AAAACAGAAAACAGAATGCAG
1 AAAACAGAAAACAAAAAACAA
*
13826265 AAAATAGAAAACAAAAAACAA
1 AAAACAGAAAACAAAAAACAA
*
13826286 AAAACAGAAAATAAAGAAACATA
1 AAAACAGAAAACAAA-AAACA-A
13826309 AAAA
1 AAAA
13826313 TGGTACAGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 46 0.82
22 5 0.09
23 5 0.09
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAACAGAAAACAAAAAACAA
Found at i:13826342 original size:18 final size:19
Alignment explanation
Indices: 13826300--13826343 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
13826290 CAGAAAATAA
*
13826300 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
13826319 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
13826337 AGAAACA
1 AGAAACA
13826344 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:13827111 original size:10 final size:10
Alignment explanation
Indices: 13827096--13827120 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13827086 TTCGACATGG
13827096 TTTTGAACAA
1 TTTTGAACAA
13827106 TTTTGAACAA
1 TTTTGAACAA
13827116 TTTTG
1 TTTTG
13827121 CAATTTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (10 bp):
TTTTGAACAA
Found at i:13827959 original size:198 final size:198
Alignment explanation
Indices: 13827620--13828011 Score: 615
Period size: 198 Copynumber: 2.0 Consensus size: 198
13827610 AATTAACCCA
* *
13827620 TTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGTT
1 TTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGTA
** * * * *
13827685 AACTCTAAGTCATTGCGTTTTAGAGAAAACAACATCGTCTCCATAAAAATTAAAACATTTTTGCG
66 AACTAAAACTCATGGCGTTTTAGACAAAACAACATCGTCTCCATAAAAATTAAAACAATTTTGCG
* * *
13827750 GCGTTTACTAAAAGCGCCACTAAA-AGTAAATAAGAAAACGAAGCCGTTTTCCTAAACAAATTCT
131 GCGTGTACTAAAAGCGCCACTAAAGA-TAAATAAGAAAACGAAGCCATTTTCATAAACAAATTCT
13827814 GTAC
195 GTAC
* *
13827818 TTTGCGGCGTTTATATACTAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATTAGTA
1 TTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGTA
* *
13827883 AACTAAAACTCATGGCGTTTTAGACAAAACGACATCGTCTCCATAAAAATTAAAATAATTTTGCG
66 AACTAAAACTCATGGCGTTTTAGACAAAACAACATCGTCTCCATAAAAATTAAAACAATTTTGCG
* *
13827948 GCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGGAGCCATTTTCATAAACAATTTCT
131 GCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCATTTTCATAAACAAATTCT
13828012 TAAAATTGCT
Statistics
Matches: 176, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
198 175 0.99
199 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (198 bp):
TTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGTA
AACTAAAACTCATGGCGTTTTAGACAAAACAACATCGTCTCCATAAAAATTAAAACAATTTTGCG
GCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCATTTTCATAAACAAATTCTG
TAC
Found at i:13828511 original size:48 final size:47
Alignment explanation
Indices: 13828418--13828509 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
13828408 GTTAATTTCG
* **
13828418 GTAATATTTAAAAAAATTAGATAAAATTATCATTCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAATAAAAATTCTCAGTTTTTTAA
* * *
13828465 GTAATATTTATAAAAATTAGGTAAAAATAAAAATT-TTAGTTTTTT
1 GTAATATTTAAAAAAATTAGAT-AAAATAAAAATTCTCAGTTTTTT
13828510 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 29 0.76
48 9 0.24
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAATAAAAATTCTCAGTTTTTTAA
Found at i:13828525 original size:18 final size:19
Alignment explanation
Indices: 13828497--13828545 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
13828487 AAAAATAAAA
13828497 ATTTTAGTTTTTTTA-TTTC
1 ATTTTA-TTTTTTTATTTTC
*
13828516 TTTTTA-TTTTTTATTTTC
1 ATTTTATTTTTTTATTTTC
13828534 ATTTTATTTTTT
1 ATTTTATTTTTT
13828546 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 10 0.38
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (19 bp):
ATTTTATTTTTTTATTTTC
Found at i:13828527 original size:17 final size:18
Alignment explanation
Indices: 13828505--13828545 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
13828495 AAATTTTAGT
*
13828505 TTTTTTA-TTTCTTTTTA
1 TTTTTTATTTTCATTTTA
13828522 TTTTTTATTTTCATTTTA
1 TTTTTTATTTTCATTTTA
13828540 TTTTTT
1 TTTTTT
13828546 GTAATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTCATTTTA
Found at i:13828610 original size:16 final size:14
Alignment explanation
Indices: 13828581--13828607 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13828571 TTTACAATTC
13828581 CAAATTATTATATT
1 CAAATTATTATATT
13828595 CAAATTATTATAT
1 CAAATTATTATAT
13828608 ATTGCATATC
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:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:13828803 original size:95 final size:97
Alignment explanation
Indices: 13828678--13828866 Score: 240
Period size: 95 Copynumber: 2.0 Consensus size: 97
13828668 TATAAAGAAC
* * * * * * * *
13828678 TTATTTAATATGTTAATTAAATAAGTACTAATTAATCCAAATCTTAATCCCTAACCCGA-CTCCA
1 TTATTTAATATATAAAATAAATAAATACTAATTAATCCAAACCTTAAACCATAACCCAATC-CCA
13828742 AACCCATAA-CCCTAACCCCTAACCCCTAAACT
65 AACCCATAACCCCTAACCCCTAACCCCTAAACT
* *
13828774 TTATTTAATATATAAAATAAA-AAATACTAATTAATCTAAACCTTAAACCATAACCCAATCCCTA
1 TTATTTAATATATAAAATAAATAAATACTAATTAATCCAAACCTTAAACCATAACCCAATCCCAA
* *
13828838 ACCCCTAACCCCTAACCCTTAACCCCTAA
66 ACCCATAACCCCTAACCCCTAACCCCTAA
13828867 CCCTTAACCC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
95 41 0.52
96 38 0.48
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.28
Consensus pattern (97 bp):
TTATTTAATATATAAAATAAATAAATACTAATTAATCCAAACCTTAAACCATAACCCAATCCCAA
ACCCATAACCCCTAACCCCTAACCCCTAAACT
Found at i:13828845 original size:7 final size:7
Alignment explanation
Indices: 13828833--13828915 Score: 103
Period size: 7 Copynumber: 11.9 Consensus size: 7
13828823 ATAACCCAAT
13828833 CCCTAAC
1 CCCTAAC
13828840 CCCTAAC
1 CCCTAAC
13828847 CCCTAAC
1 CCCTAAC
*
13828854 CCTTAAC
1 CCCTAAC
13828861 CCCTAAC
1 CCCTAAC
*
13828868 CCTTAAC
1 CCCTAAC
*
13828875 CCTTAAC
1 CCCTAAC
*
13828882 CCTTAAC
1 CCCTAAC
* *
13828889 CCATGAC
1 CCCTAAC
*
13828896 CTCTAAC
1 CCCTAAC
13828903 CCCTAAC
1 CCCTAAC
13828910 CCCTAA
1 CCCTAA
13828916 AACTTATTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 67 1.00
ACGTcount: A:0.29, C:0.49, G:0.01, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:13829023 original size:21 final size:19
Alignment explanation
Indices: 13829015--13829065 Score: 84
Period size: 21 Copynumber: 2.6 Consensus size: 19
13829005 CTCTTAACAT
13829015 CTAACCCCTAACCTAACCC
1 CTAACCCCTAACCTAACCC
13829034 CTAACCCCTAACCCATAACCC
1 CTAACCCCTAA-CC-TAACCC
13829055 CTAACCCCTAA
1 CTAACCCCTAA
13829066 TCTATAAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.16
Consensus pattern (19 bp):
CTAACCCCTAACCTAACCC
Found at i:13829026 original size:14 final size:14
Alignment explanation
Indices: 13829015--13829065 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
13829005 CTCTTAACAT
13829015 CTAACCCCTAA--C
1 CTAACCCCTAACCC
13829027 CTAACCCCTAACCC
1 CTAACCCCTAACCC
*
13829041 CTAACCCATAACCC
1 CTAACCCCTAACCC
13829055 CTAACCCCTAA
1 CTAACCCCTAA
13829066 TCTATAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.31
14 24 0.69
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.16
Consensus pattern (14 bp):
CTAACCCCTAACCC
Found at i:13829036 original size:33 final size:33
Alignment explanation
Indices: 13828993--13829060 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
13828983 TTTTATAAAT
* * *
13828993 CCTAAACCCTAACTCTTAACATC-TAACCCCTAA
1 CCTAAACCCTAACCCCTAAC-CCATAACCCCTAA
*
13829026 CCTAACCCCTAACCCCTAACCCATAACCCCTAA
1 CCTAAACCCTAACCCCTAACCCATAACCCCTAA
13829059 CC
1 CC
13829061 CCTAATCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (33 bp):
CCTAAACCCTAACCCCTAACCCATAACCCCTAA
Found at i:13829072 original size:21 final size:21
Alignment explanation
Indices: 13828993--13829072 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
13828983 TTTTATAAAT
* *
13828993 CCTAAACCCTAACTCT-TAACA
1 CCTAACCCCTAA-TCTATAACC
* *
13829014 TCTAACCCCTAA-C-CTAACC
1 CCTAACCCCTAATCTATAACC
* *
13829033 CCTAACCCCTAACCCATAACC
1 CCTAACCCCTAATCTATAACC
13829054 CCTAACCCCTAATCTATAA
1 CCTAACCCCTAATCTATAA
13829073 ACCTTCAATC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
19 16 0.33
20 1 0.02
21 32 0.65
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (21 bp):
CCTAACCCCTAATCTATAACC
Found at i:13829580 original size:114 final size:113
Alignment explanation
Indices: 13829454--13829671 Score: 255
Period size: 114 Copynumber: 1.9 Consensus size: 113
13829444 GCTTTACCGA
* *
13829454 AAACGCCGCTAA-TACTATTC-TTTAGCAGCGTTTTATCATAAACGCCACTAAT-TCTAATATAC
1 AAACGCCACTAATTA-TATTCTTTTA-CAGCGTTTTATCAAAAACGCCACTAATAT-TAATATAC
*
13829516 ATCAAAACCAAACACTGCGTTTTGGTTAAGGCAT-TTTGCGGCGCTTCCAAAT
63 ATCAAAACCAAACACTGCGTTTTCGTTAA-G-ATATTTGCGGCGCTTCCAAAT
* * * * * *
13829568 AAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAATATTAATCTACCTC
1 AAACGCCACTAATTATATTCTTTTACAGCGTTTTATCAAAAACGCCACTAATATTAATATACATC
* **
13829633 AAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCG
66 AAAACCAAACACTGCGTTTTCGTTAAGATATTTGCGGCG
13829672 TTTTATCGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
112 2 0.02
113 10 0.11
114 69 0.78
115 7 0.08
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (113 bp):
AAACGCCACTAATTATATTCTTTTACAGCGTTTTATCAAAAACGCCACTAATATTAATATACATC
AAAACCAAACACTGCGTTTTCGTTAAGATATTTGCGGCGCTTCCAAAT
Found at i:13829685 original size:74 final size:75
Alignment explanation
Indices: 13829607--13829746 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 75
13829597 GTTTTTTTAA
* * *
13829607 AAACGCCACTAATAT-TAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGG
13829670 CGTTTTATCGT
65 CGTTTTATCGT
* *
13829681 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGC
13829746 G
66 G
13829747 CATAAAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
73 1 0.02
74 49 0.83
75 9 0.15
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (75 bp):
AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGC
GTTTTATCGT
Found at i:13829697 original size:188 final size:188
Alignment explanation
Indices: 13829481--13829881 Score: 658
Period size: 188 Copynumber: 2.1 Consensus size: 188
13829471 TTCTTTAGCA
*
13829481 GCGTTTTATCATAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
1 GCGTTTTATCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
* ** *
13829546 GCATTTTGCGGCGCTTCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAAC
66 GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
* * *
13829611 GCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCATTTTCATTAAGATATTTGCG
* *
13829669 GCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAG
1 GCGTTTTATCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
*
13829734 GTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
66 GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
*
13829799 GCCACTAATACTAATCTACCTCAAGACGAAACGGTGCATTTTCATTAAGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCATTTTCATTAAGATATTTGCG
* * * *
13829857 GCGCTTTACCGAAAACGCCGCTAAT
1 GCGTTTTATCGTAAACGCCACTAAT
13829882 ACTATTCTTT
Statistics
Matches: 197, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
188 197 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (188 bp):
GCGTTTTATCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCATTTTCATTAAGATATTTGCG
Found at i:13829806 original size:114 final size:114
Alignment explanation
Indices: 13829681--13830266 Score: 485
Period size: 114 Copynumber: 5.1 Consensus size: 114
13829671 GTTTTATCGT
13829681 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
*
13829746 GCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAA
66 GCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
* * * * * * ** *
13829795 AAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCATTTTCATTAAGATA-TTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* *** * * *
13829859 GCTTTACCGA-AAACGCCGCTAA-TACTATTCTTTTGCGGCG-TTTTATATA
66 GC-ATAAAAATAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTATA-A
* ** *
13829908 AAACGCCAC-AATGTCTAATATACAAT-TGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCA
1 AAACGCCACTAAT-TCTAATATAC-CTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCG
** * *
13829971 GCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCATTTTTTTAA
64 GCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
* * ** * ** *
13830022 AAACGCCACTAATAT-TAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
* ***** * * ** *
13830085 CGCTTTTTGTTAAACGCCGCTAA-TACTATTCTTTCGCGGCATTTTTTTTATAAA
65 CGCATAAAAATAAACGCCACTAATTA-TGTTCTTTTACGGC---GTTTTTAT-AA
* * ** *
13830139 AAACGCCACGAATTCTAATATACAAT-TGAACC-AACGCTGCATTTTGGTTAAGGTATTTTGCGG
1 AAACGCCACTAATTCTAATATAC-CTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
* * * * *
13830202 CGC-TTACAATAAACGCCACTAATTATGTTCTTTTACTGCGTTTTTTTAG
65 CGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
*
13830251 AAACGCCACTAGTTCT
1 AAACGCCACTAATTCT
13830267 TCAGGTTTTA
Statistics
Matches: 361, Mismatches: 91, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
112 28 0.08
113 116 0.32
114 121 0.34
115 12 0.03
116 49 0.14
117 34 0.09
118 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (114 bp):
AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
GCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
Found at i:13829963 original size:227 final size:227
Alignment explanation
Indices: 13829663--13830261 Score: 850
Period size: 227 Copynumber: 2.6 Consensus size: 227
13829653 CGTTAAGATA
* * * **
13829663 TTTGCGGCGTTTTATCGT-AAACGCCACTAATTCTAATATAC-CTCAAAACCAAACGCTGCGTTT
1 TTTGCGGCGTTTTAT-ATAAAACGCCACGAATTCTAATATACAAT-TGAACCAAACGCTGCGTTT
13829726 TGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT
64 TGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT
* *
13829791 CTAAAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCATTTTCATTAAGATATTTGC
129 TTAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCATTTTCATTAAGATATTTGC
13829856 GGCGCTTTACCG-AAAACGCCGCTAATACTATTCT
194 GGCGCTTT-CCGTAAAACGCCGCTAATACTATTCT
13829890 TTTGCGGCGTTTTATATAAAACGCCAC-AATGTCTAATATACAATTGAACCAAACGCTGCGTTTT
1 TTTGCGGCGTTTTATATAAAACGCCACGAAT-TCTAATATACAATTGAACCAAACGCTGCGTTTT
* ** *
13829954 GGTTAAGGTATTTTGCAGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCATTTTTT
65 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
* * * *
13830019 TAAAAACGCCACTAATATTAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATATTTGCG
130 TAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCATTTTCATTAAGATATTTGCG
** *
13830084 GCGCTTTTTGTTAAACGCCGCTAATACTATTCT
195 GCGCTTTCCGTAAAACGCCGCTAATACTATTCT
* * * *
13830117 TTCGCGGCATTTTTTTTATAAAAAACGCCACGAATTCTAATATACAATTGAACC-AACGCTGCAT
1 TTTGCGGC----GTTTTATATAAAACGCCACGAATTCTAATATACAATTGAACCAAACGCTGCGT
* * *
13830181 TTTGGTTAAGGTATTTTGCGGCGC-TTACAATAAACGCCACTAATTATGTTCTTTTACTGCGTTT
62 TTTGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTT
*
13830245 TTTTAGAAACGCCACTA
127 TTTTAAAAACGCCACTA
13830262 GTTCTTCAGG
Statistics
Matches: 335, Mismatches: 28, Indels: 16
0.88 0.07 0.04
Matches are distributed among these distances:
226 5 0.01
227 207 0.62
228 1 0.00
229 51 0.15
230 32 0.10
231 36 0.11
232 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (227 bp):
TTTGCGGCGTTTTATATAAAACGCCACGAATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
GTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTT
AAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCATTTTCATTAAGATATTTGCGG
CGCTTTCCGTAAAACGCCGCTAATACTATTCT
Found at i:13832774 original size:97 final size:95
Alignment explanation
Indices: 13832665--13832982 Score: 451
Period size: 96 Copynumber: 3.3 Consensus size: 95
13832655 AACAACTAGT
* *
13832665 TTTATTTGA-TTTTTCCTTAAAAATCCTAAATACTAAACCCCAATCTAAATTTTTTAAAAATTTA
1 TTTATTT-ATTTTTTCCTTAAAAA-CCTAAACACTAAACCCTAATCT-AATTTTTTAAAAATTTA
* *
13832729 TAATTAATTTACTCAAGTAATCGTAAACCCTAA
63 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
13832762 TTTATTTCATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCT-ATTTTTTAAAAAATTTA
1 TTTATTT-ATTTTTTCCTTAAAAA-CCTAAACACTAAACCCTAATCTAATTTTTT-AAAAATTTA
*
13832826 TAATTAGTTTACTCAAGTAACCCTAAACCCTAA
63 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
*
13832859 TTTATTTATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATATAATTTTTTAAAAATTTATA
1 TTTATTTATTTTTTCCTTAAAAACC-TAAACACTAAACCCTAATCTAATTTTTTAAAAATTTATA
* * * *
13832924 ATTAATTTAATTAAGAAACCCTAAACCCTTA
65 ATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
13832955 TTTTTTTATTTTTTCCTTAAAACCCTAA
1 TTTATTTATTTTTTCCTTAAAAACCTAA
13832983 TATCTAAAAT
Statistics
Matches: 202, Mismatches: 15, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
95 5 0.02
96 102 0.50
97 61 0.30
98 34 0.17
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.42
Consensus pattern (95 bp):
TTTATTTATTTTTTCCTTAAAAACCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTATAA
TTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:13833144 original size:40 final size:40
Alignment explanation
Indices: 13833087--13833206 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 40
13833077 AAGCACTTTG
*
13833087 TCCACGTGGACACAAAGCGCTCTC-TCAAGGAAGCGTTTTCTA
1 TCCACGTGG--ACAAAGCGCT-TCGTTAAGGAAGCGTTTTCTA
* * * *
13833129 TCCACGTGGATAAAGCGCTTCGTTGAGGAAGCGTTTTTTG
1 TCCACGTGGACAAAGCGCTTCGTTAAGGAAGCGTTTTCTA
* * *
13833169 TCCACGTGGACAAAGTGCTTCTTTAAGGAAGCTTTTTC
1 TCCACGTGGACAAAGCGCTTCGTTAAGGAAGCGTTTTC
13833207 CTGCTTTATG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.03
40 55 0.83
42 9 0.14
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (40 bp):
TCCACGTGGACAAAGCGCTTCGTTAAGGAAGCGTTTTCTA
Found at i:13834990 original size:13 final size:13
Alignment explanation
Indices: 13834972--13834996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13834962 TAATTTATAT
13834972 GTGTGAAAATTTC
1 GTGTGAAAATTTC
13834985 GTGTGAAAATTT
1 GTGTGAAAATTT
13834997 TACCGTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:13841706 original size:59 final size:58
Alignment explanation
Indices: 13841639--13841923 Score: 206
Period size: 61 Copynumber: 4.8 Consensus size: 58
13841629 AGTGGCGGGA
*
13841639 ATTATATATTTTTAATAAACTATATTTAATAATTATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTAATAAA-TATATTTAATAATAATTATTTTAAATTATATTTTATAGT
* * * * * * * *
13841698 ATTATATATTATGATTTAAATAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
1 ATTATATATTTTTA-ATAAATATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
13841759 ATTATATATTTTTAATAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTAATAAA-TATATTTAATAATAATTATTTTAAATTATATTTTATAGT
* * * * * * * * *
13841818 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAATAATTTTATTA-A
1 ATTATATATTTTTA-ATAAATATATTTA-ATAATAATTATTTTAA-ATT-AT-ATTTTA-TAGT
*
13841879 ATTATATA-TTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATTATATATTTTTAA-T-AAATATATTTAATAATAATTATTTTAAA
13841924 ATATGATTAA
Statistics
Matches: 171, Mismatches: 35, Indels: 38
0.70 0.14 0.16
Matches are distributed among these distances:
58 12 0.07
59 52 0.30
60 41 0.24
61 53 0.31
62 13 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (58 bp):
ATTATATATTTTTAATAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGT
Found at i:13841768 original size:120 final size:120
Alignment explanation
Indices: 13841638--13841923 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
13841628 AAGTGGCGGG
* *
13841638 AATTATATATTTTTAATAAACTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTAT
1 AATTATATATTTTTAATAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
13841703 ATATTATGATTTAAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
66 ATATTATGATTTAAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
*
13841758 AATTATATATTTTTAATAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
1 AATTATATATTTTTAATAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
* * *
13841823 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAATAATTTTATTA
66 ATATTATGATTTAAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
*
13841878 AATTATATA-TTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AATTATATATTTTTAA-TAAAATATATTTAATAATAATTATTTTAAA
13841924 ATATGATTAA
Statistics
Matches: 158, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
119 6 0.04
120 152 0.96
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (120 bp):
AATTATATATTTTTAATAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
ATATTATGATTTAAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
Found at i:13841895 original size:18 final size:17
Alignment explanation
Indices: 13841869--13841903 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13841859 AATATTAATA
*
13841869 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13841886 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13841904 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13842123 original size:44 final size:46
Alignment explanation
Indices: 13842060--13842157 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 46
13842050 CTATTACACC
13842060 TCCATT-CGATTCAACCAAACACAAGAA-TACTATTACGCCTCTAT
1 TCCATTACGATTCAACCAAACACAAGAATTACTATTACGCCTCTAT
*** * *
13842104 TCCATTAC-ATTCAACCAAACAGTTGAATTGCTATTACGTCTCTAT
1 TCCATTACGATTCAACCAAACACAAGAATTACTATTACGCCTCTAT
13842149 TCCATTACG
1 TCCATTACG
13842158 CCTCTATTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 22 0.48
45 24 0.52
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.32
Consensus pattern (46 bp):
TCCATTACGATTCAACCAAACACAAGAATTACTATTACGCCTCTAT
Found at i:13842157 original size:16 final size:16
Alignment explanation
Indices: 13842136--13842198 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
13842126 TTGAATTGCT
*
13842136 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
13842152 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
13842168 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
*
13842184 ATTACGTCTCTATTC
1 ATTACGCCTCTATTC
13842199 TAATACAGCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:13843411 original size:42 final size:43
Alignment explanation
Indices: 13843358--13843467 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 43
13843348 GATTTGAGAT
* * *
13843358 TTACGTGTAAGATCATGTCTGGGACA-TCGACATCG-TCTACAA
1 TTACATGTAAGACCATGTCTGGGACAGT-GACATCGATATACAA
* * * ***
13843400 TTTCATGTAAGACCCTGTCTAGGACAGTGACATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGACATCGATATACAA
13843443 TTACATGTAAGACCATGTCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
13843468 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGACATCGATATACAA
Found at i:13845826 original size:30 final size:32
Alignment explanation
Indices: 13845792--13845851 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
13845782 GGTGTTATGG
13845792 GTTTGGGGTTT-GCTTTCTTT-TCCTTTTTGA
1 GTTTGGGGTTTCGCTTTCTTTCTCCTTTTTGA
* * *
13845822 GTTTGGGTTTTCTCTTTCTTTCTTCTTTTT
1 GTTTGGGGTTTCGCTTTCTTTCTCCTTTTT
13845852 TCCTTTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 8 0.32
32 7 0.28
ACGTcount: A:0.02, C:0.15, G:0.18, T:0.65
Consensus pattern (32 bp):
GTTTGGGGTTTCGCTTTCTTTCTCCTTTTTGA
Found at i:13846204 original size:14 final size:16
Alignment explanation
Indices: 13846174--13846207 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
13846164 AATTAAACTG
13846174 AAATTCAAAGTTAAAT
1 AAATTCAAAGTTAAAT
13846190 AAATTC-AAG-TAAAT
1 AAATTCAAAGTTAAAT
13846204 AAAT
1 AAAT
13846208 ATGATTGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 3 0.17
16 6 0.33
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AAATTCAAAGTTAAAT
Found at i:13847983 original size:20 final size:20
Alignment explanation
Indices: 13847946--13847984 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13847936 CCTAAAAACT
*
13847946 AGAAATAATATAAGAAATTA
1 AGAAATAAAATAAGAAATTA
13847966 AGAAATAAAAATAA-AAATT
1 AGAAAT-AAAATAAGAAATT
13847985 CTAAAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
AGAAATAAAATAAGAAATTA
Found at i:13851512 original size:9 final size:8
Alignment explanation
Indices: 13851471--13851514 Score: 52
Period size: 9 Copynumber: 5.0 Consensus size: 8
13851461 CTATAATTTG
13851471 GGTAATTC
1 GGTAATTC
13851479 GAGTAATTC
1 G-GTAATTC
13851488 GGTTAATTC
1 GG-TAATTC
13851497 AGGTAATTC
1 -GGTAATTC
13851506 GGTTAATTC
1 GG-TAATTC
13851515 AATTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 4 0.12
9 26 0.81
10 2 0.06
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (8 bp):
GGTAATTC
Found at i:13851520 original size:27 final size:27
Alignment explanation
Indices: 13851471--13851522 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
13851461 CTATAATTTG
**
13851471 GGTAATTCGAGTAATTCGGTTAATTCA
1 GGTAATTCGAGTAATTCAATTAATTCA
13851498 GGTAATTCG-GTTAATTCAATTAATT
1 GGTAATTCGAG-TAATTCAATTAATT
13851523 TTTTATATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTAATTCGAGTAATTCAATTAATTCA
Found at i:13851521 original size:18 final size:18
Alignment explanation
Indices: 13851473--13851522 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
13851463 ATAATTTGGG
*
13851473 TAATTCGAGTAATTCGGT
1 TAATTCAAGTAATTCGGT
*
13851491 TAATTCAGGTAATTCGGT
1 TAATTCAAGTAATTCGGT
*
13851509 TAATTCAATTAATT
1 TAATTCAAGTAATT
13851523 TTTTATATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (18 bp):
TAATTCAAGTAATTCGGT
Found at i:13855666 original size:22 final size:22
Alignment explanation
Indices: 13855638--13855680 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13855628 TAGAAAGTTA
13855638 TAGCACATTTT-TCAAGATTTTG
1 TAGCACATTTTCT-AAGATTTTG
13855660 TAGCACATTTTCTAAGATTTT
1 TAGCACATTTTCTAAGATTTT
13855681 ACATGGCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (22 bp):
TAGCACATTTTCTAAGATTTTG
Found at i:13856994 original size:3 final size:3
Alignment explanation
Indices: 13856986--13857041 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
13856976 ATTAATAAAT
* * * * *
13856986 TTA TTA TTA TTA TTA TCA TCA TCA TAA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13857034 TTA TTA TT
1 TTA TTA TT
13857042 TGCTCATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:13863911 original size:24 final size:24
Alignment explanation
Indices: 13863879--13863934 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
13863869 GTCCCAAAGG
*
13863879 TACAATGGATTGAATATTGAAGAT
1 TACAGTGGATTGAATATTGAAGAT
*
13863903 TACAGTGGATTGAATCTTGAAGAT
1 TACAGTGGATTGAATATTGAAGAT
13863927 TACAGTGG
1 TACAGTGG
13863935 GGGCAATCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (24 bp):
TACAGTGGATTGAATATTGAAGAT
Found at i:13863942 original size:24 final size:24
Alignment explanation
Indices: 13863890--13863942 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13863880 ACAATGGATT
* **
13863890 GAATATTGAAGATTACAGTGGATT
1 GAATCTTGAAGATTACAGTGGAGG
13863914 GAATCTTGAAGATTACAGTGG-GG
1 GAATCTTGAAGATTACAGTGGAGG
13863937 GCAATC
1 G-AATC
13863943 CGGTTAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (24 bp):
GAATCTTGAAGATTACAGTGGAGG
Found at i:13864490 original size:45 final size:45
Alignment explanation
Indices: 13864256--13864491 Score: 143
Period size: 45 Copynumber: 5.3 Consensus size: 45
13864246 CCTTGAGTTT
* * * *
13864256 GCAGCGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
1 GCAGCGAAGCAGACTGAAGATAGCAGATCATGTCTTCCTATATTG
* * * *
13864301 GCAGCGAAGCAGA-TCGAAGACACCAG--CCTCGTCTCCCTGAGT-TT-
1 GCAGCGAAGCAGACT-GAAGATAGCAGATCAT-GTCTTCCT-A-TATTG
* * * *
13864345 GTAAC-AGAGCATACTGAAGATAGCAGATCATGTCTTCCTGTATTG
1 GCAGCGA-AGCAGACTGAAGATAGCAGATCATGTCTTCCTATATTG
* * * * * *
13864390 GCAACGAAGCAGATTGAAGACA-CTAG--CCTCGCCTCCCTGAGT-TT-
1 GCAGCGAAGCAGACTGAAGATAGC-AGATCAT-GTCTTCCT-A-TATTG
*
13864434 GCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTATATTG
1 GCAGCGAAGCAGACTGAAGATAGCAGATCATGTCTTCCTATATTG
13864479 GCAGCGAAGCAGA
1 GCAGCGAAGCAGA
13864492 TTTAAGCCAC
Statistics
Matches: 140, Mismatches: 31, Indels: 40
0.66 0.15 0.19
Matches are distributed among these distances:
43 7 0.05
44 57 0.41
45 69 0.49
46 7 0.05
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (45 bp):
GCAGCGAAGCAGACTGAAGATAGCAGATCATGTCTTCCTATATTG
Found at i:13864493 original size:89 final size:89
Alignment explanation
Indices: 13864234--13864504 Score: 416
Period size: 89 Copynumber: 3.0 Consensus size: 89
13864224 GTCATCATAT
* * *
13864234 CCAGCCTCGCCTCCTTGAGTTTGCAGCGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
1 CCAGCCTCGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTAT
*
13864299 TGGCAGCGAAGCAGATCGAAGACA
66 TGGCAGCGAAGCAGATTGAAGACA
* * * * *
13864323 CCAGCCTCGTCTCCCTGAGTTTGTAACAGAGCATACTGAAGATAGCAGATCATGTCTTCCTGTAT
1 CCAGCCTCGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTAT
*
13864388 TGGCAACGAAGCAGATTGAAGACA
66 TGGCAGCGAAGCAGATTGAAGACA
* *
13864412 CTAGCCTCGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTATAT
1 CCAGCCTCGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTAT
* *
13864477 TGGCAGCGAAGCAGATTTAAGCCA
66 TGGCAGCGAAGCAGATTGAAGACA
13864501 CCAG
1 CCAG
13864505 TCCTATCTTC
Statistics
Matches: 161, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 161 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (89 bp):
CCAGCCTCGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCATGTCTTCCTGTAT
TGGCAGCGAAGCAGATTGAAGACA
Found at i:13866205 original size:3 final size:3
Alignment explanation
Indices: 13866199--13866273 Score: 87
Period size: 3 Copynumber: 25.0 Consensus size: 3
13866189 CATCATCATC
* * * * * *
13866199 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATC GTC GTC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
13866247 ATT ATT ATT ATT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
13866274 TGCTCATTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:13868182 original size:18 final size:17
Alignment explanation
Indices: 13868155--13868189 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
13868145 TTTCACTTTA
13868155 GATGTATATCTTTTTGT
1 GATGTATATCTTTTTGT
13868172 GATGCTATATCTTTTTGT
1 GATG-TATATCTTTTTGT
13868190 AATTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (17 bp):
GATGTATATCTTTTTGT
Found at i:13870807 original size:22 final size:22
Alignment explanation
Indices: 13870779--13870820 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13870769 TGAATAAACC
* *
13870779 AAATAAACTTTATTTCTGTAGA
1 AAATAAACTTAATATCTGTAGA
13870801 AAATAAACTTAATATCTGTA
1 AAATAAACTTAATATCTGTA
13870821 AACTGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATAAACTTAATATCTGTAGA
Found at i:13875057 original size:47 final size:47
Alignment explanation
Indices: 13874989--13875389 Score: 170
Period size: 47 Copynumber: 8.6 Consensus size: 47
13874979 AAAATTGGAT
* * *
13874989 AGCATATATAAAAC-AATTTGGACAGCATATATACATCAAATGGAGC
1 AGCATATTTACAACAAAATTGGACAGCATATATACATCAAATGGAGC
* * * * *
13875035 AGCATTTTTACATCAAAATTGGAAAGCATATATACAACAATTTGG-GC
1 AGCATATTTACAACAAAATTGGACAGCATATATACATCAA-ATGGAGC
** * * * *
13875082 AGCATAAGTACAA-TAAATTGGGCAGCATTTA-AGCATAAAAATTGGA-C
1 AGCATATTTACAACAAAATTGGACAGCATATATA-CAT-CAAA-TGGAGC
* * * * * * * *
13875129 AGCATATATGCAAC-AATTTGGGCAGCATAAATATAACGAATTGGA-C
1 AGCATATTTACAACAAAATTGGACAGCATATATACATC-AAATGGAGC
* * * *
13875175 AGCAT-TTTAACATA-AAAATTTGACAGCATATATGCACCAATTTGG-GC
1 AGCATATTT-ACA-ACAAAATTGGACAGCATATATACATCAA-ATGGAGC
** * * *
13875222 AGCATAAATACAAC-AAATTGGACAGCAT-TTTAGCATAAAAATTTGA-C
1 AGCATATTTACAACAAAATTGGACAGCATATATA-CAT-CAAA-TGGAGC
* * * * * * *
13875269 AGCATATGTGCAAC-AATTTGGGCAGCATATATATACCAAATTGAGC
1 AGCATATTTACAACAAAATTGGACAGCATATATACATCAAATGGAGC
* * *
13875315 AGCAT-TTTCACATCAAAATTGGACAGCATATATACAACAATTTGG-GC
1 AGCATATTT-ACAACAAAATTGGACAGCATATATACATCAA-ATGGAGC
** *
13875362 AGCATAAATACAA-TAAATTGGACAGCAT
1 AGCATATTTACAACAAAATTGGACAGCAT
13875390 TTAAGCATAA
Statistics
Matches: 260, Mismatches: 69, Indels: 52
0.68 0.18 0.14
Matches are distributed among these distances:
45 11 0.04
46 82 0.32
47 156 0.60
48 11 0.04
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (47 bp):
AGCATATTTACAACAAAATTGGACAGCATATATACATCAAATGGAGC
Found at i:13875078 original size:70 final size:70
Alignment explanation
Indices: 13874964--13875404 Score: 525
Period size: 70 Copynumber: 6.3 Consensus size: 70
13874954 CAAACTAGAA
* * * * * *
13874964 AGCATTTTGACACCAAAAATTGGATAGCATATATAAAACAATTTGGACAGCATATATACATCAAA
1 AGCATTTTAACA-TAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACATCAAA
13875029 -TGGAGC
65 TTGGA-C
* * * *
13875035 AGCATTTTTACATCAAAATTGGAAAGCATATATACAACAATTTGGGCAGCATAAGTACAAT-AAA
1 AGCATTTTAACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATAC-ATCAAA
*
13875099 TTGGGC
65 TTGGAC
* * * *
13875105 AGCA-TTTAAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATATAACGAA
1 AGCATTTTAA-CATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACATCAAA
13875169 TTGGAC
65 TTGGAC
* * * *
13875175 AGCATTTTAACATAAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAAT
1 AGCATTTTAACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACATCAAAT
13875240 TGGAC
66 TGGAC
* * * * * * *
13875245 AGCATTTTAGCATAAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCATATATATACCAAAT
1 AGCATTTTAACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACATCAAAT
13875310 T-GAGC
66 TGGA-C
* *
13875315 AGCATTTTCACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAAT-AAA
1 AGCATTTTAACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATAC-ATCAAA
13875379 TTGGAC
65 TTGGAC
13875385 AGCA-TTTAAGCATAAAAATT
1 AGCATTTTAA-CATAAAAATT
13875405 ACATGAACAT
Statistics
Matches: 322, Mismatches: 39, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
69 11 0.03
70 287 0.89
71 24 0.07
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (70 bp):
AGCATTTTAACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACATCAAAT
TGGAC
Found at i:13875178 original size:140 final size:140
Alignment explanation
Indices: 13874978--13875404 Score: 624
Period size: 140 Copynumber: 3.0 Consensus size: 140
13874968 TTTTGACACC
* ** * * * *
13874978 AAAAATTGGATAGCATATATAAAACAATTTGGACAGCATATATACATCAAATGGAGCAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATATATATAACAATTGGAGCAGCATTTT
* * * *
13875043 TACATCAAAATTGGAAAGCATATATACAACAATTTGGGCAGCATAAGTACAATAAATTGGGCAGC
66 AACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAATAAATTGGACAGC
13875108 ATTTAAGCAT
131 ATTTAAGCAT
*
13875118 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATATAACGAATTGGA-CAGCATTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATATATATAAC-AATTGGAGCAGCATTT
* * * * *
13875182 TAACATAAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACAG
65 TAACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAATAAATTGGACAG
*
13875247 CATTTTAGCAT
130 CATTTAAGCAT
* * *
13875258 AAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCATATATATACCAAATT-GAGCAGCATTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATATATATAAC-AATTGGAGCAGCATTT
*
13875322 TCACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAATAAATTGGACAG
65 TAACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAATAAATTGGACAG
13875387 CATTTAAGCAT
130 CATTTAAGCAT
13875398 AAAAATT
1 AAAAATT
13875405 ACATGAACAT
Statistics
Matches: 255, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
139 2 0.01
140 247 0.97
141 6 0.02
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (140 bp):
AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATATATATAACAATTGGAGCAGCATTTT
AACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAATAAATTGGACAGC
ATTTAAGCAT
Found at i:13875310 original size:24 final size:24
Alignment explanation
Indices: 13874989--13875389 Score: 214
Period size: 23 Copynumber: 17.2 Consensus size: 24
13874979 AAAATTGGAT
* *
13874989 AGCATATATAAAAC-AATTTGGAC
1 AGCATATATACAACAAATTTGGGC
*
13875012 AGCATATATACATCAAA--TGGAGC
1 AGCATATATACAACAAATTTGG-GC
* * * * **
13875035 AGCATTTTTACATCAAAATTGGAA
1 AGCATATATACAACAAATTTGGGC
13875059 AGCATATATACAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
*
13875082 AGCATA-AGTACAATAAA-TTGGGC
1 AGCATATA-TACAACAAATTTGGGC
* * *
13875105 AGCATTTA-AGCATA-AAAATTGGAC
1 AGCATATATA-CA-ACAAATTTGGGC
*
13875129 AGCATATATGCAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* * * *
13875152 AGCATAAATATAACGAA-TTGGAC
1 AGCATATATACAACAAATTTGGGC
* * *
13875175 AGCAT-TTTAACATAAAAATTT-GAC
1 AGCATATAT-ACA-ACAAATTTGGGC
* *
13875199 AGCATATATGC-ACCAATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* *
13875222 AGCATAAATACAACAAA-TTGGAC
1 AGCATATATACAACAAATTTGGGC
* * *
13875245 AGCAT-TTTAGCATAAAAATTT-GAC
1 AGCATATATA-CA-ACAAATTTGGGC
* *
13875269 AGCATATGTGCAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* * *
13875292 AGCATATATATACCAAA-TTGAGC
1 AGCATATATACAACAAATTTGGGC
* * * *
13875315 AGCAT-TTTCACATCAAAATTGGAC
1 AGCATATAT-ACAACAAATTTGGGC
13875339 AGCATATATACAAC-AATTTGGGC
1 AGCATATATACAACAAATTTGGGC
* * *
13875362 AGCATAAATACAATAAA-TTGGAC
1 AGCATATATACAACAAATTTGGGC
13875385 AGCAT
1 AGCAT
13875390 TTAAGCATAA
Statistics
Matches: 287, Mismatches: 62, Indels: 58
0.71 0.15 0.14
Matches are distributed among these distances:
22 21 0.07
23 173 0.60
24 80 0.28
25 13 0.05
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (24 bp):
AGCATATATACAACAAATTTGGGC
Found at i:13876148 original size:28 final size:28
Alignment explanation
Indices: 13876116--13876238 Score: 165
Period size: 28 Copynumber: 4.4 Consensus size: 28
13876106 AATAAGTTCA
** * *
13876116 CACACTTAGTGCTCAATAATCAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
* *
13876144 CACACTTAGTGCTTTGCCATTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
13876172 CACACTTAGTGCTTTACAATTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
* * *
13876200 CACACGTAGTGCTTTACAATTAAATTCA
1 CACACTTAGTGCTTTACAATTAAACTCG
13876228 CACACTTAGTG
1 CACACTTAGTG
13876239 TCGAAAGTCA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 83 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (28 bp):
CACACTTAGTGCTTTACAATTAAACTCG
Found at i:13882833 original size:24 final size:23
Alignment explanation
Indices: 13882736--13882865 Score: 91
Period size: 24 Copynumber: 5.6 Consensus size: 23
13882726 TAAATACAAC
*
13882736 AAATTGGGCAGCATTTAGGCATAA
1 AAATTGGGCAGCATTTAAGCA-AA
* * * *
13882760 AAATTGGACAGCATATATGCAAC
1 AAATTGGGCAGCATTTAAGCAAA
* * * * *
13882783 AATTTGGGTAGCA-TAAATACAAT
1 AAATTGGGCAGCATTTAA-GCAAA
13882806 AAATTGGGCAGCATTTAAGCATAA
1 AAATTGGGCAGCATTTAAGCA-AA
* * * *
13882830 AAATTGGACAGCATATATGCAAC
1 AAATTGGGCAGCATTTAAGCAAA
*
13882853 AATTTGGGCAGCA
1 AAATTGGGCAGCA
13882866 GAAATACAAT
Statistics
Matches: 80, Mismatches: 23, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
22 1 0.01
23 39 0.49
24 40 0.50
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.25
Consensus pattern (23 bp):
AAATTGGGCAGCATTTAAGCAAA
Found at i:13882909 original size:24 final size:23
Alignment explanation
Indices: 13882877--13882983 Score: 67
Period size: 24 Copynumber: 4.6 Consensus size: 23
13882867 AAATACAATG
* *
13882877 AATTGGACAGCATTTTAGCATAAA
1 AATTTGACAGCATTATAGCA-AAA
**
13882901 AATTTGACAGCA-TATATGC-ACC
1 AATTTGACAGCATTATA-GCAAAA
* * *
13882923 AATTTGGGCAGCATAAATA-CAACA
1 AATTT-GACAGCAT-TATAGCAAAA
* *
13882947 AATTGGACAGCATTTTAGCATAAA
1 AATTTGACAGCATTATAGCA-AAA
13882971 AATTTGACAGCAT
1 AATTTGACAGCAT
13882984 ATGTGCAACA
Statistics
Matches: 63, Mismatches: 13, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
22 8 0.13
23 19 0.30
24 33 0.52
25 3 0.05
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (23 bp):
AATTTGACAGCATTATAGCAAAA
Found at i:13883115 original size:70 final size:70
Alignment explanation
Indices: 13882601--13883114 Score: 662
Period size: 70 Copynumber: 7.3 Consensus size: 70
13882591 TACCAAACTA
* * ** * * *
13882601 GACAGCATTTT-GACACCAAAAATTGGATAGCATATATAAAACAATTTGGGCAACATATATACAT
1 GACAGCATTTTAG-CA-TAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAA
13882665 CAAA-TG
64 CAAATTG
* *
13882671 GAGCAGCATTTTTA-CATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAA
1 GA-CAGCA-TTTTAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAA
13882735 CAAATTG
64 CAAATTG
* * *
13882742 GGCAGCA-TTTAGGCATAAAAATTGGACAGCATATATGCAACAATTTGGGTAGCATAAATACAAT
1 GACAGCATTTTA-GCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAAC
13882806 AAATTG
65 AAATTG
* * * **
13882812 GGCAGCATTTAAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCAGAAATACAATG
1 GACAGCATTTTAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACA
13882877 AATTG
66 AATTG
* *
13882882 GACAGCATTTTAGCATAAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACA
1 GACAGCATTTTAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACA
13882947 AATTG
66 AATTG
* * * * *
13882952 GACAGCATTTTAGCATAAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCATATATATACCA
1 GACAGCATTTTAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACA
13883017 AATT-
66 AATTG
* * *
13883021 GAGCAGCATTTTTA-CATCAAAATTAGACAGCATATATACAACAATTTGGGCAGCATAAATACAA
1 GA-CAGCA-TTTTAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAA
13883085 CAAATTG
64 CAAATTG
* *
13883092 GACAACATTTAAGCATAAAAATT
1 GACAGCATTTTAGCATAAAAATT
13883115 ACATGAACAT
Statistics
Matches: 395, Mismatches: 38, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
68 4 0.01
69 6 0.02
70 361 0.91
71 20 0.05
72 4 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (70 bp):
GACAGCATTTTAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACA
AATTG
Found at i:13883880 original size:28 final size:27
Alignment explanation
Indices: 13883849--13883950 Score: 141
Period size: 28 Copynumber: 3.7 Consensus size: 27
13883839 CTCAATAATC
*
13883849 AAACTCACACACTTAGTGCTTTGCCATT
1 AAACTCGCACACTTAGTGCTTT-CCATT
* *
13883877 AAACTCGCACACTTAGTGTTTTACAATT
1 AAACTCGCACACTTAGTGCTTT-CCATT
13883905 AAACTCGCACACTTAGTGCTTTCCAATT
1 AAACTCGCACACTTAGTGCTTTCC-ATT
*
13883933 AAATTCGCACACTTAGTG
1 AAACTCGCACACTTAGTG
13883951 TCGAAAGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 1 0.02
28 65 0.98
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (27 bp):
AAACTCGCACACTTAGTGCTTTCCATT
Found at i:13883951 original size:56 final size:56
Alignment explanation
Indices: 13883824--13883951 Score: 177
Period size: 56 Copynumber: 2.3 Consensus size: 56
13883814 ATTTAATAAG
* *
13883824 TTCGCACACTTAGTGCTCAATAATCAAACTCACACACTTAGTGCTTTGCCATTAAA
1 TTCGCACACTTAGTGTTCAACAATCAAACTCACACACTTAGTGCTTTGCCATTAAA
* ** * *
13883880 CTCGCACACTTAGTGTTTTACAATTAAACTCGCACACTTAGTGCTTT-CCAATTAAA
1 TTCGCACACTTAGTGTTCAACAATCAAACTCACACACTTAGTGCTTTGCC-ATTAAA
13883936 TTCGCACACTTAGTGT
1 TTCGCACACTTAGTGT
13883952 CGAAAGTCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 2 0.03
56 61 0.97
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (56 bp):
TTCGCACACTTAGTGTTCAACAATCAAACTCACACACTTAGTGCTTTGCCATTAAA
Found at i:13886685 original size:10 final size:10
Alignment explanation
Indices: 13886670--13886699 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
13886660 GAAAAGAAAA
13886670 AAAATTAAAT
1 AAAATTAAAT
13886680 AAAATTAAAT
1 AAAATTAAAT
13886690 AAATATTAAA
1 AAA-ATTAAA
13886700 AATTTCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTAAAT
Found at i:13890778 original size:22 final size:22
Alignment explanation
Indices: 13890753--13890794 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13890743 TATACAAGTA
* *
13890753 ATATTACTTGTATAGTTATGAG
1 ATATTACTTGAATAATTATGAG
*
13890775 ATATTATTTGAATAATTATG
1 ATATTACTTGAATAATTATG
13890795 TCTCCTTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (22 bp):
ATATTACTTGAATAATTATGAG
Found at i:13891431 original size:25 final size:26
Alignment explanation
Indices: 13891390--13891440 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
13891380 AATTTTTGAT
13891390 GATGGCAAAAAAAGATGCATTTCTTA
1 GATGGCAAAAAAAGATGCATTTCTTA
13891416 GATGGC-AAAAAAGATGCATTTCTTA
1 GATGGCAAAAAAAGATGCATTTCTTA
13891441 CTATCAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (26 bp):
GATGGCAAAAAAAGATGCATTTCTTA
Found at i:13901947 original size:21 final size:21
Alignment explanation
Indices: 13901922--13901999 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
13901912 ATCTTCAAGG
13901922 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
13901943 ATATGCAATCTTGGATA--AG
1 ATATGCAATCTTAGATATGAT
13901962 ATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
13901986 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
13902000 GATTTAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
19 13 0.28
20 3 0.07
21 16 0.35
22 4 0.09
23 9 0.20
24 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:13901967 original size:19 final size:20
Alignment explanation
Indices: 13901921--13901976 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
13901911 AATCTTCAAG
*
13901921 GATATGCAATCTTAGATATGA
1 GATATGCAATCTTGGATA-GA
*
13901942 TATATGCAATCTTGGATA-A
1 GATATGCAATCTTGGATAGA
13901961 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
13901977 AGATATGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 16 0.50
21 16 0.50
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
GATATGCAATCTTGGATAGA
Found at i:13901981 original size:17 final size:18
Alignment explanation
Indices: 13901943--13901983 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
13901933 TAGATATGAT
13901943 ATATGCAATCTTGGATAAG
1 ATATGCAATCTTGGA-AAG
13901962 ATATGCAATCTTGG-AAG
1 ATATGCAATCTTGGAAAG
13901979 ATATG
1 ATATG
13901984 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
19 14 0.64
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (18 bp):
ATATGCAATCTTGGAAAG
Found at i:13904541 original size:18 final size:18
Alignment explanation
Indices: 13904520--13904579 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
13904510 TAAGCATTAA
13904520 GTTGAGTAAATGTCAATT
1 GTTGAGTAAATGTCAATT
13904538 GTTGAGGGT-AA-G-C-ATT
1 GTTGA--GTAAATGTCAATT
13904554 AAGTTGAGTAAATGTCAATT
1 --GTTGAGTAAATGTCAATT
13904574 GTTGAG
1 GTTGAG
13904580 GGTAAAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
16 5 0.15
17 3 0.09
18 18 0.53
19 3 0.09
20 5 0.15
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (18 bp):
GTTGAGTAAATGTCAATT
Done.