Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 665 of 770
Found at i:209053397 original size:47 final size:46
Alignment explanation
Indices: 209053328--209053504 Score: 212
Period size: 47 Copynumber: 3.8 Consensus size: 46
209053318 TATTTGGGCA
*
209053328 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
209053374 TTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
*
209053422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
209053468 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
209053505 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
46 41 0.38
47 60 0.56
48 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:209055657 original size:25 final size:25
Alignment explanation
Indices: 209055629--209055678 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
209055619 GAAACATACT
*
209055629 TTAAAAATTCATGGGAAATGGCTTA
1 TTAAAAATTCATGGGAAATGCCTTA
*
209055654 TTAAAAATTCATGTGAAATGCCTTA
1 TTAAAAATTCATGGGAAATGCCTTA
209055679 CCCCCCTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (25 bp):
TTAAAAATTCATGGGAAATGCCTTA
Found at i:209056374 original size:16 final size:15
Alignment explanation
Indices: 209056348--209056393 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
209056338 CCTAAACTCG
*
209056348 AAAACCTAAAACCTT
1 AAAACCTAAAACCCT
209056363 AAAACTCTAAAACCCT
1 AAAAC-CTAAAACCCT
*
209056379 -AAACCTTAAACCCT
1 AAAACCTAAAACCCT
209056393 A
1 A
209056394 GACATCCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.33
15 9 0.33
16 9 0.33
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAACCTAAAACCCT
Found at i:209057723 original size:25 final size:25
Alignment explanation
Indices: 209057695--209057744 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
209057685 GAAACATACT
*
209057695 TTAAAAATTCATAG-GAAATGGCTTA
1 TTAAAAATTCAT-GTGAAATGCCTTA
209057720 TTAAAAATTCATGTGAAATGCCTTA
1 TTAAAAATTCATGTGAAATGCCTTA
209057745 CCCCCCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (25 bp):
TTAAAAATTCATGTGAAATGCCTTA
Found at i:209061053 original size:43 final size:43
Alignment explanation
Indices: 209060977--209061062 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
209060967 TATGTGATTC
*
209060977 CGATATGTGTTTACGAGTAAGACCCTGTCTGGGACAG-TGGCAT
1 CGATATGTGGTTACGAGTAAGACCCTGTCTGGGAC-GTTGGCAT
*
209061020 CGATATGTGGTTAC-ATGTAAGACCAC-GTGTGGGACGTTGGCAT
1 CGATATGTGGTTACGA-GTAAGACC-CTGTCTGGGACGTTGGCAT
209061063 TGTACCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 35 0.92
44 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (43 bp):
CGATATGTGGTTACGAGTAAGACCCTGTCTGGGACGTTGGCAT
Found at i:209063908 original size:27 final size:28
Alignment explanation
Indices: 209063851--209063920 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
209063841 AAACTTGTAC
*
209063851 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
209063879 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
209063906 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
209063921 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:209063931 original size:27 final size:27
Alignment explanation
Indices: 209063851--209063932 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
209063841 AAACTTGTAC
* * *
209063851 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
209063879 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
209063906 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
209063933 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:209071830 original size:27 final size:28
Alignment explanation
Indices: 209071773--209071842 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
209071763 AAACTTGTAC
*
209071773 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
209071801 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
209071828 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
209071843 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:209071853 original size:27 final size:27
Alignment explanation
Indices: 209071773--209071854 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
209071763 AAACTTGTAC
* * *
209071773 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
209071801 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
209071828 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
209071855 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:209078177 original size:68 final size:70
Alignment explanation
Indices: 209078105--209078238 Score: 175
Period size: 71 Copynumber: 1.9 Consensus size: 70
209078095 ACACCCTGTA
* * * *
209078105 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
209078167 ATAAAT
65 ATAAAT
* *
209078173 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
209078238 A
65 A
209078239 CAATCGGTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
68 23 0.41
69 3 0.05
70 1 0.02
71 29 0.52
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:209081345 original size:27 final size:27
Alignment explanation
Indices: 209081297--209081452 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
209081287 GCGAGGCTGC
* *
209081297 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
209081324 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
209081350 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
209081377 CAGATAATCGTGGCATAGCTACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
209081404 CAAATA-TGTGGCAGAGTCA-CAGAT-
1 CAGATATTGTGGCAGAGCCACCAGATA
*
209081428 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
209081453 GACGCTTCCT
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
24 8 0.07
25 10 0.09
26 20 0.19
27 66 0.62
28 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:209081390 original size:54 final size:52
Alignment explanation
Indices: 209081315--209081452 Score: 199
Period size: 51 Copynumber: 2.6 Consensus size: 52
209081305 GTGACGAAGT
*
209081315 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACA-A-ATATGTGGCAGAGC
* * *
209081369 CACCAGATCAGATAATCGTGGCATAGCTACCAGAACAAATATGTGGCAGAGT
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAAATATGTGGCAGAGC
209081421 CA-CAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
209081453 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
51 28 0.36
52 15 0.19
53 6 0.08
54 28 0.36
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (52 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAAATATGTGGCAGAGC
Found at i:209081441 original size:51 final size:54
Alignment explanation
Indices: 209081312--209081452 Score: 209
Period size: 54 Copynumber: 2.7 Consensus size: 54
209081302 ATTGTGACGA
*
209081312 AGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAG
1 AGTCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
* * *
209081366 AGCCACCAGATCAGATAATCGTGGCATAGCTACCAGAACA-A-ATATGTGGCAG
1 AGTCACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
209081418 AGTCA-CAGATCAGATAATTGTGGCATAGCCACCAG
1 AGTCACCAGATCAGATAATTGTGGCATAGCCACCAG
209081453 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
51 28 0.35
52 15 0.19
53 6 0.08
54 30 0.38
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
AGTCACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
Found at i:209086147 original size:12 final size:12
Alignment explanation
Indices: 209086132--209086163 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
209086122 AGCTACAGAT
209086132 GAGTTTTGGTGA
1 GAGTTTTGGTGA
209086144 GAGTTTTGGTGA
1 GAGTTTTGGTGA
209086156 GAGTTTTG
1 GAGTTTTG
209086164 ATAGTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.44
Consensus pattern (12 bp):
GAGTTTTGGTGA
Found at i:209092159 original size:55 final size:56
Alignment explanation
Indices: 209092086--209092213 Score: 179
Period size: 55 Copynumber: 2.3 Consensus size: 56
209092076 ATCATGATAC
* *
209092086 ATGAATGTATGTAAGACCATTAGCTTAAGATCCATGGA-AAGATC-AATATGACTGA
1 ATGAATGTATGTAAGACCATGAGCTTAAGACCCAT-GATAAGATCTAATATGACTGA
* * * *
209092141 ATGAATGTATGTATGACCATGAGGTTAAGACCCATGATAAGATCTGATATGATTGA
1 ATGAATGTATGTAAGACCATGAGCTTAAGACCCATGATAAGATCTAATATGACTGA
209092197 ATGAATGTATGTAAGAC
1 ATGAATGTATGTAAGAC
209092214 TATATGGTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
54 2 0.03
55 37 0.58
56 25 0.39
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (56 bp):
ATGAATGTATGTAAGACCATGAGCTTAAGACCCATGATAAGATCTAATATGACTGA
Found at i:209092223 original size:56 final size:55
Alignment explanation
Indices: 209092086--209092229 Score: 177
Period size: 56 Copynumber: 2.6 Consensus size: 55
209092076 ATCATGATAC
* *
209092086 ATGAATGTATGTAAGACCAT-TAGCTTAAGATCCATGGAAAGATCAATATGACTGA
1 ATGAATGTATGTAAGACCATAT-GGTTAAGACCCATGGAAAGATCAATATGACTGA
* * *
209092141 ATGAATGTATGTATGACCATGA-GGTTAAGACCCAT-GATAAGATCTGATATGATTGA
1 ATGAATGTATGTAAGACCAT-ATGGTTAAGACCCATGGA-AAGATC-AATATGACTGA
*
209092197 ATGAATGTATGTAAGACTATATGGTTAAGACCC
1 ATGAATGTATGTAAGACCATATGGTTAAGACCC
209092230 GTGGCATTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
54 2 0.03
55 37 0.48
56 38 0.49
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (55 bp):
ATGAATGTATGTAAGACCATATGGTTAAGACCCATGGAAAGATCAATATGACTGA
Found at i:209093897 original size:19 final size:19
Alignment explanation
Indices: 209093873--209093910 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
209093863 TATAGAAAGG
*
209093873 ATTTAGCTCGGATGGGTAA
1 ATTTAGCCCGGATGGGTAA
209093892 ATTTAGCCCGGATGGGTAA
1 ATTTAGCCCGGATGGGTAA
209093911 TCTTGATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (19 bp):
ATTTAGCCCGGATGGGTAA
Found at i:209115212 original size:40 final size:39
Alignment explanation
Indices: 209115170--209115317 Score: 174
Period size: 40 Copynumber: 3.8 Consensus size: 39
209115160 ATCACGATTT
*
209115170 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TTAACAACTA
* *
209115210 GCACGAATGCCTTCGGGTCTTAGCCCGGA-TAACTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTAACAACTA
* * * *
209115248 GCATAAATGTCC-TCGGGACTTAGCCCGGATGTAGCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGAT-TAACAACTA
* *
209115288 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
209115318 ATAATTTCCA
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
38 30 0.33
39 4 0.04
40 58 0.63
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATTAACAACTA
Found at i:209115271 original size:78 final size:78
Alignment explanation
Indices: 209115138--209115318 Score: 204
Period size: 78 Copynumber: 2.3 Consensus size: 78
209115128 CCGCACCAAG
* * * * * * * *
209115138 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTA
1 GCCTTCGGGTCTTAACCCGGATA--ACTACTAGCATAAATGCCTTCGGGACTTAGCCCGGATGTA
*
209115203 ACAACTTGCACGAA-T
64 ACAACTAGCAC-AATT
* *
209115218 GCCTTCGGGTCTTAGCCCGGATAACTACTAGCATAAATGTCC-TCGGGACTTAGCCCGGATGTAG
1 GCCTTCGGGTCTTAACCCGGATAACTACTAGCATAAATG-CCTTCGGGACTTAGCCCGGATGTAA
*
209115282 CCACTAGCACAATT
65 CAACTAGCACAATT
209115296 GCCTTCGGGTCTTAACCCGGATA
1 GCCTTCGGGTCTTAACCCGGATA
209115319 TAATTTCCAG
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
77 2 0.02
78 62 0.72
79 2 0.02
80 20 0.23
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (78 bp):
GCCTTCGGGTCTTAACCCGGATAACTACTAGCATAAATGCCTTCGGGACTTAGCCCGGATGTAAC
AACTAGCACAATT
Found at i:209118113 original size:14 final size:15
Alignment explanation
Indices: 209118089--209118118 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
209118079 GAGCATGGGC
209118089 AAAGAAAAAAAAAAA
1 AAAGAAAAAAAAAAA
209118104 AAAGAAAAAAAAAAA
1 AAAGAAAAAAAAAAA
209118119 TGGTCTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAA
Found at i:209119422 original size:39 final size:39
Alignment explanation
Indices: 209119375--209119557 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
209119365 AATGTTCGAG
209119375 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
209119414 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
209119453 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
209119492 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
209119532 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
209119558 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:209126853 original size:39 final size:39
Alignment explanation
Indices: 209126806--209126988 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
209126796 AATGTTCGAG
209126806 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
209126845 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
209126884 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
209126923 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
209126963 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
209126989 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:209134201 original size:22 final size:22
Alignment explanation
Indices: 209134176--209134221 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
209134166 AATTTGATAC
209134176 AAAAATAAAGTTCAAAAATGAT
1 AAAAATAAAGTTCAAAAATGAT
*
209134198 AAAAATAAAGTTCAACAATGAT
1 AAAAATAAAGTTCAAAAATGAT
209134220 AA
1 AA
209134222 TACCTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (22 bp):
AAAAATAAAGTTCAAAAATGAT
Found at i:209141659 original size:27 final size:28
Alignment explanation
Indices: 209141603--209141672 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
209141593 AAATTTGTAC
209141603 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
209141631 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
209141658 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
209141673 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:209141683 original size:27 final size:27
Alignment explanation
Indices: 209141603--209141684 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
209141593 AAATTTGTAC
* *
209141603 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
209141631 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
209141658 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
209141685 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:209148316 original size:6 final size:6
Alignment explanation
Indices: 209148286--209148509 Score: 120
Period size: 6 Copynumber: 36.3 Consensus size: 6
209148276 AAGAAACATT
* * * *
209148286 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
209148335 ATCAGA ATTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
209148384 ATCAGGTA AT-AGA ATCAGA ATCAGA ATCAGA GTTAG- GTGACAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
209148434 ATCAGT ATCAGGTA A-CAAA ATCAGA ATCAGA ATCAAA ATCAGA ATTAG-
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
209148482 GTGACAGA ATTAGA ATCAGA ACCAGA AT
1 AT--CAGA ATCAGA ATCAGA ATCAGA AT
209148510 GTGAATGCAA
Statistics
Matches: 164, Mismatches: 34, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
5 11 0.07
6 131 0.80
7 15 0.09
8 7 0.04
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:209148348 original size:31 final size:31
Alignment explanation
Indices: 209148307--209148509 Score: 157
Period size: 31 Copynumber: 6.5 Consensus size: 31
209148297 AATCAAAATG
* *
209148307 AGAATCAGAATCAAAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
209148338 AGAATTAGAATCAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
* *
209148369 AGAATCAGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
209148400 AGAATCAGAATCAGAGTTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
209148431 AGAATCAGTATCAGGTAA-CA--AAATCAGAATC
1 AGAATCAGAATCA-G-AATCAGGTAA-CAGAATC
* * * *
209148462 AGAATCAAAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
209148493 AGAATCAGAACCAGAAT
1 AGAATCAGAATCAGAAT
209148510 GTGAATGCAA
Statistics
Matches: 134, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
29 4 0.03
30 6 0.04
31 113 0.84
32 7 0.05
33 4 0.03
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:209148348 original size:37 final size:37
Alignment explanation
Indices: 209148295--209148509 Score: 193
Period size: 37 Copynumber: 5.6 Consensus size: 37
209148285 TATCAGAACT
* * *
209148295 AGAATCAAAATGAGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
209148332 AGAATCAGAATTAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
209148369 AGAATCAGAATCAGTATCAGGTAAT-AGAATCA-G-AATC
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAGGTGA-C
* *
209148406 AGAATCAGAGTTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGA---A--T--CAGAATCAGAATCAGAATCAGGTGAC
* * *
209148450 AAAATCAGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
209148487 AGAATTAGAATCAGAACCAGAAT
1 AGAATCAGAATCAGAATCAGAAT
209148510 GTGAATGCAA
Statistics
Matches: 146, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
36 1 0.01
37 102 0.70
38 7 0.05
39 4 0.03
40 1 0.01
41 1 0.01
42 4 0.03
43 7 0.05
44 17 0.12
45 2 0.01
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:209148372 original size:25 final size:25
Alignment explanation
Indices: 209148344--209148468 Score: 133
Period size: 25 Copynumber: 4.8 Consensus size: 25
209148334 AATCAGAATT
*
209148344 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
209148369 AGAATCAGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATCAGAATCAGG---T-G-A-C
* *
209148400 AGAATCAGAATCAGAGTTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
209148425 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
209148450 AAAATCAGAATCAGAATCA
1 AGAATCAGAATCAGAATCA
209148469 AAATCAGAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
25 58 0.70
26 1 0.01
27 1 0.01
28 2 0.02
29 1 0.01
30 1 0.01
31 19 0.23
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:209148398 original size:56 final size:58
Alignment explanation
Indices: 209148307--209148500 Score: 248
Period size: 62 Copynumber: 3.2 Consensus size: 58
209148297 AATCAAAATG
** *
209148307 AGAATCAGAATCAAAATCAGGTGACAGAATCAGAATTAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGT---A-AATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
*
209148369 AGAATCAGAATCAGTATCAGGT-AAT-AGAATCAGAATCAGAATCAGAGTTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
*
209148425 AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGT----AAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
*
209148487 AGAATTAGAATCAG
1 AGAATCAGAATCAG
209148501 AACCAGAATG
Statistics
Matches: 119, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
56 51 0.43
57 3 0.03
61 3 0.03
62 62 0.52
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (58 bp):
AGAATCAGAATCAGTATCAGGTAAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:209148696 original size:27 final size:26
Alignment explanation
Indices: 209148661--209148734 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
209148651 CACCAGATAC
*
209148661 AGATATTGTGGCAGAGCCACAAAAAT
1 AGATATTGTGGCAAAGCCACAAAAAT
* *
209148687 AGATATTTGTGGCATAGCCACCAGAAAT
1 AGATA-TTGTGGCAAAGCCA-CAAAAAT
*
209148715 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAAAGCCAC
209148735 TTAACAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.14
27 25 0.60
28 11 0.26
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAAAGCCACAAAAAT
Found at i:209148921 original size:22 final size:23
Alignment explanation
Indices: 209148893--209148954 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
209148883 GCAAATACAT
*
209148893 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACAAAGCCATAATGTAGG
* *
209148915 TTGGCACAGAGTCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGTAGG
209148937 TTGGCACAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
209148955 CAGAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGTAGG
Found at i:209149503 original size:27 final size:26
Alignment explanation
Indices: 209149473--209149604 Score: 117
Period size: 27 Copynumber: 4.9 Consensus size: 26
209149463 GAAAAATGGT
*
209149473 AATTTTACCCCACAAGGGTATCTT-GG
1 AATTTTACCCTACAAGGGTAT-TTCGG
*
209149499 CAATTCTACCCTAC-AGGGATATTTCGG
1 -AATTTTACCCTACAAGGG-TATTTCGG
*
209149526 TATTTCTACCCTACAAGGGTATTTCGG
1 AATTT-TACCCTACAAGGGTATTTCGG
* *
209149553 TAATTCTACCCTAC-AGAGGTATTTCAGT
1 -AATTTTACCCTACAAG-GGTATTTC-GG
* *
209149581 AATTCTACCCTATAAGGGTATTTC
1 AATTTTACCCTACAAGGGTATTTC
209149605 AATAATTTTG
Statistics
Matches: 89, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
26 11 0.12
27 68 0.76
28 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (26 bp):
AATTTTACCCTACAAGGGTATTTCGG
Found at i:209149543 original size:54 final size:54
Alignment explanation
Indices: 209149474--209149604 Score: 178
Period size: 54 Copynumber: 2.4 Consensus size: 54
209149464 AAAAATGGTA
* *
209149474 ATTT-TACCCCACAAGGGTATCTT-GGCAATTCTACCCTACAG-GGATATTTCGGT
1 ATTTCTACCCTACAAGGGTAT-TTCGGCAATTCTACCCTACAGAGG-TATTTCAGT
*
209149527 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAGAGGTATTTCAGT
* *
209149581 AATTCTACCCTATAAGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
209149605 AATAATTTTG
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
53 6 0.09
54 62 0.89
55 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAGAGGTATTTCAGT
Found at i:209149605 original size:27 final size:26
Alignment explanation
Indices: 209149500--209149611 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
209149490 GTATCTTGGC
* *
209149500 AATTCTACCCTACAGGGATATTTCGGT
1 AATTCTACCCTAAAGGG-TATTTCAGT
* *
209149527 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTA-AAGGGTATTTCAGT
*
209149554 AATTCTACCCTACAGAGGTATTTCAGT
1 AATTCTACCCTAAAG-GGTATTTCAGT
*
209149581 AATTCTACCCTATAAGGGTATTTCAAT
1 AATTCTACCCTA-AAGGGTATTTCAGT
209149608 AATT
1 AATT
209149612 TTGTAAATCG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.03
27 67 0.89
28 6 0.08
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.36
Consensus pattern (26 bp):
AATTCTACCCTAAAGGGTATTTCAGT
Found at i:209149799 original size:81 final size:81
Alignment explanation
Indices: 209149651--209149800 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
209149641 ATTAATTGGG
* * **
209149651 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCATAAATCAAAGGTATTTTGGT
1 GGTACTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTCATAAACCAAAGGTATTTCAGT
209149716 AATTTTACAAACCTAA
66 AATTTTACAAACCTAA
* * ** ** *
209149732 GGTATTTTGGTAATTTTACAA-ACTATGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAG
1 GGTACTTTGGTAATTTTACAAGACGA-GGGTATTTCAGTAATTTCATAAACCAAAGGTATTTCAG
209149796 TAATT
65 TAATT
209149801 CTAGCCTATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 2 0.04
81 55 0.96
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
GGTACTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTCATAAACCAAAGGTATTTCAGT
AATTTTACAAACCTAA
Found at i:209149800 original size:27 final size:27
Alignment explanation
Indices: 209149650--209149792 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
209149640 TATTAATTGG
* ** *
209149650 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * * *
209149677 GGGTATTTCAGTAATTTCATAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
209149704 AGGTATTTTGGTAATTTTACAAACCTAA
1 GGGTATTTTGGTAATTTTACAAACC-AA
* *
209149732 -GGTATTTTGGTAATTTTACAAACTAT
1 GGGTATTTTGGTAATTTTACAAACCAA
**
209149758 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
209149785 GGGTATTT
1 GGGTATTT
209149793 CAGTAATTCT
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 92 0.97
28 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:209150175 original size:9 final size:9
Alignment explanation
Indices: 209150161--209150206 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
209150151 AAATCAGAAT
209150161 ATAAAAATA
1 ATAAAAATA
209150170 ATAAAAATA
1 ATAAAAATA
*
209150179 A-ACTAACAT-
1 ATA--AAAATA
209150188 ATAAAAATA
1 ATAAAAATA
209150197 ATAAAAATA
1 ATAAAAATA
209150206 A
1 A
209150207 ACTAACTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
8 5 0.16
9 21 0.68
10 5 0.16
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
ATAAAAATA
Found at i:209150180 original size:27 final size:27
Alignment explanation
Indices: 209150159--209150221 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
209150149 TTAAATCAGA
209150159 ATATAAAAATAATAAAAATAAACTAAC
1 ATATAAAAATAATAAAAATAAACTAAC
209150186 ATATAAAAATAATAAAAATAAACTAAC
1 ATATAAAAATAATAAAAATAAACTAAC
* *
209150213 TTAGAAAAA
1 ATATAAAAA
209150222 CCAACTTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (27 bp):
ATATAAAAATAATAAAAATAAACTAAC
Found at i:209150628 original size:27 final size:26
Alignment explanation
Indices: 209150580--209150639 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
209150570 GCGAGGCTGC
*
209150580 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
209150607 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
209150633 TAGATAT
1 CAGATAT
209150640 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:209150643 original size:2 final size:2
Alignment explanation
Indices: 209150636--209150677 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
209150626 ACCAGAATAG
209150636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
209150678 GTGGCGAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:209152235 original size:15 final size:16
Alignment explanation
Indices: 209152209--209152238 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
209152199 TGTAATTTTT
209152209 TAAATATGCAAAAGTG
1 TAAATATGCAAAAGTG
209152225 TAAAT-TGCAAAAGT
1 TAAATATGCAAAAGT
209152239 TTGAGTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.27
Consensus pattern (16 bp):
TAAATATGCAAAAGTG
Found at i:209154525 original size:29 final size:29
Alignment explanation
Indices: 209154493--209154627 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
209154483 ATACCCTCCG
** * *
209154493 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
209154522 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
209154551 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
209154580 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
209154609 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
209154628 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:209154560 original size:58 final size:58
Alignment explanation
Indices: 209154439--209154628 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
209154429 TACTCGATTT
* * * *** *
209154439 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
209154497 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
209154555 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
209154613 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
209154629 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:209158801 original size:40 final size:40
Alignment explanation
Indices: 209158756--209158922 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
209158746 CGGAATATAA
209158756 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
209158796 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
209158836 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
209158876 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
209158915 CCGGATAT
1 CCGGATAT
209158923 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209160098 original size:21 final size:22
Alignment explanation
Indices: 209160056--209160098 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
209160046 AAACTTAGCC
209160056 AAATCTCCTTCTAGGTCTCTTCTA
1 AAATCTCCTTCTA-G-CTCTTCTA
209160080 AAATCTCCTTCTA-CTCTTC
1 AAATCTCCTTCTAGCTCTTC
209160099 CAACCCAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
24 13 0.68
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.42
Consensus pattern (22 bp):
AAATCTCCTTCTAGCTCTTCTA
Found at i:209160197 original size:56 final size:53
Alignment explanation
Indices: 209160134--209160242 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
209160124 TCCCCTTTTC
209160134 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTCTTT
***
209160190 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
209160243 TTTTTTCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 6 0.12
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
Found at i:209167170 original size:40 final size:39
Alignment explanation
Indices: 209167125--209167290 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
209167115 CGGAATATAA
209167125 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
209167165 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
209167204 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
209167244 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
209167283 CCGGATAT
1 CCGGATAT
209167291 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:209167247 original size:79 final size:79
Alignment explanation
Indices: 209167141--209167290 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
209167131 ATAATCACGT
*
209167141 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
209167204 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
209167220 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
209167285 GGATAT
66 GGATAT
209167291 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:209175172 original size:40 final size:39
Alignment explanation
Indices: 209175127--209175292 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
209175117 CGGAATATAA
209175127 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
209175167 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
209175206 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
209175246 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
209175285 CCGGATAT
1 CCGGATAT
209175293 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:209175249 original size:79 final size:79
Alignment explanation
Indices: 209175143--209175292 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
209175133 ATAATCACGT
*
209175143 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
209175206 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
209175222 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
209175287 GGATAT
66 GGATAT
209175293 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:209176555 original size:56 final size:52
Alignment explanation
Indices: 209176486--209176593 Score: 128
Period size: 56 Copynumber: 2.0 Consensus size: 52
209176476 CCCCCTTTTC
*
209176486 CCTTAGTATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTAATTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTCTTT
***
209176541 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTT
1 CCTTAGTA-ATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
209176594 TTTTTTTTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
53 8 0.17
54 6 0.13
55 8 0.17
56 22 0.47
57 3 0.06
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
CCTTAGTAATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
Found at i:209183178 original size:40 final size:40
Alignment explanation
Indices: 209183133--209183299 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
209183123 CGGAATATAA
209183133 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
209183173 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
209183213 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
209183253 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
209183292 CCGGATAT
1 CCGGATAT
209183300 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209183283 original size:80 final size:79
Alignment explanation
Indices: 209183149--209183299 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
209183139 ATAATCACGT
*
209183149 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
209183214 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
209183229 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
209183292 CCGGATAT
64 CCGGATAT
209183300 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:209184563 original size:55 final size:52
Alignment explanation
Indices: 209184491--209184600 Score: 134
Period size: 55 Copynumber: 2.1 Consensus size: 52
209184481 TCCTCCCCCT
209184491 TTTCCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTTTC
1 TTTCCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAAC--A-TTTTTTTTC
***
209184546 TTTCCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTC
1 TTTCCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTC
209184598 TTT
1 TTT
209184601 TTTTTTTTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
52 12 0.24
53 1 0.02
55 33 0.66
56 4 0.08
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (52 bp):
TTTCCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTC
Found at i:209194803 original size:5 final size:5
Alignment explanation
Indices: 209194774--209194824 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
209194764 AAAATAATTT
209194774 TAAAA TATAAA TAAAGA TAAAAA TAAAA T-AAA T-AAA TAAAA TAAAAA
1 TAAAA TA-AAA TAAA-A T-AAAA TAAAA TAAAA TAAAA TAAAA T-AAAA
209194821 TAAA
1 TAAA
209194825 TAATAGGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
4 8 0.20
5 16 0.39
6 14 0.34
7 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:209194812 original size:13 final size:13
Alignment explanation
Indices: 209194780--209194818 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
209194770 ATTTTAAAAT
209194780 ATAAATAAAGAT-A
1 ATAAATAAA-ATAA
209194793 A-AAATAAAATAA
1 ATAAATAAAATAA
209194805 ATAAATAAAATAA
1 ATAAATAAAATAA
209194818 A
1 A
209194819 AATAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 9 0.38
13 13 0.54
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:209194814 original size:19 final size:20
Alignment explanation
Indices: 209194774--209194827 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 20
209194764 AAAATAATTT
209194774 TAAAATATAAATAAAGATAAAA
1 TAAAA-ATAAAT-AAGATAAAA
209194796 -ATAAAATAAATAA-ATAAAA
1 TA-AAAATAAATAAGATAAAA
209194815 TAAAAATAAATAA
1 TAAAAATAAATAA
209194828 TAGGTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 17 0.57
20 3 0.10
21 7 0.23
22 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
TAAAAATAAATAAGATAAAA
Found at i:209197287 original size:81 final size:81
Alignment explanation
Indices: 209197161--209197360 Score: 262
Period size: 81 Copynumber: 2.5 Consensus size: 81
209197151 ACGATTCTTA
* * *
209197161 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCGGA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
209197225 ACTAAGTCCGGTTATG
66 ACTAAGTCCGGTTATG
* *
209197241 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* * * *
209197304 TAATTAAGTTCGGTTATT
64 GAACTAAGTCCGGTTATG
*
209197322 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
209197361 TACACCCCGA
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
80 13 0.12
81 55 0.53
82 32 0.31
83 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
ACTAAGTCCGGTTATG
Found at i:209197299 original size:41 final size:41
Alignment explanation
Indices: 209197162--209197346 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
209197152 CGATTCTTAA
* * *
209197162 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
209197201 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
209197242 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
209197283 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
209197324 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
209197347 CCCAAGCTCG
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
40 44 0.35
41 79 0.63
43 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:209204418 original size:41 final size:41
Alignment explanation
Indices: 209204284--209204467 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
209204274 CGATTCTTAA
* * *
209204284 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * *
209204323 CCACTGGCTCGAAGGCCCTTCG-AACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
209204363 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
209204404 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
209204445 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
209204468 CCCAAGCTCG
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 19 0.15
40 33 0.26
41 71 0.56
42 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:209207194 original size:40 final size:40
Alignment explanation
Indices: 209207149--209207315 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
209207139 CGGAATATAA
209207149 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
209207189 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
209207229 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
209207269 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
209207308 CCGGATAT
1 CCGGATAT
209207316 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209207299 original size:80 final size:79
Alignment explanation
Indices: 209207149--209207315 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
209207139 CGGAATATAA
* *
209207149 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
209207214 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
209207229 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
209207291 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
209207308 CCGGATAT
1 CCGGATAT
209207316 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:209208164 original size:17 final size:19
Alignment explanation
Indices: 209208141--209208186 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
209208131 AAGAAGCATG
209208141 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
209208159 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
209208177 AATCATGCTC
1 AATCATGCTC
209208187 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:209215191 original size:40 final size:40
Alignment explanation
Indices: 209215146--209215312 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
209215136 CGGAATATAA
209215146 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
209215186 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
209215226 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
209215266 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
209215305 CCGGATAT
1 CCGGATAT
209215313 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209215296 original size:80 final size:79
Alignment explanation
Indices: 209215146--209215312 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
209215136 CGGAATATAA
* *
209215146 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
209215211 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
209215226 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
209215288 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
209215305 CCGGATAT
1 CCGGATAT
209215313 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:209216160 original size:17 final size:19
Alignment explanation
Indices: 209216137--209216182 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
209216127 AAGAAGCATG
209216137 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
209216155 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
209216173 AATCATGCTC
1 AATCATGCTC
209216183 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:209223198 original size:40 final size:40
Alignment explanation
Indices: 209223153--209223319 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
209223143 CGGAATATAA
209223153 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
209223193 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
209223233 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
209223273 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
209223312 CCGGATAT
1 CCGGATAT
209223320 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209223303 original size:80 final size:79
Alignment explanation
Indices: 209223169--209223319 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
209223159 ATAATCACGT
*
209223169 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
209223234 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
209223249 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
209223312 CCGGATAT
64 CCGGATAT
209223320 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:209224167 original size:17 final size:19
Alignment explanation
Indices: 209224144--209224189 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
209224134 AAGAAGCATG
209224144 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
209224162 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
209224180 AATCATGCTC
1 AATCATGCTC
209224190 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:209227056 original size:40 final size:39
Alignment explanation
Indices: 209227011--209227140 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
209227001 CGGAATATAA
209227011 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
209227051 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
209227091 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
209227131 CCGGATATAA
1 CCGGATATAA
209227141 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:209227155 original size:40 final size:40
Alignment explanation
Indices: 209227027--209227178 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
209227017 ATAACCATGT
* * *
209227027 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
209227067 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
209227107 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
209227147 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
209227179 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:209227161 original size:80 final size:80
Alignment explanation
Indices: 209227027--209227176 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
209227017 ATAACCATGT
*
209227027 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
209227091 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
209227107 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
209227170 CCCGGAT
64 CCCGGAT
209227177 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:209235022 original size:40 final size:39
Alignment explanation
Indices: 209234977--209235106 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
209234967 CGGAATATAA
209234977 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
209235017 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
209235057 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
209235097 CCGGATATAA
1 CCGGATATAA
209235107 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:209235121 original size:40 final size:40
Alignment explanation
Indices: 209234993--209235144 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
209234983 ATAACCATGT
* * *
209234993 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
209235033 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
209235073 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
209235113 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
209235145 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:209235127 original size:80 final size:80
Alignment explanation
Indices: 209234993--209235142 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
209234983 ATAACCATGT
*
209234993 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
209235057 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
209235073 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
209235136 CCCGGAT
64 CCCGGAT
209235143 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:209237340 original size:10 final size:10
Alignment explanation
Indices: 209237325--209237349 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
209237315 TTGCTCAGCT
209237325 CAGCCCAACC
1 CAGCCCAACC
209237335 CAGCCCAACC
1 CAGCCCAACC
209237345 CAGCC
1 CAGCC
209237350 GAATACAGCA
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:0.28, C:0.60, G:0.12, T:0.00
Consensus pattern (10 bp):
CAGCCCAACC
Found at i:209239104 original size:29 final size:28
Alignment explanation
Indices: 209239054--209239167 Score: 106
Period size: 28 Copynumber: 4.0 Consensus size: 28
209239044 GTGAGCATGA
* * * *
209239054 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
* *
209239082 GTATAAATGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
209239111 ATATACAA-GTGAATTGGG-CTAATGGGCC
1 ATATA-AATGTG-ATTGGGCCTAATGGGCC
* * *
209239139 ATACAAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
209239167 A
1 A
209239168 GATGCATGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
27 8 0.11
28 35 0.50
29 24 0.34
30 3 0.04
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:209242150 original size:8 final size:8
Alignment explanation
Indices: 209242137--209242180 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
209242127 GACAAAAGCT
209242137 GAAATGCC
1 GAAATGCC
209242145 GAAATGCC
1 GAAATGCC
* *
209242153 AAAAAGCC
1 GAAATGCC
*
209242161 AAAATGCC
1 GAAATGCC
*
209242169 GAAAAGCC
1 GAAATGCC
209242177 GAAA
1 GAAA
209242181 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.50, C:0.23, G:0.20, T:0.07
Consensus pattern (8 bp):
GAAATGCC
Found at i:209242438 original size:29 final size:29
Alignment explanation
Indices: 209242405--209242462 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
209242395 AATATGACTA
*
209242405 GGCCTAATGAGCCATATAAATGTGATTTG
1 GGCCTAATGAGCCATATAAAGGTGATTTG
* *
209242434 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGAGCCATATAAAGGTGATTTG
209242463 AGCGAATGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
GGCCTAATGAGCCATATAAAGGTGATTTG
Found at i:209247349 original size:80 final size:80
Alignment explanation
Indices: 209247265--209247413 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
209247255 TATGGTAACC
* * * *
209247265 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
209247329 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
209247345 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
209247410 CCGG
66 CCGG
209247414 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:209247355 original size:40 final size:38
Alignment explanation
Indices: 209247306--209247413 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
209247296 ATCACGATTT
*
209247306 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
209247346 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
209247386 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
209247414 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:209253922 original size:30 final size:30
Alignment explanation
Indices: 209253888--209253948 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
209253878 ACATCACGGT
209253888 AGTCCTAGAATCGACTAAACCGTGGCTCTG
1 AGTCCTAGAATCGACTAAACCGTGGCTCTG
209253918 AGTCCTAGAATCGACTAAACCGTGGCTCTG
1 AGTCCTAGAATCGACTAAACCGTGGCTCTG
209253948 A
1 A
209253949 TACCAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (30 bp):
AGTCCTAGAATCGACTAAACCGTGGCTCTG
Found at i:209269354 original size:40 final size:40
Alignment explanation
Indices: 209269308--209269425 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 40
209269298 CTCGCACAAG
* *
209269308 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAAT
* * *
209269348 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAAT
* * * *
209269388 GCCTTCGGATCTTAGTCTGGATGTAGTCGCTTAGCACA
1 GCCTTCGGGTCTTAGCCCGGATGTAGTCAC-TAGCACA
209269426 TACCATATCA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 60 0.90
41 7 0.10
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAAT
Found at i:209277288 original size:40 final size:39
Alignment explanation
Indices: 209277183--209277325 Score: 189
Period size: 41 Copynumber: 3.6 Consensus size: 39
209277173 ACTCGCACAA
* * *
209277183 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCA-AAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
209277222 GCCTTCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
209277261 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
209277302 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTC-GGACTTAGCCCGGATAT
209277326 CATTTCGAGT
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
38 25 0.27
39 19 0.21
40 18 0.20
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:209284247 original size:27 final size:27
Alignment explanation
Indices: 209284201--209284344 Score: 148
Period size: 27 Copynumber: 5.4 Consensus size: 27
209284191 GGATAAGTTT
209284201 TAGAATTACCG-AATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAAGG
* *
209284227 TAGAATTACAGAAATACCCCTAT-AGG
1 TAGAATTACCGAAATACCCCTGTAAGG
* *
209284253 ATAGAATTACCGAAATAACCTTGTAAGG
1 -TAGAATTACCGAAATACCCCTGTAAGG
* * *
209284281 TAGAAATACCAAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAAGG
* * * **
209284308 TTGAATTACCGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCCTGTAAGG
*
209284335 TAAAATTACC
1 TAGAATTACC
209284345 ATTTTGCCCC
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
26 13 0.14
27 80 0.83
28 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAAGG
Found at i:209284296 original size:54 final size:54
Alignment explanation
Indices: 209284201--209284330 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
209284191 GGATAAGTTT
* *
209284201 TAGAATTACCG-AATACCCCTGTAAGGTAGAATTACAGAAATACCCCTATAGGA
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAAATACAGAAATACCCCTATAGGA
* * *
209284254 TAGAATTACCGAAATAACCTTGTAAGGTAGAAATACCA-AAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAAGGTAGAAATA-CAGAAATACCCCTATAGGA
* *
209284308 TTGAATTACCGAGATACCCTTGT
1 TAGAATTACCGAAATACCCTTGT
209284331 GGGGTAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
53 11 0.16
54 54 0.81
55 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCTTGTAAGGTAGAAATACAGAAATACCCCTATAGGA
Found at i:209284345 original size:54 final size:54
Alignment explanation
Indices: 209284201--209284345 Score: 170
Period size: 54 Copynumber: 2.7 Consensus size: 54
209284191 GGATAAGTTT
* *
209284201 TAGAATTACCGAATACCCCTGTAAGGTAGAATTA-CAGAAATACCCCTATAGGA
1 TAGAATTACCGAATACCCTTGTAAGGTAAAATTACCAGAAATACCCCTATAGGA
* * *
209284254 TAGAATTACCGAAATAACCTTGTAAGGTAGAAA-TACCA-AAATACCCCTGTAGGG
1 TAGAATTACCG-AATACCCTTGTAAGGTA-AAATTACCAGAAATACCCCTATAGGA
* **
209284308 TTGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 TAGAATTACCGA-ATACCCTTGTAAGGTAAAATTACCA
209284346 TTTTGCCCCT
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
53 15 0.19
54 59 0.76
55 4 0.05
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (54 bp):
TAGAATTACCGAATACCCTTGTAAGGTAAAATTACCAGAAATACCCCTATAGGA
Found at i:209284393 original size:26 final size:26
Alignment explanation
Indices: 209284345--209284397 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
209284335 TAAAATTACC
* *
209284345 ATTTTGCCCCTAGGGTGTTAATGACT
1 ATTTTGCCCCTAGGGCGTAAATGACT
* *
209284371 ATTTTGCCCCTCGTGCGTAAATGACT
1 ATTTTGCCCCTAGGGCGTAAATGACT
209284397 A
1 A
209284398 ACTTGTGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGCGTAAATGACT
Found at i:209285107 original size:26 final size:26
Alignment explanation
Indices: 209285060--209285110 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
209285050 CTCGCTGCAA
209285060 TCTGGTGCCTCGCCACATATATCTGT
1 TCTGGTGCCTCGCCACATATATCTGT
* *
209285086 TCTGGTGACTTCGTCACA-ATATCTG
1 TCTGGTG-CCTCGCCACATATATCTG
209285111 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGCCTCGCCACATATATCTGT
Found at i:209285117 original size:66 final size:65
Alignment explanation
Indices: 209284976--209285121 Score: 258
Period size: 65 Copynumber: 2.2 Consensus size: 65
209284966 GAGGAAGCGT
*
209284976 TCTGGCAGACTCGCTGCAATCTGGTGACCTCGCCACATATATCTGTTCTGTGATTCGTCACAATA
1 TCTGGCAGCCTCGCTGCAATCTGGTGACCTCGCCACATATATCTGTTCTGTGATTCGTCACAATA
209285041 TCTGGCAGCCTCGCTGCAATCTGGTG-CCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGACCTCGCCACATATATCTGTTCT-GTGA-TTCGTCACAA
209285105 TA
64 TA
209285107 TCTGGCAGCCTCGCT
1 TCTGGCAGCCTCGCT
209285122 TAAATCCGGT
Statistics
Matches: 78, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
64 22 0.28
65 29 0.37
66 27 0.35
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.30
Consensus pattern (65 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGACCTCGCCACATATATCTGTTCTGTGATTCGTCACAATA
Found at i:209286904 original size:30 final size:30
Alignment explanation
Indices: 209286845--209286936 Score: 159
Period size: 30 Copynumber: 3.1 Consensus size: 30
209286835 CCTTTTCATA
*
209286845 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGG-CGAAGCCT
209286876 TTTCATATTTCATATTACTGGGCGAAGCCT
1 TTTCATATTTCATATTACTGGGCGAAGCCT
209286906 TTTCATATTTCATATTACT-GGCGAAGCCT
1 TTTCATATTTCATATTACTGGGCGAAGCCT
209286935 TT
1 TT
209286937 ACTGTAAACG
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 12 0.20
30 27 0.45
31 21 0.35
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (30 bp):
TTTCATATTTCATATTACTGGGCGAAGCCT
Found at i:209287179 original size:24 final size:24
Alignment explanation
Indices: 209287128--209287246 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
209287118 GCTTTATCAT
*
209287128 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
209287153 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
209287177 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
209287200 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
209287224 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
209287247 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:209287207 original size:47 final size:48
Alignment explanation
Indices: 209287128--209287246 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
209287118 GCTTTATCAT
*
209287128 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
209287177 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
209287224 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
209287247 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:209287327 original size:11 final size:11
Alignment explanation
Indices: 209287297--209287350 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
209287287 TATGATTACC
209287297 TCATGTGCATA
1 TCATGTGCATA
*
209287308 TCA--TACATA
1 TCATGTGCATA
209287317 TCATGTGCATA
1 TCATGTGCATA
*
209287328 TCA--TACAT-
1 TCATGTGCATA
209287336 TCATGTGCATA
1 TCATGTGCATA
209287347 TCAT
1 TCAT
209287351 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:209287341 original size:19 final size:20
Alignment explanation
Indices: 209287297--209287355 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
209287287 TATGATTACC
209287297 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
209287317 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
209287336 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
209287356 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:209287430 original size:25 final size:25
Alignment explanation
Indices: 209287398--209287445 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
209287388 ATACATAAAC
* * *
209287398 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
209287423 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
209287446 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:209294962 original size:31 final size:31
Alignment explanation
Indices: 209294924--209295017 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
209294914 CCTTTTCATA
*
209294924 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
209294955 TTTCATATTTCATATTACTGGGCCGAAG-CT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
209294985 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
209295016 TT
1 TT
209295018 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 30 0.49
31 31 0.51
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:209294989 original size:30 final size:30
Alignment explanation
Indices: 209294924--209295013 Score: 162
Period size: 30 Copynumber: 3.0 Consensus size: 30
209294914 CCTTTTCATA
*
209294924 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAG-CT
209294955 TTTCATATTTCATATTACTGGGCCGAAGCT
1 TTTCATATTTCATATTACTGGGCCGAAGCT
209294985 TTTCATATTTCATATTACTGGGCCGAAGC
1 TTTCATATTTCATATTACTGGGCCGAAGC
209295014 CTTTACTGTA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 31 0.53
31 27 0.47
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (30 bp):
TTTCATATTTCATATTACTGGGCCGAAGCT
Found at i:209295260 original size:24 final size:24
Alignment explanation
Indices: 209295209--209295327 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
209295199 GCTTTATCAT
*
209295209 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
209295234 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
209295258 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
209295281 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
209295305 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
209295328 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:209295288 original size:47 final size:48
Alignment explanation
Indices: 209295209--209295327 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
209295199 GCTTTATCAT
*
209295209 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
209295258 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
209295305 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
209295328 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:209295403 original size:20 final size:20
Alignment explanation
Indices: 209295378--209295437 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
209295368 TATGATTACC
209295378 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
209295398 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
209295418 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
209295438 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:209295408 original size:11 final size:11
Alignment explanation
Indices: 209295378--209295432 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
209295368 TATGATTACC
209295378 TCATGTGCATA
1 TCATGTGCATA
*
209295389 TCA--TACATA
1 TCATGTGCATA
209295398 TCATGTGCATA
1 TCATGTGCATA
* *
209295409 TCA--TACATT
1 TCATGTGCATA
209295418 TCATGTGCATA
1 TCATGTGCATA
209295429 TCAT
1 TCAT
209295433 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:209295512 original size:25 final size:25
Alignment explanation
Indices: 209295480--209295527 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
209295470 ATACATAAAC
* * *
209295480 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
209295505 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
209295528 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:209298295 original size:39 final size:40
Alignment explanation
Indices: 209298103--209298371 Score: 418
Period size: 40 Copynumber: 6.8 Consensus size: 40
209298093 CCAGCATGAT
** *
209298103 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
209298143 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
209298183 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
209298223 TGCTCTTCGGGACTTAGCCCGGATTTATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
209298263 TGCTCTTCGGGACTTAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
209298302 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
209298341 TGCTCTTCGGGACTTAG-CCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
209298372 CTCAATTCTC
Statistics
Matches: 210, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
38 8 0.04
39 70 0.33
40 132 0.63
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:209299698 original size:37 final size:37
Alignment explanation
Indices: 209299639--209299747 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
209299629 AGCTCAGACG
* *
209299639 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
209299676 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
209299713 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
209299748 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:209300043 original size:47 final size:47
Alignment explanation
Indices: 209299952--209300189 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
209299942 TATATATATT
* * * * *
209299952 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
209299997 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
209300044 TCACATTGGCCATTCGGCCTTATCACATATATGCATGATCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
209300091 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
209300138 TCACATTGGCCATTCGGCCTTATCACATATATGCAT-TTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
209300184 TCACAT
1 TCACAT
209300190 AAAATCCTAA
Statistics
Matches: 181, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
45 19 0.10
46 16 0.09
47 146 0.81
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:209300070 original size:22 final size:22
Alignment explanation
Indices: 209300043--209300165 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
209300033 GCTCACATTC
209300043 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
209300065 ATCACATATATG-CATGATC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
209300089 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
209300112 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
209300136 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
209300159 ATCACAT
1 ATCACAT
209300166 ATATGCATTT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 16 0.21
25 18 0.24
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:209305935 original size:25 final size:25
Alignment explanation
Indices: 209305901--209305952 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
209305891 ATTATAAATG
209305901 AATGTTATATGCTTTGATATTGCAT
1 AATGTTATATGCTTTGATATTGCAT
209305926 AATGTTATATGCTTTGATATTGCAT
1 AATGTTATATGCTTTGATATTGCAT
209305951 AA
1 AA
209305953 AATTTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (25 bp):
AATGTTATATGCTTTGATATTGCAT
Found at i:209317724 original size:2 final size:2
Alignment explanation
Indices: 209317719--209317744 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
209317709 TATATATATG
209317719 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
209317745 TATAATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:209317764 original size:3 final size:3
Alignment explanation
Indices: 209317756--209317785 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
209317746 ATAATTAAGT
209317756 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
209317786 GATAGATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:209330916 original size:296 final size:296
Alignment explanation
Indices: 209330380--209330952 Score: 945
Period size: 296 Copynumber: 1.9 Consensus size: 296
209330370 TGCTCCAAAT
* * * ***
209330380 TAGTCCTTGCCTATTTTTAGACTATTTTTAGGGTCTTGTAGACTCGAAATAGAGGCTATTATTGT
1 TAGTCCTTGCCTATTTTTAGACTATTTTTAGGGTCTCGTAGACTCAAAATAGAGGCTATAAGAAT
* * *
209330445 AACTTTTATTCTGAATTGGAATGAATTAGCAAACCTGAATTAAGTGAATTCTACTAAAATCATCG
66 AACTTTTACTCTAAATTGGAATGAATTAGCAAACCTAAATTAAGTGAATTCTACTAAAATCATCG
209330510 AAGGTAGTAATAGTCGAAGTATGGACCAATACTCTGATGCTAATAATTGGAATAGTATTGTTATG
131 AAGGTAGTAATAGTCGAAGTATGGACCAATACTCTGATGCTAATAATTGGAATAGTATTGTTATG
* *
209330575 CATCCAACTTTTAGCTTTCAAGATGGGATAAATAGTGAGAAGAGTGTAGACAGTGGAAAACCAAG
196 CATCCAACTTCTAGCTTTCAAGAAGGGATAAATAGTGAGAAGAGTGTAGACAGTGGAAAACCAAG
209330640 TTTAGCATTGCATGGTATGGTACACTATTTGGTTAC
261 TTTAGCATTGCATGGTATGGTACACTATTTGGTTAC
*
209330676 TAGTCCTTGCC-AGTTTTTAGACTATTTTTAGGGTCTCGTAGACTCAAAATAGAGGCTGTAAGAA
1 TAGTCCTTGCCTA-TTTTTAGACTATTTTTAGGGTCTCGTAGACTCAAAATAGAGGCTATAAGAA
*
209330740 TAACTTTTACTCTAAATTGGAATGAATTAGCAAACCTAAATTAAGTGAATTCTACTAACATCATC
65 TAACTTTTACTCTAAATTGGAATGAATTAGCAAACCTAAATTAAGTGAATTCTACTAAAATCATC
*
209330805 GAAGGTAGTAATAGTC-AGAGTATGGACCAATACT-TCGATGCTAATAATTGGAATAGTCTTGTT
130 GAAGGTAGTAATAGTCGA-AGTATGGACCAATACTCT-GATGCTAATAATTGGAATAGTATTGTT
* * *
209330868 ATGTATCCAACTTCTAGCTTTCAAGAAGGGATAAATAGTGATAAGAGTGTAGACAGTGGAAGACC
193 ATGCATCCAACTTCTAGCTTTCAAGAAGGGATAAATAGTGAGAAGAGTGTAGACAGTGGAAAACC
209330933 AAGTTTAGCATTGCATGGTA
258 AAGTTTAGCATTGCATGGTA
209330953 CGATATGCTA
Statistics
Matches: 257, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
295 3 0.01
296 254 0.99
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (296 bp):
TAGTCCTTGCCTATTTTTAGACTATTTTTAGGGTCTCGTAGACTCAAAATAGAGGCTATAAGAAT
AACTTTTACTCTAAATTGGAATGAATTAGCAAACCTAAATTAAGTGAATTCTACTAAAATCATCG
AAGGTAGTAATAGTCGAAGTATGGACCAATACTCTGATGCTAATAATTGGAATAGTATTGTTATG
CATCCAACTTCTAGCTTTCAAGAAGGGATAAATAGTGAGAAGAGTGTAGACAGTGGAAAACCAAG
TTTAGCATTGCATGGTATGGTACACTATTTGGTTAC
Found at i:209339847 original size:29 final size:29
Alignment explanation
Indices: 209339813--209339943 Score: 135
Period size: 29 Copynumber: 4.6 Consensus size: 29
209339803 TAATCGATCA
*
209339813 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * * **
209339842 CGCACACATAGTGCGTATA-ATTT-AAATT
1 CGCACACTTAGTGC-CATACTTTTCAAGCT
209339870 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
209339899 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
209339928 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
209339944 ATCTTGTCAC
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.03
28 22 0.25
29 60 0.69
30 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:209348091 original size:40 final size:39
Alignment explanation
Indices: 209347926--209348109 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
209347916 AAATTGAATG
* * *
209347926 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
209347966 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
209348006 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
209348046 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
209348085 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
209348110 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:209348092 original size:80 final size:80
Alignment explanation
Indices: 209347970--209348118 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
209347960 GAAATTATAA
* * * *
209347970 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
209348035 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
209348050 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
209348114 GTGCG
65 GTGCG
209348119 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:209348134 original size:80 final size:81
Alignment explanation
Indices: 209347966--209348137 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
209347956 GCTGGAAATT
* * * *
209347966 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
209348031 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
209348047 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
209348110 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
209348126 ATAACCGGGCTA
1 ATAACCGGGCTA
209348138 TGTCCGAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:209356199 original size:40 final size:39
Alignment explanation
Indices: 209356034--209356217 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
209356024 AAATTGAATG
* * *
209356034 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
209356074 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
209356114 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
209356154 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
209356193 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
209356218 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:209356242 original size:80 final size:81
Alignment explanation
Indices: 209356074--209356262 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
209356064 GCTGGAAATT
* * * *
209356074 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
209356139 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
209356155 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
209356218 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
209356234 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
209356263 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:209360036 original size:21 final size:21
Alignment explanation
Indices: 209360010--209360049 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
209360000 TGCAACCTAT
* *
209360010 CCCGTACCAGCCAGCACACCA
1 CCCGTACCAACCAACACACCA
209360031 CCCGTACCAACCAACACAC
1 CCCGTACCAACCAACACAC
209360050 ATGTGGGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.53, G:0.10, T:0.05
Consensus pattern (21 bp):
CCCGTACCAACCAACACACCA
Found at i:209366790 original size:27 final size:27
Alignment explanation
Indices: 209366760--209366884 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
209366750 ATTTCGGTCC
* *
209366760 TTTTATCACATGAGGGAAAAATCGTCA
1 TTTTATCACATAAGGGTAAAATCGTCA
*
209366787 TTTTATCACATAAGGGTAAAATCGTTA
1 TTTTATCACATAAGGGTAAAATCGTCA
* *
209366814 TTTTATCACATAAGGGCAAAATCATCA
1 TTTTATCACATAAGGGTAAAATCGTCA
* *
209366841 TTTTATCACATAAGAGTAAAATTGTCA
1 TTTTATCACATAAGGGTAAAATCGTCA
*
209366868 TTTTATCACATGAGGGT
1 TTTTATCACATAAGGGT
209366885 TCAGGCACGT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (27 bp):
TTTTATCACATAAGGGTAAAATCGTCA
Done.