Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 61 of 311
Found at i:18017487 original size:94 final size:94
Alignment explanation
Indices: 18017298--18017511 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 94
18017288 AAGCTAACAC
* *** *
18017298 CATGTCCCAGACAGGTCTTACACTAGCTTGCCTATCTCGAGGCCGATGCATGTCCCAGGCATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * *
18017363 TTACACTAGCTCTCGTCTCAACGCTTATT
66 TTACACTAGCTCTCATATCAACGCTGATT
* * * * *
18017392 CATGTCCCAAACATGTCTTACTCTGGCTTAAATATCTCGAGGCTGATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * * ****
18017457 TTTCACTGGCTTTCATATTGTGGCTGATT
66 TTACACTAGCTCTCATATCAACGCTGATT
*
18017486 CATGTCCCAGACATGTTTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
18017512 TACACATATC
Statistics
Matches: 96, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATATCAACGCTGATT
Found at i:18017499 original size:46 final size:48
Alignment explanation
Indices: 18017298--18017509 Score: 148
Period size: 48 Copynumber: 4.5 Consensus size: 48
18017288 AAGCTAACAC
* * * *** * *
18017298 CATGTCCCAGACAGGTCTTACACTAGCTTGCCTATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTTCACTGGCTTAAATATCTCGAGGCTGATT
* * * ** * * *
18017346 CATGTCCCAGGCATGTCTTACACTAGCTCT---CGTCTCAACGCTTATT
1 CATGTCCCAGACATGTCTTTCACTGGCT-TAAATATCTCGAGGCTGATT
* * * *
18017392 CATGTCCCAAACATGTCTTACTCTGGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTTCACTGGCTTAAATATCTCGAGGCTGATT
* ** *
18017440 CATGTCCTAGACATGTCTTTCACTGGCTTTCATAT-T-GTGGCTGATT
1 CATGTCCCAGACATGTCTTTCACTGGCTTAAATATCTCGAGGCTGATT
18017486 CATGTCCCAGACATGT-TTTACACT
1 CATGTCCCAGACATGTCTTT-CACT
18017510 AGTACACATA
Statistics
Matches: 131, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
45 4 0.03
46 60 0.46
47 1 0.01
48 65 0.50
49 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTTCACTGGCTTAAATATCTCGAGGCTGATT
Found at i:18021645 original size:22 final size:21
Alignment explanation
Indices: 18021619--18021670 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
18021609 CAAGTTTCCT
18021619 TTATATTAATTGGTTATCATTA
1 TTATATTAATTGGTTATCA-TA
**
18021641 TTATA-T-ATTTTTTATCATA
1 TTATATTAATTGGTTATCATA
18021660 TTGATATTAAT
1 TT-ATATTAAT
18021671 ATGTATACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 2 0.08
22 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (21 bp):
TTATATTAATTGGTTATCATA
Found at i:18028349 original size:27 final size:27
Alignment explanation
Indices: 18028319--18028378 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
18028309 TAAAAATATA
*
18028319 AATTTT-ATATTT-TTTATAAATATTTTG
1 AATTTTAAAATTTATTTA-AAAT-TTTTG
18028346 AATTTTAAAATTTATTTAAAATTTTTG
1 AATTTTAAAATTTATTTAAAATTTTTG
18028373 AATTTT
1 AATTTT
18028379 TTTTTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 17 0.57
28 9 0.30
29 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
AATTTTAAAATTTATTTAAAATTTTTG
Found at i:18032656 original size:20 final size:21
Alignment explanation
Indices: 18032618--18032656 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18032608 ATTTTGAAAT
*
18032618 TTCCACATGGTTGTGTAACCC
1 TTCCACATGGTTCTGTAACCC
18032639 TTCCACATGG-TCTGTAAC
1 TTCCACATGGTTCTGTAAC
18032657 ATCCATACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (21 bp):
TTCCACATGGTTCTGTAACCC
Found at i:18044611 original size:40 final size:40
Alignment explanation
Indices: 18044560--18044789 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
18044550 ATAACCACAA
* * * *
18044560 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
18044600 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
18044640 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
18044680 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
18044720 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
18044760 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
18044790 GTATTCAAAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 172 0.98
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:18049492 original size:28 final size:27
Alignment explanation
Indices: 18049446--18049515 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
18049436 AAAATTATAG
* * *
18049446 ATTTTCTAAAATTCTAAAAGATCTTTCAA
1 ATTTTCTAAAATT-AAAAAAAT-TTTAAA
18049475 ATTTT-TAAAATTAAAAAAATTTTAAA
1 ATTTTCTAAAATTAAAAAAATTTTAAA
18049501 ATTTTCATAAAATTA
1 ATTTTC-TAAAATTA
18049516 TAGGAAGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.28
27 6 0.17
28 15 0.42
29 5 0.14
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (27 bp):
ATTTTCTAAAATTAAAAAAATTTTAAA
Found at i:18050119 original size:74 final size:74
Alignment explanation
Indices: 18049988--18050146 Score: 300
Period size: 74 Copynumber: 2.1 Consensus size: 74
18049978 CTCATTTTAA
18049988 TATCTTAAACTCAATTAAGATGAATGTAGACATATGGATGTCCAAGTTAATCTCATCTTTCCCAC
1 TATC-TAAA-TCAATTAAGATGAATGTAGACATATGGATGTCCAAGTTAATCTCATCTTTCCCAC
18050053 ACCATCATAGT
64 ACCATCATAGT
18050064 TATCTAAATCAATTAAGATGAATGTAGACATATGGATGTCCAAGTTAATCTCATCTTTCCCACAC
1 TATCTAAATCAATTAAGATGAATGTAGACATATGGATGTCCAAGTTAATCTCATCTTTCCCACAC
18050129 CATCATAGT
66 CATCATAGT
18050138 TATCTAAAT
1 TATCTAAAT
18050147 ATGAGATGAA
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
74 75 0.90
75 4 0.05
76 4 0.05
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (74 bp):
TATCTAAATCAATTAAGATGAATGTAGACATATGGATGTCCAAGTTAATCTCATCTTTCCCACAC
CATCATAGT
Found at i:18055089 original size:17 final size:17
Alignment explanation
Indices: 18055049--18055096 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
18055039 CATTGATATG
18055049 CATATAATATATACACA
1 CATATAATATATACACA
*
18055066 CACATAATATATACACA
1 CATATAATATATACACA
18055083 -ATTATAATAATATA
1 CA-TATAAT-ATATA
18055097 AAATTAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 21 0.78
18 5 0.19
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (17 bp):
CATATAATATATACACA
Found at i:18058262 original size:26 final size:26
Alignment explanation
Indices: 18058224--18058307 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
18058214 CATGAAATTC
* *
18058224 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
18058250 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
18058276 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
18058302 TTATCA
1 TTATCA
18058308 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:18058915 original size:22 final size:22
Alignment explanation
Indices: 18058890--18058931 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18058880 CATAAAATTA
18058890 AAAAAGAA-AAACGAATCAATCC
1 AAAAAGAATAAA-GAATCAATCC
*
18058912 AAAAATAATAAAGAATCAAT
1 AAAAAGAATAAAGAATCAAT
18058932 TCATTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.67, C:0.12, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAGAATAAAGAATCAATCC
Found at i:18062412 original size:2 final size:2
Alignment explanation
Indices: 18062405--18062430 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18062395 GTCCAAAATT
18062405 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
18062431 AAAAGAACTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18065828 original size:112 final size:116
Alignment explanation
Indices: 18065712--18065922 Score: 270
Period size: 112 Copynumber: 1.9 Consensus size: 116
18065702 AAACTATATG
* * * * ** *
18065712 ATACATACTTTAACATTTTATAC-AAATATAATATAGAAAATGAT-AA-ATAACGACATAAATTA
1 ATACATACATT-ACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTA
* *
18065774 CAT-A-ATATACATTAACATTTCATGCAGATATAATCATAAATAACATAAAT
65 CATAATATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
* *
18065824 ATACATACATTACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTAC
1 ATACATACATTACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTAC
*
18065889 ATAATATATACAATAATATTTCATGCAAATATAA
66 ATAATATATACAATAACATTTCATGCAAATATAA
18065923 CTTAAAATAA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
111 9 0.11
112 27 0.33
113 2 0.02
114 17 0.21
115 1 0.01
116 26 0.32
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (116 bp):
ATACATACATTACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTAC
ATAATATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
Found at i:18066108 original size:14 final size:15
Alignment explanation
Indices: 18066082--18066130 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
18066072 TGAACATATA
*
18066082 AAATATAAAAAAAAT
1 AAATACAAAAAAAAT
*
18066097 AAATAC-AAAAAACT
1 AAATACAAAAAAAAT
18066111 AAATACAATAAAAAAT
1 AAATACAA-AAAAAAT
18066127 AAAT
1 AAAT
18066131 GAGGTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.45
15 6 0.21
16 10 0.34
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATACAAAAAAAAT
Found at i:18066149 original size:34 final size:30
Alignment explanation
Indices: 18066080--18066149 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 30
18066070 TATGAACATA
*
18066080 TAAAATATAAAAAAAATAAATACAAAAAAC
1 TAAAATACAAAAAAAATAAATACAAAAAAC
*
18066110 T-AAATACAATAAAAAATAAATGAGGTAAAAAAC
1 TAAAATACAA-AAAAAATAAAT-A--CAAAAAAC
18066143 TAAAATA
1 TAAAATA
18066150 TTTAAAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 7 0.21
30 12 0.36
31 1 0.03
33 8 0.24
34 5 0.15
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (30 bp):
TAAAATACAAAAAAAATAAATACAAAAAAC
Found at i:18066432 original size:29 final size:29
Alignment explanation
Indices: 18066398--18066464 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 29
18066388 ACAAAAAAAT
18066398 ATAATATATAATAGAATAAAATAATATAATGA
1 ATAATATAT-ATAG--TAAAATAATATAATGA
*
18066430 ATAATATATATAGTAAAATGATATAAT-A
1 ATAATATATATAGTAAAATAATATAATGA
18066458 TATAATA
1 -ATAATA
18066465 AAATATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 1 0.03
29 19 0.58
31 4 0.12
32 9 0.27
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (29 bp):
ATAATATATATAGTAAAATAATATAATGA
Found at i:18066437 original size:32 final size:32
Alignment explanation
Indices: 18066398--18066529 Score: 123
Period size: 34 Copynumber: 4.1 Consensus size: 32
18066388 ACAAAAAAAT
*
18066398 ATAATATATAATAGAATA-AAATAATATAATGA
1 ATAATATATAATAAAATATAAATAATATAAT-A
18066430 ATAATATATATAGTAAAATGATATAAT-ATATAATA
1 ATAATATATA-A-TAAAAT-ATA-AATAATATAATA
*
18066465 A-AATATATAAATAAAATATAAATAATATGATAA
1 ATAATATAT-AATAAAATATAAATAATATAAT-A
*
18066498 ATAATACATAAATAAAA-AT-AAT-ATATAATA
1 ATAATATAT-AATAAAATATAAATAATATAATA
18066528 AT
1 AT
18066530 TTTTTACATA
Statistics
Matches: 87, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
30 3 0.03
31 9 0.10
32 22 0.25
33 11 0.13
34 27 0.31
35 4 0.05
36 8 0.09
37 3 0.03
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (32 bp):
ATAATATATAATAAAATATAAATAATATAATA
Found at i:18066475 original size:29 final size:28
Alignment explanation
Indices: 18066413--18066485 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
18066403 ATATAATAGA
*
18066413 ATAAAATAATATAATGAATAATATATAT
1 ATAAAATAATATAATGAATAATAAATAT
*
18066441 AGTAAAATGATATAAT-ATATAATAAAATAT
1 A-TAAAATAATATAATGA-ATAAT-AAATAT
*
18066471 ATAAATAAAATATAA
1 ATAAA-ATAATATAA
18066486 ATAATATGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 2 0.05
29 22 0.59
30 13 0.35
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (28 bp):
ATAAAATAATATAATGAATAATAAATAT
Found at i:18066483 original size:23 final size:23
Alignment explanation
Indices: 18066452--18066528 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 23
18066442 GTAAAATGAT
*
18066452 ATAATATATAATAAAATATATAA
1 ATAAAATATAATAAAATATATAA
*
18066475 ATAAAATATAA-ATAATATGATAA
1 ATAAAATATAATAAAATAT-ATAA
18066498 ATAATACATA-AATAAAAATAATATATA
1 ATAA-A-ATATAAT-AAAAT-ATATA-A
18066525 ATAA
1 ATAA
18066529 TTTTTTACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 6 0.14
23 18 0.41
24 3 0.07
25 3 0.07
26 7 0.16
27 7 0.16
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (23 bp):
ATAAAATATAATAAAATATATAA
Found at i:18066499 original size:12 final size:11
Alignment explanation
Indices: 18066398--18066512 Score: 87
Period size: 12 Copynumber: 10.4 Consensus size: 11
18066388 ACAAAAAAAT
18066398 ATAATATAT-A
1 ATAATATATAA
18066408 ATAGA-ATA-AA
1 ATA-ATATATAA
*
18066418 ATAATATAATGA
1 ATAATAT-ATAA
18066430 ATAATATATATA
1 ATAATATATA-A
* *
18066442 GTAA-A-ATGAT
1 ATAATATAT-AA
18066452 ATAATATATAA
1 ATAATATATAA
*
18066463 TAAAATATATAA
1 -ATAATATATAA
*
18066475 ATAAAATATAA
1 ATAATATATAA
18066486 ATAATATGATAA
1 ATAATAT-ATAA
*
18066498 ATAATACATAA
1 ATAATATATAA
18066509 ATAA
1 ATAA
18066513 AAATAATATA
Statistics
Matches: 83, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
9 1 0.01
10 17 0.20
11 31 0.37
12 34 0.41
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (11 bp):
ATAATATATAA
Found at i:18066588 original size:25 final size:24
Alignment explanation
Indices: 18066560--18066612 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
18066550 GTTTATAGTA
*
18066560 AAAATAAAT-AATATATAAAATATTT
1 AAAATAAATAAAT-TATAAAA-AATT
18066585 AAAATAAATAAATTATAAAAAATT
1 AAAATAAATAAATTATAAAAAATT
18066609 AAAA
1 AAAA
18066613 GGATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 16 0.62
26 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATAAATAAATTATAAAAAATT
Found at i:18069580 original size:26 final size:26
Alignment explanation
Indices: 18069551--18069660 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
18069541 CATGAAATTC
*
18069551 TTATCATGAAACATTTACATAATCC-A
1 TTATCATGAAACATTTACCTAA-CCTA
*
18069577 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
18069603 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
18069629 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
18069655 TTATCA
1 TTATCA
18069661 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 2 0.03
26 78 0.98
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:18071205 original size:44 final size:45
Alignment explanation
Indices: 18071155--18071251 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
18071145 TAATATCCTT
** * *
18071155 GATCTGCTCCTTATCAAATACAGAGACGC-AAATTTG-CTATCTTC
1 GATCTGCTCCCCATCAAATACAGAGACACTAAATCTGTC-ATCTTC
* *
18071199 GATCTGCTCCCCGTCTAATACAGAGACACTAAATCTGTCATCTTC
1 GATCTGCTCCCCATCAAATACAGAGACACTAAATCTGTCATCTTC
18071244 GATCTGCT
1 GATCTGCT
18071252 TCGATGTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 24 0.53
45 20 0.44
46 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (45 bp):
GATCTGCTCCCCATCAAATACAGAGACACTAAATCTGTCATCTTC
Found at i:18071287 original size:45 final size:44
Alignment explanation
Indices: 18071238--18071656 Score: 214
Period size: 45 Copynumber: 9.3 Consensus size: 44
18071228 TAAATCTGTC
*
18071238 ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATTTACT
1 ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
** * * * * *
18071283 ATCTTCGATCTGCGCCCCG-TCTAATACATAG-ACGCCTA-ATCTGCT
1 ATCTTCGATCT--GCTTCGATGTAA-ACACAGAATGTC-AGATCTACT
*
18071328 ATCTTCGATCTGCTTCGATGTAAACACACGAATGTTAGATCTACT
1 ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
* * * * * * *
18071373 ATCTTCGATCTGCTCCCCG-TCTAATATAGAGACA--CCAAATCT-GT
1 ATCTTCGATCTGCT--TCGATGTAA-ACACAGA-ATGTCAGATCTACT
*
18071417 CAGCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTACT
1 -ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
* * * * * * **
18071463 ATCTTTGATCTACTTCCCG-TCT-AATACAGAGATGCCAAAT-TTGT
1 ATCTTCGATCTGCTT--CGATGTAAACACAGA-ATGTCAGATCTACT
* *
18071507 AATCTTCAATCTGCTTCGATGTAAACACACGAATGTTAGATCTACT
1 -ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
* *** * * * * * *
18071553 ATCTCCGATCTG-TTCCCCGTCTAATATAGAGATGCCAAATCT-GT
1 ATCTTCGATCTGCTTCGATGT-AAACACAGA-ATGTCAGATCTACT
*
18071597 CATCTTCGATCTGTTTCGATGTAAACACATGAATGTCAGATCTACT
1 -ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
*
18071643 ATCTTCAATCTGCT
1 ATCTTCGATCTGCT
18071657 CCCCGTCTAA
Statistics
Matches: 267, Mismatches: 75, Indels: 64
0.66 0.18 0.16
Matches are distributed among these distances:
43 16 0.06
44 27 0.10
45 181 0.68
46 27 0.10
47 16 0.06
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
ATCTTCGATCTGCTTCGATGTAAACACAGAATGTCAGATCTACT
Found at i:18071344 original size:90 final size:90
Alignment explanation
Indices: 18071191--18071685 Score: 740
Period size: 90 Copynumber: 5.5 Consensus size: 90
18071181 CGCAAATTTG
* *
18071191 CTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACTAAATCTGTCATCTTCGATCTGCTTCGA
1 CTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGA
*
18071256 TGTAAACACACGAATGTCAGATTTA
66 TGTAAACACACGAATGTCAGATCTA
* * *
18071281 CTATCTTCGATCTGCGCCCCGTCTAATACATAGACGCCTAATCTG-CTATCTTCGATCTGCTTCG
1 CTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCG
*
18071345 ATGTAAACACACGAATGTTAGATCTA
65 ATGTAAACACACGAATGTCAGATCTA
* * *
18071371 CTATCTTCGATCTGCTCCCCGTCTAATATAGAGACACCAAATCTGTCAGCTTCGATCTGCTTCGA
1 CTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGA
18071436 TGTAAACACACGAATGTCAGATCTA
66 TGTAAACACACGAATGTCAGATCTA
* * * * * * *
18071461 CTATCTTTGATCTACTTCCCGTCTAATACAGAGATGCCAAATTTGTAATCTTCAATCTGCTTCGA
1 CTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGA
*
18071526 TGTAAACACACGAATGTTAGATCTA
66 TGTAAACACACGAATGTCAGATCTA
* * * * *
18071551 CTATCTCCGATCTGTTCCCCGTCTAATATAGAGATGCCAAATCTGTCATCTTCGATCTGTTTCGA
1 CTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGA
*
18071616 TGTAAACACATGAATGTCAGATCTA
66 TGTAAACACACGAATGTCAGATCTA
* *
18071641 CTATCTTCAATCTGCTCCCCGTCTAATACAGAAACGCCAAATCTG
1 CTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
18071686 CTTCCTCGAT
Statistics
Matches: 360, Mismatches: 43, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
89 1 0.00
90 358 0.99
91 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (90 bp):
CTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGA
TGTAAACACACGAATGTCAGATCTA
Found at i:18082780 original size:14 final size:14
Alignment explanation
Indices: 18082763--18082802 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18082753 CGACTGGAAT
*
18082763 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
*
18082777 GGTAGGAACAAAAT
1 GGTAGGAACAAAAG
*
18082791 GGTATGAACAAA
1 GGTAGGAACAAA
18082803 TTGGGCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.33, T:0.12
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:18084748 original size:112 final size:116
Alignment explanation
Indices: 18084632--18084842 Score: 270
Period size: 112 Copynumber: 1.9 Consensus size: 116
18084622 AAACTATATG
* * * * ** *
18084632 ATACATACTTTAACATTTTATAC-AAATATAATATAGAAAATGAT-AA-ATAACGACATAAATTA
1 ATACATACATT-ACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTA
* *
18084694 CAT-A-ATATACATTAACATTTCATGCAGATATAATCATAAATAACATAAAT
65 CATAATATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
* *
18084744 ATACATACATTACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTAC
1 ATACATACATTACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTAC
*
18084809 ATAATATATACAATAATATTTCATGCAAATATAA
66 ATAATATATACAATAACATTTCATGCAAATATAA
18084843 CTTAAAATAA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
111 9 0.11
112 27 0.33
113 2 0.02
114 17 0.21
115 1 0.01
116 26 0.32
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (116 bp):
ATACATACATTACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTAC
ATAATATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
Found at i:18085030 original size:14 final size:15
Alignment explanation
Indices: 18085004--18085052 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
18084994 TGAACATATA
*
18085004 AAATATAAAAAAAAT
1 AAATACAAAAAAAAT
*
18085019 AAATAC-AAAAAACT
1 AAATACAAAAAAAAT
18085033 AAATACAATAAAAAAT
1 AAATACAA-AAAAAAT
18085049 AAAT
1 AAAT
18085053 GAGGTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.45
15 6 0.21
16 10 0.34
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATACAAAAAAAAT
Found at i:18085331 original size:12 final size:12
Alignment explanation
Indices: 18085316--18085468 Score: 98
Period size: 12 Copynumber: 13.4 Consensus size: 12
18085306 AAAAAACAAA
18085316 ATAATATAATAT
1 ATAATATAATAT
* *
18085328 ATAATAGAACA-
1 ATAATATAATAT
18085339 A-AA-ATAATAT
1 ATAATATAATAT
*
18085349 AATGA-ATAATAT
1 -ATAATATAATAT
18085361 AT-ATAGTAA-A-
1 ATAATA-TAATAT
*
18085371 ATGATATAATAT
1 ATAATATAATAT
*
18085383 ATAATAAAATAT
1 ATAATATAATAT
*
18085395 ATAAATAAAATAT
1 AT-AATATAATAT
18085408 ATAATA-AATAT
1 ATAATATAATAT
18085419 ATAA-ATAATAT
1 ATAATATAATAT
*
18085430 GATAA-ATAATAC
1 -ATAATATAATAT
*
18085442 ATAA-ATAA-AA
1 ATAATATAATAT
18085452 ATAATAT-ATAT
1 ATAATATAATAT
18085463 AATAAT
1 -ATAAT
18085469 TTTTACATAT
Statistics
Matches: 117, Mismatches: 10, Indels: 28
0.75 0.06 0.18
Matches are distributed among these distances:
9 4 0.03
10 15 0.13
11 35 0.30
12 51 0.44
13 12 0.10
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:18085384 original size:20 final size:19
Alignment explanation
Indices: 18085313--18085467 Score: 81
Period size: 20 Copynumber: 8.1 Consensus size: 19
18085303 AATAAAAAAC
18085313 AAAATAATATAATATATAAT
1 AAAAT-ATATAATATATAAT
* * *
18085333 AGAACA-AAAATAATATAAT
1 AAAATATATAAT-ATATAAT
* *
18085352 -GAATA-AT-ATATATAGT
1 AAAATATATAATATATAAT
18085368 AAAATGATATAATATATAAT
1 AAAAT-ATATAATATATAAT
*
18085388 AAAATATATAA-ATAAAAT
1 AAAATATATAATATATAAT
* *
18085406 ATATAATAAATATATAAATAAT
1 A-A-AATATATA-ATATATAAT
** * *
18085428 ATGATAAATAATACATAAAT
1 AAAATATATAATATAT-AAT
18085448 AAAA-ATA-ATATATATAAT
1 AAAATATATA-ATATATAAT
18085466 AA
1 AA
18085468 TTTTTACATA
Statistics
Matches: 105, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
16 6 0.06
17 5 0.05
18 23 0.22
19 29 0.28
20 35 0.33
21 1 0.01
22 6 0.06
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATATATAATATATAAT
Found at i:18085455 original size:17 final size:18
Alignment explanation
Indices: 18085433--18085467 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18085423 ATAATATGAT
18085433 AAATAATACATA-AATAA
1 AAATAATACATATAATAA
*
18085450 AAATAATATATATAATAA
1 AAATAATACATATAATAA
18085468 TTTTTACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAATACATATAATAA
Found at i:18085480 original size:20 final size:19
Alignment explanation
Indices: 18085455--18085492 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18085445 AATAAAAATA
*
18085455 ATATATATAATAATTTTTAC
1 ATATATA-AATAATGTTTAC
18085475 ATATATAAATAATGTTTA
1 ATATATAAATAATGTTTA
18085493 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
ATATATAAATAATGTTTAC
Found at i:18089631 original size:17 final size:17
Alignment explanation
Indices: 18089609--18089645 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18089599 CACATTTCTT
18089609 GACCCTTATACTTCATA
1 GACCCTTATACTTCATA
*
18089626 GACCCTTGTACTTCATA
1 GACCCTTATACTTCATA
18089643 GAC
1 GAC
18089646 ATCAAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (17 bp):
GACCCTTATACTTCATA
Found at i:18090654 original size:2 final size:2
Alignment explanation
Indices: 18090643--18090674 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18090633 CAAAACATGC
18090643 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18090675 ATCGAAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18091137 original size:29 final size:29
Alignment explanation
Indices: 18091101--18091157 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
18091091 AACACATCTC
18091101 CCTTTTGTTCACCTATCCTTGTTTCTCTT
1 CCTTTTGTTCACCTATCCTTGTTTCTCTT
*
18091130 CCTTTTGTTCACCTGTCCTTGTTTCTCT
1 CCTTTTGTTCACCTATCCTTGTTTCTCT
18091158 ACCAGGGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.05, C:0.32, G:0.09, T:0.54
Consensus pattern (29 bp):
CCTTTTGTTCACCTATCCTTGTTTCTCTT
Found at i:18091346 original size:14 final size:13
Alignment explanation
Indices: 18091318--18091350 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
18091308 CAAAACCCAA
18091318 AAACCT-AAAAAT
1 AAACCTAAAAAAT
18091330 AAACCTAAAAAATT
1 AAACCTAAAAAA-T
18091344 AAACCTA
1 AAACCTA
18091351 TACTTTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 5 0.26
14 8 0.42
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACCTAAAAAAT
Found at i:18093098 original size:19 final size:20
Alignment explanation
Indices: 18093074--18093113 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18093064 TTATTTATTT
18093074 TTTTATAA-TTTTTTAAAAA
1 TTTTATAATTTTTTTAAAAA
18093093 TTTTATAATTTTTTTAAAAA
1 TTTTATAATTTTTTTAAAAA
18093113 T
1 T
18093114 ATAAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATAATTTTTTTAAAAA
Found at i:18093121 original size:19 final size:20
Alignment explanation
Indices: 18093082--18093122 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18093072 TTTTTTATAA
* *
18093082 TTTTTTAAAAATTTTATAAT
1 TTTTTTAAAAATTATAAAAT
18093102 TTTTTTAAAAA-TATAAAAT
1 TTTTTTAAAAATTATAAAAT
18093121 TT
1 TT
18093123 GGAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTAAAAATTATAAAAT
Found at i:18093150 original size:18 final size:19
Alignment explanation
Indices: 18093113--18093149 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18093103 TTTTTAAAAA
18093113 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
18093131 TATAAATATTTGGAATTTT
1 TATAAATATTTGGAATTTT
18093150 AAAAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:18093155 original size:18 final size:19
Alignment explanation
Indices: 18093119--18093179 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
18093109 AAAATATAAA
*
18093119 ATTTGGAATTTTTATAAA-T
1 ATTTGGAA-TTTTAAAAATT
18093138 ATTTGGAATTTTAAAAATT
1 ATTTGGAATTTTAAAAATT
*
18093157 ATATT-GATTTTTAAAAATT
1 AT-TTGGAATTTTAAAAATT
18093176 ATTT
1 ATTT
18093180 TGAAATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 10 0.26
19 26 0.68
20 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.52
Consensus pattern (19 bp):
ATTTGGAATTTTAAAAATT
Found at i:18094958 original size:93 final size:93
Alignment explanation
Indices: 18094845--18095016 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18094835 CGCCCATAAG
* *
18094845 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18094910 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
18094938 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18095003 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18095017 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18095013 original size:46 final size:46
Alignment explanation
Indices: 18094838--18095013 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18094828 TGTAACCCGC
* * *
18094838 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18094884 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
18094934 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18094977 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18095014 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18102533 original size:93 final size:93
Alignment explanation
Indices: 18102420--18102591 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18102410 CGCCCATAAG
* *
18102420 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18102485 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
18102513 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18102578 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18102592 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18102588 original size:46 final size:46
Alignment explanation
Indices: 18102413--18102588 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18102403 TGTAACCCGC
* * *
18102413 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18102459 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
18102509 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18102552 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18102589 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18104879 original size:19 final size:19
Alignment explanation
Indices: 18104855--18104897 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
18104845 TAGGAATGAG
18104855 TTTAAGATGGTGGGAGGTT
1 TTTAAGATGGTGGGAGGTT
18104874 TTTAAGATGGTGGGAGGTT
1 TTTAAGATGGTGGGAGGTT
18104893 TTTAA
1 TTTAA
18104898 ATGAATCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (19 bp):
TTTAAGATGGTGGGAGGTT
Found at i:18107140 original size:13 final size:13
Alignment explanation
Indices: 18107122--18107146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18107112 AAGTAATCGC
18107122 ACACGGGCGTGTT
1 ACACGGGCGTGTT
18107135 ACACGGGCGTGT
1 ACACGGGCGTGT
18107147 CCCTACTGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:18124220 original size:118 final size:118
Alignment explanation
Indices: 18123972--18124290 Score: 364
Period size: 118 Copynumber: 2.7 Consensus size: 118
18123962 GAATATATTA
* **
18123972 AACCTTTTGACGCGAAG-AGAGATGACAACCCAAGCACCCCACCCCGGTTACTCAGCCCAA-CAT
1 AACCTTTTGACGCGAAGTAGA-ATGACAACCCAAGCACCCTACCCCGGTTACTCA-ATCAATCAT
* * * ** *
18124035 -ACTCCTAA--AATTATTTAT-TTCT-GGTTAGCGGAGTTTTACCCAACACGTCACAC
64 GA-T-CTAAGCCA-TACTCATAACCTCGGCTAGCGGAGTTTTACCCAACACGTCACAC
*
18124088 AACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAATCAGTCATGA
1 AACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAATCAATCATGA
* * ****
18124153 TTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGTCACGTCACAC
66 TCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACCCAACACGTCACAC
* *
18124206 AACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACTCCGGTTACTCAGTCAATCATGA
1 AACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAATCAATCATGA
**
18124271 TCTAAGCTGTACTCATAACC
66 TCTAAGCCATACTCATAACC
18124291 ATGGAAAACA
Statistics
Matches: 173, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
115 4 0.02
116 58 0.34
117 7 0.04
118 104 0.60
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (118 bp):
AACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAATCAATCATGA
TCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACCCAACACGTCACAC
Found at i:18125118 original size:42 final size:42
Alignment explanation
Indices: 18125066--18125177 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 42
18125056 GGTTTTGGGG
* * *
18125066 ATTCTAAGGCTGAAATAGGACTGTTTGGCTGCAGAGATATGAC
1 ATTCT-AGGCTGGAATAGAACTGTTTGGCAGCAGAGATATGAC
* * *
18125109 ATTCTAGGCTGGAATAGAATTGTTTGGCAGCAGGGATATGGC
1 ATTCTAGGCTGGAATAGAACTGTTTGGCAGCAGAGATATGAC
* *
18125151 ATTTTGGGCTGGAATAGAACTGTTTGG
1 ATTCTAGGCTGGAATAGAACTGTTTGG
18125178 TACCATGGAT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 55 0.92
43 5 0.08
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (42 bp):
ATTCTAGGCTGGAATAGAACTGTTTGGCAGCAGAGATATGAC
Found at i:18125291 original size:5 final size:5
Alignment explanation
Indices: 18125281--18125356 Score: 64
Period size: 5 Copynumber: 14.4 Consensus size: 5
18125271 ATTAATATTT
* *
18125281 AAATA AAATA AAATA AAATA AAATAA TAAATA ATAA-A TAATA AAAGA
1 AAATA AAATA AAATA AAATA AAAT-A -AAATA A-AATA AAATA AAATA
**
18125328 AAATA AAGGA AAATA AAATTAA AAATA AA
1 AAATA AAATA AAATA AAA-T-A AAATA AA
18125357 GATTGGGTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
4 2 0.04
5 41 0.72
6 6 0.11
7 8 0.14
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:18125310 original size:27 final size:27
Alignment explanation
Indices: 18125280--18125333 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
18125270 TATTAATATT
*
18125280 TAAATAA-AATAAAATAAAATAAAATAA
1 TAAATAATAA-AAAATAAAAGAAAATAA
*
18125307 TAAATAATAAATAATAAAAGAAAATAA
1 TAAATAATAAAAAATAAAAGAAAATAA
18125334 AGGAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (27 bp):
TAAATAATAAAAAATAAAAGAAAATAA
Found at i:18140789 original size:20 final size:20
Alignment explanation
Indices: 18140764--18140852 Score: 96
Period size: 20 Copynumber: 4.7 Consensus size: 20
18140754 ACAATATAAT
18140764 AATAATAATAATAGATAAAG
1 AATAATAATAATAGATAAAG
* * *
18140784 AATAATAATAATACATTAAT
1 AATAATAATAATAGATAAAG
18140804 AATAATAATAATAG-TAAAG
1 AATAATAATAATAGATAAAG
* * *
18140823 -ACAATAATAATA-AGAATG
1 AATAATAATAATAGATAAAG
18140841 -ATAATAATAATA
1 AATAATAATAATA
18140853 CTACTACTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
18 25 0.43
19 3 0.05
20 30 0.52
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
AATAATAATAATAGATAAAG
Found at i:18140916 original size:3 final size:3
Alignment explanation
Indices: 18140759--18140904 Score: 125
Period size: 3 Copynumber: 47.3 Consensus size: 3
18140749 CTTTAACAAT
*
18140759 ATA ATA ATA ATA ATA ATA GATAA AGA ATA ATA ATA ATA CATTA ATA ATA
1 ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA
* * * *
18140808 ATA ATA ATA GTA A-A GACA ATA ATA ATA AGA ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
18140853 CTA CTA CTA ATA ATA ATA GA-A GTA ATA ATA GTA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
18140898 ATA ATA A
1 ATA ATA A
18140905 ATTTAATAAT
Statistics
Matches: 118, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
2 1 0.01
3 107 0.91
4 7 0.06
5 3 0.03
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:18142868 original size:44 final size:44
Alignment explanation
Indices: 18142388--18143002 Score: 422
Period size: 44 Copynumber: 14.0 Consensus size: 44
18142378 TTAGATTCAT
* * * * * **
18142388 TATCTTTAGTCTGCTTCGCTGCAACTTCAAGGAGATAAGCCTGG
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
** * * * *
18142432 TGGCTTTAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCTGC
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGG
* * ** * * *
18142477 CATCTTCGATCTATTCCACTGTAACTTCAAGGAGATAAGATCT-A
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGG
* * * * * * * *
18142521 CAACTTCAATTTTCTCTATTGCTACTTCAGGGAGAT-AGCATTAG
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTGG
* * * * *
18142565 TAGCTCCAATCTGCTCTACTGCTACTTCAGGGAGAT-AGTATTAG
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTGG
* * * *
18142609 TAGCTTCAAGCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGG
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
* * * * *
18142653 TATCTTTAGTCTTCTCCACTACAACTTTAGGGAGATAAGACTT-G
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGG
* ** * * * *
18142697 TAAT-TTTAGCCTGCTCTACTGCAACTTCAGAGAGATAAGGTTAG
1 T-ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
* * * *
18142741 TGACCGT-AATCTGCTCTACTGCAACTTCAGGGAGATAAGATTAG
1 T-ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
* *
18142785 TAGCTTCAATCTG-TGCCGCTGCAACTTCAGGGAGATAAGATTGG
1 TATCTTCAATCTGCT-CCACTGCAACTTCAGGGAGATAAGATTGG
* * *
18142829 TATCTTCAGTCTGCTCTACTGCAACTTCAGGAAGATAAGACTT-G
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGG
* * * * * * *
18142873 TAACTTTAACCTGCCCCACTGCAACTTCAAGG-GATAAGGTTTGC
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGG
* *
18142917 TATCTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATCT-G
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGG
* * * *
18142961 TAACTTAAATCTGCTCCACTACAACTTCAGAGAGATAAGATT
1 TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
18143003 TGTAGATTTA
Statistics
Matches: 451, Mismatches: 104, Indels: 33
0.77 0.18 0.06
Matches are distributed among these distances:
43 17 0.04
44 384 0.85
45 50 0.11
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
Found at i:18149708 original size:46 final size:47
Alignment explanation
Indices: 18149501--18149765 Score: 240
Period size: 46 Copynumber: 5.7 Consensus size: 47
18149491 GGGTAGAATG
* * * ** * *
18149501 CGATGCCATATCCCAAACATGGTCTTACACTGGCTCATATCTC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ACGTCTCGAGGC
*
18149548 TGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGTCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTA-CGTC-TCGAGGC
** * *
18149597 CGGCGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTACGTCTCG-AGGC
* * * *
18149643 CGAT-ACATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-TACGTCTCGAGGC
* * *
18149689 CGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CT-ACGTCTCGAGGC
18149735 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
18149766 AGCTCATAAT
Statistics
Matches: 179, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
44 12 0.07
45 15 0.08
46 55 0.31
47 51 0.28
48 13 0.07
49 33 0.18
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTACGTCTCGAGGC
Found at i:18160846 original size:3 final size:3
Alignment explanation
Indices: 18160831--18160936 Score: 92
Period size: 3 Copynumber: 35.0 Consensus size: 3
18160821 GTTTAACAAT
* *
18160831 ATA ATA ATG ATA ATA ATA ATA ATA ATA AT- ACA ATA ATA ATA GATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A
* * *
18160877 AGA ATA A-A TATA ATA ATA ATA ATA ATA ATA GTA A-A GACA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* *
18160922 ATA AGA ATG ATA ATA
1 ATA ATA ATA ATA ATA
18160937 CCACTACTAC
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
2 3 0.04
3 74 0.89
4 5 0.06
5 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:18160947 original size:3 final size:3
Alignment explanation
Indices: 18160939--18160966 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18160929 TGATAATACC
18160939 ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT A
18160967 ATAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:18162009 original size:24 final size:24
Alignment explanation
Indices: 18161977--18162025 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
18161967 ATAAAAAGAG
18161977 TTGATGATTTAATTAAAAGATAAT
1 TTGATGATTTAATTAAAAGATAAT
18162001 TTGATGATTTAATTAAAAGATAAT
1 TTGATGATTTAATTAAAAGATAAT
18162025 T
1 T
18162026 GATTGGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (24 bp):
TTGATGATTTAATTAAAAGATAAT
Found at i:18162404 original size:27 final size:27
Alignment explanation
Indices: 18162374--18162430 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
18162364 AACAAACTTT
* *
18162374 AATAAACATTACATTAAAACAATTTAA
1 AATAAACAATACATAAAAACAATTTAA
* * *
18162401 AATAAATAATATATAAAAATAATTTAA
1 AATAAACAATACATAAAAACAATTTAA
18162428 AAT
1 AAT
18162431 GAATGGTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (27 bp):
AATAAACAATACATAAAAACAATTTAA
Found at i:18163871 original size:14 final size:15
Alignment explanation
Indices: 18163839--18163878 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
18163829 AATTGGACTT
*
18163839 TATTTATTATTATTT
1 TATTTATTATTATTC
18163854 TATTTATT-TTATTC
1 TATTTATTATTATTC
18163868 TATTTATTATT
1 TATTTATTATT
18163879 TTTTGTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTATTATTATTC
Found at i:18165812 original size:9 final size:8
Alignment explanation
Indices: 18165791--18165820 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18165781 TTGGCCTCTC
18165791 CTTTTTAT
1 CTTTTTAT
18165799 CTTTTTAT
1 CTTTTTAT
18165807 CTTTTTAT
1 CTTTTTAT
*
18165815 ATTTTT
1 CTTTTT
18165821 TATATATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (8 bp):
CTTTTTAT
Found at i:18179781 original size:24 final size:24
Alignment explanation
Indices: 18179754--18179890 Score: 111
Period size: 24 Copynumber: 5.5 Consensus size: 24
18179744 AAAACGAAAC
18179754 AAAATAATATATATAAAACAATTT
1 AAAATAATATATATAAAACAATTT
* *
18179778 AAAATAA-ATAGCATAAAACATTTT
1 AAAATAATATA-TATAAAACAATTT
*
18179802 AAAATAA-ATAATATATAAACAAATT
1 AAAATAATAT-ATATA-AAACAATTT
*
18179827 AAAATAGATA-ATATACAAAGAAATTT
1 AAAATA-ATATATATA-AAA-CAATTT
* *
18179853 AAAATAGATAATATATAACACACTTT
1 AAAATA-AT-ATATATAAAACAATTT
*
18179879 -AAATAACATATA
1 AAAATAATATATA
18179891 AAAGAGTTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
23 8 0.09
24 31 0.33
25 27 0.29
26 18 0.19
27 4 0.04
28 5 0.05
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.29
Consensus pattern (24 bp):
AAAATAATATATATAAAACAATTT
Found at i:18179861 original size:26 final size:26
Alignment explanation
Indices: 18179754--18179867 Score: 114
Period size: 24 Copynumber: 4.6 Consensus size: 26
18179744 AAAACGAAAC
18179754 AAAATA-ATATATATA-AAAC-AATTT
1 AAAATAGATA-ATATACAAACAAATTT
* ** *
18179778 AAAATAAATAGCATA-AAAC-ATTTT
1 AAAATAGATAATATACAAACAAATTT
* *
18179802 AAAATAAATAATATATAAACAAA-TT
1 AAAATAGATAATATACAAACAAATTT
*
18179827 AAAATAGATAATATACAAAGAAATTT
1 AAAATAGATAATATACAAACAAATTT
18179853 AAAATAGATAATATA
1 AAAATAGATAATATA
18179868 TAACACACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
24 30 0.39
25 29 0.38
26 18 0.23
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATAGATAATATACAAACAAATTT
Found at i:18179879 original size:26 final size:25
Alignment explanation
Indices: 18179754--18180022 Score: 151
Period size: 26 Copynumber: 10.4 Consensus size: 25
18179744 AAAACGAAAC
18179754 AAAAT-AAT-ATATATAAAACAATTT
1 AAAATAAATAATATAT-AAACAATTT
** *
18179778 AAAATAAATAGCATA-AAACATTTT
1 AAAATAAATAATATATAAACAATTT
*
18179802 AAAATAAATAATATATAAACAAATT
1 AAAATAAATAATATATAAACAATTT
* * *
18179827 AAAATAGATAATATACAAAGAAATTT
1 AAAATAAATAATATATAAA-CAATTT
* *
18179853 AAAATAGATAATATATAACACACTTT
1 AAAATAAATAATATATAA-ACAATTT
* * *
18179879 -AAAT-AA-CATATA-AAAGAGTTT
1 AAAATAAATAATATATAAACAATTT
* *
18179900 AAGATAAATAATATGTAAA-AATAAATCT
1 AAAATAAATAATATATAAACAAT---T-T
* *
18179928 AAAATAAATAATGTACAAA-ATAGTTT
1 AAAATAAATAATATATAAACA-A-TTT
* *
18179954 AAAAATAAAAGATATATATATAAAATAATTC
1 -AAAAT--AA-ATA-ATATAT-AAACAATTT
*
18179985 AAAATAAATAATATATATAAAAAGTTT
1 AAAATAAATAATATATA-AACAA-TTT
18180012 AAAATAAATAA
1 AAAATAAATAA
18180023 CCTTTAAAAT
Statistics
Matches: 190, Mismatches: 31, Indels: 45
0.71 0.12 0.17
Matches are distributed among these distances:
21 5 0.03
22 5 0.03
23 7 0.04
24 33 0.17
25 35 0.18
26 39 0.21
27 24 0.13
28 19 0.10
29 3 0.02
30 9 0.05
31 6 0.03
32 4 0.02
33 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAATAAATAATATATAAACAATTT
Found at i:18180104 original size:25 final size:25
Alignment explanation
Indices: 18180065--18180145 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
18180055 AAATACAGTG
*
18180065 AAAAACTTAAAATAAATAATAATAA
1 AAAAAATTAAAATAAATAATAATAA
* *
18180090 AACAATTTAAAATAAATAAT-ATAAGA
1 AAAAAATTAAAATAAATAATAAT-A-A
18180116 AAAAAATTAAAATAAATAATAATAA
1 AAAAAATTAAAATAAATAATAATAA
*
18180141 TAAAA
1 AAAAA
18180146 CCGTTTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
24 2 0.04
25 24 0.50
26 20 0.42
27 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (25 bp):
AAAAAATTAAAATAAATAATAATAA
Found at i:18180132 original size:26 final size:25
Alignment explanation
Indices: 18180065--18180145 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 25
18180055 AAATACAGTG
*
18180065 AAAAACTTAAAATAAATAATA-ATAA
1 AAAAAATTAAAATAAATAATATA-AA
* *
18180090 AACAATTTAAAATAAATAATATAAGA
1 AAAAAATTAAAATAAATAATATAA-A
*
18180116 AAAAAATTAAAATAAATAATAATAAT
1 AAAAAATTAAAATAAATAAT-ATAAA
18180142 AAAA
1 AAAA
18180146 CCGTTTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
25 20 0.42
26 24 0.50
27 4 0.08
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (25 bp):
AAAAAATTAAAATAAATAATATAAA
Found at i:18186880 original size:3 final size:3
Alignment explanation
Indices: 18186872--18186913 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
18186862 CAGTTAAACA
18186872 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18186914 TGGGCCAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18187020 original size:23 final size:21
Alignment explanation
Indices: 18186978--18187024 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18186968 GAGTTGGTAG
*
18186978 TATAAATTGTAACTTTAAAAA
1 TATAAATTGTAAATTTAAAAA
*
18186999 TATATAATTTTAAATTTAAAAA
1 TATA-AATTGTAAATTTAAAAA
18187021 -ATAA
1 TATAA
18187025 TATTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 7 0.30
22 15 0.65
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TATAAATTGTAAATTTAAAAA
Found at i:18194315 original size:23 final size:23
Alignment explanation
Indices: 18194289--18194337 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
18194279 TTTCGACATG
*
18194289 TGAT-CAGTAAGCTCCTCTTGAGC
1 TGATGCAGTAAGCT-CTATTGAGC
18194312 TGATGGACAGTAAGCTCTATTGAGC
1 TGAT-G-CAGTAAGCTCTATTGAGC
18194337 T
1 T
18194338 AAAATGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
25 9 0.41
26 9 0.41
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (23 bp):
TGATGCAGTAAGCTCTATTGAGC
Found at i:18194371 original size:24 final size:23
Alignment explanation
Indices: 18194318--18194386 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
18194308 GAGCTGATGG
18194318 ACAGTAAGCTCTATTGAGCT-AAA
1 ACAGTAAGCTCTA-TGAGCTGAAA
** *
18194341 ATGGTAAGCTCTGACGAGCTGAAA
1 ACAGTAAGCTCT-ATGAGCTGAAA
18194365 ACAGTAAGCTCTTATGAGCTGA
1 ACAGTAAGCTC-TATGAGCTGA
18194387 TATATCGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 15 0.41
24 21 0.57
25 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
ACAGTAAGCTCTATGAGCTGAAA
Found at i:18203112 original size:42 final size:42
Alignment explanation
Indices: 18203065--18203266 Score: 147
Period size: 42 Copynumber: 4.6 Consensus size: 42
18203055 TGTGGTTTCG
18203065 TGTAAGACCATATTTGGGATATGGTC-TCAATATGTGATCCCA
1 TGTAAGACCATATTTGGGATATGG-CATCAATATGTGATCCCA
* * ** *
18203107 TGTAAGATCATATTTGGGATATTTCATTGGTATCAATATGTGATTTCG
1 TGTAAGACCATATTTGGG--A--T-A-TGGCATCAATATGTGATCCCA
* * * * * *
18203155 TGTAAGACCATGTTTGGGACATGGCATCGATATGAGA-CATCG
1 TGTAAGACCATATTTGGGATATGGCATCAATATGTGATC-CCA
** * * *
18203197 TGTAAGACCATAGCTAGGCTATTGGCATCGATATGTGATCCCA
1 TGTAAGACCATATTTGGGATA-TGGCATCAATATGTGATCCCA
* *
18203240 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATTTGGGATATGGCAT
18203267 TGGCATCTTA
Statistics
Matches: 127, Mismatches: 23, Indels: 20
0.75 0.14 0.12
Matches are distributed among these distances:
42 54 0.43
43 36 0.28
44 2 0.02
46 2 0.02
47 1 0.01
48 32 0.25
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATATTTGGGATATGGCATCAATATGTGATCCCA
Found at i:18206348 original size:42 final size:42
Alignment explanation
Indices: 18206233--18206348 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
18206223 GGGCTACCGA
* *
18206233 GATTCCATATAAGACCATATCTGGGATATGACATCAGTATGT
1 GATTTCATATAAGACCATATCTGGGATATGGCATCAGTATGT
* * * *
18206275 GATTTCATATAAGACCATGTCAGGGACATGGCGTC-GATATGAT
1 GATTTCATATAAGACCATATCTGGGATATGGCATCAG-TATG-T
*
18206318 -ATTTCATGTAAGACCATATCTGGGATATGGC
1 GATTTCATATAAGACCATATCTGGGATATGGC
18206349 TTGATACGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (42 bp):
GATTTCATATAAGACCATATCTGGGATATGGCATCAGTATGT
Found at i:18208869 original size:34 final size:34
Alignment explanation
Indices: 18208831--18208901 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
18208821 CATGCACACC
*
18208831 AGATGAATGTATGAAATGTGTTGTATCACTCTTG
1 AGATGAATATATGAAATGTGTTGTATCACTCTTG
*
18208865 AGATGGATATATGAAATGTGTTGTATCACTCTTG
1 AGATGAATATATGAAATGTGTTGTATCACTCTTG
18208899 AGA
1 AGA
18208902 GACTAGGCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (34 bp):
AGATGAATATATGAAATGTGTTGTATCACTCTTG
Found at i:18211424 original size:16 final size:16
Alignment explanation
Indices: 18211403--18211435 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18211393 TTGTATGGCG
*
18211403 AGAAATGTCAGTATTC
1 AGAAATGCCAGTATTC
18211419 AGAAATGCCAGTATTC
1 AGAAATGCCAGTATTC
18211435 A
1 A
18211436 CTAATCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (16 bp):
AGAAATGCCAGTATTC
Found at i:18214606 original size:42 final size:41
Alignment explanation
Indices: 18214526--18214658 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 41
18214516 GATACTACAT
* *
18214526 TGGCATCAATATGTGATTTCGTGTAAGACCAT-GTCTGGGACA
1 TGGCATCGATATGTGA-CTCGTGTAAGACCATAG-CTGGGACA
*
18214568 TGGCATCGATATGAGACATCGTGTAAGACCATAGCTGGG-CTA
1 TGGCATCGATATGTGAC-TCGTGTAAGACCATAGCTGGGAC-A
* * * * * *
18214610 TTGACATCGATATGTGATCCCATGTAAAACCATATCTGGGATA
1 -TGGCATCGATATGTGA-CTCGTGTAAGACCATAGCTGGGACA
18214653 TGGCAT
1 TGGCAT
18214659 TGGGATCTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 39 0.53
43 33 0.45
44 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (41 bp):
TGGCATCGATATGTGACTCGTGTAAGACCATAGCTGGGACA
Found at i:18218925 original size:23 final size:24
Alignment explanation
Indices: 18218895--18218951 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
18218885 GAGCTAATGG
**
18218895 ACAGTAAGCTCTATTGAGCT-CAA
1 ACAGTAAGCTCTAACGAGCTACAA
*
18218918 ACAGTAAGCTCTAACGAGCTAGAA
1 ACAGTAAGCTCTAACGAGCTACAA
18218942 ACAGTAAGCT
1 ACAGTAAGCT
18218952 GTTATGAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 18 0.60
24 12 0.40
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
ACAGTAAGCTCTAACGAGCTACAA
Found at i:18218960 original size:24 final size:22
Alignment explanation
Indices: 18218895--18218961 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 22
18218885 GAGCTAATGG
*
18218895 ACAGTAAGCTCTATTGAGCTCAA
1 ACAGTAAGCTTTA-TGAGCTCAA
* * *
18218918 ACAGTAAGCTCTAACGAGCTAGAA
1 ACAGTAAGCT-TTATGAGCT-CAA
18218942 ACAGTAAGCTGTTATGAGCT
1 ACAGTAAGCT-TTATGAGCT
18218962 GATATATTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 15 0.43
24 20 0.57
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
ACAGTAAGCTTTATGAGCTCAA
Found at i:18219486 original size:29 final size:29
Alignment explanation
Indices: 18219447--18219504 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
18219437 ATTTGGTACA
*
18219447 AACCCATGCTTAGCCGAATTTCATACATG
1 AACCCACGCTTAGCCGAATTTCATACATG
*
18219476 AACCCACGCTTAGCTGAATTTCATACATG
1 AACCCACGCTTAGCCGAATTTCATACATG
18219505 TTACTAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (29 bp):
AACCCACGCTTAGCCGAATTTCATACATG
Found at i:18225377 original size:29 final size:27
Alignment explanation
Indices: 18225319--18225378 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
18225309 CTAGATTAAT
* *
18225319 AAATAACATATAATTATTTTCAACAAA
1 AAATAACATATAATTATTTTAAAAAAA
18225346 AAATAACATATAATTATATTTAAAAAATA
1 AAATAACATATAATTAT-TTTAAAAAA-A
18225375 AAAT
1 AAAT
18225379 GTCTAAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 17 0.59
28 7 0.24
29 5 0.17
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATAACATATAATTATTTTAAAAAAA
Found at i:18226019 original size:28 final size:28
Alignment explanation
Indices: 18225987--18226052 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
18225977 TCCCTAGCCT
* *
18225987 GTGTCCCTCACACTACCTAGACATGCCC
1 GTGTCCCTCACACGACCTAGACACGCCC
*
18226015 GTGTCCCTCACACGGCCTAGACACGCCC
1 GTGTCCCTCACACGACCTAGACACGCCC
18226043 GTGT-CCTCAC
1 GTGTCCCTCAC
18226053 CCGTGTCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.18, C:0.44, G:0.18, T:0.20
Consensus pattern (28 bp):
GTGTCCCTCACACGACCTAGACACGCCC
Found at i:18233960 original size:17 final size:17
Alignment explanation
Indices: 18233938--18233972 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18233928 CAAATTAATC
18233938 TTATTTAATACATACAT
1 TTATTTAATACATACAT
18233955 TTATTTAATACATACAT
1 TTATTTAATACATACAT
18233972 T
1 T
18233973 CATCAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATTTAATACATACAT
Found at i:18242500 original size:16 final size:17
Alignment explanation
Indices: 18242473--18242504 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18242463 TCCTTAAAAT
18242473 AATATCAATTTTTTTAA
1 AATATCAATTTTTTTAA
18242490 AATAT-AATTTTTTTA
1 AATATCAATTTTTTTA
18242505 TTACAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATCAATTTTTTTAA
Found at i:18248862 original size:28 final size:28
Alignment explanation
Indices: 18248826--18248883 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
18248816 AATCTATAAT
18248826 TTATCAAACTCTCCATTATATTATTAAA
1 TTATCAAACTCTCCATTATATTATTAAA
18248854 TTATCAAACTCTCCATTATATTATTAAA
1 TTATCAAACTCTCCATTATATTATTAAA
18248882 TT
1 TT
18248884 CCCAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (28 bp):
TTATCAAACTCTCCATTATATTATTAAA
Found at i:18249127 original size:48 final size:48
Alignment explanation
Indices: 18249052--18249155 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
18249042 TATTCATATT
*
18249052 AATT-TATACTTATTATTTCATATTAATTATTACTTAATTAACTTTAC
1 AATTGTATACCTATTATTTCATATTAATTATTACTTAATTAACTTTAC
* * * *
18249099 AATTGTATACCTATTATTTTATATTAATTATTATTTAATTAATTTTAT
1 AATTGTATACCTATTATTTCATATTAATTATTACTTAATTAACTTTAC
18249147 AATTGTATA
1 AATTGTATA
18249156 TTAATTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 4 0.08
48 47 0.92
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.55
Consensus pattern (48 bp):
AATTGTATACCTATTATTTCATATTAATTATTACTTAATTAACTTTAC
Found at i:18249132 original size:17 final size:17
Alignment explanation
Indices: 18249110--18249162 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 17
18249100 ATTGTATACC
18249110 TATTATTTTATATTAAT
1 TATTATTTTATATTAAT
18249127 TATTA-TTTA-ATTAAT
1 TATTATTTTATATTAAT
18249142 T-TTATAATTGTATATTAAT
1 TATTAT--TT-TATATTAAT
18249161 TA
1 TA
18249163 AAATTGAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.10
15 7 0.23
16 4 0.13
17 7 0.23
18 2 0.07
19 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTTTATATTAAT
Found at i:18251485 original size:22 final size:22
Alignment explanation
Indices: 18251438--18251559 Score: 111
Period size: 22 Copynumber: 5.4 Consensus size: 22
18251428 CACACCAGTA
*
18251438 TATGAAAGCCCTTTTATGAGATG
1 TATGAGAGCCC-TTTATGAGATG
* *
18251461 TATGAGAGCCCTTAATGGGATG
1 TATGAGAGCCCTTTATGAGATG
* **
18251483 TATGAGAGCCTTTTTTATGAGACA
1 TATGAGAGCC--CTTTATGAGATG
*
18251507 TATGAGAACCCTTTAT-AGGATG
1 TATGAGAGCCCTTTATGA-GATG
* *
18251529 TATGAGAGCTCTTTATGAGACG
1 TATGAGAGCCCTTTATGAGATG
*
18251551 TATTAGAGC
1 TATGAGAGC
18251560 TCTTATGGGT
Statistics
Matches: 79, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.01
22 51 0.65
23 11 0.14
24 16 0.20
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGAGATG
Found at i:18251504 original size:46 final size:43
Alignment explanation
Indices: 18251449--18251568 Score: 141
Period size: 46 Copynumber: 2.7 Consensus size: 43
18251439 ATGAAAGCCC
*
18251449 TTTTATGAGATGTATGAGAGCCCTTAATGGGATGTATGAGAGCCTT
1 TTTTATGAGACGTATGAGAGCCCTT-ATGGGATGTATGAGAG-C-T
* * *
18251495 TTTTATGAGACATATGAGAACCCTTTATAGGATGTATGAGAGCT
1 TTTTATGAGACGTATGAGAGCCC-TTATGGGATGTATGAGAGCT
* * *
18251539 CTTTATGAGACGTATTAGAGCTCTTATGGG
1 TTTTATGAGACGTATGAGAGCCCTTATGGG
18251569 TGGCAAAGGA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 6 0.10
44 19 0.30
45 1 0.02
46 35 0.56
47 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (43 bp):
TTTTATGAGACGTATGAGAGCCCTTATGGGATGTATGAGAGCT
Found at i:18253478 original size:14 final size:14
Alignment explanation
Indices: 18253461--18253491 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18253451 ATAAGTAAAT
18253461 TAAATATTATATTA
1 TAAATATTATATTA
*
18253475 TAAATGTTATATTA
1 TAAATATTATATTA
18253489 TAA
1 TAA
18253492 TATAAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAATATTATATTA
Found at i:18265010 original size:40 final size:38
Alignment explanation
Indices: 18264909--18265018 Score: 139
Period size: 38 Copynumber: 2.8 Consensus size: 38
18264899 AATGATAGTT
**
18264909 TTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGG
1 TTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCAAG
* * *
18264947 GTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTAAG
1 TTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC-AAG
* *
18264986 TTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTAT
1 TTTAAA-TCCCGCAGGCTTCGTGCTGGTATTAT
18265019 GTTCGGGTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 32 0.53
39 6 0.10
40 22 0.37
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (38 bp):
TTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCAAG
Found at i:18269391 original size:42 final size:41
Alignment explanation
Indices: 18269278--18269433 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 41
18269268 GTACTACACC
* * ** *
18269278 AATGCCATATCCCAGATATGGTTTTACATGGGATCTCGTAT
1 AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
**
18269319 AGATGCCAGTAGACCA-ACTATGGTCTTACACGAAATCTCATAT
1 A-ATGCCA-TATCCCAGA-TATGGTCTTACACGAAATCTCATAT
**
18269362 CAATGCCATATCCCAGATATGGTCTTACACGAAGCCTCATAAT
1 -AATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-AT
* *
18269405 GATGCCATATCCCAGATATTGTCTTACAC
1 AATGCCATATCCCAGATATGGTCTTACAC
18269434 ATAGCCTCAG
Statistics
Matches: 96, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 60 0.62
43 34 0.35
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (41 bp):
AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:18270778 original size:22 final size:21
Alignment explanation
Indices: 18270728--18270803 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 21
18270718 TGGCCTGCAG
*
18270728 CACGGGTGTGT-CCTATGGTCA
1 CACGGGTGTGTCCCT-TGGACA
18270749 CACGGGTGTGTCCCTTGGACAA
1 CACGGGTGTGTCCCTTGGAC-A
*
18270771 TACGGGTGTGTCCCTTGGACCA
1 CACGGGTGTGTCCCTTGGA-CA
18270793 CACGGGTGTGT
1 CACGGGTGTGT
18270804 GAGCCCTGGT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.31
22 33 0.67
23 1 0.02
ACGTcount: A:0.14, C:0.25, G:0.34, T:0.26
Consensus pattern (21 bp):
CACGGGTGTGTCCCTTGGACA
Found at i:18273890 original size:42 final size:42
Alignment explanation
Indices: 18273829--18273945 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 42
18273819 AGATGCCAAC
* ** * * *
18273829 GCCATCTCCTAGACGTGGTCTTACATGGGATCTCACATCGAT
1 GCCATATCCTAGATATGGTCTTATATGAGATCTCACATCAAT
* * *
18273871 GCCATATCCTAGATATGGTCTTATACGAAATCTCATATCAAT
1 GCCATATCCTAGATATGGTCTTATATGAGATCTCACATCAAT
* * *
18273913 GCCATATCCGATATATCGTCTTATATGAGATCT
1 GCCATATCCTAGATATGGTCTTATATGAGATCT
18273946 TATGAACCTA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCATATCCTAGATATGGTCTTATATGAGATCTCACATCAAT
Found at i:18280063 original size:50 final size:52
Alignment explanation
Indices: 18280007--18280121 Score: 155
Period size: 50 Copynumber: 2.2 Consensus size: 52
18279997 TAAAGTTATT
* *
18280007 CATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGACATG
1 CATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAAATAAGACATG
* *
18280057 CTTTATGTAA-TCCTCATGTTAGTTAAAGTTTGCATCATTAAAATAAGTCATG
1 CATTATGTAACT-CTCATGTTAGTTAAAGTTTGCATCATTAAAATAAGACATG
*
18280109 CATTAAGTAACTC
1 CATTATGTAACTC
18280122 ATTTGTTCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
49 1 0.02
50 21 0.38
51 12 0.22
52 20 0.36
53 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (52 bp):
CATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAAATAAGACATG
Found at i:18280497 original size:69 final size:69
Alignment explanation
Indices: 18280386--18280515 Score: 233
Period size: 69 Copynumber: 1.9 Consensus size: 69
18280376 CTTGTAGATA
* *
18280386 ACTATTCATATGGCTAATTGACTCTTCAAGTTTGGAAGTTTTTCAAGCCTTCAAAGATCATTATG
1 ACTATTCATATGGCTAATTGACTATTCAAGTTTGGAACTTTTTCAAGCCTTCAAAGATCATTATG
18280451 AGTG
66 AGTG
*
18280455 ACTATTCATATGGCTAATTGACTATTCAAGTTTGGACCTTTTTCAAGCCTTCAAAGATCAT
1 ACTATTCATATGGCTAATTGACTATTCAAGTTTGGAACTTTTTCAAGCCTTCAAAGATCAT
18280516 CATAGTGGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (69 bp):
ACTATTCATATGGCTAATTGACTATTCAAGTTTGGAACTTTTTCAAGCCTTCAAAGATCATTATG
AGTG
Found at i:18282387 original size:16 final size:17
Alignment explanation
Indices: 18282359--18282390 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18282349 GAAATTGAAG
18282359 AAGAAAGTTGAGAAAAA
1 AAGAAAGTTGAGAAAAA
18282376 AAGAAA-TTGAGAAAA
1 AAGAAAGTTGAGAAAA
18282391 GAGAGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (17 bp):
AAGAAAGTTGAGAAAAA
Found at i:18282397 original size:17 final size:17
Alignment explanation
Indices: 18282356--18282397 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18282346 AAAGAAATTG
18282356 AAGAAGAAAGTTGAGAA
1 AAGAAGAAAGTTGAGAA
*
18282373 AAAAAGAAA-TTGAGAA
1 AAGAAGAAAGTTGAGAA
18282389 AAGAGAGAA
1 AAGA-AGAA
18282398 GAATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (17 bp):
AAGAAGAAAGTTGAGAA
Found at i:18282498 original size:17 final size:16
Alignment explanation
Indices: 18282478--18282517 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
18282468 AAAGGAAATA
18282478 AAAAGAGAGTGTATGAG
1 AAAAGAGAGT-TATGAG
*
18282495 AAAAGA-AGTTGTGAG
1 AAAAGAGAGTTATGAG
18282510 AAAAGAGA
1 AAAAGAGA
18282518 ATGAAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.33, T:0.15
Consensus pattern (16 bp):
AAAAGAGAGTTATGAG
Found at i:18284622 original size:96 final size:96
Alignment explanation
Indices: 18284455--18284645 Score: 244
Period size: 96 Copynumber: 2.0 Consensus size: 96
18284445 CTTCTTTTTA
*
18284455 CTCCTTTTAGCCCTCTTGGCTTCGACTTTTCCCTTGATCAAACCAAGCTTCTTGGGCTCCTTGTC
1 CTCCTTTTAGCCCTCTTGGCTTCGACTTTTCCCTTGATCAAACCAAGCTTCTTGGGCTCCATGTC
* ** *
18284520 CGCTCCATCGTTCCCTTCGATGACAGACTTG
66 CACTCCATCGTTCCCACCAATGACAGACTTG
* * *
18284551 CTCCTATTT-GCCCTCTTGGCTTC-AGCTTTT-CCTTTACTCGAACCAAGCTTTTTGGGCTCCAT
1 CTCCT-TTTAGCCCTCTTGGCTTCGA-CTTTTCCCTTGA-TCAAACCAAGCTTCTTGGGCTCCAT
* *
18284613 GTCTACTCCATCGTTTCCACCAATGACAGACTT
63 GTCCACTCCATCGTTCCCACCAATGACAGACTT
18284646 CCTCAGACAC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
95 6 0.07
96 73 0.89
97 3 0.04
ACGTcount: A:0.15, C:0.34, G:0.15, T:0.36
Consensus pattern (96 bp):
CTCCTTTTAGCCCTCTTGGCTTCGACTTTTCCCTTGATCAAACCAAGCTTCTTGGGCTCCATGTC
CACTCCATCGTTCCCACCAATGACAGACTTG
Found at i:18291131 original size:31 final size:30
Alignment explanation
Indices: 18291056--18291132 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
18291046 GGCTGTGTGA
*
18291056 CACACGGACGTGTGGGCCCACACGATAAAC
1 CACACGGGCGTGTGGGCCCACACGATAAAC
** * * *
18291086 CACGTGGGCTTGTGGGCCCACATGGGTAAAC
1 CACACGGGCGTGTGGGCCCACA-CGATAAAC
18291117 CACACGGGCGTGTGGG
1 CACACGGGCGTGTGGG
18291133 ATTCTGGGCC
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 18 0.49
31 19 0.51
ACGTcount: A:0.22, C:0.29, G:0.35, T:0.14
Consensus pattern (30 bp):
CACACGGGCGTGTGGGCCCACACGATAAAC
Found at i:18291204 original size:17 final size:18
Alignment explanation
Indices: 18291182--18291215 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18291172 ATTTGGGCCA
18291182 TGTGGG-CAACACGGGCG
1 TGTGGGCCAACACGGGCG
*
18291199 TGTGGGCCCACACGGGC
1 TGTGGGCCAACACGGGC
18291216 AGACAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.29, G:0.44, T:0.12
Consensus pattern (18 bp):
TGTGGGCCAACACGGGCG
Found at i:18293841 original size:20 final size:20
Alignment explanation
Indices: 18293816--18293855 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18293806 AATTGTAGAT
18293816 AGAGGCA-CAAATGTGCAATC
1 AGAGGCATCAAA-GTGCAATC
*
18293836 AGAGGCATCGAAGTGCAATC
1 AGAGGCATCAAAGTGCAATC
18293856 CCATACAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.15
Consensus pattern (20 bp):
AGAGGCATCAAAGTGCAATC
Found at i:18296372 original size:9 final size:9
Alignment explanation
Indices: 18296361--18296408 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
18296351 AATTGGATTG
*
18296361 ATTTTTTTG
1 ATTTTTTTA
18296370 A-TTTTTTA
1 ATTTTTTTA
18296378 ATTTTTTTA
1 ATTTTTTTA
18296387 ATTTTTTAATA
1 ATTTTTT--TA
*
18296398 ATTTATTTA
1 ATTTTTTTA
18296407 AT
1 AT
18296409 CAAGCTAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 7 0.21
9 19 0.56
11 8 0.24
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:18296383 original size:17 final size:17
Alignment explanation
Indices: 18296361--18296396 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18296351 AATTGGATTG
*
18296361 ATTTTTTTGATTTTTTA
1 ATTTTTTTAATTTTTTA
18296378 ATTTTTTTAATTTTTTA
1 ATTTTTTTAATTTTTTA
18296395 AT
1 AT
18296397 AATTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
ATTTTTTTAATTTTTTA
Found at i:18296391 original size:8 final size:8
Alignment explanation
Indices: 18296363--18296396 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
18296353 TTGGATTGAT
*
18296363 TTTTTTGA
1 TTTTTTAA
18296371 TTTTTTAA
1 TTTTTTAA
18296379 TTTTTTTAA
1 -TTTTTTAA
18296388 TTTTTTAA
1 TTTTTTAA
18296396 T
1 T
18296397 AATTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:18301425 original size:31 final size:31
Alignment explanation
Indices: 18301388--18301456 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
18301378 CTAACAAACT
18301388 CTAACAAACTCAACTTCCTACTACTAACAAG
1 CTAACAAACTCAACTTCCTACTACTAACAAG
* * *
18301419 CTAACAAACTTAGCTTCCTACTACTAACCAG
1 CTAACAAACTCAACTTCCTACTACTAACAAG
18301450 CTAACAA
1 CTAACAA
18301457 TCTCCTAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.41, C:0.32, G:0.04, T:0.23
Consensus pattern (31 bp):
CTAACAAACTCAACTTCCTACTACTAACAAG
Found at i:18312623 original size:34 final size:34
Alignment explanation
Indices: 18312563--18312633 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
18312553 ATACATTACT
** *
18312563 CAAGCTAACAAACTCAGCTTTTTACTCCTACTAA
1 CAAGCTAACAAACTCAGCTTCCTACTCATACTAA
* * *
18312597 CAAGCTAACAACCTTAGCTTCCTACTCATTCTAA
1 CAAGCTAACAAACTCAGCTTCCTACTCATACTAA
18312631 CAA
1 CAA
18312634 TCTCCCTAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.28
Consensus pattern (34 bp):
CAAGCTAACAAACTCAGCTTCCTACTCATACTAA
Found at i:18318326 original size:40 final size:40
Alignment explanation
Indices: 18318184--18318369 Score: 248
Period size: 41 Copynumber: 4.6 Consensus size: 40
18318174 TACTCGAATG
*
18318184 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GCGACT
*
18318225 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
18318266 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
18318306 ATATCCGGGCTAGGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
18318346 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
18318370 CTTGTGCGAG
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.46
41 67 0.52
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:18318329 original size:81 final size:82
Alignment explanation
Indices: 18318186--18318339 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
18318176 CTCGAATGAT
* * *
18318186 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAGGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
18318251 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
*
18318268 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAGGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAGGCGACTATATCCGGGCTAAGTCCCGAAGGCA
18318331 TTTATGCTA
65 TTTATGCTA
18318340 GTGACCATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 37 0.56
82 28 0.42
83 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAGGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:18323385 original size:27 final size:24
Alignment explanation
Indices: 18323330--18323386 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
18323320 GAAAAAACAG
* *
18323330 AAACAACAATCAAAATAAAAATGC
1 AAACAACAATAAAAATAAAAATGA
*
18323354 TAACAACAATAAAAATAAATAAAGTGA
1 AAACAACAATAAAAAT-AA-AAA-TGA
18323381 AAACAA
1 AAACAA
18323387 TAAAAACAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 14 0.54
25 2 0.08
26 3 0.12
27 7 0.27
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.14
Consensus pattern (24 bp):
AAACAACAATAAAAATAAAAATGA
Found at i:18331833 original size:47 final size:47
Alignment explanation
Indices: 18331688--18331840 Score: 200
Period size: 47 Copynumber: 3.2 Consensus size: 47
18331678 CAAGGCAACA
* ** *
18331688 TGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
1 TGTGATATGTG-CTTCCGTATAAGACCATATTTGGGATATGGCATCGG
* *
18331736 TGTTG-TATGAGCTTCCGTATAAGACAATATTTGGGATATGGCATCGG
1 TG-TGATATGTGCTTCCGTATAAGACCATATTTGGGATATGGCATCGG
* * *
18331783 TGTGATATGTGCTTCTGTGTAAGACCATATTTGGGATATGGCATCAG
1 TGTGATATGTGCTTCCGTATAAGACCATATTTGGGATATGGCATCGG
18331830 TGTGATATGTG
1 TGTGATATGTG
18331841 ATATGTGATC
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
46 2 0.02
47 81 0.88
48 7 0.08
49 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.35
Consensus pattern (47 bp):
TGTGATATGTGCTTCCGTATAAGACCATATTTGGGATATGGCATCGG
Found at i:18331876 original size:53 final size:55
Alignment explanation
Indices: 18331783--18331905 Score: 142
Period size: 53 Copynumber: 2.2 Consensus size: 55
18331773 ATGGCATCGG
* * **
18331783 TGTGATATGTGCTTCTGTGTAAGACCATATTTGGGATATGGCATC-AGTGTGATA
1 TGTGATATGTGCATCTGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATA
* * * *
18331837 TGTGATATGTG-ATCTGTATAAGACCATGGCTGGGCTATGGCTTCGGTGTGTGATA
1 TGTGATATGTGCATCTGTATAAGACCATAGCTGGGATATGGCATC-GAGTGTGATA
18331892 TGTGACTATGTGCA
1 TGTGA-TATGTGCA
18331906 AGACCATAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
53 26 0.46
54 11 0.19
55 13 0.23
56 6 0.11
57 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (55 bp):
TGTGATATGTGCATCTGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATA
Found at i:18348436 original size:46 final size:46
Alignment explanation
Indices: 18348378--18348645 Score: 169
Period size: 47 Copynumber: 5.7 Consensus size: 46
18348368 TTTGTTTTGT
* *
18348378 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-ATGATGA
* * *
18348424 GAGCCAGTGTAAGACCATGTCTGGGACAGGGCATCAG--TATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACA-TGCATCGGCCTA-T--GATGA
* * * * *
18348472 GAGCTAGTGTACGA-CATGTCTAGGACATGCATCGACCT-CGA-GA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTATGATGA
*
18348515 CGTAAGCCAGTGTAAGA-CTTGTCTGGGACATGCATCGG-CTATGAGATGA
1 -G--AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTAT--GATGA
* * * * * * *
18348564 TAGTCAGTGTAAAATCATGTTTGGGACATGGCATCGACTTGA-GAT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCT-ATGATGA
*
18348610 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 -GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATC
18348646 AGCACCTTAC
Statistics
Matches: 172, Mismatches: 31, Indels: 37
0.72 0.13 0.15
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 3 0.02
46 61 0.35
47 69 0.40
48 30 0.17
49 3 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTATGATGA
Found at i:18348635 original size:140 final size:141
Alignment explanation
Indices: 18348383--18348645 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 141
18348373 TTTGTGAGCT
* *
18348383 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGATGAGAGCCAGTGTAAAACCATGTCTGG
* *
18348448 GACAGGGCATCAGTATTGAGACGAGAGCTAGTGTACGACATGTCTAGGACAT-GCATCGACCTCG
66 GACAGGGCATCAGTATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGACCTCG
18348512 AGACGTAAGCC
131 AGACGTAAGCC
* * * * *
18348523 AGTGTAAGACTTGTCTGGGACATGCATCGG-CT-ATGAGATGATAGTCAGTGTAAAATCATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAT--GATGAGAGCCAGTGTAAAACCATGTCT
* *
18348586 GGGACATGGCATC-G-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
64 GGGACAGGGCATCAGTA-TTGAGACGA-GAGCCAGTGTAAGA-CATGTCTAGGACATGGCATC
18348646 AGCACCTTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
138 4 0.04
139 21 0.20
140 76 0.72
141 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGATGAGAGCCAGTGTAAAACCATGTCTGG
GACAGGGCATCAGTATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGACCTCG
AGACGTAAGCC
Found at i:18357530 original size:15 final size:15
Alignment explanation
Indices: 18357510--18357552 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
18357500 TGCTGTAAAT
*
18357510 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
18357525 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
18357540 TGGATTTCTTTAT
1 TGGATTTCTTTAT
18357553 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:18365908 original size:46 final size:48
Alignment explanation
Indices: 18365760--18366025 Score: 239
Period size: 47 Copynumber: 5.7 Consensus size: 48
18365750 TTTGTGAGCT
* * * *
18365760 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGATAGCC
* ** * * *
18365806 AGTGTAAGACCATGTCTGGGACATGGCATTGGTATTGAGACGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGATAGCC
*
18365854 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAT-AGCC
* * *
18365900 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CTACAAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGATAGCC
* * * * *
18365946 AATGTAAGACCATGTTTGGGACATGGTATC-GACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAT-AGCC
*
18365993 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
18366026 ACCTTACCCA
Statistics
Matches: 179, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
45 3 0.02
46 72 0.40
47 75 0.42
48 28 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGATAGCC
Found at i:18366015 original size:140 final size:141
Alignment explanation
Indices: 18365760--18366025 Score: 351
Period size: 140 Copynumber: 1.9 Consensus size: 141
18365750 TTTGTGAGCT
* * ** *
18365760 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
* * *
18365825 GACATGGCATTGGTATTGAGACGATAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATTCGTATTGAGACGATAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCG
18365889 AGACGTAAGCC
131 AGACGTAAGCC
* * * *
18365900 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGATAGTCAATGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
* *
18365965 GACATGGTA-TCG-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
66 GACATGGCATTCGTA-TTGAGACGAT-AGCCAGTGTAAGA-CATGTCTAGGACATGGCATCGGC
18366026 ACCTTACCCA
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
138 3 0.03
139 20 0.19
140 77 0.71
141 8 0.07
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
GACATGGCATTCGTATTGAGACGATAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:18368993 original size:161 final size:161
Alignment explanation
Indices: 18368820--18369141 Score: 545
Period size: 161 Copynumber: 2.0 Consensus size: 161
18368810 TGTCTAGATG
* * *
18368820 TTCCCTTAGGGACATCAATCCTAGGTTTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
1 TTCCCTTAGGGACATCAACCCTAAGATTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
** * *
18368885 AGTCCTTCATCCAAAAATTGACTCACCACATTTTCATCAATCAACCCCCTTAAAGGTTTAGCTGC
66 AGTCCTTCATCCAAAAATCAACTCACCACATTTCCATCAACCAACCCCCTTAAAGGTTTAGCTGC
*
18368950 TCATGCTGAAAATACAACTAAAAACCATGGA
131 TCATGCTAAAAATACAACTAAAAACCATGGA
18368981 TTCCCTTAGGGACATCAACCCTAAGATTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
1 TTCCCTTAGGGACATCAACCCTAAGATTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
*
18369046 AGTCCTTCATCCAAAAATCAACTCACCACATTTCCATCAACCAACCCCCTTAACGGTTTAGCTGC
66 AGTCCTTCATCCAAAAATCAACTCACCACATTTCCATCAACCAACCCCCTTAAAGGTTTAGCTGC
* *
18369111 TCATGCTAAAAATACAACTTACAACCATGGA
131 TCATGCTAAAAATACAACTAAAAACCATGGA
18369142 AATGAAAAGT
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
161 150 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (161 bp):
TTCCCTTAGGGACATCAACCCTAAGATTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
AGTCCTTCATCCAAAAATCAACTCACCACATTTCCATCAACCAACCCCCTTAAAGGTTTAGCTGC
TCATGCTAAAAATACAACTAAAAACCATGGA
Found at i:18372817 original size:114 final size:114
Alignment explanation
Indices: 18372617--18372842 Score: 371
Period size: 114 Copynumber: 2.0 Consensus size: 114
18372607 ATGAGGCCAG
* * * *
18372617 GCCGTACGCACAAGACACGGCCATGTGATGGCCAGGCAGACCGTGTGTGATACATGGGCCGGATA
1 GCCGTACGCACAAGACACGACCATGTGATGGCCAGGCAGACCGTGTGTAATACATAGGCCGGACA
*
18372682 GATTTTGGCCGTGTGGGCCACACGGGCATGTGGGATTTTTGGCCAGGTA
66 GATTTGGGCCGTGTGGGCCACACGGGCATGTGGGATTTTTGGCCAGGTA
* * *
18372731 GCCGTGCGCACAAGACACTACCGTGTGATGGCCAGGCAGACCGTGTGTAATACATAGGCCGGACA
1 GCCGTACGCACAAGACACGACCATGTGATGGCCAGGCAGACCGTGTGTAATACATAGGCCGGACA
*
18372796 GATTTGGGCCGTGTGGGCCACACGGGCATGTGGGATTTTTTGCCAGG
66 GATTTGGGCCGTGTGGGCCACACGGGCATGTGGGATTTTTGGCCAGG
18372843 CTGTGTGATC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.21
Consensus pattern (114 bp):
GCCGTACGCACAAGACACGACCATGTGATGGCCAGGCAGACCGTGTGTAATACATAGGCCGGACA
GATTTGGGCCGTGTGGGCCACACGGGCATGTGGGATTTTTGGCCAGGTA
Found at i:18374163 original size:25 final size:25
Alignment explanation
Indices: 18374117--18374165 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18374107 TGGTTTTTGA
* *
18374117 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
* *
18374142 TAGTATATATTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
18374166 ATAAAATGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:18377267 original size:44 final size:42
Alignment explanation
Indices: 18377204--18377362 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 42
18377194 TATGTGTTAT
* *
18377204 CGTGTAAGACCACGTCTGGGACGTTGGCACCAATTTGTGATTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATC-ATTT-TGATTTA
** * * *
18377248 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTT-
1 CGTGTAAGACCACATCTGGGACGTTGGCATCAT-TTTGATTTA
* *
18377290 TGTGTAAGACC-CTATCTAGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-ATCTGGGAC-GTTGGCATC-AT-TTTGATTTA
*
18377333 CATGTAAGACCACATCTGGGACGTTGGCAT
1 CGTGTAAGACCACATCTGGGACGTTGGCAT
18377363 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
42 27 0.29
43 36 0.39
44 30 0.32
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATCATTTTGATTTA
Found at i:18377312 original size:42 final size:42
Alignment explanation
Indices: 18377245--18377367 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
18377235 AATTTGTGAT
* *
18377245 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCCTATCTGGGACATTGGCATCGTATATGA
** * * *
18377287 TTTTGTGTAAGACCCTATCTAGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCCTATCTGGGACATTGGCATCG-TATATGA
* * *
18377330 TTACATGTAAGACCAC-ATCTGGGACGTTGGCATTGTAT
1 TTACGTGTAAGACC-CTATCTGGGACATTGGCATCGTAT
18377368 GAGCTTATGA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 32 0.49
43 32 0.49
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAGACCCTATCTGGGACATTGGCATCGTATATGA
Done.