Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 196 of 335
Found at i:58908829 original size:48 final size:48
Alignment explanation
Indices: 58908768--58909297 Score: 907
Period size: 48 Copynumber: 11.0 Consensus size: 48
58908758 CATATTTCAC
*
58908768 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58908816 ATCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58908864 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58908912 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58908960 ATCTCATACATATCTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58909008 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58909056 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58909104 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
58909152 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58909200 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58909248 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
58909296 AT
1 AT
58909298 TTATCTTGTA
Statistics
Matches: 455, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 455 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:58915751 original size:27 final size:27
Alignment explanation
Indices: 58915649--58915753 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
58915639 AACATCCCAG
*
58915649 TTTGTAAAATTACCAAAATACCC--AA
1 TTTGTAAAATTACCAAAATACCCTTGA
* **
58915674 TTTGTAAAATTACCGAAATACCCCCGA
1 TTTGTAAAATTACCAAAATACCCTTGA
**
58915701 TTTGTAAAATTATTAAAATACCCTTGA
1 TTTGTAAAATTACCAAAATACCCTTGA
* *
58915728 TTTGTGAAATTACTAAAATACCCTTG
1 TTTGTAAAATTACCAAAATACCCTTG
58915754 TAGTGTAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 22 0.32
27 47 0.68
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCTTGA
Found at i:58915814 original size:27 final size:27
Alignment explanation
Indices: 58915758--58915820 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
58915748 CCCTTGTAGT
* * *
58915758 GTAAAATAACCGTAATGCCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTATAAG
*
58915785 GTAAAATGACCGTAATACTCCC-ATATG
1 GTAAAATGACCGTAATAC-CCCTATAAG
*
58915812 GTAGAATGA
1 GTAAAATGA
58915821 AGATTATGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAAG
Found at i:58934156 original size:18 final size:18
Alignment explanation
Indices: 58934133--58934195 Score: 108
Period size: 18 Copynumber: 3.5 Consensus size: 18
58934123 ATGACTGAAA
58934133 GTGAATATCTGGATGTGT
1 GTGAATATCTGGATGTGT
* *
58934151 GTGAATATCCGAATGTGT
1 GTGAATATCTGGATGTGT
58934169 GTGAATATCTGGATGTGT
1 GTGAATATCTGGATGTGT
58934187 GTGAATATC
1 GTGAATATC
58934196 CGACAATGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.25, C:0.08, G:0.30, T:0.37
Consensus pattern (18 bp):
GTGAATATCTGGATGTGT
Found at i:58936854 original size:49 final size:49
Alignment explanation
Indices: 58936785--58937183 Score: 717
Period size: 49 Copynumber: 8.1 Consensus size: 49
58936775 GTACATAATA
*
58936785 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
58936834 ATATATGTGACAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
58936883 ATATATGTGATAAGGCCTAATTGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
58936932 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-TGTAT
58936982 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
58937031 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
58937080 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
58937129 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
58937178 ATATAT
1 ATATAT
58937184 ATGTGGTAAA
Statistics
Matches: 337, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
49 289 0.86
50 48 0.14
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:58937120 original size:197 final size:198
Alignment explanation
Indices: 58936785--58937203 Score: 723
Period size: 197 Copynumber: 2.1 Consensus size: 198
58936775 GTACATAATA
58936785 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGACAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGACAAGGC
*
58936850 CTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATTGCCGATGTGA
66 CTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
* * * *
58936915 TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGT-TG
131 TGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
58936979 TAT
196 TAT
* *
58936982 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGACAAGGC
* *
58937047 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
66 CTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
58937112 TGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
131 TGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
58937177 TAT
196 TAT
* * *
58937180 ATATATGTGGTAAAGCCGAATGGC
1 ATATATGTGATAAGGCCTAATGGC
58937204 TAATGTGAAT
Statistics
Matches: 209, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
197 184 0.88
198 25 0.12
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (198 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGACAAGGC
CTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTA
TAT
Found at i:58937294 original size:38 final size:39
Alignment explanation
Indices: 58937252--58937332 Score: 123
Period size: 38 Copynumber: 2.1 Consensus size: 39
58937242 AACTTGGAAA
58937252 TATGTTCCGGGTGA-GACCCGAT-GACTACGTGTGGAGAT
1 TATGTTCCGGGT-ACGACCCGATGGACTACGTGTGGAGAT
*
58937290 TATG-TCCGGGTACGACCCGATGGACTATGTGTGGAGAT
1 TATGTTCCGGGTACGACCCGATGGACTACGTGTGGAGAT
58937328 TATGT
1 TATGT
58937333 GTAACACCCC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
36 1 0.03
37 15 0.38
38 23 0.59
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.28
Consensus pattern (39 bp):
TATGTTCCGGGTACGACCCGATGGACTACGTGTGGAGAT
Found at i:58944528 original size:38 final size:37
Alignment explanation
Indices: 58944437--58944583 Score: 190
Period size: 38 Copynumber: 3.9 Consensus size: 37
58944427 AATGTTCGAG
*
58944437 TGATATCCGGGCTAACCCGAAGGCAATTGTGCGA-AT
1 TGATATCCGGGCTAAGCCGAAGGCAATTGTGCGAGAT
*
58944473 TG-TAATCCGGGCTAAGCCGAAGGCAATTGTGCGAGCT
1 TGAT-ATCCGGGCTAAGCCGAAGGCAATTGTGCGAGAT
*
58944510 ATGATATCCGGGCTAAGCCGAAGGCAATTGTGCGAGTT
1 -TGATATCCGGGCTAAGCCGAAGGCAATTGTGCGAGAT
* *
58944548 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 -TGATATCCGGGCTAAG--CCGAAGGCAATTGTGCG
58944584 GGTTACCATA
Statistics
Matches: 99, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
35 1 0.01
36 31 0.31
37 1 0.01
38 49 0.49
39 1 0.01
40 16 0.16
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TGATATCCGGGCTAAGCCGAAGGCAATTGTGCGAGAT
Found at i:58944599 original size:40 final size:40
Alignment explanation
Indices: 58944443--58944613 Score: 144
Period size: 38 Copynumber: 4.5 Consensus size: 40
58944433 CGAGTGATAT
* *
58944443 CCGGGCTAA--CCCGAAGGCAATTGTGCGAATT---GTAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* ** *
58944478 TCCGGGCTAAG--CCGAAGGCAATTGTGCGAGCTATGATAT
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
58944517 CCGGGCTAAG--CCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
58944555 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
58944595 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58944614 TGTTTTGAAC
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.25
38 45 0.39
39 2 0.02
40 39 0.34
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:58947617 original size:39 final size:39
Alignment explanation
Indices: 58947570--58947752 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
58947560 AATGTTCGAG
58947570 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
58947609 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
58947648 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
58947687 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
58947727 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
58947753 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:58954734 original size:39 final size:39
Alignment explanation
Indices: 58954687--58954869 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
58954677 AATGTTCGAG
58954687 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
58954726 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
58954765 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
58954804 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
58954844 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
58954870 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:58956341 original size:40 final size:40
Alignment explanation
Indices: 58956297--58956422 Score: 189
Period size: 40 Copynumber: 3.1 Consensus size: 40
58956287 TAGTGACCAC
* *
58956297 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
* * *
58956337 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
* *
58956377 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
58956417 ATCCGG
1 ATCCGG
58956423 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
Found at i:58959806 original size:40 final size:39
Alignment explanation
Indices: 58959761--58959967 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
58959751 CGGAATACAA
58959761 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
58959801 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
58959841 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *** *
58959881 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAAT-GCCTTCGGGTCTTAGC
** * * *
58959921 CCGGATATAATTACTAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACGAATGCCTTCGGGTCTTAGC
58959960 CCGGATAT
1 CCGGATAT
58959968 CATTCAATTG
Statistics
Matches: 141, Mismatches: 23, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
39 25 0.18
40 116 0.82
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:58959901 original size:80 final size:80
Alignment explanation
Indices: 58959761--58959966 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
58959751 CGGAATACAA
* * *
58959761 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
58959825 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
58959841 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
58959905 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
58959921 CCGGATATAATTACTAGCA-TAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
58959967 TCATTCAATT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 26 0.24
80 79 0.74
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:58966132 original size:27 final size:28
Alignment explanation
Indices: 58966075--58966144 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
58966065 AAATTTGTAC
**
58966075 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
58966103 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
58966130 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58966145 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:58971201 original size:25 final size:25
Alignment explanation
Indices: 58971173--58971220 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58971163 TTATACCATG
* * *
58971173 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
58971198 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
58971221 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:58971323 original size:20 final size:20
Alignment explanation
Indices: 58971263--58971323 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
58971253 ATAAATATGG
*
58971263 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
58971283 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
58971303 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
58971323 T
1 T
58971324 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:58971400 original size:24 final size:24
Alignment explanation
Indices: 58971373--58971515 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
58971363 GAGGAAGTGA
58971373 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
58971397 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
58971421 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
58971444 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
58971468 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
58971492 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
58971516 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:58971466 original size:47 final size:47
Alignment explanation
Indices: 58971373--58971515 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
58971363 GAGGAAGTGA
58971373 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
58971421 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
58971468 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
58971516 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:58971489 original size:71 final size:72
Alignment explanation
Indices: 58971373--58971516 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
58971363 GAGGAAGTGA
*
58971373 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
58971436 CCAGTTAT
65 CCAGTTAT
** * *
58971444 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
58971509 CAGTTAT
66 CAGTTAT
58971516 A
1 A
58971517 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:58971742 original size:31 final size:31
Alignment explanation
Indices: 58971707--58971770 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
58971697 CGTTTACAGT
58971707 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
58971738 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58971769 AA
1 AA
58971771 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58979183 original size:28 final size:27
Alignment explanation
Indices: 58979120--58979189 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58979110 ATAGTGAGTC
58979120 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58979147 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58979175 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58979190 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58981801 original size:10 final size:10
Alignment explanation
Indices: 58981786--58981825 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
58981776 TCACTCTCTT
58981786 TTTCTTTTTC
1 TTTCTTTTTC
58981796 TTTCTTTTTC
1 TTTCTTTTTC
*
58981806 TTTC-ATTTC
1 TTTCTTTTTC
58981815 -TT-TTTTTC
1 TTTCTTTTTC
58981823 TTT
1 TTT
58981826 TCTCAATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.23
9 6 0.23
10 14 0.54
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:58999334 original size:11 final size:11
Alignment explanation
Indices: 58999318--58999350 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
58999308 TTAATGGATA
58999318 TTGAATTTTTT
1 TTGAATTTTTT
58999329 TTGAA-TTTTT
1 TTGAATTTTTT
58999339 TTGAATTTTTT
1 TTGAATTTTTT
58999350 T
1 T
58999351 CAAATTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (11 bp):
TTGAATTTTTT
Found at i:58999356 original size:11 final size:10
Alignment explanation
Indices: 58999318--58999350 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
58999308 TTAATGGATA
58999318 TTGAATTTTTT
1 TTGAA-TTTTT
58999329 TTGAATTTTT
1 TTGAATTTTT
58999339 TTGAATTTTT
1 TTGAATTTTT
58999349 TT
1 TT
58999351 CAAATTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (10 bp):
TTGAATTTTT
Found at i:59001173 original size:47 final size:46
Alignment explanation
Indices: 59001110--59001209 Score: 123
Period size: 47 Copynumber: 2.2 Consensus size: 46
59001100 GTCTTAAATA
*
59001110 TGCCTTAAGTCTATTAATGCATG-T-TAATTAGTACAGCATTTTAATG
1 TGCCTTAAGTCTATTAAT--ATGTTATAATAAGTACAGCATTTTAATG
* *
59001156 TGCCTTAAGTTTAATTAATATGTTATAATAAGTACAGCTTTTTAATG
1 TGCCTTAAGTCT-ATTAATATGTTATAATAAGTACAGCATTTTAATG
*
59001203 TGTCTTA
1 TGCCTTA
59001210 GATTAAGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.06
46 12 0.26
47 32 0.68
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (46 bp):
TGCCTTAAGTCTATTAATATGTTATAATAAGTACAGCATTTTAATG
Found at i:59002563 original size:17 final size:18
Alignment explanation
Indices: 59002541--59002574 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59002531 CACATTGAAG
59002541 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
59002558 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
59002575 CTTCCTTAAA
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:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:59003260 original size:28 final size:28
Alignment explanation
Indices: 59003228--59003304 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 28
59003218 ACATACATGT
* *
59003228 ATATGGCCCACTAGGCCCAATCTCATTC
1 ATATGGCCCATTAGGCCCAATCACATTC
* *
59003256 ATATGACCCATTGGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
*
59003285 GTATGGCCCATTAGGCCCAA
1 ATATGGCCCATTAGGCCCAA
59003305 ATCGCATACA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 17 0.41
29 24 0.59
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:59003289 original size:29 final size:29
Alignment explanation
Indices: 59003228--59003316 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
59003218 ACATACATGT
* * *
59003228 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGACCCATTAGGCCCAAATCACATTC
*
59003256 ATATGACCCATTGGGCCCAAATCACATTC
1 ATATGACCCATTAGGCCCAAATCACATTC
* * * *
59003285 GTATGGCCCATTAGGCCCAAATCGCATAC
1 ATATGACCCATTAGGCCCAAATCACATTC
59003314 ATA
1 ATA
59003317 GTCATGCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 15 0.30
29 35 0.70
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
ATATGACCCATTAGGCCCAAATCACATTC
Found at i:59003388 original size:33 final size:33
Alignment explanation
Indices: 59003350--59003414 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
59003340 ATCACTTAGT
59003350 ATCAAGTTGCCAATTTTACCTATTATGGGCCCG
1 ATCAAGTTGCCAATTTTACCTATTATGGGCCCG
* *
59003383 ATCAAGTTGCCAATTTTGCCTGTTATGGGCCC
1 ATCAAGTTGCCAATTTTACCTATTATGGGCCC
59003415 TACAACCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (33 bp):
ATCAAGTTGCCAATTTTACCTATTATGGGCCCG
Found at i:59006181 original size:40 final size:40
Alignment explanation
Indices: 59006126--59006295 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
59006116 AACATTGGAA
59006126 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59006166 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
59006206 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
59006245 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
59006286 CTATATCCGG
1 ATATATCCGG
59006296 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:59014277 original size:40 final size:40
Alignment explanation
Indices: 59014222--59014391 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
59014212 GAACATGGAA
59014222 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59014262 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
59014302 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
59014341 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
59014382 CTATATCCGG
1 ATATATCCGG
59014392 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:59026426 original size:25 final size:25
Alignment explanation
Indices: 59026392--59026457 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
59026382 GGGTGTTACA
*
59026392 GGGGCAAAGCCCTTTTCGATAAATT
1 GGGGCAAAGCCCTTTTCGATAAACT
* * *
59026417 GGGGCAAAGCCGTTTTTGGTAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
59026442 GGGGCAAAGCCCTTTT
1 GGGGCAAAGCCCTTTT
59026458 GCACTTCCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGATAAACT
Found at i:59026519 original size:11 final size:11
Alignment explanation
Indices: 59026503--59026551 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
59026493 TATATGAATT
59026503 TATCATGTGCA
1 TATCATGTGCA
*
59026514 TATCA--TACA
1 TATCATGTGCA
*
59026523 TATCATGTGTA
1 TATCATGTGCA
59026534 TATCATGT-CA
1 TATCATGTGCA
*
59026544 AATCATGT
1 TATCATGT
59026552 ATATTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.26
10 8 0.26
11 15 0.48
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:59028511 original size:2 final size:2
Alignment explanation
Indices: 59028504--59028532 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
59028494 CTCCAATGCC
59028504 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59028533 GGGTTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59036703 original size:56 final size:56
Alignment explanation
Indices: 59036604--59036737 Score: 180
Period size: 56 Copynumber: 2.4 Consensus size: 56
59036594 TCCCAGACAG
** * **
59036604 GGTCTTACTCGCAC-CATATATCGGAGTCACATATCGATGCCAACATATAAAATGT
1 GGTCTTACTCGCACACATATATCAAAGTCACATATCGATACCAACATATAAAACAT
* * * *
59036659 GGTCTTACTCGCACACATATATTAAAGTCATATATTGATACCAACGTATAAAACAT
1 GGTCTTACTCGCACACATATATCAAAGTCACATATCGATACCAACATATAAAACAT
59036715 GGTCTTACTCGCACACATATATC
1 GGTCTTACTCGCACACATATATC
59036738 GATGCCATGG
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
55 14 0.21
56 54 0.79
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAAAGTCACATATCGATACCAACATATAAAACAT
Found at i:59037427 original size:10 final size:10
Alignment explanation
Indices: 59037414--59037459 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
59037404 AGCAAAATTC
59037414 AGCTCATTTT
1 AGCTCATTTT
59037424 AGCTCATTTT
1 AGCTCATTTT
59037434 AGCTCATTTT
1 AGCTCATTTT
* *
59037444 AGCTCGTTTG
1 AGCTCATTTT
59037454 AGCTCA
1 AGCTCA
59037460 ACCGAGCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (10 bp):
AGCTCATTTT
Found at i:59039110 original size:20 final size:20
Alignment explanation
Indices: 59039087--59039133 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
59039077 ATACGAAATT
59039087 AAAAAAAAAGTTCGAATATA
1 AAAAAAAAAGTTCGAATATA
** *
59039107 AAAAAAAAAGTTTTAGTATA
1 AAAAAAAAAGTTCGAATATA
59039127 AAAAAAA
1 AAAAAAA
59039134 TGAGAGAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (20 bp):
AAAAAAAAAGTTCGAATATA
Found at i:59040067 original size:6 final size:6
Alignment explanation
Indices: 59040058--59040121 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
59040048 AAAGAGAATG
* * * * * *
59040058 AGAAAA AGAAAA ATGAAAT TGAAAA ATAAAG TGAAAA AGAAAA AGAGAA
1 AGAAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
*
59040107 GGAAAA AGAAAA AGA
1 AGAAAA AGAAAA AGA
59040122 GATGGAGAGT
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
6 39 0.91
7 4 0.09
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (6 bp):
AGAAAA
Found at i:59040135 original size:18 final size:17
Alignment explanation
Indices: 59040112--59040157 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
59040102 GAGAAGGAAA
59040112 AAGAAAAAGAGATG-GAG
1 AAGAAAAAGA-ATGTGAG
*
59040129 AGTGAAAAAGAATGTGAG
1 A-AGAAAAAGAATGTGAG
59040147 AAGAAAAAGAA
1 AAGAAAAAGAA
59040158 AATTGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (17 bp):
AAGAAAAAGAATGTGAG
Found at i:59043909 original size:17 final size:17
Alignment explanation
Indices: 59043884--59043918 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
59043874 TAATTGTATG
*
59043884 TTTATTATATTATAACT
1 TTTAGTATATTATAACT
59043901 TTTAGTATATTATAACT
1 TTTAGTATATTATAACT
59043918 T
1 T
59043919 ATTAATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAGTATATTATAACT
Found at i:59047857 original size:37 final size:37
Alignment explanation
Indices: 59047807--59047880 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
59047797 AACCTCGGAT
59047807 CTCTATTTGAAACAATAGAAATAGGCAGATTGTGTAA
1 CTCTATTTGAAACAATAGAAATAGGCAGATTGTGTAA
59047844 CTCTATTTGAAACAATAGAAATAGGCAGATTGTGTAA
1 CTCTATTTGAAACAATAGAAATAGGCAGATTGTGTAA
59047881 TCTCATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (37 bp):
CTCTATTTGAAACAATAGAAATAGGCAGATTGTGTAA
Found at i:59051602 original size:29 final size:29
Alignment explanation
Indices: 59051553--59051633 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
59051543 GGCTATGTAA
*
59051553 GTGATTTGGGCCTAATAGGCCATACGAAT
1 GTGATTTGGGCCTAATGGGCCATACGAAT
* *
59051582 GTGATTTGGGCCCAATGGGCCATATGAAT
1 GTGATTTGGGCCTAATGGGCCATACGAAT
* *
59051611 GAGA-TTGGGCCTAGTGGGCCATA
1 GTGATTTGGGCCTAATGGGCCATA
59051634 TATATGTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.37
29 29 0.63
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATACGAAT
Found at i:59056585 original size:40 final size:40
Alignment explanation
Indices: 59056540--59056706 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
59056530 CGGAATATAA
59056540 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59056580 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59056620 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59056660 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59056699 CCGGATAT
1 CCGGATAT
59056707 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:59056690 original size:80 final size:79
Alignment explanation
Indices: 59056556--59056706 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
59056546 ATAATCACGT
*
59056556 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
59056621 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
59056636 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
59056699 CCGGATAT
64 CCGGATAT
59056707 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:59064593 original size:40 final size:40
Alignment explanation
Indices: 59064548--59064714 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
59064538 CGGAATATAA
59064548 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59064588 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59064628 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59064668 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59064707 CCGGATAT
1 CCGGATAT
59064715 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:59064698 original size:80 final size:79
Alignment explanation
Indices: 59064564--59064714 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
59064554 ATAATCACGT
*
59064564 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
59064629 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
59064644 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
59064707 CCGGATAT
64 CCGGATAT
59064715 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:59066649 original size:93 final size:93
Alignment explanation
Indices: 59066537--59066707 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
59066527 GCCCATAAGT
* * *
59066537 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
59066602 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
** *
59066630 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
59066695 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59066708 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59066704 original size:46 final size:46
Alignment explanation
Indices: 59066529--59066704 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59066519 TGTAACCTGC
* * * *
59066529 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* *
59066575 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACAT
* * *
59066625 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
*
59066668 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59066705 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:59071798 original size:39 final size:39
Alignment explanation
Indices: 59071744--59071923 Score: 213
Period size: 39 Copynumber: 4.9 Consensus size: 39
59071734 GAATGTTCGA
59071744 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
59071783 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
59071822 ATGATATCCGGGCTAAGCCC----G-AA--G-GC-AA--
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
59071850 -TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* **
59071888 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
59071924 GGTTACCATA
Statistics
Matches: 121, Mismatches: 7, Indels: 25
0.79 0.05 0.16
Matches are distributed among these distances:
27 19 0.16
30 1 0.01
31 3 0.02
32 3 0.02
34 3 0.02
35 3 0.02
36 2 0.02
39 72 0.60
40 15 0.12
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:59071860 original size:27 final size:27
Alignment explanation
Indices: 59071822--59071877 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
59071812 TGTGCGAGTT
59071822 ATGATATCCGGGCTAAGCCCGAAGGCA
1 ATGATATCCGGGCTAAGCCCGAAGGCA
59071849 ATGATATCCGGGCTAAGCCCGAAGGCA
1 ATGATATCCGGGCTAAGCCCGAAGGCA
59071876 AT
1 AT
59071878 TGTGCAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.29, T:0.16
Consensus pattern (27 bp):
ATGATATCCGGGCTAAGCCCGAAGGCA
Found at i:59071893 original size:66 final size:67
Alignment explanation
Indices: 59071784--59071914 Score: 219
Period size: 66 Copynumber: 2.0 Consensus size: 67
59071774 GTGCGAATTG
* *
59071784 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGTCCCGAAGGC
59071848 AA
66 AA
* *
59071850 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGTCCCGAAGGC
59071915 CTTTGTGCGG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
66 51 0.85
67 9 0.15
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (67 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGTCCCGAAGGC
AA
Found at i:59078941 original size:39 final size:39
Alignment explanation
Indices: 59078887--59079078 Score: 294
Period size: 39 Copynumber: 4.9 Consensus size: 39
59078877 GAATGTTCGA
59078887 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
59078926 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* * *
59078965 ATGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
59079004 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* **
59079043 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
59079079 GGTTACCATA
Statistics
Matches: 141, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 126 0.89
40 15 0.11
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:59079026 original size:117 final size:119
Alignment explanation
Indices: 59078888--59079109 Score: 349
Period size: 117 Copynumber: 1.9 Consensus size: 119
59078878 AATGTTCGAG
*
59078888 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
59078952 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATTGGGCGAGTTA
66 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGGGCGAGTTA
*
59079005 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** * *
59079070 CTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
66 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGC
59079110 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
117 53 0.56
118 32 0.34
119 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (119 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGGGCGAGTTA
Found at i:59085968 original size:27 final size:28
Alignment explanation
Indices: 59085919--59085987 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
59085909 ATAGTGAGTC
*
59085919 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
59085945 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
59085973 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59085988 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 7 0.18
27 13 0.33
28 19 0.49
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:59091852 original size:39 final size:40
Alignment explanation
Indices: 59091797--59091973 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
59091787 GGACTAAGAT
* *
59091797 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
59091836 CCGAAGGCATTTGTGCGAGTTAATAAAT-CGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
59091874 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
59091914 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
*
59091954 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTTGTGCGAGT
59091974 CGTTATATCC
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 36 0.29
39 35 0.28
40 48 0.38
41 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:59099909 original size:39 final size:40
Alignment explanation
Indices: 59099854--59100031 Score: 238
Period size: 39 Copynumber: 4.5 Consensus size: 40
59099844 GGACTAAGAT
* *
59099854 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
59099893 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
59099932 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
59099972 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
*
59100012 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTTGTGCGAGT
59100032 CGTTATATCC
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 73 0.57
40 48 0.38
41 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:59105242 original size:27 final size:28
Alignment explanation
Indices: 59105193--59105261 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
59105183 ATAGTGAGTC
*
59105193 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
59105219 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
59105247 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59105262 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 7 0.18
27 13 0.33
28 19 0.49
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:59109468 original size:29 final size:29
Alignment explanation
Indices: 59109426--59109508 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 29
59109416 ATGACTATGT
* * * *
59109426 ATGTAATTTCGGCCTAATGGGCGATGCGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* * *
59109455 ATGTGATTTGGGCCCAATGTGCCATATGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* *
59109484 ATGAGA-TTGGGCCTAGTGGGCCATA
1 ATGTGATTTGGGCCTAATGGGCCATA
59109509 TATATGTATG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 16 0.37
29 27 0.63
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (29 bp):
ATGTGATTTGGGCCTAATGGGCCATACGA
Found at i:59110654 original size:17 final size:18
Alignment explanation
Indices: 59110619--59110654 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59110609 ATTCTAAGGA
59110619 AAGGTTTTCAATGAAAAC
1 AAGGTTTTCAATGAAAAC
*
59110637 AAGGTTTTCGAT-AAAAC
1 AAGGTTTTCAATGAAAAC
59110654 A
1 A
59110655 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
AAGGTTTTCAATGAAAAC
Found at i:59110819 original size:30 final size:30
Alignment explanation
Indices: 59110783--59110839 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
59110773 AGCTTCAGTC
59110783 GAAACACACTCTCGGGCATATCAACTAGTT
1 GAAACACACTCTCGGGCATATCAACTAGTT
*
59110813 GAAACACACTCTCGGGTATATCAACTA
1 GAAACACACTCTCGGGCATATCAACTA
59110840 AGTCTCACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (30 bp):
GAAACACACTCTCGGGCATATCAACTAGTT
Found at i:59111825 original size:32 final size:32
Alignment explanation
Indices: 59111775--59111866 Score: 121
Period size: 32 Copynumber: 2.9 Consensus size: 32
59111765 TAACCCATCA
* * *
59111775 CAATATCAATTGGGCCTAGCCCATCTCAGAAT
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
* * * *
59111807 CAATATCAGTTGGACCTAGCCTATATTAGTAC
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
59111839 CAATATCAGTTGGGCCTAGCCCATATCA
1 CAATATCAGTTGGGCCTAGCCCATATCA
59111867 ATATCAAACC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (32 bp):
CAATATCAGTTGGGCCTAGCCCATATCAGAAC
Found at i:59118819 original size:16 final size:16
Alignment explanation
Indices: 59118798--59118828 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
59118788 CGACAAATCC
59118798 CGAAATGCCGAAAAGT
1 CGAAATGCCGAAAAGT
59118814 CGAAATGCCGAAAAG
1 CGAAATGCCGAAAAG
59118829 CCAGAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (16 bp):
CGAAATGCCGAAAAGT
Found at i:59119096 original size:28 final size:28
Alignment explanation
Indices: 59119052--59119150 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
59119042 CATGACTATA
*
59119052 AATGTGATTGGGTCTGACGGACCATATG
1 AATGTGATTGGGCCTGACGGACCATATG
* * *
59119080 AAAGTGATTGGGCCTGATGGGCCATATG
1 AATGTGATTGGGCCTGACGGACCATATG
* *
59119108 AATGTGATTGGGCCCGATGGGA-CATATG
1 AATGTGATTGGGCCTGA-CGGACCATATG
*
59119136 AATGAGATTGGGCCT
1 AATGTGATTGGGCCT
59119151 AAAGGGGCCA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 58 0.97
29 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTGACGGACCATATG
Found at i:59120434 original size:17 final size:19
Alignment explanation
Indices: 59120398--59120434 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
59120388 TATTTCAAAG
59120398 AAGGCTTTTCAATGAAAAC
1 AAGGCTTTTCAATGAAAAC
*
59120417 AAGG-TTTTCGAT-AAAAC
1 AAGGCTTTTCAATGAAAAC
59120434 A
1 A
59120435 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (19 bp):
AAGGCTTTTCAATGAAAAC
Found at i:59121487 original size:2 final size:2
Alignment explanation
Indices: 59121482--59121511 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59121472 ATAAATAACG
59121482 TA TA 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 TA TA
59121512 AATCACCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59122845 original size:29 final size:29
Alignment explanation
Indices: 59122805--59122863 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
59122795 TCACAATGCA
59122805 TTTACTTCGCACACTTAGTGCTCGATAAT
1 TTTACTTCGCACACTTAGTGCTCGATAAT
59122834 TTTACTTCGCACACTTAGTGCTCGATAAT
1 TTTACTTCGCACACTTAGTGCTCGATAAT
59122863 T
1 T
59122864 CACACATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (29 bp):
TTTACTTCGCACACTTAGTGCTCGATAAT
Found at i:59127047 original size:56 final size:56
Alignment explanation
Indices: 59126987--59127122 Score: 184
Period size: 56 Copynumber: 2.4 Consensus size: 56
59126977 TCCCAGACAG
* * *
59126987 GGTCTTACTCGCACACTTATATCGGAGTCACATATCGATGCCAACGTATAAAATAT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATACCAACGTATAAAACAT
* *
59127043 GGTCTTACAT-GCACACATATATCGGAGTCACATATCGATACCAATGTATAAAACGT
1 GGTCTTAC-TCGCACACATATATCGGAGTCACATATCGATACCAACGTATAAAACAT
* **
59127099 GGTCCTACTCATACACATATATCG
1 GGTCTTACTCGCACACATATATCG
59127123 ATGACATGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
55 1 0.01
56 68 0.97
57 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATACCAACGTATAAAACAT
Found at i:59131145 original size:15 final size:16
Alignment explanation
Indices: 59131115--59131146 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59131105 GAATGGAGTA
59131115 AGTGAAATTATGTAAT
1 AGTGAAATTATGTAAT
59131131 AGTGAAATT-TGTAAT
1 AGTGAAATTATGTAAT
59131146 A
1 A
59131147 AAATAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AGTGAAATTATGTAAT
Found at i:59133250 original size:93 final size:93
Alignment explanation
Indices: 59133138--59133309 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59133128 CGCCCATAAG
* *
59133138 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59133203 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59133231 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59133296 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59133310 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:59133306 original size:46 final size:46
Alignment explanation
Indices: 59133131--59133306 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59133121 TGTAACCCGC
* * *
59133131 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59133177 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59133227 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59133270 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59133307 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:59140821 original size:93 final size:93
Alignment explanation
Indices: 59140709--59140880 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59140699 CGCCCATAAG
* *
59140709 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59140774 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59140802 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59140867 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59140881 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:59140877 original size:46 final size:46
Alignment explanation
Indices: 59140702--59140877 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59140692 TGTAACCCGC
* * *
59140702 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59140748 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59140798 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59140841 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59140878 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:59149112 original size:13 final size:13
Alignment explanation
Indices: 59149094--59149122 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59149084 GGTTAAAGTG
59149094 ATAATATAATTGT
1 ATAATATAATTGT
59149107 ATAATATAATTGT
1 ATAATATAATTGT
59149120 ATA
1 ATA
59149123 CAAATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
ATAATATAATTGT
Found at i:59154205 original size:24 final size:24
Alignment explanation
Indices: 59154177--59154313 Score: 256
Period size: 24 Copynumber: 5.7 Consensus size: 24
59154167 GTGACGAGAT
59154177 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
59154201 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
59154225 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
59154249 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
**
59154273 TGGCACTATGTGTGCGATTCGCTA
1 TGGCACTATGTGTGCGATTTACTA
59154297 TGGCACTATGTGTGCGA
1 TGGCACTATGTGTGCGA
59154314 ACATAATAAG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 111 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGATTTACTA
Found at i:59154327 original size:72 final size:72
Alignment explanation
Indices: 59154179--59154335 Score: 244
Period size: 72 Copynumber: 2.2 Consensus size: 72
59154169 GACGAGATTG
* **
59154179 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACA
* *
59154244 TACTATG
66 TAATATA
*
59154251 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAAC
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-AC
59154316 ATAATA-A
65 ATAATATA
59154323 GCACTATGTGTGC
1 GCACTATGTGTGC
59154336 CACATTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 73 0.94
73 5 0.06
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACA
TAATATA
Found at i:59162105 original size:24 final size:24
Alignment explanation
Indices: 59162056--59162238 Score: 325
Period size: 24 Copynumber: 7.7 Consensus size: 24
59162046 GTGACGAGAT
*
59162056 TGGCACTAAGTGTGCGA--TACTA
1 TGGCACTATGTGTGCGATTTACTA
59162078 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
59162102 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
59162126 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
59162150 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
59162174 TGGCACTATGTGTGCGATTTACTA
1 TGGCACTATGTGTGCGATTTACTA
**
59162198 TGGCACTATGTGTGCGATTCGCTA
1 TGGCACTATGTGTGCGATTTACTA
59162222 TGGCACTATGTGTGCGA
1 TGGCACTATGTGTGCGA
59162239 ACATAATAAG
Statistics
Matches: 156, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
22 16 0.10
24 140 0.90
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGATTTACTA
Found at i:59168296 original size:9 final size:9
Alignment explanation
Indices: 59168284--59168308 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
59168274 CTGTTTCACT
59168284 TTCTGACAG
1 TTCTGACAG
59168293 TTCTGACAG
1 TTCTGACAG
59168302 TTCTGAC
1 TTCTGAC
59168309 CTCTCTTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (9 bp):
TTCTGACAG
Found at i:59169158 original size:30 final size:31
Alignment explanation
Indices: 59169099--59169159 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
59169089 GGAACCACGT
*
59169099 ATGTGACCTAGCTACATATATCCCGTAGCTC
1 ATGTGACCTAGCCACATATATCCCGTAGCTC
* * *
59169130 ATGTGACTTAGCCA-ATTTATCTCGTAGCTC
1 ATGTGACCTAGCCACATATATCCCGTAGCTC
59169160 TCTTGTCTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
ATGTGACCTAGCCACATATATCCCGTAGCTC
Found at i:59176658 original size:13 final size:13
Alignment explanation
Indices: 59176640--59176665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59176630 GCTCGGCAGG
59176640 GACACGCCCGTGT
1 GACACGCCCGTGT
59176653 GACACGCCCGTGT
1 GACACGCCCGTGT
59176666 ACGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:59178005 original size:31 final size:31
Alignment explanation
Indices: 59177964--59178027 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
59177954 CCTTTTCATA
*
59177964 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
59177995 TTTCAAATTTCATATTATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
59178026 TT
1 TT
59178028 ACGGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:59178272 original size:23 final size:24
Alignment explanation
Indices: 59178221--59178385 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
59178211 GCTTTATCAT
*
59178221 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
59178246 ATAACTGGGGCA-AAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
59178269 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
** *
59178292 ATAACTGGGGCGCAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
59178316 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
59178340 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59178363 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
59178386 TCACTTCCTC
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 59 0.46
24 60 0.47
25 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:59178320 original size:47 final size:46
Alignment explanation
Indices: 59178242--59178384 Score: 216
Period size: 47 Copynumber: 3.1 Consensus size: 46
59178232 CCTAGCCTCT
*
59178242 TTTAATAACTGGGGCAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
59178288 TTTAATAACTGGGGCGCAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGC-AAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
59178335 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCC
59178382 TTT
1 TTT
59178385 TTCACTTCCT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
46 18 0.20
47 51 0.57
48 20 0.22
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (46 bp):
TTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:59178337 original size:71 final size:69
Alignment explanation
Indices: 59178221--59178385 Score: 249
Period size: 71 Copynumber: 2.3 Consensus size: 69
59178211 GCTTTATCAT
* *
59178221 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTTATAACTGGGGCATAAGC
1 ATAACTGG-GGCCAAGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTGATAACTGGGGCATAAGC
59178286 CCTTTA
64 CCTTTA
*
59178292 ATAACTGGGGCGCAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGC-CAAGCCCTTTTAATAACTGGGGCA-AAGCCCTTTTGATAACTGGGGCATAAGC
59178357 CCTTTA
64 CCTTTA
*
59178363 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGC-CAAGCCCTTTT
59178386 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
70 20 0.23
71 67 0.77
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (69 bp):
ATAACTGGGGCCAAGCCCTTTTAATAACTGGGGCAAAGCCCTTTTGATAACTGGGGCATAAGCCC
TTTA
Found at i:59178459 original size:9 final size:9
Alignment explanation
Indices: 59178445--59178521 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
59178435 ATCTCGTGTT
59178445 CATATCATA
1 CATATCATA
*
59178454 CATATCATGTG
1 CATATCA--TA
59178465 CATATCATA
1 CATATCATA
* *
59178474 CATGTCATGTG
1 CATATCA--TA
59178485 CATATCATA
1 CATATCATA
*
59178494 CATATCATGTG
1 CATATCA--TA
59178505 CATATCATA
1 CATATCATA
59178514 CATATCAT
1 CATATCAT
59178522 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:59178468 original size:20 final size:20
Alignment explanation
Indices: 59178445--59178523 Score: 149
Period size: 20 Copynumber: 4.0 Consensus size: 20
59178435 ATCTCGTGTT
59178445 CATATCATACATATCATGTG
1 CATATCATACATATCATGTG
*
59178465 CATATCATACATGTCATGTG
1 CATATCATACATATCATGTG
59178485 CATATCATACATATCATGTG
1 CATATCATACATATCATGTG
59178505 CATATCATACATATCATGT
1 CATATCATACATATCATGT
59178524 TTATCAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
CATATCATACATATCATGTG
Found at i:59178470 original size:11 final size:11
Alignment explanation
Indices: 59178454--59178512 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
59178444 TCATATCATA
59178454 CATATCATGTG
1 CATATCATGTG
*
59178465 CATATCA--TA
1 CATATCATGTG
*
59178474 CATGTCATGTG
1 CATATCATGTG
*
59178485 CATATCA--TA
1 CATATCATGTG
59178494 CATATCATGTG
1 CATATCATGTG
59178505 CATATCAT
1 CATATCAT
59178513 ACATATCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 15 0.39
11 23 0.61
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:59180421 original size:27 final size:27
Alignment explanation
Indices: 59179849--59180410 Score: 673
Period size: 27 Copynumber: 20.8 Consensus size: 27
59179839 GGGTATTTTA
* *
59179849 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
59179876 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59179903 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
59179930 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59179957 ATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
59179984 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
59180011 GTAATTATGTAAAT-TAGGGGTAAAATG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* **
59180038 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
59180065 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
59180092 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** * *
59180119 GTAATTTTACAAATCAAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59180146 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
59180173 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59180200 ATAATTCTGTAAA-CTGAAGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
59180227 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
59180254 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* * *
59180281 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
59180308 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59180335 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59180362 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59180389 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
59180411 CTTTGGTAAT
Statistics
Matches: 465, Mismatches: 62, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.01
27 458 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:59180437 original size:27 final size:27
Alignment explanation
Indices: 59180416--59180505 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
59180406 GGGTACTTTG
*
59180416 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
59180443 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
59180470 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
59180497 GTAATTTTA
1 GTAATTTTA
59180506 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:59180457 original size:54 final size:54
Alignment explanation
Indices: 59180399--59180505 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
59180389 ATAATTCTGT
* * *
59180399 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
59180453 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
59180506 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:59180519 original size:27 final size:27
Alignment explanation
Indices: 59180416--59180520 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
59180406 GGGTACTTTG
* *
59180416 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
59180443 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
59180470 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
59180497 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
59180521 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:59181675 original size:17 final size:17
Alignment explanation
Indices: 59181653--59181691 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
59181643 TTTGAAAAGG
59181653 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
59181670 AAAACAAATGAGTCTTA
1 AAAACAAATGAATCTTA
59181687 AAAAC
1 AAAAC
59181692 TTAATAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:59185772 original size:14 final size:13
Alignment explanation
Indices: 59185749--59185780 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
59185739 GGGATATCAA
59185749 AACAATAATTAAG
1 AACAATAATTAAG
59185762 AACATATAATTAAG
1 AACA-ATAATTAAG
59185776 AACAA
1 AACAA
59185781 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:59192423 original size:40 final size:40
Alignment explanation
Indices: 59192378--59192544 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
59192368 CGGAATACAA
59192378 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
59192418 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
59192458 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
59192498 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTC-GGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
59192537 CCGGATAT
1 CCGGATAT
59192545 CATTCAATTG
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
39 19 0.17
40 92 0.83
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:59192518 original size:80 final size:79
Alignment explanation
Indices: 59192378--59192544 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
59192368 CGGAATACAA
* *
59192378 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
59192443 CCTTCGGGTATTAGC
66 CCTTC-GGTATTAAC
** *
59192458 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
59192521 TGCCTTCGGTCTTAAC
64 TGCCTTCGGTATTAAC
59192537 CCGGATAT
1 CCGGATAT
59192545 CATTCAATTG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 17 0.22
80 60 0.77
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (79 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGTATTAAC
Found at i:59197039 original size:80 final size:80
Alignment explanation
Indices: 59196955--59197103 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
59196945 TATGGTAACC
* * * *
59196955 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
59197019 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
59197035 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
59197100 CCGG
66 CCGG
59197104 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:59197045 original size:40 final size:38
Alignment explanation
Indices: 59196996--59197103 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
59196986 ATCACGATTT
*
59196996 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
59197036 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
59197076 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
59197104 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:59203734 original size:43 final size:40
Alignment explanation
Indices: 59203686--59203856 Score: 186
Period size: 40 Copynumber: 4.2 Consensus size: 40
59203676 CGGAATACAA
* *
59203686 CCGGATATAAACCACACGCACGACGATGCCTTCGGGTCTTAGC
1 CCGGATAT-AACAACTCGCACGA--ATGCCTTCGGGTCTTAGC
* * *
59203729 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
59203769 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
59203809 CCGGATA-AAGTC-ACTAGCAC-AATTGCCTTCGAGTCTTAAC
1 CCGGATATAA--CAACTCGCACGAA-TGCCTTCGGGTCTTAGC
59203849 CCGGATAT
1 CCGGATAT
59203857 CATTCAATTG
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
39 4 0.04
40 89 0.79
41 1 0.01
42 11 0.10
43 8 0.07
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:59203761 original size:40 final size:40
Alignment explanation
Indices: 59203711--59203856 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
59203701 ACGCACGACG
*
59203711 ATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAA
1 ATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAA
* * * *
59203751 ATGCCTTCGGGTATTAGCCCGGATATAACAACTTGCACGA
1 ATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAA
59203791 ATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAA
1 ATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAA
* * *
59203831 TTGCCTTCGAGTCTTAACCCGGATAT
1 ATGCCTTCGGGTCTTAGCCCGGATAT
59203857 CATTCAATTG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 90 0.98
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
ATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAA
Found at i:59219147 original size:28 final size:29
Alignment explanation
Indices: 59219089--59219151 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
59219079 GTGACAGAGT
*
59219089 CACCAGATACAAATATTTTGTGGCAGTGC
1 CACCAGATACAAATAATTTGTGGCAGTGC
*
59219118 CACCAGA-ACAGATAATTTGTGGCA-TGGC
1 CACCAGATACAAATAATTTGTGGCAGT-GC
59219146 CACCAG
1 CACCAG
59219152 GACGCTTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (29 bp):
CACCAGATACAAATAATTTGTGGCAGTGC
Found at i:59219556 original size:8 final size:8
Alignment explanation
Indices: 59219540--59219571 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
59219530 CCCAAAATAC
59219540 CGGCTTTT
1 CGGCTTTT
*
59219548 CGGCATTT
1 CGGCTTTT
59219556 CGGCTTTT
1 CGGCTTTT
59219564 CGGCTTTT
1 CGGCTTTT
59219572 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:59222105 original size:56 final size:56
Alignment explanation
Indices: 59222045--59222181 Score: 211
Period size: 56 Copynumber: 2.4 Consensus size: 56
59222035 TCCCAGACAG
* * *
59222045 GGTCTTACTCGCACATATATATTGGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
*
59222101 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACTT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
* * *
59222157 GGTCTTACTCACAAACATGTATCGA
1 GGTCTTACTCGCACACATATATCGA
59222182 TGCTATGGTC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
Found at i:59223345 original size:14 final size:15
Alignment explanation
Indices: 59223328--59223356 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59223318 GCACGAAAAT
59223328 TTCACACA-TATAAA
1 TTCACACATTATAAA
59223342 TTCACACATTATAAA
1 TTCACACATTATAAA
59223357 CACATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:59227436 original size:79 final size:80
Alignment explanation
Indices: 59227293--59227500 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
59227283 ACCTTCGGAG
* * ** * * * *
59227293 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
59227357 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
59227372 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
59227434 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
59227451 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
59227501 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:59227445 original size:40 final size:40
Alignment explanation
Indices: 59227393--59227500 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
59227383 TATCACGATT
** *
59227393 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
59227433 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
59227473 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
59227501 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:59230544 original size:2 final size:2
Alignment explanation
Indices: 59230537--59230563 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59230527 CAATCATAAT
59230537 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
59230564 TCTTCTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59230862 original size:39 final size:39
Alignment explanation
Indices: 59230810--59230926 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 39
59230800 GGACTTTAGC
* *
59230810 CCGGA-ATATTTCCAGCACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCTTAAGT
* *
59230848 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCTTAAGT
* *
59230887 CCGGATATAATTCTAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCTTAAGT
59230926 C
1 C
59230927 TAGATAAACA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 4 0.06
39 66 0.94
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGTGGACCTTAAGT
Found at i:59237295 original size:31 final size:31
Alignment explanation
Indices: 59237254--59237317 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
59237244 CCTTTTCATA
*
59237254 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
59237285 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
59237316 TT
1 TT
59237318 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:59237574 original size:24 final size:24
Alignment explanation
Indices: 59237510--59237863 Score: 542
Period size: 24 Copynumber: 15.0 Consensus size: 24
59237500 GCTTTATCAT
*
59237510 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
59237535 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59237558 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59237581 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
59237605 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
59237629 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59237652 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
59237676 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
59237700 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59237723 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59237746 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
59237770 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
59237794 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
59237818 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59237841 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
59237864 TCACTTCCTC
Statistics
Matches: 310, Mismatches: 13, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
23 129 0.42
24 174 0.56
25 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:59237609 original size:47 final size:48
Alignment explanation
Indices: 59237510--59237863 Score: 551
Period size: 47 Copynumber: 7.5 Consensus size: 48
59237500 GCTTTATCAT
* * *
59237510 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTA
* *
59237558 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
59237605 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
* *
59237652 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
*
59237700 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
*
59237746 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
*
59237794 ATAACTGAGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
59237841 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
59237864 TCACTTCCTC
Statistics
Matches: 285, Mismatches: 15, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
46 37 0.13
47 147 0.52
48 101 0.35
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
Found at i:59237863 original size:71 final size:71
Alignment explanation
Indices: 59237510--59237862 Score: 570
Period size: 71 Copynumber: 5.0 Consensus size: 71
59237500 GCTTTATCAT
* * * *
59237510 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
59237573 GCCCTTTA
64 GCCCTTTA
59237581 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
59237646 CCTTTA
66 CCTTTA
*
59237652 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
59237717 CCTTTA
66 CCTTTA
*
59237723 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
*
59237787 CCTTTTG
66 CC-TTTA
* *
59237794 ATAACTGAGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
59237858 CCTTT
66 CCTTT
59237863 TTCACTTCCT
Statistics
Matches: 267, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
70 68 0.25
71 177 0.66
72 22 0.08
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:59237937 original size:20 final size:20
Alignment explanation
Indices: 59237912--59237958 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
59237902 TTATGATTAC
59237912 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59237932 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59237952 ACCATGT
1 ATCATGT
59237959 TTATCAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59239265 original size:27 final size:27
Alignment explanation
Indices: 59239203--59239280 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
59239193 GGGCATATTC
*
59239203 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCTTACAGGGGTATTACG
*
59239230 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCATTTTACCTTACAGGGG-TATTACG
* * *
59239257 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCTTACAGGGGTATT
59239281 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCTTACAGGGGTATTACG
Found at i:59239351 original size:27 final size:27
Alignment explanation
Indices: 59239325--59239523 Score: 138
Period size: 27 Copynumber: 7.3 Consensus size: 27
59239315 ATCTACAAAC
*
59239325 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAT
*
59239352 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTT-TAGTAATTTTGT--AAA-T
*
59239381 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTGTAAAT
* * **
59239408 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTGTAAAT
* * **
59239434 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTAGTAATTTTGTAAAT
**
59239462 TGAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTGTAAAT
* *** *
59239489 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTGTAAAT
59239516 CAAGGGTA
1 CAAGGGTA
59239524 AAATAGTAAT
Statistics
Matches: 142, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.03
27 110 0.77
28 9 0.06
29 18 0.13
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTGTAAAT
Found at i:59239523 original size:81 final size:81
Alignment explanation
Indices: 59239476--59239750 Score: 262
Period size: 81 Copynumber: 3.3 Consensus size: 81
59239466 GGTATTTCTG
* *
59239476 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTACAA
59239541 ATCGACGGTAAAACGA
66 ATCGACGGTAAAACGA
* * *
59239557 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAA----A---T-CAA---GGGTAAAATAG
* * ** * *
59239622 TAATTATATAAATCGGGGGTAAAATGG
55 TAATTCTACAAATCGACGGTAAAACGA
* * ** * *
59239649 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTACAA
* *
59239714 ATCGAGGGTAAAACGG
66 ATCGACGGTAAAACGA
* *
59239730 TAATTATGTAAATCGGGGGTA
1 TAATTTTGTAAATCGAGGGTA
59239751 CTTTGGTAAT
Statistics
Matches: 162, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
81 87 0.54
84 2 0.01
85 2 0.01
88 2 0.01
89 2 0.01
92 67 0.41
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (81 bp):
TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTACAA
ATCGACGGTAAAACGA
Found at i:59239524 original size:27 final size:27
Alignment explanation
Indices: 59239475--59239750 Score: 221
Period size: 27 Copynumber: 9.8 Consensus size: 27
59239465 GGGTATTTCT
* *
59239475 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
59239502 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
59239529 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
59239555 GATAATTTTGTAAATCGAGGGTAAAACG
1 G-TAATTCTGTAAATCGAGGGTAAAACA
*
59239583 GTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAAC---------A
* * * **
59239619 TGGTAATTATATAAATCGGGGGTAAAATG
1 --GTAATTCTGTAAATCGAGGGTAAAACA
* *
59239648 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
59239675 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
59239702 GTACTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
59239729 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
59239751 CTTTGGTAAT
Statistics
Matches: 203, Mismatches: 33, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.00
27 180 0.89
28 1 0.00
38 21 0.10
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:59239608 original size:54 final size:55
Alignment explanation
Indices: 59239475--59239750 Score: 245
Period size: 54 Copynumber: 4.9 Consensus size: 55
59239465 GGGTATTTCT
* * * * **
59239475 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCGAGGGTAAAACG
* * *
59239529 GTAATTCTATAAATCGACGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCGAGGGTAAAACG
* * * *
59239583 GTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAATGGTAATTATATAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAAC----G----A--GTAATTATGTAAATCGAGGGTAAAACG
* * * * *
59239648 GTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCGAGGGTAAAACG
* * *
59239702 GTACTTCTATAAATCGAGGGTAAAACG-GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCGAGGGTA
59239751 CTTTGGTAAT
Statistics
Matches: 179, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
54 130 0.73
55 1 0.01
56 1 0.01
58 1 0.01
62 1 0.01
65 45 0.25
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (55 bp):
GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCGAGGGTAAAACG
Found at i:59239615 original size:38 final size:38
Alignment explanation
Indices: 59239564--59239645 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
59239554 CGATAATTTT
* * * *
59239564 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATATAAATCGAGG
* * *
59239602 GTAAAACGGGGGTAAAATGGTAATTATATAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATATAAATCGAGG
59239640 GTAAAA
1 GTAAAA
59239646 TGGTAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.30, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATATAAATCGAGG
Found at i:59239626 original size:65 final size:65
Alignment explanation
Indices: 59239547--59239673 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
59239537 ATAAATCGAC
* * * *
59239547 GGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGGG
1 GGTAAAACGATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGG
* * * * *
59239612 GGTAAAATGGTAATTATATAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAAC
1 GGTAAAACGATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
59239674 AGTAATTCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (65 bp):
GGTAAAACGATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGG
Found at i:59239632 original size:92 final size:92
Alignment explanation
Indices: 59239519--59239702 Score: 269
Period size: 92 Copynumber: 2.0 Consensus size: 92
59239509 TGTAAATCAA
* * *
59239519 GGGTAAAATAGTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACAG
* * *
59239584 TAATTCTGTAAGTCGAGGGTAAAACGG
66 TAATTCTATAAATCAAGGGTAAAACGG
* ** * *
59239611 GGGTAAAATGGTAATTATATAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACAG
59239676 TAATTCTATAAATCAAGGGTAAAACGG
66 TAATTCTATAAATCAAGGGTAAAACGG
59239703 TACTTCTATA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (92 bp):
GGGTAAAATAGTAATTATATAAATCGACGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACAG
TAATTCTATAAATCAAGGGTAAAACGG
Done.