Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 36 of 218
Found at i:11258053 original size:34 final size:34
Alignment explanation
Indices: 11258010--11258094 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 34
11258000 AACTTGTCGG
* * *
11258010 ACTTGCATAACTTATATAATACTTAACTTACATA
1 ACTTACATAACTTACATAATACATAACTTACATA
*
11258044 ACTTACATAACTTACATAATACATAACTTACGTA
1 ACTTACATAACTTACATAATACATAACTTACATA
*
11258078 A--TACGTAACTTACATAA
1 ACTTACATAACTTACATAA
11258095 CTCATATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 15 0.33
34 31 0.67
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.34
Consensus pattern (34 bp):
ACTTACATAACTTACATAATACATAACTTACATA
Found at i:11264135 original size:43 final size:43
Alignment explanation
Indices: 11263996--11264205 Score: 136
Period size: 43 Copynumber: 4.9 Consensus size: 43
11263986 GTTCTTATGA
* * *
11263996 AAAGCGTCGCTAAAAGTCAAGGTCTTTTTGCGGCGTTTGCAAGA-
1 AAAGCGCCGCTAAAAGTCAAGGTC-TTTAGCGGCGTTTGTAA-AT
* * * * * * *
11264040 AAATCACCGCTAAAAGTTAGGGTATTTAGCGGCGTTTGTGATT
1 AAAGCGCCGCTAAAAGTCAAGGTCTTTAGCGGCGTTTGTAAAT
* * * *
11264083 GAAGTGCCGCTAAAGGTCAAGGTCTTTAGTGGCGTTTGTAAAT
1 AAAGCGCCGCTAAAAGTCAAGGTCTTTAGCGGCGTTTGTAAAT
* * * * * * * * *
11264126 CAAGCGCCGCT-ATAGGCTAATGTATTTTGCGGCATTTGTGACT
1 AAAGCGCCGCTAAAAGTC-AAGGTCTTTAGCGGCGTTTGTAAAT
* * * *
11264169 TAAGCTCCGTTAAAAGTCAAGCTCTTTAGCGGCGTTT
1 AAAGCGCCGCTAAAAGTCAAGGTCTTTAGCGGCGTTT
11264206 TATGGTAAAG
Statistics
Matches: 120, Mismatches: 43, Indels: 7
0.71 0.25 0.04
Matches are distributed among these distances:
42 3 0.03
43 95 0.79
44 22 0.18
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
AAAGCGCCGCTAAAAGTCAAGGTCTTTAGCGGCGTTTGTAAAT
Found at i:11264223 original size:86 final size:86
Alignment explanation
Indices: 11264003--11264205 Score: 196
Period size: 86 Copynumber: 2.3 Consensus size: 86
11263993 TGAAAAGCGT
* * * * * * * * **
11264003 CGCTAAAAGTCAAGGTCTTTTTGCGGCGTTTGCAAGA-AAATCACCGCTAAAAGTTAGGGTATTT
1 CGCTAAAAGTCAAGCTC-TTTAGCGGCGTTTGTAA-ATAAAGCGCCGCTATAGGCTAATGTATTT
*
11264067 AGCGGCGTTTGTGATTGAAGTGC
64 AGCGGCATTTGTGATTGAAGTGC
* * * * *
11264090 CGCTAAAGGTCAAGGTCTTTAGTGGCGTTTGTAAATCAAGCGCCGCTATAGGCTAATGTATTTTG
1 CGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTAAATAAAGCGCCGCTATAGGCTAATGTATTTAG
11264155 CGGCATTTGTGACTT-AAGCT-C
66 CGGCATTTGTGA-TTGAAG-TGC
*
11264176 CGTTAAAAGTCAAGCTCTTTAGCGGCGTTT
1 CGCTAAAAGTCAAGCTCTTTAGCGGCGTTT
11264206 TATGGTAAAG
Statistics
Matches: 95, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
85 1 0.01
86 75 0.79
87 19 0.20
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (86 bp):
CGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTAAATAAAGCGCCGCTATAGGCTAATGTATTTAG
CGGCATTTGTGATTGAAGTGC
Found at i:11264264 original size:43 final size:43
Alignment explanation
Indices: 11264217--11264312 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
11264207 ATGGTAAAGT
* * *
11264217 GCCGCTAAAGATAATAACCTTTAGCGGCACTTAAGTCACAAAC
1 GCCGCTAAAGAGAATAACCTTTACCGGCACTCAAGTCACAAAC
** * * * *
11264260 GCCGCTAAAGAGCTTGACTTTTACCGGCGCTCAATTCACAAAC
1 GCCGCTAAAGAGAATAACCTTTACCGGCACTCAAGTCACAAAC
11264303 GCCGCTAAAG
1 GCCGCTAAAG
11264313 GCCGTGACCT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (43 bp):
GCCGCTAAAGAGAATAACCTTTACCGGCACTCAAGTCACAAAC
Found at i:11264331 original size:43 final size:43
Alignment explanation
Indices: 11264233--11264331 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
11264223 AAAGATAATA
* * *
11264233 ACCTTTAGCGGCACTTAAGTCACAAACGCCGCTAAAGAGCTTG
1 ACCTTTAGCGGCGCTCAAGTCACAAACGCCGCTAAAGAGCGTG
* * *
11264276 ACTTTTACCGGCGCTCAATTCACAAACGCCGCTAAAG-GCCGTG
1 ACCTTTAGCGGCGCTCAAGTCACAAACGCCGCTAAAGAG-CGTG
11264319 ACCTTTAGCGGCG
1 ACCTTTAGCGGCG
11264332 TTTTTTGCTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.21
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTCAAGTCACAAACGCCGCTAAAGAGCGTG
Found at i:11265733 original size:21 final size:21
Alignment explanation
Indices: 11265709--11265750 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11265699 GAAATGAAGT
11265709 CCTTTGGAAATGACCAAACCG
1 CCTTTGGAAATGACCAAACCG
11265730 CCTTTGGAAATGACCAAACCG
1 CCTTTGGAAATGACCAAACCG
11265751 TCTATATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (21 bp):
CCTTTGGAAATGACCAAACCG
Found at i:11266242 original size:20 final size:20
Alignment explanation
Indices: 11266217--11266257 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11266207 ACATCTACAC
11266217 CACCTTGAAAGGAAACTCAT
1 CACCTTGAAAGGAAACTCAT
*
11266237 CACCTTGGAAGGAAACTCAT
1 CACCTTGAAAGGAAACTCAT
11266257 C
1 C
11266258 TATATCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (20 bp):
CACCTTGAAAGGAAACTCAT
Found at i:11267345 original size:11 final size:11
Alignment explanation
Indices: 11267329--11267376 Score: 78
Period size: 11 Copynumber: 4.4 Consensus size: 11
11267319 TTTCATTCAT
*
11267329 CATCCCTCAAG
1 CATCCATCAAG
*
11267340 CATCCCTCAAG
1 CATCCATCAAG
11267351 CATCCATCAAG
1 CATCCATCAAG
11267362 CATCCATCAAG
1 CATCCATCAAG
11267373 CATC
1 CATC
11267377 ATTCTCTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.31, C:0.42, G:0.08, T:0.19
Consensus pattern (11 bp):
CATCCATCAAG
Found at i:11271782 original size:27 final size:27
Alignment explanation
Indices: 11271751--11272181 Score: 501
Period size: 27 Copynumber: 16.0 Consensus size: 27
11271741 GGCAAATTAT
*
11271751 CGAAATACCCTTGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
* * *
11271778 CGAAAAACCCTAGAAGGGTAAAATAAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
* *
11271805 CTAAATACCCTCGAAAGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
* * * *
11271832 CAAAATACCCTCAAAGGGTAAAATAAT
1 CGAAATACCCTCGAAGGGTAAAATGAC
* *
11271859 CGAAATACCCTCAAAGGGTAAAATGAT
1 CGAAATACCCTCGAAGGGTAAAATGAC
*
11271886 CAAAATACCCTCGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
*
11271913 CAAAATACCCTCGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
* ** *
11271940 GGAAATACCCTTAAAGGGTAAAATGAT
1 CGAAATACCCTCGAAGGGTAAAATGAC
* ** *
11271967 CAAAATACCCTTAAAGGGTAAAATAAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
*
11271994 CGAAATACCCTCGAATGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
11272021 TC-AAATACCCTCGAAGGGTAAAATGAC
1 -CGAAATACCCTCGAAGGGTAAAATGAC
** *
11272048 TAAAATACCCTCGAAGGATAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
* *
11272075 TGAAGTACCCTCGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATGAC
* *
11272102 TGAAATACCCTCGAAGGGT-AAATGAT
1 CGAAATACCCTCGAAGGGTAAAATGAC
*
11272128 CGAAATACCC-CTGAAGGTTAAAATGAC
1 CGAAATACCCTC-GAAGGGTAAAATGAC
* * *
11272155 TGAAATACCC-CCATAGGATAAAATGAC
1 CGAAATACCCTCGA-AGGGTAAAATGAC
11272182 TGTTATAACC
Statistics
Matches: 353, Mismatches: 46, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
25 1 0.00
26 22 0.06
27 329 0.93
28 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (27 bp):
CGAAATACCCTCGAAGGGTAAAATGAC
Found at i:11277933 original size:27 final size:27
Alignment explanation
Indices: 11277894--11278194 Score: 266
Period size: 27 Copynumber: 11.1 Consensus size: 27
11277884 AATTCATGAG
* * * *
11277894 AAAATAGCTGAAATACCTTTGAAGGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
* *
11277921 AAAAAAACCGAAAAACCCTCGAAGGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
* * * * *
11277948 AAAATGACCAAAATAACTTCGAAAGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
* **
11277975 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
*
11278002 AAAATAACCGAAATACCCTCGAAGGTT
1 AAAATAACCGAAATACCCTCGAAGGGT
* ** * *
11278029 AACATGAA-AAAAATTCCCTCGAATGGT
1 AAAAT-AACCGAAATACCCTCGAAGGGT
* *
11278056 AAAATGACCGAAATACTCT-GAAAGGGT
1 AAAATAACCGAAATACCCTCG-AAGGGT
** *
11278083 AAAATAATTGAAATACCCTCAAAGGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
* *
11278110 AAAATGACCAAAATACCCTCGAAGGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
* * *
11278137 AAAATGACCAAAATACGCTCGAAGGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
* *
11278164 AAAATAATCGAAATACTCTC-ATAGGGT
1 AAAATAACCGAAATACCCTCGA-AGGGT
11278191 AAAA
1 AAAA
11278195 GGACTGTTAT
Statistics
Matches: 218, Mismatches: 51, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.01
27 213 0.98
28 2 0.01
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (27 bp):
AAAATAACCGAAATACCCTCGAAGGGT
Found at i:11278042 original size:81 final size:81
Alignment explanation
Indices: 11277903--11278194 Score: 345
Period size: 81 Copynumber: 3.6 Consensus size: 81
11277893 GAAAATAGCT
* * * * * *
11277903 GAAATACCTTTGAAGGGTAAAAAAACCGAAAAACCCTCGAAGGGTAAAATGACCAAAATAACTTC
1 GAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTC
**
11277968 GAAAGGTAAAATGATT
66 GAAAGGTAAAATGACC
* * ** *
11277984 GAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGGTTAACATGAAAAAAATTCCCTC
1 GAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTC
*
11278049 GAATGGTAAAATGACC
66 GAAAGGTAAAATGACC
* ** *
11278065 GAAATACTCT-GAAAGGGTAAAATAATTGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCT
1 GAAATACCCTCG-AAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCT
*
11278129 CGAAGGGTAAAATGACC
65 CGAAAGGTAAAATGACC
* * * *
11278146 AAAATACGCTCGAAGGGTAAAATAATCGAAATACTCTC-ATAGGGTAAAA
1 GAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGA-AGGGTAAAA
11278195 GGACTGTTAT
Statistics
Matches: 180, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.01
81 177 0.98
82 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (81 bp):
GAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTC
GAAAGGTAAAATGACC
Found at i:11298386 original size:12 final size:12
Alignment explanation
Indices: 11298369--11298394 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11298359 CGAGCCCAAA
11298369 CTAATTTTGGCT
1 CTAATTTTGGCT
11298381 CTAATTTTGGCT
1 CTAATTTTGGCT
11298393 CT
1 CT
11298395 TATTCCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.50
Consensus pattern (12 bp):
CTAATTTTGGCT
Found at i:11301396 original size:22 final size:21
Alignment explanation
Indices: 11301371--11301414 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11301361 TATTGATACC
*
11301371 TGGTAAAAGGTATCAATACTTT
1 TGGT-AAAGGTATCAACACTTT
* *
11301393 TGGTTAAGGTATCGACACTTT
1 TGGTAAAGGTATCAACACTTT
11301414 T
1 T
11301415 TGTGAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (21 bp):
TGGTAAAGGTATCAACACTTT
Found at i:11301635 original size:22 final size:24
Alignment explanation
Indices: 11301607--11301650 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11301597 ATTTTATTCA
11301607 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
11301629 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
11301651 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:11302395 original size:80 final size:78
Alignment explanation
Indices: 11302241--11302395 Score: 229
Period size: 78 Copynumber: 2.0 Consensus size: 78
11302231 AGATAATCTA
* * * *
11302241 CCAATATTATGGTCAAACCACTAGTATTGTAGATAACTGTCAATTTGTGGACTAGCCACTAGTAT
1 CCAATATTATGGACAAACCACCAGTATTGCAGATAACTGTCAATTTGTGGACAAGCCACTAGTAT
*
11302306 TGCAGATAAATTG
66 TGCAAATAAATTG
* *
11302319 CCAATATTGTGGACAAGCCACCAGTATTGCAGATAAACTGTCAATATTGTGGACAAGCCACTAGT
1 CCAATATTATGGACAAACCACCAGTATTGCAGAT-AACTGTCAAT-TTGTGGACAAGCCACTAGT
11302384 ATTGCAAATAAA
64 ATTGCAAATAAA
11302396 CTGTCAGTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 29 0.43
79 10 0.15
80 29 0.43
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (78 bp):
CCAATATTATGGACAAACCACCAGTATTGCAGATAACTGTCAATTTGTGGACAAGCCACTAGTAT
TGCAAATAAATTG
Found at i:11302399 original size:40 final size:40
Alignment explanation
Indices: 11302242--11302401 Score: 225
Period size: 40 Copynumber: 4.0 Consensus size: 40
11302232 GATAATCTAC
* * * *
11302242 CAATATTATGGTCAAACCACTAGTATTGTAGAT-AACTGT
1 CAATATTGTGGACAAGCCACTAGTATTGCAGATAAACTGT
* * *
11302281 CAAT-TTGTGGACTAGCCACTAGTATTGCAGATAAATTGC
1 CAATATTGTGGACAAGCCACTAGTATTGCAGATAAACTGT
*
11302320 CAATATTGTGGACAAGCCACCAGTATTGCAGATAAACTGT
1 CAATATTGTGGACAAGCCACTAGTATTGCAGATAAACTGT
*
11302360 CAATATTGTGGACAAGCCACTAGTATTGCAAATAAACTGT
1 CAATATTGTGGACAAGCCACTAGTATTGCAGATAAACTGT
11302400 CA
1 CA
11302402 GTACTTCCTC
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 23 0.22
39 12 0.11
40 71 0.67
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (40 bp):
CAATATTGTGGACAAGCCACTAGTATTGCAGATAAACTGT
Found at i:11306027 original size:11 final size:11
Alignment explanation
Indices: 11306011--11306044 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
11306001 TAAGCCCTCC
11306011 TTATTTATTAT
1 TTATTTATTAT
11306022 TTATTTATTATT
1 TTATTTATTA-T
11306034 TTATTT-TTAT
1 TTATTTATTAT
11306044 T
1 T
11306045 CCCCTTCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 13 0.59
12 7 0.32
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:11329447 original size:43 final size:43
Alignment explanation
Indices: 11329400--11329554 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
11329390 TGTGTTTTCG
*
11329400 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGTTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTACA
* * * *
11329443 TGTAAGACCATGTCTGGGACATTGGCATCG-TATT-TAATT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTACA
** * *
11329484 TGTAAGACCTTGTTTGGGACAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATTTGTGATTACA
*
11329527 TGTAAGACCACGTCTGGGACGTTAGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
11329555 TGTACGAGCC
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 28 0.31
42 10 0.11
43 53 0.58
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTACA
Found at i:11341511 original size:41 final size:41
Alignment explanation
Indices: 11341454--11341650 Score: 360
Period size: 41 Copynumber: 4.8 Consensus size: 41
11341444 GAATGTAATA
* *
11341454 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
11341495 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
11341536 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
11341577 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
11341618 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
11341651 TACTGAATCA
Statistics
Matches: 153, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
40 3 0.02
41 150 0.98
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:11341675 original size:82 final size:82
Alignment explanation
Indices: 11341454--11341692 Score: 322
Period size: 82 Copynumber: 2.9 Consensus size: 82
11341444 GAATGTAATA
* * * * *
11341454 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATATCAGACTATAAGCCTAGCAGGCTTA
11341519 ATGCCGGTGATACATTT
66 ATGCCGGTGATACATTT
* * *
11341536 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATATCAGACTATAAGCCTAGCAGGCTTA
11341601 ATGCCGGTGATACATTT
66 ATGCCGGTGATACATTT
* *
11341618 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAATCAGGCTTTAAGCCTAGCAGGC
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTGATACAT--ATCAGACTATAAGCCTAGCAGGC
**
11341680 AAAATGCCGGTGA
63 TTAATGCCGGTGA
11341693 ATCTGTTTAA
Statistics
Matches: 145, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
80 1 0.01
81 6 0.04
82 138 0.95
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (82 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATATCAGACTATAAGCCTAGCAGGCTTA
ATGCCGGTGATACATTT
Found at i:11341675 original size:123 final size:123
Alignment explanation
Indices: 11341454--11341692 Score: 349
Period size: 123 Copynumber: 1.9 Consensus size: 123
11341444 GAATGTAATA
*
11341454 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTATAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
* * * **
11341519 ATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
66 ATGCCGGTGATACATATCAGACTATAAGCCTAGCAGGCAAAATGCCGGTGATACATTT
*
11341577 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TA
1 CAGACTATAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
* *
11341641 AGTGCCGGTG-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
66 A-TGCCGGTGATACAT--ATCAGACTATAAGCCTAGCAGGCAAAATGCCGGTGA
11341693 ATCTGTTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
121 1 0.01
122 6 0.06
123 97 0.93
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (123 bp):
CAGACTATAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
ATGCCGGTGATACATATCAGACTATAAGCCTAGCAGGCAAAATGCCGGTGATACATTT
Found at i:11344185 original size:27 final size:27
Alignment explanation
Indices: 11344155--11344355 Score: 242
Period size: 27 Copynumber: 7.4 Consensus size: 27
11344145 TGAGTCCGCT
* * * *
11344155 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
11344182 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
11344209 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
11344237 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
11344264 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
* *
11344291 CACTTAGTGCAACATAGTCAAATTGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
11344318 CACTTAGTGCTACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
11344345 CACTTAGTGCT
1 CACTTAGTGCT
11344356 GTACAATTTA
Statistics
Matches: 151, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
27 127 0.84
28 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:11345587 original size:14 final size:14
Alignment explanation
Indices: 11345568--11345594 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11345558 GATGAGTAAA
11345568 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
11345582 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
11345595 CTAATTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:11350063 original size:19 final size:20
Alignment explanation
Indices: 11350020--11350062 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11350010 TCTACTCCTA
*
11350020 TTTTTACACGTTTCTTTGTG
1 TTTTTACACGTTTCTTTATG
*
11350040 TTTTTCCAC-TTTCTTTAT-
1 TTTTTACACGTTTCTTTATG
11350058 TTTTT
1 TTTTT
11350063 TTCCTTTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.09, C:0.16, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTTACACGTTTCTTTATG
Found at i:11363418 original size:22 final size:23
Alignment explanation
Indices: 11363390--11363433 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
11363380 ATTAATAATT
11363390 ATGTAT-ATATATTAATTACAAA
1 ATGTATAATATATTAATTACAAA
*
11363412 ATGTATACATATATTTATTACA
1 ATGTATA-ATATATTAATTACA
11363434 CATGTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
24 13 0.68
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (23 bp):
ATGTATAATATATTAATTACAAA
Found at i:11370359 original size:27 final size:28
Alignment explanation
Indices: 11370325--11370389 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
11370315 ATAAAAAATA
11370325 ACCAAAATATTAT-AACTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
*
11370352 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
*
11370380 GCCAAAATAT
1 ACCAAAATAT
11370390 ACCAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAACTTTTTTTATTT
Found at i:11370712 original size:27 final size:28
Alignment explanation
Indices: 11370678--11370742 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
11370668 ATAAAAAATA
11370678 ACCAAAATATTAT-AACTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
*
11370705 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
*
11370733 GCCAAAATAT
1 ACCAAAATAT
11370743 ACCAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAACTTTTTTTATTT
Found at i:11371411 original size:18 final size:19
Alignment explanation
Indices: 11371382--11371440 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
11371372 TCTAATTAAG
*
11371382 TAATAACTCTATTTTAATT
1 TAATAAATCTATTTTAATT
* *
11371401 TAATAAA-CTATTCTCATT
1 TAATAAATCTATTTTAATT
11371419 TAATAAATCTATTTTAATT
1 TAATAAATCTATTTTAATT
11371438 TAA
1 TAA
11371441 AATATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 16 0.47
19 18 0.53
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAAATCTATTTTAATT
Found at i:11371712 original size:19 final size:18
Alignment explanation
Indices: 11371655--11371719 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 18
11371645 TTTAATTTTT
11371655 TTAATTAAAATAGAGTTA
1 TTAATTAAAATAGAGTTA
* *
11371673 TTAAATAAGAATAG-TTTA
1 TTAATTAA-AATAGAGTTA
11371691 TTACATTAAAATAGAGTTA
1 TTA-ATTAAAATAGAGTTA
11371710 TTAAATTAAA
1 TT-AATTAAA
11371720 CTATTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 18 0.46
19 20 0.51
20 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (18 bp):
TTAATTAAAATAGAGTTA
Found at i:11372112 original size:27 final size:27
Alignment explanation
Indices: 11372027--11372103 Score: 145
Period size: 27 Copynumber: 2.9 Consensus size: 27
11372017 TTTTAGTCCT
11372027 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
11372054 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
*
11372081 TTGGCACCTTTGGTGCCGCCAAT
1 TTGGCACCATTGGTGCCGCCAAT
11372104 GTGATTGGCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCACA
Found at i:11378773 original size:20 final size:18
Alignment explanation
Indices: 11378718--11378773 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
11378708 AGATCACTTC
11378718 AAATTATAAAAATT-TTA
1 AAATTATAAAAATTATTA
*
11378735 TAAAATATAAAAA-TATTA
1 -AAATTATAAAAATTATTA
11378753 AATATTATAAAACATTATTA
1 AA-ATTATAAAA-ATTATTA
11378773 A
1 A
11378774 CACACTACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 3 0.09
18 22 0.69
19 1 0.03
20 6 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTATAAAAATTATTA
Found at i:11379300 original size:86 final size:87
Alignment explanation
Indices: 11379127--11379351 Score: 221
Period size: 86 Copynumber: 2.6 Consensus size: 87
11379117 AAACTGTGCA
* * * * * * * *
11379127 AATAAATTCTGAAACAGA-ATTATTTT-A-TTAAGTCTTCA-TTTGGAAACAAATTA-AAATCGA
1 AATAAATCCCGAAACAGATTTTATTTTAATTTAAATATTCATTTTGGAAATAAAATAGAAA-AGA
* *
11379187 ATAAAATATTGCTGATCGGCAAG
65 ATAAAATATCGCTGAACGGCAAG
* * * *
11379210 AATAAATCTCTAAACAGATTTTA-TTTAATTTCAATTTCTCATTTTGGAAATAAAATAGAAAAGA
1 AATAAATCCCGAAACAGATTTTATTTTAATTTAAATAT-TCATTTTGGAAATAAAATAGAAAAGA
* *
11379274 ATAAAAT-TCGTTGAACGGCAGG
65 ATAAAATATCGCTGAACGGCAAG
* *
11379296 AATAAGTCCCGAAACAGATTTTATTTTAATTTAAATATTCGTTTTGGAAATAAAAT
1 AATAAATCCCGAAACAGATTTTATTTTAATTTAAATATTCATTTTGGAAATAAAAT
11379352 TCATTGAACG
Statistics
Matches: 114, Mismatches: 21, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
83 17 0.15
84 4 0.04
85 5 0.04
86 51 0.45
87 34 0.30
88 3 0.03
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (87 bp):
AATAAATCCCGAAACAGATTTTATTTTAATTTAAATATTCATTTTGGAAATAAAATAGAAAAGAA
TAAAATATCGCTGAACGGCAAG
Found at i:11379747 original size:18 final size:18
Alignment explanation
Indices: 11379708--11379756 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
11379698 AGAAAATAAG
*
11379708 TATAAAAATTTTATAAAA
1 TATAAAAATATTATAAAA
*
11379726 TATAAAAATATTA-AATA
1 TATAAAAATATTATAAAA
11379743 T-TATAAAATATTAT
1 TATA-AAAATATTAT
11379757 TAACACATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 2 0.07
17 13 0.48
18 12 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAAAATATTATAAAA
Found at i:11396042 original size:23 final size:23
Alignment explanation
Indices: 11395994--11396042 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11395984 TATAACGAGG
* *
11395994 AAAAATATAATTATTTTATAGAA
1 AAAAATATAATTATTTAAAAGAA
*
11396017 AAAAATGTAATTATTTAAAATGAA
1 AAAAATATAATTATTTAAAA-GAA
11396041 AA
1 AA
11396043 TTTTACACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (23 bp):
AAAAATATAATTATTTAAAAGAA
Found at i:11398045 original size:61 final size:61
Alignment explanation
Indices: 11397945--11398132 Score: 164
Period size: 61 Copynumber: 3.1 Consensus size: 61
11397935 AAATAAATGC
* * * * * *
11397945 GATGATAAAGAGTGTTTAGGGTTTAATAATTGT-GAGGTTTAGGGTTTGGTTTTAAGGATAAG
1 GATGATAAAAAG-GTTTAAGGCTTAATGATT-TAGAGGTTTAGGGTTTGATTTTAAGGTTAAG
* * * * * *
11398007 GATGATAAAAAGGTTTATGGCTTAATGGTTTA-AGGGTTTAAGGATTGATTTTAGGGTTAAA
1 GATGATAAAAAGGTTTAAGGCTTAATGATTTAGA-GGTTTAGGGTTTGATTTTAAGGTTAAG
* * * * * * *
11398068 GATTATAATATGGTTTAAGGTTTAATGATTTGGAGGTTTAGAGTTTGATTTCAAGGTTAAG
1 GATGATAAAAAGGTTTAAGGCTTAATGATTTAGAGGTTTAGGGTTTGATTTTAAGGTTAAG
11398129 GATG
1 GATG
11398133 GTATGTAACA
Statistics
Matches: 98, Mismatches: 25, Indels: 7
0.75 0.19 0.05
Matches are distributed among these distances:
60 2 0.02
61 84 0.86
62 12 0.12
ACGTcount: A:0.30, C:0.01, G:0.29, T:0.39
Consensus pattern (61 bp):
GATGATAAAAAGGTTTAAGGCTTAATGATTTAGAGGTTTAGGGTTTGATTTTAAGGTTAAG
Found at i:11404001 original size:17 final size:18
Alignment explanation
Indices: 11403961--11404002 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
11403951 CTGGTGACAC
11403961 CATACTTAGTAAAGGATTT
1 CATA-TTAGTAAAGGATTT
* *
11403980 AATATTAGTAGA-GATTT
1 CATATTAGTAAAGGATTT
11403997 CATATT
1 CATATT
11404003 TTAAATTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 10 0.50
18 7 0.35
19 3 0.15
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (18 bp):
CATATTAGTAAAGGATTT
Found at i:11407592 original size:10 final size:9
Alignment explanation
Indices: 11407542--11407595 Score: 54
Period size: 10 Copynumber: 5.6 Consensus size: 9
11407532 AACTTTATAG
11407542 AATATTTTT
1 AATATTTTT
*
11407551 GAATTTTTTT
1 -AATATTTTT
11407561 ACATATTTTT
1 A-ATATTTTT
*
11407571 ATTAATTTTT
1 AAT-ATTTTT
11407581 AATATTTATT
1 AATATTT-TT
11407591 AATAT
1 AATAT
11407596 GACATGTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 6 0.16
10 31 0.84
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:11407776 original size:15 final size:15
Alignment explanation
Indices: 11407749--11407785 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11407739 ATAATAAATA
11407749 AATAAAAATTAATTT
1 AATAAAAATTAATTT
11407764 AACTAAAAA-TAATTT
1 AA-TAAAAATTAATTT
11407779 AATAAAA
1 AATAAAA
11407786 TATATAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAAAATTAATTT
Found at i:11411657 original size:15 final size:15
Alignment explanation
Indices: 11411617--11411660 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11411607 AACTAAATAC
* *
11411617 TAAAAAAATATGTAT
1 TAAAAAATTAAGTAT
11411632 TAAAAAATTAAGTAT
1 TAAAAAATTAAGTAT
* *
11411647 TGAAAATTTAAGTA
1 TAAAAAATTAAGTA
11411661 CCAAATGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
TAAAAAATTAAGTAT
Found at i:11411779 original size:14 final size:15
Alignment explanation
Indices: 11411745--11411774 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11411735 ATATAATTTT
*
11411745 AAAATTTTTAAAAGA
1 AAAATCTTTAAAAGA
11411760 AAAATCTTTAAAAGA
1 AAAATCTTTAAAAGA
11411775 TAATCATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAATCTTTAAAAGA
Found at i:11412567 original size:22 final size:20
Alignment explanation
Indices: 11412514--11412553 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11412504 ATCAAATTTT
**
11412514 ATATATAATTTCTAAAAAAA
1 ATATATAAAATCTAAAAAAA
11412534 ATATATAAAATCTAAAAAAA
1 ATATATAAAATCTAAAAAAA
11412554 TTATGTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
ATATATAAAATCTAAAAAAA
Found at i:11415725 original size:25 final size:25
Alignment explanation
Indices: 11415685--11415760 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
11415675 AAACAAACGA
* * *
11415685 TATACAGAATATGCCATAAGGC-CT
1 TATATAGAATACGCCATAAGGCAAT
*
11415709 TATTATAGAATACGCCACAAAGGCAAT
1 TA-TATAGAATACGCCA-TAAGGCAAT
*
11415736 TATATAGAATTCGCCATAAGGCAAT
1 TATATAGAATACGCCATAAGGCAAT
11415761 CCATTCAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.05
25 20 0.47
26 18 0.42
27 3 0.07
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (25 bp):
TATATAGAATACGCCATAAGGCAAT
Found at i:11415741 original size:26 final size:27
Alignment explanation
Indices: 11415712--11415791 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
11415702 AAGGCCTTAT
*
11415712 TATAGAATACGCCACAAAGGCAAT-TA
1 TATAGAATACGCCACAAAGGCAATCCA
* *
11415738 TATAGAATTCGCCA-TAAGGCAATCCA
1 TATAGAATACGCCACAAAGGCAATCCA
* *
11415764 T-TCAGAGTATGCCACAAAGGCAATCCA
1 TAT-AGAATACGCCACAAAGGCAATCCA
11415791 T
1 T
11415792 TCAAAGTACA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 9 0.20
26 23 0.52
27 12 0.27
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (27 bp):
TATAGAATACGCCACAAAGGCAATCCA
Found at i:11415809 original size:27 final size:27
Alignment explanation
Indices: 11415749--11415811 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
11415739 ATAGAATTCG
* **
11415749 CCAT-AAGGCAATCCATTCAGAGTATG
1 CCATAAAGGCAATCCATTCAAAGTACA
*
11415775 CCACAAAGGCAATCCATTCAAAGTACA
1 CCATAAAGGCAATCCATTCAAAGTACA
11415802 CCATAAAGGC
1 CCATAAAGGC
11415812 TCACATGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.17
Consensus pattern (27 bp):
CCATAAAGGCAATCCATTCAAAGTACA
Found at i:11420594 original size:819 final size:819
Alignment explanation
Indices: 11419018--11420660 Score: 3277
Period size: 819 Copynumber: 2.0 Consensus size: 819
11419008 TTGATGGGTG
11419018 ATGGATGATTACTGAGTTAGCTTTGAGTCTTGAAATAAATCTTTATGTCAAATTGTGAACTTGAG
1 ATGGATGATTACTGAGTTAGCTTTGAGTCTTGAAATAAATCTTTATGTCAAATTGTGAACTTGAG
11419083 TTTAGCTGATATTACTATCGATCTGGTCCTAAATAGCATACCATGAAATTAATAAGATTCAAGCT
66 TTTAGCTGATATTACTATCGATCTGGTCCTAAATAGCATACCATGAAATTAATAAGATTCAAGCT
11419148 TGTGTAAAATAAAAAAATGATGGATTGTGATTAATCTGGCCTTTGATCCAAGAGAATGAGAATGT
131 TGTGTAAAATAAAAAAATGATGGATTGTGATTAATCTGGCCTTTGATCCAAGAGAATGAGAATGT
11419213 GTCCAGGTTGTGGATATGAACATTGGGAAATTTCTGCAGCTGGCAGCTCTATATATTTGATCAAA
196 GTCCAGGTTGTGGATATGAACATTGGGAAATTTCTGCAGCTGGCAGCTCTATATATTTGATCAAA
11419278 GTTAACATCTCCGTGTTATGCTTTGTTTACTCTCTCTTGAAACCTTAGATTCAGGTATTAACAGT
261 GTTAACATCTCCGTGTTATGCTTTGTTTACTCTCTCTTGAAACCTTAGATTCAGGTATTAACAGT
11419343 GGAAAAGACTGGAATGTGTATTAGATTCTCATATTGGTTCTGAAAAATTATACCTGCGACTACTG
326 GGAAAAGACTGGAATGTGTATTAGATTCTCATATTGGTTCTGAAAAATTATACCTGCGACTACTG
11419408 ATTCACAGGCAGATGCAAATGTTTCTGTCCTCTGGATGTTCAAATAATAGGCTTCCAACTTTTTG
391 ATTCACAGGCAGATGCAAATGTTTCTGTCCTCTGGATGTTCAAATAATAGGCTTCCAACTTTTTG
*
11419473 ACTTCTTTACTTATTCCAACTTTGTTAAGTTCTCTATCATACTACTTTGAGCTGACTAGTTGTTT
456 ACATCTTTACTTATTCCAACTTTGTTAAGTTCTCTATCATACTACTTTGAGCTGACTAGTTGTTT
11419538 CGGTTTTCTTTTGTTCCCTTGAAAAATCTGGGAAGTTACACATTGTATCTCTAGCATTAAAATAG
521 CGGTTTTCTTTTGTTCCCTTGAAAAATCTGGGAAGTTACACATTGTATCTCTAGCATTAAAATAG
11419603 AACACAGTTAAATTTCTTTGACCTCATTTGCTGCCATATAAGATCGTAGGTTTCCGGCCTTGGAC
586 AACACAGTTAAATTTCTTTGACCTCATTTGCTGCCATATAAGATCGTAGGTTTCCGGCCTTGGAC
11419668 TTTGTAATATGATTTTGATGAAGTAATTGTATGCTCATTTTGAAAACAATGGCCTTTCTAATTAA
651 TTTGTAATATGATTTTGATGAAGTAATTGTATGCTCATTTTGAAAACAATGGCCTTTCTAATTAA
11419733 ATCAACTGGGAAAGTAGTGATGATTTACATATTCTCTTCATCTTTGCAGGTCTGGGCAGCCGGTT
716 ATCAACTGGGAAAGTAGTGATGATTTACATATTCTCTTCATCTTTGCAGGTCTGGGCAGCCGGTT
11419798 TTGCTGCTGCTATACTGAAGAAACAGAGCTCTTTAGTAA
781 TTGCTGCTGCTATACTGAAGAAACAGAGCTCTTTAGTAA
11419837 ATGGATGATTACTGAGTTAGCTTTGAGTCTTGAAATAAATCTTTATGTCAAATTGTGAACTTGAG
1 ATGGATGATTACTGAGTTAGCTTTGAGTCTTGAAATAAATCTTTATGTCAAATTGTGAACTTGAG
11419902 TTTAGCTGATATTACTATCGATCTGGTCCTAAATAGCATACCATGAAATTAATAAGATTCAAGCT
66 TTTAGCTGATATTACTATCGATCTGGTCCTAAATAGCATACCATGAAATTAATAAGATTCAAGCT
11419967 TGTGTAAAATAAAAAAATGATGGATTGTGATTAATCTGGCCTTTGATCCAAGAGAATGAGAATGT
131 TGTGTAAAATAAAAAAATGATGGATTGTGATTAATCTGGCCTTTGATCCAAGAGAATGAGAATGT
11420032 GTCCAGGTTGTGGATATGAACATTGGGAAATTTCTGCAGCTGGCAGCTCTATATATTTGATCAAA
196 GTCCAGGTTGTGGATATGAACATTGGGAAATTTCTGCAGCTGGCAGCTCTATATATTTGATCAAA
11420097 GTTAACATCTCCGTGTTATGCTTTGTTTACTCTCTCTTGAAACCTTAGATTCAGGTATTAACAGT
261 GTTAACATCTCCGTGTTATGCTTTGTTTACTCTCTCTTGAAACCTTAGATTCAGGTATTAACAGT
11420162 GGAAAAGACTGGAATGTGTATTAGATTCTCATATTGGTTCTGAAAAATTATACCTGCGACTACTG
326 GGAAAAGACTGGAATGTGTATTAGATTCTCATATTGGTTCTGAAAAATTATACCTGCGACTACTG
11420227 ATTCACAGGCAGATGCAAATGTTTCTGTCCTCTGGATGTTCAAATAATAGGCTTCCAACTTTTTG
391 ATTCACAGGCAGATGCAAATGTTTCTGTCCTCTGGATGTTCAAATAATAGGCTTCCAACTTTTTG
11420292 ACATCTTTACTTATTCCAACTTTGTTAAGTTCTCTATCATACTACTTTGAGCTGACTAGTTGTTT
456 ACATCTTTACTTATTCCAACTTTGTTAAGTTCTCTATCATACTACTTTGAGCTGACTAGTTGTTT
11420357 CGGTTTTCTTTTGTTCCCTTGAAAAATCTGGGAAGTTACACATTGTATCTCTAGCATTAAAATAG
521 CGGTTTTCTTTTGTTCCCTTGAAAAATCTGGGAAGTTACACATTGTATCTCTAGCATTAAAATAG
11420422 AACACAGTTAAATTTCTTTGACCTCATTTGCTGCCATATAAGATCGTAGGTTTCCGGCCTTGGAC
586 AACACAGTTAAATTTCTTTGACCTCATTTGCTGCCATATAAGATCGTAGGTTTCCGGCCTTGGAC
11420487 TTTGTAATATGATTTTGATGAAGTAATTGTATGCTCATTTTGAAAACAATGGCCTTTCTAATTAA
651 TTTGTAATATGATTTTGATGAAGTAATTGTATGCTCATTTTGAAAACAATGGCCTTTCTAATTAA
11420552 ATCAACTGGGAAAGTAGTGATGATTTACATATTCTCTTCATCTTTGCAGGTCTGGGCAGCCGGTT
716 ATCAACTGGGAAAGTAGTGATGATTTACATATTCTCTTCATCTTTGCAGGTCTGGGCAGCCGGTT
11420617 TTGCTGCTGCTATACTGAAGAAACAGAGCTCTTTAGTAA
781 TTGCTGCTGCTATACTGAAGAAACAGAGCTCTTTAGTAA
11420656 ATGGA
1 ATGGA
11420661 CTAGAAAGTG
Statistics
Matches: 823, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
819 823 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (819 bp):
ATGGATGATTACTGAGTTAGCTTTGAGTCTTGAAATAAATCTTTATGTCAAATTGTGAACTTGAG
TTTAGCTGATATTACTATCGATCTGGTCCTAAATAGCATACCATGAAATTAATAAGATTCAAGCT
TGTGTAAAATAAAAAAATGATGGATTGTGATTAATCTGGCCTTTGATCCAAGAGAATGAGAATGT
GTCCAGGTTGTGGATATGAACATTGGGAAATTTCTGCAGCTGGCAGCTCTATATATTTGATCAAA
GTTAACATCTCCGTGTTATGCTTTGTTTACTCTCTCTTGAAACCTTAGATTCAGGTATTAACAGT
GGAAAAGACTGGAATGTGTATTAGATTCTCATATTGGTTCTGAAAAATTATACCTGCGACTACTG
ATTCACAGGCAGATGCAAATGTTTCTGTCCTCTGGATGTTCAAATAATAGGCTTCCAACTTTTTG
ACATCTTTACTTATTCCAACTTTGTTAAGTTCTCTATCATACTACTTTGAGCTGACTAGTTGTTT
CGGTTTTCTTTTGTTCCCTTGAAAAATCTGGGAAGTTACACATTGTATCTCTAGCATTAAAATAG
AACACAGTTAAATTTCTTTGACCTCATTTGCTGCCATATAAGATCGTAGGTTTCCGGCCTTGGAC
TTTGTAATATGATTTTGATGAAGTAATTGTATGCTCATTTTGAAAACAATGGCCTTTCTAATTAA
ATCAACTGGGAAAGTAGTGATGATTTACATATTCTCTTCATCTTTGCAGGTCTGGGCAGCCGGTT
TTGCTGCTGCTATACTGAAGAAACAGAGCTCTTTAGTAA
Found at i:11425945 original size:25 final size:25
Alignment explanation
Indices: 11425912--11425976 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
11425902 AAAGGACATT
11425912 AAATTAAAATAAATATATATAATAA
1 AAATTAAAATAAATATATATAATAA
* *
11425937 AAATTAAAA-AATATATGTATATTAA
1 AAATTAAAATAA-ATATATATAATAA
11425962 ATAA-TAAATATAAAT
1 A-AATTAAA-ATAAAT
11425977 TAAATTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 2 0.06
25 25 0.74
26 5 0.15
27 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
AAATTAAAATAAATATATATAATAA
Found at i:11425978 original size:18 final size:18
Alignment explanation
Indices: 11425911--11425981 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
11425901 TAAAGGACAT
*
11425911 TAAAT-TAAAATAAATATA
1 TAAATATAAATTAAATA-A
* *
11425929 TATAATAAAAATTAAAAAA
1 TA-AATATAAATTAAATAA
* * *
11425948 TATATGTATATTAAATAA
1 TAAATATAAATTAAATAA
11425966 TAAATATAAATTAAAT
1 TAAATATAAATTAAAT
11425982 TTATATCAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
18 26 0.65
19 6 0.15
20 8 0.20
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (18 bp):
TAAATATAAATTAAATAA
Found at i:11430054 original size:3 final size:3
Alignment explanation
Indices: 11430048--11430079 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11430038 TTATTATTAT
11430048 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
11430080 TTTTTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:11430167 original size:24 final size:23
Alignment explanation
Indices: 11430118--11430204 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 23
11430108 TTTCCTAACC
*
11430118 TTTTTATATACGT-TTATTTTATT
1 TTTTTATATA-GTATTATTTGATT
*
11430141 TTTTTATATAGTATTATTTGGTGT
1 TTTTTATATAGTATTATTTGAT-T
** * *
11430165 TTTCCATATATTATTATTTAATT
1 TTTTTATATAGTATTATTTGATT
*
11430188 TTTGTA-ATA-TATTATTT
1 TTTTTATATAGTATTATTT
11430205 TATAGATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
21 8 0.15
22 5 0.09
23 22 0.42
24 18 0.34
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.64
Consensus pattern (23 bp):
TTTTTATATAGTATTATTTGATT
Found at i:11430522 original size:18 final size:20
Alignment explanation
Indices: 11430499--11430538 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
11430489 CCCCTTTTAC
11430499 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
11430517 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
11430537 AT
1 AT
11430539 TTCATTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:11434456 original size:25 final size:25
Alignment explanation
Indices: 11434428--11434528 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 25
11434418 AATGTGTTAT
* *
11434428 AATATACGCCACAAAGACGTTATAG
1 AATATACGCCACAAAGGCGTTACAG
*
11434453 AATACAC-CACACAAAGGCGTTAC--
1 AATATACGC-CACAAAGGCGTTACAG
*
11434476 AATATACGCCACAAAGGTGTTACA-
1 AATATACGCCACAAAGGCGTTACAG
*
11434500 AA-ATACGTCACAAAGGCGTTACAG
1 AATATACGCCACAAAGGCGTTACAG
11434524 AATAT
1 AATAT
11434529 GACACAAAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
23 38 0.59
24 6 0.09
25 20 0.31
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (25 bp):
AATATACGCCACAAAGGCGTTACAG
Found at i:11434505 original size:48 final size:46
Alignment explanation
Indices: 11434423--11434539 Score: 119
Period size: 46 Copynumber: 2.5 Consensus size: 46
11434413 ACGCAAATGT
* ** * *
11434423 GTTATAATATACGCCACAAAGACGTTATAGAATACACCACACAAAGGC
1 GTTACAATATACGCCACAAAGGTGTTACA-AA-ATACCACACAAAGGC
**
11434471 GTTACAATATACGCCACAAAGGTGTTACAAAATACGTCACAAAGGC
1 GTTACAATATACGCCACAAAGGTGTTACAAAATACCACACAAAGGC
* *
11434517 GTTACAGA-ATATGACACAAAGGT
1 GTTACA-ATATACGCCACAAAGGT
11434540 TTCATAGAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 31 0.53
47 3 0.05
48 25 0.42
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.20
Consensus pattern (46 bp):
GTTACAATATACGCCACAAAGGTGTTACAAAATACCACACAAAGGC
Found at i:11434527 original size:23 final size:22
Alignment explanation
Indices: 11434461--11434538 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 22
11434451 AGAATACACC
11434461 ACACAAAGGCGTTACAATATACG
1 ACACAAAGGCGTTACAA-ATACG
* *
11434484 CCACAAAGGTGTTACAAAATACG
1 ACACAAAGGCGTTAC-AAATACG
* *
11434507 TCACAAAGGCGTTACAGAATATG
1 ACACAAAGGCGTTACA-AATACG
11434530 ACACAAAGG
1 ACACAAAGG
11434539 TTTCATAGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.02
23 44 0.94
24 2 0.04
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (22 bp):
ACACAAAGGCGTTACAAATACG
Found at i:11436160 original size:151 final size:153
Alignment explanation
Indices: 11435879--11436185 Score: 431
Period size: 151 Copynumber: 2.0 Consensus size: 153
11435869 CCTTAGATAC
* ** *
11435879 TTCTACAGCGGATACTTTACGCCAAACCTTAGTTCATTAGAAGTATGTAATTTGGCAGACTATGC
1 TTCTACAGCGGATACTTTACGCCAAACCTTAGCTCACCAGAAGTATGTAATTTGGCAGACTATGA
* * *
11435944 TACTATAGTACGCCAAACAGATAACTTTACATCTACACGCATTCTTCTCGATCCGTTAAAGTTGG
66 TACTATAGTACGCCAAACAAATAACTTCACATCTACACGCATTCTTCTCGATCCGCTAAAGTTGG
11436009 GGTGTGACAAATTCACTATCATA
131 GGTGTGACAAATTCACTATCATA
* ** *
11436032 TTCTACAGCGGATACTTTACGTCAAATTTTAGCT-AGCCAGAAGTTTGTAATTT-GCAGACTATG
1 TTCTACAGCGGATACTTTACGCCAAACCTTAGCTCA-CCAGAAGTATGTAATTTGGCAGACTATG
* * * * * *
11436095 ATACTATAGTGCG-CAAACAAATAACTTCATATCTACAGGCGTTCTTTTCGATCCGCTAAATTTG
65 ATACTATAGTACGCCAAACAAATAACTTCACATCTACACGCATTCTTCTCGATCCGCTAAAGTTG
11436159 GGGTGTGACAAATTCACTATCATA
130 GGGTGTGACAAATTCACTATCATA
11436183 TTC
1 TTC
11436186 ATATAATTCC
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
151 70 0.51
152 22 0.16
153 44 0.32
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (153 bp):
TTCTACAGCGGATACTTTACGCCAAACCTTAGCTCACCAGAAGTATGTAATTTGGCAGACTATGA
TACTATAGTACGCCAAACAAATAACTTCACATCTACACGCATTCTTCTCGATCCGCTAAAGTTGG
GGTGTGACAAATTCACTATCATA
Found at i:11444748 original size:25 final size:25
Alignment explanation
Indices: 11444720--11444771 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
11444710 AGTTAGGAAG
11444720 TAAAATAAAAATAAAAACATATGTA
1 TAAAATAAAAATAAAAACATATGTA
* * * *
11444745 TAAAATATATATATAAGCATATGTA
1 TAAAATAAAAATAAAAACATATGTA
11444770 TA
1 TA
11444772 CTATATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (25 bp):
TAAAATAAAAATAAAAACATATGTA
Found at i:11444789 original size:23 final size:22
Alignment explanation
Indices: 11444733--11444794 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
11444723 AATAAAAATA
11444733 AAAACATATGTATAAAATATATAT
1 AAAACATATGTAT--AATATATAT
* *
11444757 ATAAGCATATGTATACTATATAT
1 A-AAACATATGTATAATATATAT
*
11444780 AAAACAATATATATA
1 AAAAC-ATATGTATA
11444795 TTACATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 3 0.09
23 17 0.53
24 1 0.03
25 11 0.34
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (22 bp):
AAAACATATGTATAATATATAT
Found at i:11444834 original size:3 final size:3
Alignment explanation
Indices: 11444821--11444856 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
11444811 CATGCGCATG
11444821 AAT AA- AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
11444857 GATACAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11444846 original size:16 final size:16
Alignment explanation
Indices: 11444825--11444856 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11444815 CGCATGAATA
11444825 AAATAATAATAATAAT
1 AAATAATAATAATAAT
11444841 AAATAATAATAATAAT
1 AAATAATAATAATAAT
11444857 GATACAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:11445360 original size:19 final size:19
Alignment explanation
Indices: 11445336--11445389 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
11445326 AATCATAACT
11445336 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11445355 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
11445374 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
11445390 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11445385 original size:38 final size:41
Alignment explanation
Indices: 11445313--11445389 Score: 115
Period size: 38 Copynumber: 1.9 Consensus size: 41
11445303 AAATTAAATC
11445313 TCTAAGATTACAAAATCATAACTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATAAC-TCTAAGATTGCATATCATA
*
11445355 TCTAAGATTAC-ATATCAT-A-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATAACTCTAAGATTGCATATC
11445390 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
40 1 0.03
41 6 0.18
42 11 0.32
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (41 bp):
TCTAAGATTACAAAATCATAACTCTAAGATTGCATATCATA
Found at i:11457748 original size:29 final size:29
Alignment explanation
Indices: 11457680--11457748 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
11457670 TGGAAGACTT
11457680 ATTGATTTTT-TTATTTTACAAGGATTTA
1 ATTGATTTTTATTATTTTACAAGGATTTA
* *
11457708 ATT-ATTTTT-TTATTTTTTACGAGGGTTTA
1 ATTGATTTTTATTA--TTTTACAAGGATTTA
11457737 ATTGATTATTTA
1 ATTGATT-TTTA
11457749 AGTACAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.26
28 3 0.09
29 16 0.47
30 3 0.09
31 3 0.09
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (29 bp):
ATTGATTTTTATTATTTTACAAGGATTTA
Found at i:11459316 original size:17 final size:17
Alignment explanation
Indices: 11459277--11459308 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11459267 ATTTTTATTT
11459277 AAAT-TTAATTATAAAA
1 AAATATTAATTATAAAA
11459293 AAATATTAA-TATAAAA
1 AAATATTAATTATAAAA
11459309 TTAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATTAATTATAAAA
Found at i:11465048 original size:17 final size:17
Alignment explanation
Indices: 11465026--11465060 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11465016 GAATGGTCTC
*
11465026 TGTTTCATTTCTTCTTT
1 TGTTTCATTTATTCTTT
*
11465043 TGTTTCTTTTATTCTTT
1 TGTTTCATTTATTCTTT
11465060 T
1 T
11465061 ATTTTATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCATTTATTCTTT
Found at i:11465298 original size:28 final size:28
Alignment explanation
Indices: 11465252--11465313 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
11465242 TTTCCTATAA
*
11465252 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAAC-TTAAATAATAT-ATT
* *
11465282 TATAATATTTTAA-TTAAATAATATTTT
1 TATAATATCTTAACTTAAATAATATATT
11465309 TATAA
1 TATAA
11465314 GAAAAATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 10 0.34
30 12 0.41
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
TATAATATCTTAACTTAAATAATATATT
Found at i:11468056 original size:12 final size:11
Alignment explanation
Indices: 11468041--11468111 Score: 60
Period size: 11 Copynumber: 6.6 Consensus size: 11
11468031 AAAAAATTAA
11468041 AAAAAGTATTTT
1 AAAAA-TATTTT
11468053 AAAAATATTTT
1 AAAAATATTTT
*
11468064 --AAA-A-TTA
1 AAAAATATTTT
* **
11468071 AAAAATAATAA
1 AAAAATATTTT
11468082 AAAAAGTATTTT
1 AAAAA-TATTTT
11468094 AAAAATATTTT
1 AAAAATATTTT
11468105 AAAAATA
1 AAAAATA
11468112 AAAAAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.12
10 1 0.02
11 26 0.53
12 13 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11468072 original size:41 final size:42
Alignment explanation
Indices: 11468027--11468128 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 42
11468017 TACCAATTTT
11468027 TTAAAAAAAATTAAAAAAAGTATTTTAAAAATATTTT-AAAA
1 TTAAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
11468068 TTAAAAAATAA-TAAAAAAAGTATTTTAAAAATATTTTAAAAA
1 TTAAAAAA-AATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
* *
11468110 TAAAAAAAAATTTAAAAAA
1 TTAAAAAAAATTAAAAAAA
11468129 TAAATATATT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
41 36 0.64
42 20 0.36
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (42 bp):
TTAAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
Found at i:11468122 original size:19 final size:19
Alignment explanation
Indices: 11468094--11468132 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11468084 AAAGTATTTT
* *
11468094 AAAAATATTTTAAAAATAA
1 AAAAAAATTTAAAAAATAA
11468113 AAAAAAATTTAAAAAATAA
1 AAAAAAATTTAAAAAATAA
11468132 A
1 A
11468133 TATATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAAATTTAAAAAATAA
Found at i:11469303 original size:22 final size:22
Alignment explanation
Indices: 11469285--11469332 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
11469275 TATAATAGTG
11469285 AAATGACAACAAAGCAATAGCA
1 AAATGACAACAAAGCAATAGCA
* * * *
11469307 AAATGATAGCAAAGCAACAACA
1 AAATGACAACAAAGCAATAGCA
11469329 AAAT
1 AAAT
11469333 AACTGATTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.10
Consensus pattern (22 bp):
AAATGACAACAAAGCAATAGCA
Found at i:11470199 original size:14 final size:14
Alignment explanation
Indices: 11470171--11470208 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
11470161 ATTTGTTTCA
*
11470171 CTGAAAAA-GACTT
1 CTGAAAAATGATTT
*
11470184 CTGGAAAATGATTT
1 CTGAAAAATGATTT
11470198 CTGAAAAATGA
1 CTGAAAAATGA
11470209 CTTACTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (14 bp):
CTGAAAAATGATTT
Found at i:11474956 original size:4 final size:4
Alignment explanation
Indices: 11474914--11474949 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
11474904 AATTGTATAG
*
11474914 AAAT AACAT AAAT AAAT AAAT AAAT AAAC AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
11474950 AATAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:11475217 original size:14 final size:13
Alignment explanation
Indices: 11475185--11475231 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 13
11475175 TGCATTTGTG
* *
11475185 AAAATAAAAAAAT
1 AAAATATAAATAT
11475198 -AAATATAAATAT
1 AAAATATAAATAT
*
11475210 AAATATATACATAT
1 AAA-ATATAAATAT
11475224 AAAATATA
1 AAAATATA
11475232 TTCATGCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 10 0.34
13 7 0.24
14 12 0.41
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATATAAATAT
Found at i:11475502 original size:28 final size:29
Alignment explanation
Indices: 11475457--11475513 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
11475447 AAAATAATAA
* *
11475457 TAAAATATGTATATAATATGTATATATAT
1 TAAAATATGTATAAAATATATATATATAT
* *
11475486 TAAAA-ATGTTTAAAATATATATGTATAT
1 TAAAATATGTATAAAATATATATATATAT
11475514 ATATTAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (29 bp):
TAAAATATGTATAAAATATATATATATAT
Found at i:11475567 original size:15 final size:15
Alignment explanation
Indices: 11475547--11475584 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11475537 TATATATAGG
11475547 TATAATAATATAT-AA
1 TATAATAATA-ATGAA
11475562 TATAATAATAATGAA
1 TATAATAATAATGAA
*
11475577 AATAATAA
1 TATAATAA
11475585 AATAAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TATAATAATAATGAA
Found at i:11477406 original size:16 final size:16
Alignment explanation
Indices: 11477385--11477417 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11477375 GTCCCTCTTA
11477385 AATAATATTATA-TAAG
1 AATAAT-TTATATTAAG
11477401 AATAATTTATATTAAG
1 AATAATTTATATTAAG
11477417 A
1 A
11477418 TTGTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AATAATTTATATTAAG
Found at i:11478457 original size:21 final size:21
Alignment explanation
Indices: 11478413--11478473 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
11478403 GATTTATGAG
*
11478413 TTTAAGATTTTTTTA-AT-ATT
1 TTTAA-ATTTTTTTATATAATC
11478433 TTTAAATTTTTTTATATAATC
1 TTTAAATTTTTTTATATAATC
* *
11478454 TTTAGATTTTTTTTTATAAT
1 TTTAAATTTTTTTATATAAT
11478474 TTTTTGAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.25
20 7 0.19
21 20 0.56
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (21 bp):
TTTAAATTTTTTTATATAATC
Found at i:11480062 original size:21 final size:21
Alignment explanation
Indices: 11480036--11480077 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11480026 TGTACTATTT
11480036 TTTGAACTAGAGCCAATTCTA
1 TTTGAACTAGAGCCAATTCTA
11480057 TTTGAACTAGAGCCAATTCTA
1 TTTGAACTAGAGCCAATTCTA
11480078 ACTGAACCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
TTTGAACTAGAGCCAATTCTA
Found at i:11480083 original size:21 final size:21
Alignment explanation
Indices: 11480038--11480084 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
11480028 TACTATTTTT
**
11480038 TGAACTAGAGCCAATTCTATT
1 TGAACTAGAGCCAATTCTAAC
11480059 TGAACTAGAGCCAATTCTAAC
1 TGAACTAGAGCCAATTCTAAC
11480080 TGAAC
1 TGAAC
11480085 CAGAATATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (21 bp):
TGAACTAGAGCCAATTCTAAC
Found at i:11482899 original size:12 final size:12
Alignment explanation
Indices: 11482882--11482914 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11482872 CGACCCGCCC
11482882 ATATTAATTTTT
1 ATATTAATTTTT
*
11482894 ATATTATTTTTT
1 ATATTAATTTTT
11482906 ATA-TAATTT
1 ATATTAATTT
11482915 AAAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11482940 original size:18 final size:18
Alignment explanation
Indices: 11482917--11482956 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11482907 TATAATTTAA
*
11482917 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
11482935 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
11482953 AAAA
1 AAAA
11482957 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:11491635 original size:23 final size:23
Alignment explanation
Indices: 11491609--11491654 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11491599 AAAAAATTTA
*
11491609 AGATGCCTGATTTGTGTTTATTG
1 AGATGCCTGATTTGGGTTTATTG
**
11491632 AGATGTTTGATTTGGGTTTATTG
1 AGATGCCTGATTTGGGTTTATTG
11491655 CATTACGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.50
Consensus pattern (23 bp):
AGATGCCTGATTTGGGTTTATTG
Found at i:11492408 original size:12 final size:12
Alignment explanation
Indices: 11492391--11492415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11492381 ATATTAGAAC
11492391 AATAAAGAAGAT
1 AATAAAGAAGAT
11492403 AATAAAGAAGAT
1 AATAAAGAAGAT
11492415 A
1 A
11492416 GATGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AATAAAGAAGAT
Found at i:11492780 original size:20 final size:20
Alignment explanation
Indices: 11492737--11492780 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11492727 GTTTTAAACT
11492737 AAAC-TTTTTTATTAACATA
1 AAACTTTTTTTATTAACATA
* *
11492756 TAACTTTTTTTATTAACTTA
1 AAACTTTTTTTATTAACATA
11492776 AAACT
1 AAACT
11492781 CCTAAATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (20 bp):
AAACTTTTTTTATTAACATA
Found at i:11493154 original size:16 final size:16
Alignment explanation
Indices: 11493129--11493169 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11493119 AAAAGTCCAA
11493129 AAAAATATATATTTAAT
1 AAAAA-ATATATTTAAT
*
11493146 AAAAAATATATTTGAT
1 AAAAAATATATTTAAT
*
11493162 TAAAAATA
1 AAAAAATA
11493170 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAAAATATATTTAAT
Found at i:11493167 original size:18 final size:19
Alignment explanation
Indices: 11493127--11493167 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
11493117 TTAAAAGTCC
*
11493127 AAAAAAATATATATTTAAT
1 AAAAAAATATATATTGAAT
*
11493146 -AAAAAATATAT-TTGATT
1 AAAAAAATATATATTGAAT
11493163 AAAAA
1 AAAAA
11493168 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAAAATATATATTGAAT
Found at i:11493173 original size:6 final size:6
Alignment explanation
Indices: 11493162--11493199 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
11493152 TATATTTGAT
11493162 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
11493200 GTTAATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:11493173 original size:41 final size:36
Alignment explanation
Indices: 11493072--11493173 Score: 98
Period size: 41 Copynumber: 2.6 Consensus size: 36
11493062 GGCCCGACCC
11493072 ATATTTGATTAAAAAT-AAAAATATATATTTAATAT
1 ATATTTGATTAAAAATAAAAAATATATATTTAATAT
*
11493107 ATAGTTTGGATTAAAAGTCCAAAAAAATATATATTTAATAAAAAAT
1 ATA-TTT-GATTAAAAAT---AAAAAATATATATTTAAT-----AT
11493153 ATATTTGATTAAAAATAAAAA
1 ATATTTGATTAAAAATAAAAA
11493174 TAAAAATAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
35 3 0.06
36 3 0.06
37 9 0.17
41 22 0.41
44 9 0.17
45 3 0.06
46 5 0.09
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (36 bp):
ATATTTGATTAAAAATAAAAAATATATATTTAATAT
Found at i:11493472 original size:12 final size:11
Alignment explanation
Indices: 11493451--11493484 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11493441 GGCCCGTCCG
11493451 TATTAATTTTTA
1 TATT-ATTTTTA
11493463 TATTATTTTTA
1 TATTATTTTTA
*
11493474 TATAATTTTTA
1 TATTATTTTTA
11493485 AAAAAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:11499760 original size:55 final size:55
Alignment explanation
Indices: 11499685--11499808 Score: 176
Period size: 55 Copynumber: 2.3 Consensus size: 55
11499675 ACGACCTGGC
* * * *
11499685 ACACAGACGTGTGGTTTGGCCATGTGACCCAAGTCAGTGAGTTACATGGGCTAGA
1 ACACGGACGTGTGGTATGGCCATGTGACCCAAGTCAGTGAGTTACACGGGCAAGA
* *
11499740 ACACGGACGTGTGGTATGGCCGTGTGACCCAAGTCAGTGAGTTACACGGGCAAGG
1 ACACGGACGTGTGGTATGGCCATGTGACCCAAGTCAGTGAGTTACACGGGCAAGA
* *
11499795 ATACGGGCGTGTGG
1 ACACGGACGTGTGG
11499809 CTCCATTTCG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.21
Consensus pattern (55 bp):
ACACGGACGTGTGGTATGGCCATGTGACCCAAGTCAGTGAGTTACACGGGCAAGA
Found at i:11500790 original size:12 final size:13
Alignment explanation
Indices: 11500773--11500801 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11500763 AACAAGGTTC
11500773 AAAATAAAAA-TA
1 AAAATAAAAATTA
11500785 AAAATAAAAATTA
1 AAAATAAAAATTA
11500798 AAAA
1 AAAA
11500802 GTATTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATTA
Found at i:11502552 original size:57 final size:57
Alignment explanation
Indices: 11502469--11502584 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
11502459 GTTAAAGATA
**
11502469 TTGAGTGTTGCCATTGATTAATATATGTGATTTTATATATTAAATGGTGAATTTGAG
1 TTGAGTGTCACCATTGATTAATATATGTGATTTTATATATTAAATGGTGAATTTGAG
11502526 TTGAGTGTCACCATTGATTAATATATGTGATTTTATATATTAAATGGTGAATTTGAG
1 TTGAGTGTCACCATTGATTAATATATGTGATTTTATATATTAAATGGTGAATTTGAG
11502583 TT
1 TT
11502585 ATTAGTTATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (57 bp):
TTGAGTGTCACCATTGATTAATATATGTGATTTTATATATTAAATGGTGAATTTGAG
Found at i:11503342 original size:26 final size:25
Alignment explanation
Indices: 11503307--11503373 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
11503297 GCCAAACCAT
*
11503307 AGTTCGTGTGAGCAAGCCTATTTCAG
1 AGTTCGTGTGAGCAAGCC-ATTTCAC
* *
11503333 AGTTCATGTGAGCAGATCCATTTCAC
1 AGTTCGTGTGAGCA-AGCCATTTCAC
*
11503359 AGCTCGTGTGAGCAA
1 AGTTCGTGTGAGCAA
11503374 CGATGTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.03
26 31 0.89
27 3 0.09
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (25 bp):
AGTTCGTGTGAGCAAGCCATTTCAC
Found at i:11514976 original size:17 final size:17
Alignment explanation
Indices: 11514954--11514993 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
11514944 AATAATAATT
11514954 ATGCATGTTAAAATATC
1 ATGCATGTTAAAATATC
11514971 ATGCATGTTAAAATATC
1 ATGCATGTTAAAATATC
11514988 ATGCAT
1 ATGCAT
11514994 ATGATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
ATGCATGTTAAAATATC
Found at i:11515688 original size:29 final size:29
Alignment explanation
Indices: 11515654--11515711 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11515644 TAATGCTTAT
11515654 TAGATTAACTACATCTATTAAAAATTAAC
1 TAGATTAACTACATCTATTAAAAATTAAC
*
11515683 TAGATTAATTACATCTATTAAAAATTAAC
1 TAGATTAACTACATCTATTAAAAATTAAC
11515712 ACAACTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (29 bp):
TAGATTAACTACATCTATTAAAAATTAAC
Found at i:11520605 original size:564 final size:564
Alignment explanation
Indices: 11519529--11520662 Score: 1842
Period size: 564 Copynumber: 2.0 Consensus size: 564
11519519 GGCTAGAAAA
*
11519529 CTTAGGCAACTCAGGCTAATGAAGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAGG
1 CTTAGGCAACTCAGGCTAATGAAGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
* ** *
11519594 GGCCATCCTTCCCCATTGATCAGGGAGTATTGCTGCAACAATTGTTTAGTTTGCAGGAGCAACTA
66 GGCCATCCTTCCCCATTGATCAGGGAGTATCGCCACAACAATTGTTTAGTTTGCAGGAACAACTA
*
11519659 AGTTTAATGAAAGAACAGATGACTCAACGAAGTTTCAGGTTTGAACAACATCAATTGTTTCACTA
131 AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
*
11519724 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTTGATCTTCAAGG
196 GGA-C-GTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCCACCATTTGATCTTCAAGG
* **
11519789 AAATGTCGCGCCTCTTCAAGAGGAGATTCTGGAGGCACATGCAAAGCCATGGTAGAAAGAGATGG
259 AAATGTCGCGCCTCTTCAAGAGGAGATTCTGGAGCCACATGCAAAGCCATGACAGAAAGAGATGG
* * * *
11519854 ATGCTTTGCTTAGATATGTTTAAGCATTACATCCTGATGTGCAAGACATGGACTGATTGTTTTAT
324 ATGCTTTGCGTAGATAAGTTCAAGCATTACACCCTGATGTGCAAGACATGGACTGATTGTTTTAT
* * *
11519919 TCTAACAACCTTTTGTCTCTAGAAGTGCCAACTGTGAGCCTACTATCCGAGTTCAAAGTGTCGAA
389 TCTAACAACCTTTTGTCTCTAGAAGTGCCAACTGTGAGCCTACCATCCAAGTTCAAAGTCTCGAA
*
11519984 AGAAATGTTCGAATGTAGAAGGGACCCCAAGGCACATCTTATATAGTATAATGATTATATGAATG
454 AGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATATAGTATAATGATTATATGAATG
* * *
11520049 TGTTAAGGGCCTTAAATGTGGCAGAGTGTAGGCTTTTTTAATAATT
519 TGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGATTTTTCAATAATT
* *
11520095 CTTAGTCAACTCAGG-TCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAA
1 CTTAGGCAACTCAGGCT-AATGAAGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAA
* ** * * *
11520159 GGGCTATCCTTCCCTTTTGATCAGTGAGTATCGCCACAACAATTGTTTGGTTTGTAGGAACAACT
65 GGGCCATCCTTCCCCATTGATCAGGGAGTATCGCCACAACAATTGTTTAGTTTGCAGGAACAACT
*
11520224 AAGTTTGATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACT
130 AAGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACT
* *
11520289 AGGA-GTTGGTACAAAACGAAGAATTAAGAAGAAAGATATAGTTCCACCATTCTGATCTTCAAGG
195 AGGACGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCCACCATT-TGATCTTCAAGG
* * *
11520353 CAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGCCACATGCAAAGCCATGACAGAATGAGATGG
259 AAATGTCGCGCCTCTTCAAGAGGAGATTCTGGAGCCACATGCAAAGCCATGACAGAAAGAGATGG
* * *
11520418 ATGCTTTGCGTAGATAAGTTCAAGGATTACACCCTGATGTGCAAGATATGGATTGATTGTTTTAT
324 ATGCTTTGCGTAGATAAGTTCAAGCATTACACCCTGATGTGCAAGACATGGACTGATTGTTTTAT
11520483 TCTAACAACCTTTTGTCTCTAGAAGTGCCAACTGTGAGCCTACCATCCAAGTTCAAAGTACT-GA
389 TCTAACAACCTTTTGTCTCTAGAAGTGCCAACTGTGAGCCTACCATCCAAGTTCAAAGT-CTCGA
*
11520547 AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAT
453 AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATATAGTATAATGATTATATGAAT
*
11520612 GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGATTTTTCAATGATT
518 GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGATTTTTCAATAATT
11520659 CTTA
1 CTTA
11520663 AGGGAAGTGC
Statistics
Matches: 525, Mismatches: 40, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
563 44 0.08
564 298 0.57
565 2 0.00
566 181 0.34
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (564 bp):
CTTAGGCAACTCAGGCTAATGAAGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
GGCCATCCTTCCCCATTGATCAGGGAGTATCGCCACAACAATTGTTTAGTTTGCAGGAACAACTA
AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
GGACGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCCACCATTTGATCTTCAAGGAA
ATGTCGCGCCTCTTCAAGAGGAGATTCTGGAGCCACATGCAAAGCCATGACAGAAAGAGATGGAT
GCTTTGCGTAGATAAGTTCAAGCATTACACCCTGATGTGCAAGACATGGACTGATTGTTTTATTC
TAACAACCTTTTGTCTCTAGAAGTGCCAACTGTGAGCCTACCATCCAAGTTCAAAGTCTCGAAAG
AAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATATAGTATAATGATTATATGAATGTG
TTAAGGGCCTCAAATGTGGCAGAGTGTAGGATTTTTCAATAATT
Found at i:11530555 original size:46 final size:46
Alignment explanation
Indices: 11530462--11530555 Score: 109
Period size: 46 Copynumber: 2.0 Consensus size: 46
11530452 AGTACATGTA
* * * *
11530462 TAGGTTCCGAGCTCCAGCAATTGTTGTAGACTTGAGAAAATAGGTT
1 TAGGTTCCGAGCTCCAGCAATTGTTGCAGACTCGAGAAAACAAGTT
* * *
11530508 TAGGTTCCTAGCTCCAGC-ATGTGTTGCGGACTCGAGAATACAAGTT
1 TAGGTTCCGAGCTCCAGCAAT-TGTTGCAGACTCGAGAAAACAAGTT
11530554 TA
1 TA
11530556 TTAAGCCTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (46 bp):
TAGGTTCCGAGCTCCAGCAATTGTTGCAGACTCGAGAAAACAAGTT
Found at i:11532019 original size:21 final size:21
Alignment explanation
Indices: 11531995--11532148 Score: 75
Period size: 21 Copynumber: 7.3 Consensus size: 21
11531985 ATGCTTTACT
11531995 TTCTGTTAAGCTCTTTTGAGC
1 TTCTGTTAAGCTCTTTTGAGC
* *
11532016 TTCTGTTTAA-CTCATATGAG-
1 TTCTG-TTAAGCTCTTTTGAGC
* * *
11532036 TTTTCGTTCAGCTCATTTGAGC
1 TTCT-GTTAAGCTCTTTTGAGC
* * * * *
11532058 TTTTGTTTAA-CCCTTATGGGT
1 TTCTG-TTAAGCTCTTTTGAGC
* *
11532079 TTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTAAGCTCTTTTGAGC
* * *
11532100 TTCTGTTTAA-CCCTTATG-GG
1 TTCTG-TTAAGCTCTTTTGAGC
* *
11532120 TTTTCGTTCAGCTCTTTTGAGC
1 TTCT-GTTAAGCTCTTTTGAGC
11532142 TTCTGTT
1 TTCTGTT
11532149 TCACCCTTAT
Statistics
Matches: 94, Mismatches: 29, Indels: 20
0.66 0.20 0.14
Matches are distributed among these distances:
20 16 0.17
21 60 0.64
22 18 0.19
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (21 bp):
TTCTGTTAAGCTCTTTTGAGC
Found at i:11532049 original size:42 final size:42
Alignment explanation
Indices: 11531994--11532234 Score: 295
Period size: 42 Copynumber: 5.7 Consensus size: 42
11531984 CATGCTTTAC
* * * *
11531994 TTTCTGTTAAGCTCTTTTGAGCTTCTGTTTAACTCATATGAGT
1 TTTC-GTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
* *
11532037 TTTCGTTCAGCTCATTTGAGCTTTTGTTTAACCCTTATGGGT
1 TTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
*
11532079 TTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
1 TTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
*
11532121 TTTCGTTCAGCTCTTTTGAGCTTCTGTTTCACCCTTATGGGT
1 TTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
* *** * *
11532163 TTCCGTTCAGCTCTTACAAGCTTCTGTTCAACCTTTATGGG-
1 TTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
* * **
11532204 TTTCTATTTAGCTCTCATGAGCTTCTGTTTA
1 TTTC-GTTCAGCTCTTTTGAGCTTCTGTTTA
11532235 GCTTTCGAGC
Statistics
Matches: 172, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
41 3 0.02
42 165 0.96
43 4 0.02
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
Found at i:11532178 original size:21 final size:21
Alignment explanation
Indices: 11532070--11532178 Score: 85
Period size: 21 Copynumber: 5.2 Consensus size: 21
11532060 TTGTTTAACC
11532070 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCGTTCAGCT
* * * * * * *
11532091 CTTTTGAGCTTCTGTTTAACC
1 CTTATGGGTTTCCGTTCAGCT
*
11532112 CTTATGGGTTTTCGTTCAGCT
1 CTTATGGGTTTCCGTTCAGCT
* * * * *
11532133 CTTTTGAGCTTCTGTTTCA-CC
1 CTTATGGGTTTCCG-TTCAGCT
11532154 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCGTTCAGCT
11532175 CTTA
1 CTTA
11532179 CAAGCTTCTG
Statistics
Matches: 60, Mismatches: 26, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
20 4 0.07
21 52 0.87
22 4 0.07
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (21 bp):
CTTATGGGTTTCCGTTCAGCT
Found at i:11532208 original size:21 final size:21
Alignment explanation
Indices: 11532061--11532208 Score: 54
Period size: 21 Copynumber: 7.0 Consensus size: 21
11532051 TTTGAGCTTT
* *
11532061 TGTTTAACCCTTATGGGTTTC
1 TGTTCAACCTTTATGGGTTTC
* * * *
11532082 CGTTCAGCTCTTT-TGAGCTTC
1 TGTTCAAC-CTTTATGGGTTTC
* *
11532103 TGTTTAACCCTTATGGGTTT-
1 TGTTCAACCTTTATGGGTTTC
* * *
11532123 TCGTTCAGCTCTTT-TGAGCTTC
1 T-GTTCAAC-CTTTATGGGTTTC
*
11532145 TGTTTC-ACCCTTATGGGTTTC
1 TG-TTCAACCTTTATGGGTTTC
* * *** *
11532166 CGTTC-AGCTCTTACAAGCTTC
1 TGTTCAACCT-TTATGGGTTTC
11532187 TGTTCAACCTTTATGGGTTTC
1 TGTTCAACCTTTATGGGTTTC
11532208 T
1 T
11532209 ATTTAGCTCT
Statistics
Matches: 84, Mismatches: 34, Indels: 18
0.62 0.25 0.13
Matches are distributed among these distances:
20 12 0.14
21 59 0.70
22 13 0.15
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (21 bp):
TGTTCAACCTTTATGGGTTTC
Found at i:11532234 original size:21 final size:19
Alignment explanation
Indices: 11532205--11532251 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
11532195 CTTTATGGGT
*
11532205 TTCTATTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTC--GAGC
*
11532226 TTCTGTTTAGCTTTCGAGC
1 TTCTGTTTAGCTCTCGAGC
11532245 TTCTGTT
1 TTCTGTT
11532252 AATGATGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
21 13 0.54
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (19 bp):
TTCTGTTTAGCTCTCGAGC
Found at i:11538312 original size:30 final size:29
Alignment explanation
Indices: 11538278--11538366 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
11538268 AGAATCAGTC
* * *
11538278 TGGGCCTGAGCCCTATACAATAGCAGTGTG
1 TGGGCCT-AGCCCAATACAGTAACAGTGTG
** *
11538308 TGGGCCATAG-CCAATACAGTATTAGAGTG
1 TGGGCC-TAGCCCAATACAGTAACAGTGTG
11538337 TGGGCCTTAGCCCAATACAGTAACAGTGTG
1 TGGGCC-TAGCCCAATACAGTAACAGTGTG
11538367 GGCTTTATCC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
29 23 0.48
30 24 0.50
31 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGGCCTAGCCCAATACAGTAACAGTGTG
Found at i:11538378 original size:28 final size:29
Alignment explanation
Indices: 11538305--11538379 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
11538295 CAATAGCAGT
* *
11538305 GTGTGGGCCATAG-CCAATACAGTATTAGA
1 GTGTGGGCCTTAGCCCAATACAGTA-TACA
11538334 GTGTGGGCCTTAGCCCAATACAGTA-ACA
1 GTGTGGGCCTTAGCCCAATACAGTATACA
* *
11538362 GTGTGGGCTTTATCCCAA
1 GTGTGGGCCTTAGCCCAA
11538380 AATAGTAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 18 0.44
29 12 0.29
30 11 0.27
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (29 bp):
GTGTGGGCCTTAGCCCAATACAGTATACA
Found at i:11538386 original size:28 final size:29
Alignment explanation
Indices: 11538305--11538392 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 29
11538295 CAATAGCAGT
* * * *
11538305 GTGTGGGCCATAG-CCAATACAGTATTAGA
1 GTGTGGGCCTTAGCCCAAAACAGTAAT-CA
*
11538334 GTGTGGGCCTTAGCCCAATACAGTAA-CA
1 GTGTGGGCCTTAGCCCAAAACAGTAATCA
* * *
11538362 GTGTGGGCTTTATCCCAAAATAGTAATCA
1 GTGTGGGCCTTAGCCCAAAACAGTAATCA
11538391 GT
1 GT
11538393 ACAAATGCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.46
29 16 0.32
30 11 0.22
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (29 bp):
GTGTGGGCCTTAGCCCAAAACAGTAATCA
Found at i:11538603 original size:26 final size:26
Alignment explanation
Indices: 11538500--11538594 Score: 118
Period size: 26 Copynumber: 3.7 Consensus size: 26
11538490 CACCAATATC
* *
11538500 GCAGCAAAGGTGCCAGTATCAGTAAT
1 GCAGCAAAGCTGCCAGTATCAGTATT
* * *
11538526 GCAGCAAAGCTGCTAATAACAGTATT
1 GCAGCAAAGCTGCCAGTATCAGTATT
* *
11538552 GCAGCAGAGCCGCCAGTATCAGTATT
1 GCAGCAAAGCTGCCAGTATCAGTATT
*
11538578 GCAGCAAAGTTGCCAGT
1 GCAGCAAAGCTGCCAGT
11538595 CACAATATTT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTATCAGTATT
Found at i:11538845 original size:27 final size:27
Alignment explanation
Indices: 11538812--11539212 Score: 441
Period size: 27 Copynumber: 14.8 Consensus size: 27
11538802 ATCTTTTGCG
*
11538812 GGGTATTTCGATAATTTTACCATTCGA
1 GGGTATTTCGATAATTTTACCTTTCGA
* *
11538839 GGGTATTTTGATAAATTTCT-CCTTT-GG
1 GGGTATTTCGAT-AATTT-TACCTTTCGA
**
11538866 GGGTATTTCGATAATTTTACCTTTAAA
1 GGGTATTTCGATAATTTTACCTTTCGA
* * *
11538893 GGGTATTTTGGTAATTTTACCCTAT-GA
1 GGGTATTTCGATAATTTTA-CCTTTCGA
* * *
11538920 AGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGATAATTTTACCTTTCGA
11538947 GGGTATTTCGATAATTTTACCTTTCGA
1 GGGTATTTCGATAATTTTACCTTTCGA
* * * ** *
11538974 AGGTATTTTGGTAATTTTACCCATCAA
1 GGGTATTTCGATAATTTTACCTTTCGA
*
11539001 GGGTATTTCGGAAAATTTTACCTTTCGA
1 GGGTATTTC-GATAATTTTACCTTTCGA
* *
11539029 GGGTATTTCGGTAAATTTTACCCTTCGA
1 GGGTATTTCGAT-AATTTTACCTTTCGA
11539057 GGGTATTTCGATAATTTTACCTTTCGA
1 GGGTATTTCGATAATTTTACCTTTCGA
* * *
11539084 GGGTATTTTGGTAATTTTACCCTTCGA
1 GGGTATTTCGATAATTTTACCTTTCGA
* * **
11539111 CGGTATTCCGATAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCTTTCGA
* * *
11539138 GGGTATTTTGGTAATTTTACCCATT-GA
1 GGGTATTTCGATAATTTTA-CCTTTCGA
*
11539165 GGGTATTTCGATAATTTTATCTTTCGA
1 GGGTATTTCGATAATTTTACCTTTCGA
11539192 GGGTATTTCGATAATTTTACC
1 GGGTATTTCGATAATTTTACC
11539213 CATGAATAGC
Statistics
Matches: 310, Mismatches: 54, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 16 0.05
27 229 0.74
28 63 0.20
29 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCTTTCGA
Found at i:11539213 original size:54 final size:55
Alignment explanation
Indices: 11538812--11539215 Score: 486
Period size: 54 Copynumber: 7.4 Consensus size: 55
11538802 ATCTTTTGCG
* * *
11538812 GGGTATTTCGATAATTTTA-CCATTCGAGGGTATTTTGATAAATTTCT-CCTTT-GG
1 GGGTATTTCGGTAATTTTACCCATTCGAGGGTATTTCGAT-AATTT-TACCTTTCGA
* * ** * * *
11538866 GGGTATTTCGATAATTTTA-CCTTTAAAGGGTATTTTGGTAATTTTACCCTAT-GA
1 GGGTATTTCGGTAATTTTACCCATTCGAGGGTATTTCGATAATTTTA-CCTTTCGA
*
11538920 AGGTATTTCGGTAATTTTACCC-TTCGAGGGTATTTCGATAATTTTACCTTTCGA
1 GGGTATTTCGGTAATTTTACCCATTCGAGGGTATTTCGATAATTTTACCTTTCGA
* * * *
11538974 AGGTATTTTGGTAATTTTACCCA-TCAAGGGTATTTCGGAAAATTTTACCTTTCGA
1 GGGTATTTCGGTAATTTTACCCATTCGAGGGTATTTC-GATAATTTTACCTTTCGA
11539029 GGGTATTTCGGTAAATTTTACCC-TTCGAGGGTATTTCGATAATTTTACCTTTCGA
1 GGGTATTTCGGT-AATTTTACCCATTCGAGGGTATTTCGATAATTTTACCTTTCGA
* * * **
11539084 GGGTATTTTGGTAATTTTACCC-TTCGACGGTATTCCGATAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCATTCGAGGGTATTTCGATAATTTTACCTTTCGA
* *
11539138 GGGTATTTTGGTAATTTTACCCATT-GAGGGTATTTCGATAATTTTATCTTTCGA
1 GGGTATTTCGGTAATTTTACCCATTCGAGGGTATTTCGATAATTTTACCTTTCGA
*
11539192 GGGTATTTCGATAATTTTACCCAT
1 GGGTATTTCGGTAATTTTACCCAT
11539216 GAATAGCACA
Statistics
Matches: 309, Mismatches: 32, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.00
53 9 0.03
54 218 0.71
55 59 0.19
56 22 0.07
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (55 bp):
GGGTATTTCGGTAATTTTACCCATTCGAGGGTATTTCGATAATTTTACCTTTCGA
Found at i:11539884 original size:13 final size:13
Alignment explanation
Indices: 11539866--11539890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11539856 CACAAAAATG
11539866 GAGATGAGAAGAA
1 GAGATGAGAAGAA
11539879 GAGATGAGAAGA
1 GAGATGAGAAGA
11539891 TAATATTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.40, T:0.08
Consensus pattern (13 bp):
GAGATGAGAAGAA
Found at i:11544840 original size:28 final size:28
Alignment explanation
Indices: 11544808--11544903 Score: 138
Period size: 28 Copynumber: 3.4 Consensus size: 28
11544798 TGACTTTCGA
11544808 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
11544836 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * *
11544864 CACTAAGTGTGTGAGTTTGATTATTAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
11544892 CACTAAATGTGC
1 CACTAAGTGTGC
11544904 AAACTTATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:11553115 original size:6 final size:6
Alignment explanation
Indices: 11553104--11553143 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
11553094 AGCCAAAGGT
11553104 TTTTAA TTTTAA TTTTAA TTTTAA TTTTGCAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT--AA TTTTAA TT
11553144 GTCTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (6 bp):
TTTTAA
Found at i:11553203 original size:17 final size:19
Alignment explanation
Indices: 11553183--11553217 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
11553173 TCCCCAAGTA
11553183 CTAATT-AGTTT-ATTTTC
1 CTAATTCAGTTTAATTTTC
11553200 CTAATTCAGTTTAATTTT
1 CTAATTCAGTTTAATTTT
11553218 TCAGTATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (19 bp):
CTAATTCAGTTTAATTTTC
Found at i:11554249 original size:20 final size:20
Alignment explanation
Indices: 11554212--11554249 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11554202 ACCTAACACG
*
11554212 AATTAAAGTTAAGCCATATT
1 AATTAAAGTTAAACCATATT
11554232 AATTAAA-TTAAACACATA
1 AATTAAAGTTAAAC-CATA
11554250 AACATCACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTAAAGTTAAACCATATT
Found at i:11558744 original size:16 final size:15
Alignment explanation
Indices: 11558719--11558752 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
11558709 AAAGTTGATA
*
11558719 ATAATTAATATATATT
1 ATAATAAATATA-ATT
11558735 ATAATAAATATAATT
1 ATAATAAATATAATT
11558750 ATA
1 ATA
11558753 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:11563629 original size:42 final size:42
Alignment explanation
Indices: 11563578--11563674 Score: 162
Period size: 42 Copynumber: 2.3 Consensus size: 42
11563568 CAAGTACGAC
*
11563578 AAAAA-GGGGGAAAGGAAAAAGACATGG-AGGATGACACGAAT
1 AAAAATGGGGGAAAGGAAAAAGACACGGAAGG-TGACACGAAT
11563619 AAAAATGGGGGAAAGGAAAAAGACACGGAAGGTGACACGAAT
1 AAAAATGGGGGAAAGGAAAAAGACACGGAAGGTGACACGAAT
11563661 AAAAATGGGGGAAA
1 AAAAATGGGGGAAA
11563675 TGTTTTTGCT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
41 5 0.09
42 45 0.85
43 3 0.06
ACGTcount: A:0.52, C:0.07, G:0.34, T:0.07
Consensus pattern (42 bp):
AAAAATGGGGGAAAGGAAAAAGACACGGAAGGTGACACGAAT
Found at i:11574430 original size:18 final size:18
Alignment explanation
Indices: 11574407--11574447 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
11574397 TCTTCCATTA
*
11574407 AACTAATGAGTTGGCAAT
1 AACTAATGAGTCGGCAAT
11574425 AACTAATGAGTCGGCAAT
1 AACTAATGAGTCGGCAAT
11574443 AACTA
1 AACTA
11574448 CTTATCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (18 bp):
AACTAATGAGTCGGCAAT
Found at i:11579046 original size:3 final size:3
Alignment explanation
Indices: 11579038--11579091 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
11579028 CCCACCAGCT
* * *
11579038 TCA TCA TCA TCA TCA CCA TCA TCA TCA TCA TCA TCA CCA TCA CCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
*
11579086 CCA TCA
1 TCA TCA
11579092 CCACCACCAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (3 bp):
TCA
Found at i:11579102 original size:6 final size:6
Alignment explanation
Indices: 11579042--11579100 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
11579032 CCAGCTTCAT
* *
11579042 CATCAT CATCAC CATCATC ATCATCAT CATCAC CATCAC CATCAC CATCAC
1 CATCAC CATCAC CATCA-C --CATCAC CATCAC CATCAC CATCAC CATCAC
*
11579093 CACCAC CA
1 CATCAC CA
11579101 CCTTCAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 40 0.87
7 1 0.02
9 5 0.11
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.20
Consensus pattern (6 bp):
CATCAC
Found at i:11596872 original size:267 final size:267
Alignment explanation
Indices: 11596383--11596937 Score: 851
Period size: 267 Copynumber: 2.1 Consensus size: 267
11596373 CGCCTTGAAG
** * * * *
11596383 TTGCAATGGAAAAGATTGAAGTCACGACGGCGAACCTTACTTCCCTGGCGTTGTAGCGGAGTAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCAAACCTTACTTCCCTGGCGTTGTAGCGGAGCAGA
*
11596448 TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAGCGG
66 TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGACTTGGATTAGCTGAAGTGGAGCGG
* * * * * * *
11596513 GTTGAAGCTGTGGGCAGCGAATCCTATCTTTTTGGCATTATAGTGCAGTAGATTAAAGCCGCAAC
131 ATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGAATTACAATGCAGCAGATTAAAGCCGAAAC
* * *
11596578 GGCGAATCTTACTCCCTTGATGGTGTAGTGGAACAGATTGAAGCTACGACAGCCAATCTTTTTTC
196 GGCGAATCTTACTCCCTTGACGGTGTAGTGAAACAGATTGAAGCTACGACAGCCAATCTTATTTC
11596643 CCCAACA
261 CCCAACA
* * * *
11596650 TTGCAATTTAAAAGATTGAAGCCGCAACGGCAAATCTTATTTCCGTGGCGTTGTAGCGGAGCAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCAAACCTTACTTCCCTGGCGTTGTAGCGGAGCAGA
*
11596715 TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTAGCTGAAGTGGAGCGG
66 TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGACTTGGATTAGCTGAAGTGGAGCGG
*
11596780 ATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGAATTACAATGGAGCAGATTAAAGCCGAAAC
131 ATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGAATTACAATGCAGCAGATTAAAGCCGAAAC
* * *
11596845 GGCGAATCTTACTTCCC-TGGCGGTGTAGTGAAACAGATTGAAGCTACGACGGCGAATCTTATTT
196 GGCGAATCTTAC-TCCCTTGACGGTGTAGTGAAACAGATTGAAGCTACGACAGCCAATCTTATTT
11596909 CCCCAACA
260 CCCCAACA
*
11596917 TTGCAATTTAAAAGACTGAAG
1 TTGCAATTTAAAAGATTGAAG
11596938 ATGGCGAATC
Statistics
Matches: 260, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
267 256 0.98
268 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (267 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCAAACCTTACTTCCCTGGCGTTGTAGCGGAGCAGA
TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGACTTGGATTAGCTGAAGTGGAGCGG
ATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGAATTACAATGCAGCAGATTAAAGCCGAAAC
GGCGAATCTTACTCCCTTGACGGTGTAGTGAAACAGATTGAAGCTACGACAGCCAATCTTATTTC
CCCAACA
Found at i:11602250 original size:134 final size:134
Alignment explanation
Indices: 11602000--11602280 Score: 539
Period size: 134 Copynumber: 2.1 Consensus size: 134
11601990 TTATTTTAAT
11602000 AATTA-AAA-CAAATAGAATGCAATCCATCTAACACGAATTAGATTTAAGTCATTTAAATTAGAA
1 AATTAGAAAGCAAATAGAATGCAATCCATCTAACACGAATTAGATTTAAGTCATTTAAATTAGAA
*
11602063 CAAGAACAACAACACAACAATTATTCATGTTCATGATCACAACATAAATAGGAAAATTAAAGAGA
66 CAAGAACAACAACACAACAATTATTCATGTTCATGATCACAACATAAACAGGAAAATTAAAGAGA
11602128 AGGG
131 AGGG
11602132 AATTAGAAAGCAAATAGAATGCAATCCATCTAACACGAATTAGATTTAAGTCATTTAAATTAGAA
1 AATTAGAAAGCAAATAGAATGCAATCCATCTAACACGAATTAGATTTAAGTCATTTAAATTAGAA
11602197 CAAGAACAACAACACAACAATTATTCATGTTCATGATCACAACATAAACAGGAAAATTAAAGAGA
66 CAAGAACAACAACACAACAATTATTCATGTTCATGATCACAACATAAACAGGAAAATTAAAGAGA
11602262 AGGG
131 AGGG
11602266 AATTAGAAAGCAAAT
1 AATTAGAAAGCAAAT
11602281 CCAATATTTC
Statistics
Matches: 146, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
132 5 0.03
133 3 0.02
134 138 0.95
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (134 bp):
AATTAGAAAGCAAATAGAATGCAATCCATCTAACACGAATTAGATTTAAGTCATTTAAATTAGAA
CAAGAACAACAACACAACAATTATTCATGTTCATGATCACAACATAAACAGGAAAATTAAAGAGA
AGGG
Found at i:11613302 original size:6 final size:6
Alignment explanation
Indices: 11613283--11613312 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11613273 AACAAATTAC
*
11613283 ATTAAA ATTGAA ATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
11613313 GGCAAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:11630263 original size:14 final size:15
Alignment explanation
Indices: 11630244--11630274 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11630234 TATCTCTTGA
11630244 ATGTTA-TTTATTTT
1 ATGTTATTTTATTTT
11630258 ATGTTATTTTATTTT
1 ATGTTATTTTATTTT
11630273 AT
1 AT
11630275 TACTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
ATGTTATTTTATTTT
Done.