Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 157 of 240
Found at i:49570456 original size:16 final size:14
Alignment explanation
Indices: 49570425--49570463 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
49570415 AAACATATTA
49570425 AATTAATTTAAATT
1 AATTAATTTAAATT
49570439 AATTAATTTCATAATT
1 AATTAATTT-A-AATT
*
49570455 AAATAATTT
1 AATTAATTT
49570464 TCTCAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 1 0.05
16 12 0.55
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTAATTTAAATT
Found at i:49576269 original size:16 final size:18
Alignment explanation
Indices: 49576238--49576271 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
49576228 AAATTGAAAC
49576238 AAAGAGTTTAGGATTTTG
1 AAAGAGTTTAGGATTTTG
49576256 AAAG-GTTT-GGATTTTG
1 AAAGAGTTTAGGATTTTG
49576272 GTGGAAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (18 bp):
AAAGAGTTTAGGATTTTG
Found at i:49578469 original size:41 final size:41
Alignment explanation
Indices: 49578411--49578642 Score: 392
Period size: 41 Copynumber: 5.6 Consensus size: 41
49578401 CTTAATTTAA
* *
49578411 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
49578453 CAGATCACCGACACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* * *
49578494 CAGATCACTGGCACTTAGCCCGCTAGGTTCATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
49578535 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
49578576 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
49578617 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
49578643 ACGTATAGTC
Statistics
Matches: 179, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
41 175 0.98
42 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:49582160 original size:61 final size:61
Alignment explanation
Indices: 49582095--49582285 Score: 212
Period size: 61 Copynumber: 3.2 Consensus size: 61
49582085 ATTTTATAGT
*
49582095 ATTATATCTTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
* * ** * * * * *
49582156 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATTTATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
* *
49582215 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
49582276 ATTATATATT
1 ATTATATATT
49582286 TTAATTAAAA
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 7 0.07
59 31 0.31
60 14 0.14
61 42 0.42
62 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:49582166 original size:120 final size:119
Alignment explanation
Indices: 49582033--49582320 Score: 477
Period size: 120 Copynumber: 2.4 Consensus size: 119
49582023 GCAATAAATG
* *
49582033 TAAATTATGTATTTCTATTAAATTATATTTAATAATAATTTTTTTAAATTATATTTTATAGTATT
1 TAAATTATATATTT-TATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
* * *
49582098 ATATCTTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTAT
65 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAT
49582153 TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
1 TAAATTATATA-TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
49582218 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAT
65 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAT
* * *
49582273 TAAATTATATATTTTAATTAAAATATATTTTATAATAATTATGTTAAA
1 TAAATTATATATTTT-ATTAAATTATATTTAATAATAATTATTTTAAA
49582321 ATATGATTAA
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 4 0.03
120 151 0.96
121 3 0.02
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (119 bp):
TAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAT
Found at i:49582300 original size:16 final size:17
Alignment explanation
Indices: 49582266--49582304 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
49582256 AATACTAAGA
49582266 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
49582283 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
49582299 ATTTTA
1 ATTTTA
49582305 TAATAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:49582308 original size:18 final size:18
Alignment explanation
Indices: 49582266--49582300 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49582256 AATACTAAGA
*
49582266 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
49582283 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
49582301 TTTATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:49587704 original size:23 final size:23
Alignment explanation
Indices: 49587660--49587709 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
49587650 CAAAAAATTT
*
49587660 AATATAAACTAAAAACTCAACCCA
1 AATATAAAC-AAAAACCCAACCCA
49587684 AATATAAA-AAAAACCCAAACCCA
1 AATATAAACAAAAACCC-AACCCA
49587707 AAT
1 AAT
49587710 TAATAGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 9 0.38
24 8 0.33
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.14
Consensus pattern (23 bp):
AATATAAACAAAAACCCAACCCA
Found at i:49591402 original size:9 final size:9
Alignment explanation
Indices: 49591388--49591418 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49591378 GTTAAACGAA
49591388 TCGAGTTAT
1 TCGAGTTAT
*
49591397 TCGAGTTAA
1 TCGAGTTAT
49591406 TCGAGTTAT
1 TCGAGTTAT
49591415 TCGA
1 TCGA
49591419 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:49591486 original size:9 final size:9
Alignment explanation
Indices: 49591469--49591505 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
49591459 TGAGTTTTCG
49591469 AATTCGAAT
1 AATTCGAAT
*
49591478 AACTCGAAT
1 AATTCGAAT
*
49591487 AATTCGAAA
1 AATTCGAAT
49591496 AATTCGAAT
1 AATTCGAAT
49591505 A
1 A
49591506 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:49593365 original size:13 final size:14
Alignment explanation
Indices: 49593334--49593366 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49593324 ATATTACGTT
49593334 TTTTTCAAAACTAA
1 TTTTTCAAAACTAA
49593348 TTTTTCAAAA-TATA
1 TTTTTCAAAACTA-A
49593362 TTTTT
1 TTTTT
49593367 TAAGGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTTCAAAACTAA
Found at i:49593604 original size:30 final size:30
Alignment explanation
Indices: 49593568--49593626 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
49593558 TTTAATACAA
49593568 AAAAAAATCAACCTTTGTGAGTCAAATTTT
1 AAAAAAATCAACCTTTGTGAGTCAAATTTT
49593598 AAAAAAATCAACCTTTGTGAGTCAAATTT
1 AAAAAAATCAACCTTTGTGAGTCAAATTT
49593627 CTCTCCTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (30 bp):
AAAAAAATCAACCTTTGTGAGTCAAATTTT
Found at i:49595509 original size:27 final size:27
Alignment explanation
Indices: 49595444--49595726 Score: 272
Period size: 27 Copynumber: 10.6 Consensus size: 27
49595434 AAACCCTAAA
* *
49595444 ATAGGGTAAAATGATCGAAATATCCC-
1 ATAGGGTAAAATGACCGAAATACCCCT
* *
49595470 ATAAGGTAAAATGACTGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
*
49595497 ATAGGGTAAAATGACCAAAATA-CCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
* *
49595523 CATAGGGTAAAATGATCGAAATACCCCC
1 -ATAGGGTAAAATGACCGAAATACCCCT
* * *
49595551 ATAGGATAAAATAACCAAAATACCCC-
1 ATAGGGTAAAATGACCGAAATACCCCT
* *
49595577 ATAAGGTAAAATGACCAAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
* * * *
49595604 TTAAGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCT
* *
49595631 ATAGGATAAAATGGCCGAAATA-CCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
* * *
49595657 CATAGGATAGAATGACGGAAATACTCCC-
1 -ATAGGGTAAAATGACCGAAATAC-CCCT
* *
49595685 ATAAGGTAAAATGACCAAAATA-CCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
*
49595711 CACAGGGTAAAATGAC
1 -ATAGGGTAAAATGAC
49595727 TGTTATACCC
Statistics
Matches: 211, Mismatches: 37, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
25 3 0.01
26 52 0.25
27 150 0.71
28 3 0.01
29 3 0.01
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCT
Found at i:49595548 original size:54 final size:53
Alignment explanation
Indices: 49595444--49595726 Score: 311
Period size: 54 Copynumber: 5.3 Consensus size: 53
49595434 AAACCCTAAA
* * *
49595444 ATAGGGTAAAATGATCGAAATATCCCATAAGGTAAAATGACTGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCATAAGGTAAAATGACCGAAATACCCCT
* * * *
49595497 ATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCC-CATAAGGTAAAATGACCGAAATACCCCT
* * * *
49595551 ATAGGATAAAATAACCAAAATACCCCATAAGGTAAAATGACCAAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCATAAGGTAAAATGACCGAAATACCCCT
* * * *
49595604 TTAAGGTAAAATGATCGAAATACCCCCAT-AGGATAAAATGGCCGAAATA-CCCT
1 ATAGGGTAAAATGACCGAAATA-CCCCATAAGG-TAAAATGACCGAAATACCCCT
* * * *
49595657 CATAGGATAGAATGACGGAAATACTCCCATAAGGTAAAATGACCAAAATA-CCCT
1 -ATAGGGTAAAATGACCGAAATAC-CCCATAAGGTAAAATGACCGAAATACCCCT
*
49595711 CACAGGGTAAAATGAC
1 -ATAGGGTAAAATGAC
49595727 TGTTATACCC
Statistics
Matches: 192, Mismatches: 32, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
53 70 0.36
54 119 0.62
55 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (53 bp):
ATAGGGTAAAATGACCGAAATACCCCATAAGGTAAAATGACCGAAATACCCCT
Found at i:49595585 original size:80 final size:79
Alignment explanation
Indices: 49595448--49595726 Score: 330
Period size: 80 Copynumber: 3.5 Consensus size: 79
49595438 CCTAAAATAG
* * *
49595448 GGTAAAATGATCGAAATA-TCCCATAAGG-TAAAATGACTGAAATACCCCTATAGGGTAAAATGA
1 GGTAAAATGATCGAAATACCCCCAT-AGGATAAAATGACCGAAATACCCC-ATAAGGTAAAATGA
*
49595511 CCAAAATACCCTCATAG
64 CCAAAATACCC-CATAA
* *
49595528 GGTAAAATGATCGAAATACCCCCATAGGATAAAATAACCAAAATACCCCATAAGGTAAAATGACC
1 GGTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCATAAGGTAAAATGACC
*
49595593 AAAATACCCCTTTAA
66 AAAATACCCC-ATAA
* *
49595608 GGTAAAATGATCGAAATACCCCCATAGGATAAAATGGCCGAAATACCCTCAT-AGGATAGAATGA
1 GGTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACCC-CATAAGG-TAAAATGA
**
49595672 CGGAAATACTCCCATAA
64 CCAAAATAC-CCCATAA
* * * * *
49595689 GGTAAAATGACCAAAATACCCTCACAGGGTAAAATGAC
1 GGTAAAATGATCGAAATACCCCCATAGGATAAAATGAC
49595727 TGTTATACCC
Statistics
Matches: 173, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.01
80 95 0.55
81 74 0.43
82 3 0.02
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (79 bp):
GGTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCATAAGGTAAAATGACC
AAAATACCCCATAA
Found at i:49595634 original size:107 final size:107
Alignment explanation
Indices: 49595461--49595726 Score: 345
Period size: 107 Copynumber: 2.5 Consensus size: 107
49595451 AAAATGATCG
* ** * *
49595461 AAATATCCCATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCCTCAT
1 AAATACCCCATAAGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCAAAATACCCCCAT
* *
49595526 AGGGTAAAATGATCGAAATACCCCCATAGGATAAAATAACCA
66 AGGATAAAATGACCGAAATACCCCCATAGGATAAAATAACCA
* * *
49595568 AAATACCCCATAAGGTAAAATGACCAAAATACCCCTTTAAGGTAAAATGATCGAAATACCCCCAT
1 AAATACCCCATAAGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCAAAATACCCCCAT
* * * * **
49595633 AGGATAAAATGGCCGAAATACCCTCATAGGATAGAATGACGG
66 AGGATAAAATGACCGAAATACCCCCATAGGATAAAATAACCA
* *
49595675 AAATACTCCCATAAGGTAAAATGACCAAAATA-CCCTCACAGGGTAAAATGAC
1 AAATAC-CCCATAAGGTAAAATGACCAAAATACCCCT-ATAAGGTAAAATGAC
49595727 TGTTATACCC
Statistics
Matches: 137, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
107 101 0.74
108 36 0.26
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (107 bp):
AAATACCCCATAAGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCAAAATACCCCCAT
AGGATAAAATGACCGAAATACCCCCATAGGATAAAATAACCA
Found at i:49597876 original size:31 final size:31
Alignment explanation
Indices: 49597831--49597891 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
49597821 CGCACATAGA
* * *
49597831 CTTATCATAGAGAGCTTGCATAGGGAGCTTG
1 CTTATCACAAAGAGCTCGCATAGGGAGCTTG
49597862 CTTATCACAAAGAGCTCGCATAGGGAGCTT
1 CTTATCACAAAGAGCTCGCATAGGGAGCTT
49597892 ACTTGAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
CTTATCACAAAGAGCTCGCATAGGGAGCTTG
Found at i:49601021 original size:91 final size:91
Alignment explanation
Indices: 49600863--49601043 Score: 231
Period size: 91 Copynumber: 2.0 Consensus size: 91
49600853 GGTGGTCTAT
* * * * * * **
49600863 CCACATATTATCTGACAACTTTTATCTGTAATTAAGTTGTGTGTTCACAACCATTTGGTAGTGTA
1 CCACATATTATATGACAACTTTTATATGCAATTAAGTTGTGTGCTCACAACCATCTGGCAGCATA
*
49600928 TTAACTTGCAAC-TTTAGGTGGTTCAC
66 TTAACCTGCAACATTT-GGTGGTTCAC
* *
49600954 CCACCTATTATATGA-AAGCTTTTATATGCAATTATGTTGTGTGCTCACAACCATCTGGCAGCAT
1 CCACATATTATATGACAA-CTTTTATATGCAATTAAGTTGTGTGCTCACAACCATCTGGCAGCAT
49601018 ATTAACCTGCAACATTTGGTGGTTCA
65 ATTAACCTGCAACATTTGGTGGTTCA
49601044 TCCATAACCC
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
90 2 0.03
91 72 0.94
92 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (91 bp):
CCACATATTATATGACAACTTTTATATGCAATTAAGTTGTGTGCTCACAACCATCTGGCAGCATA
TTAACCTGCAACATTTGGTGGTTCAC
Found at i:49602916 original size:17 final size:17
Alignment explanation
Indices: 49602896--49602929 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49602886 TTAGAATTGG
49602896 ATTGAGAAATTAATTTA
1 ATTGAGAAATTAATTTA
49602913 ATTGAGAAATTAATTTA
1 ATTGAGAAATTAATTTA
49602930 GCTAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
ATTGAGAAATTAATTTA
Found at i:49609243 original size:81 final size:80
Alignment explanation
Indices: 49609094--49609668 Score: 559
Period size: 81 Copynumber: 7.1 Consensus size: 80
49609084 GCCAAAAATA
* * * * *
49609094 GGTAAAATGACCG-AATACCCCATAGGGTAGAATGACCGAAATACTCTCGTAAGGTAGAATGACC
1 GGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGACC
49609158 AAAATACCCCTATAG
66 AAAATACCCCTATAG
* * *
49609173 GGTAAAATGACCGAAATAACCCCAAAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAAC
1 GGTAAAATGACCGAAAT-ACCCCAAAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGAC
* *
49609238 TAAAATACCTCTATAG
65 CAAAATACCCCTATAG
* * ** * *
49609254 GGTAAAATGACCAAAATACCCCAATAGGGTAAAATGATCGAAATACCCTTATAGGGTAGAATGAT
1 GGTAAAATGACCGAAATACCCCAA-AGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGAC
* *
49609319 CGAAATACCCATATAG
65 CAAAATACCCCTATAG
* * * * * *
49609335 GGTAAAATGATCGAAATACTCTCCATAGGGTAAAATGACCGAAATATCCCTATAAGATATAATGA
1 GGTAAAATGACCGAAATAC-C-CCAAAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGA
*
49609400 CCAAAATA-CCCTCATAT
64 CCAAAATACCCCT-ATAG
* ** *
49609417 GGTAGAATGATAGAAATACCCCAATAGGGGTAAAATGACCGAAATACCCCCATAAGATA-AATTG
1 GGTAAAATGACCGAAATACCCCAA-A-GGGTAAAATGACCGAAATACCCCCATAAGGTAGAA-TG
*
49609481 ACCGAAATACCCCTATAG
63 ACCAAAATACCCCTATAG
* * * *** * *
49609499 GGTAAAATAACCAAAATACCCTCATAA-GATAAAATGAAAAAAATACCCTCATAAGGTAGGATGA
1 GGTAAAATGACCGAAATACCC-CA-AAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGA
*
49609563 CCAAAATACCCTTATAG
64 CCAAAATACCCCTATAG
* * * * * *
49609580 GGTAAAATGATCGAAATACCTCCATAA-GGTCAAATGACCGAAATAGCCCCATAGGGTACAATAA
1 GGTAAAATGACCGAAATACC-CCA-AAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGA
***
49609644 TTGAAATACCTCC-ATAG
64 CCAAAATACC-CCTATAG
49609661 GGTAAAAT
1 GGTAAAAT
49609669 AACTGTTATA
Statistics
Matches: 408, Mismatches: 73, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
79 13 0.03
80 13 0.03
81 249 0.61
82 122 0.30
83 10 0.02
84 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (80 bp):
GGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGACC
AAAATACCCCTATAG
Found at i:49609670 original size:27 final size:26
Alignment explanation
Indices: 49609094--49609668 Score: 504
Period size: 27 Copynumber: 21.3 Consensus size: 26
49609084 GCCAAAAATA
49609094 GGTAAAATGACCG-AATACCCCATAG
1 GGTAAAATGACCGAAATACCCCATAG
* * * *
49609119 GGTAGAATGACCGAAATACTCTCGTAA
1 GGTAAAATGACCGAAATAC-CCCATAG
* *
49609146 GGTAGAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
*
49609173 GGTAAAATGACCGAAATAACCCCAAAG
1 GGTAAAATGACCGAAAT-ACCCCATAG
49609200 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* ** *
49609227 GGTAAAATAACTAAAATACCTCTATAG
1 GGTAAAATGACCGAAATACC-CCATAG
*
49609254 GGTAAAATGACCAAAATACCCCAATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
* *
49609281 GGTAAAATGATCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCC-CATAG
* * *
49609308 GGTAGAATGATCGAAATACCCATATAG
1 GGTAAAATGACCGAAATACCC-CATAG
*
49609335 GGTAAAATGATCGAAATACTCTCCATAG
1 GGTAAAATGACCGAAATAC-C-CCATAG
* *
49609363 GGTAAAATGACCGAAATATCCCTATAA
1 GGTAAAATGACCGAAATA-CCCCATAG
* * * *
49609390 GATATAATGACCAAAATACCCTCATAT
1 GGTAAAATGACCGAAATACCC-CATAG
* **
49609417 GGTAGAATGATAGAAATACCCCAATAGG
1 GGTAAAATGACCGAAATACCCC-ATA-G
*
49609445 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATA-CCCCATAG
* *
49609472 GATAAATTGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
* * *
49609499 GGTAAAATAACCAAAATACCCTCATAA
1 GGTAAAATGACCGAAATACCC-CATAG
* *** *
49609526 GATAAAATGAAAAAAATACCCTCATAA
1 GGTAAAATGACCGAAATACCC-CATAG
** * *
49609553 GGTAGGATGACCAAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCC-CATAG
* *
49609580 GGTAAAATGATCGAAATACCTCCATAA
1 GGTAAAATGACCGAAATACC-CCATAG
*
49609607 GGTCAAATGACCGAAATAGCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* * **
49609634 GGTACAATAATTGAAATACCTCCATAG
1 GGTAAAATGACCGAAATACC-CCATAG
49609661 GGTAAAAT
1 GGTAAAAT
49609669 AACTGTTATA
Statistics
Matches: 452, Mismatches: 78, Indels: 38
0.80 0.14 0.07
Matches are distributed among these distances:
25 12 0.03
26 21 0.05
27 363 0.80
28 50 0.11
29 6 0.01
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCATAG
Found at i:49611030 original size:15 final size:14
Alignment explanation
Indices: 49611007--49611042 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
49610997 CACATTTCAC
*
49611007 TATTTTGTCTTTTG
1 TATTTTGTCTTTTA
49611021 TATTTATGTCTTTTA
1 TATTT-TGTCTTTTA
49611036 TATTTTG
1 TATTTTG
49611043 CATACATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (14 bp):
TATTTTGTCTTTTA
Found at i:49615812 original size:22 final size:23
Alignment explanation
Indices: 49615777--49615834 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
49615767 GTGACTAAGC
*
49615777 GTGCAAGTGATAGTGGCACTACA
1 GTGCAAGTGATAGTGACACTACA
*
49615800 GTGCAAGTG-TAGTGACACTTCA
1 GTGCAAGTGATAGTGACACTACA
49615822 GTGCAAAGTGATA
1 GTGC-AAGTGATA
49615835 TCCACACGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 15 0.48
23 14 0.45
24 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (23 bp):
GTGCAAGTGATAGTGACACTACA
Found at i:49616787 original size:11 final size:11
Alignment explanation
Indices: 49616771--49616802 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
49616761 GTAACTAATA
*
49616771 GATCCAAGTCT
1 GATCCAAATCT
49616782 GATCCAAATCT
1 GATCCAAATCT
49616793 GATCCAAATC
1 GATCCAAATC
49616803 GTAGGATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (11 bp):
GATCCAAATCT
Found at i:49627019 original size:31 final size:32
Alignment explanation
Indices: 49626981--49627043 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
49626971 AGGCAAATTA
49626981 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
49627012 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
49627044 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:49630325 original size:33 final size:31
Alignment explanation
Indices: 49630271--49630331 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
49630261 AATTAGAAAT
*
49630271 AAAAAAAAAGAAACCACAAAGGGAAAAAAAG
1 AAAAAAAAAGAAACCAAAAAGGGAAAAAAAG
* *
49630302 AAAAAAAAGAGAGAAGCAAAAAGGGGAAAA
1 AAAAAAAA-AGA-AACCAAAAAGGGAAAAA
49630332 GAAAAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 8 0.32
32 3 0.12
33 14 0.56
ACGTcount: A:0.72, C:0.07, G:0.21, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAGAAACCAAAAAGGGAAAAAAAG
Found at i:49630703 original size:32 final size:32
Alignment explanation
Indices: 49630662--49630725 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
49630652 AAAATAATAA
49630662 ACACTTAATTAAAATTGTTCCTTTTCGATTTG
1 ACACTTAATTAAAATTGTTCCTTTTCGATTTG
49630694 ACACTTAATTAAAATTGTTCCTTTTCGATTTG
1 ACACTTAATTAAAATTGTTCCTTTTCGATTTG
49630726 TCCAGGATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (32 bp):
ACACTTAATTAAAATTGTTCCTTTTCGATTTG
Found at i:49631153 original size:62 final size:59
Alignment explanation
Indices: 49631040--49631157 Score: 173
Period size: 62 Copynumber: 1.9 Consensus size: 59
49631030 ATCACTTTAA
* * * *
49631040 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
49631099 TATTAAAATAATAGAATATTTATCTATAAGATAAACATTAAATTAAATTTAATATTAAA
1 TATTAAAATAATAGAATATTTATC---AAGATAAACATTAAATTAAATTTAATATTAAA
49631158 ATAATCACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.42
62 30 0.58
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:49631220 original size:37 final size:36
Alignment explanation
Indices: 49631151--49631242 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 36
49631141 TTAAATTTAA
*
49631151 TATTAAAATAATCACTTTAATCTTAAATTAATA-AAATAC
1 TATTAAAATAAT-A-TTAAAT-TTAAATTAATATAAA-AC
* * *
49631190 TATTAAGATAAGTATTAAATTTAATTTAATATTAAAC
1 TATTAAAATAA-TATTAAATTTAAATTAATATAAAAC
49631227 TATTAAAATAATATTA
1 TATTAAAATAATATTA
49631243 TTTTTACAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.48
38 7 0.15
39 11 0.24
40 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (36 bp):
TATTAAAATAATATTAAATTTAAATTAATATAAAAC
Found at i:49636762 original size:13 final size:13
Alignment explanation
Indices: 49636744--49636774 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49636734 CACATGACTA
49636744 ATTTCATATAACC
1 ATTTCATATAACC
*
49636757 ATTTCATATATCC
1 ATTTCATATAACC
49636770 ATTTC
1 ATTTC
49636775 CATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:49637717 original size:17 final size:19
Alignment explanation
Indices: 49637683--49637720 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
49637673 TCTCTCTGTT
*
49637683 TTCTCTCTTTTTTCTTTTC
1 TTCTCTCTTTATTCTTTTC
49637702 TTCTC-CTTTATT-TTTTC
1 TTCTCTCTTTATTCTTTTC
49637719 TT
1 TT
49637721 TTTGTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTCTCTTTATTCTTTTC
Found at i:49644802 original size:17 final size:18
Alignment explanation
Indices: 49644770--49644803 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49644760 AAAGTGTTTT
49644770 CTCTTCTCTCTGTTTCCC
1 CTCTTCTCTCTGTTTCCC
*
49644788 CTCTT-TCTCTTTTTCC
1 CTCTTCTCTCTGTTTCC
49644804 TTTTTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.41, G:0.03, T:0.56
Consensus pattern (18 bp):
CTCTTCTCTCTGTTTCCC
Found at i:49653402 original size:46 final size:46
Alignment explanation
Indices: 49653312--49653425 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
49653302 AAACTGCCAA
*
49653312 TGGCTATGGATACACAACAAA-ATCCCTACAGACGAAATTAACCTT
1 TGGCTATGGATACACAACAAATATACCTACAGACGAAATTAACCTT
* * *
49653357 TGGCTATGGATTACACAACAAATA-ACCTATAGATGGAATCT-ACCTT
1 TGGCTATGGA-TACACAACAAATATACCTACAGACGAAAT-TAACCTT
* * *
49653403 TGGCTGTAGATACACAAAAAATA
1 TGGCTATGGATACACAACAAATA
49653426 CCCGCAAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
45 22 0.37
46 35 0.59
47 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (46 bp):
TGGCTATGGATACACAACAAATATACCTACAGACGAAATTAACCTT
Found at i:49655649 original size:20 final size:19
Alignment explanation
Indices: 49655605--49655661 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
49655595 AACACTATGA
* *
49655605 ACCACTCCATTCACTTTCTT
1 ACCA-TCCATTTACTTACTT
49655625 ACCATTCCATTTACTTACTT
1 ACCA-TCCATTTACTTACTT
*
49655645 TCCATCTCATTTACTTA
1 ACCATC-CATTTACTTA
49655662 GCATAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (19 bp):
ACCATCCATTTACTTACTT
Found at i:49658712 original size:13 final size:14
Alignment explanation
Indices: 49658682--49658714 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49658672 GTATTTAAAC
*
49658682 TAATTTTTTAATAT
1 TAATTTTTTAAGAT
49658696 TAATTTTTTAAGA-
1 TAATTTTTTAAGAT
49658709 TAATTT
1 TAATTT
49658715 AATTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TAATTTTTTAAGAT
Found at i:49658712 original size:19 final size:18
Alignment explanation
Indices: 49658690--49658740 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
49658680 ACTAATTTTT
49658690 TAATATTAATTTTTTAAGA
1 TAATATTAATTTTTTAA-A
49658709 TAAT-TTAATTATTTTTAAA
1 TAATATTAA-T-TTTTTAAA
49658728 T-ATATTAAATTTT
1 TAATATT-AATTTT
49658741 ATCTAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
18 9 0.32
19 10 0.36
20 9 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TAATATTAATTTTTTAAA
Found at i:49658738 original size:20 final size:20
Alignment explanation
Indices: 49658700--49658738 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49658690 TAATATTAAT
*
49658700 TTTTTAAGATAATTTAATTA
1 TTTTTAAGATAATTAAATTA
49658720 TTTTTAA-ATATATTAAATT
1 TTTTTAAGATA-ATTAAATT
49658739 TTATCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTTAAGATAATTAAATTA
Found at i:49659111 original size:23 final size:24
Alignment explanation
Indices: 49659068--49659112 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
49659058 AACACATTAT
49659068 ATATTATTTATAAAAATTATAAAA
1 ATATTATTTATAAAAATTATAAAA
49659092 ATATTA-TTATAATAAA-TATAA
1 ATATTATTTATAA-AAATTATAA
49659113 TATTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATTATTTATAAAAATTATAAAA
Found at i:49659671 original size:22 final size:23
Alignment explanation
Indices: 49659646--49659696 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
49659636 TTTAATTAAA
*
49659646 ATTAAAGAGAA-TATCATGTGTC
1 ATTAAAGAGAAGTATCACGTGTC
* *
49659668 ATTAAAGAGAAGTGTCACGTGTT
1 ATTAAAGAGAAGTATCACGTGTC
49659691 ATTAAA
1 ATTAAA
49659697 ATAAATCGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (23 bp):
ATTAAAGAGAAGTATCACGTGTC
Found at i:49660646 original size:41 final size:41
Alignment explanation
Indices: 49660541--49660646 Score: 101
Period size: 42 Copynumber: 2.5 Consensus size: 41
49660531 TTTTTATTTC
*
49660541 ATATTGTTTCAAACTTTTTTTATTTTTAAATTAATGTTTTGATG
1 ATATT-TTT-AAATTTTTTTTATTTTTAAATTAATGTTTT-ATG
* *
49660585 ATATTTTTTAATTATTTTTATTTTT-AATTAATGTATTT-T-
1 ATATTTTTAAATTTTTTTTATTTTTAAATTAATGT-TTTATG
*
49660624 TTATTTTTAAATATTTTATTTAT
1 ATATTTTTAAAT-TTTT-TTTAT
49660647 AAAATCAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
39 10 0.19
40 4 0.08
41 14 0.26
42 17 0.32
43 3 0.06
44 5 0.09
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (41 bp):
ATATTTTTAAATTTTTTTTATTTTTAAATTAATGTTTTATG
Found at i:49660869 original size:139 final size:142
Alignment explanation
Indices: 49660708--49660978 Score: 372
Period size: 141 Copynumber: 1.9 Consensus size: 142
49660698 TTGTAAAAAT
* * *
49660708 AATTAAAAAAAACTTGAAGCAACATGAAATAAAAAATAC-AAATGTAAGTAGTAGAAGAACCAAA
1 AATTAAAAAAAACTTGAAGCAACATGAAATAAAAAACACAAAATATAAGGAGTAGAAGAACCAAA
* *
49660772 CTCGAGACTCAAGGATA-TAATTACAACTATCTAACCATCTAA-TGAAA-AACTAGTATGTTAAA
66 CTCGAGACTCAAGGA-AGTAATTACAACTATCTAACAATCTAACT-AAATAACTAATATGTTAAA
49660834 AAACATTAATTAAA
129 AAACATTAATTAAA
* * * * *
49660848 AATT-AAAAAAATTTGAAGCAACATGAAATAAAAAACACATAAATATGAGGAGTAGAGGTATCAA
1 AATTAAAAAAAACTTGAAGCAACATGAAATAAAAAACACA-AAATATAAGGAGTAGAAGAACCAA
* *
49660912 ACTCGAGACTTAAGGAAGTAATTGCAACTATCTAACAATCTAACTAAATAACTAATATGTTAAAA
65 ACTCGAGACTCAAGGAAGTAATTACAACTATCTAACAATCTAACTAAATAACTAATATGTTAAAA
49660977 AA
130 AA
49660979 TTAAAAAGCT
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
139 32 0.28
140 5 0.04
141 59 0.52
142 18 0.16
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (142 bp):
AATTAAAAAAAACTTGAAGCAACATGAAATAAAAAACACAAAATATAAGGAGTAGAAGAACCAAA
CTCGAGACTCAAGGAAGTAATTACAACTATCTAACAATCTAACTAAATAACTAATATGTTAAAAA
ACATTAATTAAA
Found at i:49667574 original size:26 final size:25
Alignment explanation
Indices: 49667545--49667656 Score: 89
Period size: 28 Copynumber: 4.2 Consensus size: 25
49667535 ATGATTTTTG
*
49667545 TAAAATAGGGGAAAATTTATAAAATT
1 TAAAATAGGGGAAAA-CTATAAAATT
* * *
49667571 TAAAAAAATGGGCAAAACTATAAAATA
1 T-AAAATA-GGGGAAAACTATAAAATT
*
49667598 AAAAATAGGGGTAAAACTATAAAATT
1 TAAAATAGGGG-AAAACTATAAAATT
* * *
49667624 TAAAAAATAAAGGCAAAACTATAAAATC
1 T--AAAAT-AGGGGAAAACTATAAAATT
49667652 TAAAA
1 TAAAA
49667657 AATAGTGGCA
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
25 3 0.04
26 23 0.34
27 13 0.19
28 26 0.38
29 3 0.04
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.22
Consensus pattern (25 bp):
TAAAATAGGGGAAAACTATAAAATT
Found at i:49667608 original size:53 final size:55
Alignment explanation
Indices: 49667546--49667671 Score: 168
Period size: 53 Copynumber: 2.3 Consensus size: 55
49667536 TGATTTTTGT
**
49667546 AAAATAGGGGAAAATTTATAAAATTTAAAAAA-ATGGGCAAAACTATAAAA-TAA
1 AAAATAGGGGAAAATTTATAAAATTTAAAAAATAAAGGCAAAACTATAAAACTAA
*
49667599 AAAATAGGGGTAAAA-CTATAAAATTTAAAAAATAAAGGCAAAACTATAAAATCTAA
1 AAAATAGGGG-AAAATTTATAAAATTTAAAAAATAAAGGCAAAACTATAAAA-CTAA
*
49667655 AAAATAGTGGCAAAATT
1 AAAATAG-GGGAAAATT
49667672 GTAAAATCTG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
53 26 0.42
54 20 0.32
56 14 0.23
57 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.22
Consensus pattern (55 bp):
AAAATAGGGGAAAATTTATAAAATTTAAAAAATAAAGGCAAAACTATAAAACTAA
Found at i:49667639 original size:54 final size:54
Alignment explanation
Indices: 49667546--49667692 Score: 165
Period size: 53 Copynumber: 2.7 Consensus size: 54
49667536 TGATTTTTGT
* **
49667546 AAAATAGGGGAAAATTTATAAAATTTAAAAAAATGGGCAAAACTATAAAA-TAA
1 AAAATAGGGGAAAATCTATAAAATTTAAAAAAAAAGGCAAAACTATAAAACTAA
49667599 AAAATAGGGGTAAAA-CTATAAAATTTAAAAAATAAAGGCAAAACTATAAAATCTAA
1 AAAATAGGGG-AAAATCTATAAAATTTAAAAAA-AAAGGCAAAACTATAAAA-CTAA
* * * *
49667655 AAAATAGTGGCAAAAT-TGTAAAATCTGAAAAACAAAGG
1 AAAATAG-GGGAAAATCTATAAAAT-TTAAAAAAAAAGG
49667693 ACACATGGCC
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
53 26 0.32
54 20 0.25
56 26 0.32
57 8 0.10
ACGTcount: A:0.59, C:0.06, G:0.14, T:0.21
Consensus pattern (54 bp):
AAAATAGGGGAAAATCTATAAAATTTAAAAAAAAAGGCAAAACTATAAAACTAA
Found at i:49667659 original size:28 final size:28
Alignment explanation
Indices: 49667562--49667692 Score: 124
Period size: 28 Copynumber: 4.8 Consensus size: 28
49667552 GGGGAAAATT
* **
49667562 TATAAAATTTAAAAAA-ATGGGCAAAAC
1 TATAAAATCTAAAAAATAAAGGCAAAAC
** *
49667589 TATAAAA--TAAAAAATAGGGGTAAAAC
1 TATAAAATCTAAAAAATAAAGGCAAAAC
*
49667615 TATAAAATTTAAAAAATAAAGGCAAAAC
1 TATAAAATCTAAAAAATAAAGGCAAAAC
** *
49667643 TATAAAATCTAAAAAATAGTGGCAAAAT
1 TATAAAATCTAAAAAATAAAGGCAAAAC
* * *
49667671 TGTAAAATCTGAAAAACAAAGG
1 TATAAAATCTAAAAAATAAAGG
49667693 ACACATGGCC
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
25 7 0.08
26 16 0.18
27 7 0.08
28 57 0.66
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (28 bp):
TATAAAATCTAAAAAATAAAGGCAAAAC
Found at i:49667686 original size:56 final size:54
Alignment explanation
Indices: 49667546--49667692 Score: 154
Period size: 56 Copynumber: 2.7 Consensus size: 54
49667536 TGATTTTTGT
* * **
49667546 AAAATAGGGG-AAAATTTATAAAATTTAAAAAA-ATGGGCAAAACTATAAAATAA
1 AAAATAGGGGCAAAA-CTATAAAATCTAAAAAACAAAGGCAAAACTATAAAATAA
* * *
49667599 AAAATAGGGGTAAAACTATAAAATTTAAAAAATAAAGGCAAAACTATAAAATCTAA
1 AAAATAGGGGCAAAACTATAAAATCTAAAAAACAAAGGCAAAACTATAAAA--TAA
* * * *
49667655 AAAATAGTGGCAAAATTGTAAAATCTGAAAAACAAAGG
1 AAAATAGGGGCAAAACTATAAAATCTAAAAAACAAAGG
49667693 ACACATGGCC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 26 0.32
54 20 0.25
56 34 0.43
ACGTcount: A:0.59, C:0.06, G:0.14, T:0.21
Consensus pattern (54 bp):
AAAATAGGGGCAAAACTATAAAATCTAAAAAACAAAGGCAAAACTATAAAATAA
Found at i:49668089 original size:71 final size:71
Alignment explanation
Indices: 49667970--49668101 Score: 230
Period size: 71 Copynumber: 1.9 Consensus size: 71
49667960 ATAAATGCCT
*
49667970 CTAAAGGTCATGTTCTTTAGCGGCGCTTTTCTTACAAACGCAGCTAAAGGTCATGTTCTTTGGAA
1 CTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGCAGCTAAAGGTCATGTTCTTTGGAA
49668035 GCACCG
66 GCACCG
*
49668041 CTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGTC-GTTAAAGGTCATGTTCTTT
1 CTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACG-CAGCTAAAGGTCATGTTCTTT
49668102 AGCGGTGCTT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 57 0.98
72 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (71 bp):
CTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGCAGCTAAAGGTCATGTTCTTTGGAA
GCACCG
Found at i:49668103 original size:43 final size:43
Alignment explanation
Indices: 49668039--49668254 Score: 282
Period size: 43 Copynumber: 5.1 Consensus size: 43
49668029 TTGGAAGCAC
49668039 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGT
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGT
* *
49668082 CGTTAAAGGTCATGTTCTTTAGCGGTGCTTTTTCC-ACAAACG-
1 CGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTTCCTACAAACGT
* *
49668124 CTGCTAAAGGTCATGTT-TTTAGCGTCGC-TTTCCTTCAAACGT
1 C-GCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGT
* *
49668166 CGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCCACAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGT
* * *
49668208 CGCTAAAGGTCATGTTCTTTAGAGACGCTTTT-CTCACAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCT-ACAAACGT
49668251 CGCT
1 CGCT
49668255 TGTAACACCC
Statistics
Matches: 153, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
40 5 0.03
41 21 0.14
42 59 0.39
43 62 0.41
44 6 0.04
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (43 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGT
Found at i:49668183 original size:84 final size:84
Alignment explanation
Indices: 49668038--49668254 Score: 310
Period size: 84 Copynumber: 2.6 Consensus size: 84
49668028 TTTGGAAGCA
* *
49668038 CCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGTCGTTAAAGGTCATGTTCTTTA
1 CCGCTAAAGGTCATGTTCTTTAGCGACGC-TTTCCTACAAACGTCGCTAAAGGTCATGTTCTTTA
* *
49668103 GCGGTGCTTTTTCCACAAACG
65 GCGGCGC-TTTCCCACAAACG
* * *
49668124 CTGCTAAAGGTCATGTT-TTTAGCGTCGCTTTCCTTCAAACGTCGCTAAAGGTCATGTTCTTTAG
1 CCGCTAAAGGTCATGTTCTTTAGCGACGCTTTCCTACAAACGTCGCTAAAGGTCATGTTCTTTAG
49668188 CGGCGCTTTCCCACAAACG
66 CGGCGCTTTCCCACAAACG
* * *
49668207 CCGCTAAAGGTCATGTTCTTTAGAGACGCTTTTCTCACAAACGCCGCT
1 CCGCTAAAGGTCATGTTCTTTAGCGACGCTTTCCT-ACAAACGTCGCT
49668255 TGTAACACCC
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
83 28 0.24
84 53 0.45
85 20 0.17
86 16 0.14
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (84 bp):
CCGCTAAAGGTCATGTTCTTTAGCGACGCTTTCCTACAAACGTCGCTAAAGGTCATGTTCTTTAG
CGGCGCTTTCCCACAAACG
Found at i:49668187 original size:42 final size:42
Alignment explanation
Indices: 49668039--49668254 Score: 276
Period size: 42 Copynumber: 5.1 Consensus size: 42
49668029 TTGGAAGCAC
49668039 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTACAAACGT
1 CGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCTACAAACGT
* *
49668082 CGTTAAAGGTCATGTTCTTTAGCGGTGCTTTTTCC-ACAAACG-
1 CGCTAAAGGTCATGTTCTTTAGCGGCGC--TTTCCTACAAACGT
* *
49668124 CTGCTAAAGGTCATGTT-TTTAGCGTCGCTTTCCTTCAAACGT
1 C-GCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTACAAACGT
* *
49668166 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCACAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTACAAACGT
* * * *
49668208 CGCTAAAGGTCATGTTCTTTAGAGACGCTTTTCTCACAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCT-ACAAACGT
49668251 CGCT
1 CGCT
49668255 TGTAACACCC
Statistics
Matches: 153, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
40 5 0.03
41 21 0.14
42 62 0.41
43 59 0.39
44 6 0.04
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (42 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTACAAACGT
Found at i:49669750 original size:28 final size:29
Alignment explanation
Indices: 49669718--49669816 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
49669708 ATAATAAGCC
*
49669718 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
49669746 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
49669774 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
49669803 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49669817 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:49671865 original size:21 final size:21
Alignment explanation
Indices: 49671841--49671911 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
49671831 TTCTGCTCTG
49671841 CTCTGCTTCTCTTGCTGTAGC
1 CTCTGCTTCTCTTGCTGTAGC
* **
49671862 CTCTGCTTCTCTCGCTACAGC
1 CTCTGCTTCTCTTGCTGTAGC
* ** *
49671883 CTCTGCTTCCCTTATTGTTGC
1 CTCTGCTTCTCTTGCTGTAGC
49671904 CTCTGCTT
1 CTCTGCTT
49671912 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.06, C:0.37, G:0.15, T:0.42
Consensus pattern (21 bp):
CTCTGCTTCTCTTGCTGTAGC
Found at i:49675458 original size:232 final size:234
Alignment explanation
Indices: 49675025--49675485 Score: 626
Period size: 232 Copynumber: 2.0 Consensus size: 234
49675015 AAATAAATAA
* * * **
49675025 TTCTAAAATTTTTCTAAGTTAAAAATCGTTTACGGAAACGGCGTCATTTAGCCATTACTTTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTATACAGAAACGACACCATTTAGCCATTACTTTAATA
* * *
49675090 CCCTTTTGCAGTGTTTTCGGTACAAACGCCGCTATTGCTTCCACAGTTCTGGCATTTTTCCTAAA
66 CCCTTTTGCAGCGTTTTCGGTAAAAACGCCGCTATTGCTTCCACAATTCTGGCATTTTTCCTAAA
* * * * * *
49675155 AACGCCACTAAATATTAAAGTTGTAAAGGGAAACGGCGTCGTTTTTTTGGTCTCAAATTGCATTG
131 AACGCCACTAAATATTAAAGTTGTAAAGAGAAACGACGCCGTTTTGTTAGTCTCAAATTGCATTA
*
49675220 TTTCTGGCGTTTTATGTAAAAACGCCACTAATACTTAGT
196 TTTCTGGCATTTTATGTAAAAACGCCACTAATACTTAGT
* *
49675259 TTCTAAAATTTTTCTAAGTTAAAAATCGTATACAGAAACGACACCGTTTA-CACATTATTTTAAT
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTATACAGAAACGACACCATTTAGC-CATTACTTTAAT
* ** * *
49675323 A-CCTTTTGCGGCGTTTTTTGTAAAAATGCCGCTATTGCTTCCACATATTC-GGCGTTTTT-CTA
65 ACCCTTTTGCAGCGTTTTCGGTAAAAACGCCGCTATTGCTTCCACA-ATTCTGGCATTTTTCCTA
* * *
49675385 AAAACGCCACTAAA-AGTTCAAGTTTTAAATAGAAACGACGCCGTTTTGTTAGTCTCAAATTGCA
129 AAAACGCCACTAAATA-TTAAAGTTGTAAAGAGAAACGACGCCGTTTTGTTAGTCTCAAATTGCA
*
49675449 TTATTTCTGGCATTTTATGTAAAAACGCCTCTAATAC
193 TTATTTCTGGCATTTTATGTAAAAACGCCACTAATAC
49675486 CTAATTTACT
Statistics
Matches: 198, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
231 1 0.01
232 91 0.46
233 47 0.24
234 59 0.30
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (234 bp):
TTCTAAAATTTTTCTAAGTTAAAAATCGTATACAGAAACGACACCATTTAGCCATTACTTTAATA
CCCTTTTGCAGCGTTTTCGGTAAAAACGCCGCTATTGCTTCCACAATTCTGGCATTTTTCCTAAA
AACGCCACTAAATATTAAAGTTGTAAAGAGAAACGACGCCGTTTTGTTAGTCTCAAATTGCATTA
TTTCTGGCATTTTATGTAAAAACGCCACTAATACTTAGT
Found at i:49675744 original size:270 final size:269
Alignment explanation
Indices: 49675259--49675943 Score: 865
Period size: 270 Copynumber: 2.5 Consensus size: 269
49675249 AATACTTAGT
* ** *
49675259 TTCTAAAATTTTTCTAAGTTAAAAATCGTATACAGAAACGACACCGTTTACACATTATTTTAATA
1 TTCT-AAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGACGTCGTTTACACAATATTTTAATA
* * * *
49675324 -CCTTTTGCGGCGTTTTTTGTAAAAATGCCGCTATTGCTTCCACATATTCGGCGTTTTTCTAAAA
65 CCCTTTTGCGGCGTTTTTTGTAAAAAAGCCACTATTGCTTCCACATATTCGGCGTTTTGCCAAAA
* * * *
49675388 ACGCCACTAAAAGTTCAAGTTTTAAATAGAAACGACGCCGTTTTGTTAGTCTCAAATTGCATTAT
130 ACGCCACAAAAAGTTAAAGTTGTAAATAGAAACGACGCCGTTTTGCTAGTCTCAAATTGCATTAT
* ** *
49675453 TTCTGGCATTTTATGTAAAAACGCCTCTAATACCTAATTTACTTTAACCCAAACGGTGATGTTTT
195 TTCTGGCATTTTATGTAAAAACGCCACTAATACCTAACGTACTTTAACCCAAACGGTGACGTTTT
49675518 AAATAAATAA
260 AAATAAATAA
* * * *
49675528 TTCTCAAATTTTTCTAAGTTAAAAATCGTGTACAGAAATGGCGTCGTTTAGACACTATTTTAATA
1 TTCT-AAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGACGTCGTTTACACAATATTTTAATA
** * * *
49675593 CCCTTTTGCGGCGTTTACTGTACAAACGCCACTATTGCTTCCA-A-AGTTCCGGTGTTTTGCCAA
65 CCCTTTTGCGGCGTTTTTTGTAAAAAAGCCACTATTGCTTCCACATA-TT-CGGCGTTTTGCCAA
* *
49675656 AAACGCCACAAAAATTTAAAGTTGTAAATAGAAACGGCGCCGTTTTGCTAGTCTCAAATTGCATT
128 AAACGCCACAAAAAGTTAAAGTTGTAAATAGAAACGACGCCGTTTTGCTAGTCTCAAATTGCATT
* * * * *
49675721 GTTTCTGGCGTTTTATGTAAAAACGCCACTAATACTTAACGTACTTTAAGCCAAACTGTGACGTT
193 ATTTCTGGCATTTTATGTAAAAACGCCACTAATACCTAACGTACTTTAACCCAAACGGTGACGTT
*
49675786 TTAAGTAAATAA
258 TTAAATAAATAA
* * * * * *
49675798 TTCTAAACTTTTTATAAGTTAAAAATCGTGGAGAGAAACGACGTCGTTTACTCAAAATTTTAAGA
1 TTCTAAA-TTTTTCTAAGTTAAAAATCGTGTACAGAAACGACGTCGTTTACACAATATTTTAATA
* * * ***
49675863 CACTTTTGCGGCATTTTTTGTAAAAAAGCCACTAATGCATTCCACAT-TTCTGGCGTTTTAATAA
65 CCCTTTTGCGGCGTTTTTTGTAAAAAAGCCACTATTGC-TTCCACATATTC-GGCGTTTTGCCAA
*
49675927 AAACGCCACTAAAAGTT
128 AAACGCCACAAAAAGTT
49675944 TAACTATTCA
Statistics
Matches: 353, Mismatches: 55, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
268 1 0.00
269 63 0.18
270 257 0.73
271 31 0.09
272 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (269 bp):
TTCTAAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGACGTCGTTTACACAATATTTTAATAC
CCTTTTGCGGCGTTTTTTGTAAAAAAGCCACTATTGCTTCCACATATTCGGCGTTTTGCCAAAAA
CGCCACAAAAAGTTAAAGTTGTAAATAGAAACGACGCCGTTTTGCTAGTCTCAAATTGCATTATT
TCTGGCATTTTATGTAAAAACGCCACTAATACCTAACGTACTTTAACCCAAACGGTGACGTTTTA
AATAAATAA
Found at i:49675999 original size:270 final size:265
Alignment explanation
Indices: 49675259--49676022 Score: 854
Period size: 270 Copynumber: 2.8 Consensus size: 265
49675249 AATACTTAGT
* ** *
49675259 TTCTAAAATTTTTCTAAGTTAAAAATCGTATACAGAAACGACACCGTTTACACATTATTTTAATA
1 TTCT-AAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGACGTCGTTTACACAATATTTTAATA
* * *
49675324 CCTTTTGCGGCGTTTTTTGTAAAAATGCCGCTATTGCTTCCACATATTCGGCGTTTTTCTAAAAA
65 CCTTTTGCGGCGTTTTTTGTAAAAAAGCCACTATTGCTTCCACAT-TTCGGCGTTTTACTAAAAA
* * * *
49675389 CGCCACTAAAAGTTCAAGTTTTAAATAGAAACGACGCCGTTTTGTTAGTCTCAAATTGCATTATT
129 CGCCACTAAAAGTTTAAG-TTTAAATAGAAACGGCGCCGTTTTCTTAGTCTCAAATTGCA-TAGT
* * ** *
49675454 TCTGGCATTTTATGTAAAAACGCCTCTAATACCTAATTTACTTTAACCCAAACGGTGATGTTTTA
192 TCTGGCGTTTTATGTAAAAACGCCACTAATACCTAACGTACTTTAACCCAAACGGTGACGTTTTA
49675519 AATAAATAA
257 AATAAATAA
* * * *
49675528 TTCTCAAATTTTTCTAAGTTAAAAATCGTGTACAGAAATGGCGTCGTTTAGACACTATTTTAATA
1 TTCT-AAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGACGTCGTTTACACAATATTTTAATA
** * * * * * * *
49675593 CCCTTTTGCGGCGTTTACTGTACAAACGCCACTATTGCTTCCAAAGTTCCGGTGTTTTGCCAAAA
65 -CCTTTTGCGGCGTTTTTTGTAAAAAAGCCACTATTGCTTCCACA-TTTCGGCGTTTTACTAAAA
* *
49675658 ACGCCAC-AAAAATTTAAAGTTGTAAATAGAAACGGCGCCGTTTTGC-TAGTCTCAAATTGCATT
128 ACGCCACTAAAAGTTT-AAGTT-TAAATAGAAACGGCGCCGTTTT-CTTAGTCTCAAATTGCATA
* * *
49675721 GTTTCTGGCGTTTTATGTAAAAACGCCACTAATACTTAACGTACTTTAAGCCAAACTGTGACGTT
190 G-TTCTGGCGTTTTATGTAAAAACGCCACTAATACCTAACGTACTTTAACCCAAACGGTGACGTT
*
49675786 TTAAGTAAATAA
254 TTAAATAAATAA
* * * * * *
49675798 TTCTAAACTTTTTATAAGTTAAAAATCGTGGAGAGAAACGACGTCGTTTACTCAAAATTTTAAGA
1 TTCTAAA-TTTTTCTAAGTTAAAAATCGTGTACAGAAACGACGTCGTTTACACAATATTTTAATA
* * *
49675863 CACTTTTGCGGCATTTTTTGTAAAAAAGCCACTAATGCATTCCACATTTCTGGCGTTTTAATAAA
65 C-CTTTTGCGGCGTTTTTTGTAAAAAAGCCACTATTGC-TTCCACATTTC-GGCGTTTTACTAAA
* * * *
49675928 AACGCCACTAAAAGTTTAACTATTCATTCAGAAACGGCACCGTTTTCTTAAG-CT-ATAA-TGCA
127 AACGCCACTAAAAGTTTAAGT-TTAAAT-AGAAACGGCGCCGTTTTCTT-AGTCTCA-AATTGCA
* * * *
49675990 TAGTTCTGGCGTTTTCTTTGAAAACACCACTAA
188 TAGTTCTGGCGTTTTATGTAAAAACGCCACTAA
49676023 AATTTAATTC
Statistics
Matches: 414, Mismatches: 65, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
269 70 0.17
270 274 0.66
271 39 0.09
272 29 0.07
273 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (265 bp):
TTCTAAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGACGTCGTTTACACAATATTTTAATAC
CTTTTGCGGCGTTTTTTGTAAAAAAGCCACTATTGCTTCCACATTTCGGCGTTTTACTAAAAACG
CCACTAAAAGTTTAAGTTTAAATAGAAACGGCGCCGTTTTCTTAGTCTCAAATTGCATAGTTCTG
GCGTTTTATGTAAAAACGCCACTAATACCTAACGTACTTTAACCCAAACGGTGACGTTTTAAATA
AATAA
Found at i:49676398 original size:22 final size:23
Alignment explanation
Indices: 49676356--49676406 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
49676346 CTTAAATCAT
* *
49676356 TAACCCATTAAACCCTTAACCCG
1 TAACCCATTAAACCCTAAACCCC
*
49676379 TAACCC-TTAAATCCTAAACCCC
1 TAACCCATTAAACCCTAAACCCC
49676401 TAACCC
1 TAACCC
49676407 CTAACCCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.35, C:0.41, G:0.02, T:0.22
Consensus pattern (23 bp):
TAACCCATTAAACCCTAAACCCC
Found at i:49676406 original size:29 final size:29
Alignment explanation
Indices: 49676364--49676427 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
49676354 ATTAACCCAT
* *
49676364 TAAACCCTTAACCCGTAACCCTTAAATCC
1 TAAACCCCTAACCCCTAACCCTTAAATCC
*
49676393 TAAACCCCTAACCCCTAACCCTTATATCC
1 TAAACCCCTAACCCCTAACCCTTAAATCC
*
49676422 CAAACC
1 TAAACC
49676428 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.42, G:0.02, T:0.22
Consensus pattern (29 bp):
TAAACCCCTAACCCCTAACCCTTAAATCC
Found at i:49676409 original size:15 final size:15
Alignment explanation
Indices: 49676364--49676416 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 15
49676354 ATTAACCCAT
*
49676364 TAAACCCTTAACCCG
1 TAAACCCTTAACCCC
**
49676379 T-AACCCTTAAATCC
1 TAAACCCTTAACCCC
*
49676393 TAAACCCCTAACCCC
1 TAAACCCTTAACCCC
49676408 T-AACCCTTA
1 TAAACCCTTA
49676417 TATCCCAAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.34, C:0.42, G:0.02, T:0.23
Consensus pattern (15 bp):
TAAACCCTTAACCCC
Found at i:49676645 original size:35 final size:36
Alignment explanation
Indices: 49676573--49676648 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
49676563 CAATATTATC
**
49676573 TTTATAATATTTATTTTATTTGTATAAAGTTTGAAA
1 TTTATAATATTTATTTTATTTGTATAAAGAATGAAA
49676609 TTTATAATATTTTATTTTA-TTG-ATAAATGAAT-AAA
1 TTTATAATA-TTTATTTTATTTGTATAAA-GAATGAAA
49676644 TTTAT
1 TTTAT
49676649 CTAATTAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
35 13 0.36
36 14 0.39
37 9 0.25
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (36 bp):
TTTATAATATTTATTTTATTTGTATAAAGAATGAAA
Found at i:49677697 original size:82 final size:82
Alignment explanation
Indices: 49677600--49677750 Score: 187
Period size: 83 Copynumber: 1.8 Consensus size: 82
49677590 GCACTTTAAC
* * * * * * *
49677600 AAAACGCCGCTAAAACCCCTAGAATTAGCGGCGGTTA-CTAAAAAAGCCGCTAAAAGTCTGAGCA
1 AAAACGCAGCTAAAACCCCGACAATTAGCGGCGCTTACCTAAAAAAGCAGCTAAAAGCCAGAGCA
49677664 TTAGTGGCACTTAATAA
66 TTAGTGGCACTTAATAA
* * * *
49677681 AAAACGCAGCTAAAAACCCGGACCATTAGCGGCGCTTACCTAAAAACGCAGCTAATAGCCAGAGC
1 AAAACGCAGCT-AAAACCCCGACAATTAGCGGCGCTTACCTAAAAAAGCAGCTAAAAGCCAGAGC
49677746 ATTAG
65 ATTAG
49677751 CGGCGCTACG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 10 0.18
82 21 0.37
83 26 0.46
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (82 bp):
AAAACGCAGCTAAAACCCCGACAATTAGCGGCGCTTACCTAAAAAAGCAGCTAAAAGCCAGAGCA
TTAGTGGCACTTAATAA
Found at i:49677766 original size:41 final size:42
Alignment explanation
Indices: 49677600--49677770 Score: 122
Period size: 41 Copynumber: 4.2 Consensus size: 42
49677590 GCACTTTAAC
* * *
49677600 AAAACGCCGCTAAAACCCCTAGA--ATTAGCGGCGGTTAC-TA
1 AAAACGCAGCTAAAAACCC-AGACCATTAGCGGCGCTTACATA
* * ** * * * *
49677640 AAAAAGCCGCT-AAAAGTCTGAGCATTAGTGGCACTTA-ATAA
1 AAAACGCAGCTAAAAACCCAGACCATTAGCGGCGCTTACAT-A
* *
49677681 AAAACGCAGCTAAAAACCCGGACCATTAGCGGCGCTTACCTA
1 AAAACGCAGCTAAAAACCCAGACCATTAGCGGCGCTTACATA
* * *
49677723 AAAACGCAGCT-AATAGCCAGAGCATTAGCGGCGC-TACGATA
1 AAAACGCAGCTAAAAACCCAGACCATTAGCGGCGCTTAC-ATA
49677764 AAAACGC
1 AAAACGC
49677771 CACTAATTCC
Statistics
Matches: 102, Mismatches: 22, Indels: 13
0.74 0.16 0.09
Matches are distributed among these distances:
38 2 0.02
39 4 0.04
40 25 0.25
41 38 0.37
42 32 0.31
43 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.16
Consensus pattern (42 bp):
AAAACGCAGCTAAAAACCCAGACCATTAGCGGCGCTTACATA
Found at i:49678074 original size:123 final size:123
Alignment explanation
Indices: 49677770--49678097 Score: 462
Period size: 123 Copynumber: 2.7 Consensus size: 123
49677760 GATAAAAACG
* * * **
49677770 CCACTAATTCCCACGAAAGGCCACCAAACGACGCCATTGGCTTTTATTATTTGCGGTGTTTTCCT
1 CCACTAAATCCCCCGAAAGGCCACCAAACGACGCCGTTGGCTTTTATTATTTGCGGCATTTTCCT
* ** *
49677835 GAAAAACGCCACTAATGGTTATCTTTGGCGGCGTTTTTATGGAAACGCCGCTAATGCT
66 GAAAAACGCCACTAATGGATATCTTTGGCGGCAATTTTAGGGAAACGCCGCTAATGCT
*
49677893 CCACTAAATCCCCCCGAAAGGCCACCAAACGACGCCGTTGGCTTTTATTATTTACGGCATTTTCC
1 CCACTAAAT-CCCCCGAAAGGCCACCAAACGACGCCGTTGGCTTTTATTATTTGCGGCATTTTCC
* * *
49677958 TGAAAAACGCCACTAAT-GATATTTTTTGCGGCAATTTTAGGGTAACGCCGCTAATGCT
65 TGAAAAACGCCACTAATGGATATCTTTGGCGGCAATTTTAGGGAAACGCCGCTAATGCT
* * *
49678016 CCACTAAATCCCCCGAAAGGCCACTAAACGACGCCGTTGGGTTTTATTATTTTGCGGCATTTTTG
1 CCACTAAATCCCCCGAAAGGCCACCAAACGACGCCGTTGGCTTTTATTA-TTTGCGGCA-TTTTC
*
49678081 CT-AAAAACGTCACTAAT
64 CTGAAAAACGCCACTAAT
49678098 CCTTTTTCTT
Statistics
Matches: 184, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
122 38 0.21
123 73 0.40
124 73 0.40
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (123 bp):
CCACTAAATCCCCCGAAAGGCCACCAAACGACGCCGTTGGCTTTTATTATTTGCGGCATTTTCCT
GAAAAACGCCACTAATGGATATCTTTGGCGGCAATTTTAGGGAAACGCCGCTAATGCT
Found at i:49678259 original size:15 final size:17
Alignment explanation
Indices: 49678239--49678271 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
49678229 TTGGTAGAGA
49678239 ATTGATTT-AT-TCGAG
1 ATTGATTTGATATCGAG
49678254 ATTGATTTGATATCGAG
1 ATTGATTTGATATCGAG
49678271 A
1 A
49678272 GAAAAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGATTTGATATCGAG
Found at i:49681806 original size:28 final size:28
Alignment explanation
Indices: 49681770--49681823 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
49681760 TGTATCAACC
49681770 ATTTCTCCTTTCGACACCTATCCAAATA
1 ATTTCTCCTTTCGACACCTATCCAAATA
* **
49681798 ATTTTTCCTTTTTACACCTATCCAAA
1 ATTTCTCCTTTCGACACCTATCCAAA
49681824 AAACAAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.41
Consensus pattern (28 bp):
ATTTCTCCTTTCGACACCTATCCAAATA
Found at i:49681855 original size:13 final size:14
Alignment explanation
Indices: 49681835--49681872 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
49681825 AACAAAGCTA
49681835 TCTTTTTATTTTTC
1 TCTTTTTATTTTTC
49681849 T-TTTTTATTTTTC
1 TCTTTTTATTTTTC
49681862 TCTTTTT-TTTT
1 TCTTTTTATTTT
49681873 GAGATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (14 bp):
TCTTTTTATTTTTC
Found at i:49685078 original size:20 final size:20
Alignment explanation
Indices: 49685053--49685099 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
49685043 CGTAATGGAT
49685053 GAATGGACGAATTGAACGAG
1 GAATGGACGAATTGAACGAG
* *
49685073 GAATGGATGAATTGGACGAG
1 GAATGGACGAATTGAACGAG
49685093 GAATGGA
1 GAATGGA
49685100 GTTACCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.38, T:0.17
Consensus pattern (20 bp):
GAATGGACGAATTGAACGAG
Found at i:49689800 original size:19 final size:19
Alignment explanation
Indices: 49689776--49689813 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
49689766 TTGGCCATGT
49689776 AACCCTTCCACACAGCCTC
1 AACCCTTCCACACAGCCTC
*
49689795 AACCCTTTCACACAGCCTC
1 AACCCTTCCACACAGCCTC
49689814 GAGTCACGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.50, G:0.05, T:0.18
Consensus pattern (19 bp):
AACCCTTCCACACAGCCTC
Found at i:49691365 original size:27 final size:27
Alignment explanation
Indices: 49691292--49691433 Score: 133
Period size: 27 Copynumber: 5.0 Consensus size: 27
49691282 TACGACCATG
* *
49691292 TGCCCCTATTTTTCAGATTTTACAATTT
1 TGCCCCTATTTTT-AGATTTTATACTTT
**
49691320 TGCCTATTATTTTTAGATTTTATACTTT
1 TGCC-CCTATTTTTAGATTTTATACTTT
*
49691348 TGCCCCTATTTTTAGATTTTATAGTTT
1 TGCCCCTATTTTTAGATTTTATACTTT
49691375 TGCCCCTATTTTTTTAGATTTT-TACAATTT
1 TGCCCCTA--TTTTTAGATTTTATAC--TTT
* * *
49691405 TGACCTTATTTTTCAAATTTTATAGCTTT
1 TGCCCCTATTTTT-AGATTTTATA-CTTT
49691434 ACCTAAAATT
Statistics
Matches: 95, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
27 28 0.29
28 27 0.28
29 28 0.29
30 11 0.12
31 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (27 bp):
TGCCCCTATTTTTAGATTTTATACTTT
Found at i:49691389 original size:56 final size:56
Alignment explanation
Indices: 49691292--49691438 Score: 174
Period size: 56 Copynumber: 2.6 Consensus size: 56
49691282 TACGACCATG
* *
49691292 TGCCCCTATTTTTCAGATTTTACAATTTTGCCTATTATTTTTAGATTTTATAC-TTT
1 TGCCCCTATTTTTCAGATTTTATAGTTTTGCCTATTATTTTTAGATTTT-TACATTT
49691348 TGCCCCTATTTTT-AGATTTTATAGTTTTGCCCCTATT-TTTTTAGATTTTTACAATTT
1 TGCCCCTATTTTTCAGATTTTATAGTTTTG--CCTATTATTTTTAGATTTTTAC-ATTT
* * * * *
49691405 TGACCTTATTTTTCAAATTTTATAGCTTTACCTA
1 TGCCCCTATTTTTCAGATTTTATAGTTTTGCCTA
49691439 AAATTTTATG
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
55 17 0.22
56 29 0.37
57 20 0.25
58 13 0.16
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.54
Consensus pattern (56 bp):
TGCCCCTATTTTTCAGATTTTATAGTTTTGCCTATTATTTTTAGATTTTTACATTT
Found at i:49691425 original size:28 final size:27
Alignment explanation
Indices: 49691292--49691426 Score: 135
Period size: 28 Copynumber: 4.8 Consensus size: 27
49691282 TACGACCATG
49691292 TGCCCCTATTTTTCAGATTTTACAATTT
1 TGCCCCTATTTTT-AGATTTTACAATTT
** * *
49691320 TGCCTATTATTTTTAGATTTTATACTTT
1 TGCC-CCTATTTTTAGATTTTACAATTT
* *
49691348 TGCCCCTATTTTTAGATTTTATAGTTT
1 TGCCCCTATTTTTAGATTTTACAATTT
49691375 TGCCCCTATTTTTTTAGATTTTTACAATTT
1 TGCCCCTA--TTTTTAGA-TTTTACAATTT
* * *
49691405 TGACCTTATTTTTCAAATTTTA
1 TGCCCCTATTTTT-AGATTTTA
49691427 TAGCTTTACC
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
27 28 0.31
28 30 0.33
29 17 0.19
30 15 0.17
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (27 bp):
TGCCCCTATTTTTAGATTTTACAATTT
Found at i:49696652 original size:40 final size:39
Alignment explanation
Indices: 49696509--49696729 Score: 210
Period size: 40 Copynumber: 5.6 Consensus size: 39
49696499 CTCGTTCAAG
* * * * *
49696509 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
* * *
49696548 TGCCTTCGGGACATAACCCGGATTCAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
*
49696588 TGCCTTTGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
* *
49696628 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
* ** * * * *
49696668 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAA
* *
49696708 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
49696730 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 34 0.22
40 112 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
Found at i:49696738 original size:41 final size:41
Alignment explanation
Indices: 49696661--49696738 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
49696651 TTAGTATCTC
* * *
49696661 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
49696702 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
49696739 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:49708689 original size:29 final size:28
Alignment explanation
Indices: 49708654--49708729 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 28
49708644 ATGAGATTGA
49708654 CACTAAGTGTGCGGGTTTAAATTGTACA-G
1 CACTAAGTGTGCGGGTTTAAA--GTACAGG
*
49708683 CACTAAGTGTGCGAGTTTAAAGTACATGG
1 CACTAAGTGTGCGGGTTTAAAGTACA-GG
49708712 CACTAAGTGTGCGTGGTT
1 CACTAAGTGTGCG-GGTT
49708730 GATTATTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGGGTTTAAAGTACAGG
Found at i:49708947 original size:174 final size:174
Alignment explanation
Indices: 49708682--49709009 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
49708672 AAATTGTACA
*
49708682 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
49708747 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
49708812 TTTTGGACAGTGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
49708856 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
49708921 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
49708986 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
49709010 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:49716839 original size:29 final size:30
Alignment explanation
Indices: 49716777--49716849 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
49716767 GTCATGAGAT
*
49716777 TGGCACTAAGTGT-CGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACA
49716807 --GCACTAAGTGTGCGAGTTTAAA-GTACA
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA
49716834 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49716850 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 5 0.13
28 11 0.28
29 23 0.59
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACA
Found at i:49717097 original size:174 final size:174
Alignment explanation
Indices: 49716807--49717134 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
49716797 AAATTGTACA
*
49716807 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
49716872 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
49716937 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
49716981 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
49717046 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
49717111 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
49717135 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:49730909 original size:20 final size:20
Alignment explanation
Indices: 49730873--49730911 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49730863 CTGCACCGAT
49730873 TCTGTAAGTGTTCTAAAAAC
1 TCTGTAAGTGTTCTAAAAAC
*
49730893 TCTGATAAGT-TTTTAAAAA
1 TCTG-TAAGTGTTCTAAAAA
49730912 TATGAGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
TCTGTAAGTGTTCTAAAAAC
Found at i:49740476 original size:26 final size:26
Alignment explanation
Indices: 49740448--49740547 Score: 121
Period size: 26 Copynumber: 3.9 Consensus size: 26
49740438 ACCAATATTG
* *
49740448 CAGCAAAGCTGCCAGTAATAGTAACG
1 CAGCAAAGCTGCCAGTAACAGTAACA
*
49740474 CAGCAAAGCTACCAGTAACAGTAACA
1 CAGCAAAGCTGCCAGTAACAGTAACA
* * * * *
49740500 TAGTAGAGCTGCCAGTATCAGTATCA
1 CAGCAAAGCTGCCAGTAACAGTAACA
49740526 CAGCAAAGCTGCCA-TAACAGTA
1 CAGCAAAGCTGCCAGTAACAGTA
49740548 TTTGTGGCAA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
25 7 0.11
26 54 0.89
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTAACA
Found at i:49740725 original size:27 final size:27
Alignment explanation
Indices: 49740676--49740742 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
49740666 CACAATGCCT
* *
49740676 TAACAGTCATTTCATCTCCTAGGGGCA
1 TAACAGTCATTTTATCCCCTAGGGGCA
*
49740703 TAACAGTCATTTTA-CCCCATAGGGGTA
1 TAACAGTCATTTTATCCCC-TAGGGGCA
**
49740730 TTTCAGTCATTTT
1 TAACAGTCATTTT
49740743 CCTCTTTTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (27 bp):
TAACAGTCATTTTATCCCCTAGGGGCA
Found at i:49740782 original size:27 final size:27
Alignment explanation
Indices: 49740752--49740824 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
49740742 TCCTCTTTTG
* *
49740752 GGGTATTTTGATAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
49740779 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
49740806 GGGTATTTCGGTAATTTTA
1 GGGTATTTCGGTAATTTTA
49740825 TGGCCCAAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:49745416 original size:50 final size:50
Alignment explanation
Indices: 49745132--49745417 Score: 276
Period size: 50 Copynumber: 5.7 Consensus size: 50
49745122 ACATGCTAAA
* *
49745132 GCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GTACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTTTCTCG--GTGCCAAT
* * * * * *
49745181 GCCATATACCAGATATGGTCTTACATGGGA-GT-TTTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTT--TCTCGGTGCCAAT
* * * ** ** **
49745231 TCCATATCCCAGATATGGTCTTACGGGGGACCTCTCATCTCGGTTTCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTTTCTCGGTGCCAAT
* * * *
49745281 GCCATGTCCCACACATAGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTTTCTCGGTGCCAAT
* *
49745331 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTTTTCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTTTCTCGGTGCCAAT
* *
49745381 ACCATGTCCTAGACATGGTCTTACATGGGACCTCTTT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTT
49745418 ACCCAAATGT
Statistics
Matches: 197, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
49 30 0.15
50 162 0.82
51 3 0.02
52 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.30
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTTTCTCGGTGCCAAT
Found at i:49753846 original size:21 final size:21
Alignment explanation
Indices: 49753778--49753846 Score: 52
Period size: 23 Copynumber: 3.1 Consensus size: 21
49753768 TTATACGCCA
49753778 AAAATGAGTAAGACCATAGCTG
1 AAAATGAGTAAGACCATA-CTG
* * *
49753800 AAAGATG-TTATGGAATCATGA-TG
1 AAA-ATGAGTA-AG-ACCAT-ACTG
49753823 AAAATGAGTAAGACCATACTG
1 AAAATGAGTAAGACCATACTG
49753844 AAA
1 AAA
49753847 GATATTATGG
Statistics
Matches: 35, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
20 1 0.03
21 9 0.26
22 9 0.26
23 11 0.31
24 4 0.11
25 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (21 bp):
AAAATGAGTAAGACCATACTG
Found at i:49753906 original size:45 final size:45
Alignment explanation
Indices: 49753778--49753913 Score: 197
Period size: 44 Copynumber: 3.1 Consensus size: 45
49753768 TTATACGCCA
* *
49753778 AAAATGAGTAAGACCATAGCTGAAAGATGTTATGGAATCATGATG
1 AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCATGATG
49753823 AAAATGAGTAAGACCATA-CTGAAAGATATTATGGCATCATGATG
1 AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCATGATG
* * *
49753867 AAAAT-ATGTAATACCATAGTTGAAAGACATTATGGCATCAT-ATG
1 AAAATGA-GTAAGACCATAGCTGAAAGATATTATGGCATCATGATG
49753911 AAA
1 AAA
49753914 GTGGCCAGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
43 1 0.01
44 45 0.54
45 38 0.45
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCATGATG
Found at i:49759254 original size:24 final size:24
Alignment explanation
Indices: 49759221--49759273 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
49759211 GTCCCAAAGG
* *
49759221 TTACAGTGGATTGAACCTTGAGGA
1 TTACAATGGATTGAACCTTGAAGA
49759245 TTACAATGGATTGAACCTTGAAGA
1 TTACAATGGATTGAACCTTGAAGA
49759269 TTACA
1 TTACA
49759274 GTGGGGGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (24 bp):
TTACAATGGATTGAACCTTGAAGA
Found at i:49763239 original size:17 final size:17
Alignment explanation
Indices: 49763217--49763249 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49763207 GACACATAAA
*
49763217 TAAAATGCATGACATAC
1 TAAAATGCAAGACATAC
49763234 TAAAATGCAAGACATA
1 TAAAATGCAAGACATA
49763250 TAATGCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
TAAAATGCAAGACATAC
Found at i:49767290 original size:3 final size:3
Alignment explanation
Indices: 49767282--49767342 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
49767272 AGGATCATAC
*
49767282 TGT TGT TGT TGT TGT TGT TGT TGT TCT TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
49767330 TGT TGT TGT TGT T
1 TGT TGT TGT TGT T
49767343 CTTTTTCAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.02, G:0.31, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:49775286 original size:5 final size:5
Alignment explanation
Indices: 49775276--49775301 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49775266 TCATAATAAC
49775276 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
49775302 CCAACTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:49777816 original size:28 final size:28
Alignment explanation
Indices: 49777785--49777849 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
49777775 CAGTGATAGT
*
49777785 ACAGTGTGGGCCTTAGCCCGATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
49777813 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
49777841 ACAGTGTGG
1 ACAGTGTGG
49777850 TAATGCAACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:49777976 original size:26 final size:26
Alignment explanation
Indices: 49777947--49777997 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
49777937 CACCAATATT
49777947 GCAGCAAAGCTGCCAGTAAAAGTATC
1 GCAGCAAAGCTGCCAGTAAAAGTATC
** *
49777973 GCAGTGAAGCTGCCAGTAATAGTAT
1 GCAGCAAAGCTGCCAGTAAAAGTAT
49777998 ATGTGGCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAAAAGTATC
Found at i:49778260 original size:26 final size:26
Alignment explanation
Indices: 49778184--49778325 Score: 126
Period size: 27 Copynumber: 5.3 Consensus size: 26
49778174 GGGTATAACA
* *
49778184 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTTTGA-GGTATTTCG
* * *
49778211 GTTATTTTATCCTTT-AGGGGATTTCG
1 GTCATTTTACCCTTTGA-GGTATTTCG
* *
49778237 GTCATTTTATCTTTTGAGGTATTTCG
1 GTCATTTTACCCTTTGAGGTATTTCG
* *
49778263 ATCATTTTGCCCTTTG-GGATTATTTCG
1 GTCATTTTACCCTTTGAGG--TATTTCG
* *
49778290 GTTATTTTACCCTTCGAAGGTATTTCG
1 GTCATTTTACCCTTTG-AGGTATTTCG
49778317 GTCATTTTA
1 GTCATTTTA
49778326 TTGACCCCAC
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
25 2 0.02
26 42 0.45
27 47 0.51
29 2 0.02
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.49
Consensus pattern (26 bp):
GTCATTTTACCCTTTGAGGTATTTCG
Found at i:49779414 original size:13 final size:13
Alignment explanation
Indices: 49779377--49779414 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
49779367 CGGCAAGTAG
*
49779377 AGAGAAAAGGGAA
1 AGAGAAAAGTGAA
49779390 AGAGAAAA-TGAA
1 AGAGAAAAGTGAA
*
49779402 ATAGAAAAGTGAA
1 AGAGAAAAGTGAA
49779415 CAAACCTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.08
Consensus pattern (13 bp):
AGAGAAAAGTGAA
Found at i:49780939 original size:38 final size:38
Alignment explanation
Indices: 49780897--49780972 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
49780887 TTCTTGTCAC
*
49780897 AATGT-ATTTTGAAATTAAAATATATATTAAATGTAAAA
1 AATGTGATTTTGAAA-TAAAATATATATTAAATATAAAA
** * *
49780935 AATGTGATTTTTTAATAAAATTTATTTTAAATATAAAA
1 AATGTGATTTTGAAATAAAATATATATTAAATATAAAA
49780973 TGTGAAATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 25 0.78
39 7 0.22
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (38 bp):
AATGTGATTTTGAAATAAAATATATATTAAATATAAAA
Found at i:49787036 original size:25 final size:25
Alignment explanation
Indices: 49787008--49787057 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
49786998 GGAAGAGAAG
**
49787008 ATGAAGAATGGAAGAAGGAAAAGGA
1 ATGAAGAACAGAAGAAGGAAAAGGA
*
49787033 ATGAAGAACAGAAGAAGGAGAAGGA
1 ATGAAGAACAGAAGAAGGAAAAGGA
49787058 GCCTTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.36, T:0.06
Consensus pattern (25 bp):
ATGAAGAACAGAAGAAGGAAAAGGA
Found at i:49791369 original size:21 final size:19
Alignment explanation
Indices: 49791320--49791394 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
49791310 AATTTTTGAG
49791320 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
49791339 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
49791358 GATATGTGCAATCTTGGATAT
1 GATA--TGCAATCTTAGATAT
49791379 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
49791395 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:49791369 original size:40 final size:38
Alignment explanation
Indices: 49791324--49791401 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 38
49791314 TTTGAGGATA
49791324 TGCAATCTTAGATATGATATGCAATCTTAGATATGATATG
1 TGCAATCTTAGATATGATATGCAATCTTAGA-A-GATATG
*
49791364 TGCAATCTTGGATATGATATGCAATCTTAGAAGATATG
1 TGCAATCTTAGATATGATATGCAATCTTAGAAGATATG
49791402 ATTTTGTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 6 0.16
39 1 0.03
40 30 0.81
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (38 bp):
TGCAATCTTAGATATGATATGCAATCTTAGAAGATATG
Found at i:49792430 original size:19 final size:20
Alignment explanation
Indices: 49792389--49792430 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
49792379 ATTTCTATGC
* *
49792389 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
49792409 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
49792428 CAT
1 CAT
49792431 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:49794394 original size:24 final size:24
Alignment explanation
Indices: 49794367--49794412 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
49794357 AGAACAATCC
* *
49794367 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
49794391 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
49794413 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:49797021 original size:6 final size:6
Alignment explanation
Indices: 49797010--49797043 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
49797000 AAAGTGATAA
49797010 AAAAAG AAAAAG AAAAAG -AAAAG -AAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
49797044 GAGAGGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:49797031 original size:11 final size:11
Alignment explanation
Indices: 49797011--49797043 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
49797001 AAGTGATAAA
49797011 AAAAGAAAAAG
1 AAAAGAAAAAG
49797022 AAAA-AGAAAAG
1 AAAAGA-AAAAG
49797033 AAAAGAAAAAG
1 AAAAGAAAAAG
49797044 GAGAGGCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:49798527 original size:132 final size:132
Alignment explanation
Indices: 49798344--49799019 Score: 1034
Period size: 132 Copynumber: 5.1 Consensus size: 132
49798334 TTAAAAATAG
* * * * * *
49798344 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCATATCGTAGATTGCGGATTTTACCTACATGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
*
49798409 TACAGTGGAGTACATCGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
49798474 TT
131 TT
* * *
49798476 CAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATAGAAGATGGCGGATTTTACTTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* *
49798541 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCTCTGGACAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
49798606 TT
131 TT
* *
49798608 CAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* *
49798673 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCTCTAGG-CAACAGTGGAATAGATTGAAGA
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGA
49798737 TTT
130 TTT
49798740 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* *
49798805 TACAGTGGAGTACATTGAAGCCGGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
49798870 TT
131 TT
* * * * *
49798872 CAAATATTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* * * * *
49798937 TACAGTGGAGTACATTGAAGCCAATAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGA
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGA
49799001 TTGT
130 TT-T
* *
49799005 AAG-TCTAATCTCCCT
1 CAGATCTTATCTCCCT
49799020 GCAGTTGCAG
Statistics
Matches: 503, Mismatches: 37, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
131 3 0.01
132 496 0.99
133 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
TT
Found at i:49799276 original size:19 final size:19
Alignment explanation
Indices: 49799252--49799362 Score: 161
Period size: 19 Copynumber: 5.6 Consensus size: 19
49799242 TTTGAGGATG
49799252 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
49799271 TGCAATCTTAG-TAATGATATA
1 TGCAATCTTAGAT-ATG--ATA
49799292 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
49799311 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
*
49799330 TGTGCAATCTTGGATATGATA
1 --TGCAATCTTAGATATGATA
49799351 TGCAATCTTAGA
1 TGCAATCTTAGA
49799363 AGATATGATT
Statistics
Matches: 84, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.01
19 47 0.56
21 35 0.42
22 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
TGCAATCTTAGATATGATA
Found at i:49799296 original size:40 final size:39
Alignment explanation
Indices: 49799252--49799368 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 39
49799242 TTTGAGGATG
49799252 TGCAATCTTAGATATGATATGCAATCTTAGTAATGATATA
1 TGCAATCTTAGATATGATATGCAATCTTAG-AATGATATA
*
49799292 TGCAATCTTAGATATGATATGCAATCTTAGATATGATATG
1 TGCAATCTTAGATATGATATGCAATCTTAGA-ATGATATA
*
49799332 TGCAATCTTGGATATGATATGCAATCTTAGAA-GATAT
1 TGCAATCTTAGATATGATATGCAATCTTAGAATGATAT
49799369 GATTTTGTAA
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
38 5 0.07
39 2 0.03
40 67 0.91
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (39 bp):
TGCAATCTTAGATATGATATGCAATCTTAGAATGATATA
Found at i:49799324 original size:59 final size:56
Alignment explanation
Indices: 49799252--49799369 Score: 159
Period size: 59 Copynumber: 2.0 Consensus size: 56
49799242 TTTGAGGATG
49799252 TGCAATCTTAGATATGATA-TGCAATCTTAGTAATGAT-ATATGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATAGTGCAATCTT-G-AAT-ATGATATGCAATCTTAGA-A-GATA
*
49799311 TGCAATCTTAGATATGATATGTGCAATCTTGGATATGATATGCAATCTTAGAAGATA
1 TGCAATCTTAGATATGATA-GTGCAATCTTGAATATGATATGCAATCTTAGAAGATA
49799368 TG
1 TG
49799370 ATTTTGTAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
57 6 0.11
58 3 0.05
59 36 0.65
60 1 0.02
61 9 0.16
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (56 bp):
TGCAATCTTAGATATGATAGTGCAATCTTGAATATGATATGCAATCTTAGAAGATA
Found at i:49800313 original size:4 final size:4
Alignment explanation
Indices: 49800298--49800336 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
49800288 GCTTTGCATG
* *
49800298 TTAT TGAT TTAT TTAT TTAT TTGT TTAT TTAT ATTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TT
49800337 TTATGCCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:49800384 original size:19 final size:20
Alignment explanation
Indices: 49800343--49800384 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
49800333 ATTTTTATGC
* *
49800343 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
49800363 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
49800382 CAT
1 CAT
49800385 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:49804030 original size:21 final size:21
Alignment explanation
Indices: 49804004--49804059 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
49803994 AACAGCGGTG
*
49804004 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
49804025 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
49804046 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
49804060 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:49805397 original size:187 final size:188
Alignment explanation
Indices: 49805068--49805445 Score: 722
Period size: 187 Copynumber: 2.0 Consensus size: 188
49805058 GTGTGGAAAC
49805068 TTCAACTCTTATTTTCTAAGTGCTTGCAAAAAAAATTCTACTATCATGTACTGTTCCTTCCCAAC
1 TTCAACTCTTATTTTCTAAGTGCTTGCAAAAAAAATTCTACTATCATGTACTGTTCCTTCCCAAC
*
49805133 CAGGATATGCAAAAATAAAGCACATGTTGAAGTCACAAACTGCCATAATATTTTGAGTTGGTTTA
66 CAGGATATGCAAAAATAAAGCACATGTTGAAGTCACAAACTGCCATAATATTTTGAGTTGGTTCA
*
49805198 CCTTTTCGTCCGATATAAGGTATTTGACAAGAAGGCGAAATGCATGCTTTTATGTGTG
131 CCTTTCCGTCCGATATAAGGTATTTGACAAGAAGGCGAAATGCATGCTTTTATGTGTG
*
49805256 TTCAACTCTTGTTTTCTAAGTGCTTGC-AAAAAAATTCTACTATCATGTACTGTTCCTTCCCAAC
1 TTCAACTCTTATTTTCTAAGTGCTTGCAAAAAAAATTCTACTATCATGTACTGTTCCTTCCCAAC
49805320 CAGGATATGCAAAAATAAAGCACATGTTGAAGTCACAAACTGCCATAATATTTTGAGTTGGTTCA
66 CAGGATATGCAAAAATAAAGCACATGTTGAAGTCACAAACTGCCATAATATTTTGAGTTGGTTCA
49805385 CCTTTCCGTCCGATATAAGGTATTTGACAAGAAGGCGAAATGCATGCTTTTATGTGTG
131 CCTTTCCGTCCGATATAAGGTATTTGACAAGAAGGCGAAATGCATGCTTTTATGTGTG
49805443 TTC
1 TTC
49805446 CATCTATGGC
Statistics
Matches: 187, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
187 161 0.86
188 26 0.14
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (188 bp):
TTCAACTCTTATTTTCTAAGTGCTTGCAAAAAAAATTCTACTATCATGTACTGTTCCTTCCCAAC
CAGGATATGCAAAAATAAAGCACATGTTGAAGTCACAAACTGCCATAATATTTTGAGTTGGTTCA
CCTTTCCGTCCGATATAAGGTATTTGACAAGAAGGCGAAATGCATGCTTTTATGTGTG
Found at i:49810092 original size:54 final size:54
Alignment explanation
Indices: 49810033--49810221 Score: 146
Period size: 54 Copynumber: 3.3 Consensus size: 54
49810023 TTGTTAGTTA
*
49810033 TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTATTTTAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
* * * * **
49810087 TAATTATTTCAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA
1 TAATTATTTTAAATT-T-TATTA-A--ATTATATATT-TTA-ATTA--AAA-T-ATAT-TTAATA
49810152 T
54 T
* * * *
49810153 TGATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTTA-AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
*
49810207 TAATTATGTTAAATT
1 TAATTATTTTAAATT
49810222 ATGTTTAAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
54 27 0.26
55 7 0.07
56 5 0.05
57 3 0.03
59 12 0.12
60 4 0.04
61 13 0.13
63 4 0.04
64 5 0.05
65 8 0.08
66 14 0.14
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (54 bp):
TAATTATTTTAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
Found at i:49810199 original size:16 final size:16
Alignment explanation
Indices: 49810178--49810223 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
49810168 TTATTAAATT
49810178 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
49810194 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
49810209 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
49810224 GTTTAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:49810223 original size:10 final size:11
Alignment explanation
Indices: 49810208--49810244 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
49810198 ATTTAATAAT
49810208 AATTATG-TTA
1 AATTATGATTA
*
49810218 AATTATGTTTA
1 AATTATGATTA
49810229 AA-TATGATTA
1 AATTATGATTA
49810239 AATTAT
1 AATTAT
49810245 TTATTATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (11 bp):
AATTATGATTA
Found at i:49810454 original size:45 final size:44
Alignment explanation
Indices: 49810355--49810464 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 44
49810345 TTTTCCATTA
49810355 TGCTATTACACCTCTATT-C--T--ATTCAACCAAACATGAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACATGAGAT
* * *
49810394 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGA-TT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACA--TGAGAT
49810439 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
49810465 CCTCCAATCC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 16 0.27
40 1 0.02
42 1 0.02
44 13 0.22
45 25 0.42
46 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACATGAGAT
Found at i:49810464 original size:16 final size:16
Alignment explanation
Indices: 49810445--49810496 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
49810435 GATTTGCTAT
* *
49810445 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
49810461 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
49810477 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49810493 TACA
1 TACA
49810497 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49811308 original size:15 final size:15
Alignment explanation
Indices: 49811288--49811321 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
49811278 CCCAGAACTA
49811288 GTTCTGTTTTACTTG
1 GTTCTGTTTTACTTG
*
49811303 GTTCTGTTTTATTTG
1 GTTCTGTTTTACTTG
49811318 GTTC
1 GTTC
49811322 AGCAACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.12, G:0.21, T:0.62
Consensus pattern (15 bp):
GTTCTGTTTTACTTG
Found at i:49816062 original size:15 final size:15
Alignment explanation
Indices: 49816042--49816070 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49816032 GTGAAATAAA
49816042 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
49816057 CTGAAATAATAAAA
1 CTGAAATAATAAAA
49816071 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:49817562 original size:22 final size:18
Alignment explanation
Indices: 49817518--49817559 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
49817508 AATTTTAGGT
49817518 CAATTATACATACACCAA
1 CAATTATACATACACCAA
49817536 CAATTATACATACACCAA
1 CAATTATACATACACCAA
49817554 CAATTA
1 CAATTA
49817560 ATTTTAGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
CAATTATACATACACCAA
Found at i:49817586 original size:51 final size:51
Alignment explanation
Indices: 49817492--49817592 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
49817482 CTTGAAGTAC
* * * * *
49817492 ACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAT
1 ACATACACCAACAATTAATTTTAGGTCAAATAAAAATAAACCAACAATTAT
*
49817543 ACATACACCAACAATTAATTTTAGGGT-AAATAAAAATAAACCAAGAATTA
1 ACATACACCAACAATTAATTTTA-GGTCAAATAAAAATAAACCAACAATTA
49817593 ATTTTAGGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (51 bp):
ACATACACCAACAATTAATTTTAGGTCAAATAAAAATAAACCAACAATTAT
Found at i:49817638 original size:33 final size:33
Alignment explanation
Indices: 49817536--49817645 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
49817526 CATACACCAA
49817536 CAATTATACATACACCAACAATTAATTTTAGGGT
1 CAATTATACATACACCAACAATTAATTTTA-GGT
* * * * *
49817570 -AAATAAAAATAAACCAAGAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
49817602 CAATTATACATACACCAACAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
49817635 CAATTATACAT
1 CAATTATACAT
49817646 GCTTTATAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 3 0.05
33 62 0.95
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
CAATTATACATACACCAACAATTAATTTTAGGT
Found at i:49820871 original size:120 final size:120
Alignment explanation
Indices: 49820674--49821295 Score: 1210
Period size: 120 Copynumber: 5.2 Consensus size: 120
49820664 TTTTCAAGTT
49820674 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
49820739 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
49820794 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
49820859 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
49820914 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
49820979 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
49821034 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
49821099 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
49821154 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
49821219 TAATATAAGAATATTAATTATTAAGAA-TTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
49821273 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
49821296 TAAATATGAT
Statistics
Matches: 500, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
119 50 0.10
120 450 0.90
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:49821153 original size:18 final size:17
Alignment explanation
Indices: 49821125--49821159 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49821115 ATTATTAAGA
*
49821125 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49821142 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49821160 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49821535 original size:16 final size:16
Alignment explanation
Indices: 49821514--49821581 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
49821504 GATTTGCTCT
49821514 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49821530 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
49821546 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
49821562 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49821578 TACA
1 TACA
49821582 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Done.