Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 196 of 325
Found at i:61571158 original size:27 final size:26
Alignment explanation
Indices: 61571128--61571572 Score: 277
Period size: 27 Copynumber: 16.7 Consensus size: 26
61571118 TAATAAAGAG
*
61571128 AAATTACGGAAATACCCCCAGTTTGTA
1 AAATTAC-GAAATACCCTCAGTTTGTA
*
61571155 AAATTACCGAAATA-TCTC-GATTTGTA
1 AAATTA-CGAAATACCCTCAG-TTTGTA
* * *
61571181 AAATTACTGAAATACCTTTAATTTGTA
1 AAATTAC-GAAATACCCTCAGTTTGTA
** *
61571208 AAATTATCGAAATACCCTC-GACTGTG
1 AAATTA-CGAAATACCCTCAGTTTGTA
** * *
61571234 AAATTATTTAAATACCCT-TGATTTGAA
1 AAATTA-CGAAATACCCTCAG-TTTGTA
* * *
61571261 AAATTATC-AAATACCC-CCGATTTATG
1 AAATTA-CGAAATACCCTCAG-TTTGTA
* *
61571287 AAATTAACGACACACCCTC-GATTTGTA
1 AAATT-ACGAAATACCCTCAG-TTTGTA
*
61571314 AAATTACCGAAACACCCTC-GATTTGTA
1 AAATTA-CGAAATACCCTCAG-TTTGTA
*
61571341 AAATTATCGAAATACCCT-TGATTTGTA
1 AAATTA-CGAAATACCCTCAG-TTTGTA
*
61571368 AAATTACTGAAATACCC-C-GATTTGTG
1 AAATTAC-GAAATACCCTCAG-TTTGTA
* * *
61571394 AAATTACTGAAACATCCTCAATTTGTA
1 AAATTAC-GAAATACCCTCAGTTTGTA
*
61571421 AAATTACTGAAACACCCTC-GATTTGTA
1 AAATTAC-GAAATACCCTCAG-TTTGTA
* * * *
61571448 AAATTACTGAAACACCCTTAATTTTTA
1 AAATTAC-GAAATACCCTCAGTTTGTA
* *
61571475 AAATTATCGAAA-ACTCTCAATTTGTA
1 AAATTA-CGAAATACCCTCAGTTTGTA
*
61571501 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTA-CGAAATACCCTCAGTTTGTA
* *
61571528 AAATTACGGAAACACCCTCAATTTGTA
1 AAATTAC-GAAATACCCTCAGTTTGTA
61571555 AAATTATCGAAATACCCT
1 AAATTA-CGAAATACCCT
61571573 TGTAGTGTAA
Statistics
Matches: 347, Mismatches: 47, Indels: 48
0.79 0.11 0.11
Matches are distributed among these distances:
25 2 0.01
26 106 0.31
27 234 0.67
28 5 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATTACGAAATACCCTCAGTTTGTA
Found at i:61571561 original size:80 final size:80
Alignment explanation
Indices: 61571128--61571569 Score: 412
Period size: 80 Copynumber: 5.5 Consensus size: 80
61571118 TAATAAAGAG
* * * * *
61571128 AAATTACGGAAATACCCCCAGTTTGTAAAATTACCGAAATA-TCTCGATTTGTAAAATTACTGAA
1 AAATTAC-GAAACACCCTCAATTTGTAAAATTATCGAAATACTCTCGATTTGTAAAATTACCGAA
* **
61571192 ATACCTTTAATTTGTA
65 ATACCCTCGATTTGTA
* * * * ** * * * *
61571208 AAATTATCGAAATACCCTCGA-CTGTGAAATTATTTAAATACCCTTGATTTGAAAAATTATC-AA
1 AAATTA-CGAAACACCCTCAATTTGTAAAATTATCGAAATACTCTCGATTTGTAAAATTACCGAA
* * *
61571271 ATACCCCCGATTTATG
65 ATACCCTCGATTTGTA
* * * * * *
61571287 AAATTAACGACACACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
1 AAATT-ACGAAACACCCTCAATTTGTAAAATTATCGAAATACTCTCGATTTGTAAAATTACCGAA
*
61571352 ATACCCTTGATTTGTA
65 ATACCCTCGATTTGTA
* * * * * *
61571368 AAATTACTGAAATACCC-CGATTTGTGAAATTA-CTGAAACA-TCCTCAATTTGTAAAATTACTG
1 AAATTAC-GAAACACCCTCAATTTGTAAAATTATC-GAAATACT-CTCGATTTGTAAAATTACCG
*
61571430 AAACACCCTCGATTTGTA
63 AAATACCCTCGATTTGTA
* * *
61571448 AAATTACTGAAACACCCTTAATTTTTAAAATTATCGAAA-ACTCTCAATTTGTAAAATTACCGAA
1 AAATTAC-GAAACACCCTCAATTTGTAAAATTATCGAAATACTCTCGATTTGTAAAATTACCGAA
*
61571512 ATACCCTCAATTTGTA
65 ATACCCTCGATTTGTA
61571528 AAATTACGGAAACACCCTCAATTTGTAAAATTATCGAAATAC
1 AAATTAC-GAAACACCCTCAATTTGTAAAATTATCGAAATAC
61571570 CCTTGTAGTG
Statistics
Matches: 297, Mismatches: 53, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
79 44 0.15
80 207 0.70
81 45 0.15
82 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (80 bp):
AAATTACGAAACACCCTCAATTTGTAAAATTATCGAAATACTCTCGATTTGTAAAATTACCGAAA
TACCCTCGATTTGTA
Found at i:61571581 original size:27 final size:27
Alignment explanation
Indices: 61571551--61571612 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
61571541 ACCCTCAATT
*
61571551 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
*
61571578 TGTAAAATTATCAAAATTCCCTTGTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
61571605 TGTAAAAT
1 TGTAAAAT
61571613 GACCGACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
TGTAAAATTATCAAAATACCCTTGTAG
Found at i:61571589 original size:107 final size:107
Alignment explanation
Indices: 61571149--61571594 Score: 503
Period size: 107 Copynumber: 4.2 Consensus size: 107
61571139 ATACCCCCAG
* * * * * *
61571149 TTTGTAAAATTACCGAAATA-TCTCGATTTGTAAAATTACTGAAATACCTTTAATTTGTAAAATT
1 TTTGTAAAATTATCGAAATACTCCCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATT
* * * **
61571213 ATCGAAATACCCTCGA-CTGTGAAATTATTTAAATACCCTTGA
66 A-CGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGA
* * * * * * *
61571255 TTTGAAAAATTATC-AAATACCCCCGATTTATGAAATTAACGACACACCCTCGATTTGTAAAATT
1 TTTGTAAAATTATCGAAATACTCCCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATT
61571319 ACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGA
66 A-CGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGA
* * *
61571362 TTTGTAAAATTA-CTGAAATAC-CCCGATTTGTGAAATTACTGAAACATCCTCAATTTGTAAAAT
1 TTTGTAAAATTATC-GAAATACTCCCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAAT
* *
61571425 TACTGAAACACCCTCGATTTGTAAAATTA-CTGAAACACCCTTAA
65 TAC-GAAACACCCTCGATTTGTAAAATTATC-GAAATACCCTTGA
* * * *
61571469 TTTTTAAAATTATCGAAA-ACTCTCAATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATT
1 TTTGTAAAATTATCGAAATACTCCCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATT
*
61571533 ACGGAAACACCCTCAATTTGTAAAATTATCGAAATACCCTTG-
66 AC-GAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGA
* *
61571575 TAGTGTAAAATTATCAAAAT
1 T-TTGTAAAATTATCGAAAT
61571595 TCCCTTGTAG
Statistics
Matches: 287, Mismatches: 42, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
105 5 0.02
106 65 0.23
107 209 0.73
108 8 0.03
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (107 bp):
TTTGTAAAATTATCGAAATACTCCCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATT
ACGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGA
Found at i:61575319 original size:27 final size:27
Alignment explanation
Indices: 61574788--61575344 Score: 605
Period size: 27 Copynumber: 20.7 Consensus size: 27
61574778 ATAATAAAGA
* *
61574788 AAAATTATCGAAATGCCCCTTG-TTTGT
1 AAAATTATCGAAAT-ACCCTCGATTTGT
61574815 AAAATTATCGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
*
61574842 AAAATTATCGAAATACTCCT-AATTTGT
1 AAAATTATCGAAATAC-CCTCGATTTGT
61574869 AAAATTA-CTGAAATACCCTCGA-TTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
61574895 GAAATTA-CTGAAATATCCTCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
61574922 AAAATTATCGAAATACCCTTGACTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * *
61574949 GAAATTACCGAAACACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
61574976 AAAATTATCAAAACACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
61575003 AAAATTACCGAAATAGCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
*
61575030 AAAATTATCGAAATACCC-CTAATTTGT
1 AAAATTATCGAAATACCCTC-GATTTGT
* * * *
61575057 GAAATTATCGGAACACTCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
*
61575084 AAAATTA-CTGAAACACCCTCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
61575111 AAAATTA-CTAAAACACCCTCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
61575138 AAAATTA-CTGAAACATCCTCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
*
61575165 AAAATTATCGAAACACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
61575192 AAAATTATCGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
**
61575219 AAAATTATTAAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * *
61575246 AAAATTACCGAAACACCCTCAATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
** * *
61575273 AAAATTATTAAAATACCCT-TATAGTGT
1 AAAATTATCGAAATACCCTCGAT-TTGT
* *
61575300 AAAATTATCGAAATACCCTTG-TAGTGT
1 AAAATTATCGAAATACCCTCGAT-TTGT
* *
61575327 AAAATTACCGACATACCC
1 AAAATTATCGAAATACCC
61575345 CTGTAAGGTA
Statistics
Matches: 462, Mismatches: 56, Indels: 24
0.85 0.10 0.04
Matches are distributed among these distances:
26 37 0.08
27 419 0.91
28 6 0.01
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTGT
Found at i:61576535 original size:15 final size:15
Alignment explanation
Indices: 61576500--61576539 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
61576490 TGTTACACTT
* *
61576500 TTTCTTGTTCACTTG
1 TTTCTTTTTCACTCG
*
61576515 TATCTTTTTCACTCG
1 TTTCTTTTTCACTCG
61576530 TTTCTTTTTC
1 TTTCTTTTTC
61576540 TAACTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTCTTTTTCACTCG
Found at i:61576696 original size:18 final size:18
Alignment explanation
Indices: 61576651--61576696 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
61576641 TTGCTCACTA
61576651 TCTTTTCTTTCTTCAATT
1 TCTTTTCTTTCTTCAATT
*
61576669 TCTCTCTCTTT-TTCAATTT
1 TCT-TTTCTTTCTTCAA-TT
61576688 TCTTTTCTT
1 TCTTTTCTT
61576697 GGTCATATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTTCTTTCTTCAATT
Found at i:61577949 original size:10 final size:10
Alignment explanation
Indices: 61577934--61577981 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
61577924 GTTTCGAAAT
61577934 TTTTTTTGAA
1 TTTTTTTGAA
*
61577944 TTTTTTTCTAA
1 TTTTTTT-GAA
*
61577955 TTTTTTTCAA
1 TTTTTTTGAA
61577965 TTTTTTTGAA
1 TTTTTTTGAA
*
61577975 ATTTTTT
1 TTTTTTT
61577982 CAAGAACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:61577960 original size:21 final size:21
Alignment explanation
Indices: 61577920--61577981 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
61577910 AAGAACAACT
*
61577920 TTTTGTTTCGAAATTTTTTTTGAA
1 TTTT-TTTC-AAA-TTTTTTTCAA
*
61577944 TTTTTTTCTAATTTTTTTCAA
1 TTTTTTTCAAATTTTTTTCAA
*
61577965 TTTTTTTGAAATTTTTT
1 TTTTTTTCAAATTTTTT
61577982 CAAGAACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 24 0.71
22 2 0.06
23 4 0.12
24 4 0.12
ACGTcount: A:0.19, C:0.05, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTTTTCAAATTTTTTTCAA
Found at i:61582225 original size:32 final size:32
Alignment explanation
Indices: 61582189--61582269 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
61582179 ATCCTAATTC
*
61582189 TATAAAATTCAAAAAAAAATACATA-AATATTT
1 TATAAAATT-AAAAAAAAATACATATAATATTA
* *
61582221 TATAATATTAAATAAAAAATTCATATTAATATTA
1 TATAAAATTAAA-AAAAAATACATA-TAATATTA
*
61582255 AATAAAATTAAAAAA
1 TATAAAATTAAAAAA
61582270 TTTAACCTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 3 0.07
32 19 0.46
33 3 0.07
34 16 0.39
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (32 bp):
TATAAAATTAAAAAAAAATACATATAATATTA
Found at i:61583005 original size:22 final size:23
Alignment explanation
Indices: 61582980--61583022 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
61582970 TTATTTTTTT
61582980 ATAATTTTTCTATAT-TTTTAAA
1 ATAATTTTTCTATATCTTTTAAA
61583002 ATAATTTTTCTATATCTTTTA
1 ATAATTTTTCTATATCTTTTA
61583023 TATTTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (23 bp):
ATAATTTTTCTATATCTTTTAAA
Found at i:61583089 original size:10 final size:10
Alignment explanation
Indices: 61582971--61583157 Score: 58
Period size: 10 Copynumber: 18.9 Consensus size: 10
61582961 TAACTAAAGT
*
61582971 TATTTTTTTA
1 TATTTTTTAA
61582981 TAATTTTTCT-A
1 T-ATTTTT-TAA
*
61582992 TATTTTTAAAA
1 TATTTTT-TAA
61583003 TAATTTTTCT-A
1 T-ATTTTT-TAA
*
61583014 TATCTTTT-A
1 TATTTTTTAA
*
61583023 TATTTTGTAA
1 TATTTTTTAA
*
61583033 CGA-TTTTTATA
1 -TATTTTTTA-A
*
61583044 TAGTTTTTAA
1 TATTTTTTAA
* *
61583054 TAAATTTCT-A
1 T-ATTTTTTAA
61583064 TATATTTTTAA
1 TAT-TTTTTAA
61583075 -A-TTTTTAA
1 TATTTTTTAA
61583083 TATTTTTTAA
1 TATTTTTTAA
61583093 -A-TTTTTAA
1 TATTTTTTAA
** *
61583101 TAAAATTTAAA
1 T-ATTTTTTAA
61583112 TATTTTTTAA
1 TATTTTTTAA
61583122 -A-TTTTTAA
1 TATTTTTTAA
***
61583130 TAAAATTTAA
1 TATTTTTTAA
61583140 -ATATTTTT-A
1 TAT-TTTTTAA
61583149 TATTTTTTA
1 TATTTTTTA
61583158 TAAATATCTA
Statistics
Matches: 132, Mismatches: 24, Indels: 42
0.67 0.12 0.21
Matches are distributed among these distances:
8 21 0.16
9 20 0.15
10 52 0.39
11 32 0.24
12 7 0.05
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:61583104 original size:11 final size:11
Alignment explanation
Indices: 61583047--61583217 Score: 62
Period size: 9 Copynumber: 17.4 Consensus size: 11
61583037 TTTTATATAG
61583047 TTTTTAATAAA
1 TTTTTAATAAA
* *
61583058 TTTCT-ATATA
1 TTTTTAATAAA
61583068 -TTTT--TAAA
1 TTTTTAATAAA
61583076 TTTTTAAT--A
1 TTTTTAATAAA
61583085 TTTTT--TAAA
1 TTTTTAATAAA
61583094 TTTTTAATAAA
1 TTTTTAATAAA
* *
61583105 -ATTTAA-ATA
1 TTTTTAATAAA
61583114 TTTTT--TAAA
1 TTTTTAATAAA
61583123 TTTTTAATAAA
1 TTTTTAATAAA
* *
61583134 -ATTTAA-ATA
1 TTTTTAATAAA
61583143 TTTTT-AT--A
1 TTTTTAATAAA
*
61583151 TTTTTTATAAA
1 TTTTTAATAAA
* *
61583162 TATCTAAT-AA
1 TTTTTAATAAA
61583172 -TTTT-ATAAAA
1 TTTTTAAT-AAA
* *
61583182 TTTTCAATATA
1 TTTTTAATAAA
61583193 TTTTT-AT-AA
1 TTTTTAATAAA
*
61583202 TATTTTAATTAA
1 T-TTTTAATAAA
61583214 TTTT
1 TTTT
61583218 ATTGATTAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 46
0.64 0.11 0.25
Matches are distributed among these distances:
7 1 0.01
8 11 0.09
9 37 0.32
10 30 0.26
11 33 0.28
12 5 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTTAATAAA
Found at i:61583104 original size:29 final size:29
Alignment explanation
Indices: 61583072--61583207 Score: 130
Period size: 29 Copynumber: 4.6 Consensus size: 29
61583062 TATATATTTT
61583072 TAAATTTTTAATATTTTTTAAATTTTTAA
1 TAAATTTTTAATATTTTTTAAATTTTTAA
* *
61583101 TAAAATTTAAATATTTTTTAAATTTTTAA
1 TAAATTTTTAATATTTTTTAAATTTTTAA
* * * *
61583130 TAAAATTTAAATA-TTTTTATATTTTTTA
1 TAAATTTTTAATATTTTTTAAATTTTTAA
* * * *
61583158 TAAATATCTAATAATTTTATAAAATTTTCAA
1 TAAATTTTTAAT-ATTTT-TTAAATTTTTAA
*
61583189 TATATTTTTATAATATTTT
1 TA-AATTTT-TAATATTTT
61583208 AATTAATTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
28 21 0.24
29 41 0.47
30 3 0.03
31 10 0.11
32 8 0.09
33 4 0.05
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
TAAATTTTTAATATTTTTTAAATTTTTAA
Found at i:61583129 original size:8 final size:8
Alignment explanation
Indices: 61583067--61583100 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
61583057 ATTTCTATAT
61583067 ATTTTTAA
1 ATTTTTAA
61583075 ATTTTTAA
1 ATTTTTAA
61583083 TATTTTTTAA
1 -A-TTTTTAA
61583093 ATTTTTAA
1 ATTTTTAA
61583101 TAAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 15 0.62
9 2 0.08
10 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
ATTTTTAA
Found at i:61583139 original size:47 final size:47
Alignment explanation
Indices: 61583047--61583146 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 47
61583037 TTTTATATAG
** ***
61583047 TTTTTAATAAATTTCTATATATTTTTAAATTTTTAATATTTTTTAAA
1 TTTTTAATAAATTTAAATATATTTTTAAATTTTTAATAAAATTTAAA
61583094 TTTTTAATAAAATTTAAATAT-TTTTTAAATTTTTAATAAAATTTAAA
1 TTTTTAAT-AAATTTAAATATATTTTTAAATTTTTAATAAAATTTAAA
61583141 TATTTT
1 T-TTTT
61583147 TATATTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 32 0.70
48 14 0.30
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (47 bp):
TTTTTAATAAATTTAAATATATTTTTAAATTTTTAATAAAATTTAAA
Found at i:61583161 original size:21 final size:21
Alignment explanation
Indices: 61583087--61583210 Score: 81
Period size: 19 Copynumber: 6.3 Consensus size: 21
61583077 TTTTAATATT
*
61583087 TTTTAA-ATTTTTAATAAA-A
1 TTTTAATATTTTTTATAAATA
*
61583106 TTTAAATA-TTTTT-TAAAT-
1 TTTTAATATTTTTTATAAATA
***
61583124 TTTTAATA-AAATT-TAAATA
1 TTTTAATATTTTTTATAAATA
*
61583143 TTTTTATATTTTTTATAAATA
1 TTTTAATATTTTTTATAAATA
* *
61583164 -TCTAATA-ATTTTATAAA-A
1 TTTTAATATTTTTTATAAATA
61583182 TTTTCAATATATTTTTAT-AATA
1 TTTT-AATAT-TTTTTATAAATA
61583204 TTTTAAT
1 TTTTAAT
61583211 TAATTTTATT
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
18 19 0.24
19 27 0.34
20 12 0.15
21 11 0.14
22 11 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAATATTTTTTATAAATA
Found at i:61583190 original size:20 final size:19
Alignment explanation
Indices: 61583095--61583219 Score: 76
Period size: 20 Copynumber: 6.3 Consensus size: 19
61583085 TTTTTTAAAT
*
61583095 TTTTAATAAAATTTAAAT-A
1 TTTT-ATAAAATTTTAATAA
* *
61583114 TTTTTTAAATTTTTAATAAA
1 TTTTATAAAATTTTAAT-AA
* * *
61583134 ATTTA-AATATTTTTAT-A
1 TTTTATAAAATTTTAATAA
* *
61583151 TTTTTTATAAATATCTAATAA
1 TTTTATA-AAAT-TTTAATAA
61583172 TTTTATAAAATTTTCAATATA
1 TTTTATAAAATTTT-AATA-A
*
61583193 TTTTTATAATATTTTAATTAA
1 -TTTTATAAAATTTTAA-TAA
61583214 TTTTAT
1 TTTTAT
61583220 TGATTAAAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 19
0.70 0.14 0.17
Matches are distributed among these distances:
17 4 0.05
18 11 0.14
19 17 0.21
20 22 0.28
21 11 0.14
22 15 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTATAAAATTTTAATAA
Found at i:61583200 original size:22 final size:20
Alignment explanation
Indices: 61583169--61583219 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
61583159 AAATATCTAA
61583169 TAATTTTATAAAATTTTCAAT
1 TAATTTTATAAAATTTT-AAT
* *
61583190 ATATTTTTATAATATTTTAAT
1 -TAATTTTATAAAATTTTAAT
61583211 TAATTTTAT
1 TAATTTTAT
61583220 TGATTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
21 3 0.12
22 15 0.58
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATTTTATAAAATTTTAAT
Found at i:61590429 original size:21 final size:21
Alignment explanation
Indices: 61590388--61590429 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61590378 AGACAAGATT
*
61590388 GAAACCCAAACACCACTAGAA
1 GAAACCCAAACACCACAAGAA
*
61590409 GAAACCC-ACCACCACCAAGAA
1 GAAACCCAAACACCA-CAAGAA
61590430 CTCCAAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.50, C:0.38, G:0.10, T:0.02
Consensus pattern (21 bp):
GAAACCCAAACACCACAAGAA
Found at i:61591249 original size:15 final size:15
Alignment explanation
Indices: 61591201--61591252 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
61591191 TCTCTAAGAA
*
61591201 TATAAAATCATATCT
1 TATAAAATAATATCT
* * *
61591216 TCTAAGATATGTAATCT
1 TATAAAATA-AT-ATCT
61591233 TATAAAATAATATCT
1 TATAAAATAATATCT
61591248 TATAA
1 TATAA
61591253 GATTACATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 15 0.54
16 2 0.07
17 11 0.39
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (15 bp):
TATAAAATAATATCT
Found at i:61596430 original size:51 final size:51
Alignment explanation
Indices: 61596367--61596499 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
61596357 CAATCAAATC
* * *
61596367 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * * * *
61596418 TGTAATCTTATAAAATAATATATTATAAGATTACATTTCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
61596469 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
61596500 AATGTTTCCA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:61597392 original size:36 final size:36
Alignment explanation
Indices: 61597352--61597425 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
61597342 AGAATATGTT
61597352 TTGATTTGAATTTTTTCAATATAAAAATACTGAAAG
1 TTGATTTGAATTTTTTCAATATAAAAATACTGAAAG
* *
61597388 TTGATTTGATTTTTTTCAATATAAAAATGCTGAAAG
1 TTGATTTGAATTTTTTCAATATAAAAATACTGAAAG
61597424 TT
1 TT
61597426 AAAGTTAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (36 bp):
TTGATTTGAATTTTTTCAATATAAAAATACTGAAAG
Found at i:61597582 original size:31 final size:31
Alignment explanation
Indices: 61597547--61597609 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
61597537 CTTTAAACCA
61597547 TCCTTTTTAATCTTTACTGTAATTAATATTT
1 TCCTTTTTAATCTTTACTGTAATTAATATTT
* * *
61597578 TCCTTTTTACTCTTTATTGTAATTAATGTTT
1 TCCTTTTTAATCTTTACTGTAATTAATATTT
61597609 T
1 T
61597610 GTTGTACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.13, G:0.05, T:0.60
Consensus pattern (31 bp):
TCCTTTTTAATCTTTACTGTAATTAATATTT
Found at i:61599842 original size:55 final size:55
Alignment explanation
Indices: 61599779--61599889 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
61599769 ATGATGAGTT
61599779 CACCTAATTGAGCTTAATATTCCATTACTTTAATTCAAATAAAACTTACCATTGC
1 CACCTAATTGAGCTTAATATTCCATTACTTTAATTCAAATAAAACTTACCATTGC
61599834 CACCTAATTGAGCTTAATATTCCATTACTTTAATTCAAATAAAACTTACCATTGC
1 CACCTAATTGAGCTTAATATTCCATTACTTTAATTCAAATAAAACTTACCATTGC
61599889 C
1 C
61599890 CCATACGAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (55 bp):
CACCTAATTGAGCTTAATATTCCATTACTTTAATTCAAATAAAACTTACCATTGC
Found at i:61599868 original size:26 final size:26
Alignment explanation
Indices: 61599783--61599868 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
61599773 TGAGTTCACC
61599783 TAATTGAGCTTAATATTCCATTACTT
1 TAATTGAGCTTAATATTCCATTACTT
* ** * *
61599809 TAATTCA-AATAAAACTTACCATTGCCAC-C
1 TAATTGAGCTTAATA-TT-CCATT---ACTT
61599838 TAATTGAGCTTAATATTCCATTACTT
1 TAATTGAGCTTAATATTCCATTACTT
61599864 TAATT
1 TAATT
61599869 CAAATAAAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 6 0.14
26 13 0.30
27 5 0.12
28 5 0.12
29 8 0.19
30 6 0.14
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.41
Consensus pattern (26 bp):
TAATTGAGCTTAATATTCCATTACTT
Found at i:61605839 original size:21 final size:21
Alignment explanation
Indices: 61605813--61605852 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
61605803 CACTTGACAT
*
61605813 AGGGGCACACGCCCGTGTGAA
1 AGGGGCACACCCCCGTGTGAA
61605834 AGGGGCACACCCCCGTGTG
1 AGGGGCACACCCCCGTGTG
61605853 TCCAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.33, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGGCACACCCCCGTGTGAA
Found at i:61607048 original size:47 final size:47
Alignment explanation
Indices: 61606979--61607102 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
61606969 GTAAGGTGTT
* * * *
61606979 GATGCCATGTCCTAGACATGGTCTTATACTGGCTCAT-ATCTCA-AGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCT-AGAGCC
61607026 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTAGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTAG-AGCC
*
61607074 GATG-CATGTCCCAGACAT-ATCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
61607103 TTTTACGTCT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 13 0.19
47 49 0.71
48 7 0.10
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTAGAGCC
Found at i:61609916 original size:39 final size:39
Alignment explanation
Indices: 61609841--61610045 Score: 212
Period size: 39 Copynumber: 5.2 Consensus size: 39
61609831 GAATTCAATC
* * * * * * *
61609841 ACCAACACAAAGCCTACGGGACTTTAAGCCCAGATATAGT
1 ACCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATATAAT
* *
61609881 ACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
* * * *
61609920 ACCAGCATGAAGCCTGCAGATCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
* *
61609959 TCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
* * *
61609998 TCCAGCACGAAGCCTGCGGGATCTTTAAGCCCGGATATAAT
1 ACCAGCACGAAGCCTGC-GGA-CCTTAAGTCCGGATATAAT
*
61610039 TCCAGCA
1 ACCAGCA
61610046 TATAGCCAGC
Statistics
Matches: 143, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 104 0.73
40 16 0.11
41 23 0.16
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
Found at i:61609973 original size:78 final size:80
Alignment explanation
Indices: 61609836--61610045 Score: 246
Period size: 78 Copynumber: 2.6 Consensus size: 80
61609826 ACCCCGAATT
* * * * * * * * *
61609836 CAATCACCAACACAAAGCCTACGGGA-CTTTAAGCCCAGATATAGTACCAGTACGAAGCCTGCGG
1 CAAT-ACCAGCACGAAGCCTGCGAGATCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGG
61609900 ACCTTAAGTCCGGATA
65 ACCTTAAGTCCGGATA
* * * *
61609916 TAGTACCAGCATGAAGCCTGC-AGATC-TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGA
1 CAATACCAGCACGAAGCCTGCGAGATCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGA
61609979 CCTTAAGTCCGGATA
66 CCTTAAGTCCGGATA
* * *
61609994 CAATTCCAGCACGAAGCCTGCGGGATCTTTAAGCCCGGATATAATTCCAGCA
1 CAATACCAGCACGAAGCCTGCGAGATCTTTAAGCCCGGATACAATTCCAGCA
61610046 TATAGCCAGC
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 65 0.61
79 18 0.17
80 24 0.22
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (80 bp):
CAATACCAGCACGAAGCCTGCGAGATCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGA
CCTTAAGTCCGGATA
Found at i:61612581 original size:3 final size:3
Alignment explanation
Indices: 61612573--61612605 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
61612563 TGTATTTCTA
61612573 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61612606 ATAGTAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:61616051 original size:17 final size:17
Alignment explanation
Indices: 61616020--61616063 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
61616010 TTAAACCAAG
* *
61616020 AGATACAATTGTTCAAA
1 AGATACAACTATTCAAA
*
61616037 AGATATAACTATTCAAA
1 AGATACAACTATTCAAA
61616054 AGATACAACT
1 AGATACAACT
61616064 GTATATCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (17 bp):
AGATACAACTATTCAAA
Found at i:61617101 original size:23 final size:23
Alignment explanation
Indices: 61617066--61617110 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
61617056 ATTATTTAAA
61617066 AAAATACTCATATTTATATAATT
1 AAAATACTCATATTTATATAATT
* * *
61617089 AAAATATTTATATTTTTATAAT
1 AAAATACTCATATTTATATAAT
61617111 AGGTTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATACTCATATTTATATAATT
Found at i:61617436 original size:21 final size:22
Alignment explanation
Indices: 61617388--61617437 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
61617378 ATATGCTAAT
*
61617388 AATTAAAATAAATACTAAAATA
1 AATTAATATAAATACTAAAATA
* *
61617410 AA-TAATATAAATAGT-ATATA
1 AATTAATATAAATACTAAAATA
61617430 AATTAATA
1 AATTAATA
61617438 AATAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 16 0.67
22 2 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
AATTAATATAAATACTAAAATA
Found at i:61617590 original size:29 final size:30
Alignment explanation
Indices: 61617558--61617614 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
61617548 TATTTTAAAC
61617558 ATAAAAT-TAACTTAAA-AAATTATTTATAG
1 ATAAAATGTAA-TTAAATAAATTATTTATAG
* *
61617587 ATAATATGTAATTAAATAAATTTTTTAT
1 ATAAAATGTAATTAAATAAATTATTTAT
61617615 TTAATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (30 bp):
ATAAAATGTAATTAAATAAATTATTTATAG
Found at i:61640130 original size:19 final size:19
Alignment explanation
Indices: 61640084--61640131 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
61640074 GTATATATTT
61640084 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
61640102 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
61640121 TAAGTTTTATT
1 TAAATTTTATT
61640132 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:61644814 original size:19 final size:19
Alignment explanation
Indices: 61644768--61644815 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
61644758 GTATATATTT
61644768 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
61644786 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
61644805 TAAGTTTTATT
1 TAAATTTTATT
61644816 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:61646854 original size:29 final size:29
Alignment explanation
Indices: 61646790--61646854 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
61646780 AAATAACTTA
** **
61646790 AAATTTTTAACTAATTACATAAATAATTT
1 AAATTTTTAACTAAACACATAAATAAGCT
** *
61646819 ATTTTTTTAATTAAACACATAAATAAGCT
1 AAATTTTTAACTAAACACATAAATAAGCT
61646848 AAATTTT
1 AAATTTT
61646855 ACAATAAAAA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATTTTTAACTAAACACATAAATAAGCT
Found at i:61647172 original size:19 final size:19
Alignment explanation
Indices: 61647136--61647186 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 19
61647126 TGTTCTATTT
*
61647136 TTTTTTTACTTTTTCTTA-A
1 TTTTTTTA-TTTTCCTTATA
61647155 TTTTTTTATTTGTCCTTATTTA
1 TTTTTTTATTT-TCCTTA--TA
61647177 TTTTTTTATT
1 TTTTTTTATT
61647187 GATTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
22 11 0.41
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTATTTTCCTTATA
Found at i:61647235 original size:27 final size:25
Alignment explanation
Indices: 61647205--61647256 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
61647195 AAAACTTGAA
61647205 ATGTATATTTGAAATATTTTATAATAT
1 ATGTATATTTGAAA-ATTTTA-AATAT
* * *
61647232 ATGTTTTTTTTAAAATTTTAAATAT
1 ATGTATATTTGAAAATTTTAAATAT
61647257 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 5 0.23
26 6 0.27
27 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (25 bp):
ATGTATATTTGAAAATTTTAAATAT
Found at i:61647269 original size:22 final size:23
Alignment explanation
Indices: 61647236--61647284 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
61647226 TAATATATGT
* *
61647236 TTTTTTTAAAATTTTAAATATTA
1 TTTTTTTAAAATATTAAATATAA
61647259 TTTTTTT-AAATATTAAATATAA
1 TTTTTTTAAAATATTAAATATAA
61647281 TTTT
1 TTTT
61647285 CAAAAATCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTTTTAAAATATTAAATATAA
Found at i:61647291 original size:22 final size:22
Alignment explanation
Indices: 61647243--61647291 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
61647233 TGTTTTTTTT
* * **
61647243 AAAATTTTAAATATTATTTTTT
1 AAAATATTAAATATAATTTTCA
*
61647265 TAAATATTAAATATAATTTTCA
1 AAAATATTAAATATAATTTTCA
61647287 AAAAT
1 AAAAT
61647292 CCGGAACAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATATTAAATATAATTTTCA
Found at i:61649762 original size:322 final size:323
Alignment explanation
Indices: 61649176--61649808 Score: 1074
Period size: 322 Copynumber: 2.0 Consensus size: 323
61649166 TATAAAGATT
* *
61649176 AATGAAGTTGTTATGAAAATATATTGAAATTTGGTTAAGTAATTTAACCAAGAAAATAGCTATTT
1 AATGAAGTTGTTATGAAAATATATTGAAATTCGGTTAAGTAATTTAACCAAGAAAATAGCTAATT
* * * * *
61649241 AAAGCTCATGGACTAAATTGTAAAAGTCCAATCGCTATTAAATTTTAATTTGAAAAATGCTTGAG
66 AAAGCTCATAGACTAAATTGTAAAAGTCCAATCGCTATTAAATTTTAATTTAAAAAATACCTGAA
* * *
61649306 GACTTAGAAAGCAATTATCCAAAGGACTAAAATGGTTAATTAACCATTTTTTGTCATGAGATAGT
131 GACATAGAAAGCAATTATCCAAAGGACTAAAATAGTTAATTAACCATTATTTGTCATGAGATAGT
*
61649371 AGAAGATGATGGTTTCCCACTTAGTTTTAATATGATAATTAAAATGTATAGTTAAACCTTAACTA
196 AGAAGATGATGGTTTCCCACTTAGTTTTAATATGATAATTAAAATGTATAATTAAACCTTAACTA
*
61649436 AAAATTACTAATGATGTATATATATAAGAAATCAAGTGG-AAAGAAAAGAGAACATCATCTTC
261 AAAATCACTAATGATGTATATATATAAGAAATCAAGTGGAAAAGAAAAGAGAACATCATCTTC
61649498 AATGAAGTTGTTATGAAAATATATTGAAATTCGGTT-AGTAATTTAACCAAGAAAA-AGCTAATT
1 AATGAAGTTGTTATGAAAATATATTGAAATTCGGTTAAGTAATTTAACCAAGAAAATAGCTAATT
61649561 AAAGCTCATAGACTAAATTGTAAAAGTCCAATCGCTATTAAATTTTAATTTAAAAAAAATACCTG
66 AAAGCTCATAGACTAAATTGTAAAAGTCCAATCGCTATTAAATTTTAATTT--AAAAAATACCTG
*
61649626 AAGACATAGAAAGCAATTATCTAAAGGACTAAAATAGTTAATTAACCATTATTTGTCATGAGATA
129 AAGACATAGAAAGCAATTATCCAAAGGACTAAAATAGTTAATTAACCATTATTTGTCATGAGATA
* *
61649691 GTGGAAGATGATGGTTTCCCACTTAGTTTTAATATGATAATTAAAATGTATAATTAAACCTTAAT
194 GTAGAAGATGATGGTTTCCCACTTAGTTTTAATATGATAATTAAAATGTATAATTAAACCTTAAC
*
61649756 TAAAAATCACTAATTATGTATATATATAAGAAATCAAGTGGAAAAAGAAAAGA
259 TAAAAATCACTAATGATGTATATATATAAGAAATCAAGTGG-AAAAGAAAAGA
61649809 AAATAGAATA
Statistics
Matches: 291, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
320 57 0.20
321 19 0.07
322 205 0.70
324 10 0.03
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (323 bp):
AATGAAGTTGTTATGAAAATATATTGAAATTCGGTTAAGTAATTTAACCAAGAAAATAGCTAATT
AAAGCTCATAGACTAAATTGTAAAAGTCCAATCGCTATTAAATTTTAATTTAAAAAATACCTGAA
GACATAGAAAGCAATTATCCAAAGGACTAAAATAGTTAATTAACCATTATTTGTCATGAGATAGT
AGAAGATGATGGTTTCCCACTTAGTTTTAATATGATAATTAAAATGTATAATTAAACCTTAACTA
AAAATCACTAATGATGTATATATATAAGAAATCAAGTGGAAAAGAAAAGAGAACATCATCTTC
Found at i:61651213 original size:125 final size:125
Alignment explanation
Indices: 61651056--61651299 Score: 373
Period size: 125 Copynumber: 2.0 Consensus size: 125
61651046 AAGTCCCTAG
* * *
61651056 AAGTGACCCCTGACCTATGTGCATGTCTCTTTCCTTAATTTTCTCCTTTTCTCGACATGATATGG
1 AAGTGACCCCTGACCTATGTGCATGTCACTTTCCTTAATTTTCACCTTTTCTCGACACGATATGG
** *
61651121 CTC-GATCCTCACTCGAATTCCTTATTCTACGAACCCTGCATTCACAATTCAATCGTTTGT
66 CTCAG-TCCAAACTCGAATTCCTTATTCTACGAACCCTGCATTCACAAGTCAATCGTTTGT
* *
61651181 AAGTGACCCCTGACCTATGTGCATGTCACTTTCCTTAATTTTCACCTTTTCTTGACACGATCTGG
1 AAGTGACCCCTGACCTATGTGCATGTCACTTTCCTTAATTTTCACCTTTTCTCGACACGATATGG
* * *
61651246 CTCAGTCCAAACTCGAGTTCCTTGTTCTACGAACCTTGCATTCACAAGTCAATC
66 CTCAGTCCAAACTCGAATTCCTTATTCTACGAACCCTGCATTCACAAGTCAATC
61651300 ATTTTTAAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
125 106 0.99
126 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.36
Consensus pattern (125 bp):
AAGTGACCCCTGACCTATGTGCATGTCACTTTCCTTAATTTTCACCTTTTCTCGACACGATATGG
CTCAGTCCAAACTCGAATTCCTTATTCTACGAACCCTGCATTCACAAGTCAATCGTTTGT
Found at i:61659998 original size:52 final size:52
Alignment explanation
Indices: 61659936--61660039 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
61659926 GAAACTCAAT
* *
61659936 CACATGTATCGGATCCATTATAAACTCGGACCAACTCAACGAGCTCGGATGC
1 CACATGTATCGCATCCATTATAAACTCGGACCAACTCAACGAGCTCAGATGC
* * * *
61659988 CACATGTATCGCATCCATTATGAACTCGGAGCAATTCAACGAGTTCAGATGC
1 CACATGTATCGCATCCATTATAAACTCGGACCAACTCAACGAGCTCAGATGC
61660040 TCGCATCCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (52 bp):
CACATGTATCGCATCCATTATAAACTCGGACCAACTCAACGAGCTCAGATGC
Found at i:61664234 original size:29 final size:29
Alignment explanation
Indices: 61664201--61664258 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
61664191 TAATACGAGG
*
61664201 TAAGTTGATATGCAAATAAATACCTTTAA
1 TAAGTTCATATGCAAATAAATACCTTTAA
61664230 TAAGTTCATATGCAAATAAATACCTTTAA
1 TAAGTTCATATGCAAATAAATACCTTTAA
61664259 ATTGATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (29 bp):
TAAGTTCATATGCAAATAAATACCTTTAA
Found at i:61664461 original size:43 final size:43
Alignment explanation
Indices: 61664413--61664496 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
61664403 ATTACCAATA
*
61664413 TGTGATTACATGGAGGACCAT-TTCTGGGACATTGACATTGTAT
1 TGTGATTACATGGAAGACCATCTT-TGGGACATTGACATTGTAT
* * *
61664456 TGTGATTACGTGTAAGACCATCTTTGGGACATTGGCATTGT
1 TGTGATTACATGGAAGACCATCTTTGGGACATTGACATTGT
61664497 TATATGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 34 0.94
44 2 0.06
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
TGTGATTACATGGAAGACCATCTTTGGGACATTGACATTGTAT
Found at i:61664515 original size:43 final size:43
Alignment explanation
Indices: 61664428--61664527 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
61664418 TTACATGGAG
* *
61664428 GACCATTTCTGGGACATTGACATTGTATTGTGATTACGTGTAA
1 GACCATTTCTGGGACATTGACATTGTATTGTAATTACGTATAA
*
61664471 GACCATCTT-TGGGACATTGGCATTGTTATATG-AATT-CGTATAA
1 GACCAT-TTCTGGGACATTGACATTG-TAT-TGTAATTACGTATAA
* *
61664514 GACCCTGTCTGGGA
1 GACCATTTCTGGGA
61664528 TAGTGGCATC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.02
43 37 0.77
44 8 0.17
45 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
GACCATTTCTGGGACATTGACATTGTATTGTAATTACGTATAA
Found at i:61671614 original size:62 final size:62
Alignment explanation
Indices: 61671543--61671667 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
61671533 TATAATAACC
*
61671543 TAACCATTTTATACTTATTCAATCACTTTATTACTTGATTTGGCATATATACTTGCACCATT
1 TAACCATTTTATACTTATTCAATCACTTTATTACTTGATTTGGCATATATACTTGCACAATT
*
61671605 TAACCATTTTATACTTATTTAATCACTTTATTACTTGATTTGGCATATATACTTGCACAATT
1 TAACCATTTTATACTTATTCAATCACTTTATTACTTGATTTGGCATATATACTTGCACAATT
61671667 T
1 T
61671668 GCATATCATA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (62 bp):
TAACCATTTTATACTTATTCAATCACTTTATTACTTGATTTGGCATATATACTTGCACAATT
Found at i:61671626 original size:19 final size:21
Alignment explanation
Indices: 61671602--61671645 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
61671592 TACTTGCACC
*
61671602 ATTTAACCATTTTA-TACTT-
1 ATTTAACCACTTTATTACTTG
*
61671621 ATTTAATCACTTTATTACTTG
1 ATTTAACCACTTTATTACTTG
61671642 ATTT
1 ATTT
61671646 GGCATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 5 0.24
21 4 0.19
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTAACCACTTTATTACTTG
Found at i:61674509 original size:8 final size:8
Alignment explanation
Indices: 61674496--61674533 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
61674486 CTAGATACCG
61674496 TTCTTCTC
1 TTCTTCTC
61674504 TTCTTCTC
1 TTCTTCTC
*
61674512 ATCTTCTC
1 TTCTTCTC
61674520 TTCTTCTC
1 TTCTTCTC
61674528 TT-TTCT
1 TTCTTCT
61674534 ATGCTTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (8 bp):
TTCTTCTC
Found at i:61678107 original size:41 final size:41
Alignment explanation
Indices: 61677994--61678143 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
61677984 CGCTGACTCA
* *
61677994 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
61678035 GAAGGCCCTTCTAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
61678075 AAAAGCCCTTTGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
61678116 AAAAGCCCTTCGAGACCAAACTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
61678144 TAAACCCCGA
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:61682968 original size:40 final size:39
Alignment explanation
Indices: 61682915--61683136 Score: 238
Period size: 39 Copynumber: 5.6 Consensus size: 39
61682905 GCTACTCGTT
*
61682915 CAAA-GCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * *
61682954 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
61682994 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* *
61683033 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* * * *
61683072 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGTAAC-TCGCA
61683113 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
61683137 ACATCATTCA
Statistics
Matches: 159, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.46
40 72 0.45
41 12 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:61683014 original size:79 final size:77
Alignment explanation
Indices: 61682915--61683137 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 77
61682905 GCTACTCGTT
* *
61682915 CAAA-GCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGG
*
61682979 ATTTAGTAACTCGCA
63 AATTAGTAACTCGCA
* *
61682994 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGA
*
61683058 ATTAGTATCTCGCA
64 ATTAGTAACTCGCA
* * * * * *
61683072 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
61683137 A
63 A
61683138 CATCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 36 0.29
79 59 0.48
80 28 0.23
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAAT
TAGTAACTCGCA
Found at i:61692220 original size:40 final size:40
Alignment explanation
Indices: 61692176--61692264 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 40
61692166 GATCGAAGGA
61692176 GATTTGTGCGGCGTAGATACTAATCCGGCTAAG-CCCGAAG
1 GATTTGTGCGGCG-AGATACTAATCCGGCTAAGTCCCGAAG
* * * *
61692216 GATTT-TG-TGCGAGTTACTAATCCGGGTTAGTCCCGAAG
1 GATTTGTGCGGCGAGATACTAATCCGGCTAAGTCCCGAAG
*
61692254 GCAATTGTGCG
1 G-ATTTGTGCG
61692265 AGTACTCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
37 16 0.41
38 11 0.28
39 5 0.13
40 7 0.18
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
GATTTGTGCGGCGAGATACTAATCCGGCTAAGTCCCGAAG
Found at i:61692237 original size:37 final size:38
Alignment explanation
Indices: 61692193--61692267 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
61692183 GCGGCGTAGA
*
61692193 TACTAATCCGGCTAAG-CCCGAAGG-ATTTTGTGCGAGT
1 TACTAATCCGGCTAAGTCCCGAAGGCA-ATTGTGCGAGT
* *
61692230 TACTAATCCGGGTTAGTCCCGAAGGCAATTGTGCGAGT
1 TACTAATCCGGCTAAGTCCCGAAGGCAATTGTGCGAGT
61692268 ACTCATAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 14 0.42
38 18 0.55
39 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (38 bp):
TACTAATCCGGCTAAGTCCCGAAGGCAATTGTGCGAGT
Found at i:61699304 original size:1 final size:1
Alignment explanation
Indices: 61699298--61699332 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
61699288 CGAATGGTCA
61699298 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
61699333 CCAAGCCCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:61701674 original size:42 final size:45
Alignment explanation
Indices: 61701573--61701674 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 45
61701563 ACGTGTGCCA
* *
61701573 GTGTAAGACCATATCTGGGATATGGCATCAGCATTGGTATGTGATTTC
1 GTGTAAGACCATATCTGGGATATGG-AT-AG-ATTGATATGAGATTTC
* *
61701621 ATGTAAGACCATATCTGGGTTATGG-T-G-TTGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGATAGATTGATATGAGATTTC
61701663 GTGTAAGACCAT
1 GTGTAAGACCAT
61701675 GTAACACCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 24 0.49
44 1 0.02
46 1 0.02
48 23 0.47
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (45 bp):
GTGTAAGACCATATCTGGGATATGGATAGATTGATATGAGATTTC
Found at i:61703639 original size:19 final size:18
Alignment explanation
Indices: 61703610--61703645 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
61703600 TTTAATATAA
61703610 AAATTTACATAAATAAAC
1 AAATTTACATAAATAAAC
61703628 AAATTATACATAAATAAA
1 AAATT-TACATAAATAAA
61703646 TTTAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATTTACATAAATAAAC
Found at i:61705420 original size:22 final size:22
Alignment explanation
Indices: 61705383--61705427 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
61705373 GGTTGGTGAT
61705383 TTGGGTTAGGGGTTTATTTAGTAA
1 TTGGGTTA-GGGTTTATTT-GTAA
61705407 TTGGGTT-GGGTTTATTTGTAA
1 TTGGGTTAGGGTTTATTTGTAA
61705428 AAATGTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 10 0.48
24 7 0.33
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (22 bp):
TTGGGTTAGGGTTTATTTGTAA
Found at i:61705938 original size:177 final size:176
Alignment explanation
Indices: 61705635--61706295 Score: 825
Period size: 177 Copynumber: 3.7 Consensus size: 176
61705625 AATAGGACTG
* * * * ** * * *
61705635 GTGGCTCAAATCTGCTCCATTGCCAATAGATGGAGATAAGATTCATAATCCTCAATCTCCTCCAC
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* * *
61705700 AACTGCTTA-GGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGA
66 AGCTGCTTAGGGGATA-AGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGATAAGA
61705764 CTACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
130 CTACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
* **
61705811 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGTTAAGATTTGCCATCTTCGATCTGC-CTCA
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTC-CA
61705875 CAGCTGCTTAAGGGGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTC-AGAAAGATAA
65 CAGCTGCTT-AGGGGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAG-AAGATAA
* ** *
61705939 GACTATAAACGCCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTA
128 GACTACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
* * *
61705988 GTGGCTAAAATCTACTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCA-
* * * * * * *
61706053 CA-CTGCTTAGGAAGATAAGATCGTCAATCTTCGATCTCCTTCCTTGCTACTTTAGGAAGATAAG
65 CAGCTGCTTAGG-GGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGATAAG
* *
61706117 ACT-C-ATT-CTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCA
129 ACTACAATTGC--CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
* * *
61706164 GTGG-TAAAATCTGTTTCATTATCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* ** * *
61706228 TGCAACTTCAGGGCGATAAGATCTTCAACCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAG
66 AGCTGCTT-AGGG-GATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGATAAG
61706293 ACT
129 ACT
61706296 TTTTTATTGA
Statistics
Matches: 418, Mismatches: 54, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
174 2 0.00
175 59 0.14
176 150 0.36
177 198 0.47
178 9 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (176 bp):
GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
AGCTGCTTAGGGGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGATAAGAC
TACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
Found at i:61706145 original size:43 final size:45
Alignment explanation
Indices: 61706059--61706145 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 45
61706049 CCACCACTGC
* *
61706059 TTAGGAAGATAAGATCGTCAATCTTCGATCTCCTTCCTTGCTACT
1 TTAGGAAGATAAGATCGTCAATCTTCAACCTCCTTCCTTGCTACT
* *
61706104 TTAGGAAGATAAGA-C-TCATTCTTCAACCTGCTCTCC-TGCTAC
1 TTAGGAAGATAAGATCGTCAATCTTCAACCTCCT-TCCTTGCTAC
61706146 CTCAGAGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 19 0.51
44 4 0.11
45 14 0.38
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (45 bp):
TTAGGAAGATAAGATCGTCAATCTTCAACCTCCTTCCTTGCTACT
Found at i:61706295 original size:353 final size:353
Alignment explanation
Indices: 61705635--61706295 Score: 906
Period size: 353 Copynumber: 1.9 Consensus size: 353
61705625 AATAGGACTG
* * * *
61705635 GTGGCTCAAATCTGCTCCATTGCCAATAGATGGAGATAAGATTCATAATCCTCAATCTCCTCCAC
1 GTGGCTAAAATCTACTCCATTGCCAATACATGGAGATAAGATTCACAATCCTCAATCTCCTCCAC
* *
61705700 AACTGCTTAGGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGAC
66 AACTGCTTAGGGAAATAGATCGTCAATCTTCAGTCTCCTTCCTTGCTACCTCAAGAAGATAAGAC
* *
61705765 TACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCA
131 TACAATTGCCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCA
* * ** **
61705830 TTGTCGATACATGGAGTTAAGATTTGCCATCTTCGATCTGCCTCACAGCTGCTTAAGGGGATAAG
196 TTATCGATACATGGAGATAAGATTCACCATCTTCGATCTGCCTCACAGCAACTTAAGGGGATAAG
*
61705895 ATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACTATAAACGCCAACCTGCT
261 ATCTTCAACCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACTATAAACGCCAACCTGCT
61705960 CTCTTGCTACCTTAGAGAGATAAGGCTA
326 CTCTTGCTACCTTAGAGAGATAAGGCTA
* * * * * ** *
61705988 GTGGCTAAAATCTACTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCAC
1 GTGGCTAAAATCTACTCCATTGCCAATACATGGAGATAAGATTCACAATCCTCAATCTCCTCCAC
* * * *
61706053 CACTGCTTA-GGAAGATAAGATCGTCAATCTTC-GATCTCCTTCCTTGCTACTTTAGGAAGATAA
66 AACTGCTTAGGGAA-AT-AGATCGTCAATCTTCAG-TCTCCTTCCTTGCTACCTCAAGAAGATAA
61706116 GACT-C-ATT-CTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGG-TAAAATCTG
128 GACTACAATTGC--CAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTG
* * * *
61706177 TTTCATTATCGATACATGGAGATAAGATTCACCATCTTCGATCTG-CTCCACTGCAACTTCAGGG
191 CTCCATTATCGATACATGGAGATAAGATTCACCATCTTCGATCTGCCT-CACAGCAACTTAAGGG
*
61706241 CGATAAGATCTTCAACCTTCAGTCTGCTTCCTTGCTACCTCA-AGAAGATAAGACT
255 -GATAAGATCTTCAACCTTCAATCTGCTTCCTTGCTACCTCAGA-AAGATAAGACT
61706296 TTTTTATTGA
Statistics
Matches: 268, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
351 3 0.01
352 68 0.25
353 154 0.57
354 43 0.16
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (353 bp):
GTGGCTAAAATCTACTCCATTGCCAATACATGGAGATAAGATTCACAATCCTCAATCTCCTCCAC
AACTGCTTAGGGAAATAGATCGTCAATCTTCAGTCTCCTTCCTTGCTACCTCAAGAAGATAAGAC
TACAATTGCCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCA
TTATCGATACATGGAGATAAGATTCACCATCTTCGATCTGCCTCACAGCAACTTAAGGGGATAAG
ATCTTCAACCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACTATAAACGCCAACCTGCT
CTCTTGCTACCTTAGAGAGATAAGGCTA
Found at i:61706552 original size:64 final size:64
Alignment explanation
Indices: 61706451--61706642 Score: 348
Period size: 64 Copynumber: 3.0 Consensus size: 64
61706441 TTCATGTATC
* *
61706451 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTAAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
61706515 ATGCTTATGTAAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTAAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* *
61706579 ATGCTTATGTTAAATAATTAGGATGCTATGATAAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTAAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
61706643 TTATGAATGA
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 124 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (64 bp):
ATGCTTATGTAAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:61712543 original size:19 final size:18
Alignment explanation
Indices: 61712514--61712549 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
61712504 TTTAATATAA
61712514 AAATTTACATAAATAAAC
1 AAATTTACATAAATAAAC
61712532 AAATTATACATAAATAAA
1 AAATT-TACATAAATAAA
61712550 TTTAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATTTACATAAATAAAC
Found at i:61715117 original size:40 final size:40
Alignment explanation
Indices: 61715062--61715217 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
61715052 AGACATAGCT
*
61715062 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
61715102 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
61715142 ACTCGCACAAATGCCTTCGGGACTTAGCCCTG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
61715182 TCTAGCAGAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
61715218 CATCCGAATA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:61715168 original size:80 final size:80
Alignment explanation
Indices: 61715036--61715213 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
61715026 CAACCAAGTA
* * * *
61715036 CCTTCGGGATTTAG-CCAGACATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATA
1 CCTTCGGGACTTAGCCCGGACATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
*
61715099 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
* *
61715115 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCTGAATTA
1 CCTTCGGGACTTAGCCCGGACATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
** *
61715179 GTCTCTAGCAGAAATG
65 GTAACTAGCACAAATG
61715195 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61715214 TTATCATCCG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 14 0.16
80 71 0.83
81 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGACATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTAGCACAAATG
Found at i:61717220 original size:17 final size:16
Alignment explanation
Indices: 61717194--61717228 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
61717184 AAACTGGAGC
61717194 TTGGGACATTTGGGCTA
1 TTGGGACA-TTGGGCTA
*
61717211 TTGGGTCATTGGGCTA
1 TTGGGACATTGGGCTA
61717227 TT
1 TT
61717229 TTAGAGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.14, C:0.11, G:0.34, T:0.40
Consensus pattern (16 bp):
TTGGGACATTGGGCTA
Found at i:61722864 original size:17 final size:17
Alignment explanation
Indices: 61722844--61722900 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
61722834 CACACATCAT
61722844 TCACATGCTACCATTTA
1 TCACATGCTACCATTTA
* * *
61722861 TCACATACAAACA-TTA
1 TCACATGCTACCATTTA
*
61722877 TTCACATGCTACCCTTTA
1 -TCACATGCTACCATTTA
61722895 TCACAT
1 TCACAT
61722901 ACAAACATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 3 0.10
17 25 0.81
18 3 0.10
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (17 bp):
TCACATGCTACCATTTA
Found at i:61722885 original size:34 final size:34
Alignment explanation
Indices: 61722837--61722910 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
61722827 AGACATCCAC
61722837 ACATCATTCACATGCTACCATTTATCACATACAA
1 ACATCATTCACATGCTACCATTTATCACATACAA
* *
61722871 ACATTATTCACATGCTACCCTTTATCACATACAA
1 ACATCATTCACATGCTACCATTTATCACATACAA
61722905 ACATCA
1 ACATCA
61722911 CATACTTATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.30
Consensus pattern (34 bp):
ACATCATTCACATGCTACCATTTATCACATACAA
Found at i:61727478 original size:27 final size:27
Alignment explanation
Indices: 61727448--61727533 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 27
61727438 CAAAGTAAGG
61727448 TTTAGGTATGTCAAGTGTGAGAGTGAT
1 TTTAGGTATGTCAAGTGTGAGAGTGAT
* *
61727475 TTTAGGTCATTTTGAAGTGCTTTTG-GAG-G--
1 TTTAGGT-A-TGTCAAGTG----TGAGAGTGAT
61727504 TTTAGGTATGTCAAGTGTGAGAGTGAT
1 TTTAGGTATGTCAAGTGTGAGAGTGAT
61727531 TTT
1 TTT
61727534 GGGTCATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 20
0.65 0.06 0.29
Matches are distributed among these distances:
23 2 0.04
24 3 0.07
25 1 0.02
27 17 0.38
28 2 0.04
29 14 0.31
31 1 0.02
32 3 0.07
33 2 0.04
ACGTcount: A:0.22, C:0.05, G:0.31, T:0.42
Consensus pattern (27 bp):
TTTAGGTATGTCAAGTGTGAGAGTGAT
Found at i:61727512 original size:56 final size:56
Alignment explanation
Indices: 61727445--61727557 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
61727435 CTTCAAAGTA
61727445 AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTAGGTCATTTTGAAGTGCTTTTGG
1 AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTAGGTCATTTTGAAGTGCTTTTGG
*
61727501 AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTGGGTCATTTTGAAGTGCTTTTGG
1 AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTAGGTCATTTTGAAGTGCTTTTGG
61727557 A
1 A
61727558 TCATCTAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.41
Consensus pattern (56 bp):
AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTAGGTCATTTTGAAGTGCTTTTGG
Found at i:61733220 original size:21 final size:19
Alignment explanation
Indices: 61733182--61733224 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
61733172 TGATAAACCA
61733182 TTTTTAATATTTTAAATTAT
1 TTTTTAATATTTTAAATT-T
61733202 TTTTATAATTATTTT-AATTT
1 TTTT-TAA-TATTTTAAATTT
61733222 TTT
1 TTT
61733225 ATTTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 8 0.38
21 7 0.33
22 6 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTAATATTTTAAATTT
Found at i:61733241 original size:18 final size:19
Alignment explanation
Indices: 61733200--61733241 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
61733190 ATTTTAAATT
*
61733200 ATTTTTATAATTATTTTAA
1 ATTTTTATAATTATTTAAA
* *
61733219 TTTTTTAT-TTTATTTAAA
1 ATTTTTATAATTATTTAAA
61733237 ATTTT
1 ATTTT
61733242 AAGAAAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTATAATTATTTAAA
Found at i:61733663 original size:15 final size:15
Alignment explanation
Indices: 61733643--61733674 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
61733633 GTGGTAAGAA
*
61733643 TTTAATATTTAATTT
1 TTTAATACTTAATTT
61733658 TTTAATACTTAATTT
1 TTTAATACTTAATTT
61733673 TT
1 TT
61733675 AATTTATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATACTTAATTT
Found at i:61743991 original size:47 final size:47
Alignment explanation
Indices: 61743925--61744212 Score: 477
Period size: 47 Copynumber: 6.1 Consensus size: 47
61743915 GAAATGATAG
61743925 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61743972 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
61744019 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
61744068 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61744115 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
61744162 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61744209 TAAG
1 TAAG
61744213 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 181 0.80
49 46 0.20
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:61744098 original size:96 final size:94
Alignment explanation
Indices: 61743925--61744212 Score: 477
Period size: 96 Copynumber: 3.0 Consensus size: 94
61743915 GAAATGATAG
61743925 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
61743990 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
61744019 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
61744084 ATGTGATGAATGTGAAAGTGTATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
61744115 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
61744180 GTGATGGATGTGAAAGTGTATAAATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
61744209 TAAG
1 TAAG
61744213 TCCCGAAGGG
Statistics
Matches: 182, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 89 0.49
96 93 0.51
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:61744184 original size:143 final size:141
Alignment explanation
Indices: 61743925--61744212 Score: 486
Period size: 143 Copynumber: 2.0 Consensus size: 141
61743915 GAAATGATAG
61743925 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * ** *
61743990 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
61744055 TATATATATGTGA
131 TATA-A-ATGTGA
61744068 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
61744133 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
61744198 TATAAATGTGA
131 TATAAATGTGA
61744209 TAAG
1 TAAG
61744213 TCCCGAAGGG
Statistics
Matches: 137, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
141 10 0.07
142 1 0.01
143 126 0.92
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
TATAAATGTGA
Found at i:61747570 original size:41 final size:41
Alignment explanation
Indices: 61747513--61747662 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
61747503 TCGGGGTTTA
*
61747513 AATCCGAGTTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
61747554 AATCCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
61747595 AA-CTGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
61747635 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
61747663 TGAGTCAGCG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:61754200 original size:38 final size:38
Alignment explanation
Indices: 61754123--61754288 Score: 233
Period size: 38 Copynumber: 4.3 Consensus size: 38
61754113 TTTGTGCGAT
61754123 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 CGAAGGCATTTGTGCGAGATACTAA-TCCGGGCTAAGCC
61754162 CGAAGGCATTTGTGCGAGATACTAATCCGGGCTAAGCC
1 CGAAGGCATTTGTGCGAGATACTAATCCGGGCTAAGCC
* * *
61754200 CGAAGGCATTTGTGCGAGTTACTAATCCGGGTTAAGTC
1 CGAAGGCATTTGTGCGAGATACTAATCCGGGCTAAGCC
* * * * *
61754238 CGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTC
1 CGAAGGCATTTGTGCGAGATACTA-ATCCGGGCTAAGCC
*
61754277 CGAAGGCGTTTG
1 CGAAGGCATTTG
61754289 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 71 0.61
39 46 0.39
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (38 bp):
CGAAGGCATTTGTGCGAGATACTAATCCGGGCTAAGCC
Found at i:61754269 original size:77 final size:77
Alignment explanation
Indices: 61754123--61754288 Score: 235
Period size: 77 Copynumber: 2.2 Consensus size: 77
61754113 TTTGTGCGAT
* *
61754123 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATACTAAA
61754188 CCGGGCTAAGCC
66 CCGGGCTAAGCC
* * * *
61754200 CGAAGGCATTTGTGCGAGTTACTAA-TCCGGGTTAAGTCCGAAGGCAATTGTGCGAGTTACTATA
1 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATACTA-A
* *
61754264 ACCGGGCTATGTC
65 ACCGGGCTAAGCC
*
61754277 CGAAGGCGTTTG
1 CGAAGGCATTTG
61754289 AACGAGTAGC
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 33 0.42
77 46 0.58
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (77 bp):
CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATACTAAA
CCGGGCTAAGCC
Found at i:61754295 original size:77 final size:75
Alignment explanation
Indices: 61754123--61754321 Score: 229
Period size: 77 Copynumber: 2.6 Consensus size: 75
61754113 TTTGTGCGAT
* * * *
61754123 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 CGAAGGCATTTGTGCGAG-TACTAA-TCCGGGTTAAGTCCGAAGGCAATTGTGCGAGATACTAAA
61754188 CCGGGCTAAGCC
64 CCGGGCTAAGCC
*
61754200 CGAAGGCATTTGTGCGAGTTACTAATCCGGGTTAAGTCCGAAGGCAATTGTGCGAGTTACTATAA
1 CGAAGGCATTTGTGCGAG-TACTAATCCGGGTTAAGTCCGAAGGCAATTGTGCGAGATACTA-AA
* *
61754265 CCGGGCTATGTC
64 CCGGGCTAAGCC
* ** *
61754277 CGAAGGCGTTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 CGAAGGCATTTGTGCGAGTA-CTA-ATCCGGGTT-AAGTCCGAAGG
61754322 TACGTGATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
76 35 0.33
77 57 0.54
78 14 0.13
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (75 bp):
CGAAGGCATTTGTGCGAGTACTAATCCGGGTTAAGTCCGAAGGCAATTGTGCGAGATACTAAACC
GGGCTAAGCC
Found at i:61762378 original size:40 final size:39
Alignment explanation
Indices: 61762294--61762478 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
61762284 TTGAATGATG
* * * *
61762294 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
61762334 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
61762374 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61762413 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
61762454 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
61762479 AATGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61762430 original size:79 final size:80
Alignment explanation
Indices: 61762294--61762478 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
61762284 TTGAATGATG
* *
61762294 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
61762359 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
61762373 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61762435 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
61762453 ACCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
61762479 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:61762500 original size:79 final size:79
Alignment explanation
Indices: 61762347--61762511 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
61762337 GGACTAAGAT
* * **
61762347 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61762412 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
61762426 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAATGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61762489 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61762505 CCGAAGG
1 CCGAAGG
61762512 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61780657 original size:19 final size:19
Alignment explanation
Indices: 61780620--61780657 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
61780610 ACCTGTCAGA
*
61780620 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
61780639 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
61780658 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:61787383 original size:119 final size:120
Alignment explanation
Indices: 61787199--61787423 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
61787189 GCTCCTCGTT
**
61787199 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
61787264 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
61787319 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
61787381 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
61787424 CATTATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61787423 original size:40 final size:40
Alignment explanation
Indices: 61787199--61787423 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
61787189 GCTCCTCGTT
* *
61787199 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61787239 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61787279 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61787319 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
61787358 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
61787399 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61787424 CATTATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 4 0.02
39 29 0.18
40 117 0.71
41 14 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:61796635 original size:40 final size:40
Alignment explanation
Indices: 61796574--61796656 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
61796564 AGTGTCGTAC
* * * *
61796574 ATAGCCGAAGCTATCTTAAATCGCACATTAACTGCCATAT
1 ATAGCCGAAGCTATCTCAAATCACACACTAACTGCCACAT
* * *
61796614 ATAGCTGAAGCTATGTCAAATCACACACTAAGTGCCACAT
1 ATAGCCGAAGCTATCTCAAATCACACACTAACTGCCACAT
61796654 ATA
1 ATA
61796657 TCTAATTTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.25
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAAATCACACACTAACTGCCACAT
Found at i:61797461 original size:27 final size:26
Alignment explanation
Indices: 61797434--61797495 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 26
61797424 TTTAAATTTA
61797434 ATTAACCATTAATAATCAATTTAC--
1 ATTAACCATTAATAATCAATTTACTT
61797458 -TTAACCATTAATAATCAATTTACTT
1 ATTAACCATTAATAATCAATTTACTT
*
61797483 ATTTAACCTTTAA
1 A-TTAACCATTAA
61797496 AACATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 23 0.70
27 10 0.30
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAACCATTAATAATCAATTTACTT
Found at i:61797480 original size:23 final size:23
Alignment explanation
Indices: 61797428--61797483 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
61797418 TGGTTTTTTA
*
61797428 AATTTAATTAACCATTAATAATC
1 AATTTACTTAACCATTAATAATC
61797451 AATTTACTTAACCATTAATAATC
1 AATTTACTTAACCATTAATAATC
61797474 AATTTACTTA
1 AATTTACTTA
61797484 TTTAACCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTTACTTAACCATTAATAATC
Found at i:61801292 original size:40 final size:39
Alignment explanation
Indices: 61801095--61801310 Score: 194
Period size: 38 Copynumber: 5.6 Consensus size: 39
61801085 TGTAATGCTG
* * * * * *
61801095 TCCGGGCTATAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTA-AGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * * *
61801136 TCCGGACTAAG-ACCGAAGGCATTGTGCGAGATAC-AAG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
61801173 TCC-GGTTAAG-CCCGAAGGCTTTGTGCGAGATACT-AA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
*
61801209 TCCGGGTTAAGTCCCGAAGGCA-TGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
61801247 TCCGGGTTAAGTCCCGAAGCGCAATTGTG-GAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAG-GC-ATTGTGCGAGTTACTAAA
* * *
61801287 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61801311 TGAACGAGGA
Statistics
Matches: 147, Mismatches: 21, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
36 30 0.20
37 22 0.15
38 36 0.24
39 18 0.12
40 29 0.20
41 12 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:61801301 original size:78 final size:73
Alignment explanation
Indices: 61801148--61801309 Score: 182
Period size: 78 Copynumber: 2.1 Consensus size: 73
61801138 CGGACTAAGA
* * *
61801148 CCGAAGGCATTGTGCGAGATACAAGTCCGGTTAAGCCCGAAGGCTTTGTGCGAGATACTAATCCG
1 CCGAAGGCA-TGTGCGAGATACAAATCCGGTTAAGCCCGAAGGCATTGTGCGAGATACTAAACCG
*
61801213 GGTTAAGTC
65 GGCTAAGTC
* * *
61801222 CCGAAGGCATGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGCGCAATTGTG-GAGTTACTAA
1 CCGAAGGCATGTGCGAGATA-CAAATCC-GGTTAAG-CCCGAAG-GC-ATTGTGCGAGATACT-A
*
61801286 AACCGGGCTATGTC
60 AACCGGGCTAAGTC
61801300 CCGAAGGCAT
1 CCGAAGGCAT
61801310 TTGAACGAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
73 10 0.14
74 14 0.19
75 7 0.09
76 7 0.09
77 9 0.12
78 27 0.36
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (73 bp):
CCGAAGGCATGTGCGAGATACAAATCCGGTTAAGCCCGAAGGCATTGTGCGAGATACTAAACCGG
GCTAAGTC
Found at i:61809195 original size:39 final size:39
Alignment explanation
Indices: 61808991--61809213 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
61808981 TTGAATGCTG
* * * * * *
61808991 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
61809031 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
61809071 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
61809111 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
61809151 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
61809190 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61809214 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:61809233 original size:79 final size:80
Alignment explanation
Indices: 61809071--61809247 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
61809061 AGATACAAGT
* * * *
61809071 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
61809136 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
61809151 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
61809215 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
61809230 TCC-GGTTAAAT-CCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
61809248 TATGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
77 7 0.09
78 8 0.10
79 48 0.59
80 19 0.23
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:61812374 original size:39 final size:39
Alignment explanation
Indices: 61812329--61812430 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
61812319 TTCAAGACAG
* *
61812329 TGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTCTTGT
1 TGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTCGTGC
* *
61812368 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTCGTGC
61812407 TGGAAATGTATCCGGGCTAAAGTC
1 TGGAAATGTATCCGGGCTAAAGTC
61812431 TCGCTGGTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTCGTGC
Found at i:61824151 original size:46 final size:49
Alignment explanation
Indices: 61824036--61824157 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
61824026 TGTCTTCGAC
** * *
61824036 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* *
61824086 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATA-A-ATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
* *
61824132 ATGGACTTACGTGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
61824158 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 29 0.46
47 1 0.02
48 3 0.05
50 30 0.48
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:61832562 original size:50 final size:46
Alignment explanation
Indices: 61832491--61832612 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
61832481 TGTCTTCGAC
** * * *
61832491 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC----ATACATCTAAT
* * *
61832541 ATGGGCTTACATGGCTCATTCCTCTCTCCAAAGCCATACATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATACATCTAAT
*
61832587 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
61832613 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
46 32 0.52
50 29 0.48
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATACATCTAAT
Found at i:61835958 original size:43 final size:43
Alignment explanation
Indices: 61835909--61836059 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
61835899 TATCCTAAAT
* * * *
61835909 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAT
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* ** *
61835952 AGGGTCTTACATAAAATCA-ACTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACA-TATCGATGCCAATGTCCCAGAC
* * *
61835995 ATGGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
61836038 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
61836060 CTAGATAACC
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
42 2 0.02
43 84 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:61843007 original size:28 final size:29
Alignment explanation
Indices: 61842956--61843012 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
61842946 AGCATGACTG
*
61842956 TGAATGTGATTTGGGCCTAATGGGCCATA
1 TGAATGAGATTTGGGCCTAATGGGCCATA
*
61842985 TGAATGAGA-TTGGGCCTAGTGGGCCATA
1 TGAATGAGATTTGGGCCTAATGGGCCATA
61843013 GGCATGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (29 bp):
TGAATGAGATTTGGGCCTAATGGGCCATA
Found at i:61850884 original size:117 final size:119
Alignment explanation
Indices: 61850678--61850897 Score: 288
Period size: 117 Copynumber: 1.9 Consensus size: 119
61850668 GCTACTCGTT
* *
61850678 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
61850743 ATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCTGATTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCTGATTAGTAACTCGCA
* * **
61850796 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
61850858 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCC
61850898 GGACATCATT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
116 4 0.05
117 54 0.61
118 30 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCTGATTAGTAACTCGCA
Found at i:61850900 original size:40 final size:40
Alignment explanation
Indices: 61850659--61850900 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
61850649 CGGAATTTAA
** *
61850659 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
61850699 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61850739 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61850778 CCTGAT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61850816 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
61850856 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61850896 CCGGA
1 CCGGA
61850901 CATCATTCAA
Statistics
Matches: 175, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 38 0.22
39 33 0.19
40 92 0.53
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61858684 original size:40 final size:40
Alignment explanation
Indices: 61858647--61858868 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
61858637 GCTACTCGTT
*
61858647 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
61858687 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
61858727 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
61858766 CAAA--CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
61858803 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
61858844 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61858869 CATCATTCAA
Statistics
Matches: 160, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
37 37 0.23
38 2 0.01
39 31 0.19
40 77 0.48
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61858828 original size:116 final size:118
Alignment explanation
Indices: 61858653--61858868 Score: 280
Period size: 116 Copynumber: 1.8 Consensus size: 118
61858643 CGTTCAAATG
* * *
61858653 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
*
61858718 TAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAA
66 TAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAA
* * **
61858770 CCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
1 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* *
61858832 GGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 AGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
61858869 CATCATTCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
115 4 0.05
116 54 0.64
117 27 0.32
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (118 bp):
CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAA
Found at i:61872845 original size:34 final size:34
Alignment explanation
Indices: 61872773--61872845 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
61872763 GTACTTAATT
** * ** *
61872773 GGGCTAAGGCCCACACTGATACTGTTATTGTGAT
1 GGGCTAAGGCCCACACTGATACTGCCACTGAAAA
*
61872807 GGGCTAAGGCCCACACTGATATTGCCACTGAAAA
1 GGGCTAAGGCCCACACTGATACTGCCACTGAAAA
61872841 GGGCT
1 GGGCT
61872846 TAAGCCTAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTGATACTGCCACTGAAAA
Found at i:61873478 original size:33 final size:32
Alignment explanation
Indices: 61873441--61873535 Score: 84
Period size: 33 Copynumber: 2.9 Consensus size: 32
61873431 ACCTGGTCTG
*
61873441 TGTTTACTGTCCCAGCAGAC-TATCTCTGTTCCA
1 TGTTTACTGTCCC-GCAGACTTA-CTCTATTCCA
* * *
61873474 TGTTTACTATCCCGAAAAACTTACTCTATTCCA
1 TGTTTACTGTCCCG-CAGACTTACTCTATTCCA
* * *
61873507 TGTTTATTGTCCCTGCAGAATGACTCTAT
1 TGTTTACTGTCCC-GCAGACTTACTCTAT
61873536 GAATTCCATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
32 1 0.02
33 45 0.92
34 3 0.06
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (32 bp):
TGTTTACTGTCCCGCAGACTTACTCTATTCCA
Found at i:61875134 original size:20 final size:20
Alignment explanation
Indices: 61875031--61875134 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 20
61875021 GAATGATTGC
*
61875031 ACTTACGTGCCCCTATTTGT
1 ACTTACGTGCCCCTGTTTGT
* * **
61875051 AATT-CGATACCCCT-TATTAC
1 ACTTACG-TGCCCCTGT-TTGT
* *
61875071 ACTTACATGCCCTTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
* * * *
61875091 ACTCT-GGTACCCCTGATTGC
1 ACT-TACGTGCCCCTGTTTGT
61875111 ACTTACGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
61875131 ACTT
1 ACTT
61875135 TGGCACCCCT
Statistics
Matches: 58, Mismatches: 20, Indels: 12
0.64 0.22 0.13
Matches are distributed among these distances:
19 4 0.07
20 51 0.88
21 3 0.05
ACGTcount: A:0.17, C:0.30, G:0.14, T:0.38
Consensus pattern (20 bp):
ACTTACGTGCCCCTGTTTGT
Found at i:61875162 original size:40 final size:40
Alignment explanation
Indices: 61875030--61875154 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
61875020 TGAATGATTG
* * ** *
61875030 CACTTACGTGCCCCTATTTGTAAT-TCGATACCCCTTATTA
1 CACTTACGTGCCCCTGTTTGTACTCT-GGCACCCCTAATTA
* * * * *
61875070 CACTTACATGCCCTTGTTTGTACTCTGGTACCCCTGATTG
1 CACTTACGTGCCCCTGTTTGTACTCTGGCACCCCTAATTA
*
61875110 CACTTACGTGCCCCTGTTTGTACTTTGGCACCCCTAATTA
1 CACTTACGTGCCCCTGTTTGTACTCTGGCACCCCTAATTA
61875150 CACTT
1 CACTT
61875155 TGGTGCCCTG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.14, T:0.37
Consensus pattern (40 bp):
CACTTACGTGCCCCTGTTTGTACTCTGGCACCCCTAATTA
Found at i:61882381 original size:70 final size:70
Alignment explanation
Indices: 61882298--61882437 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
61882288 GAAGAGTTAA
61882298 GCAAAGAAAAGAGGCAAGTGGAAAGGGAAGCTCGGGTTACGAGTAAAAGATTTATGAACAAGACG
1 GCAAAGAAAAGAGGCAAGTGGAAAGGGAAGCTCGGGTTACGAGTAAAAGATTTATGAACAAGACG
61882363 CAATC
66 CAATC
*
61882368 GCAAAGAAAAGAGGCAAGTGGAAAGGGAAGCTCGGGTTACGAGTAAAAGATTTATGAACAAGATG
1 GCAAAGAAAAGAGGCAAGTGGAAAGGGAAGCTCGGGTTACGAGTAAAAGATTTATGAACAAGACG
61882433 CAATC
66 CAATC
61882438 ATCTGTTTCA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.30, T:0.15
Consensus pattern (70 bp):
GCAAAGAAAAGAGGCAAGTGGAAAGGGAAGCTCGGGTTACGAGTAAAAGATTTATGAACAAGACG
CAATC
Found at i:61886660 original size:29 final size:29
Alignment explanation
Indices: 61886627--61886700 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
61886617 GTTGTGAGAT
* *
61886627 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
61886656 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
61886685 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61886701 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:61894807 original size:29 final size:29
Alignment explanation
Indices: 61894774--61894847 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
61894764 GTTGTGAGAT
* *
61894774 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
61894803 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
61894832 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61894848 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:61896790 original size:10 final size:10
Alignment explanation
Indices: 61896775--61896802 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
61896765 ATATTACATG
61896775 TTTACTTTGT
1 TTTACTTTGT
61896785 TTTACTTTGT
1 TTTACTTTGT
61896795 TTTACTTT
1 TTTACTTT
61896803 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:61899887 original size:47 final size:47
Alignment explanation
Indices: 61899746--61900161 Score: 710
Period size: 47 Copynumber: 8.7 Consensus size: 47
61899736 CCCTTCGGGA
*
61899746 CTTATCACATTTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61899793 CTTATCACATATATATACACTTTCA-ATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61899841 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61899888 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61899935 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61899982 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61900031 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61900078 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61900127 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
61900162 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 7, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
46 16 0.05
47 201 0.57
48 31 0.09
49 106 0.30
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61900024 original size:96 final size:96
Alignment explanation
Indices: 61899746--61900161 Score: 750
Period size: 96 Copynumber: 4.4 Consensus size: 96
61899736 CCCTTCGGGA
*
61899746 CTTATCACATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
61899811 ACTTTCA-ATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61899841 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
61899904 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61899935 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
61900000 ACCTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
61900031 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
61900096 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
61900127 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
61900162 AGAATCCTAA
Statistics
Matches: 311, Mismatches: 6, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
93 15 0.05
94 78 0.25
95 55 0.18
96 163 0.52
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61902465 original size:47 final size:47
Alignment explanation
Indices: 61902396--61902714 Score: 539
Period size: 47 Copynumber: 6.7 Consensus size: 47
61902386 CCGTCCACTA
*
61902396 CCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
61902443 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
*
61902490 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGG
1 CCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGG
* *
61902539 TCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
* *
61902586 CTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGG
1 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
*
61902633 CTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
* *
61902680 CCATTAGGCCTTATCACATATATATACATTCACAT
1 CCATTAGGCCTTATCACATATATACACTTTCACAT
61902715 CACAATTATC
Statistics
Matches: 257, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 213 0.83
49 44 0.17
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
Found at i:61902655 original size:143 final size:141
Alignment explanation
Indices: 61902396--61902714 Score: 548
Period size: 143 Copynumber: 2.2 Consensus size: 141
61902386 CCGTCCACTA
61902396 CCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
61902461 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
66 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACA
*
61902526 TTCATCACATTGG
129 TTCATCACATCGG
* *
61902539 TCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
1 CCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* *
61902604 TATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACACTTTCACATT
66 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
61902669 CATCACATCGG
131 CATCACATCGG
* * *
61902680 CCATTAGGCCTTATCACATATATATACATTCACAT
1 CCATTCGGCCTTATCACATATATACACTTTCACAT
61902715 CACAATTATC
Statistics
Matches: 167, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 60 0.36
143 107 0.64
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (141 bp):
CCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
CATCACATCGG
Found at i:61906061 original size:47 final size:47
Alignment explanation
Indices: 61905958--61906177 Score: 209
Period size: 47 Copynumber: 4.7 Consensus size: 47
61905948 ATATATTATC
* *
61905958 GATGCCATGTCCCAGACATGTCTTACACTGGC-ACTCAT-CTCTGTGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTA-TCATAGTATG-GCT
* *
61906005 GATGTCATGTCCCAGATATGGTCTTACACTGGCTATCATAGTATGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATGGCT
* ** * * * *
61906053 GATG-CATGTCCCAGACATGTCTTACACTAGCCCTCGTTTGGAT-GCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTATC-ATAGTATGGCT
* * * *
61906099 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCG
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATGG-CT
61906148 GA-G-CATGTCCCAGACATGTCTTACACTGGC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC
61906178 GTACAAATAA
Statistics
Matches: 145, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
46 33 0.23
47 64 0.44
48 41 0.28
49 7 0.05
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATAGTATGGCT
Found at i:61906124 original size:94 final size:95
Alignment explanation
Indices: 61905958--61906174 Score: 289
Period size: 94 Copynumber: 2.3 Consensus size: 95
61905948 ATATATTATC
* * * *
61905958 GATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCTGATGTCATGTCCCAGATA
1 GATG-CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACA
* *
61906023 TGGTCTTACACTGGCTATCATAGTATGG-CT
65 TGGTCTTACACTGGCTATCATAATATGGTCG
* *
61906053 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGT-T-TGGATGCCGATGCCATGTCCCAGAC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCT-G-TGCCGATGCCATGTCCCAGAC
* *
61906116 ATGGTCTTACACTGGCTCTCATAATGTGGTCG
64 ATGGTCTTACACTGGCTATCATAATATGGTCG
61906148 GA-GCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
61906175 GGCGTACAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
92 1 0.01
93 2 0.02
94 99 0.91
95 7 0.06
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (95 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTATCATAATATGGTCG
Found at i:61907445 original size:20 final size:23
Alignment explanation
Indices: 61907394--61907447 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
61907384 GGCTGTTATA
61907394 TTATGTGTCGTATTTCAGGCACC
1 TTATGTGTCGTATTTCAGGCACC
**
61907417 TCGTGTGTC-T-TTTCAGGCA-C
1 TTATGTGTCGTATTTCAGGCACC
61907437 TTATGTGTCGT
1 TTATGTGTCGT
61907448 CTACTGATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 1 0.04
23 7 0.27
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (23 bp):
TTATGTGTCGTATTTCAGGCACC
Found at i:61908353 original size:22 final size:21
Alignment explanation
Indices: 61908325--61908393 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
61908315 TATTTGATTA
*
61908325 TTAGCACGTTAGTGCTCTCCGT
1 TTAGCAC-TTAGTGCTCTCTGT
* *
61908347 TTAGCACATATGTGCTATCTGT
1 TTAGCACTTA-GTGCTCTCTGT
* *
61908369 ATAACACTTTAGTGCTCTCTGT
1 TTAGCAC-TTAGTGCTCTCTGT
61908391 TTA
1 TTA
61908394 ATAGTGCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
TTAGCACTTAGTGCTCTCTGT
Done.