Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 73 of 141
Found at i:20996697 original size:48 final size:48
Alignment explanation
Indices: 20996641--20996868 Score: 309
Period size: 48 Copynumber: 4.7 Consensus size: 48
20996631 TTTTTGTATG
*
20996641 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
* * *
20996689 AATTTTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
* *
20996737 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGT
* ** *
20996786 AATATTGTAATTTTGTATGAATATTGTAA-TGTGGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
20996831 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTGTAATT-TTTT
20996869 ATAATTAATT
Statistics
Matches: 159, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
45 17 0.11
47 24 0.15
48 71 0.45
49 47 0.30
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (48 bp):
AATATTGTAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGT
Found at i:20996707 original size:27 final size:26
Alignment explanation
Indices: 20996672--20996815 Score: 180
Period size: 27 Copynumber: 5.8 Consensus size: 26
20996662 TATTATAATT
*
20996672 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
20996699 TTTTGTATGAATA-T-T-ATATTT--
1 TTTTGTATGAATATTGTAATATTTAA
20996720 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
20996747 TTTTGTATGAATATTG-CA-ATTT--
1 TTTTGTATGAATATTGTAATATTTAA
20996769 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
20996796 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
20996816 GTGGGGATAT
Statistics
Matches: 103, Mismatches: 3, Indels: 22
0.80 0.02 0.17
Matches are distributed among these distances:
21 13 0.13
22 17 0.17
23 3 0.03
24 13 0.13
25 6 0.06
26 2 0.02
27 49 0.48
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (26 bp):
TTTTGTATGAATATTGTAATATTTAA
Found at i:20996761 original size:19 final size:19
Alignment explanation
Indices: 20996737--20996794 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
20996727 TGAATATTGT
20996737 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
20996756 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
20996778 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
20996795 ATTTTGTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:20996815 original size:19 final size:19
Alignment explanation
Indices: 20996505--20996697 Score: 131
Period size: 19 Copynumber: 9.5 Consensus size: 19
20996495 TTTAGATTAG
*
20996505 AATTTTGTATGAATATTTT
1 AATTTTGTATGAATATTGT
*
20996524 AACTTTTTTGTATGAATATTAT
1 AA---TTTTGTATGAATATTGT
* *
20996546 AATTTTTTTATGAATATTAT
1 AA-TTTTGTATGAATATTGT
*
20996566 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
20996585 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
20996608 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
20996628 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
20996649 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
20996668 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
20996689 AATTTTGTA
1 AATTTTGTA
20996698 ATTTTGTATG
Statistics
Matches: 140, Mismatches: 16, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
19 46 0.33
20 33 0.24
21 26 0.19
22 24 0.17
23 7 0.05
24 3 0.02
25 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:20997056 original size:38 final size:38
Alignment explanation
Indices: 20997011--20997092 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
20997001 CATATAAAGT
20997011 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
20997049 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
20997087 TTATAA
1 TTATAA
20997093 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:20997170 original size:15 final size:15
Alignment explanation
Indices: 20997129--20997170 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
20997119 GTTAACTCAT
*
20997129 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
20997144 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
20997160 TTAAATTTTAT
1 TTAAATTTTAT
20997171 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:20998607 original size:66 final size:66
Alignment explanation
Indices: 20998501--20998631 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
20998491 GGAACAACCG
* *
20998501 GTTCGGGAGGGCACCTCAGATGGATCGTGCTCCGGATTTGCAGCCCTCATTAGAGTACATACAGT
1 GTTCGGGAAGGCACCTCAGATGGATCGTGATCCGGATTTGCAGCCCTCATTAGAGTACATACAGT
20998566 A
66 A
* * *
20998567 GTTCGGGAAGGTACCTCAGATGGATCGTGATCCGGATTTGCAGCCCTCGTTAGAGTATATACAGT
1 GTTCGGGAAGGCACCTCAGATGGATCGTGATCCGGATTTGCAGCCCTCATTAGAGTACATACAGT
20998632 GGTACTGTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (66 bp):
GTTCGGGAAGGCACCTCAGATGGATCGTGATCCGGATTTGCAGCCCTCATTAGAGTACATACAGT
A
Found at i:20998757 original size:6 final size:6
Alignment explanation
Indices: 20998739--20998818 Score: 126
Period size: 6 Copynumber: 13.3 Consensus size: 6
20998729 TCATACACCG
*
20998739 GAGCCA GAACCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
*
20998787 GAGCCA GAGCCA GA-CCTA GAGCCA GACCCA GA
1 GAGCCA GAGCCA GAGCC-A GAGCCA GAGCCA GA
20998819 ACTACATTCT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
5 2 0.03
6 65 0.94
7 2 0.03
ACGTcount: A:0.35, C:0.34, G:0.30, T:0.01
Consensus pattern (6 bp):
GAGCCA
Found at i:21001817 original size:22 final size:21
Alignment explanation
Indices: 21001782--21001826 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
21001772 TACCTAATTT
*
21001782 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
21001803 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
21001825 TT
1 TT
21001827 ATTTCTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:21001922 original size:27 final size:28
Alignment explanation
Indices: 21001892--21001967 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
21001882 AAAATAACAG
*
21001892 CATTGGCGCCTCTCAGAAT-GGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
21001919 CATTGGCGCCTCCCAG-GTAGGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
21001946 CATTGGCGCCTCCCAG-ATAGGC
1 CATTGGCGCCTCCCAGAATAGGC
21001968 GCCAATACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (28 bp):
CATTGGCGCCTCCCAGAATAGGCACCAC
Found at i:21004892 original size:13 final size:13
Alignment explanation
Indices: 21004874--21004899 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21004864 AAAGTGCAAG
21004874 CCTGTTGAAGACA
1 CCTGTTGAAGACA
21004887 CCTGTTGAAGACA
1 CCTGTTGAAGACA
21004900 ATATGCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CCTGTTGAAGACA
Found at i:21019115 original size:23 final size:22
Alignment explanation
Indices: 21019063--21019115 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
21019053 TCCACGTCTT
*
21019063 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
21019085 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
21019108 TTTCTTTT
1 TTTCTTTT
21019116 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:21021787 original size:30 final size:27
Alignment explanation
Indices: 21021753--21021816 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
21021743 AATAAATACC
*
21021753 AAAAAATTGTTTTAAAAATGAAAAAATTTT
1 AAAAAATTATTTT-AAAATGAAAAAA--TT
* *
21021783 AAAAAAGTATTTTAAAATTAAAAAATT
1 AAAAAATTATTTTAAAATGAAAAAATT
21021810 AAAAAAT
1 AAAAAAT
21021817 ATATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 8 0.27
29 11 0.37
30 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (27 bp):
AAAAAATTATTTTAAAATGAAAAAATT
Found at i:21022247 original size:24 final size:24
Alignment explanation
Indices: 21022232--21022283 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21022222 AATCAAAGTC
21022232 AAATATATTATACTAAAAAATGCT
1 AAATATATTATACTAAAAAATGCT
* * *
21022256 AAATATATTATACTTATAAATACT
1 AAATATATTATACTAAAAAATGCT
21022280 AAAT
1 AAAT
21022284 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAAAAAATGCT
Found at i:21028559 original size:16 final size:16
Alignment explanation
Indices: 21028526--21028559 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21028516 TGCGTATGTT
* *
21028526 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
21028542 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
21028558 AA
1 AA
21028560 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:21031386 original size:21 final size:21
Alignment explanation
Indices: 21031360--21031400 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21031350 AGACGAGCAA
* *
21031360 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
21031381 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
21031401 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:21033339 original size:16 final size:16
Alignment explanation
Indices: 21033306--21033339 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21033296 GGAGATTGTT
* *
21033306 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
21033322 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
21033338 AA
1 AA
21033340 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:21037278 original size:20 final size:20
Alignment explanation
Indices: 21037253--21037292 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21037243 CGTAAAATGA
* *
21037253 TTTCTGGAAAGTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
21037273 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
21037293 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:21038532 original size:13 final size:11
Alignment explanation
Indices: 21038500--21038533 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
21038490 GTAGGAATTA
21038500 GTACAATATAT
1 GTACAATATAT
21038511 GTACAATATAT
1 GTACAATATAT
21038522 GTACAATATAT
1 GTACAATATAT
21038533 G
1 G
21038534 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:21038819 original size:19 final size:18
Alignment explanation
Indices: 21038792--21038849 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
21038782 TGAAAAAAAT
21038792 GCACAACTTTAAACAACA
1 GCACAACTTTAAACAACA
*
21038810 GTATCAACTTTAAACAA-A
1 GCA-CAACTTTAAACAACA
21038828 TGCACAACTTTAAACAACA
1 -GCACAACTTTAAACAACA
21038847 GCA
1 GCA
21038850 AATAGATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 19 0.54
19 16 0.46
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (18 bp):
GCACAACTTTAAACAACA
Found at i:21039460 original size:16 final size:16
Alignment explanation
Indices: 21039439--21039472 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21039429 GGACGGAGAG
*
21039439 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
21039455 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
21039471 GA
1 GA
21039473 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:21047977 original size:24 final size:23
Alignment explanation
Indices: 21047944--21048014 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
21047934 GACCCGCAGC
21047944 CAGAGTCAGAGCCAAAACCGGAGG
1 CAGAGTCAGAG-CAAAACCGGAGG
* *
21047968 CAGAGACAGAGCAAGAACC-GAAG
1 CAGAGTCAGAGCAA-AACCGGAGG
*
21047991 CAAGAGTTAGAGGCAAAACCGGAG
1 C-AGAGTCAGA-GCAAAACCGGAG
21048015 CCGGATCCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 7 0.18
24 25 0.66
25 6 0.16
ACGTcount: A:0.42, C:0.21, G:0.32, T:0.04
Consensus pattern (23 bp):
CAGAGTCAGAGCAAAACCGGAGG
Found at i:21048065 original size:66 final size:66
Alignment explanation
Indices: 21047950--21048097 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
21047940 CAGCCAGAGT
* * * *
21047950 CAGAGCCAAAACCGGAGGCAGAGACAGAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGGAG
1 CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAG
21048015 C
66 C
* * ** * * *
21048016 CGGATCCAGAACCGGAGGCAGAGCCAAAGCAAGAATGGGAGCCCA-AGTTAGAGGGAAAACCGAA
1 CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAG-CAAGAGTTAGAGGCAAAACCGAA
21048080 GC
65 GC
21048082 CAGATCCAGAACCGGA
1 CAGATCCAGAACCGGA
21048098 ACCAAAACCG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
66 67 0.97
67 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.32, T:0.05
Consensus pattern (66 bp):
CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAG
C
Found at i:21048137 original size:30 final size:30
Alignment explanation
Indices: 21048103--21048163 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21048093 CCGGAACCAA
* *
21048103 AACCGGAGACAGAGCCAGAGTTAGAGGCAG
1 AACCGAAGACAGAGCCAGAGTTAGAGCCAG
* * *
21048133 AACCGAAGTCGGATCCAGAGTTAGAGCCAG
1 AACCGAAGACAGAGCCAGAGTTAGAGCCAG
21048163 A
1 A
21048164 GTCAGAACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (30 bp):
AACCGAAGACAGAGCCAGAGTTAGAGCCAG
Found at i:21048232 original size:24 final size:24
Alignment explanation
Indices: 21048205--21048253 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
21048195 CCAGAATCGA
* *
21048205 AGTCAGACCCGCAGCTAGAGTCAG
1 AGTCAGACCCGCAGCCAGAGACAG
**
21048229 AGTCAGAGTCGCAGCCAGAGACAG
1 AGTCAGACCCGCAGCCAGAGACAG
21048253 A
1 A
21048254 ACCAGTGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.31, T:0.10
Consensus pattern (24 bp):
AGTCAGACCCGCAGCCAGAGACAG
Found at i:21051778 original size:20 final size:19
Alignment explanation
Indices: 21051740--21051778 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
21051730 AGCATATGCG
*
21051740 AATTTGTATTTTGATAATT
1 AATTTGTATTTTGAAAATT
*
21051759 AATTTTTATGTTTGAAAATT
1 AATTTGTAT-TTTGAAAATT
21051779 TTATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
AATTTGTATTTTGAAAATT
Found at i:21057861 original size:25 final size:25
Alignment explanation
Indices: 21057831--21057885 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
21057821 AGTGGAAGCA
* *
21057831 GTGGCAGTATATCTGCAAATCAGTG
1 GTGGCAATATATCTACAAATCAGTG
* *
21057856 GTGGCAATATATCTATAATTCAGTG
1 GTGGCAATATATCTACAAATCAGTG
21057881 GTGGC
1 GTGGC
21057886 TTTCCACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (25 bp):
GTGGCAATATATCTACAAATCAGTG
Found at i:21061622 original size:84 final size:84
Alignment explanation
Indices: 21061476--21061631 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 84
21061466 CTCCAAAACA
* * * * * *
21061476 ATCATCTCAAGTTCCTTCTTGGTTTCGAATGTCGCCACCTCGAAACGTCGCGTCGTCGTCATCAT
1 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCGTCATCATCATCAT
*
21061541 CTTCATCGTCGTCGTCGTC
66 CATCATCGTCGTCGTCGTC
*
21061560 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCTCCACCTCCAAACGTCG-GATCATCATCATCA
1 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCG-TCATCATCATCA
21061624 TCATCATC
65 TCATCATC
21061632 TCAAGTTCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 1 0.02
84 62 0.98
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.32
Consensus pattern (84 bp):
ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCGTCATCATCATCAT
CATCATCGTCGTCGTCGTC
Found at i:21061660 original size:66 final size:66
Alignment explanation
Indices: 21061558--21061708 Score: 259
Period size: 66 Copynumber: 2.3 Consensus size: 66
21061548 GTCGTCGTCG
*
21061558 TCATCATCTCAAGTTCCTTCTTGGTTACAAATGCCTCCACCTCCAAACGTCGGATCATCATCATC
1 TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
21061623 A
66 A
* *
21061624 TCATCATCTCAAGTTCCTTCTTGTTTACGAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
1 TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
21061689 A
66 A
21061690 TCATC-TCCTCAAGTTCCTT
1 TCATCAT-CTCAAGTTCCTT
21061709 TTTCGCAGCC
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
65 1 0.01
66 80 0.99
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.32
Consensus pattern (66 bp):
TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
A
Found at i:21064897 original size:15 final size:15
Alignment explanation
Indices: 21064874--21064903 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21064864 GGTGAACTTG
21064874 CTTCACGGCTGGCTT
1 CTTCACGGCTGGCTT
*
21064889 CTTCTCGGCTGGCTT
1 CTTCACGGCTGGCTT
21064904 TTTTTCAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.33, G:0.27, T:0.37
Consensus pattern (15 bp):
CTTCACGGCTGGCTT
Found at i:21067371 original size:93 final size:93
Alignment explanation
Indices: 21067252--21067443 Score: 296
Period size: 98 Copynumber: 2.0 Consensus size: 93
21067242 TAGTGTTAGC
*
21067252 TTAATGCTACACTTACTTGGGACATGTTAGACTC-TATGAGTTATTAGTGTAATAGAGATCTATG
1 TTAATGCTACACTTACTTGGGACATGTTAGACTCATATGAGTCATTAGTGTAATAGAGATCTATG
*
21067316 TATCCGATGTGCTGTATTTTTATACATA
66 TATCCGATGTGCTATATTTTTATACATA
* *
21067344 TTAATGCTACACTTTACTTTGGACATGTTAGACTCTATGATATGAGTCATTAGTGTAATAGTGAT
1 TTAATGCTACAC-TTACTTGGGACATGTTAGACTC----ATATGAGTCATTAGTGTAATAGAGAT
21067409 CTATGTATCCGATGTGCTATATTTTTATACATA
61 CTATGTATCCGATGTGCTATATTTTTATACATA
21067442 TT
1 TT
21067444 TCATAATCAC
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
92 12 0.13
93 21 0.23
98 57 0.63
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (93 bp):
TTAATGCTACACTTACTTGGGACATGTTAGACTCATATGAGTCATTAGTGTAATAGAGATCTATG
TATCCGATGTGCTATATTTTTATACATA
Found at i:21071481 original size:57 final size:57
Alignment explanation
Indices: 21071388--21071501 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
21071378 ATCGGGACAA
*
21071388 TTTCTTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
1 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
21071445 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
1 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
21071502 AACCGTTCCC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (57 bp):
TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
Found at i:21075358 original size:21 final size:21
Alignment explanation
Indices: 21075332--21075387 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
21075322 AACAGCGCTG
*
21075332 GCGGTGAGATTAGTTACTGCA
1 GCGGTGAGATTAGATACTGCA
*
21075353 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGCA
21075374 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
21075388 AACAATGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGCA
Found at i:21076265 original size:24 final size:24
Alignment explanation
Indices: 21076238--21076283 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
21076228 ATGGACCTAG
*
21076238 AAAACCTGCCATTTGTGGATATAT
1 AAAACCTGCCATTTATGGATATAT
21076262 AAAACCTGCCATTTATGGATAT
1 AAAACCTGCCATTTATGGATAT
21076284 CCTGAATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (24 bp):
AAAACCTGCCATTTATGGATATAT
Found at i:21080233 original size:25 final size:25
Alignment explanation
Indices: 21080205--21080256 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
21080195 TTCATTTATA
21080205 TTTCACCAGTCCCGAT-TGTTTAAGT
1 TTTCACCAGTCCCG-TCTGTTTAAGT
*
21080230 TTTCACTAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTCTGTTTAAGT
21080255 TT
1 TT
21080257 ACTGATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTCACCAGTCCCGTCTGTTTAAGT
Found at i:21081370 original size:120 final size:120
Alignment explanation
Indices: 21081205--21081675 Score: 753
Period size: 120 Copynumber: 3.9 Consensus size: 120
21081195 GCCAATTGCT
*
21081205 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * * *
21081270 TTTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTATATAGTATTA
66 TTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTATATAGTATTA
*
21081325 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * *
21081390 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
66 TTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTATATAGTATTA
* *
21081445 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * * *
21081510 TTTTAATTAAAATATATTTAATATTAATTATTTTAAATTATATTTTATAGTATCA
66 TTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTATATAGTATTA
* * * *
21081565 TATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
*
21081630 TTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATGATTA
66 TTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT-ATTA
21081676 AATTATTTAT
Statistics
Matches: 329, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
120 326 0.99
121 3 0.01
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
TTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTATATAGTATTA
Found at i:21081620 original size:59 final size:59
Alignment explanation
Indices: 21081205--21081631 Score: 168
Period size: 61 Copynumber: 7.1 Consensus size: 59
21081195 GCCAATTGCT
* * * * *
21081205 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTA
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGT--ATTA
* ** * *
21081266 TATA-T-T--TTT-ATTAAATT-ATAT-TTAATATTAATTATTTTAAATTATATTATATAGTATT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTA--TT-AA-GA-ATT-T-TAGTATT
21081324 A
59 A
* * * * *
21081325 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTA
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGT--ATTA
* * * * * * * * *
21081386 TATATTTTTATTAAATTATATTTA-ATAATAAT-TATG-TTAAATT-ATATTTTATAGTATTA
1 TATATTATGATTTAAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTT-TAGTATTA
* * * * * *
21081445 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA-AA
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGTATTA
* * ** * *
21081503 TCATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATTATTTTAAATTATATTTTATAGTAT
1 T-ATATTATGATTTAAGTAAATTCATATAAGAATATTGATTA--TT-AA-GA-A-TTT-TAGTAT
*
21081563 CA
58 TA
*
21081565 TATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGTAAATTA
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGT--ATTA
21081626 TATATT
1 TATATT
21081632 TTAATTAAAA
Statistics
Matches: 268, Mismatches: 58, Indels: 80
0.66 0.14 0.20
Matches are distributed among these distances:
54 18 0.07
55 8 0.03
56 20 0.07
57 7 0.03
58 7 0.03
59 52 0.19
60 36 0.13
61 58 0.22
62 7 0.03
63 7 0.03
64 21 0.08
65 8 0.03
66 19 0.07
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGTATTA
Found at i:21081865 original size:44 final size:45
Alignment explanation
Indices: 21081802--21081898 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
21081792 CTATTACACC
*
21081802 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * *
21081846 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
21081891 TCCATTAC
1 TCCATTAC
21081899 GCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:21081899 original size:16 final size:16
Alignment explanation
Indices: 21081878--21081924 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
21081868 TTGATTTGCT
21081878 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
21081894 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
21081910 ATTACACTTCTATTC
1 ATTACGCCTCTATTC
21081925 TAATACAGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.21, C:0.34, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:21082876 original size:30 final size:29
Alignment explanation
Indices: 21082804--21083162 Score: 542
Period size: 30 Copynumber: 11.9 Consensus size: 29
21082794 GAATATAAAC
21082804 TATATTTTTTATTTTTAAAATACACTACATA
1 TATATTTTTTATTTTTAAAATACACTAC--A
*
21082835 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
21082864 TATATATTTTTATTTTTAAAATACACTACA
1 TATAT-TTTTTATTTTTAAAATACACTACA
21082894 TAT-TTTTTTATTTTTAAAATACACTACATA
1 TATATTTTTTATTTTTAAAATACACTAC--A
21082924 TATATTTTTTTATTTTTAAAATACACTACA
1 TATA-TTTTTTATTTTTAAAATACACTACA
21082954 TATAATTTTTTATTTTTAAAATACACTACA
1 TAT-ATTTTTTATTTTTAAAATACACTACA
21082984 TATATTTTTTTATTTTTAAAATACACTACA
1 TATA-TTTTTTATTTTTAAAATACACTACA
21083014 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
*
21083043 TAT-TTTTTTATTTTTAAAATACACTATA
1 TATATTTTTTATTTTTAAAATACACTACA
*
21083071 CATATTTTTTAATTTTTAAAATACACTACATA
1 TATATTTTTT-ATTTTTAAAATACACTAC--A
21083103 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
21083132 TATATTTTTTTTTTATTTTTAAAATACACTA
1 TATA----TTTTTTATTTTTAAAATACACTA
21083163 ATACAGTGCA
Statistics
Matches: 307, Mismatches: 6, Indels: 28
0.90 0.02 0.08
Matches are distributed among these distances:
28 49 0.16
29 47 0.15
30 108 0.35
31 46 0.15
32 34 0.11
33 23 0.07
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:21082906 original size:89 final size:89
Alignment explanation
Indices: 21082808--21083162 Score: 567
Period size: 89 Copynumber: 3.9 Consensus size: 89
21082798 ATAAACTATA
*
21082808 TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATATACTACATATATATTT
1 TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATATTT
21082873 TTATTTTTAAAATACACTACATAT
66 TTATTTTTAAAATACACTACATAT
21082897 TTTTTTATTTTTAAAATACACTACATATATATTTTTTTATTTTTAAAATACACTACATATA-ATT
1 TTTTTTATTTTTAAAATACACTACATATATA-TTTTTTATTTTTAAAATACACTACATATATA-T
21082961 TTTTATTTTTAAAATACACTACATATAT
64 TTTTATTTTTAAAATACACTAC--ATAT
21082989 TTTTTTATTTTTAAAATACACTAC--ATATATTTTTTATTTTTAAAATACACTACATAT-T-TTT
1 TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATATTT
21083050 TTATTTTTAAAATACACTATACATAT
66 TTATTTTTAAAATACAC--TACATAT
* *
21083076 TTTTTAATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATTTTT
1 TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATA---TA
21083141 TTTTTATTTTTAAAATACACTA
63 TTTTTATTTTTAAAATACACTA
21083163 ATACAGTGCA
Statistics
Matches: 250, Mismatches: 2, Indels: 25
0.90 0.01 0.09
Matches are distributed among these distances:
87 47 0.19
89 96 0.38
90 56 0.22
92 30 0.12
93 1 0.00
94 20 0.08
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (89 bp):
TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATATTT
TTATTTTTAAAATACACTACATAT
Found at i:21085672 original size:21 final size:22
Alignment explanation
Indices: 21085636--21085720 Score: 104
Period size: 21 Copynumber: 4.0 Consensus size: 22
21085626 CCAAGAACAA
21085636 AGCAAAAA-AGAGGGGAGAAACC
1 AGCAAAAACA-AGGGGAGAAACC
* *
21085658 AGCAAAAACGA-GGGACAAACC
1 AGCAAAAACAAGGGGAGAAACC
*
21085679 AGCAAGAACAA-GGGAGAAACC
1 AGCAAAAACAAGGGGAGAAACC
*
21085700 AGCAAGAACAAGGGGAGAAAC
1 AGCAAAAACAAGGGGAGAAAC
21085721 TGCTGTTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 38 0.68
22 18 0.32
ACGTcount: A:0.53, C:0.18, G:0.29, T:0.00
Consensus pattern (22 bp):
AGCAAAAACAAGGGGAGAAACC
Found at i:21088336 original size:34 final size:34
Alignment explanation
Indices: 21088293--21088361 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
21088283 AAACATAGTT
21088293 GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
1 GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
21088327 GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
1 GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
21088361 G
1 G
21088362 TAACAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.23
Consensus pattern (34 bp):
GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
Found at i:21088385 original size:14 final size:14
Alignment explanation
Indices: 21088352--21088378 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21088342 AATGCCTTTA
21088352 AAAATAATAGTAAC
1 AAAATAATAGTAAC
21088366 AAAATAATAGTAA
1 AAAATAATAGTAA
21088379 TATAATAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAAATAATAGTAAC
Found at i:21091127 original size:204 final size:204
Alignment explanation
Indices: 21090777--21091378 Score: 843
Period size: 204 Copynumber: 3.0 Consensus size: 204
21090767 AAGGTTTAAT
* *
21090777 GTGTAAGACCATA-TCTCGACTATGGA-AACCAATAGAGTCTGCTAGGATATTAAACATGGGGTT
1 GTGTAAGACCATAGT-TCGACTAT-GACAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTT
* * * ** *
21090840 ATAAGGTGTAAGACCATAGCTCAACTATGGA-AACTAATGGAGTCTGCCAAGACATTAAACATGG
64 ATAAGGTGTAAGACCATAGCTCGACTAT-GACAACCAATAGAGTCCACCAAAACATTAAACATGG
* *
21090904 GGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCTGCCAGGACATTAAACA
128 GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAAACA
21090969 TGAAGTTACAAA
193 TGAAGTTACAAA
* * *
21090981 GTGTAAGACCATAGTTCGGCTATGACAACCAATAGGGTCCGCCAGGACATTAAACATGGGGTTAT
1 GTGTAAGACCATAGTTCGACTATGACAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAT
* *
21091046 AAGGTGTAAGACCATAGCTCGGCTATAACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
66 AAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
* * * * *
21091111 TACAAGGTATAAGACCATAGCTTGTCTATGGCAACCAATAGAGTTTGCCAGGACGTTAAACATAA
131 TACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAAACATGA
*
21091176 AGTTACAAG
196 AGTTACAAA
* * * * * * * *
21091185 GTGTAAGGCTATAGCTCGTCTATGGCAACCAATAGAGTTTGCCAGGACATTAAACATGGAGTTAC
1 GTGTAAGACCATAGTTCGACTATGACAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAT
*
21091250 AAGGTGTAAGACCATAGCTTGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
66 AAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
* * *
21091315 TATAAGGTGTAAGACCATAGCTC-AGCTATGGCAACCAATAGAGTCTGCTAGGACGTTAAGCATG
131 TACAAGGTGTAAGACCATAGCTCGA-CTATGGCAACCAATAGAGTCTGCCAGGACGTTAAACATG
21091379 GGCTTAGACT
Statistics
Matches: 352, Mismatches: 42, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
203 3 0.01
204 348 0.99
205 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (204 bp):
GTGTAAGACCATAGTTCGACTATGACAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAT
AAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
TACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAAACATGA
AGTTACAAA
Found at i:21091401 original size:68 final size:68
Alignment explanation
Indices: 21090777--21091414 Score: 710
Period size: 68 Copynumber: 9.4 Consensus size: 68
21090767 AAGGTTTAAT
* * * *
21090777 GTGTAAGACCATATCTC-GACTATGGAAACCAATAGAGTCTGCTAGGATATTAAACATGGGGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
*
21090841 TAAG
65 CAAG
* * * * *
21090845 GTGTAAGACCATAGCTCAACTATGGAAACTAATGGAGTCTGCCAAGACATTAAACATGGGGTTAC
1 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
21090910 AAG
66 AAG
* **
21090913 GTGTAAGACCATAGCTC-GACTATGACAACCAATAGAGTCTGCCAGGACATTAAACATGAAGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
*
21090977 CAAA
65 CAAG
* * * * * *
21090981 GTGTAAGACCATAGTTCGGCTATGACAACCAATAGGGTCCGCCAGGACATTAAACATGGGGTTAT
1 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
21091046 AAG
66 AAG
* ** ** **
21091049 GTGTAAGACCATAGCTCGGCTATAACAACCAATAGAGTCCACCAAAACATTAAACATGGGGTTAC
1 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
21091114 AAG
66 AAG
* * * * ***
21091117 GTATAAGACCATAGCT-TGTCTATGGCAACCAATAGAGTTTGCCAGGACGTTAAACATAAAGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
21091181 CAAG
65 CAAG
* * * *
21091185 GTGTAAGGCTATAGCTC-GTCTATGGCAACCAATAGAGTTTGCCAGGACATTAAACATGGAGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
21091249 CAAG
65 CAAG
* * ** **
21091253 GTGTAAGACCATAGCT-TGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
*
21091317 TAAG
65 CAAG
* * * * *
21091321 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCTAGGACGTTAAGCATGGGCTTAG
1 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
**
21091386 ACT
66 AAG
* *
21091389 GTATAAGTCCATAGCTCAGCTATGGC
1 GTGTAAGACCATAGCTCAGCTATGGC
21091415 GTCAGGTGAT
Statistics
Matches: 487, Mismatches: 76, Indels: 14
0.84 0.13 0.02
Matches are distributed among these distances:
67 1 0.00
68 484 0.99
69 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
AAG
Found at i:21093695 original size:21 final size:21
Alignment explanation
Indices: 21093627--21093695 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
21093617 CACAAAAGCA
* *
21093627 CATAAGTGCCAAACAGAAACC
1 CATAAGAGCTAAACAGAAACC
* * * *
21093648 CATAAGGGTTGAAC-GAAAGCT
1 CATAAGAGCTAAACAGAAA-CC
*
21093669 CGTAAGAGCTAAACAGAAACC
1 CATAAGAGCTAAACAGAAACC
21093690 CATAAG
1 CATAAG
21093696 GGTTATACTG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.13
Consensus pattern (21 bp):
CATAAGAGCTAAACAGAAACC
Found at i:21093710 original size:42 final size:41
Alignment explanation
Indices: 21093637--21093754 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 41
21093627 CATAAGTGCC
**
21093637 AAACAGAAACCCATAAGGGTTGAACGAAAGCTCGTAAGAGCT
1 AAACAGAAACCCATAAGGGTT-AACGAAAGCTCAAAAGAGCT
*
21093679 AAACAGAAACCCATAAGGGTTATACTG-AAGCTTAAAAGAGCT
1 AAACAGAAACCCATAAGGGTTA-AC-GAAAGCTCAAAAGAGCT
* * * * *
21093721 GAATAAAAACCCATTAGGGTTAAGCGAAAACTCA
1 AAACAGAAACCCATAAGGGTTAA-CGAAAGCTCA
21093755 TATGAGTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 3 0.05
42 59 0.94
43 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (41 bp):
AAACAGAAACCCATAAGGGTTAACGAAAGCTCAAAAGAGCT
Found at i:21104142 original size:21 final size:22
Alignment explanation
Indices: 21104113--21104159 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
21104103 CAGAAGGAGT
*
21104113 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
21104135 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
21104156 GAGT
1 GAGT
21104160 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:21106742 original size:4 final size:4
Alignment explanation
Indices: 21106733--21106763 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
21106723 AGACCAACAA
21106733 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
21106764 AATTTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:21110343 original size:19 final size:21
Alignment explanation
Indices: 21110319--21110365 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
21110309 GAAAGTAGTG
21110319 AATTTTTATTCT-TA-GAATA
1 AATTTTTATTCTCTAGGAATA
*
21110338 AA-TTTTATTTTCTAGGAATA
1 AATTTTTATTCTCTAGGAATA
21110358 ATATTTTT
1 A-ATTTTT
21110366 TTTTTGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 4 0.17
20 6 0.26
21 1 0.04
22 4 0.17
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (21 bp):
AATTTTTATTCTCTAGGAATA
Found at i:21117324 original size:21 final size:20
Alignment explanation
Indices: 21117289--21117370 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 20
21117279 ATTCAATTTG
* *
21117289 AATATATAAACTATATTTTA
1 AATATTTAAAATATATTTTA
21117309 AATATTTTAAAATATAATTATTA
1 AATA-TTTAAAATAT-ATT-TTA
*
21117332 TAA-ATTTAAATATATAATTTA
1 -AATATTTAAA-ATATATTTTA
* *
21117353 TATATTTAAAATAAATTT
1 AATATTTAAAATATATTT
21117371 CAATAGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
20 11 0.22
21 18 0.36
22 11 0.22
23 8 0.16
24 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATTTAAAATATATTTTA
Found at i:21117346 original size:23 final size:21
Alignment explanation
Indices: 21117314--21117370 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
21117304 TTTTAAATAT
21117314 TTTAAAATATAATTATTATAAA
1 TTTAAAATATAATT-TTATAAA
*
21117336 TTTAAATATATAA-TTTATATA
1 TTTAAA-ATATAATTTTATAAA
21117357 TTTAAAATA-AATTT
1 TTTAAAATATAATTT
21117371 CAATAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 5 0.16
21 12 0.38
22 7 0.22
23 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAATATAATTTTATAAA
Found at i:21121636 original size:15 final size:13
Alignment explanation
Indices: 21121605--21121639 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
21121595 ACTATAACAC
21121605 TTATAATAAAAAA
1 TTATAATAAAAAA
21121618 TTATGAATAAAATAA
1 TTAT-AATAAAA-AA
21121633 TTATAAT
1 TTATAAT
21121640 TATTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 10 0.50
15 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TTATAATAAAAAA
Found at i:21135445 original size:24 final size:24
Alignment explanation
Indices: 21135413--21135468 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
21135403 ATGTCCCAAA
21135413 ATTACAGTGGACTT-AACCTTGAAG
1 ATTACAGTGGA-TTGAACCTTGAAG
*
21135437 ATTACAGTGGATTGAACTTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
21135461 ATTACAGT
1 ATTACAGT
21135469 AGGGGCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:21135844 original size:44 final size:44
Alignment explanation
Indices: 21135789--21136468 Score: 529
Period size: 44 Copynumber: 15.6 Consensus size: 44
21135779 TATCCAGTCC
* * *
21135789 TATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* *
21135833 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCGCAA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA-CGGAAGATCT
* * ** * *** *
21135877 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
*
21135920 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGAAGATCT
* * ** * *** *
21135964 TATCTCCCTAAGCAGTAATGAAGCAGATTTAAGCCACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
21136007 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGG-CGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * * *** *
21136051 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAGGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
21136094 TATCTCCCTAAGCAGTAGTGGAGGAGGTCAGAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
*
21136138 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCG-A-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC-G-GAAGATCT
* * * * ** * ***
21136182 TATCTTCCTAAACAGTAGTGAAGTAGATTTAAGTCACCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
21136225 TATCTCCCTAAACAGTAGTGGAGTAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
21136269 TATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACGG-CGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * *** *
21136313 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* **
21136356 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAAATAGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGAAGATCT
* * * *
21136400 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
21136444 TATCTCCCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCA
21136469 AATAGGATCA
Statistics
Matches: 491, Mismatches: 126, Indels: 38
0.75 0.19 0.06
Matches are distributed among these distances:
43 162 0.33
44 321 0.65
45 7 0.01
46 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
Found at i:21135941 original size:131 final size:130
Alignment explanation
Indices: 21135782--21136026 Score: 391
Period size: 131 Copynumber: 1.9 Consensus size: 130
21135772 GTCATCTTAT
21135782 CCAGTCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
1 CCAGTCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
* * * * *
21135847 GTAGTGGAGCAGATCGAAGACCGCAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
66 GTAATGAAGCAGATCGAAG-CCACAAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGCC
21135912 A
130 A
* *
21135913 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
1 CCAGTCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
** *
21135978 GTAATGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTG
66 GTAATGAAGCAGATCGAAGCCACAAATCCTATCTCCCTAAGCAGTAGTG
21136027 GAGTAGATCG
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
130 26 0.25
131 78 0.75
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (130 bp):
CCAGTCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
GTAATGAAGCAGATCGAAGCCACAAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCA
Found at i:21135942 original size:87 final size:87
Alignment explanation
Indices: 21135833--21136468 Score: 595
Period size: 87 Copynumber: 7.3 Consensus size: 87
21135823 TGGAAGATCT
*
21135833 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCGCAAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCGCAAATCTTATCTCCCTAAGCAGTAGTGA
21135898 AGCAGATTTAAGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* * * *
21135920 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAGA-TGGAAGATCTTATCTCCCTAAGCAGTAAT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGACCGCAA-ATCTTATCTCCCTAAGCAGTAGT
*
21135983 GAAGCAGATTTAAGCCACCAATCC
64 GAAGCAGATTTAAGCCACCAGTCC
* * * * *
21136007 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCGCAAATCTTATCTCCCTAAGCAGTAGTGA
*
21136072 AGCAGATTTAGGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* * * *
21136094 TATCTCCCTAAGCAGTAGTGGAGGAGGTC-AGAGA-TGGAAGATCTTATCTCCCTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGA-AGACCGCAA-ATCTTATCTCCCTAAGCAGTAGT
* ** * * * *
21136157 GGAGCAGATCGAAGACAGCGAATCT
64 GAAGCAGATTTAAGCCA-CCAGTCC
* * * * ** * * *
21136182 TATCTTCCTAAACAGTAGTGAAGTAGATTTAAGTCAC-C-AGTCTTATCTCCCTAAACAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-CGCAAATCTTATCTCCCTAAGCAGTAGTG
* * * ** ***** *
21136245 GAGTAGGTCAAAGATGGAAGATCT
65 AAGCAGATTTAAGCCACCAG-TCC
* * * *
21136269 TATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCGCAAATCTTATCTCCCTAAGCAGTAGTGA
21136334 AGCAGATTTAAGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* * **
21136356 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAAATAG-AAGATCTTATCTCCCTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGACCGCAA-ATCTTATCTCCCTAAGCAGTAGT
* ** *****
21136419 GGAGCAGATCGAAGATGGTAGATCC
64 GAAGCAGATTTAAGCCACCAG-TCC
21136444 TATCTCCCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCA
21136469 AATAGGATCA
Statistics
Matches: 445, Mismatches: 88, Indels: 31
0.79 0.16 0.05
Matches are distributed among these distances:
86 9 0.02
87 341 0.77
88 94 0.21
89 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (87 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCGCAAATCTTATCTCCCTAAGCAGTAGTGA
AGCAGATTTAAGCCACCAGTCC
Found at i:21136055 original size:131 final size:131
Alignment explanation
Indices: 21135786--21136076 Score: 368
Period size: 131 Copynumber: 2.2 Consensus size: 131
21135776 TCTTATCCAG
* *
21135786 TCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAA
* * * * ** *
21135851 TGGAGCAGATCGAAGACCGCAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
66 TGAAGCAGATCGAAGACCACAAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAACCACCA
*
21135916 G
131 A
*
21135917 TCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAA
** * * * ** *
21135982 TGAAGCAGATTTAAG-CCACCAATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGGCG
66 TGAAGCAGATCGAAGACCACAAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCGAA-ACCACC
21136046 AA
130 AA
* * *
21136048 TCTTATCTTCCTAAGCAGTAGTGAAGCAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAG
21136077 ATTTAGGCCA
Statistics
Matches: 136, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
130 34 0.25
131 102 0.75
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (131 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAA
TGAAGCAGATCGAAGACCACAAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAACCACCA
A
Found at i:21136149 original size:131 final size:131
Alignment explanation
Indices: 21136007--21136468 Score: 719
Period size: 131 Copynumber: 3.5 Consensus size: 131
21135997 CCACCAATCC
* *
21136007 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
* * *
21136072 AGCAGATTTAGGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGGAGGTCAGAGATGGAAGATC
66 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
21136137 T
131 T
* *
21136138 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTCCTAAACAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
* * * * *
21136203 AGTAGATTTAAGTCACCAGTCTTATCTCCCTAAACAGTAGTGGAGTAGGTCAAAGATGGAAGATC
66 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
21136268 T
131 T
*
21136269 TATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
* * *
21136334 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAAATAGAAGATC
66 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
21136399 T
131 T
* * * *
21136400 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-TAGATCCTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA-ATCTTATCTTCCTAAGCAGTAGTG
*
21136464 GAGCA
65 AAGCA
21136469 AATAGGATCA
Statistics
Matches: 302, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 1 0.00
131 301 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (131 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
T
Found at i:21136325 original size:175 final size:175
Alignment explanation
Indices: 21135917--21136468 Score: 503
Period size: 175 Copynumber: 3.2 Consensus size: 175
21135907 AAGCCACCAG
* * * *
21135917 TCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAGAGACGGAAGATCTTATCTCCCTAAGCAGTAG
** * * * * * *
21135982 TGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGAGTA-GATC--GAATACGG
66 TGAAGCAGATCGAAGACACCAATCCTATCTCCCTAAACAGTAGTGAAGCATG-TCAAAAATAC-A
* * * * ** * *****
21136044 CGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAGGCCACCAG-
129 AG-ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGAAGA
* *
21136091 TCCTATCTCCCTAAGCAGTAGTGGAGGAGGTCAGAGATGGAAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAGAGACGGAAGATCTTATCTCCCTAAGCAGTAG
* * * * * ** *
21136156 TGGAGCAGATCGAAGACAGCGAATCTTATCTTCCTAAACAGTAGTGAAGTA-GAT-TTAAGTCAC
66 TGAAGCAGATCGAAGACA-CCAATCCTATCTCCCTAAACAGTAGTGAAGCATG-TCAAAAAT-AC
* * *
21136219 CAG-TCTTATCTCCCTAAACAGTAGTGGAGTAGGTCAAAGATGGAAGA
128 AAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGAAGA
* * *
21136266 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAG-C-GAAGACGG-CGAATCTTATCTTCCTAAGCAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAG-GTCAG-AGACGGAAG-ATCTTATCTCCCTAAGCAG
** * * * * *
21136328 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAAATAG
63 TAGTGAAGCAGATCGAAGACACCAATCCTATCTCCCTAAACAGTAGTGAAGCATGTCAAAAATAC
* * *
21136393 AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
128 AAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGAAGA
21136441 TCCTATCTCCCTAAGCAGTAGTGGAGCA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCA
21136469 AATAGGATCA
Statistics
Matches: 310, Mismatches: 57, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
174 136 0.44
175 168 0.54
176 4 0.01
177 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (175 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAGAGACGGAAGATCTTATCTCCCTAAGCAGTAG
TGAAGCAGATCGAAGACACCAATCCTATCTCCCTAAACAGTAGTGAAGCATGTCAAAAATACAAG
ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGAAGA
Found at i:21137203 original size:15 final size:15
Alignment explanation
Indices: 21137183--21137214 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21137173 GAACTTCTGC
21137183 TTCTTTTTTTATTTT
1 TTCTTTTTTTATTTT
*
21137198 TTCTTTTTTTCTTTT
1 TTCTTTTTTTATTTT
21137213 TT
1 TT
21137215 TTTATGCGTA
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:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (15 bp):
TTCTTTTTTTATTTT
Found at i:21137216 original size:9 final size:8
Alignment explanation
Indices: 21137183--21137215 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
21137173 GAACTTCTGC
21137183 TTCTTTTT
1 TTCTTTTT
*
21137191 TT-ATTTT
1 TTCTTTTT
21137198 TTCTTTTT
1 TTCTTTTT
21137206 TTCTTTTT
1 TTCTTTTT
21137214 TT
1 TT
21137216 TTATGCGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (8 bp):
TTCTTTTT
Found at i:21138608 original size:107 final size:107
Alignment explanation
Indices: 21138422--21138843 Score: 715
Period size: 107 Copynumber: 4.0 Consensus size: 107
21138412 TTTCTAAATA
* * * * * * *
21138422 AGGCAATATTTTACGTTT-AGAAATTTGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATTACTC
1 AGGCAATGTTTTGCGTTTGA-AAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTC
* *
21138486 GTTTGGCCAAATAGCCAAATATCCTTTTTAAACTTTCAAAACG
65 GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAACG
21138529 AGGCAATGTTTTGCGTTTGAAAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
1 AGGCAATGTTTTGCGTTTGAAAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
21138594 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAACG
66 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAACG
21138636 AGGCAATGTTTTGCGTTTGAAAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
1 AGGCAATGTTTTGCGTTTGAAAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
21138701 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAACG
66 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAACG
21138743 AGGCAATGTTTTGCGTTTGAAAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
1 AGGCAATGTTTTGCGTTTGAAAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
* *
21138808 TTCGACCAAATAGCTAAATAT-CTTCTT-AACTTTCAA
66 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAA
21138844 TCGATATTAT
Statistics
Matches: 303, Mismatches: 11, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
105 9 0.03
106 5 0.02
107 288 0.95
108 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (107 bp):
AGGCAATGTTTTGCGTTTGAAAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAACG
Found at i:21148770 original size:36 final size:36
Alignment explanation
Indices: 21148720--21148792 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 36
21148710 CATTCACTTA
21148720 GCTTCTCTATATCTATGGCCTTTACTGAA-GTCAAGG
1 GCTTCTCTATATCTATGGCCTTTACT-AATGTCAAGG
21148756 GCTTCTCT-TCATCTATGGCCTTTACTAATGTCAAGG
1 GCTTCTCTAT-ATCTATGGCCTTTACTAATGTCAAGG
21148792 G
1 G
21148793 ACACTTCACG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (36 bp):
GCTTCTCTATATCTATGGCCTTTACTAATGTCAAGG
Found at i:21151129 original size:15 final size:15
Alignment explanation
Indices: 21151105--21151134 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21151095 ATCATCATCT
21151105 ACTACCACTACCACC
1 ACTACCACTACCACC
*
21151120 ACTACTACTACCACC
1 ACTACCACTACCACC
21151135 GTGGATTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (15 bp):
ACTACCACTACCACC
Found at i:21156173 original size:13 final size:13
Alignment explanation
Indices: 21156155--21156181 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21156145 TTTCGGTTTA
21156155 ATTTAAACAATAT
1 ATTTAAACAATAT
21156168 ATTTAAACAATAT
1 ATTTAAACAATAT
21156181 A
1 A
21156182 GTTGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAACAATAT
Found at i:21156432 original size:97 final size:97
Alignment explanation
Indices: 21156266--21156492 Score: 445
Period size: 97 Copynumber: 2.3 Consensus size: 97
21156256 TTAAATTATG
*
21156266 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCCTATATAATGTCCAAATTTAAGATTAAATCTG
21156331 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
21156363 TATAAACAATCAATCAAGTTCCAATTTCGATGCCTATATAATGTCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCCTATATAATGTCCAAATTTAAGATTAAATCTG
21156428 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
21156460 TATAAACAATCAATCAAGTTCCAATTTCGATGC
1 TATAAACAATCAATCAAGTTCCAATTTCGATGC
21156493 NNNNNNNNNN
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 129 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (97 bp):
TATAAACAATCAATCAAGTTCCAATTTCGATGCCTATATAATGTCCAAATTTAAGATTAAATCTG
CATATTTTAATTAAAATATAATTCGGTACTTA
Found at i:21158794 original size:15 final size:15
Alignment explanation
Indices: 21158759--21158810 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21158749 TTAAGAATTT
*
21158759 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21158773 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21158787 TATTTAATAATAAT-
1 TATTTAATTATAATA
21158801 TATGTTAATT
1 TAT-TTAATT
21158811 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21158868 original size:66 final size:66
Alignment explanation
Indices: 21158792--21158989 Score: 208
Period size: 66 Copynumber: 3.2 Consensus size: 66
21158782 TAATATATTT
21158792 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
21158857 G
66 G
* * * * *
21158858 AATATTAATTAT-TAAGAATTT-TA--TTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT
1 AATAATAATTATGT--TAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAT
**
21158910 -TT
64 AAG
21158912 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
21158977 G
66 G
*
21158978 AATATTAATTAT
1 AATAATAATTAT
21158990 TAAGAATTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 4 0.04
65 5 0.05
66 24 0.24
67 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (66 bp):
AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
G
Found at i:21158887 original size:120 final size:120
Alignment explanation
Indices: 21158674--21159046 Score: 719
Period size: 120 Copynumber: 3.1 Consensus size: 120
21158664 GGCAGTTGTC
* * *
21158674 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
21158739 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
21158794 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
21158859 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
21158914 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
21158979 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
21159034 TAATAATTATGTT
1 TAATAATTATGTT
21159047 TAAATATGAT
Statistics
Matches: 250, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 250 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
Found at i:21158914 original size:15 final size:15
Alignment explanation
Indices: 21158879--21158930 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21158869 TTAAGAATTT
*
21158879 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21158893 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21158907 TATTTAATAATAAT-
1 TATTTAATTATAATA
21158921 TATGTTAATT
1 TAT-TTAATT
21158931 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21159029 original size:16 final size:16
Alignment explanation
Indices: 21159008--21159049 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21158998 TTATTAAATT
*
21159008 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21159024 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21159039 AT-TATGTTTAA
1 ATATAT-TTTAA
21159050 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21159034 original size:15 final size:15
Alignment explanation
Indices: 21158999--21159040 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21158989 TTAAGAATTT
*
21158999 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21159013 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21159027 TATTTAATAATAAT
1 TATTTAATTATAAT
21159041 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21159142 original size:240 final size:237
Alignment explanation
Indices: 21158674--21159129 Score: 595
Period size: 240 Copynumber: 1.9 Consensus size: 237
21158664 GGCAGTTGTC
* *
21158674 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
21158739 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
* * *
21158804 GTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA
131 GTTAA--TATATATTACAG-ATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATCA
* * * ** ** *
21158869 TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
193 ATAACAATATTACCAAAACAAATATTTTAATTATAATATATTTAA
*
21158914 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
21158979 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
* * *
21159044 GTTTAA-ATATGATTA-A-ATTATTTATTATTGATATT-AAT-AA-TCTTATTAA-AAT-TTAAA
131 G-TTAATATAT-ATTACAGATCATATATTA-TGAT-TTGAATAAATTCATA-TAAGAATATT-AA
21159101 TAACAATAACAATAATTACCAAAACAAAT
190 T--CAATAACAAT-ATTACCAAAACAAAT
21159130 TTCTGCTAAT
Statistics
Matches: 190, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
234 2 0.01
235 10 0.05
236 14 0.07
237 13 0.07
238 16 0.08
239 3 0.02
240 128 0.67
241 4 0.02
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (237 bp):
TAATAATTATGTTAAATTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
GTTAATATATATTACAGATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATCAATA
ACAATATTACCAAAACAAATATTTTAATTATAATATATTTAA
Found at i:21159160 original size:153 final size:156
Alignment explanation
Indices: 21158983--21159295 Score: 524
Period size: 153 Copynumber: 2.0 Consensus size: 156
21158973 ATAAGAATAT
* * *
21158983 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* *
21159048 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
21159113 T-A-A-TTACCAAAACAAATTTCTGC
131 TAACATTTACCAAAACAAATTTATGC
* *
21159136 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGGGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
21159201 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
21159266 TAATCATTTACCAAAACAAATTTATGC
131 TAA-CATTTACCAAAACAAATTTATGC
21159293 TAA
1 TAA
21159296 GGGTATTCTA
Statistics
Matches: 148, Mismatches: 8, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
153 124 0.84
154 1 0.01
156 1 0.01
157 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTATGC
Found at i:21159439 original size:16 final size:16
Alignment explanation
Indices: 21159418--21159453 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
21159408 GATTTGCTAT
21159418 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21159434 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21159450 TACA
1 TACA
21159454 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21160605 original size:34 final size:35
Alignment explanation
Indices: 21160561--21160627 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
21160551 CAGTAAAATA
*
21160561 TTTTCCGTAAAATGA-TTTCTGGAAAAGATTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAAGATTTTAC
* *
21160595 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAAGATTTT
21160628 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAAGATTTTAC
Found at i:21167706 original size:15 final size:15
Alignment explanation
Indices: 21167686--21167717 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21167676 TAAGCATTGA
21167686 TTGAACTTAGTTTAG
1 TTGAACTTAGTTTAG
21167701 TTGAACTTAGTTTAG
1 TTGAACTTAGTTTAG
21167716 TT
1 TT
21167718 TTTGTCGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (15 bp):
TTGAACTTAGTTTAG
Found at i:21172728 original size:6 final size:6
Alignment explanation
Indices: 21172717--21172754 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
21172707 AAATAACAAT
21172717 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
21172755 AAATCGCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:21175538 original size:17 final size:16
Alignment explanation
Indices: 21175513--21175555 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
21175503 TACTGAACAT
21175513 AATTATTCTCAAACAAC
1 AATTATTCT-AAACAAC
* *
21175530 AATTGTTCTGAACAAC
1 AATTATTCTAAACAAC
*
21175546 AACTATTCTA
1 AATTATTCTA
21175556 TATAAGAGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (16 bp):
AATTATTCTAAACAAC
Found at i:21176858 original size:21 final size:19
Alignment explanation
Indices: 21176815--21176860 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
21176805 AATATATATT
**
21176815 ATTTTTTATAATATTTTTC
1 ATTTTTTATAATATTTTGA
21176834 ATTTTTTATATATTATTTTGA
1 ATTTTTTATA-A-TATTTTGA
21176855 ATTTTT
1 ATTTTT
21176861 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 1 0.04
21 12 0.52
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTTATAATATTTTGA
Found at i:21203655 original size:26 final size:27
Alignment explanation
Indices: 21203604--21203656 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
21203594 CCAGAACAAT
*
21203604 AAAGAAACGTGCCAAAAAACGGCAGAC
1 AAAGAAACGTGCCAAAAAACGACAGAC
21203631 AAAGAAACGTGCC-AAAAACGACAGAC
1 AAAGAAACGTGCCAAAAAACGACAGAC
21203657 CTAACAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.53, C:0.23, G:0.21, T:0.04
Consensus pattern (27 bp):
AAAGAAACGTGCCAAAAAACGACAGAC
Found at i:21204364 original size:11 final size:11
Alignment explanation
Indices: 21204328--21204406 Score: 90
Period size: 11 Copynumber: 7.2 Consensus size: 11
21204318 TAAATCCTTT
*
21204328 CTCTC-AATTT
1 CTCTCAAATTC
21204338 CTCTCCAATATT-
1 CTCT-CAA-ATTC
21204350 CTCTCAAATTC
1 CTCTCAAATTC
21204361 CTCTCAAATTC
1 CTCTCAAATTC
*
21204372 CTCTCAATTTC
1 CTCTCAAATTC
* *
21204383 CTTTCAATTTC
1 CTCTCAAATTC
21204394 CTCTCAAATTC
1 CTCTCAAATTC
21204405 CT
1 CT
21204407 TTTAAAAAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
10 7 0.11
11 46 0.75
12 5 0.08
13 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:21204395 original size:33 final size:34
Alignment explanation
Indices: 21204328--21204406 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
21204318 TAAATCCTTT
*
21204328 CTCTC-AATTTCTCTCCAATATTCTCTCAAATTC
1 CTCTCAAATTCCTCTCCAATATTCTCTCAAATTC
* *
21204361 CTCTCAAATTCCTCT-CAAT-TTCCTTTCAATTTC
1 CTCTCAAATTCCTCTCCAATATT-CTCTCAAATTC
21204394 CTCTCAAATTCCT
1 CTCTCAAATTCCT
21204407 TTTAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 2 0.05
33 31 0.76
34 8 0.20
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (34 bp):
CTCTCAAATTCCTCTCCAATATTCTCTCAAATTC
Found at i:21206254 original size:18 final size:18
Alignment explanation
Indices: 21206218--21206260 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
21206208 TGCCAGATGC
* * *
21206218 GTATCCTAGCTCTTTTAT
1 GTATCCTAACCCTTATAT
21206236 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
21206254 GTTTCCT
1 GTATCCT
21206261 TTTTTTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:21210207 original size:126 final size:126
Alignment explanation
Indices: 21209864--21210279 Score: 607
Period size: 126 Copynumber: 3.3 Consensus size: 126
21209854 GGCCAAACAG
* * *
21209864 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * ** *
21209929 CTACTTAAAGCATTTTTGACACTATTTTCTCAGAAATATCTACTCGAAATTATTTTTTTAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* *
21209990 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTTCTTTCGGTACTTTTGCTGACAAAGCAT
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAG-CTTCTTTCAGTACTTTTGCTGACAAAGCAT
**
21210055 CCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTGAACTCGAAATTATTTTTTCAA
65 CCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* * *
21210117 GAGCTACTATAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * * * * *
21210182 TTGCTTAAAGCGTTTTTAACACTATTTGCTTAGGAACGTTTTCTCGAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
*
21210243 GAGCTACTGTAGCAAAAGCGCGTTCACGTGGGAGCTT
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTT
21210280 TTTTAAATTA
Statistics
Matches: 260, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 148 0.57
127 112 0.43
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
Found at i:21213071 original size:30 final size:31
Alignment explanation
Indices: 21213005--21213074 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
21212995 CCACCCTTAA
** *
21213005 AATATTTACACTATTGGTCCTTCAAAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
*
21213036 CATATTTACACT-TTAATCCCTC-AAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
21213065 GAATATTTAC
1 -AATATTTAC
21213075 TCTTGGGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 15 0.45
31 11 0.33
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAAAATTTT
Found at i:21219215 original size:71 final size:71
Alignment explanation
Indices: 21219134--21219312 Score: 358
Period size: 71 Copynumber: 2.5 Consensus size: 71
21219124 GTTTGCTTCC
21219134 ATTGAATTTCTATGATGTTGCAGCAAATATAGTTATAGAGTTTAAATAGGAAAATTGGAGTGATT
1 ATTGAATTTCTATGATGTTGCAGCAAATATAGTTATAGAGTTTAAATAGGAAAATTGGAGTGATT
21219199 TACGGT
66 TACGGT
21219205 ATTGAATTTCTATGATGTTGCAGCAAATATAGTTATAGAGTTTAAATAGGAAAATTGGAGTGATT
1 ATTGAATTTCTATGATGTTGCAGCAAATATAGTTATAGAGTTTAAATAGGAAAATTGGAGTGATT
21219270 TACGGT
66 TACGGT
21219276 ATTGAATTTCTATGATGTTGCAGCAAATATAGTTATA
1 ATTGAATTTCTATGATGTTGCAGCAAATATAGTTATA
21219313 ATATATTTAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 108 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (71 bp):
ATTGAATTTCTATGATGTTGCAGCAAATATAGTTATAGAGTTTAAATAGGAAAATTGGAGTGATT
TACGGT
Found at i:21219419 original size:18 final size:17
Alignment explanation
Indices: 21219391--21219425 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21219381 ATTATTAAGA
*
21219391 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21219408 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21219426 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21219566 original size:18 final size:17
Alignment explanation
Indices: 21219538--21219572 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21219528 ATTATTAAGA
*
21219538 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21219555 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21219573 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21219824 original size:45 final size:44
Alignment explanation
Indices: 21219734--21219828 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
21219724 TTACACCTCT
* ** *
21219734 ATTACATTCAACCAAACACAGTTTTACTATTAGGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
** *
21219778 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACATCTATTCC
21219823 ATTACA
1 ATTACA
21219829 CCTCTAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
Found at i:21219828 original size:16 final size:16
Alignment explanation
Indices: 21219809--21219860 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
21219799 GATTTGCTAT
* * *
21219809 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
21219825 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21219841 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21219857 TACA
1 TACA
21219861 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21221973 original size:39 final size:35
Alignment explanation
Indices: 21221897--21221966 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
21221887 TTCTTAAGTT
21221897 ATTTATTACTTTTAATTTTTTTTATTGTAGAATAA
1 ATTTATTACTTTTAATTTTTTTTATTGTAGAATAA
*
21221932 ATTTATTGCTTTTAATTTTTTTTATTGTAGAATAA
1 ATTTATTACTTTTAATTTTTTTTATTGTAGAATAA
21221967 TTAAATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (35 bp):
ATTTATTACTTTTAATTTTTTTTATTGTAGAATAA
Found at i:21222064 original size:23 final size:23
Alignment explanation
Indices: 21222034--21222094 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
21222024 AAAATAATAA
21222034 AGTAGATTATATATTATTTTTAT
1 AGTAGATTATATATTATTTTTAT
21222057 AGTAGATTATATATTATTTTTAT
1 AGTAGATTATATATTATTTTTAT
21222080 AGT--ATTATATATTAT
1 AGTAGATTATATATTAT
21222095 GATTTTAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.32
23 26 0.68
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (23 bp):
AGTAGATTATATATTATTTTTAT
Found at i:21222153 original size:31 final size:30
Alignment explanation
Indices: 21222118--21222284 Score: 82
Period size: 31 Copynumber: 5.5 Consensus size: 30
21222108 TCATATAATA
21222118 ATATTTAATATTAAAAATTTTATTAAATTAT
1 ATATTTAATATTAAAAATTTTA-TAAATTAT
* *
21222149 ATATTT-TTATTAAATTATATTTA-ATAATTAT
1 ATATTTAATATTAAA-AAT-TTTATA-AATTAT
*
21222180 -TATTTTAA-ATT--AAATTTTATAGTATTAT
1 ATA-TTTAATATTAAAAATTTTATA-AATTAT
* * * * *
21222208 ATATATTATGATTTTAGTAAA-TTCATATAGTA-
1 ATAT-TTA--ATATTA-AAAATTTTATAAATTAT
*
21222240 ATATTTAATATTAAGAATTTTATTAAATTAT
1 ATATTTAATATTAAAAATTTTA-TAAATTAT
*
21222271 ATATTT-TTATTAAA
1 ATATTTAATATTAAA
21222285 TTATATTTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 35
0.66 0.11 0.23
Matches are distributed among these distances:
27 4 0.04
28 11 0.11
29 14 0.14
30 21 0.21
31 30 0.29
32 10 0.10
33 4 0.04
34 5 0.05
35 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (30 bp):
ATATTTAATATTAAAAATTTTATAAATTAT
Found at i:21222156 original size:18 final size:18
Alignment explanation
Indices: 21222135--21222290 Score: 87
Period size: 18 Copynumber: 8.9 Consensus size: 18
21222125 ATATTAAAAA
21222135 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
21222153 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
*
21222168 -TTTAAT-AATTAT-TAT
1 TTTTATTAAATTATATAT
* * *
21222183 TTTAAATTAAATTTTATAG
1 TTT-TATTAAATTATATAT
* * *
21222202 TATTATATATATTAT-GA-
1 TTTTAT-TAAATTATATAT
* *
21222219 TTTTAGTAAATTCATATAG
1 TTTTATTAAATT-ATATAT
** * *
21222238 TAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
21222257 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
21222275 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
21222291 TTAATAATAA
Statistics
Matches: 101, Mismatches: 23, Indels: 28
0.66 0.15 0.18
Matches are distributed among these distances:
13 2 0.02
14 8 0.08
15 1 0.01
16 11 0.11
17 13 0.13
18 41 0.41
19 18 0.18
20 4 0.04
21 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:21222224 original size:122 final size:120
Alignment explanation
Indices: 21222074--21222429 Score: 615
Period size: 122 Copynumber: 3.0 Consensus size: 120
21222064 TATATATTAT
*
21222074 TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAAAATTTT
1 TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTT
*
21222139 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAAATTAAA
66 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAA
*
21222194 TTTTATAGTATTATATATATTATGATTTTAGTAAATTCATATAGTAATATTTAATATTAAGAATT
1 TTTTATAGTA-T-TATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATT
*
21222259 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATA
64 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAA
* * *
21222316 TTTTATATTATTATATATTATGAGTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
1 TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTT
*
21222381 A-TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
66 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
21222430 ATATGATTAA
Statistics
Matches: 225, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
119 47 0.21
120 62 0.28
121 2 0.01
122 114 0.51
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTT
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAAA
Found at i:21222619 original size:16 final size:16
Alignment explanation
Indices: 21222598--21222646 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
21222588 CAAGAATACT
21222598 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
21222614 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
21222630 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
21222646 A
1 A
21222647 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:21241017 original size:45 final size:45
Alignment explanation
Indices: 21240945--21241054 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
21240935 GTTCAAGCTG
* * * * *
21240945 AAAA-ATGTTACGACATTATGATGAAAATGAGTAAGATCATAATT
1 AAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAACT
*
21240989 AAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAGCT
1 AAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAACT
* *
21241034 GAAAGAAGTTATGGCATCATG
1 AAAAGATGTTATGGCATCATG
21241055 TGTTGGTTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 4 0.07
45 53 0.93
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (45 bp):
AAAAGATGTTATGGCATCATGATAAAAATGAGTAAGATCATAACT
Found at i:21241835 original size:22 final size:23
Alignment explanation
Indices: 21241784--21241835 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
21241774 AAGACTGGAC
*
21241784 TTTCCATGTTTGTTACCAATGAGA
1 TTTCC-TGTTTGTTAACAATGAGA
21241808 TTTCCTGTTTGTTAACAATGA-A
1 TTTCCTGTTTGTTAACAATGAGA
21241830 TTTCCT
1 TTTCCT
21241836 TTTTAATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.26
23 15 0.56
24 5 0.19
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.46
Consensus pattern (23 bp):
TTTCCTGTTTGTTAACAATGAGA
Found at i:21244397 original size:16 final size:17
Alignment explanation
Indices: 21244365--21244402 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
21244355 TATTTTTATC
21244365 ATTTAAGTTAGTTTCAA
1 ATTTAAGTTAGTTTCAA
*
21244382 ATTTGAGTTA-TTTCAA
1 ATTTAAGTTAGTTTCAA
21244398 ATTTA
1 ATTTA
21244403 TATAAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (17 bp):
ATTTAAGTTAGTTTCAA
Found at i:21244786 original size:15 final size:15
Alignment explanation
Indices: 21244766--21244795 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21244756 AACTAATAGC
*
21244766 ATCATCTTTATCATG
1 ATCATCTTCATCATG
21244781 ATCATCTTCATCATG
1 ATCATCTTCATCATG
21244796 GAACATAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (15 bp):
ATCATCTTCATCATG
Found at i:21260912 original size:5 final size:5
Alignment explanation
Indices: 21260899--21260932 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
21260889 TATATTTCTT
*
21260899 TTTTA TTTTC TTTTA TTTT- TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
21260933 CCTAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:21261531 original size:3 final size:3
Alignment explanation
Indices: 21261518--21261577 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
21261508 ATTTTCTCCC
* * *
21261518 ATT ATTT ATT ATT ATT GTT A-T ATT ATTT ATT ATC ATC ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
21261564 TTT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
21261578 ATTTGTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21261562 original size:24 final size:21
Alignment explanation
Indices: 21261518--21261580 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
21261508 ATTTTCTCCC
*
21261518 ATTATTTATTATTATTGTTAT
1 ATTATTTATTATTATTATTAT
* *
21261539 ATTATTTATTATCATCA-T-T
1 ATTATTTATTATTATTATTAT
*
21261558 ATTATTT-TTATTATTTTTAT
1 ATTATTTATTATTATTATTAT
21261578 ATT
1 ATT
21261581 TGTACATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 5 0.15
21 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTTATTATTATTATTAT
Found at i:21261580 original size:8 final size:9
Alignment explanation
Indices: 21261518--21261581 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
21261508 ATTTTCTCCC
21261518 ATTATTTATT
1 ATTATTT-TT
21261528 ATTATTGTTAT
1 ATTATT-TT-T
21261539 ATTATTTATT
1 ATTATTT-TT
* **
21261549 ATCATCATT
1 ATTATTTTT
21261558 ATTATTTTT
1 ATTATTTTT
21261567 ATTATTTTT
1 ATTATTTTT
21261576 A-TATTT
1 ATTATTT
21261582 GTACATACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.11
9 18 0.40
10 13 0.29
11 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:21264360 original size:25 final size:23
Alignment explanation
Indices: 21264318--21264368 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
21264308 AAAAATATAA
*
21264318 TTTTATTATTTTAATATTTTATGT
1 TTTTATCATTTTAATATTTTAT-T
21264342 TTTTATCATTTTTAATATTTTATT
1 TTTTATCA-TTTTAATATTTTATT
21264366 TTT
1 TTT
21264369 AAGGATTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTATCATTTTAATATTTTATT
Found at i:21267994 original size:22 final size:22
Alignment explanation
Indices: 21267950--21267994 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21267940 ATTGTAAAAA
* *
21267950 TTATATATTTGTAATTCATATT
1 TTATATATTTATAATTCAAATT
21267972 TTATATATTTTATAATT-AAATT
1 TTATATA-TTTATAATTCAAATT
21267994 T
1 T
21267995 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATATATTTATAATTCAAATT
Found at i:21268686 original size:14 final size:14
Alignment explanation
Indices: 21268659--21268702 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
21268649 CTGGAGATTC
*
21268659 AAAGTTTAACATTT
1 AAAGTTTAAAATTT
* *
21268673 AAGGTTTGAAATTT
1 AAAGTTTAAAATTT
21268687 AAAGTTTAAAATTT
1 AAAGTTTAAAATTT
21268701 AA
1 AA
21268703 CATTTGAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (14 bp):
AAAGTTTAAAATTT
Found at i:21269550 original size:3 final size:3
Alignment explanation
Indices: 21269542--21269570 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21269532 TTCGGAATTT
21269542 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
21269571 TGAGTCCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21274647 original size:13 final size:13
Alignment explanation
Indices: 21274631--21274655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21274621 AAATATATTT
21274631 TAAAAATAAAAAA
1 TAAAAATAAAAAA
21274644 TAAAAATAAAAA
1 TAAAAATAAAAA
21274656 TATTTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:21274685 original size:7 final size:7
Alignment explanation
Indices: 21274673--21274712 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
21274663 AAAGTATTTT
21274673 AAAATTA
1 AAAATTA
21274680 AAAATTA
1 AAAATTA
21274687 AAAATTA
1 AAAATTA
21274694 AAAATTA
1 AAAATTA
21274701 AAAATTA
1 AAAATTA
21274708 AAAAT
1 AAAAT
21274713 ATATATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:21275373 original size:28 final size:28
Alignment explanation
Indices: 21275309--21275373 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
21275299 ACTAACCTAT
*
21275309 AATATATATAACTAAGTCCAAAAAGGAA
1 AATATATATAACTAAATCCAAAAAGGAA
* *
21275337 AATCA-ATATAGAC-AAATTCAAAAAGTAA
1 AAT-ATATATA-ACTAAATCCAAAAAGGAA
21275365 AATATATAT
1 AATATATAT
21275374 TAGCTTTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.03
28 27 0.87
29 3 0.10
ACGTcount: A:0.58, C:0.09, G:0.08, T:0.25
Consensus pattern (28 bp):
AATATATATAACTAAATCCAAAAAGGAA
Found at i:21279673 original size:26 final size:25
Alignment explanation
Indices: 21279643--21279732 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 25
21279633 GTTATTAAAT
*
21279643 TTTAATAAGATTATTATTAAATATAA
1 TTTAATAA-AATATTATTAAATATAA
* * * *
21279669 TTTAATAAAAAATAATTTAATCATAT
1 TTTAATAAAATATTATTAAAT-ATAA
* * *
21279695 TTTAACTTAACTATTATTAAATACAA
1 TTTAA-TAAAATATTATTAAATATAA
21279721 TTTAATAAAATA
1 TTTAATAAAATA
21279733 ATATATAATT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
25 14 0.29
26 23 0.48
27 11 0.23
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTAATAAAATATTATTAAATATAA
Found at i:21281527 original size:219 final size:219
Alignment explanation
Indices: 21281148--21281587 Score: 880
Period size: 219 Copynumber: 2.0 Consensus size: 219
21281138 TTCTCTGTTC
21281148 TTCATTCTCCATTGTCCTCGGCTATCAAGATGGCTTATGAACACTTTAATTGCTGCTCAACAATG
1 TTCATTCTCCATTGTCCTCGGCTATCAAGATGGCTTATGAACACTTTAATTGCTGCTCAACAATG
21281213 GTTGATGAGGACCTCTTTCCCAAGAGAAGAAATCAACACTTGAACAAAAGGAAAAATGGGAAGGA
66 GTTGATGAGGACCTCTTTCCCAAGAGAAGAAATCAACACTTGAACAAAAGGAAAAATGGGAAGGA
21281278 AAAGTTGAGAGAAAGTGAGAGAGGAGAAGAGAGAACGAAAGTGTGAGGGATGAGTTGAATGATCA
131 AAAGTTGAGAGAAAGTGAGAGAGGAGAAGAGAGAACGAAAGTGTGAGGGATGAGTTGAATGATCA
21281343 GCAAGGGGTGGCTTTTATAGCTGA
196 GCAAGGGGTGGCTTTTATAGCTGA
21281367 TTCATTCTCCATTGTCCTCGGCTATCAAGATGGCTTATGAACACTTTAATTGCTGCTCAACAATG
1 TTCATTCTCCATTGTCCTCGGCTATCAAGATGGCTTATGAACACTTTAATTGCTGCTCAACAATG
21281432 GTTGATGAGGACCTCTTTCCCAAGAGAAGAAATCAACACTTGAACAAAAGGAAAAATGGGAAGGA
66 GTTGATGAGGACCTCTTTCCCAAGAGAAGAAATCAACACTTGAACAAAAGGAAAAATGGGAAGGA
21281497 AAAGTTGAGAGAAAGTGAGAGAGGAGAAGAGAGAACGAAAGTGTGAGGGATGAGTTGAATGATCA
131 AAAGTTGAGAGAAAGTGAGAGAGGAGAAGAGAGAACGAAAGTGTGAGGGATGAGTTGAATGATCA
21281562 GCAAGGGGTGGCTTTTATAGCTGA
196 GCAAGGGGTGGCTTTTATAGCTGA
21281586 TT
1 TT
21281588 GTGGCTGCTA
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 221 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (219 bp):
TTCATTCTCCATTGTCCTCGGCTATCAAGATGGCTTATGAACACTTTAATTGCTGCTCAACAATG
GTTGATGAGGACCTCTTTCCCAAGAGAAGAAATCAACACTTGAACAAAAGGAAAAATGGGAAGGA
AAAGTTGAGAGAAAGTGAGAGAGGAGAAGAGAGAACGAAAGTGTGAGGGATGAGTTGAATGATCA
GCAAGGGGTGGCTTTTATAGCTGA
Found at i:21282038 original size:10 final size:10
Alignment explanation
Indices: 21282019--21282070 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
21282009 GAATCTCTCG
21282019 AAAA-TAATC
1 AAAATTAATC
21282028 AAAATTAATC
1 AAAATTAATC
*
21282038 AAAATTAACTAT
1 AAAATTAA-T-C
*
21282050 AAAATTAATT
1 AAAATTAATC
*
21282060 AAAATTCATC
1 AAAATTAATC
21282070 A
1 A
21282071 TGTTCATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 2 0.05
12 8 0.22
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:21291764 original size:125 final size:125
Alignment explanation
Indices: 21291550--21291787 Score: 352
Period size: 125 Copynumber: 1.9 Consensus size: 125
21291540 GCCCACGTGT
* * * *
21291550 ACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTTGGCGTTTTTGAGCAAATAGTA
1 ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
* * *
21291615 TAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGTATTTGTGAAATCGCGTCCTTCTGG
66 TAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGTCCTTCTGG
* *
21291675 ACGCACTTTTGCTACAGTTGGTCCTTGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
1 ACGCACTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT
* * *
21291740 ATAAAATA-GCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATC
65 ATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATC
21291788 ACGCCCACGT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
125 61 0.61
126 39 0.39
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
TAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGTCCTTCTGG
Found at i:21291809 original size:125 final size:125
Alignment explanation
Indices: 21291541--21291819 Score: 346
Period size: 125 Copynumber: 2.2 Consensus size: 125
21291531 TGCATTCGCG
* * * *
21291541 CCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTTGGCGTTTTTGAG
1 CCCAC-TGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAG
* * * *
21291606 CAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGTATTTGTGAAATCGCGT
65 CAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
** * * *
21291667 CCTTCTGGACGCACTTTTGCTACAGTTGGTCCTTGAAGAAATAATTTCGAGTTGACGTTTCTGAG
1 CCCACTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAG
* * *
21291732 CAAATAGTATAAAATA-GCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATCACG-
65 CAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
***
21291791 CCCACGTGGATTTGCTTTTGCTACAGTAG
1 CCCAC-TGGACGCGCTTTTGCTACAGTAG
21291820 CATGTTTGGG
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
124 3 0.02
125 83 0.65
126 42 0.33
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (125 bp):
CCCACTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGC
AAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCACGT
Found at i:21294886 original size:720 final size:717
Alignment explanation
Indices: 21293510--21294947 Score: 2648
Period size: 720 Copynumber: 2.0 Consensus size: 717
21293500 ATGCCGAGAC
21293510 ATATTTCCATACTGCAATGTTCGGTAGGTATACTCATCGGCTATTGCTTACAATGACACAGGATG
1 ATATTTCCATACTGCAATGTTCGGTAGGTATACTCATCGGCTATTGCTTACAATGACACAGGATG
21293575 GTAGTGGGAGAATTCTTCCAATTGCATTTGCAATAACACCGGGGGAGTCGTCTAATGACTGGGAT
66 GTAGTGGGAGAATTCTTCCAATTGCATTTGCAATAACACCGGGGGAGTCGTCTAATGACTGGGAT
21293640 TTCTTTCTCTAGGTTAAAGAGGCATGTGTGCCCCCAACCTGATATCTGTGTTATTTCAGATCGGG
131 TTCTTTCTCTAGGTTAAAGAGGCATGTGTGCCCCCAACCTGATATCTGTGTTATTTCAGATCGGG
* * *
21293705 GTGCCGGTATACTAGCTGTATTTGATCGACAGGGAAGCTTATGGTAGCGCACACACCATAGATAT
196 GCGCCGGTATACTAGCTGCATTTGATCGACAGGGAAGCTTATGGCAGCGCACACACCATAGATAT
21293770 TGCCTAAGACACGTTGCTTCGAACTACTACAGGCAATATCCATCTAAGAGCGAACGACGACAAGT
261 TGCCTAAGACACGTTGCTTCGAACTACTACAGGCAATATCCATCTAAGAGCGAACGACGACAAGT
*
21293835 GACCAACATGGGTATTTAGTCTATATCTTTGTTATTTCGTTTGTCAATTTGAATTAGTTTTATTG
326 GACCAACATGGGTATTTAGTCTATATCTGTGTTATTTCGTTTGTCAATTTGAATTAGTTTTATTG
21293900 GTAGAAGTGGTATAAAATATTCACTATGAACTTATATTGGCAGGGTATGAAATAAATAAAGACTA
391 GTAGAAGTGGTATAAAATATTCACTATGAACTTATATTGGCAGGGTATGAAATAAATAAAGACTA
* *
21293965 TTTTTACGAGATGTTGACAATTATACGTTCAATTAACGGAGAAGGGGCGGACTACCTCTGTAACA
456 TTTTCACGAGATGTTGACAATTATACGTCCAA-TAACGGAGAAGGGGCGGACTACCTCTGTAACA
21294030 TACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGTCGAAC
520 TACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGTCGAAC
21294095 CTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTTGTGCG
585 CTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTTGTGCG
21294160 AGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGATGC
650 AGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGATGC
21294225 AGG
715 AGG
21294228 ATATTTCCATACTGCAATGTTCGGTAGGTATACTCATCGGCTATTGCTTACAATGACACAGGATG
1 ATATTTCCATACTGCAATGTTCGGTAGGTATACTCATCGGCTATTGCTTACAATGACACAGGATG
*
21294293 GTAGTGGGAGAATTCTTCCAATTGCATTTGCAATAACACCGGGGGAGTCGTCTGATGACTGGGAT
66 GTAGTGGGAGAATTCTTCCAATTGCATTTGCAATAACACCGGGGGAGTCGTCTAATGACTGGGAT
*
21294358 TTCTTTCTCTCTAGGTTAAGGAGGCATGTGTGCCCCCAACCTGATATCTGTGTTATTTCAGATCG
131 TTC-TT-TCTCTAGGTTAAAGAGGCATGTGTGCCCCCAACCTGATATCTGTGTTATTTCAGATCG
21294423 GGGCGCCGGTATACTAGCTGCATTTGATCGACAGGGAAGCTTATGGCAGCGCACACACCATAGAT
194 GGGCGCCGGTATACTAGCTGCATTTGATCGACAGGGAAGCTTATGGCAGCGCACACACCATAGAT
21294488 ATTGCCTAAGACACGTTGCTTCGAACTACTACAGGCAATATCCATCTAAGAGCGAACGACGACAA
259 ATTGCCTAAGACACGTTGCTTCGAACTACTACAGGCAATATCCATCTAAGAGCGAACGACGACAA
21294553 GTGACCAACATGGGTATTTAGTCTATATCTGTGTTATTTCGTTTGTCAATTTGAATTAGTTTTAT
324 GTGACCAACATGGGTATTTAGTCTATATCTGTGTTATTTCGTTTGTCAATTTGAATTAGTTTTAT
* *
21294618 TGGTAGAAGTGGTATAAATTATTCGCTATGATA-TTATATTGGCAGGGTATGAAATAAATAAAGA
389 TGGTAGAAGTGGTATAAAATATTCACTATGA-ACTTATATTGGCAGGGTATGAAATAAATAAAGA
* * * * *
21294682 -TCGTTTTCACGAGATGTTGGCAATTTTACGATCCCAA-AACGGCGAAGGGGCGGACTACCTTTG
453 CT-ATTTTCACGAGATGTTGACAATTATACG-T-CCAATAACGGAGAAGGGGCGGACTACCTCTG
21294745 TAACATACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGT
515 TAACATACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGT
*
21294810 TGAACCTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTT
580 CGAACCTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTT
21294875 GTGCGAGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCA
645 GTGCGAGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCA
21294940 GATGCAGG
710 GATGCAGG
21294948 GAGGCCATGT
Statistics
Matches: 698, Mismatches: 16, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
718 132 0.19
719 3 0.00
720 558 0.80
721 2 0.00
722 3 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (717 bp):
ATATTTCCATACTGCAATGTTCGGTAGGTATACTCATCGGCTATTGCTTACAATGACACAGGATG
GTAGTGGGAGAATTCTTCCAATTGCATTTGCAATAACACCGGGGGAGTCGTCTAATGACTGGGAT
TTCTTTCTCTAGGTTAAAGAGGCATGTGTGCCCCCAACCTGATATCTGTGTTATTTCAGATCGGG
GCGCCGGTATACTAGCTGCATTTGATCGACAGGGAAGCTTATGGCAGCGCACACACCATAGATAT
TGCCTAAGACACGTTGCTTCGAACTACTACAGGCAATATCCATCTAAGAGCGAACGACGACAAGT
GACCAACATGGGTATTTAGTCTATATCTGTGTTATTTCGTTTGTCAATTTGAATTAGTTTTATTG
GTAGAAGTGGTATAAAATATTCACTATGAACTTATATTGGCAGGGTATGAAATAAATAAAGACTA
TTTTCACGAGATGTTGACAATTATACGTCCAATAACGGAGAAGGGGCGGACTACCTCTGTAACAT
ACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGTCGAACC
TGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTTGTGCGA
GAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGATGCA
GG
Done.