Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 56 of 131
Found at i:11509065 original size:131 final size:130
Alignment explanation
Indices: 11508832--11509094 Score: 445
Period size: 131 Copynumber: 2.0 Consensus size: 130
11508822 TAATGCTTTG
*
11508832 ATATCCACATAATATATGTAAATGTTCGATTTAGTCTCTATTTATATATACAAATTGACTCTTTA
1 ATATCCACATAATATATGTAAATGTTCGATTTAGTCTCTATTTATATATACAAATTGACTCCTTA
11508897 CATTTTTAAATATTATAAATTTTGTTCTAATGATTAACAACATTAGGGGATGTATGGTTCGAGGT
66 CATTTTTAAATATTATAAATTTTGTTCTAATGATTAACAACATTAGGGGATGTATGGTTCGAGGT
* * *
11508962 ATATCCACCTAATATATGTAAATGTTGGATTTAGTCTCTATTTTATATATTCAAATTGACTCCTT
1 ATATCCACATAATATATGTAAATGTTCGATTTAGTCTCTA-TTTATATATACAAATTGACTCCTT
* * * *
11509027 GCTTTTTTAAATATTGTAAATTTTGTTCTAATGTTTAACAACATTAGGGGATGTATGGTTCGAGG
65 ACATTTTTAAATATTATAAATTTTGTTCTAATGATTAACAACATTAGGGGATGTATGGTTCGAGG
11509092 T
130 T
11509093 AT
1 AT
11509095 GTAATATTAC
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
130 38 0.31
131 86 0.69
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (130 bp):
ATATCCACATAATATATGTAAATGTTCGATTTAGTCTCTATTTATATATACAAATTGACTCCTTA
CATTTTTAAATATTATAAATTTTGTTCTAATGATTAACAACATTAGGGGATGTATGGTTCGAGGT
Found at i:11513121 original size:21 final size:20
Alignment explanation
Indices: 11513097--11513136 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
11513087 ATTTTAACAG
11513097 TATT-TTAATATAATAATTAAA
1 TATTCTTAAT-TAAT-ATTAAA
11513118 TATTCTTAATTAATATTAA
1 TATTCTTAATTAATATTAA
11513137 TTTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTCTTAATTAATATTAAA
Found at i:11513170 original size:41 final size:41
Alignment explanation
Indices: 11513125--11513204 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
11513115 AAATATTCTT
11513125 AATT-AATATTAATTTAATAA-ATTTAATTATTAATTTAATCA
1 AATTAAATATTAA-TTAATAATATTTAA-TATTAATTTAATCA
*
11513166 AATTAAATATTAATTAATAATATTTTATATTAATTTAAT
1 AATTAAATATTAATTAATAATATTTAATATTAATTTAAT
11513205 AGTATTCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 23 0.64
42 13 0.36
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (41 bp):
AATTAAATATTAATTAATAATATTTAATATTAATTTAATCA
Found at i:11513210 original size:21 final size:20
Alignment explanation
Indices: 11513127--11513205 Score: 106
Period size: 21 Copynumber: 3.9 Consensus size: 20
11513117 ATATTCTTAA
11513127 TTAATATTAATTTAATAAAT
1 TTAATATTAATTTAATAAAT
11513147 TTAATTATTAATTTAATCAAAT
1 TTAA-TATTAATTTAAT-AAAT
*
11513169 TAAATATTAA-TTAATAATAT
1 TTAATATTAATTTAATAA-AT
*
11513189 TTTATATTAATTTAATA
1 TTAATATTAATTTAATA
11513206 GTATTCTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.04
20 19 0.37
21 24 0.46
22 7 0.13
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATATTAATTTAATAAAT
Found at i:11513250 original size:21 final size:21
Alignment explanation
Indices: 11513220--11513336 Score: 78
Period size: 21 Copynumber: 5.6 Consensus size: 21
11513210 TCTATATGAT
*
11513220 TAATATTATTAAACAATAATC
1 TAATAATATTAAACAATAATC
* * *
11513241 TAATAATATT-AACTATTATA
1 TAATAATATTAAACAATAATC
* *
11513261 TGATAATATTAAA-TATAAGTC
1 TAATAATATTAAACAATAA-TC
* * *
11513282 TAATAATATTAAATATTCAATT
1 TAATAATATTAAACAAT-AATC
* * *
11513304 TAACAACATTAAACATTAAT-
1 TAATAATATTAAACAATAATC
11513324 TAAATAATATTAA
1 T-AATAATATTAA
11513337 CTATTTTAAC
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
20 21 0.28
21 36 0.48
22 16 0.21
23 2 0.03
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATAATATTAAACAATAATC
Found at i:11513391 original size:18 final size:17
Alignment explanation
Indices: 11513370--11513409 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11513360 AACAATTAAG
*
11513370 TTAATAATATTTTCATAT
1 TTAATAATATTTTAAT-T
*
11513388 TTAACAATATTTTAATT
1 TTAATAATATTTTAATT
11513405 TTAAT
1 TTAAT
11513410 TATTAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATAATATTTTAATT
Found at i:11513497 original size:11 final size:11
Alignment explanation
Indices: 11513478--11513561 Score: 59
Period size: 11 Copynumber: 7.8 Consensus size: 11
11513468 TAGTTTTCAA
11513478 ATTTTAATATT
1 ATTTTAATATT
* *
11513489 ATTTGAATAAT
1 ATTTTAATATT
11513500 ATTTTAATATT
1 ATTTTAATATT
* *
11513511 AAATATTAATAAT
1 --ATTTTAATATT
*
11513524 ATTTT-A-A-C
1 ATTTTAATATT
* *
11513532 A-TTTAGTATC
1 ATTTTAATATT
11513542 ATTTTAATATT
1 ATTTTAATATT
11513553 ATTTTAATA
1 ATTTTAATA
11513562 ACAATTTATA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 3 0.05
8 1 0.02
9 2 0.04
10 3 0.05
11 38 0.68
13 9 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
ATTTTAATATT
Found at i:11513526 original size:24 final size:22
Alignment explanation
Indices: 11513478--11513530 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
11513468 TAGTTTTCAA
11513478 ATTTTAATATTATTTGAATAAT
1 ATTTTAATATTATTTGAATAAT
11513500 ATTTTAATATTAAATATT-AATAAT
1 ATTTTAATATT--AT-TTGAATAAT
11513524 ATTTTAA
1 ATTTTAA
11513531 CATTTAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.39
24 15 0.54
25 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTTTAATATTATTTGAATAAT
Found at i:11513685 original size:29 final size:28
Alignment explanation
Indices: 11513619--11513704 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
11513609 TATTTTAAAA
11513619 TTTAATA-TATTTTAATAATTTTTGAAT
1 TTTAATATTATTTTAATAATTTTTGAAT
* * *
11513646 ATTACAAATTATTTTAATAGGATTTTT-TAT
1 TTTA-ATATTATTTTAATA--ATTTTTGAAT
*
11513676 TTTAATATTAATTTAATAAATTTTT-AAT
1 TTTAATATTATTTTAAT-AATTTTTGAAT
11513704 T
1 T
11513705 ATCTAACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.06
28 11 0.23
29 21 0.45
30 6 0.13
31 6 0.13
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTAATATTATTTTAATAATTTTTGAAT
Found at i:11513910 original size:42 final size:42
Alignment explanation
Indices: 11513864--11513948 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
11513854 TTATAAAATT
11513864 TAATATGTTAATATTATTTTAAGATTATTTAATTAATT-TATA
1 TAATATGTTAATATTA-TTTAAGATTATTTAATTAATTATATA
* ** *
11513906 TAATATTTTCCTATTATTTAATATTATTTAATTAATTATATA
1 TAATATGTTAATATTATTTAAGATTATTTAATTAATTATATA
11513948 T
1 T
11513949 TATTAATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 20 0.53
42 18 0.47
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (42 bp):
TAATATGTTAATATTATTTAAGATTATTTAATTAATTATATA
Found at i:11513932 original size:10 final size:10
Alignment explanation
Indices: 11513871--11513937 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
11513861 ATTTAATATG
11513871 TTAATATTATT
1 TTAATATTA-T
*
11513882 TTAAGATTAT
1 TTAATATTAT
*
11513892 TTAAT-TAAT
1 TTAATATTAT
*
11513901 TTATATAATATT
1 TTA-ATATTA-T
**
11513913 TTCCTATTAT
1 TTAATATTAT
11513923 TTAATATTAT
1 TTAATATTAT
11513933 TTAAT
1 TTAAT
11513938 TAATTATATA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
9 6 0.14
10 21 0.49
11 13 0.30
12 3 0.07
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (10 bp):
TTAATATTAT
Found at i:11513936 original size:41 final size:41
Alignment explanation
Indices: 11513875--11513952 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
11513865 AATATGTTAA
11513875 TATTATTTTAAGATTATTTAATTAATTTATATAATATTTTCC
1 TATTATTTTAAGATTATTTAATTAA-TTATATAATATTTTCC
* *
11513917 TATTA-TTTAATATTATTTAATTAATTATATATTATT
1 TATTATTTTAAGATTATTTAATTAATTATATAATATT
11513953 AATTAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 11 0.32
41 18 0.53
42 5 0.15
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (41 bp):
TATTATTTTAAGATTATTTAATTAATTATATAATATTTTCC
Found at i:11513939 original size:18 final size:19
Alignment explanation
Indices: 11513887--11513957 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 19
11513877 TTATTTTAAG
11513887 ATTATTTAATTAATTTATAT
1 ATTATTTAATT-ATTTATAT
* *
11513907 AATATTTTCCTATTATTTA-AT
1 ATTA-TTT--AATTATTTATAT
*
11513928 ATTATTTAATTAATTATAT
1 ATTATTTAATTATTTATAT
11513947 ATTA-TTAATTA
1 ATTATTTAATTA
11513958 AAGTTAGGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
18 14 0.33
19 6 0.14
20 6 0.14
21 8 0.19
22 5 0.12
23 3 0.07
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTATTTAATTATTTATAT
Found at i:11514847 original size:12 final size:12
Alignment explanation
Indices: 11514830--11514918 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 12
11514820 AAGTTTACAC
11514830 AAAAATAAAATA
1 AAAAATAAAATA
*
11514842 AAAAAT--CATA
1 AAAAATAAAATA
11514852 AAAAATAGAAAT-
1 AAAAATA-AAATA
*
11514864 AAGAAT--AAT-
1 AAAAATAAAATA
* *
11514873 AAAAATATATTA
1 AAAAATAAAATA
** *
11514885 AAAAATTGAGTA
1 AAAAATAAAATA
11514897 AAAAATAAAATA
1 AAAAATAAAATA
11514909 AAAAATAAAA
1 AAAAATAAAA
11514919 AAATAATAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
9 8 0.13
10 9 0.15
11 2 0.03
12 39 0.65
13 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.20
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:11514875 original size:32 final size:30
Alignment explanation
Indices: 11514830--11514923 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 30
11514820 AAGTTTACAC
*
11514830 AAAAATAAAATAAAAAATCATAAAAAATAGA
1 AAAAAGAAAATAAAAAAT-ATAAAAAATAGA
*
11514861 AATAAGAATAATAAAAATATATTAAAAAATTGAGTA
1 AAAAAGAA-AATAAAAA-ATA-TAAAAAA-T-AG-A
*
11514897 AAAAATAAAATAAAAAATA-AAAAAATA
1 AAAAAGAAAATAAAAAATATAAAAAATA
11514924 ATAGAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
30 1 0.02
31 7 0.13
32 15 0.28
33 9 0.17
34 4 0.08
35 10 0.19
36 7 0.13
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.20
Consensus pattern (30 bp):
AAAAAGAAAATAAAAAATATAAAAAATAGA
Found at i:11514908 original size:44 final size:44
Alignment explanation
Indices: 11514850--11514933 Score: 118
Period size: 42 Copynumber: 1.9 Consensus size: 44
11514840 TAAAAAATCA
* *
11514850 TAAAAAATAGAAATAAGAATAATAAAAATATATTA-AAAAATTGAG
1 TAAAAAATAGAAATAA-AA-AATAAAAAAATAATAGAAAAATTGAG
11514895 TAAAAAATA-AAATAAAAAATAAAAAAATAATAGAAAAAT
1 TAAAAAATAGAAATAAAAAATAAAAAAATAATAGAAAAAT
11514934 ATTGAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
42 13 0.36
43 8 0.22
44 6 0.17
45 9 0.25
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (44 bp):
TAAAAAATAGAAATAAAAAATAAAAAAATAATAGAAAAATTGAG
Found at i:11514931 original size:12 final size:11
Alignment explanation
Indices: 11514830--11514934 Score: 58
Period size: 11 Copynumber: 9.6 Consensus size: 11
11514820 AAGTTTACAC
*
11514830 AAAAATAAAATA
1 AAAAATAATA-A
*
11514842 AAAAATCAT-A
1 AAAAATAATAA
11514852 AAAAATAGA-AA
1 AAAAATA-ATAA
*
11514863 TAAGAATAATAA
1 -AAAAATAATAA
* *
11514875 AAATATATTAA
1 AAAAATAATAA
* *
11514886 AAAATTGAGT-A
1 AAAAAT-AATAA
11514897 AAAAATAA-AA
1 AAAAATAATAA
*
11514907 TAAAA-AATAA
1 AAAAATAATAA
*
11514917 AAAAATAATAG
1 AAAAATAATAA
11514928 AAAAATA
1 AAAAATA
11514935 TTGAAAATGC
Statistics
Matches: 70, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
9 2 0.03
10 19 0.27
11 32 0.46
12 17 0.24
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:11514938 original size:45 final size:45
Alignment explanation
Indices: 11514850--11514938 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
11514840 TAAAAAATCA
* *
11514850 TAAAAAATAGAAATAAGAATAATAAAAATATATTAAAAAATTGAG
1 TAAAAAATAGAAATAAAAATAATAAAAATATATGAAAAAATTGAG
11514895 TAAAAAATA-AAATAAAAAATAA-AAAAATA-ATAGAAAAATATTGA
1 TAAAAAATAGAAAT-AAAAATAATAAAAATATAT-GAAAAA-ATTGA
11514939 AAATGCCTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 2 0.05
44 16 0.41
45 21 0.54
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (45 bp):
TAAAAAATAGAAATAAAAATAATAAAAATATATGAAAAAATTGAG
Found at i:11516990 original size:21 final size:21
Alignment explanation
Indices: 11516933--11517058 Score: 90
Period size: 21 Copynumber: 6.3 Consensus size: 21
11516923 TAGTTTTCCT
*
11516933 CAGAAA-TTCAA-CCCAAAAC
1 CAGAAACTTCAATCCCAAACC
* **
11516952 TAGAAACTTTGA-CTCCAAACC
1 CAGAAACTTCAATC-CCAAACC
*
11516973 CAAAAACTTCAATCCCAAACC
1 CAGAAACTTCAATCCCAAACC
* *
11516994 TAGAAACTTCAA-CTCTAAACC
1 CAGAAACTTCAATC-CCAAACC
11517015 CAGAAACTTC--T---AAACC
1 CAGAAACTTCAATCCCAAACC
11517031 CAGAAACTTCAATCCCAAAGCC
1 CAGAAACTTCAATCCCAAA-CC
*
11517053 TAGAAA
1 CAGAAA
11517059 GTTAAACTAG
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
16 15 0.18
18 1 0.01
19 5 0.06
20 5 0.06
21 49 0.59
22 8 0.10
ACGTcount: A:0.45, C:0.31, G:0.06, T:0.17
Consensus pattern (21 bp):
CAGAAACTTCAATCCCAAACC
Found at i:11516990 original size:42 final size:41
Alignment explanation
Indices: 11516939--11517038 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 41
11516929 TCCTCAGAAA
**
11516939 TTCAACCCAAAACTAGAAACTTTGACTCCAAACCCAAAAAC
1 TTCAACCCAAAACTAGAAACTTCAACTCCAAACCCAAAAAC
* * *
11516980 TTCAATCCCAAACCTAGAAACTTCAACTCTAAACCCAGAAAC
1 TTCAA-CCCAAAACTAGAAACTTCAACTCCAAACCCAAAAAC
11517022 TTCTAAACCCAGAAACT
1 TTC--AACCCA-AAACT
11517039 TCAATCCCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 5 0.10
42 34 0.69
43 4 0.08
44 6 0.12
ACGTcount: A:0.44, C:0.32, G:0.05, T:0.19
Consensus pattern (41 bp):
TTCAACCCAAAACTAGAAACTTCAACTCCAAACCCAAAAAC
Found at i:11517028 original size:16 final size:16
Alignment explanation
Indices: 11517007--11517040 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
11516997 AAACTTCAAC
11517007 TCTAAACCCAGAAACT
1 TCTAAACCCAGAAACT
11517023 TCTAAACCCAGAAACT
1 TCTAAACCCAGAAACT
11517039 TC
1 TC
11517041 AATCCCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (16 bp):
TCTAAACCCAGAAACT
Found at i:11525192 original size:24 final size:24
Alignment explanation
Indices: 11525165--11525210 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11525155 TGACTGTATG
11525165 ATTGGGTAATGGGTTACCACTGAC
1 ATTGGGTAATGGGTTACCACTGAC
* * *
11525189 ATTGGGTATTGTGTTTCCACTG
1 ATTGGGTAATGGGTTACCACTG
11525211 GTGTCAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (24 bp):
ATTGGGTAATGGGTTACCACTGAC
Found at i:11530944 original size:23 final size:23
Alignment explanation
Indices: 11530916--11530963 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
11530906 CACTCCATCA
11530916 TTTTATTCATTC-TCTTTTTTTTT
1 TTTTATT-ATTCATCTTTTTTTTT
11530939 TTTTATTATTCATTCTTTTTTTTT
1 TTTTATTATTCA-TCTTTTTTTTT
11530963 T
1 T
11530964 CCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 7 0.30
24 12 0.52
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTATTATTCATCTTTTTTTTT
Found at i:11532919 original size:30 final size:30
Alignment explanation
Indices: 11532885--11532943 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
11532875 ATAATGTCAA
11532885 TTCAAAAGATAGTACCATTTAATTATATTT
1 TTCAAAAGATAGTACCATTTAATTATATTT
11532915 TTCAAAAGATAGTACCATTTAATTATATT
1 TTCAAAAGATAGTACCATTTAATTATATT
11532944 ATATCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (30 bp):
TTCAAAAGATAGTACCATTTAATTATATTT
Found at i:11533232 original size:6 final size:6
Alignment explanation
Indices: 11533221--11533268 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
11533211 GAATCTTATC
*
11533221 ATTTTT ATTTTT ATTTTT A-TTTT ATGTTTT ATTTTGA ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT ATTTT-T ATTTTT ATTTT
11533269 ATGGATATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 5 0.14
6 21 0.57
7 11 0.30
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:11533261 original size:25 final size:24
Alignment explanation
Indices: 11533223--11533271 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
11533213 ATCTTATCAT
*
11533223 TTTTATTTTTATTTTTATTTTATG
1 TTTTATTTTAATTTTTATTTTATG
11533247 TTTTATTTTGAATTTTTATTTTATG
1 TTTTATTTT-AATTTTTATTTTATG
11533272 GATATGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTTATTTTAATTTTTATTTTATG
Found at i:11534217 original size:18 final size:18
Alignment explanation
Indices: 11534191--11534225 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11534181 AAATTATGAA
11534191 AAAAGTATCAAATAAGAC
1 AAAAGTATCAAATAAGAC
* *
11534209 AAAATTATCTAATAAGA
1 AAAAGTATCAAATAAGA
11534226 TGTTTGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (18 bp):
AAAAGTATCAAATAAGAC
Found at i:11535616 original size:44 final size:44
Alignment explanation
Indices: 11535552--11535637 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
11535542 CATTTAGCTG
* * *
11535552 TTTATATTTCTAGGTTATATTTTAAATTTCCTTATAGTTAACTA
1 TTTATATTCCTAGGTTATATTTTAAACTTCATTATAGTTAACTA
* * * *
11535596 TTTATGTTCCTAGTTTATATTTTGAACTTCATTTTAGTTAAC
1 TTTATATTCCTAGGTTATATTTTAAACTTCATTATAGTTAAC
11535638 AGTTTTATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (44 bp):
TTTATATTCCTAGGTTATATTTTAAACTTCATTATAGTTAACTA
Found at i:11535893 original size:31 final size:30
Alignment explanation
Indices: 11535856--11535914 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
11535846 AATGAATAAG
* *
11535856 ATAATATTATTTTATTAATGAAGTAAATTAA
1 ATAATATTATCTTATTAAT-AAATAAATTAA
11535887 ATAATATTATCTTATTAATAAATAAATT
1 ATAATATTATCTTATTAATAAATAAATT
11535915 TTTAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (30 bp):
ATAATATTATCTTATTAATAAATAAATTAA
Found at i:11538045 original size:22 final size:22
Alignment explanation
Indices: 11537995--11538045 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11537985 TATGATTTAA
* *
11537995 AATTTTAATAAAAATTATATAT
1 AATTTTAATAAAAATAAAATAT
*
11538017 AAATTTAATAAAAATAAAA-AT
1 AATTTTAATAAAAATAAAATAT
11538038 ATATTTTA
1 A-ATTTTA
11538046 TATTTTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTTAATAAAAATAAAATAT
Found at i:11538059 original size:22 final size:24
Alignment explanation
Indices: 11538034--11538082 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
11538024 ATAAAAATAA
* *
11538034 AAATATATTTTAT-ATTTT-ATAT
1 AAATATAATATATAATTTTCATAT
11538056 AAATATAATATATAATTTTCATAT
1 AAATATAATATATAATTTTCATAT
11538080 AAA
1 AAA
11538083 ATTTGACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 5 0.22
24 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATATAATATATAATTTTCATAT
Found at i:11538444 original size:20 final size:20
Alignment explanation
Indices: 11538402--11538444 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11538392 TTTAAATTAA
*
11538402 AAACATTAGATTCCAACGGT
1 AAACATTAGATTCCAACGAT
* *
11538422 AAACATTAGATTCTAACTAT
1 AAACATTAGATTCCAACGAT
11538442 AAA
1 AAA
11538445 TGAAAGGGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (20 bp):
AAACATTAGATTCCAACGAT
Found at i:11544663 original size:30 final size:28
Alignment explanation
Indices: 11544627--11544687 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 28
11544617 ATGTCGGTTG
*
11544627 AGAGAAAAGGAAGTTGAATAGGAGAA-AGGA
1 AGAGAAAA-GAAG--GAATAAGAGAAGAGGA
11544657 AGAGAAAAGAAGGAATAAGAGAAGAGGA
1 AGAGAAAAGAAGGAATAAGAGAAGAGGA
11544685 AGA
1 AGA
11544688 AGGAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 10 0.34
28 7 0.24
29 4 0.14
30 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.07
Consensus pattern (28 bp):
AGAGAAAAGAAGGAATAAGAGAAGAGGA
Found at i:11544754 original size:9 final size:9
Alignment explanation
Indices: 11544740--11544781 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
11544730 GTCGGCGACT
11544740 GAAAGAAAA
1 GAAAGAAAA
11544749 GAAAGAAAA
1 GAAAGAAAA
11544758 GAAAGAAAA
1 GAAAGAAAA
11544767 G-AAGAAGAA
1 GAAAGAA-AA
11544776 GAAAGA
1 GAAAGA
11544782 GTCGAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 5 0.16
9 22 0.71
10 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:11544760 original size:14 final size:14
Alignment explanation
Indices: 11544741--11544781 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
11544731 TCGGCGACTG
11544741 AAAGAAAAGAAAGA
1 AAAGAAAAGAAAGA
11544755 AAAG-AAAGAAA-A
1 AAAGAAAAGAAAGA
*
11544767 GAAGAAGAAGAAAGA
1 AAAGAA-AAGAAAGA
11544782 GTCGAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
14 10 0.43
15 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAAGA
Found at i:11544771 original size:26 final size:24
Alignment explanation
Indices: 11544741--11544823 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 24
11544731 TCGGCGACTG
11544741 AAAGAAAAGAAAGAAAAGAAAGAAA
1 AAAGAAAAGAAAGAAAAG-AAGAAA
***
11544766 AGAAGAAGAAGAAAGAGTCGAAGAAA
1 A-AAGAA-AAGAAAGAAAAGAAGAAA
*
11544792 AAAGAAAATGAATGAAAATGAAGAAA
1 AAAGAAAA-GAAAGAAAA-GAAGAAA
11544818 AAAGAA
1 AAAGAA
11544824 TGTTTGACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.04
25 11 0.23
26 25 0.53
27 9 0.19
ACGTcount: A:0.71, C:0.01, G:0.23, T:0.05
Consensus pattern (24 bp):
AAAGAAAAGAAAGAAAAGAAGAAA
Found at i:11546685 original size:25 final size:23
Alignment explanation
Indices: 11546657--11546702 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
11546647 TGCATTCCCA
11546657 TTTTGATTATGTCATTTATTGTATT
1 TTTTGATTATGT-ATTT-TTGTATT
*
11546682 TTTTTATTATGTATTTTTGTA
1 TTTTGATTATGTATTTTTGTA
11546703 CATACTGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (23 bp):
TTTTGATTATGTATTTTTGTATT
Found at i:11549519 original size:26 final size:26
Alignment explanation
Indices: 11549446--11549513 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
11549436 TAAAGAAACC
* **
11549446 AAAAAAAGAAAACTGTA-GAACTCAAA
1 AAAAAAAGAAAA-TTTAGGAAAACAAA
*
11549472 AGAAAAAGAAAATTTAGGAAAACAAA
1 AAAAAAAGAAAATTTAGGAAAACAAA
11549498 AAAAAAAGTAAAATTT
1 AAAAAAAG-AAAATTT
11549514 TGAAAAGCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 25 0.71
27 7 0.20
ACGTcount: A:0.68, C:0.06, G:0.12, T:0.15
Consensus pattern (26 bp):
AAAAAAAGAAAATTTAGGAAAACAAA
Found at i:11549884 original size:28 final size:27
Alignment explanation
Indices: 11549852--11549904 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
11549842 TAGATAGTGC
**
11549852 AAAAGAAAATTAAAAAAAAAAGAAAAAG
1 AAAAGAAAAGCAAAAAAAAAA-AAAAAG
*
11549880 AAAAGACAAGCAAAAAAAAAAAAAA
1 AAAAGAAAAGCAAAAAAAAAAAAAA
11549905 GAATAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (27 bp):
AAAAGAAAAGCAAAAAAAAAAAAAAAG
Found at i:11551293 original size:17 final size:17
Alignment explanation
Indices: 11551260--11551293 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11551250 GTAGGTAGAA
*
11551260 TTGAAAAAGAAATTTTT
1 TTGAAAAAGAAAGTTTT
*
11551277 TTGAAAAAGATAGTTTT
1 TTGAAAAAGAAAGTTTT
11551294 AGTGTTTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (17 bp):
TTGAAAAAGAAAGTTTT
Found at i:11551881 original size:5 final size:5
Alignment explanation
Indices: 11551867--11551911 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
11551857 TTTGAGTTTT
* *
11551867 GAAAA AAAAA TAAAA GTAAAA -AAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA G-AAAA GAAAA GAAAA GAAAA GAAAA GAAAA
11551912 TTATCAAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 4 0.11
5 27 0.77
6 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (5 bp):
GAAAA
Found at i:11552103 original size:19 final size:19
Alignment explanation
Indices: 11552075--11552134 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
11552065 CCAAAATGTC
*
11552075 AAAAGAGTTTGAAGAAATG
1 AAAAGGGTTTGAAGAAATG
* *
11552094 AAAAGGGTTTGCAGAAACG
1 AAAAGGGTTTGAAGAAATG
11552113 AAAAGGGTTGATGAAGAAATG
1 AAAAGGGTT--TGAAGAAATG
11552134 A
1 A
11552135 TTGAAAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 25 0.74
21 9 0.26
ACGTcount: A:0.48, C:0.03, G:0.30, T:0.18
Consensus pattern (19 bp):
AAAAGGGTTTGAAGAAATG
Found at i:11553914 original size:19 final size:19
Alignment explanation
Indices: 11553892--11553931 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11553882 TAGTAAAATT
* *
11553892 AAAAAAATAAGAAAACCAA
1 AAAAAAAAAAAAAAACCAA
11553911 AAAAAAAAAAAAAAACCAA
1 AAAAAAAAAAAAAAACCAA
11553930 AA
1 AA
11553932 GTTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAAAAACCAA
Found at i:11555172 original size:14 final size:14
Alignment explanation
Indices: 11555146--11555194 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
11555136 ATCAGCGATT
11555146 AAAAAAATA-AGAAG
1 AAAAAAA-AGAGAAG
* *
11555160 GAAAAGAAGAGAAG
1 AAAAAAAAGAGAAG
11555174 AAAAAAAAGAG--G
1 AAAAAAAAGAGAAG
11555186 AAAAAAAAG
1 AAAAAAAAG
11555195 GGAAACAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 10 0.33
13 1 0.03
14 19 0.63
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (14 bp):
AAAAAAAAGAGAAG
Found at i:11555198 original size:11 final size:12
Alignment explanation
Indices: 11555147--11555199 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
11555137 TCAGCGATTA
11555147 AAAAAATAAGAAGG
1 AAAAAA-AAG-AGG
* *
11555161 AAAAGAAGAGAAG
1 AAAA-AAAAGAGG
11555174 AAAAAAAAGAGG
1 AAAAAAAAGAGG
11555186 AAAAAAAAG-GG
1 AAAAAAAAGAGG
11555197 AAA
1 AAA
11555200 CAAGGGAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 5 0.15
12 15 0.44
13 6 0.18
14 6 0.18
15 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (12 bp):
AAAAAAAAGAGG
Found at i:11555275 original size:17 final size:18
Alignment explanation
Indices: 11555245--11555296 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
11555235 TGAACCAAAA
*
11555245 GAAAAAAGAGAAAACAAG
1 GAAAAAAGAAAAAACAAG
*
11555263 GAAAAAA-AAAAAAGAAG
1 GAAAAAAGAAAAAACAAG
11555280 GAGAAGAAAGAGAAAAA
1 GA-AA-AAAGA-AAAAA
11555297 AAAAAAGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 10 0.36
18 9 0.32
19 3 0.11
20 1 0.04
21 5 0.18
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (18 bp):
GAAAAAAGAAAAAACAAG
Found at i:11555390 original size:12 final size:11
Alignment explanation
Indices: 11555374--11555410 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
11555364 TGGGAATGAG
11555374 AAAAAAAAAGA
1 AAAAAAAAAGA
11555385 AGAAAAAAAAG-
1 A-AAAAAAAAGA
11555396 AAAAAAAAAGA
1 AAAAAAAAAGA
11555407 AAAA
1 AAAA
11555411 TGGAAAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.38
11 6 0.25
12 9 0.38
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:11555390 original size:13 final size:13
Alignment explanation
Indices: 11555372--11555404 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
11555362 AATGGGAATG
11555372 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
11555385 AG-AAAAAAAAGA
1 AGAAAAAAAAAGA
11555397 A-AAAAAAA
1 AGAAAAAAA
11555405 GAAAAATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 17 0.89
13 2 0.11
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAGA
Found at i:11557508 original size:15 final size:15
Alignment explanation
Indices: 11557484--11557513 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11557474 TAACAATTAT
*
11557484 AAATATTGTTAAACA
1 AAATAATGTTAAACA
11557499 AAATAATGTTAAACA
1 AAATAATGTTAAACA
11557514 TATGAATATA
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:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (15 bp):
AAATAATGTTAAACA
Found at i:11569723 original size:144 final size:143
Alignment explanation
Indices: 11569342--11569725 Score: 407
Period size: 143 Copynumber: 2.7 Consensus size: 143
11569332 CTTATAAGTG
* * * * * *
11569342 TGAAATTACCAAAATATCATTTAAGAGTATTTTCATAATTTAACTTTTTCGAGGTCGATTTTTTA
1 TGAAATTACCAAAATATCCTTTAAGGGTATTTTTATAATTTAACATTTTCGAGGTTGATTTTTCA
* * *
11569407 TGAAAAACTCCAGATCAT-GATTTGACATT-TTCACATGAATTTTGATGAATTGAAAACCTTGAT
66 TGAAAAGCTCCAGATCATAG-TTTG-TATTATTCACATGAATTGTGATGAATTGAAAACCTTGAT
* * *
11569470 TGCACCTTAAAGAGT
129 TGCACCTCAAAAAGA
* * * *
11569485 TGAAATTACCAAAATATCCATT-AGGGATATTTTTATAATTTGATATTTTCGAGGTTAATTTTTC
1 TGAAATTACCAAAATATCCTTTAAGGG-TATTTTTATAATTTAACATTTTCGAGGTTGATTTTTC
* * ** * * * *
11569549 GTTAAAAGCTATAGATCACATTTTAATATTATTC-CATGAATTGTGATGTATTGAAAACCTTGAT
65 ATGAAAAGCTCCAGATCATAGTTT-GTATTATTCACATGAATTGTGATGAATTGAAAACCTTGAT
11569613 TGCACCTCAGAAAAGA
129 TGCACCTCA-AAAAGA
** * * * *
11569629 TGAAATTATTAAAATACCCTTTAAGGGTATTTTTATAATTTAACCTTTTCAAGGTTGGTTTTTCA
1 TGAAATTACCAAAATATCCTTTAAGGGTATTTTTATAATTTAACATTTTCGAGGTTGATTTTTCA
*
11569694 TGAAAAGCTCCAAATCATAGTTATGTATTATT
66 TGAAAAGCTCCAGATCATAGTT-TGTATTATT
11569726 TTATGATTTT
Statistics
Matches: 192, Mismatches: 42, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
142 3 0.02
143 105 0.55
144 79 0.41
145 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (143 bp):
TGAAATTACCAAAATATCCTTTAAGGGTATTTTTATAATTTAACATTTTCGAGGTTGATTTTTCA
TGAAAAGCTCCAGATCATAGTTTGTATTATTCACATGAATTGTGATGAATTGAAAACCTTGATTG
CACCTCAAAAAGA
Found at i:11570102 original size:18 final size:18
Alignment explanation
Indices: 11570079--11570113 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11570069 AAAAAACCTG
11570079 AAAAAAAAAGGAAAAATA
1 AAAAAAAAAGGAAAAATA
**
11570097 AAAAAAATTGGAAAAAT
1 AAAAAAAAAGGAAAAAT
11570114 TTTGTAAGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAAAAAGGAAAAATA
Found at i:11570567 original size:21 final size:20
Alignment explanation
Indices: 11570543--11570582 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11570533 GGAGCATTTC
11570543 CTTAATCATCAAACCCCAAAA
1 CTTAA-CATCAAACCCCAAAA
* *
11570564 CTTAACCTTAAACCCCAAA
1 CTTAACATCAAACCCCAAA
11570583 CCAAAACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (20 bp):
CTTAACATCAAACCCCAAAA
Found at i:11570578 original size:20 final size:20
Alignment explanation
Indices: 11570553--11570635 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
11570543 CTTAATCATC
11570553 AAACCCCAAAACTTAACCTT
1 AAACCCCAAAACTTAACCTT
* **
11570573 AAACCCCAAACCAAAACCTT
1 AAACCCCAAAACTTAACCTT
* * *
11570593 AAA-ACC-AACCTTAAACCCT
1 AAACCCCAAAACTT-AACCTT
* *
11570612 AAACCCTAAAAC-TAACATT
1 AAACCCCAAAACTTAACCTT
11570631 AAACC
1 AAACC
11570636 TTAAAACCAA
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
18 4 0.08
19 19 0.40
20 22 0.46
21 3 0.06
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACCCCAAAACTTAACCTT
Found at i:11570615 original size:26 final size:26
Alignment explanation
Indices: 11570586--11570640 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
11570576 CCCCAAACCA
* *
11570586 AAACCTTAAAACCAACCTTAAACCCT
1 AAACCCTAAAACCAACATTAAACCCT
* *
11570612 AAACCCTAAAACTAACATTAAACCTT
1 AAACCCTAAAACCAACATTAAACCCT
11570638 AAA
1 AAA
11570641 ACCAACTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (26 bp):
AAACCCTAAAACCAACATTAAACCCT
Found at i:11570633 original size:19 final size:18
Alignment explanation
Indices: 11570611--11570659 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
11570601 CCTTAAACCC
*
11570611 TAAACCCTAAAACTAACAT
1 TAAACCCTAAAACCAAC-T
*
11570630 TAAACCTTAAAACCAACT
1 TAAACCCTAAAACCAACT
11570648 TCAAACCCTAAA
1 T-AAACCCTAAA
11570660 CCCTAAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (18 bp):
TAAACCCTAAAACCAACT
Found at i:11570636 original size:45 final size:44
Alignment explanation
Indices: 11570586--11570702 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 44
11570576 CCCCAAACCA
*
11570586 AAACCTTAAAACCAACCTTAAACCCTAAACCCTAAAACTAACATT-
1 AAACCTTAAAACCAACCTTAAACCCTAAACCCT-AAACCAA-ATTC
*
11570631 AAACCTTAAAACCAA-CTTCAAACCCTAAACCCTAAACCAATTTC
1 AAACCTTAAAACCAACCTT-AAACCCTAAACCCTAAACCAAATTC
* * *
11570675 AAACTTTAAAACAAACCGTAAACCCTAA
1 AAACCTTAAAACCAACCTTAAACCCTAA
11570703 TCCTAACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.03
44 31 0.48
45 31 0.48
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.20
Consensus pattern (44 bp):
AAACCTTAAAACCAACCTTAAACCCTAAACCCTAAACCAAATTC
Found at i:11570675 original size:25 final size:26
Alignment explanation
Indices: 11570630--11570678 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
11570620 AAACTAACAT
*
11570630 TAAACCTTAAAACCAACTTCAAACCC
1 TAAACCCTAAAACCAACTTCAAACCC
*
11570656 TAAACCCT-AAACCAATTTCAAAC
1 TAAACCCTAAAACCAACTTCAAAC
11570679 TTTAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (26 bp):
TAAACCCTAAAACCAACTTCAAACCC
Found at i:11570684 original size:25 final size:26
Alignment explanation
Indices: 11570629--11570684 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
11570619 AAAACTAACA
*
11570629 TTAAACCTTAAAACCAACTTCAAACC
1 TTAAACCCTAAAACCAACTTCAAACC
* * *
11570655 CTAAACCCT-AAACCAATTTCAAACT
1 TTAAACCCTAAAACCAACTTCAAACC
11570680 TTAAA
1 TTAAA
11570685 ACAAACCGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (26 bp):
TTAAACCCTAAAACCAACTTCAAACC
Found at i:11570718 original size:6 final size:6
Alignment explanation
Indices: 11570695--11570763 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
11570685 ACAAACCGTA
* * ** **
11570695 AACCCT AATCCT AA-CCT AACCCT AACCTT AAATCT AACCCT AAACCAA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT -AACCCT
*
11570743 AAACCT AAACCCT AACCCT AA
1 AACCCT -AACCCT AACCCT AA
11570764 AGTTAACTTT
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
5 5 0.11
6 33 0.70
7 9 0.19
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (6 bp):
AACCCT
Found at i:11570762 original size:13 final size:13
Alignment explanation
Indices: 11570695--11570764 Score: 58
Period size: 13 Copynumber: 5.7 Consensus size: 13
11570685 ACAAACCGTA
*
11570695 AACCCT-AATCCT
1 AACCCTAAACCCT
11570707 AA-CCT-AACCCT
1 AACCCTAAACCCT
* *
11570718 AACCTTAAA-TCT
1 AACCCTAAACCCT
**
11570730 AACCCTAAACCAA
1 AACCCTAAACCCT
*
11570743 AAACCTAAACCCT
1 AACCCTAAACCCT
11570756 AACCCTAAA
1 AACCCTAAA
11570765 GTTAACTTTA
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
11 10 0.23
12 14 0.32
13 20 0.45
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:11570777 original size:38 final size:38
Alignment explanation
Indices: 11570707--11570815 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
11570697 CCCTAATCCT
*
11570707 AACCT-AACCCTAACCTTAAATCTAACCCTAAACCAAA
1 AACCTAAACCCTAACCCTAAATCTAACCCTAAACCAAA
** *
11570744 AACCTAAACCCTAACCCTAAAGT-TAACTTTAAACCAGA
1 AACCTAAACCCTAACCCTAAA-TCTAACCCTAAACCAAA
* * *
11570782 AA-CTAAACTCTAAACCTTAAACCTAACCTCTAAA
1 AACCTAAACCCT-AACCCTAAATCTAACC-CTAAA
11570816 ACTAAATCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
37 13 0.22
38 40 0.69
39 5 0.09
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (38 bp):
AACCTAAACCCTAACCCTAAATCTAACCCTAAACCAAA
Found at i:11570803 original size:19 final size:20
Alignment explanation
Indices: 11570734--11570815 Score: 62
Period size: 19 Copynumber: 4.2 Consensus size: 20
11570724 AAATCTAACC
* *
11570734 CTAAACCAAAAACCTAAACC
1 CTAAACCATAAACCTAAACT
* * *
11570754 CT-AACCCTAAA-GTTAACT
1 CTAAACCATAAACCTAAACT
* *
11570772 TTAAACCAGAAA-CTAAACT
1 CTAAACCATAAACCTAAACT
* *
11570791 CTAAACCTTAAACCTAACCT
1 CTAAACCATAAACCTAAACT
11570811 CTAAA
1 CTAAA
11570816 ACTAAATCTG
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
18 5 0.11
19 28 0.61
20 13 0.28
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (20 bp):
CTAAACCATAAACCTAAACT
Found at i:11570857 original size:19 final size:18
Alignment explanation
Indices: 11570818--11570859 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11570808 CCTCTAAAAC
*
11570818 TAAATCTGATTCAAACCT
1 TAAATCTGATTAAAACCT
*
11570836 TAAATCTGATTGAAAACTT
1 TAAATCTGATT-AAAACCT
11570855 TAAAT
1 TAAAT
11570860 TGTCCAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (18 bp):
TAAATCTGATTAAAACCT
Found at i:11575443 original size:17 final size:18
Alignment explanation
Indices: 11575402--11575443 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
11575392 TGTCATTTGA
11575402 AGTTTTTAATTTCTTATG
1 AGTTTTTAATTTCTTATG
11575420 AGTTTTTAATTTCTTATG
1 AGTTTTTAATTTCTTATG
11575438 AGTTTT
1 AGTTTT
11575444 GGATTCATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.05, G:0.12, T:0.62
Consensus pattern (18 bp):
AGTTTTTAATTTCTTATG
Found at i:11576803 original size:10 final size:10
Alignment explanation
Indices: 11576790--11576860 Score: 76
Period size: 10 Copynumber: 7.2 Consensus size: 10
11576780 ATGCGAAAAT
*
11576790 AAAAAAATTA
1 AAAAAAATGA
11576800 AAAAAAATGA
1 AAAAAAATGA
11576810 AAGAAAAATG-
1 AA-AAAAATGA
11576820 -AAAAAATGA
1 AAAAAAATGA
11576829 AAAAAAATGA
1 AAAAAAATGA
* *
11576839 AAGAAAAAAGG
1 AA-AAAAATGA
11576850 AAAAAAA-GA
1 AAAAAAATGA
11576859 AA
1 AA
11576861 GGGAAAAGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.13
9 4 0.08
10 27 0.51
11 15 0.28
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:11576817 original size:29 final size:29
Alignment explanation
Indices: 11576785--11576846 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
11576775 AAACAATGCG
*
11576785 AAAATAAAAAAATTAAAAAAAATGAAAGA
1 AAAATAAAAAAATGAAAAAAAATGAAAGA
*
11576814 AAAATGAAAAAATGAAAAAAAATGAAAGA
1 AAAATAAAAAAATGAAAAAAAATGAAAGA
11576843 AAAA
1 AAAA
11576847 AGGAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.11
Consensus pattern (29 bp):
AAAATAAAAAAATGAAAAAAAATGAAAGA
Found at i:11576835 original size:18 final size:19
Alignment explanation
Indices: 11576801--11576840 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
11576791 AAAAAATTAA
11576801 AAAAAATGAAAGAAAAATG
1 AAAAAATGAAAGAAAAATG
11576820 AAAAAATGAAA-AAAAATG
1 AAAAAATGAAAGAAAAATG
11576838 AAA
1 AAA
11576841 GAAAAAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (19 bp):
AAAAAATGAAAGAAAAATG
Found at i:11576853 original size:20 final size:20
Alignment explanation
Indices: 11576801--11576873 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
11576791 AAAAAATTAA
* * *
11576801 AAAAAATGAAAGAAA-AATG
1 AAAAAAGGAAAAAAAGAAAG
*
11576820 AAAAAATGAAAAAAAATGAAAG
1 AAAAAA-GGAAAAAAA-GAAAG
11576842 AAAAAAGGAAAAAAAGAAAG
1 AAAAAAGGAAAAAAAGAAAG
**
11576862 GGAAAAGGAAAA
1 AAAAAAGGAAAA
11576874 GGAAAAGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.14
20 21 0.48
21 8 0.18
22 9 0.20
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.05
Consensus pattern (20 bp):
AAAAAAGGAAAAAAAGAAAG
Found at i:11576853 original size:29 final size:29
Alignment explanation
Indices: 11576791--11576860 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
11576781 TGCGAAAATA
* *
11576791 AAAAAATTAAAAAAAATGAAAGAAAAATG
1 AAAAAATGAAAAAAAATGAAAGAAAAAAG
11576820 AAAAAATGAAAAAAAATGAAAGAAAAAAGG
1 AAAAAATGAAAAAAAATGAAAGAAAAAA-G
*
11576850 AAAAAAAGAAA
1 AAAAAATGAAA
11576861 GGGAAAAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 26 0.70
30 11 0.30
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (29 bp):
AAAAAATGAAAAAAAATGAAAGAAAAAAG
Found at i:11576861 original size:13 final size:12
Alignment explanation
Indices: 11576828--11576879 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
11576818 TGAAAAAATG
*
11576828 AAAAAAAATGAA
1 AAAAAAAAGGAA
*
11576840 AGAAAAAAGGAA
1 AAAAAAAAGGAA
11576852 AAAAAGAAAGGGAA
1 AAAAA-AAA-GGAA
**
11576866 AAGGAAAAGGAA
1 AAAAAAAAGGAA
11576878 AA
1 AA
11576880 GAAATAAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 20 0.61
13 6 0.18
14 7 0.21
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (12 bp):
AAAAAAAAGGAA
Found at i:11578822 original size:34 final size:35
Alignment explanation
Indices: 11578778--11578944 Score: 108
Period size: 34 Copynumber: 4.9 Consensus size: 35
11578768 CCTCTTTATG
* * *
11578778 ACTCATTGAAATTTATAAATCTTTAACTCTTG-TA
1 ACTCTTTGAAATTTATGAATCTTTAACTCTTGCAA
* * *
11578812 ACTCTTTGAAATTTTTGAATCTTTGATTCTTGCAA
1 ACTCTTTGAAATTTATGAATCTTTAACTCTTGCAA
* ** ** *
11578847 AAT-TTTGAAATTTATGAATCCCTAGTTCTTGCGA
1 ACTCTTTGAAATTTATGAATCTTTAACTCTTGCAA
* * * ** *
11578881 A-TCATTGGAATTTGTGAATCTTTAGTTCTTGCGA
1 ACTCTTTGAAATTTATGAATCTTTAACTCTTGCAA
* * * *
11578915 A-TGTTTGAAAGTTGTGAATATTTAACTCTT
1 ACTCTTTGAAATTTATGAATCTTTAACTCTT
11578945 AGGAATCTTT
Statistics
Matches: 106, Mismatches: 25, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
33 1 0.01
34 102 0.96
35 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.45
Consensus pattern (35 bp):
ACTCTTTGAAATTTATGAATCTTTAACTCTTGCAA
Found at i:11578968 original size:18 final size:18
Alignment explanation
Indices: 11578929--11578989 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
11578919 TTGAAAGTTG
*
11578929 TGAATATTT-AACTCTTA
1 TGAATCTTTAAACTCTTA
* *
11578946 GGAATCTTTAAACACTTA
1 TGAATCTTTAAACTCTTA
*
11578964 TGAATC-TTAGAACTTTTA
1 TGAATCTTTA-AACTCTTA
11578982 TGAATCTT
1 TGAATCTT
11578990 GGAATTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 10 0.29
18 24 0.69
19 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (18 bp):
TGAATCTTTAAACTCTTA
Found at i:11579405 original size:42 final size:42
Alignment explanation
Indices: 11579299--11579405 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
11579289 TGAATTTAGA
* * *
11579299 AACTCTAGTTGTGGATCCAGAATCCTACAACTATGAATCTTT
1 AACTCTAGTTGTGAATCCAGAGTCCTACAACTATGAATCGTT
* * * ** ** *
11579341 AACTTTAATTATGTGTTTAGAGTGCTACAACTATGAATCGTT
1 AACTCTAGTTGTGAATCCAGAGTCCTACAACTATGAATCGTT
11579383 AACTCTAGTTGTGAATCCAGAGT
1 AACTCTAGTTGTGAATCCAGAGT
11579406 TCTGTAATTT
Statistics
Matches: 48, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (42 bp):
AACTCTAGTTGTGAATCCAGAGTCCTACAACTATGAATCGTT
Found at i:11580327 original size:34 final size:35
Alignment explanation
Indices: 11580257--11580332 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 35
11580247 AGTCTCCATT
11580257 ATCTTTATTTTTTGACTTGCAGTTTAGTATCTGTC
1 ATCTTTATTTTTTGACTTGCAGTTTAGTATCTGTC
** *
11580292 AT-TTTATTTTTTGACTTGTGGTTTAGTCT-TGGTC
1 ATCTTTATTTTTTGACTTGCAGTTTAGTATCT-GTC
11580326 ATCTTTA
1 ATCTTTA
11580333 ATTTCTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 1 0.03
34 29 0.81
35 6 0.17
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.57
Consensus pattern (35 bp):
ATCTTTATTTTTTGACTTGCAGTTTAGTATCTGTC
Found at i:11580456 original size:69 final size:70
Alignment explanation
Indices: 11580383--11580523 Score: 178
Period size: 70 Copynumber: 2.0 Consensus size: 70
11580373 TAACTAACAG
* * * *
11580383 TTAGTCTTGGTTATTTTTACTTTTTAACTTG-AGTTCAGT-TTCGGTCATCTTTACTTTCTGACT
1 TTAGTCTAGGTTATTTTTACTTTCTAACTTGTAGTTCAGTCCT-GGTCATCTTTACTTTCTGAAT
*
11580446 TGTGAT
65 TATGAT
* * * *
11580452 TTAGTCTAGGTTATTTTTCCTTTCTAACTTGTGGTTCAGTCCTGGTCATCTTTATTTTTTGAATT
1 TTAGTCTAGGTTATTTTTACTTTCTAACTTGTAGTTCAGTCCTGGTCATCTTTACTTTCTGAATT
11580517 ATGAT
66 ATGAT
11580522 TT
1 TT
11580524 GTCCCAGTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
69 28 0.46
70 32 0.52
71 1 0.02
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (70 bp):
TTAGTCTAGGTTATTTTTACTTTCTAACTTGTAGTTCAGTCCTGGTCATCTTTACTTTCTGAATT
ATGAT
Found at i:11580475 original size:35 final size:34
Alignment explanation
Indices: 11580383--11580484 Score: 105
Period size: 35 Copynumber: 3.0 Consensus size: 34
11580373 TAACTAACAG
* * *
11580383 TTAGTCTTGGTTATTTTTACTTTTTAACTTGAGT
1 TTAGTCTAGGTTATTTTTACTTTCTAACTTGTGT
* * * * * *
11580417 TCAGTTTCGGTCATCTTTACTTTCTGACTTGTGAT
1 TTAGTCTAGGTTATTTTTACTTTCTAACTTGTG-T
*
11580452 TTAGTCTAGGTTATTTTTCCTTTCTAACTTGTG
1 TTAGTCTAGGTTATTTTTACTTTCTAACTTGTG
11580485 GTTCAGTCCT
Statistics
Matches: 52, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
34 25 0.48
35 27 0.52
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.54
Consensus pattern (34 bp):
TTAGTCTAGGTTATTTTTACTTTCTAACTTGTGT
Found at i:11580664 original size:35 final size:35
Alignment explanation
Indices: 11580575--11580664 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
11580565 ATCATTTTTG
*
11580575 TTTCTAGACTTATGGTTCAGTTCTTGTTATCTTTAA
1 TTTCT-GACTTGTGGTTCAGTTCTTGTTATCTTTAA
* *** *
11580611 TTTCTAACTTGCCATTCAG-TCTTAGTTATCTTTAT
1 TTTCTGACTTGTGGTTCAGTTCTT-GTTATCTTTAA
*
11580646 TTTTTGACTTGTGGTTCAG
1 TTTCTGACTTGTGGTTCAG
11580665 CACCGATCAT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
34 4 0.10
35 33 0.79
36 5 0.12
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (35 bp):
TTTCTGACTTGTGGTTCAGTTCTTGTTATCTTTAA
Found at i:11582966 original size:20 final size:20
Alignment explanation
Indices: 11582923--11583072 Score: 72
Period size: 20 Copynumber: 7.3 Consensus size: 20
11582913 GTAACCCTAG
* **
11582923 ACCAAAACCCTAAACCTTGT
1 ACCAAAACCCCAAACCTTAA
11582943 ACCAAAACCCCAAACCTTAA
1 ACCAAAACCCCAAACCTTAA
* ** *
11582963 ACCAAAATCTTAAACCCTAA
1 ACCAAAACCCCAAACCTTAA
* * *
11582983 A--AGAAATCCCAACCCTAAA
1 ACCA-AAACCCCAAACCTTAA
*
11583002 ACCAAAACCCTAAACCCAAATCGTAA
1 ACCAAAACCCCAAA-CC---T--TAA
* * * *
11583028 ACCAAAGCTCCAAAGCGTAA
1 ACCAAAACCCCAAACCTTAA
*
11583048 ACCAAAACCCCAAAAC-TAA
1 ACCAAAACCCCAAACCTTAA
11583067 ACCAAA
1 ACCAAA
11583073 CCATACCCTA
Statistics
Matches: 97, Mismatches: 24, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
18 1 0.01
19 21 0.22
20 57 0.59
21 3 0.03
24 1 0.01
25 1 0.01
26 13 0.13
ACGTcount: A:0.50, C:0.34, G:0.04, T:0.12
Consensus pattern (20 bp):
ACCAAAACCCCAAACCTTAA
Found at i:11583497 original size:9 final size:9
Alignment explanation
Indices: 11583485--11583543 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
11583475 TAAAAATAAT
*
11583485 AATAGCAAC
1 AATAACAAC
11583494 AATAACAAC
1 AATAACAAC
**
11583503 AGCAACAAC
1 AATAACAAC
*
11583512 AACAACAAC
1 AATAACAAC
*
11583521 AACAACAAC
1 AATAACAAC
* *
11583530 AACAACAAT
1 AATAACAAC
11583539 AATAA
1 AATAA
11583544 TAAAAAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.64, C:0.25, G:0.03, T:0.07
Consensus pattern (9 bp):
AATAACAAC
Found at i:11583503 original size:3 final size:3
Alignment explanation
Indices: 11583490--11583537 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
11583480 ATAATAATAG
* *
11583490 CAA CAA TAA CAA CAG CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
11583538 TAATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.31, G:0.02, T:0.02
Consensus pattern (3 bp):
CAA
Found at i:11585010 original size:3 final size:3
Alignment explanation
Indices: 11585002--11585030 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11584992 TAATGTTATG
11585002 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11585031 GTTAAAAAAA
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:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11585107 original size:15 final size:15
Alignment explanation
Indices: 11585087--11585157 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
11585077 TTTTTGTAAT
*
11585087 AAAAAAGAAGAAGAGA
1 AAAAAAGAAGAA-AAA
11585103 AAAAAA-AAGAAAAA
1 AAAAAAGAAGAAAAA
11585117 AAAAAAGGAA-AAAAA
1 AAAAAA-GAAGAAAAA
* *
11585132 ACAAGCAACAAGAAAAA
1 A-AA-AAAGAAGAAAAA
11585149 AAAAAAGAA
1 AAAAAAGAA
11585158 AGAGATGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 8 0.18
15 15 0.33
16 14 0.31
17 8 0.18
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAGAAAAA
Found at i:11585321 original size:10 final size:10
Alignment explanation
Indices: 11585306--11585330 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11585296 TACCTAATAG
11585306 TCAAACTTGA
1 TCAAACTTGA
11585316 TCAAACTTGA
1 TCAAACTTGA
11585326 TCAAA
1 TCAAA
11585331 TAAAATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (10 bp):
TCAAACTTGA
Found at i:11585957 original size:143 final size:142
Alignment explanation
Indices: 11585530--11585986 Score: 412
Period size: 143 Copynumber: 3.2 Consensus size: 142
11585520 TTACATTTAA
* * * * *
11585530 ATATTATTTTATGATTTTTGATGCATCAAAAACCTTGATGCACCCTAAAGGTGTGAAATTACCAA
1 ATATTATTTTATGATTTTTGGTGCATTAAAAACTTTGATGCACCTTAAAGGTGTGAAATTACTAA
* * * * *
11585595 AATACCATTAGGGA-TATGTTCATAATTTGACC-TT-CATGAGATCGATTTTTCGTGAAACACTT
66 AATACCATTAAGGAGTATTTTTATAATTTGACCTTTCCA-AAG-TCGATTTTTCGCGAAACACTT
*
11585657 TAGATCATGGTTTT
129 TAGATCATGATTTT
* * * *
11585671 ATATTATTTCATGA-TTTTAGTGCATTAAAAA-TCTTGATTGCACCTTAAAAGATGTCAAATTAC
1 ATATTATTTTATGATTTTTGGTGCATTAAAAACT-TTGA-TGCACCTT-AAAGGTGTGAAATTAC
* * * * * * * * * **
11585734 TAAAATGCCCTTAA-AAGGTA-TTTTGTAATTTGA-CTTTCTCGAGGTGGGTTTTTCGCTAAAGG
63 TAAAATACCATTAAGGA-GTATTTTTATAATTTGACCTTTC-CAAAGTCGATTTTTCGCGAAACA
* *
11585796 CTCTAGATCATGTTTTT
126 CTTTAGATCATGATTTT
* *
11585813 ATATTATTTGATGATTTTTGGTGCATTAAAAACTTTAATCGCACCTTGAAAGGTGTGAAATTACT
1 ATATTATTTTATGATTTTTGGTGCATTAAAAACTTTGAT-GCACCTT-AAAGGTGTGAAATTACT
* * *
11585878 AAAATACCTTTAAGGAGTATTTTTATAATTTGACCTTTCCAAAGTTGATTTTTCACGAAA-ACTT
64 AAAATACCATTAAGGAGTATTTTTATAATTTGACCTTTCCAAAGTCGATTTTTCGCGAAACACTT
* * *
11585942 TCAGTTCCT-AATTT
129 T-AGATCATGATTTT
* *
11585956 ATATTATTTTAAGATTTTTGGTGCTTTAAAA
1 ATATTATTTTATGATTTTTGGTGCATTAAAA
11585987 TCATAAAAAT
Statistics
Matches: 249, Mismatches: 52, Indels: 28
0.76 0.16 0.09
Matches are distributed among these distances:
140 18 0.07
141 22 0.09
142 77 0.31
143 92 0.37
144 35 0.14
145 5 0.02
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (142 bp):
ATATTATTTTATGATTTTTGGTGCATTAAAAACTTTGATGCACCTTAAAGGTGTGAAATTACTAA
AATACCATTAAGGAGTATTTTTATAATTTGACCTTTCCAAAGTCGATTTTTCGCGAAACACTTTA
GATCATGATTTT
Found at i:11587412 original size:7 final size:7
Alignment explanation
Indices: 11587402--11587709 Score: 79
Period size: 7 Copynumber: 46.7 Consensus size: 7
11587392 CCCAAATACC
11587402 AAACCCT
1 AAACCCT
*
11587409 AAA-CCA
1 AAACCCT
*
11587415 AAACCTT
1 AAACCCT
*
11587422 AAAACCT
1 AAACCCT
*
11587429 AGA-CCT
1 AAACCCT
*
11587435 AAAACCCA
1 -AAACCCT
11587443 AAACCCT
1 AAACCCT
*
11587450 AAA-TC-
1 AAACCCT
*
11587455 AAACCTT
1 AAACCCT
*
11587462 AAACACT
1 AAACCCT
* *
11587469 AAAGCTT
1 AAACCCT
11587476 AAA-CCT
1 AAACCCT
*
11587482 AAACCTT
1 AAACCCT
11587489 AAACCCT
1 AAACCCT
*
11587496 -AATCCT
1 AAACCCT
11587502 AAA-CCT
1 AAACCCT
**
11587508 AAACATT
1 AAACCCT
11587515 AAACCCT
1 AAACCCT
*
11587522 -AATCCT
1 AAACCCT
11587528 AAA---T
1 AAACCCT
11587532 GAAACCCT
1 -AAACCCT
11587540 AAACCCT
1 AAACCCT
11587547 AAA---T
1 AAACCCT
11587551 GAAACCCT
1 -AAACCCT
*
11587559 AAGCCC-
1 AAACCCT
**
11587565 AAAAACT
1 AAACCCT
11587572 AAACCC-
1 AAACCCT
*
11587578 AAAACCT
1 AAACCCT
*
11587585 AAACCTT
1 AAACCCT
**
11587592 AAACTTT
1 AAACCCT
*
11587599 AAACCTT
1 AAACCCT
11587606 AAA--C-
1 AAACCCT
* *
11587610 AAATCAT
1 AAACCCT
11587617 AAACCCT
1 AAACCCT
*
11587624 AAAACC-
1 AAACCCT
*
11587630 AAACCTT
1 AAACCCT
**
11587637 AAA-TGT
1 AAACCCT
*
11587643 CAATCCCT
1 -AAACCCT
11587651 AAA-CCT
1 AAACCCT
*
11587657 AAACCCC
1 AAACCCT
*
11587664 AAACCCC
1 AAACCCT
11587671 AAACCCT
1 AAACCCT
* *
11587678 AGCACCAT
1 A-AACCCT
*
11587686 AAA-TCT
1 AAACCCT
*
11587692 TAA-CCT
1 AAACCCT
11587698 AAACCCT
1 AAACCCT
11587705 AAACC
1 AAACC
11587710 AACCTCTAAA
Statistics
Matches: 213, Mismatches: 60, Indels: 56
0.65 0.18 0.17
Matches are distributed among these distances:
4 5 0.02
5 9 0.04
6 56 0.26
7 133 0.62
8 10 0.05
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:11587412 original size:27 final size:26
Alignment explanation
Indices: 11587369--11587419 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
11587359 CTAAAACCTT
11587369 AAATCCAAACTCCAAACCAAAACCCC
1 AAATCCAAACTCCAAACCAAAACCCC
11587395 AAATACCAAAC-CCTAAACCAAAACC
1 AAAT-CCAAACTCC-AAACCAAAACC
11587420 TTAAAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.53, C:0.39, G:0.00, T:0.08
Consensus pattern (26 bp):
AAATCCAAACTCCAAACCAAAACCCC
Found at i:11587445 original size:20 final size:19
Alignment explanation
Indices: 11587400--11587457 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
11587390 ACCCCAAATA
*
11587400 CCAAACCCTAAACCAAAAC
1 CCAAAACCTAAACCAAAAC
* *
11587419 CTTAAAACCTAGACCTAAAAC
1 C-CAAAACCTAAACC-AAAAC
*
11587440 CCAAAACCCTAAATCAAA
1 CCAAAA-CCTAAACCAAA
11587458 CCTTAAACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 1 0.03
20 17 0.57
21 12 0.40
ACGTcount: A:0.52, C:0.34, G:0.02, T:0.12
Consensus pattern (19 bp):
CCAAAACCTAAACCAAAAC
Found at i:11587511 original size:26 final size:26
Alignment explanation
Indices: 11587423--11587548 Score: 114
Period size: 26 Copynumber: 4.8 Consensus size: 26
11587413 CAAAACCTTA
* * * *
11587423 AAACCTAGACCTAAAACCCAAAACCCT
1 AAACCTAAACCTTAAACCC-TAATCCT
* * * *
11587450 AAATC-AAACCTTAAACACTAAAGCTT
1 AAACCTAAACCTTAAACCCT-AATCCT
11587476 AAACCTAAACCTTAAACCCTAATCCT
1 AAACCTAAACCTTAAACCCTAATCCT
*
11587502 AAACCTAAACATTAAACCCTAATCCT
1 AAACCTAAACCTTAAACCCTAATCCT
*
11587528 AAA--TGAAACCCTAAACCCTAA
1 AAACCT-AAACCTTAAACCCTAA
11587549 ATGAAACCCT
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.01
25 14 0.17
26 50 0.61
27 17 0.21
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (26 bp):
AAACCTAAACCTTAAACCCTAATCCT
Found at i:11587522 original size:20 final size:20
Alignment explanation
Indices: 11587455--11587610 Score: 83
Period size: 20 Copynumber: 7.9 Consensus size: 20
11587445 ACCCTAAATC
*
11587455 AAACCTTAAACACTAAAGC-TT
1 AAACCCTAAAC-CTAAA-CATT
**
11587476 AAA-CCTAAACCTTAAACCCT
1 AAACCCTAAACC-TAAACATT
*
11587496 -AATCCTAAACCTAAACATT
1 AAACCCTAAACCTAAACATT
* *
11587515 AAACCCTAATCCT-AA-ATG
1 AAACCCTAAACCTAAACATT
*
11587533 AAACCCTAAACCCT-AA-ATG
1 AAACCCTAAA-CCTAAACATT
* * * *
11587552 AAACCCTAAGCCCAAAAACT
1 AAACCCTAAACCTAAACATT
* *
11587572 AAACCCAAAACCTAAACCTT
1 AAACCCTAAACCTAAACATT
**
11587592 AAACTTTAAACCTTAAACA
1 AAACCCTAAACC-TAAACA
11587611 AATCATAAAC
Statistics
Matches: 105, Mismatches: 22, Indels: 16
0.73 0.15 0.11
Matches are distributed among these distances:
18 13 0.12
19 31 0.30
20 53 0.50
21 8 0.08
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.20
Consensus pattern (20 bp):
AAACCCTAAACCTAAACATT
Found at i:11587538 original size:18 final size:18
Alignment explanation
Indices: 11587515--11587560 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 18
11587505 CCTAAACATT
*
11587515 AAACCCTAATCCTAAATG
1 AAACCCTAACCCTAAATG
11587533 AAACCCTAAACCCTAAATG
1 AAACCCT-AACCCTAAATG
11587552 AAACCCTAA
1 AAACCCTAA
11587561 GCCCAAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.17
Consensus pattern (18 bp):
AAACCCTAACCCTAAATG
Found at i:11593971 original size:144 final size:143
Alignment explanation
Indices: 11593757--11594163 Score: 471
Period size: 144 Copynumber: 2.8 Consensus size: 143
11593747 GGAAATTACA
* * * *
11593757 AAATTACTAAAATACCCTTTAGGGGTATTTTCATAATTTAGCCTTCCTAAGCTCAGATTTTCATG
1 AAATTACCAAAATACCCTTTAGGGGTATTTTCATAATTTGGCCTTCTTGAGCTCAGATTTTCATG
*
11593822 AAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAACCACAATAGTA-
66 AAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAACCACAATAGTAC
*
11593886 TCTCAGAAAGTGTG
131 CCT-AGAAAGTGTG
** * **
11593900 AAATTACCAAAATACCACTTTTA-GGGTATTTTTGTAATTTGGCCTTCTTGAGTTTGGATTTTCA
1 AAATTACCAAAATACC-C-TTTAGGGGTATTTTCATAATTTGGCCTTCTTGAGCTCAGATTTTCA
* * * * * * *
11593964 TGAAACTTTTCAGGTCTTACTTTAATAATATTTCATGATTTTTGGTGCATTTTGAATCACAGTGG
64 TGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCA-TTTAAACCACAATAG
* * *
11594029 TACCCTGGGAGGTGTG
128 TACCCTAGAAAGTGTG
* * * *
11594045 AAATTACGAAAGTACCCCATTTAGGGGTATTTTCATAATTTGACCTTCTTGAGCTCAAATTTTCA
1 AAATTACCAAAATA-CCC-TTTAGGGGTATTTTCATAATTTGGCCTTCTTGAGCTCAGATTTTCA
* * *
11594110 CGAAACTTTCCAAATCTTAATTTCATAATATTTCATGATATTTT-GTGC-TTTAAA
64 TGAAACTTTTCAGATCTTAATTTCATAATATTTCATGAT-TTTTGGTGCATTTAAA
11594164 ATCCCAAAAA
Statistics
Matches: 219, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
143 15 0.07
144 84 0.38
145 41 0.19
146 75 0.34
147 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (143 bp):
AAATTACCAAAATACCCTTTAGGGGTATTTTCATAATTTGGCCTTCTTGAGCTCAGATTTTCATG
AAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAACCACAATAGTAC
CCTAGAAAGTGTG
Found at i:11599692 original size:25 final size:25
Alignment explanation
Indices: 11599653--11599700 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11599643 AAATGGGTCA
**
11599653 ATTCCACATGGCCCTATTCTTGTTC
1 ATTCCACATAACCCTATTCTTGTTC
*
11599678 ATTCCACATAACCCTTTTCTTGT
1 ATTCCACATAACCCTATTCTTGT
11599701 AATAACTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.08, T:0.42
Consensus pattern (25 bp):
ATTCCACATAACCCTATTCTTGTTC
Found at i:11602428 original size:36 final size:36
Alignment explanation
Indices: 11602083--11602680 Score: 153
Period size: 36 Copynumber: 16.8 Consensus size: 36
11602073 TCCCAACCAT
* * *
11602083 TGGTGTTGTCTTGGTCATCTTTATTTTTTTGACCTG
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
* ** * *
11602119 TGGTGTTATCCCAATCATTTTTA-TTTTTAGACTTG
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
*** * * * *
11602154 CAATGTTGTCCTAATCATCTTTGTTTTTTTTA-TCG
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
* * ** * * ** * *
11602189 TTAGTGTTGTCTTGATTGTTTTTCTTTTTTCAACCTA
1 -TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
* * * *
11602226 TGGTATTGTCTTTG-TCATTTTTATTTTTTT-ATTTG
1 TGGTGTTGTC-CTGATCATCTTTATTTTTTTGACTTG
* * * * * * * * *
11602261 AGGTATTGTGCTGGTCATCTTTGTTTCTTCGACCTA
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
* * * * * * * *
11602297 CGGTGTTGTTCC-AACCATTTTTATTCTTTTCACCTA
1 TGGTGTTG-TCCTGATCATCTTTATTTTTTTGACTTG
* * * * * * *
11602333 TAGTATTGTCTTGGTCATCTTTGTATCTTTGACTTG
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
* * * *
11602369 TGATATTG-CCTTGGTTATCTTTATTTTTTTGACTTG
1 TGGTGTTGTCC-TGATCATCTTTATTTTTTTGACTTG
* *
11602405 TGGTGTTGTCCTGATCATTTTTA-TTTTTTGACTTA
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
** * ** * * *
11602440 TGGTGTTGTCCCAATCATCTTTGTTTCCTTAACCTA
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
*** * **
11602476 CAATGTTGTCCTGATCATTTTTA-TTTCCTGACTAT-
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACT-TG
* * * *
11602511 TGGTGTTGT-CTAGGTCATCTTTATTTTTCTAACCTG
1 TGGTGTTGTCCT-GATCATCTTTATTTTTTTGACTTG
** ** *
11602547 CAGTGTTGTCCCAATTATCTTTA-TTTTTTGACTTG
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
** * * *
11602582 TAATGTTGT-CTCGATCATTTTTA-TTTTTTGACCTA
1 TGGTGTTGTCCT-GATCATCTTTATTTTTTTGACTTG
** * * * ** *
11602617 CAGTGTTGTCCCGATCATATTTGTTTTCCTGACCAT-
1 TGGTGTTGTCCTGATCATCTTTATTTTTTTGA-CTTG
**
11602653 TGGTGTTACCCTGATCATCTTTATTTTT
1 TGGTGTTGTCCTGATCATCTTTATTTTT
11602681 CGACATATAG
Statistics
Matches: 392, Mismatches: 150, Indels: 40
0.67 0.26 0.07
Matches are distributed among these distances:
34 5 0.01
35 155 0.40
36 222 0.57
37 10 0.03
ACGTcount: A:0.15, C:0.17, G:0.16, T:0.53
Consensus pattern (36 bp):
TGGTGTTGTCCTGATCATCTTTATTTTTTTGACTTG
Found at i:11602444 original size:35 final size:35
Alignment explanation
Indices: 11602385--11602859 Score: 194
Period size: 35 Copynumber: 13.4 Consensus size: 35
11602375 TGCCTTGGTT
* * *
11602385 ATCTTTATTTTTTTGACTTGTGGTGTTGTCCTGATC
1 ATCTTTA-TTTTTTGACCTATAGTGTTGTCCTGATC
* * * **
11602421 ATTTTTATTTTTTGACTTATGGTGTTGTCCCAATC
1 ATCTTTATTTTTTGACCTATAGTGTTGTCCTGATC
* * * * *
11602456 ATCTTTGTTTCCTTAACCTACAATGTTGTCCTGATC
1 ATCTTTATTT-TTTGACCTATAGTGTTGTCCTGATC
* ** * *
11602492 ATTTTTATTTCCTGA-CTATTGGTGTTGT-CTAGGTC
1 ATCTTTATTTTTTGACCTA-TAGTGTTGTCCT-GATC
* ** ** *
11602527 ATCTTTATTTTTCTAACCTGCAGTGTTGTCCCAATT
1 ATCTTTATTTTT-TGACCTATAGTGTTGTCCTGATC
* * *
11602563 ATCTTTATTTTTTGACTTGTAATGTTGT-CTCGATC
1 ATCTTTATTTTTTGACCTATAGTGTTGTCCT-GATC
* * *
11602598 ATTTTTATTTTTTGACCTACAGTGTTGTCCCGATC
1 ATCTTTATTTTTTGACCTATAGTGTTGTCCTGATC
* * * * **
11602633 ATATTTGTTTTCCTGACC-ATTGGTGTTACCCTGATC
1 ATCTTTATTTT-TTGACCTA-TAGTGTTGTCCTGATC
* * **
11602669 ATCTTTATTTTTCGACATATAGCATTGTCCCT-ATC
1 ATCTTTATTTTTTGACCTATAGTGTTGT-CCTGATC
* * * * *
11602704 ATATTTGTTTTCCTGA-CTATTAGTGTTGTCCCGATT
1 ATCTTTATTTT-TTGACCTA-TAGTGTTGTCCTGATC
* * * * **
11602740 ATCTTTATTTTTTTGATCTGTAATGTT-ACCCCAGTC
1 ATCTTTA-TTTTTTGACCTATAGTGTTGTCCTGA-TC
** * * *
11602776 ATCTTTATTTTTTGACCTGCAATGTTGTCATGGTC
1 ATCTTTATTTTTTGACCTATAGTGTTGTCCTGATC
* * ** *
11602811 ATATTTCTTTTTCCA-ATCATTAGTGTT-TCCCTGATC
1 ATCTTTATTTTTTGACCT-A-TAGTGTTGT-CCTGATC
11602847 ATCTTTATTTTTT
1 ATCTTTATTTTTT
11602860 TGATCTACGG
Statistics
Matches: 316, Mismatches: 101, Indels: 44
0.69 0.22 0.10
Matches are distributed among these distances:
34 7 0.02
35 163 0.52
36 137 0.43
37 9 0.03
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (35 bp):
ATCTTTATTTTTTGACCTATAGTGTTGTCCTGATC
Found at i:11602460 original size:71 final size:71
Alignment explanation
Indices: 11602385--11602643 Score: 218
Period size: 71 Copynumber: 3.7 Consensus size: 71
11602375 TGCCTTGGTT
* * **
11602385 ATCTTTATTTTTTTGACTTGTGGTGTTGTCCTGATCATTTTTATTTTTTGACTTATGGTGTTGTC
1 ATCTTTATTTTTTTAACCTGCAGTGTTGTCCTGATCATTTTTATTTTTTGACTTATGGTGTTGTC
11602450 CCAATC
66 CCAATC
* ** * * **
11602456 ATCTTTGTTTCCTTAACCTACAATGTTGTCCTGATCATTTTTATTTCCTGAC-TATTGGTGTTGT
1 ATCTTTATTTTTTTAACCTGCAGTGTTGTCCTGATCATTTTTATTTTTTGACTTA-TGGTGTTGT
* *
11602520 -CTAGGTC
65 CCCA-ATC
* ** * * * **
11602527 ATCTTTATTTTTCTAACCTGCAGTGTTGTCCCAATTATCTTTATTTTTTGACTTGTAATGTTGTC
1 ATCTTTATTTTTTTAACCTGCAGTGTTGTCCTGATCATTTTTATTTTTTGACTTATGGTGTTGTC
* *
11602592 TCGATC
66 CCAATC
* * * * * *
11602598 ATTTTTA-TTTTTTGACCTACAGTGTTGTCCCGATCATATTTGTTTT
1 ATCTTTATTTTTTTAACCTGCAGTGTTGTCCTGATCATTTTTATTTT
11602644 CCTGACCATT
Statistics
Matches: 144, Mismatches: 40, Indels: 9
0.75 0.21 0.05
Matches are distributed among these distances:
70 36 0.25
71 107 0.74
72 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (71 bp):
ATCTTTATTTTTTTAACCTGCAGTGTTGTCCTGATCATTTTTATTTTTTGACTTATGGTGTTGTC
CCAATC
Found at i:11602669 original size:71 final size:71
Alignment explanation
Indices: 11602593--11602752 Score: 205
Period size: 71 Copynumber: 2.3 Consensus size: 71
11602583 AATGTTGTCT
* * ** *
11602593 CGATCATTTTTATTTTTTGACCTACAGTGTTGTCCCGATCATATTTGTTTTCCTGACCATTGGTG
1 CGATCATCTTTATTTTTTGACATACAGCATTGTCCCGATCATATTTGTTTTCCTGACCATTAGTG
11602658 TT-ACC
66 TTGACC
* * * *
11602663 CTGATCATCTTTATTTTTCGACATATAGCATTGTCCCTATCATATTTGTTTTCCTGACTATTAGT
1 C-GATCATCTTTATTTTTTGACATACAGCATTGTCCCGATCATATTTGTTTTCCTGACCATTAGT
*
11602728 GTTGTCC
65 GTTGACC
*
11602735 CGATTATCTTTATTTTTT
1 CGATCATCTTTATTTTTT
11602753 TGATCTGTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
70 1 0.01
71 72 0.95
72 3 0.04
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.49
Consensus pattern (71 bp):
CGATCATCTTTATTTTTTGACATACAGCATTGTCCCGATCATATTTGTTTTCCTGACCATTAGTG
TTGACC
Found at i:11602733 original size:36 final size:35
Alignment explanation
Indices: 11602618--11602735 Score: 114
Period size: 36 Copynumber: 3.3 Consensus size: 35
11602608 TTTGACCTAC
*
11602618 AGTGTTGTCCCGATCATATTTGTTTTCCTGACCATT
1 AGTGTTGTCCCTATCATATTTGTTTTCCTGA-CATT
* * * * *
11602654 GGTGTT-ACCCTGATCATCTTTATTTTTC-GACATAT
1 AGTGTTGTCCCT-ATCATATTTGTTTTCCTGACAT-T
**
11602689 AGCATTGTCCCTATCATATTTGTTTTCCTGACTATT
1 AGTGTTGTCCCTATCATATTTGTTTTCCTGAC-ATT
11602725 AGTGTTGTCCC
1 AGTGTTGTCCC
11602736 GATTATCTTT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
34 3 0.05
35 22 0.35
36 35 0.56
37 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (35 bp):
AGTGTTGTCCCTATCATATTTGTTTTCCTGACATT
Found at i:11602962 original size:36 final size:37
Alignment explanation
Indices: 11602809--11602966 Score: 112
Period size: 36 Copynumber: 4.4 Consensus size: 37
11602799 GTTGTCATGG
* * *
11602809 TCATATTTCTTTTTCCAATC-ATTAGTGTT-TCCCTGA
1 TCATATTTATTTTTCTAATCTATTGGTGTTGTCCC-GA
* * * * * * *
11602845 TCATCTTTATTTTTTTGATCTA-CGGTGTTATCCTGG
1 TCATATTTATTTTTCTAATCTATTGGTGTTGTCCCGA
* * * * *
11602881 TTATATTT-TTTTTCCTAA-CCATTGGTGCTGTCTCGG
1 TCATATTTATTTTT-CTAATCTATTGGTGTTGTCCCGA
*
11602917 TCATCTTTATTTTTCTAATCTA-TGGTGTTGTCCCGA
1 TCATATTTATTTTTCTAATCTATTGGTGTTGTCCCGA
11602953 TCATATTTATTTTT
1 TCATATTTATTTTT
11602967 TCAATTTGTA
Statistics
Matches: 90, Mismatches: 26, Indels: 12
0.70 0.20 0.09
Matches are distributed among these distances:
35 7 0.08
36 72 0.80
37 11 0.12
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (37 bp):
TCATATTTATTTTTCTAATCTATTGGTGTTGTCCCGA
Found at i:11603034 original size:19 final size:19
Alignment explanation
Indices: 11603010--11603107 Score: 83
Period size: 19 Copynumber: 4.9 Consensus size: 19
11603000 TTTTCAAAAT
11603010 AAAAAAAAATAAAAAAACAA
1 AAAAAAAAATAAAAAAAC-A
*
11603030 AAAAAAACAAAACAACAAAACA
1 AAAAAAA-AATA-AA-AAAACA
11603052 AAAAAAAAATTAAAAAAA-A
1 AAAAAAAAA-TAAAAAAACA
* **
11603071 ACAAAAAAA-GCAAAAACA
1 AAAAAAAAATAAAAAAACA
11603089 AACAAAAAAATGAAAAAAA
1 AA-AAAAAAAT-AAAAAAA
11603108 GGAATGAGGG
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
17 5 0.08
18 2 0.03
19 16 0.26
20 11 0.18
21 12 0.19
22 11 0.18
23 5 0.08
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.04
Consensus pattern (19 bp):
AAAAAAAAATAAAAAAACA
Found at i:11603097 original size:30 final size:28
Alignment explanation
Indices: 11603010--11603098 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
11603000 TTTTCAAAAT
*
11603010 AAAAAAAAATAAAAAAAC-AAAA-AAAA
1 AAAAAAAAACAAAAAAACAAAAACAAAA
* * **
11603036 ACAAAACAACAAAACAAA-AAAAA-AATT
1 AAAAAAAAACAAAA-AAACAAAAACAAAA
*
11603063 AAAAAAAAACAAAAAAAGCAAAAACAAAC
1 AAAAAAAAACAAAAAAA-CAAAAACAAAA
11603092 AAAAAAA
1 AAAAAAA
11603099 TGAAAAAAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
26 14 0.29
27 21 0.43
28 5 0.10
29 9 0.18
ACGTcount: A:0.85, C:0.10, G:0.01, T:0.03
Consensus pattern (28 bp):
AAAAAAAAACAAAAAAACAAAAACAAAA
Found at i:11603104 original size:18 final size:18
Alignment explanation
Indices: 11603005--11603107 Score: 109
Period size: 18 Copynumber: 5.7 Consensus size: 18
11602995 TTTATTTTTC
*
11603005 AAAATAAAAAAAAATAAA
1 AAAATAAAAAAAAACAAA
*
11603023 AAAACAAAAAAAAACAAA
1 AAAATAAAAAAAAACAAA
* * *
11603041 ACAACAAAACAAAA-AAA
1 AAAATAAAAAAAAACAAA
*
11603058 AAATTAAAAAAAAACAAA
1 AAAATAAAAAAAAACAAA
* *
11603076 AAAAGCAAAAACAAACAAA
1 AAAA-TAAAAAAAAACAAA
11603095 AAAATGAAAAAAA
1 AAAAT-AAAAAAA
11603108 GGAATGAGGG
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.19
18 34 0.49
19 22 0.32
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (18 bp):
AAAATAAAAAAAAACAAA
Found at i:11603107 original size:1 final size:1
Alignment explanation
Indices: 11603005--11603098 Score: 62
Period size: 1 Copynumber: 94.0 Consensus size: 1
11602995 TTTATTTTTC
* * * * * * * **
11603005 AAAATAAAAAAAAATAAAAAAACAAAAAAAAACAAAACAACAAAACAAAAAAAAAATTAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * *
11603070 AACAAAAAAAGCAAAAACAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11603099 TGAAAAAAAG
Statistics
Matches: 68, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.85, C:0.10, G:0.01, T:0.04
Consensus pattern (1 bp):
A
Found at i:11603783 original size:146 final size:144
Alignment explanation
Indices: 11603555--11603954 Score: 484
Period size: 146 Copynumber: 2.7 Consensus size: 144
11603545 TGGCATTTAG
* * * * *
11603555 GAAATTA-CAAAATTACTACCTTTAAGGGTATTTTTGTAGTTTGGCCTTCTCGAGCTTGGATTTT
1 GAAATTATCAAAA-TAC-CCCTTTAAGAGTATTTTCGTAATTTGGCCTTCTTGAGCTTGGATTTT
* *
11603619 TATGAAATTTTTGAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGT
64 CATGAAATTTTT-AGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGC
*
11603684 AGTACTCTAGAAAG-TGT
128 AGTAC-CCAGAAAGTTGT
* *
11603701 GAAATTATCAAAATACCCCTATTATGAGT-TTTTGCGTAATTTGGCCTTCTTGAGCTTGAATTTT
1 GAAATTATCAAAATACCCCT-TTAAGAGTATTTT-CGTAATTTGGCCTTCTTGAGCTTGGATTTT
* *
11603765 CATGAAACTTTTTAGATCTTACTTTTATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGC
64 CATGAAA-TTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGC
* *
11603830 AGTACCCCGAGAGTTGT
128 AGTACCCAGAAAGTTGT
* * * * *
11603847 GAAATTATGAAAATACCCCTTTAAGGGTATTTTTGTAATTTAGCCTT-TCTGATCTTGGATTTTC
1 GAAATTATCAAAATACCCCTTTAAGAGTATTTTCGTAATTTGGCCTTCT-TGAGCTTGGATTTTC
* * * *
11603911 ACGAAAAGTTTTAGACCTTAATTTCAAAATATTTCATGATTTTT
65 ATG-AAATTTTTAGATCTTAATTTCATAATATTTCATGATTTTT
11603955 CATGCTTTAA
Statistics
Matches: 219, Mismatches: 27, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
144 1 0.00
145 77 0.35
146 131 0.60
147 10 0.05
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (144 bp):
GAAATTATCAAAATACCCCTTTAAGAGTATTTTCGTAATTTGGCCTTCTTGAGCTTGGATTTTCA
TGAAATTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAGCAGT
ACCCAGAAAGTTGT
Found at i:11611972 original size:17 final size:18
Alignment explanation
Indices: 11611952--11611989 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11611942 TTGAAAAACG
11611952 AAAAAG-GAAGAAAGCAA
1 AAAAAGAGAAGAAAGCAA
* *
11611969 AAAAAGAGAGGCAAGCAA
1 AAAAAGAGAAGAAAGCAA
11611987 AAA
1 AAA
11611990 GAGAACAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAAGAAAGCAA
Found at i:11613774 original size:25 final size:26
Alignment explanation
Indices: 11613718--11613785 Score: 111
Period size: 25 Copynumber: 2.7 Consensus size: 26
11613708 CTAAAACCCC
*
11613718 AAACCCTAAATGAAACCTTAATGTTA
1 AAACCCTAAATGAAACCTTAAAGTTA
11613744 AAACCCTAAATGAAACC-TAAAGTTA
1 AAACCCTAAATGAAACCTTAAAGTTA
*
11613769 AAACCCTAAGTGAAACC
1 AAACCCTAAATGAAACC
11613786 CGAAACTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.57
26 17 0.43
ACGTcount: A:0.49, C:0.22, G:0.09, T:0.21
Consensus pattern (26 bp):
AAACCCTAAATGAAACCTTAAAGTTA
Found at i:11614166 original size:15 final size:16
Alignment explanation
Indices: 11614132--11614167 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11614122 CAATTCCTAA
*
11614132 ATTTGCATTTATTATC
1 ATTTGCATATATTATC
11614148 ATTTGCATATATT-TC
1 ATTTGCATATATTATC
11614163 ATTTG
1 ATTTG
11614168 TGGATTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (16 bp):
ATTTGCATATATTATC
Found at i:11615473 original size:30 final size:29
Alignment explanation
Indices: 11615427--11615507 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 29
11615417 GGACACTGTA
11615427 TGTTTTGTTA-TTTTATTATATTATATGGT
1 TGTTTTGTTATTTTTATTAT-TTATATGGT
* *
11615456 TGTTTTGTTATTTTTATTATTTATTTGTT
1 TGTTTTGTTATTTTTATTATTTATATGGT
*
11615485 TGGATTTT-TTATTTTTTTTATTT
1 T-G-TTTTGTTATTTTTATTATTT
11615508 GTATAGTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
29 18 0.39
30 24 0.52
31 4 0.09
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (29 bp):
TGTTTTGTTATTTTTATTATTTATATGGT
Found at i:11621023 original size:30 final size:32
Alignment explanation
Indices: 11620988--11621056 Score: 115
Period size: 30 Copynumber: 2.2 Consensus size: 32
11620978 AAATAATAAT
11620988 AATAAATTTTAATGG-AA-AAAAATATACAAA
1 AATAAATTTTAATGGAAAGAAAAATATACAAA
11621018 AATAAATTTTAATGGAAAGAAAAATATACAAA
1 AATAAATTTTAATGGAAAGAAAAATATACAAA
11621050 ACATAAA
1 A-ATAAA
11621057 AATTAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 15 0.42
31 2 0.06
32 14 0.39
33 5 0.14
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (32 bp):
AATAAATTTTAATGGAAAGAAAAATATACAAA
Found at i:11621063 original size:33 final size:30
Alignment explanation
Indices: 11620996--11621063 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 30
11620986 ATAATAAATT
**
11620996 TTAATGGAAAAAAATATACAAAAATAAATT
1 TTAATGGAAAAAAATATACAAAAATAAAAA
11621026 TTAATGGAAAGAAAAATATACAAAACATAAAAA
1 TTAATGG-AA-AAAAATATACAAAA-ATAAAAA
11621059 TTAAT
1 TTAAT
11621064 TTTTAGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 7 0.21
31 2 0.06
32 14 0.42
33 10 0.30
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.25
Consensus pattern (30 bp):
TTAATGGAAAAAAATATACAAAAATAAAAA
Found at i:11621256 original size:15 final size:15
Alignment explanation
Indices: 11621238--11621277 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
11621228 AATGAAACTT
11621238 TAAAATTGAAAACCC
1 TAAAATTGAAAACCC
*
11621253 TAAAATCG-AAACCC
1 TAAAATTGAAAACCC
11621267 TAAAATTGAAA
1 TAAAATTGAAA
11621278 TCCTAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.20
Consensus pattern (15 bp):
TAAAATTGAAAACCC
Found at i:11621264 original size:14 final size:14
Alignment explanation
Indices: 11621247--11621284 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
11621237 TTAAAATTGA
11621247 AAACCCTAAAATCG
1 AAACCCTAAAATCG
*
11621261 AAACCCTAAAATTG
1 AAACCCTAAAATCG
*
11621275 AAATCCTAAA
1 AAACCCTAAA
11621285 CAAAATGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.53, C:0.24, G:0.05, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAATCG
Found at i:11621330 original size:14 final size:12
Alignment explanation
Indices: 11621301--11621341 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
11621291 GCCAATGTTA
11621301 AAACCCTAAATG
1 AAACCCTAAATG
11621313 AAACCCTAAGATTG
1 AAACCCTAA-A-TG
*
11621327 AAACTCTAAATG
1 AAACCCTAAATG
11621339 AAA
1 AAA
11621342 ATCTCAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.54
13 2 0.08
14 10 0.38
ACGTcount: A:0.51, C:0.20, G:0.10, T:0.20
Consensus pattern (12 bp):
AAACCCTAAATG
Found at i:11621330 original size:26 final size:26
Alignment explanation
Indices: 11621224--11621341 Score: 94
Period size: 26 Copynumber: 4.4 Consensus size: 26
11621214 GTGTTAAAAG
**
11621224 CCTAAATGAAACTTTAAAATTGAAAAC
1 CCTAAATGAAACCCTAAAATTG-AAAC
*
11621251 CCTAAAATCGAAACCCTAAAATTGAAAT
1 CCT-AAAT-GAAACCCTAAAATTGAAAC
** * ** *
11621279 CCTAAACAAAATGCC-AATGTTAAAAC
1 CCTAAATGAAA-CCCTAAAATTGAAAC
*
11621305 CCTAAATGAAACCCTAAGATTGAAAC
1 CCTAAATGAAACCCTAAAATTGAAAC
*
11621331 TCTAAATGAAA
1 CCTAAATGAAA
11621342 ATCTCAAATC
Statistics
Matches: 70, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
25 2 0.03
26 37 0.53
27 8 0.11
28 10 0.14
29 13 0.19
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.22
Consensus pattern (26 bp):
CCTAAATGAAACCCTAAAATTGAAAC
Found at i:11621356 original size:52 final size:53
Alignment explanation
Indices: 11621246--11621364 Score: 138
Period size: 52 Copynumber: 2.2 Consensus size: 53
11621236 TTTAAAATTG
* *
11621246 AAAACCCTAAAATCGAAACCCTAAAATTGAAATCCTAAACAAAATGCCAATGTT
1 AAAACCCT-AAATCGAAACCCTAAAATTGAAATCCTAAACAAAATGCCAATATC
* *
11621300 AAAACCCTAAAT-GAAACCCTAAGATTGAAA-CTCTAAATGAAAAT-CTCAA-ATC
1 AAAACCCTAAATCGAAACCCTAAAATTGAAATC-CTAAA-CAAAATGC-CAATATC
11621352 AAAACCCTAAATC
1 AAAACCCTAAATC
11621365 CTAGGTGGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
51 1 0.02
52 36 0.63
53 12 0.21
54 8 0.14
ACGTcount: A:0.50, C:0.23, G:0.07, T:0.20
Consensus pattern (53 bp):
AAAACCCTAAATCGAAACCCTAAAATTGAAATCCTAAACAAAATGCCAATATC
Found at i:11627736 original size:62 final size:63
Alignment explanation
Indices: 11627667--11627792 Score: 182
Period size: 62 Copynumber: 2.0 Consensus size: 63
11627657 TTAAATGTCA
* * * * *
11627667 AATGCAATGCATTTTTTATTACATGTTCTATCTTTTTCCATT-TTTTTTATTTTCTTTGACAT
1 AATGCAATGCATTTTTCATTACATATTCTATCCTTTTCCATTCTCTTTGATTTTCTTTGACAT
* *
11627729 AATGCAATGCATTTTTCATTATATATTCTATCCTTTTCTATTCTCTTTGATTTTCTTTGACAT
1 AATGCAATGCATTTTTCATTACATATTCTATCCTTTTCCATTCTCTTTGATTTTCTTTGACAT
11627792 A
1 A
11627793 TCTTCTACTC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
62 37 0.66
63 19 0.34
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (63 bp):
AATGCAATGCATTTTTCATTACATATTCTATCCTTTTCCATTCTCTTTGATTTTCTTTGACAT
Found at i:11633686 original size:51 final size:50
Alignment explanation
Indices: 11633606--11634040 Score: 376
Period size: 51 Copynumber: 8.5 Consensus size: 50
11633596 ACTAACAGCT
* * *
11633606 TTTCAAAAGATGAGATATTTTTAAAGTTTCAAAGCCTTTGTTTAGGGGAGC
1 TTTCCAAAGATGAG-TTTTTTTAAAGTTTCAAAGCCTTTGTTTAGAGGAGC
* * * ** * * *
11633657 TTCCCAAACATGAGTTTTTTTACAGGTTTCAAAGTATCTGCTTAGAGGAGT
1 TTTCCAAAGATGAGTTTTTTTA-AAGTTTCAAAGCCTTTGTTTAGAGGAGC
* ** *
11633708 TTTCCAAAGATGAGGTATTTTTAAAGTTTCAAAGCCTCCGTTTAGAGGAGG
1 TTTCCAAAGATGA-GTTTTTTTAAAGTTTCAAAGCCTTTGTTTAGAGGAGC
* * *
11633759 TTTCCAAATATGA-TATATTTTTAAAGTTTCAAAGCCTTTGTTGAGTGGAGC
1 TTTCCAAAGATGAGT-T-TTTTTAAAGTTTCAAAGCCTTTGTTTAGAGGAGC
* ** * *
11633810 ATTCCAAAGATGAG-AATTTTAAAGTTTCAAAGCCTCTGTTTAAAGGAGC
1 TTTCCAAAGATGAGTTTTTTTAAAGTTTCAAAGCCTTTGTTTAGAGGAGC
*
11633859 TTTTCCAAAGATGAGATTTTTTTTTTCAAA-TTTCAAAGCCTTTGTTTAGAGAAGC
1 -TTTCCAAAGATGAG----TTTTTTT-AAAGTTTCAAAGCCTTTGTTTAGAGGAGC
* * * *
11633914 TTTCCAAATATGAGATATTTTTTTAAAGTTTCAAAGCCTTTATTTAGAGAAAC
1 TTTCCAAAGATGAG---TTTTTTTAAAGTTTCAAAGCCTTTGTTTAGAGGAGC
* * * *
11633967 TTTCCAAAGATGAG--ATTTTAAAGTTTTAAAGCGTTTGTTTAAAGGAGC
1 TTTCCAAAGATGAGTTTTTTTAAAGTTTCAAAGCCTTTGTTTAGAGGAGC
* * * *
11634015 TTTTTCAAAGATAAGATTTTTAAAAG
1 -TTTCCAAAGATGAGTTTTTTTAAAG
11634041 CATTTGTTTA
Statistics
Matches: 310, Mismatches: 58, Indels: 32
0.77 0.14 0.08
Matches are distributed among these distances:
48 27 0.09
49 42 0.14
50 20 0.06
51 124 0.40
52 11 0.04
53 44 0.14
54 13 0.04
55 26 0.08
56 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (50 bp):
TTTCCAAAGATGAGTTTTTTTAAAGTTTCAAAGCCTTTGTTTAGAGGAGC
Found at i:11634026 original size:156 final size:155
Alignment explanation
Indices: 11633606--11634035 Score: 442
Period size: 153 Copynumber: 2.8 Consensus size: 155
11633596 ACTAACAGCT
* * * * * * * * *
11633606 TTTCAAAAGATGAGATATTTTTAAAGTTTCAAAGCCTTTGTTTAGGGGAGC-TTCCCAAACATGA
1 TTTCCAAATATGATATATTTTTAAAGTTTCAAAGCCTTTATTGAGAGAAACATT-CCAAAGATGA
** * ** * * ** *
11633670 GTTTTTTTACAGGTTTCAAAGTATCTGCTTAGAGGAG-TTTTCCAAAGAT--GA-GGTATTTTTA
65 G-AATTTTA-AAGTTTCAAAGCCTCTGTTTAAAGGAGCTTTTCCAAAGATAAGATTTTTTTTTTA
* *
11633731 AAGTTTCAAAGCCTCCGTTTAGAGGAGG
128 AAGTTTCAAAGCCTCCGTTTAGAGAAGC
* * * *
11633759 TTTCCAAATATGATATATTTTTAAAGTTTCAAAGCCTTTGTTGAGTGGAGCATTCCAAAGATGAG
1 TTTCCAAATATGATATATTTTTAAAGTTTCAAAGCCTTTATTGAGAGAAACATTCCAAAGATGAG
*
11633824 AATTTTAAAGTTTCAAAGCCTCTGTTTAAAGGAGCTTTTCCAAAGATGAGATTTTTTTTTTCAAA
66 AATTTTAAAGTTTCAAAGCCTCTGTTTAAAGGAGCTTTTCCAAAGATAAGATTTTTTTTTT-AAA
**
11633889 -TTTCAAAGCCTTTGTTTAGAGAAGC
130 GTTTCAAAGCCTCCGTTTAGAGAAGC
* * *
11633914 TTTCCAAATATGAGATATTTTTTTAAAGTTTCAAAGCCTTTATTTAGAGAAACTTTCCAAAGATG
1 TTTCCAAATAT--GATATATTTTTAAAGTTTCAAAGCCTTTATTGAGAGAAACATTCCAAAGATG
* * * *
11633979 AG-ATTTTAAAGTTTTAAAGCGTTTGTTTAAAGGAGCTTTTTCAAAGATAAGATTTTT
64 AGAATTTTAAAGTTTCAAAGCCTCTGTTTAAAGGAGCTTTTCCAAAGATAAGATTTTT
11634036 AAAAGCATTT
Statistics
Matches: 237, Mismatches: 32, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
151 22 0.09
152 17 0.07
153 56 0.24
154 4 0.02
155 38 0.16
156 53 0.22
157 47 0.20
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (155 bp):
TTTCCAAATATGATATATTTTTAAAGTTTCAAAGCCTTTATTGAGAGAAACATTCCAAAGATGAG
AATTTTAAAGTTTCAAAGCCTCTGTTTAAAGGAGCTTTTCCAAAGATAAGATTTTTTTTTTAAAG
TTTCAAAGCCTCCGTTTAGAGAAGC
Found at i:11634050 original size:43 final size:43
Alignment explanation
Indices: 11633990--11634081 Score: 159
Period size: 43 Copynumber: 2.2 Consensus size: 43
11633980 GATTTTAAAG
* *
11633990 TTTT-AAAGCGTTTGTTTAAAGGAGCTTTTTCAAAGATAAGAT
1 TTTTAAAAGCATTTGTTTAAAAGAGCTTTTTCAAAGATAAGAT
11634032 TTTTAAAAGCATTTGTTTAAAAGAGCTTTTTCAAAGATAAGAT
1 TTTTAAAAGCATTTGTTTAAAAGAGCTTTTTCAAAGATAAGAT
11634075 TTTTAAA
1 TTTTAAA
11634082 GTTAAAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (43 bp):
TTTTAAAAGCATTTGTTTAAAAGAGCTTTTTCAAAGATAAGAT
Found at i:11634181 original size:49 final size:50
Alignment explanation
Indices: 11634083--11634199 Score: 121
Period size: 49 Copynumber: 2.3 Consensus size: 50
11634073 ATTTTTAAAG
* * * ***
11634083 TTAAAGTTTCAAAGCCTCTGTTTAGAAAATCTTTTCAAAGTTAAGAA-TT
1 TTAAAGTTTCAAAACCTCTGTTAAGAAAAGCTTTTCAAAAAGAAGAATTT
**
11634132 TTAAAGTTTCAAAACCTCTGTTAAAGAGGAGCTTTTCAAAAAGAA-AATTT
1 TTAAAGTTTCAAAACCTCTGTT-AAGAAAAGCTTTTCAAAAAGAAGAATTT
*
11634182 TTAAAGTTTTTAAAACCT
1 TTAAAG-TTTCAAAACCT
11634200 TTTATGGCCC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 23 0.41
50 23 0.41
51 10 0.18
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (50 bp):
TTAAAGTTTCAAAACCTCTGTTAAGAAAAGCTTTTCAAAAAGAAGAATTT
Found at i:11634886 original size:144 final size:143
Alignment explanation
Indices: 11634577--11635171 Score: 512
Period size: 144 Copynumber: 4.1 Consensus size: 143
11634567 GTTAAAAATA
* * * * * *
11634577 TTATGA-TTTTGATGCACTGAAAGCCATGATTGTACCTC-AGAAGGGA-TAAAATTATCAAAATG
1 TTATGATTTTTGATGCATTAAAAACCCTGATTGCACCTCGAG-A-GGATTTAAATTATCAAAATG
* * * * * * *
11634639 CCATTTA--TGTGTTTTCGTAATTTGACTTTCTCAAGGTCGGTTTTT-TGTGAAAACCTCTAGAT
64 CCATTTAGGAGTATTTTCATAATTTGACTTTCT-AAGATCGATTTTTCAGT-AAAAACTCTAGAT
* * *
11634701 CAT-ATATTAATATAATT
127 CATGAT-TAAACATTATT
* * * *
11634718 TCATGATTTTTGATGCATTGAAAACCTTGATTGCACCTCGGGAGGATTTAAATTATCAAAATGCC
1 TTATGATTTTTGATGCATTAAAAACCCTGATTGCACCTCGAGAGGATTTAAATTATCAAAATGCC
11634783 ATTTAGGAAG-ATTTTCATAATTTGACTTTCCTAAGATCGATTTTT-AGTAAAAAGCTCTAGATC
66 ATTTAGG-AGTATTTTCATAATTTGACTTT-CTAAGATCGATTTTTCAGTAAAAA-CTCTAGATC
11634846 ATGATTAAACATTATT
128 ATGATTAAACATTATT
* * * * * *
11634862 TTATGATTTTTAATACACTAAAAACCCTAATTGCACCTCAAGAGGATTCAAATTATCAAAATGCC
1 TTATGATTTTTGATGCATTAAAAACCCTGATTGCACCTCGAGAGGATTTAAATTATCAAAATGCC
* * * * ** * *
11634927 CTTTAGGAGTATTTTCGTTATTTGACCTTTCTGAGATCGACTTTTTGCAAAAAAAAACTCCAAAT
66 ATTTAGGAGTATTTTCATAATTTGA-CTTTCTAAGATCGA-TTTTT-C-AGTAAAAACTCTAGAT
11634992 CATGATTAAACATTATT
127 CATGATTAAACATTATT
* * * * * * * *
11635009 TTATGACTTTTGGTGTATTAAAAACCCCGATCGCACCTTGAAAGGGTTTAAATTATCAAAATGCC
1 TTATGATTTTTGATGCATTAAAAACCCTGATTGCACCTCGAGAGGATTTAAATTATCAAAATGCC
* * * * * *
11635074 CTTTAAGTGTATTTTCATAATTTAACATTCT-CGAT-GTTAGTTTTTCA-TGAAAAACTCTAGAT
66 ATTTAGGAGTATTTTCATAATTTGACTTTCTAAGATCG--A-TTTTTCAGT-AAAAACTCTAGAT
*
11635136 CATGATTAAATATTATT
127 CATGATTAAACATTATT
*
11635153 TTATGATTTTTGGTGCATT
1 TTATGATTTTTGATGCATT
11635172 GAAATCACAA
Statistics
Matches: 373, Mismatches: 63, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
141 8 0.02
142 51 0.14
143 7 0.02
144 178 0.48
145 18 0.05
146 11 0.03
147 94 0.25
148 6 0.02
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (143 bp):
TTATGATTTTTGATGCATTAAAAACCCTGATTGCACCTCGAGAGGATTTAAATTATCAAAATGCC
ATTTAGGAGTATTTTCATAATTTGACTTTCTAAGATCGATTTTTCAGTAAAAACTCTAGATCATG
ATTAAACATTATT
Done.