Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 157 of 168
Found at i:46824986 original size:7 final size:7
Alignment explanation
Indices: 46824974--46824998 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46824964 AGTCGATTGA
46824974 TATTTAG
1 TATTTAG
46824981 TATTTAG
1 TATTTAG
46824988 TATTTAG
1 TATTTAG
46824995 TATT
1 TATT
46824999 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:46825671 original size:18 final size:18
Alignment explanation
Indices: 46825650--46825684 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46825640 AGGTATGTTT
* *
46825650 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
46825668 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
46825685 TCATTTTCCG
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:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:46826241 original size:28 final size:28
Alignment explanation
Indices: 46826203--46826320 Score: 182
Period size: 28 Copynumber: 4.1 Consensus size: 28
46826193 AAAACCCTAA
46826203 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAAC
* * *
46826232 CCTTATCTAACCTAAATTAACTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
46826260 CCTAACCTAACCTAAATTAATTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
46826288 CCTAAACCTAACCTAAAATTAATTAAAAAC
1 CCT-AACCTAACCT-AAATTAATTAAAAAC
46826318 CCT
1 CCT
46826321 GAAGTCCTGG
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
28 49 0.60
29 14 0.17
30 18 0.22
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.25
Consensus pattern (28 bp):
CCTAACCTAACCTAAATTAATTAAAAAC
Found at i:46832064 original size:31 final size:31
Alignment explanation
Indices: 46832018--46832087 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
46832008 TTGAAAAATA
* * *
46832018 AAAACTCAGGAACTAATTTGAATATTAAAGC
1 AAAACTCAGGAACTAAATTAAAAATTAAAGC
* *
46832049 AAGACTCA-GATACTAAATTAAAAATTAAAGG
1 AAAACTCAGGA-ACTAAATTAAAAATTAAAGC
46832080 AAAACTCA
1 AAAACTCA
46832088 ATTACCAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (31 bp):
AAAACTCAGGAACTAAATTAAAAATTAAAGC
Found at i:46834597 original size:35 final size:35
Alignment explanation
Indices: 46834549--46834646 Score: 138
Period size: 28 Copynumber: 3.0 Consensus size: 35
46834539 GAGTTATGAA
*
46834549 ATAGGGGAGCAAGTTAACAAGATTTGAATTAGTTT
1 ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
46834584 ATAGGGGAACAAGTTAAC-A-A---G-A-TAGTTT
1 ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
46834612 ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
1 ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
46834647 TACTCATGCA
Statistics
Matches: 55, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
28 24 0.44
29 2 0.04
30 2 0.04
33 2 0.04
34 2 0.04
35 23 0.42
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (35 bp):
ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
Found at i:46878647 original size:45 final size:45
Alignment explanation
Indices: 46878583--46878681 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
46878573 ATTTTGACCT
*
46878583 TAATTATATAATTTGTTGACCAATAAAACCGGGTAAGTAGAAAAC
1 TAATTATATAATTTGTTGACCAATAAAACCGGCTAAGTAGAAAAC
*
46878628 TAATTATATTATTTGTTGACCAATAAAACCGGCTAAGTAGAAAAC
1 TAATTATATAATTTGTTGACCAATAAAACCGGCTAAGTAGAAAAC
46878673 TAAGTTATA
1 TAA-TTATA
46878682 AAATGAGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 46 0.90
46 5 0.10
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (45 bp):
TAATTATATAATTTGTTGACCAATAAAACCGGCTAAGTAGAAAAC
Found at i:46881279 original size:65 final size:65
Alignment explanation
Indices: 46881197--46881328 Score: 237
Period size: 65 Copynumber: 2.0 Consensus size: 65
46881187 GTCCCTTCCC
* *
46881197 AATCAATTAATGACATGTTAGCTAATTTTTACATGTCATTTACACTTCATTTAATTAGATTTTTT
1 AATCAATTAATGACATGTCAGCTAATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
*
46881262 AATCATTTAATGACATGTCAGCTAATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
1 AATCAATTAATGACATGTCAGCTAATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
46881327 AA
1 AA
46881329 CCATAAATCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (65 bp):
AATCAATTAATGACATGTCAGCTAATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
Found at i:46881302 original size:33 final size:33
Alignment explanation
Indices: 46881203--46881303 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
46881193 TCCCAATCAA
46881203 TTAATGACATGTTAGCTAATTTTTACATGTCAT
1 TTAATGACATGTTAGCTAATTTTTACATGTCAT
* **
46881236 TTACACT-TCAT-TTAATTAGATTTTTTA-A--TCAT
1 TTA-A-TGACATGTTAGCTA-A-TTTTTACATGTCAT
*
46881268 TTAATGACATGTCAGCTAATTTTTACATGTCAT
1 TTAATGACATGTTAGCTAATTTTTACATGTCAT
46881301 TTA
1 TTA
46881304 CACCTCATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
30 7 0.13
31 6 0.12
32 11 0.21
33 15 0.29
34 6 0.12
35 7 0.13
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.48
Consensus pattern (33 bp):
TTAATGACATGTTAGCTAATTTTTACATGTCAT
Found at i:46881519 original size:62 final size:60
Alignment explanation
Indices: 46881451--46881642 Score: 224
Period size: 62 Copynumber: 3.1 Consensus size: 60
46881441 CATGTCTCTG
* * * *
46881451 CCCTGCTGCTATTAAATTTTTTTCGGCAACTGCATTGCTACCTCTTCACGTCTCTTTGCGAC
1 CCCTGCTGCTATT-AATTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGC-AA
* * *
46881513 CCCTGCTGCTGTT-ATTTTTTTCGGCAACTGTTTTGCTGCCTTTTCACGTCTCTCTGCAA
1 CCCTGCTGCTATTAATTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAA
* ** * *
46881572 CCCTGCTGCTATTATTTTTTTTTCCAACAACTGCTTTGCTGCCTCTTCATGTCTCTCTACAA
1 CCCTGCTGCTATTA-ATTTTTTT-CGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAA
46881634 CTCCTGCTG
1 C-CCTGCTG
46881643 ATTTGCTTTG
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
59 13 0.12
60 39 0.35
61 7 0.06
62 45 0.41
63 7 0.06
ACGTcount: A:0.14, C:0.31, G:0.14, T:0.42
Consensus pattern (60 bp):
CCCTGCTGCTATTAATTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAA
Found at i:46886971 original size:4 final size:4
Alignment explanation
Indices: 46886962--46886989 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
46886952 TGTTGAAATT
46886962 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
46886990 GATCCAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:46895271 original size:20 final size:18
Alignment explanation
Indices: 46895234--46895273 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
46895224 GTAGATGACA
*
46895234 TATTTTTTATTTTTATTT
1 TATTTTTTATTTTAATTT
46895252 TATTTTTTATATATTAATTT
1 TATTTTTTAT-T-TTAATTT
46895272 TA
1 TA
46895274 ATATAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 1 0.05
20 8 0.42
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTTTTTATTTTAATTT
Found at i:46895314 original size:51 final size:52
Alignment explanation
Indices: 46895237--46895340 Score: 192
Period size: 51 Copynumber: 2.0 Consensus size: 52
46895227 GATGACATAT
*
46895237 TTTTTATTTTTATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
1 TTTTTATTTTAATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
46895289 TTTTT-TTTTAATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
1 TTTTTATTTTAATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
46895340 T
1 T
46895341 GTAAAGTAGA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 46 0.90
52 5 0.10
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (52 bp):
TTTTTATTTTAATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
Found at i:46899475 original size:24 final size:24
Alignment explanation
Indices: 46899447--46899503 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
46899437 TTATTTTTTA
*
46899447 AATATGATTTTGAATGAAAA-ATG
1 AATATAATTTTGAATGAAAAGATG
* *
46899470 ACATATAATTTTGTATTAAAAGATG
1 A-ATATAATTTTGAATGAAAAGATG
46899495 AATATAATT
1 AATATAATT
46899504 ATTTTAACAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 24 0.83
25 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (24 bp):
AATATAATTTTGAATGAAAAGATG
Found at i:46900780 original size:10 final size:9
Alignment explanation
Indices: 46900751--46900779 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
46900741 AAACAATAGC
46900751 TTCTTTTTT
1 TTCTTTTTT
46900760 TTCTTTTTT
1 TTCTTTTTT
46900769 TTCTTTTTT
1 TTCTTTTTT
46900778 TT
1 TT
46900780 TTTAATCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:46903974 original size:11 final size:11
Alignment explanation
Indices: 46903954--46904047 Score: 54
Period size: 12 Copynumber: 8.4 Consensus size: 11
46903944 CAAAAATTAA
46903954 AAAAAGTATTTT
1 AAAAA-TATTTT
46903966 AAAAATATTTT
1 AAAAATATTTT
46903977 --AAA-A-TTT
1 AAAAATATTTT
46903984 AAAAAGTATTTT
1 AAAAA-TATTTT
*
46903996 AAAAAAATTAAAATT
1 AAAAATATT----TT
* *
46904011 TAAAA-ATTTA
1 AAAAATATTTT
46904021 AAAAAGTATTTT
1 AAAAA-TATTTT
*
46904033 AAAAGTATTTT
1 AAAAATATTTT
46904044 AAAA
1 AAAA
46904048 TTAAAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
7 3 0.05
8 1 0.02
9 6 0.09
10 5 0.08
11 20 0.31
12 21 0.32
14 3 0.05
15 6 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:46903986 original size:18 final size:19
Alignment explanation
Indices: 46903963--46904036 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
46903953 AAAAAAGTAT
46903963 TTTAAAAA-TATTTTAAAA
1 TTTAAAAAGTATTTTAAAA
46903981 TTTAAAAAGTATTTTAAAA
1 TTTAAAAAGTATTTTAAAA
* *
46904000 ---AAATTAA-AATTTAAAAA
1 TTTAAA--AAGTATTTTAAAA
46904017 TTTAAAAAAGTATTTTAAAA
1 TTT-AAAAAGTATTTTAAAA
46904037 GTATTTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
16 3 0.07
17 8 0.18
18 10 0.23
19 12 0.27
20 8 0.18
21 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTAAAAAGTATTTTAAAA
Found at i:46904015 original size:28 final size:30
Alignment explanation
Indices: 46903954--46904016 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
46903944 CAAAAATTAA
*
46903954 AAAAAGTATTTTAAAAATATTTTAAAATTT
1 AAAAAGTATTTTAAAAATATATTAAAATTT
46903984 AAAAAGTATTTTAAAAA-A-ATTAAAATTT
1 AAAAAGTATTTTAAAAATATATTAAAATTT
46904012 AAAAA
1 AAAAA
46904017 TTTAAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 14 0.44
29 1 0.03
30 17 0.53
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAAAGTATTTTAAAAATATATTAAAATTT
Found at i:46904029 original size:67 final size:64
Alignment explanation
Indices: 46903926--46904055 Score: 197
Period size: 67 Copynumber: 2.0 Consensus size: 64
46903916 ACCAAAAATT
*
46903926 TATTTTAAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAG
1 TATTTTAAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAG
* * *
46903990 TATTTTAAAAAAATTAAAATTTAAAAATTTAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAA
1 TATTTT-AAAAAATTAAAA--CAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAA
46904055 A
63 A
46904056 ATAAAAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 6 0.10
65 12 0.20
67 41 0.69
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (64 bp):
TATTTTAAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAG
Found at i:46904062 original size:37 final size:36
Alignment explanation
Indices: 46903983--46904062 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 36
46903973 TTTTAAAATT
**
46903983 TAAAAAGTATTTTAAAAAAATTAAAATTTAAAAATT
1 TAAAAAGTATTTTAAAAAAATTAAAATTTAAAAAAA
**
46904019 TAAAAAAGTATTTTAAAAGTATTTTAAAA-TTAAAAAAA
1 T-AAAAAGTATTTTAAAA--AAATTAAAATTTAAAAAAA
46904057 TAAAAA
1 TAAAAA
46904063 ATAATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
36 1 0.03
37 21 0.57
38 8 0.22
39 7 0.19
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (36 bp):
TAAAAAGTATTTTAAAAAAATTAAAATTTAAAAAAA
Found at i:46904071 original size:48 final size:47
Alignment explanation
Indices: 46903980--46904072 Score: 107
Period size: 48 Copynumber: 1.9 Consensus size: 47
46903970 ATATTTTAAA
* * *
46903980 ATTTAAAAAGTATTTTAAAAAAATTAAAATTTAAAAATTTAAAAAAGT
1 ATTTAAAAAGTATTTTAAAAAAA-TAAAAATAAAAAATATAAAAAAGT
* *
46904028 ATTTTAAAAGTATTTTAAAATTAA-AAAAATAAAAAATAATAAAAA
1 ATTTAAAAAGTATTTTAAAA-AAATAAAAATAAAAAAT-ATAAAAA
46904073 TATTTATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
47 11 0.29
48 25 0.66
49 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (47 bp):
ATTTAAAAAGTATTTTAAAAAAATAAAAATAAAAAATATAAAAAAGT
Found at i:46912917 original size:21 final size:21
Alignment explanation
Indices: 46912892--46912978 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 21
46912882 TGGATTAGTA
46912892 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
*
46912913 TTTTGTATGAATATTGTAA-C
1 TTTTGTATGAATATTGTAATT
46912933 TTTT-TATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
46912957 AATTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTGTAAT
46912979 ATTGTAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
19 12 0.21
20 5 0.09
21 20 0.36
24 1 0.02
25 1 0.02
26 5 0.09
27 12 0.21
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:46912954 original size:8 final size:8
Alignment explanation
Indices: 46912941--46912991 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
46912931 ACTTTTTATG
46912941 AATATTGT
1 AATATTGT
*
46912949 AATATTAT
1 AATATTGT
*
46912957 AATTTTGTAT
1 AATATTG--T
46912967 GAATATTGT
1 -AATATTGT
46912976 AATATTGT
1 AATATTGT
46912984 AAT-TTGT
1 AATATTGT
46912991 A
1 A
46912992 TGAATATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
7 5 0.14
8 23 0.64
9 1 0.03
10 1 0.03
11 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (8 bp):
AATATTGT
Found at i:46912967 original size:27 final size:27
Alignment explanation
Indices: 46912901--46913004 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
46912891 ATTTTGTATG
46912901 AATATTGTAATTTT-T-TG--TA-TG-
1 AATATTGTAATTTTGTATGAATATTGT
46912922 AATATTGTAACTTTT-TATGAATATTGT
1 AATATTGTAA-TTTTGTATGAATATTGT
*
46912949 AATATTATAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
*
46912976 AATATTGTAA-TTTGTATGAATATTAT
1 AATATTGTAATTTTGTATGAATATTGT
46913002 AAT
1 AAT
46913005 GTCGGGATAT
Statistics
Matches: 73, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
21 10 0.14
22 5 0.07
23 2 0.03
25 2 0.03
26 24 0.33
27 30 0.41
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.52
Consensus pattern (27 bp):
AATATTGTAATTTTGTATGAATATTGT
Found at i:46912978 original size:19 final size:19
Alignment explanation
Indices: 46912818--46912951 Score: 89
Period size: 19 Copynumber: 6.7 Consensus size: 19
46912808 AGAGGCGCCA
46912818 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
* *
46912837 ATTAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
46912857 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
46912881 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
46912898 ATGAATATTGTAATTTTTTGT
1 ATGAATATTGTAA--TTTTGT
46912919 ATGAATATTGTAACTTTT-T
1 ATGAATATTGTAA-TTTTGT
46912938 ATGAATATTGTAAT
1 ATGAATATTGTAAT
46912952 ATTATAATTT
Statistics
Matches: 92, Mismatches: 10, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
17 5 0.05
18 5 0.05
19 32 0.35
20 17 0.18
21 20 0.22
22 5 0.05
23 4 0.04
24 3 0.03
25 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:46913233 original size:16 final size:16
Alignment explanation
Indices: 46913190--46913233 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
46913180 AAAATCAAAT
*
46913190 AAAATTTAATTATATA
1 AAAATTAAATTATATA
* *
46913206 AAAGTTACATTATATA
1 AAAATTAAATTATATA
46913222 AAAATTAAATTA
1 AAAATTAAATTA
46913234 GTTAACAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATTAAATTATATA
Found at i:46914865 original size:92 final size:89
Alignment explanation
Indices: 46914769--46914947 Score: 216
Period size: 92 Copynumber: 2.0 Consensus size: 89
46914759 ACCTCTCCTT
* * * *
46914769 TTTTTTGC-ACTCAATTGAGCACTTGAACTTTTAAAATGTATCAAAAAGGCCATCAAACTTCTTC
1 TTTTTT-CTACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCATCAAACTTCTTC
*
46914833 AAAGAAAAAGCAATTAAGCCCTTGCTTA
65 --A-AAAAAGCAATTAAGCCCCTGCTTA
* * * * * *
46914861 TTTTTTCTACTCAATTGGGTACTTGAACTTTCAACATGCATAAAAAAGACCCTCAAATTTTTTCA
1 TTTTTTCTACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCATCAAACTTCTTCA
46914926 AAAAAGCAATTAAGCCCCTGCT
66 AAAAAGCAATTAAGCCCCTGCT
46914948 CTTATTAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
89 21 0.28
90 1 0.01
91 1 0.01
92 52 0.69
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (89 bp):
TTTTTTCTACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCATCAAACTTCTTCA
AAAAAGCAATTAAGCCCCTGCTTA
Found at i:46915009 original size:19 final size:19
Alignment explanation
Indices: 46914982--46915023 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
46914972 TAATAAATAA
46914982 TAAACTTT-AGAAAAATTAT
1 TAAACTTTAAGAAAAATT-T
* *
46915001 TAAATTTTAATAAAAATTT
1 TAAACTTTAAGAAAAATTT
46915020 TAAA
1 TAAA
46915024 AAATTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAACTTTAAGAAAAATTT
Found at i:46915034 original size:29 final size:32
Alignment explanation
Indices: 46914977--46915037 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
46914967 AAATATAATA
*
46914977 AATAATAAACTTTAGAAAAATTATTAAATTTT
1 AATAATAAACTTTAGAAAAATTATGAAATTTT
*
46915009 AATAA-AAATTTTA-AAAAATTA-GAAATTTT
1 AATAATAAACTTTAGAAAAATTATGAAATTTT
46915038 TTTATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 7 0.26
30 8 0.30
31 7 0.26
32 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (32 bp):
AATAATAAACTTTAGAAAAATTATGAAATTTT
Found at i:46916241 original size:51 final size:51
Alignment explanation
Indices: 46916160--46916475 Score: 542
Period size: 51 Copynumber: 6.2 Consensus size: 51
46916150 ACATATGATG
* *
46916160 ACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
* * * *
46916211 ACTTGTCACTTGTTACTGATCAGATAAGTGTAACTGAAGCTATCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
*
46916262 ACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
46916313 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
*
46916364 ACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
* *
46916415 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
46916466 ACTTGTCACT
1 ACTTGTCACT
46916476 GTTCAGAAGT
Statistics
Matches: 249, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 249 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (51 bp):
ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
Found at i:46922614 original size:51 final size:51
Alignment explanation
Indices: 46922558--46922875 Score: 501
Period size: 51 Copynumber: 6.2 Consensus size: 51
46922548 TTACGTATGG
* * * *
46922558 TCACTTATCACTTGTCCCTGATCAGATAAGTATAGCTAAAGCTACCAGTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* *
46922609 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* *
46922660 TCACTTGCCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
*
46922711 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACATA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* * * *
46922762 TCACTTGCCACTTGTCACTGATAAGATAAGTGTAGCAAAAGCTACCACTGA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* *
46922813 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
46922864 TCACTTGTCACT
1 TCACTTGTCACT
46922876 GATCAGAAGT
Statistics
Matches: 243, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 243 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
Found at i:46923807 original size:26 final size:26
Alignment explanation
Indices: 46923778--46923832 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
46923768 TTTTATAAAA
*
46923778 TTTTAT-ATTTTCTAGAT-TTTGTATTT
1 TTTTATAATTTT-TA-ATATTTGAATTT
*
46923804 TTTTCTAATTTTTAATATTTGAATTT
1 TTTTATAATTTTTAATATTTGAATTT
46923830 TTT
1 TTT
46923833 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 2 0.08
26 18 0.72
27 5 0.20
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.69
Consensus pattern (26 bp):
TTTTATAATTTTTAATATTTGAATTT
Found at i:46928564 original size:18 final size:19
Alignment explanation
Indices: 46928520--46928566 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
46928510 CAAATTTTTA
*
46928520 ACTTTTTTTTAAATATTTG
1 ACTTATTTTTAAATATTTG
* * *
46928539 ACTAATTTTTAATTGTTT-
1 ACTTATTTTTAAATATTTG
46928557 ACTTATTTTT
1 ACTTATTTTT
46928567 GGATCATTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (19 bp):
ACTTATTTTTAAATATTTG
Found at i:46933291 original size:3 final size:3
Alignment explanation
Indices: 46933283--46933307 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46933273 ACTCACTTTT
46933283 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
46933308 ACAGTGAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46935655 original size:16 final size:16
Alignment explanation
Indices: 46935634--46935666 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46935624 TAAGGGCATT
*
46935634 AAATGTATTTTTAACA
1 AAATGTACTTTTAACA
46935650 AAATGTACTTTTAACA
1 AAATGTACTTTTAACA
46935666 A
1 A
46935667 TTAAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (16 bp):
AAATGTACTTTTAACA
Found at i:46941911 original size:3 final size:3
Alignment explanation
Indices: 46941905--46941939 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46941895 TGTTAAATAG
46941905 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
46941940 TTTGTTACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:46942471 original size:21 final size:21
Alignment explanation
Indices: 46942441--46942484 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
46942431 AATTAAGTAT
46942441 TTGGTCTAAGTAAACTTAGAA
1 TTGGTCTAAGTAAACTTAGAA
* * *
46942462 TTGGTTTAAGTCAACTTCGAA
1 TTGGTCTAAGTAAACTTAGAA
46942483 TT
1 TT
46942485 TAACCAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
TTGGTCTAAGTAAACTTAGAA
Found at i:46945040 original size:18 final size:18
Alignment explanation
Indices: 46945017--46945059 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
46945007 TTTTTTTAAA
* *
46945017 AATTTTATAAGTATTTTG
1 AATTTTAAAAATATTTTG
46945035 AATTTTTAAAAATATTTTG
1 AA-TTTTAAAAATATTTTG
*
46945054 GATTTT
1 AATTTT
46945060 TTGTTGAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (18 bp):
AATTTTAAAAATATTTTG
Found at i:46946580 original size:46 final size:46
Alignment explanation
Indices: 46946505--46946712 Score: 332
Period size: 46 Copynumber: 4.6 Consensus size: 46
46946495 TACATATGAT
* * * *
46946505 CACTTATCAC-TTGTC-CCTGATCAAATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
*
46946549 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
46946595 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
*
46946641 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
*
46946687 CACTTATCACTTTGCCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
46946713 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
44 10 0.06
45 13 0.08
46 132 0.85
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
Found at i:46948763 original size:21 final size:21
Alignment explanation
Indices: 46948739--46948780 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46948729 CTTTTTGTTC
*
46948739 AATTAATTATCGGAACTTTAA
1 AATTAATTAACGGAACTTTAA
**
46948760 AATTTCTTAACGGAACTTTAA
1 AATTAATTAACGGAACTTTAA
46948781 TTCTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGGAACTTTAA
Found at i:46950330 original size:45 final size:46
Alignment explanation
Indices: 46950237--46950331 Score: 124
Period size: 44 Copynumber: 2.1 Consensus size: 46
46950227 TAAATTTTAA
* *
46950237 AAAATTATAAAAATATATAAAATTTATTTTTAAAATTAAAGATCATT
1 AAAATTATAAAAATATATAAAA-TTATTTTTAAAATTAAAAATAATT
46950284 AAAATT-TAAAAAGTATA-AAAA-TATTTTTAAAATTAAAAAATAATT
1 AAAATTATAAAAA-TATATAAAATTATTTTTAAAATT-AAAAATAATT
46950329 AAA
1 AAA
46950332 TGCTTACATG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
44 13 0.30
45 11 0.25
46 10 0.23
47 10 0.23
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (46 bp):
AAAATTATAAAAATATATAAAATTATTTTTAAAATTAAAAATAATT
Found at i:46956722 original size:29 final size:29
Alignment explanation
Indices: 46956690--46956754 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
46956680 TTAATCTTTT
*
46956690 TACTTT-AATTTGATGAATTTTAGTCCTTA
1 TACTTTGAA-TTGATCAATTTTAGTCCTTA
*
46956719 TACTTTTGAATTGGTCAATTTTAGTCCTTA
1 TAC-TTTGAATTGATCAATTTTAGTCCTTA
46956749 TACTTT
1 TACTTT
46956755 TTGAATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 6 0.19
30 24 0.75
31 2 0.06
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (29 bp):
TACTTTGAATTGATCAATTTTAGTCCTTA
Found at i:46971156 original size:34 final size:35
Alignment explanation
Indices: 46971112--46971178 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
46971102 CAGTAAAATA
*
46971112 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
46971146 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
46971179 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:46972527 original size:27 final size:28
Alignment explanation
Indices: 46972472--46972536 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 28
46972462 ATAAAAAATA
*
46972472 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
46972500 ACCAAAATATTATAA-ATTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
46972527 ACCAAAATAT
1 ACCAAAATAT
46972537 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 21 0.58
28 15 0.42
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAACATTTTTTTATTT
Found at i:46973479 original size:20 final size:20
Alignment explanation
Indices: 46973454--46973554 Score: 93
Period size: 20 Copynumber: 5.2 Consensus size: 20
46973444 ATTTAATTTT
46973454 TTAAAATTAAAATAGAGTTA
1 TTAAAATTAAAATAGAGTTA
* * *
46973474 TTAAAATGAGAATAG-TTTA
1 TTAAAATTAAAATAGAGTTA
46973493 TT-AAATTAAAAATAGAGTTA
1 TTAAAATT-AAAATAGAGTTA
* * **
46973513 TTAAAATGAGAATA-TTTTA
1 TTAAAATTAAAATAGAGTTA
46973532 TT-AAATTAAAAATAGAGTTA
1 TTAAAATT-AAAATAGAGTTA
46973552 TTA
1 TTA
46973555 CTTAATTAGA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 8 0.13
19 21 0.34
20 28 0.46
21 4 0.07
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (20 bp):
TTAAAATTAAAATAGAGTTA
Found at i:46973495 original size:19 final size:19
Alignment explanation
Indices: 46973471--46973536 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
46973461 TAAAATAGAG
46973471 TTATTAAAATGAGAATAGT
1 TTATTAAAATGAGAATAGT
* * * *
46973490 TTATTAAATTAAAAATAGAG
1 TTATTAAAATGAGAATAG-T
*
46973510 TTATTAAAATGAGAATATT
1 TTATTAAAATGAGAATAGT
46973529 TTATTAAA
1 TTATTAAA
46973537 TTAAAAATAG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 23 0.62
20 14 0.38
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
TTATTAAAATGAGAATAGT
Found at i:46973508 original size:39 final size:39
Alignment explanation
Indices: 46973457--46973554 Score: 180
Period size: 39 Copynumber: 2.5 Consensus size: 39
46973447 TAATTTTTTA
46973457 AAATT-AAAATAGAGTTATTAAAATGAGAATAGTTTATT
1 AAATTAAAAATAGAGTTATTAAAATGAGAATAGTTTATT
*
46973495 AAATTAAAAATAGAGTTATTAAAATGAGAATATTTTATT
1 AAATTAAAAATAGAGTTATTAAAATGAGAATAGTTTATT
46973534 AAATTAAAAATAGAGTTATTA
1 AAATTAAAAATAGAGTTATTA
46973555 CTTAATTAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
38 5 0.09
39 53 0.91
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (39 bp):
AAATTAAAAATAGAGTTATTAAAATGAGAATAGTTTATT
Found at i:46973545 original size:19 final size:19
Alignment explanation
Indices: 46973447--46973545 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 19
46973437 TATTTTAATT
*
46973447 TAATTTTTTAAAATT-AAAA
1 TAATTTATT-AAATTAAAAA
* * * *
46973466 TAGAGTTATTAAAATGAGAA
1 TA-ATTTATTAAATTAAAAA
*
46973486 TAGTTTATTAAATTAAAAA
1 TAATTTATTAAATTAAAAA
* * * *
46973505 TAGAGTTATTAAAATGAGAA
1 TA-ATTTATTAAATTAAAAA
*
46973525 TATTTTATTAAATTAAAAA
1 TAATTTATTAAATTAAAAA
46973544 TA
1 TA
46973546 GAGTTATTAC
Statistics
Matches: 58, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
19 34 0.59
20 24 0.41
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
TAATTTATTAAATTAAAAA
Found at i:46973669 original size:18 final size:18
Alignment explanation
Indices: 46973646--46973709 Score: 92
Period size: 18 Copynumber: 3.5 Consensus size: 18
46973636 TAAAATAGAG
46973646 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
* * *
46973664 TTATTAAATTAAAATAGAG
1 TTATTAAATGAGAATAG-T
46973683 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
46973701 TTATTAAAT
1 TTATTAAAT
46973710 TAAAATAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 24 0.62
19 15 0.38
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTATTAAATGAGAATAGT
Found at i:46973674 original size:37 final size:37
Alignment explanation
Indices: 46973630--46973725 Score: 192
Period size: 37 Copynumber: 2.6 Consensus size: 37
46973620 ACTTAATTTT
46973630 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
46973667 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
46973704 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
46973726 CTTAATTAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:46973730 original size:18 final size:19
Alignment explanation
Indices: 46973630--46973725 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
46973620 ACTTAATTTT
46973630 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
46973649 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
46973667 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
46973686 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
46973704 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
46973723 TTA
1 TTA
46973726 CTTAATTAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.48
19 33 0.52
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:46973910 original size:27 final size:26
Alignment explanation
Indices: 46973872--46973948 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 26
46973862 CATTTTAGTC
*
46973872 CTTTCGCACCATTGGTGCTTCCAACCT
1 CTTTGGCACCATTGGTGC-TCCAACCT
* *
46973899 CTTTGGCACCATTGGTGCGCCAATCT
1 CTTTGGCACCATTGGTGCTCCAACCT
* *
46973925 CATTGGCACCTTTGGTGCCTCCAA
1 CTTTGGCACCATTGGTG-CTCCAA
46973949 TGTGATTGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.16, C:0.34, G:0.19, T:0.31
Consensus pattern (26 bp):
CTTTGGCACCATTGGTGCTCCAACCT
Found at i:46973930 original size:26 final size:27
Alignment explanation
Indices: 46973877--46973942 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 27
46973867 TAGTCCTTTC
* *
46973877 GCACCATTGGTGCTTCCAACCTCTTTG
1 GCACCATTGGTGCTGCCAACCTCATTG
*
46973904 GCACCATTGGTGC-GCCAATCTCATTG
1 GCACCATTGGTGCTGCCAACCTCATTG
*
46973930 GCACCTTTGGTGC
1 GCACCATTGGTGC
46973943 CTCCAATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.30
Consensus pattern (27 bp):
GCACCATTGGTGCTGCCAACCTCATTG
Found at i:46974049 original size:25 final size:27
Alignment explanation
Indices: 46973999--46974054 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
46973989 TTTTTTTGGT
46973999 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAATTTATA
46974026 ATATTTTGGTAAAT-AAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAATTTATA
46974051 ATAT
1 ATAT
46974055 CTTGATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 9 0.31
26 6 0.21
27 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATTTATA
Found at i:46981854 original size:32 final size:29
Alignment explanation
Indices: 46981817--46981921 Score: 77
Period size: 32 Copynumber: 3.4 Consensus size: 29
46981807 ATTTTTTTAA
46981817 ATGTATACAATTGAATCAAAATCAAAAGCTTT
1 ATGTATACAATTGAA-CAAAATC-AAAG-TTT
* * *
46981849 ATGTATGC-ATTCGAACCACAATCGAAATTTT
1 ATGTATACAATT-GAA-CAAAATC-AAAGTTT
* * *
46981880 ATGCATATAATTGTACAAAATCAAAGTTT
1 ATGTATACAATTGAACAAAATCAAAGTTT
* *
46981909 ATGTGTATAATTG
1 ATGTATACAATTG
46981922 CACATTACAT
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
29 17 0.29
30 6 0.10
31 13 0.22
32 22 0.38
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (29 bp):
ATGTATACAATTGAACAAAATCAAAGTTT
Found at i:46983403 original size:14 final size:15
Alignment explanation
Indices: 46983384--46983416 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46983374 TTAATTGATT
46983384 TTTAATTAAAT-AAA
1 TTTAATTAAATGAAA
*
46983398 TTTAATTAATTGAAA
1 TTTAATTAAATGAAA
46983413 TTTA
1 TTTA
46983417 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTTAATTAAATGAAA
Found at i:46983415 original size:15 final size:15
Alignment explanation
Indices: 46983372--46983416 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
46983362 CAGCCAAGTA
**
46983372 AATTAATTGATTTTT
1 AATTAATTGAAATTT
*
46983387 AATTAAAT-AAATTT
1 AATTAATTGAAATTT
46983401 AATTAATTGAAATTT
1 AATTAATTGAAATTT
46983416 A
1 A
46983417 TAAATTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
AATTAATTGAAATTT
Found at i:46986621 original size:16 final size:16
Alignment explanation
Indices: 46986600--46986645 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
46986590 TGCAACAACC
*
46986600 AAGAAATATTATAAAG
1 AAGAAATATTAAAAAG
*
46986616 AAGAAAAAGTTAAAAAG
1 AAGAAATA-TTAAAAAG
*
46986633 CAGAAATATTAAA
1 AAGAAATATTAAA
46986646 CTAACCAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (16 bp):
AAGAAATATTAAAAAG
Found at i:46999443 original size:23 final size:24
Alignment explanation
Indices: 46999405--46999449 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
46999395 CATTTTTCAC
*
46999405 TCATTTATATTCTT-AATATCATA
1 TCATTTAAATTCTTAAATATCATA
*
46999428 TCATTTAAATTGTTAAATATCA
1 TCATTTAAATTCTTAAATATCA
46999450 AAAATCAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (24 bp):
TCATTTAAATTCTTAAATATCATA
Found at i:47000255 original size:13 final size:13
Alignment explanation
Indices: 47000237--47000261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47000227 CATTTAAATT
47000237 TTTTTATAATTTA
1 TTTTTATAATTTA
47000250 TTTTTATAATTT
1 TTTTTATAATTT
47000262 TTAATAATTT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATAATTTA
Found at i:47009316 original size:28 final size:28
Alignment explanation
Indices: 47009260--47009316 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
47009250 GCATAAGTGT
*
47009260 ATATATATTATAAATATTTAATGTGAAA
1 ATATATATTATAAATATTTAATATGAAA
*
47009288 ATATATATTAT-AATATTATAATATTAAA
1 ATATATATTATAAATATT-TAATATGAAA
47009316 A
1 A
47009317 CTTAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATATTATAAATATTTAATATGAAA
Found at i:47010114 original size:24 final size:24
Alignment explanation
Indices: 47010087--47010133 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
47010077 ATTGAAATGG
47010087 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
47010111 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
47010134 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:47010343 original size:41 final size:40
Alignment explanation
Indices: 47010286--47010422 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
47010276 CGACTTCAAG
47010286 TCGATGAGACACTGGGTGTTAATTTGTTACTTCAGATTAAT
1 TCGATGAGACACTGGGTGTTAATTT-TTACTTCAGATTAAT
* ** * *
47010327 TCGATGAGGCACTGGGTGCCAA--TTTACTTCAGTTTAAC
1 TCGATGAGACACTGGGTGTTAATTTTTACTTCAGATTAAT
* *
47010365 T-GATGAGACATTGGGTGTTAATTAATTACTTC-GAATT-AT
1 TCGATGAGACACTGGGTGTTAATT-TTTACTTCAG-ATTAAT
* *
47010404 CCGATGAGGCACTGGGTGT
1 TCGATGAGACACTGGGTGT
47010423 CAAACTGGTG
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
37 16 0.21
38 14 0.18
39 3 0.04
40 24 0.32
41 19 0.25
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTTAATTTTTACTTCAGATTAAT
Found at i:47014787 original size:24 final size:25
Alignment explanation
Indices: 47014739--47014786 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
47014729 AAAATAACTT
*
47014739 AAAATTTATATATAATAATATTTTA
1 AAAATTTATATATAAAAATATTTTA
47014764 AAAATTTATAT-TAAAAAATATTT
1 AAAATTTATATAT-AAAAATATTT
47014787 ATGAGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATTTATATATAAAAATATTTTA
Found at i:47022892 original size:21 final size:20
Alignment explanation
Indices: 47022862--47022910 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
47022852 TCAAACTCAA
*
47022862 AGAAAGAGAAAAAAAGATACC
1 AGAAAAAGAAAAAAA-ATACC
* *
47022883 AGAAAAAGAAACAAATTACC
1 AGAAAAAGAAAAAAAATACC
47022903 AGTAAAAA
1 AG-AAAAA
47022911 TAAATGTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.67, C:0.10, G:0.14, T:0.08
Consensus pattern (20 bp):
AGAAAAAGAAAAAAAATACC
Found at i:47031409 original size:13 final size:13
Alignment explanation
Indices: 47031391--47031438 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
47031381 TTCAAAATTT
*
47031391 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
47031404 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* * *
47031417 TCTACAGCACTTT
1 TCAAAAGCACTTC
47031430 TCAAAAGCA
1 TCAAAAGCA
47031439 TTGCCAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:47038086 original size:21 final size:21
Alignment explanation
Indices: 47038060--47038102 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47038050 TCCGCCACAT
47038060 CCGCAGTCGCTGGCTCAGCAG
1 CCGCAGTCGCTGGCTCAGCAG
47038081 CCGCAGTCGCTGGCTCAGCAG
1 CCGCAGTCGCTGGCTCAGCAG
47038102 C
1 C
47038103 TCCTTGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.40, G:0.33, T:0.14
Consensus pattern (21 bp):
CCGCAGTCGCTGGCTCAGCAG
Found at i:47052845 original size:52 final size:51
Alignment explanation
Indices: 47052768--47052869 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 51
47052758 CTTCTCCTTA
* * * *
47052768 CTTATCTTACATCACTTGTTTTGAAACACACAACATT-TTGCAAAGCTAAAGC
1 CTTATCCTACATCACTCGTTTTGAAACA-A-AAAATTGCTGCAAAGCTAAAGC
47052820 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
1 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
47052870 TATGCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 5 0.11
51 14 0.31
52 26 0.58
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (51 bp):
CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAGC
Found at i:47072238 original size:22 final size:24
Alignment explanation
Indices: 47072194--47072238 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
47072184 ATTATAGGTA
*
47072194 AATAATTATTTTAATTTACATTTAT
1 AATAATTAATTT-ATTTACATTTAT
47072219 AATAATTAATTT-TTTA-ATTT
1 AATAATTAATTTATTTACATTT
47072239 TCAACTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
25 11 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
AATAATTAATTTATTTACATTTAT
Found at i:47080127 original size:15 final size:16
Alignment explanation
Indices: 47080089--47080149 Score: 62
Period size: 15 Copynumber: 4.1 Consensus size: 16
47080079 AAACCCGTTG
*
47080089 TAAGTCTGTTAGCGGT
1 TAAGTCTGTTAGCAGT
47080105 T-AGTCTGTTAGCAGT
1 TAAGTCTGTTAGCAGT
47080120 TAAG-CTGTTA-C--T
1 TAAGTCTGTTAGCAGT
47080132 TAAAGT-TGTTAGCAGT
1 T-AAGTCTGTTAGCAGT
47080148 TA
1 TA
47080150 GAAAGTTAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
12 2 0.05
13 8 0.21
14 2 0.05
15 21 0.55
16 5 0.13
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (16 bp):
TAAGTCTGTTAGCAGT
Found at i:47085679 original size:2 final size:2
Alignment explanation
Indices: 47085672--47085700 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47085662 TTCGGTCATT
47085672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47085701 TAATAGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47085891 original size:11 final size:11
Alignment explanation
Indices: 47085877--47085915 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
47085867 TTTTTTTTTC
47085877 ATTATTTTGTT
1 ATTATTTTGTT
*
47085888 ATTATTTTGCT
1 ATTATTTTGTT
*
47085899 ATTATTTTATT
1 ATTATTTTGTT
47085910 ATTATT
1 ATTATT
47085916 ATTTGGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (11 bp):
ATTATTTTGTT
Found at i:47088301 original size:18 final size:18
Alignment explanation
Indices: 47088265--47088301 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47088255 AAGAATTATT
* *
47088265 TTTTATTTTTTAAAGATA
1 TTTTATTTTTAAAAAATA
47088283 TTTTATTTTTAAAAAATA
1 TTTTATTTTTAAAAAATA
47088301 T
1 T
47088302 CTGTTGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTATTTTTAAAAAATA
Found at i:47089984 original size:18 final size:18
Alignment explanation
Indices: 47089961--47090005 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
47089951 GAATAGGTTT
47089961 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
47089979 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
47089997 TTAATTAAA
1 TTAATTAAA
47090006 CCTTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:47091665 original size:18 final size:19
Alignment explanation
Indices: 47091644--47091706 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
47091634 TATATAGATC
47091644 TATTTTTTTGAATAAT-TT
1 TATTTTTTTGAATAATATT
* *
47091662 TATTATATATTTTAATTATATT
1 TATT-T-T-TTTGAATAATATT
*
47091684 TATTTTTTTGACACAATATT
1 TATTTTTTTGA-ATAATATT
47091704 TAT
1 TAT
47091707 AACTATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 11 0.31
21 9 0.26
22 6 0.17
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTTTTTTGAATAATATT
Found at i:47094292 original size:31 final size:29
Alignment explanation
Indices: 47094228--47094296 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
47094218 ACAATAACGT
** *
47094228 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGGCAAACAA
*
47094257 AAGTGACTAAAATGTAACGTGAGGCAAACAA
1 AAGTGACTAAAATGTAACAT--GGCAAACAA
47094288 AAGTGACTA
1 AAGTGACTA
47094297 TTTTTATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGGCAAACAA
Found at i:47095467 original size:17 final size:17
Alignment explanation
Indices: 47095445--47095478 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47095435 GACTAACCCC
*
47095445 TATACATCACTTAGGTA
1 TATACATCACCTAGGTA
*
47095462 TATACATTACCTAGGTA
1 TATACATCACCTAGGTA
47095479 CATGCCACAT
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:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
TATACATCACCTAGGTA
Found at i:47096330 original size:22 final size:22
Alignment explanation
Indices: 47096290--47096383 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 22
47096280 CGGAACAAAT
*
47096290 ACAGAGAGCACAAATGTGCTAA
1 ACAGAGAGCACAAACGTGCTAA
**
47096312 ACAGAGAGCACTGACGTGCTAAA
1 ACAGAGAGCACAAACGTGCT-AA
* *
47096335 TATCAGATAGCACCAACGTGCTAATA
1 -A-CAGAGAGCACAAACGTGCT-A-A
*
47096361 ATCAGAGAGCACCAACGTGCTAA
1 A-CAGAGAGCACAAACGTGCTAA
47096384 TAATCAAAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
22 17 0.28
23 3 0.05
24 2 0.03
25 38 0.62
26 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCACAAACGTGCTAA
Found at i:47096346 original size:25 final size:26
Alignment explanation
Indices: 47096313--47096395 Score: 109
Period size: 25 Copynumber: 3.3 Consensus size: 26
47096303 ATGTGCTAAA
**
47096313 CAGAGAGCACTGACGTGCTAAAT-AT
1 CAGAGAGCACCAACGTGCTAAATAAT
*
47096338 CAGATAGCACCAACGTGCT-AATAAT
1 CAGAGAGCACCAACGTGCTAAATAAT
47096363 CAGAGAGCACCAACGTGCT-AATAAT
1 CAGAGAGCACCAACGTGCTAAATAAT
*
47096388 CAAAGAGC
1 CAGAGAGC
47096396 GCGCTAAAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
24 3 0.06
25 49 0.94
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
CAGAGAGCACCAACGTGCTAAATAAT
Found at i:47097485 original size:40 final size:41
Alignment explanation
Indices: 47097438--47097516 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 41
47097428 TTCCTTCCTT
47097438 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTC-TTTCTTTCAC
1 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTTCAC
*
47097478 CCTTCTCTGTTTTGTTTTGCTCTCTGTTTCTTTTCTTTC
1 CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTTC
47097517 TTTCTTTGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 29 0.78
41 8 0.22
ACGTcount: A:0.01, C:0.28, G:0.10, T:0.61
Consensus pattern (41 bp):
CCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTTCTTTCAC
Found at i:47097546 original size:8 final size:8
Alignment explanation
Indices: 47097533--47097580 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
47097523 TGTCATATAT
47097533 ATATAATA
1 ATATAATA
47097541 ATATAATA
1 ATATAATA
47097549 ATATAAT-
1 ATATAATA
47097556 ATA-ATATA
1 ATATA-ATA
*
47097564 TTAATAATA
1 AT-ATAATA
47097573 ATATAATA
1 ATATAATA
47097581 TAAAAACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.03
7 5 0.15
8 22 0.65
9 5 0.15
10 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAATA
Found at i:47097548 original size:5 final size:5
Alignment explanation
Indices: 47097527--47097583 Score: 57
Period size: 5 Copynumber: 11.2 Consensus size: 5
47097517 TTTCTTTGTC
47097527 ATATA TATATA ATA-A TATAATA ATATA ATATA ATAT- AT-TA ATAATA
1 ATATA -ATATA ATATA -AT-ATA ATATA ATATA ATATA ATATA AT-ATA
47097573 ATATA ATATA A
1 ATATA ATATA A
47097584 AAACATAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
3 1 0.02
4 5 0.11
5 26 0.58
6 12 0.27
7 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:47097592 original size:24 final size:24
Alignment explanation
Indices: 47097529--47097592 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
47097519 TCTTTGTCAT
47097529 ATATATATAATAAT-ATAATAATATA
1 ATATA-ATAA-AATAATAATAATATA
* *
47097554 ATATAATATATTAATAATAATATA
1 ATATAATAAAATAATAATAATATA
47097578 ATATAA-AAACATAAT
1 ATATAATAAA-ATAAT
47097593 TATTACTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 4 0.12
24 24 0.73
25 5 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATAATAAAATAATAATAATATA
Found at i:47097592 original size:32 final size:33
Alignment explanation
Indices: 47097527--47097597 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
47097517 TTTCTTTGTC
* *
47097527 ATATA-TATATAATAATATAATAATATAATATA
1 ATATATTATATAATAATATAATAATAAAACATA
47097559 ATATATTA-ATAATAATATAAT-ATAAAAACATA
1 ATATATTATATAATAATATAATAAT-AAAACATA
47097591 AT-TATTA
1 ATATATTA
47097598 CTTACGCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 7 0.20
32 26 0.74
33 2 0.06
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATATATTATATAATAATATAATAATAAAACATA
Found at i:47109154 original size:109 final size:104
Alignment explanation
Indices: 47108965--47109184 Score: 298
Period size: 109 Copynumber: 2.1 Consensus size: 104
47108955 GTGTGAATAT
47108965 GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGATGCATGTTATTGTTTGAAGCTAAAT
1 GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGAT-CATGTTATTGTTTGAAGCTAAAT
**
47109030 GTGCCGATGTATATTCCAGACCTACATGGGAAATATATTG
65 GTGCCGATGTATATTCCAGACCTACACAGGAAATATATTG
* * *
47109070 GTTGCTTTAATTTGTTGTGTGGCTGTTTGTTTTTTTTCTAGGGAT-ATGTATTGTTGTTTGAAGC
1 GTTGCTTTAATTTGTTGTGT-GC---CTGTTTTTTTTCTAGAGATCATG--TTATTGTTTGAAGC
* *
47109134 TAAATGTGCTGATGTTTATTCCAGACCTACACAGGAAATATATTG
60 TAAATGTGCCGATGTATATTCCAGACCTACACAGGAAATATATTG
*
47109179 ATTGCT
1 GTTGCT
47109185 GTAAATCCTT
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
105 20 0.20
106 2 0.02
107 3 0.03
109 76 0.75
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.45
Consensus pattern (104 bp):
GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGATCATGTTATTGTTTGAAGCTAAATG
TGCCGATGTATATTCCAGACCTACACAGGAAATATATTG
Found at i:47112334 original size:2 final size:2
Alignment explanation
Indices: 47112321--47112350 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
47112311 GTGCAGACAT
*
47112321 AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
47112351 TTGTTTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:47116337 original size:66 final size:66
Alignment explanation
Indices: 47116231--47116609 Score: 589
Period size: 66 Copynumber: 5.7 Consensus size: 66
47116221 CAGGTTGACC
* * *
47116231 TTGAGGAATCAAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTACAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
47116296 T
66 T
* * * * *
47116297 TTGAGGAATCCAAGAAAA-AGGAAAGTGCAAGGTTTGAATCTATTTTGCATAAGAAGGAACTTGA
1 TTGAGGAATCCAA-AAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGA
47116361 GT
65 GT
*
47116363 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCACAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
47116428 T
66 T
* * * *
47116429 TTGAGGAATCCAAGAAACAGGAAAGTGAAAGGTTTGAATCTACTTTCCACAAGATGCAAGTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
47116494 T
66 T
**
47116495 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTACGCAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
47116560 T
66 T
* *
47116561 TTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCA
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCA
47116610 CAGAAAGGAA
Statistics
Matches: 287, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
65 4 0.01
66 279 0.97
67 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (66 bp):
TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
T
Found at i:47116657 original size:21 final size:21
Alignment explanation
Indices: 47116618--47116669 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
47116608 CACAGAAAGG
* * *
47116618 AACTTCAGTTTCAGCAACTGC
1 AACTTGAGTTGCAGAAACTGC
*
47116639 AATTTGAGTTGCAGAAACTGC
1 AACTTGAGTTGCAGAAACTGC
47116660 AACTTGAGTT
1 AACTTGAGTT
47116670 TGAGGAATCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (21 bp):
AACTTGAGTTGCAGAAACTGC
Found at i:47116753 original size:66 final size:66
Alignment explanation
Indices: 47116660--47116808 Score: 253
Period size: 66 Copynumber: 2.3 Consensus size: 66
47116650 CAGAAACTGC
*
47116660 AACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAG
1 AACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAG
47116725 G
66 G
* * * *
47116726 AACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACAAGAAG
1 AACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAG
47116791 G
66 G
47116792 AACTTGAGTTTCAGGAA
1 AACTTGAGTTTCAGGAA
47116809 CTGCAAGTTG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 78 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (66 bp):
AACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAG
G
Found at i:47116779 original size:174 final size:174
Alignment explanation
Indices: 47116482--47116846 Score: 525
Period size: 174 Copynumber: 2.1 Consensus size: 174
47116472 TTTCCACAAG
* * *** *
47116482 ATGCAAGTTGAGTTTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTACGCAAAA
1 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
* * **
47116547 GATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCAC-
66 GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
*
47116611 AGAAAGGAACTTCAGTTTCAGCAACTGCAATTTGAGTTGCAGAAA
131 AG-AAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
* ** *
47116656 CTGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAA
1 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
* *
47116721 GAAGGAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACA
66 GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
* * *
47116786 AGAAGGAACTTGAGTTTCAGGAACTGCAAGTTGAGTTTCAGAAA
131 AGAAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
*
47116830 ATGCAACTTGAGCTTGA
1 ATGCAACTTGAGTTTGA
47116847 AGAAACAAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
174 166 0.99
175 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (174 bp):
ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
AGAAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
Found at i:47116821 original size:21 final size:21
Alignment explanation
Indices: 47116792--47116841 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
47116782 TACAAGAAGG
* *
47116792 AACTTGAGTTTCAGGAACTGC
1 AACTTGAGTTTCAGAAAATGC
*
47116813 AAGTTGAGTTTCAGAAAATGC
1 AACTTGAGTTTCAGAAAATGC
47116834 AACTTGAG
1 AACTTGAG
47116842 CTTGAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (21 bp):
AACTTGAGTTTCAGAAAATGC
Found at i:47117633 original size:33 final size:33
Alignment explanation
Indices: 47117585--47117713 Score: 213
Period size: 33 Copynumber: 3.9 Consensus size: 33
47117575 CAGGAGATCC
* *
47117585 CCGTTGTTGATGATGAATCAATGAATAAACCTA
1 CCGTTATTGAAGATGAATCAATGAATAAACCTA
*
47117618 CCGTTATTGAAGATGAATCAATGAATAAACATA
1 CCGTTATTGAAGATGAATCAATGAATAAACCTA
47117651 CCGTTATTGAAGATGAATCAATGAATAAACCTA
1 CCGTTATTGAAGATGAATCAATGAATAAACCTA
* *
47117684 CCATTATTGACGATGAATCAATGAATAAAC
1 CCGTTATTGAAGATGAATCAATGAATAAAC
47117714 TTACTGCTGA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (33 bp):
CCGTTATTGAAGATGAATCAATGAATAAACCTA
Found at i:47118300 original size:348 final size:348
Alignment explanation
Indices: 47117663--47118503 Score: 1502
Period size: 348 Copynumber: 2.4 Consensus size: 348
47117653 GTTATTGAAG
*
47117663 ATGAATCAATGAATAAACCTACCATTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
1 ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
*
47117728 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCAAATACTATCTCAGGTTTGACTAAAGGCT
66 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGACTAAAGGCT
*
47117793 TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCGCAGCAGCA
131 TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCACAGCAGCA
* *
47117858 GGCCATGCCGAGTTCACTGAGTACAACCATGTCAGGGGTGACATCTGCAGTAAGATAAATCTCAA
196 GACCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGATAAATCTCAA
* *
47117923 CATTGTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGT
261 CATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGC
47117988 TCAGGAGATCCCTGTCATTGACA
326 TCAGGAGATCCCTGTCATTGACA
* * *
47118011 ATGAATCAATGAATAAACCTACCGTTACTGACGATGAATCAATGAATAAACTTACCGCTGAAAAA
1 ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
*
47118076 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTTGAATACTATCTCAGGTTTGACTAAAGGCT
66 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGACTAAAGGCT
47118141 TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCACAGCAGCA
131 TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCACAGCAGCA
*
47118206 GACCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGATATATCTCAA
196 GACCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGATAAATCTCAA
47118271 CATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGC
261 CATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGC
*
47118336 TCAGGAGATCCCTGTTATTGACA
326 TCAGGAGATCCCTGTCATTGACA
* *
47118359 ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATAAATAGACTTACTGCTGAAAAT
1 ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
* * * * *
47118424 GAGCAGCTGAAGGTATTGTTAGACATTTTTTGCTTCGAATACTATCTTAGTTTTGACTAAAAGCT
66 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGACTAAAGGCT
47118489 TTCTTGATGTCATTT
131 TTCTTGATGTCATTT
47118504 TTAAACTTGG
Statistics
Matches: 469, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
348 469 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (348 bp):
ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGACTAAAGGCT
TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCACAGCAGCA
GACCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGATAAATCTCAA
CATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGC
TCAGGAGATCCCTGTCATTGACA
Found at i:47122504 original size:34 final size:34
Alignment explanation
Indices: 47122461--47122528 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
47122451 GATGCAGGGG
47122461 CCCTTTGTCATTCTTATCCAATGACTCTTTCATT
1 CCCTTTGTCATTCTTATCCAATGACTCTTTCATT
*
47122495 CCCTTTGTCATTCTTATCCAATGATTCTTTCATT
1 CCCTTTGTCATTCTTATCCAATGACTCTTTCATT
47122529 TTTCTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.28, G:0.06, T:0.49
Consensus pattern (34 bp):
CCCTTTGTCATTCTTATCCAATGACTCTTTCATT
Found at i:47137352 original size:3 final size:3
Alignment explanation
Indices: 47137344--47137387 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
47137334 AGGGTTAGAG
47137344 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
47137388 GGAGAAGAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47137735 original size:36 final size:35
Alignment explanation
Indices: 47137695--47137797 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 35
47137685 TTGAAAACCG
*
47137695 GCTTATGTTTTGTAATATTGTTGCTGGTATATTGTT
1 GCTTATGTTTTGTAA-ATGGTTGCTGGTATATTGTT
* *
47137731 GCTTATG-TTGGTATACATGGTTGTTGGTATATTGTT
1 GCTTATGTTTTGTA-A-ATGGTTGCTGGTATATTGTT
*
47137767 GCTTATGTTGTTATAAATGGTTGCTGGTATA
1 GCTTATGTT-TTGTAAATGGTTGCTGGTATA
47137798 CATGGCTAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 5 0.09
36 47 0.82
37 2 0.04
38 3 0.05
ACGTcount: A:0.18, C:0.06, G:0.25, T:0.50
Consensus pattern (35 bp):
GCTTATGTTTTGTAAATGGTTGCTGGTATATTGTT
Found at i:47137744 original size:20 final size:20
Alignment explanation
Indices: 47137719--47137781 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
47137709 ATATTGTTGC
47137719 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
*
47137739 TGGTATACATG--G--T-TGT
1 TGGTATA-TTGTTGCTTATGT
47137755 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
*
47137775 TGTTATA
1 TGGTATA
47137782 AATGGTTGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
15 2 0.06
16 10 0.29
17 2 0.06
19 2 0.06
20 16 0.47
21 2 0.06
ACGTcount: A:0.17, C:0.05, G:0.25, T:0.52
Consensus pattern (20 bp):
TGGTATATTGTTGCTTATGT
Found at i:47138022 original size:23 final size:24
Alignment explanation
Indices: 47137977--47138022 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
47137967 GGAAAAAAAA
*
47137977 ACATTTGTATTTCTCAATGCTCAC
1 ACATTTGTATTTCTCAATACTCAC
*
47138001 ACATTTGT-TTTTTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
47138023 TATGTTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.46
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:47138454 original size:21 final size:22
Alignment explanation
Indices: 47138423--47138478 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
47138413 TTTTCTCTTA
*
47138423 GGGCAGCTTGTTGA-TGAGTTG
1 GGGCAACTTGTTGACTGAGTTG
* *
47138444 GGGCAATTTG-TAACTGAGTTG
1 GGGCAACTTGTTGACTGAGTTG
*
47138465 GGGCAGCTTGTTGA
1 GGGCAACTTGTTGA
47138479 GTTGGGGTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.18, C:0.11, G:0.39, T:0.32
Consensus pattern (22 bp):
GGGCAACTTGTTGACTGAGTTG
Found at i:47138506 original size:21 final size:21
Alignment explanation
Indices: 47138476--47138526 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
47138466 GGCAGCTTGT
47138476 TGAGTTGGGGTA-CACTATTGC
1 TGAGTTGGGGTAGC-CTATTGC
* *
47138497 TGATTTGGGGTAGCCTGTTGC
1 TGAGTTGGGGTAGCCTATTGC
47138518 TGAGTTGGG
1 TGAGTTGGG
47138527 ACACCAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.14, C:0.12, G:0.39, T:0.35
Consensus pattern (21 bp):
TGAGTTGGGGTAGCCTATTGC
Found at i:47139226 original size:24 final size:25
Alignment explanation
Indices: 47139198--47139247 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
47139188 TAGTCACTAC
*
47139198 ATGTATA-TTATTAAAAAATACTCA
1 ATGTATACATATTAAAAAATACTCA
* *
47139222 ATGTATACATATTAGAAAATAGTCA
1 ATGTATACATATTAAAAAATACTCA
47139247 A
1 A
47139248 CACACCAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (25 bp):
ATGTATACATATTAAAAAATACTCA
Found at i:47142384 original size:65 final size:65
Alignment explanation
Indices: 47142303--47142447 Score: 209
Period size: 65 Copynumber: 2.2 Consensus size: 65
47142293 GCCATATCAA
* *
47142303 GACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAACAT
1 GACGCTCACAAAGAGCTACATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAACAG
* * * * * *
47142368 GACGCTCACAAAGAGCTACGTTTGTGTCTGCAATATATGTAGGATCACAATCGATTATATAACAG
1 GACGCTCACAAAGAGCTACATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAACAG
*
47142433 GACACTCACAAAGAG
1 GACGCTCACAAAGAG
47142448 TTGCGGTAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (65 bp):
GACGCTCACAAAGAGCTACATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAACAG
Found at i:47143444 original size:30 final size:30
Alignment explanation
Indices: 47143410--47143469 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47143400 ATTATTTAAT
*
47143410 TAATTATCATC-TTTTATTTTTTTCACTTTC
1 TAATT-TCATCATTTTATTTATTTCACTTTC
* *
47143440 TAATTTCATCATTTTCTTTATTTCATTTTC
1 TAATTTCATCATTTTATTTATTTCACTTTC
47143470 CATAGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (30 bp):
TAATTTCATCATTTTATTTATTTCACTTTC
Found at i:47149132 original size:25 final size:27
Alignment explanation
Indices: 47149068--47149133 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 27
47149058 ACATGGAACT
*
47149068 TTTAATCAGGAAGCTTACAAAGAGCCA
1 TTTAATCAGGAAGCTCACAAAGAGCCA
*
47149095 TTTAA-C-GGAAGCTCACGAAGAGCCA
1 TTTAATCAGGAAGCTCACAAAGAGCCA
47149120 -TTAATCAGG-AGCTC
1 TTTAATCAGGAAGCTC
47149134 TGAATAGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.11
25 23 0.66
26 3 0.09
27 5 0.14
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
TTTAATCAGGAAGCTCACAAAGAGCCA
Found at i:47149256 original size:65 final size:65
Alignment explanation
Indices: 47149175--47149317 Score: 214
Period size: 65 Copynumber: 2.2 Consensus size: 65
47149165 GCCATATCAA
* ** * *
47149175 GATGCTCACAAAGAGCTGCGTTTGTGTCTGCAACATATGTAGGATTACAACCGATCATAAAACAG
1 GATGCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACCGATCATAAAACAG
* * *
47149240 GATGCTCACAAAGAGCTGCGTTTATGTCCACAATATATGCAGGATCATAACCGATCATATAACAG
1 GATGCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACCGATCATAAAACAG
47149305 GATGCTCACAAAG
1 GATGCTCACAAAG
47149318 TGTTGCGGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (65 bp):
GATGCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACCGATCATAAAACAG
Found at i:47151786 original size:18 final size:18
Alignment explanation
Indices: 47151765--47151822 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
47151755 TTCAAAATTG
47151765 AAATCAAAATCGAAATCA
1 AAATCAAAATCGAAATCA
*
47151783 AAATCAAAATCAAAATCA
1 AAATCAAAATCGAAATCA
* * *
47151801 AAATTAGAATCGAAATTA
1 AAATCAAAATCGAAATCA
47151819 AAAT
1 AAAT
47151823 TGAAATTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATCAAAATCGAAATCA
Found at i:47151823 original size:6 final size:6
Alignment explanation
Indices: 47151765--47151804 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
47151755 TTCAAAATTG
*
47151765 AAATCA AAATCG AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
47151805 TAGAATCGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:47151823 original size:18 final size:18
Alignment explanation
Indices: 47151765--47151834 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
47151755 TTCAAAATTG
*
47151765 AAATCAAAATCGAAATCA
1 AAATTAAAATCGAAATCA
* *
47151783 AAATCAAAATCAAAATCA
1 AAATTAAAATCGAAATCA
* *
47151801 AAATTAGAATCGAAATTA
1 AAATTAAAATCGAAATCA
* *
47151819 AAATTGAAATTGAAAT
1 AAATTAAAATCGAAAT
47151835 AACCCTAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATTAAAATCGAAATCA
Found at i:47151829 original size:12 final size:12
Alignment explanation
Indices: 47151756--47151828 Score: 83
Period size: 12 Copynumber: 6.1 Consensus size: 12
47151746 AGTGAGTGTT
*
47151756 TCAAAATTGAAA
1 TCAAAATCGAAA
47151768 TCAAAATCGAAA
1 TCAAAATCGAAA
*
47151780 TCAAAATCAAAA
1 TCAAAATCGAAA
*
47151792 TCAAAATCAAAA
1 TCAAAATCGAAA
* *
47151804 TTAGAATCGAAA
1 TCAAAATCGAAA
* *
47151816 TTAAAATTGAAA
1 TCAAAATCGAAA
47151828 T
1 T
47151829 TGAAATAACC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (12 bp):
TCAAAATCGAAA
Found at i:47152302 original size:21 final size:21
Alignment explanation
Indices: 47152278--47152317 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47152268 AACGTGGCAA
47152278 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
*
47152299 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
47152318 GATCCTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:47152591 original size:30 final size:31
Alignment explanation
Indices: 47152557--47152642 Score: 79
Period size: 31 Copynumber: 2.8 Consensus size: 31
47152547 GTTTTTTTTT
* *
47152557 AAGTTATAATTT-GGTCACTAAATTATTCAA
1 AAGTTATAATTTAAGTCACTAAACTATTCAA
* *
47152587 AAGTTTTCATTTAAGTCACTAAACTATTTGC-A
1 AAGTTATAATTTAAGTCACTAAACTA-TT-CAA
* *
47152619 AA-TTTTCATTTAAGTCACTAAACT
1 AAGTTATAATTTAAGTCACTAAACT
47152643 GTTATTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 10 0.20
31 33 0.67
32 5 0.10
33 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (31 bp):
AAGTTATAATTTAAGTCACTAAACTATTCAA
Found at i:47152649 original size:26 final size:28
Alignment explanation
Indices: 47152590--47152651 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
47152580 TATTCAAAAG
*
47152590 TTTTCATTTAAGTCACTAAACTATTTGCAAA
1 TTTTCATTTAAGTCACTAAACTAGTT---AA
*
47152621 TTTTCATTTAAGTCACTAAACT-GTTAT
1 TTTTCATTTAAGTCACTAAACTAGTTAA
47152648 TTTT
1 TTTT
47152652 TTAAAGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
30 2 0.07
31 22 0.76
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (28 bp):
TTTTCATTTAAGTCACTAAACTAGTTAA
Found at i:47152662 original size:36 final size:31
Alignment explanation
Indices: 47152570--47152642 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
47152560 TTATAATTTG
*
47152570 GTCACTAAATTA-TT-CAAAAGTTTTCATTTAA
1 GTCACTAAACTATTTGC-AAAG-TTTCATTTAA
*
47152601 GTCACTAAACTATTTGCAAATTTTCATTTAA
1 GTCACTAAACTATTTGCAAAGTTTCATTTAA
47152632 GTCACTAAACT
1 GTCACTAAACT
47152643 GTTATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 32 0.84
32 5 0.13
33 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (31 bp):
GTCACTAAACTATTTGCAAAGTTTCATTTAA
Found at i:47165305 original size:10 final size:11
Alignment explanation
Indices: 47165277--47165306 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47165267 TAAATTCATA
47165277 TATTTTATAAT
1 TATTTTATAAT
47165288 TATTTTATAAT
1 TATTTTATAAT
47165299 T-TTTTATA
1 TATTTTATA
47165307 GTTTAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTTATAAT
Found at i:47181547 original size:2 final size:2
Alignment explanation
Indices: 47181540--47181580 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
47181530 TTAACACTGC
* * *
47181540 AT AT AT AT AT AT AT AT AT AT TT AT AT AT GT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47181581 GTTATGGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47182384 original size:4 final size:4
Alignment explanation
Indices: 47182375--47182418 Score: 72
Period size: 4 Copynumber: 11.0 Consensus size: 4
47182365 AACCAAAGGT
47182375 ATAC ATAC ATAC ATAC ATAC ATAC AGT-C ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC A-TAC ATAC ATAC ATAC ATAC
47182419 TTTCTGATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 1 0.03
4 36 0.95
5 1 0.03
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:47189695 original size:19 final size:18
Alignment explanation
Indices: 47189671--47189708 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47189661 AAAAGTTGAG
47189671 AAAAATTATAAGTAAAAAT
1 AAAAATTAT-AGTAAAAAT
*
47189690 AAAAATTATATTAAAAAT
1 AAAAATTATAGTAAAAAT
47189708 A
1 A
47189709 TATTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAATTATAGTAAAAAT
Found at i:47205142 original size:27 final size:28
Alignment explanation
Indices: 47205090--47205142 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
47205080 TTTATAAGTG
*
47205090 AAAGAAAATACATGCACTATGATGGTGA
1 AAAGAAAATACATGCACAATGATGGTGA
47205118 AAAGAAAATACATGCACAATG-TGGT
1 AAAGAAAATACATGCACAATGATGGT
47205143 CAATGACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (28 bp):
AAAGAAAATACATGCACAATGATGGTGA
Found at i:47208912 original size:3 final size:3
Alignment explanation
Indices: 47208904--47208930 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47208894 TCACTTTAAT
47208904 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
47208931 CTGACCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47213014 original size:31 final size:31
Alignment explanation
Indices: 47212979--47213043 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
47212969 TGAGTACTTC
47212979 TCTACAAGTTGAAATGGATGTTCCTATATTG
1 TCTACAAGTTGAAATGGATGTTCCTATATTG
47213010 TCTACAAGTTGAAATGGATGTTCCTATATTG
1 TCTACAAGTTGAAATGGATGTTCCTATATTG
47213041 TCT
1 TCT
47213044 TGAACTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (31 bp):
TCTACAAGTTGAAATGGATGTTCCTATATTG
Found at i:47219879 original size:30 final size:28
Alignment explanation
Indices: 47219843--47219910 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
47219833 TTTTTAAATT
*
47219843 TTTTAAAATACTTATTATTATTATTTTTAA
1 TTTTAAAATACTTATTA-AATT-TTTTTAA
* *
47219873 TTTTAAAATACTTTTTAAATTTTTTTAT
1 TTTTAAAATACTTATTAAATTTTTTTAA
47219901 TTTTAAAATA
1 TTTTAAAATA
47219911 AATTTTTGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 16 0.46
29 3 0.09
30 16 0.46
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTAAAATACTTATTAAATTTTTTTAA
Done.