Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1333
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: 126322
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:885 original size:14 final size:14
Alignment explanation
Indices: 851--891 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
841 CAATCCAAAC
851 AAGAAAAAAGG-AG
1 AAGAAAAAAGGAAG
864 -AGAAAAAAGGAAG
1 AAGAAAAAAGGAAG
* *
877 AAGACAAAATGAAG
1 AAGAAAAAAGGAAG
891 A
1 A
892 GATTAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 10 0.42
13 2 0.08
14 12 0.50
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.02
Consensus pattern (14 bp):
AAGAAAAAAGGAAG
Found at i:4997 original size:41 final size:41
Alignment explanation
Indices: 4938--5018 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
4928 TATAAAATTG
*
4938 AACTGATTTGAATCGAATTTCATTGTTTCCTACCAGTTTGT
1 AACTGATTTGAATCGAATTTCATTGTTTCCGACCAGTTTGT
4979 AACTGATTTGAA-CTGAATTTCATTGTTTCCGACCAGTTTG
1 AACTGATTTGAATC-GAATTTCATTGTTTCCGACCAGTTTG
5019 GTTTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (41 bp):
AACTGATTTGAATCGAATTTCATTGTTTCCGACCAGTTTGT
Found at i:12154 original size:2 final size:2
Alignment explanation
Indices: 12149--12175 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12139 ATGTGTGTGC
12149 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12176 GTGGGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14042 original size:3 final size:3
Alignment explanation
Indices: 14034--14076 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
14024 TATTATGCAA
*
14034 AAT AAT AAT AAT AAC AAT AAT AAT AAT -AT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14077 ATGCTATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15889 original size:16 final size:16
Alignment explanation
Indices: 15870--15911 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
15860 TTATTTTTTT
*
15870 ATATTAGTATTTATTG
1 ATATTAATATTTATTG
15886 ATATTAATATTTATTG
1 ATATTAATATTTATTG
*
15902 ATATCAATAT
1 ATATTAATAT
15912 ATTTTAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (16 bp):
ATATTAATATTTATTG
Found at i:16140 original size:16 final size:16
Alignment explanation
Indices: 16121--16173 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
16111 TAACTGACAA
*
16121 ATTTATAAATAATTAT
1 ATTTATAAATTATTAT
* *
16137 ATTTA-ATATTTATTAA
1 ATTTATA-AATTATTAT
16153 ATTTATAAATTATTAT
1 ATTTATAAATTATTAT
16169 ATTTA
1 ATTTA
16174 ATATTTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTATAAATTATTAT
Found at i:16142 original size:32 final size:33
Alignment explanation
Indices: 16106--16176 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
16096 GTTAAAATTT
16106 TTTAATAACTGA-CAAATTTATAAATAATTATA
1 TTTAATAACTGATCAAATTTATAAATAATTATA
* * * *
16138 TTTAAT-ATTTATTAAATTTATAAATTATTATA
1 TTTAATAACTGATCAAATTTATAAATAATTATA
16170 TTTAATA
1 TTTAATA
16177 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.09
32 30 0.91
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (33 bp):
TTTAATAACTGATCAAATTTATAAATAATTATA
Found at i:16177 original size:32 final size:32
Alignment explanation
Indices: 16119--16190 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
16109 AATAACTGAC
16119 AAATTTATAAATAATTATATTTAATATTTATT
1 AAATTTATAAATAATTATATTTAATATTTATT
*
16151 AAATTTATAAATTATTATATTTAATATTTATT
1 AAATTTATAAATAATTATATTTAATATTTATT
16183 AAATTTAT
1 AAATTTAT
16191 GATTAATATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
AAATTTATAAATAATTATATTTAATATTTATT
Found at i:16181 original size:16 final size:16
Alignment explanation
Indices: 16132--16189 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
16122 TTTATAAATA
*
16132 ATTATATTTAATATTT
1 ATTAAATTTAATATTT
*
16148 ATTAAATTT-ATAAATT
1 ATTAAATTTAAT-ATTT
*
16164 ATTATATTTAATATTT
1 ATTAAATTTAATATTT
16180 ATTAAATTTA
1 ATTAAATTTA
16190 TGATTAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 2 0.06
16 31 0.89
17 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAAATTTAATATTT
Found at i:16190 original size:22 final size:23
Alignment explanation
Indices: 16148--16199 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
16138 TTTAATATTT
16148 ATTAA-ATTTATAAATTATTAT-
1 ATTAATATTTATAAATTATTATG
16169 ATTTAATATTTATTAAA-T-TTATG
1 A-TTAATATTTA-TAAATTATTATG
16192 ATTAATAT
1 ATTAATAT
16200 CAATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 1 0.04
22 15 0.56
23 7 0.26
24 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTAATATTTATAAATTATTATG
Found at i:16878 original size:2 final size:2
Alignment explanation
Indices: 16871--16911 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
16861 CTAGTTCTAC
16871 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16912 ACCCTAACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20063 original size:17 final size:17
Alignment explanation
Indices: 20028--20079 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
20018 AAATTCATTT
* * *
20028 AATTTATATAATATTTA
1 AATTTATTTATTATCTA
20045 AATTTATTTATTATCTA
1 AATTTATTTATTATCTA
20062 AA--TA-TTATTATCTA
1 AATTTATTTATTATCTA
20076 AATT
1 AATT
20080 CATATTTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 12 0.40
15 2 0.07
17 16 0.53
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTATTTATTATCTA
Found at i:20069 original size:14 final size:14
Alignment explanation
Indices: 20052--20078 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20042 TTAAATTTAT
20052 TTATTATCTAAATA
1 TTATTATCTAAATA
20066 TTATTATCTAAAT
1 TTATTATCTAAAT
20079 TCATATTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATTATCTAAATA
Found at i:21716 original size:31 final size:29
Alignment explanation
Indices: 21643--21726 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
21633 AATATATTTC
* *
21643 AAATTAATAATATTATGTATTTTTATATA
1 AAATTAAAAATATTATGTATTTTTAAATA
** *
21672 AAATTAATTATATTGTGTATTTTTAAATA
1 AAATTAAAAATATTATGTATTTTTAAATA
*
21701 TACATGTAAAAATATTAT-TATTTTTA
1 -AAAT-TAAAAATATTATGTATTTTTA
21727 GAGCAAAGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 26 0.57
30 11 0.24
31 9 0.20
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (29 bp):
AAATTAAAAATATTATGTATTTTTAAATA
Found at i:22982 original size:44 final size:43
Alignment explanation
Indices: 22903--22997 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 43
22893 ACGAAGAAAC
*
22903 AAAAT-AAAAATAAATTAAAATTTTCAGAGAAATTGAAAAT-T
1 AAAATAAAAAAAAAATTAAAATTTTCAGAGAAATTGAAAATGT
* *
22944 AAAAATAAAAAAAAAATCTAAATTTTTACTGA-AAATTGAAAATGT
1 -AAAATAAAAAAAAAAT-TAAAATTTT-CAGAGAAATTGAAAATGT
22989 AAAATAAAA
1 AAAATAAAA
22998 TTTAAATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
42 5 0.11
43 9 0.20
44 28 0.61
45 4 0.09
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.27
Consensus pattern (43 bp):
AAAATAAAAAAAAAATTAAAATTTTCAGAGAAATTGAAAATGT
Found at i:23497 original size:23 final size:20
Alignment explanation
Indices: 23470--23534 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
23460 TCCTTAAGAT
23470 TTTATCTTAAAATAAGTTTAAA
1 TTTAT-TTAAAATAA-TTTAAA
* *
23492 TATTATATTAATATAATTTATA
1 T-TTAT-TTAAAATAATTTAAA
*
23514 TTTATTTAAATTTAATTTAAA
1 TTTATTTAAA-ATAATTTAAA
23535 ATAAAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.11
21 12 0.34
22 7 0.20
23 12 0.34
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTATTTAAAATAATTTAAA
Found at i:23870 original size:18 final size:18
Alignment explanation
Indices: 23849--23889 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23839 AGATTTGATT
23849 ATTTTTTAAATAAACTTA
1 ATTTTTTAAATAAACTTA
**
23867 ATTTTTTATTTAAACTTA
1 ATTTTTTAAATAAACTTA
*
23885 CTTTT
1 ATTTT
23890 CAAACTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTTAAATAAACTTA
Found at i:24252 original size:17 final size:17
Alignment explanation
Indices: 24230--24283 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
24220 ATAAATAAAA
24230 ATATTTATATTTAATAT
1 ATATTTATATTTAATAT
* *
24247 ATATTTATATCTCATAT
1 ATATTTATATTTAATAT
* *
24264 TTA-TT-TATTAAATAT
1 ATATTTATATTTAATAT
24279 ATATT
1 ATATT
24284 ATTTAGCTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
15 9 0.31
16 3 0.10
17 17 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTATATTTAATAT
Found at i:24488 original size:18 final size:19
Alignment explanation
Indices: 24447--24488 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
24437 TAAATTTTTT
*
24447 ATATTTTAATTATGTAAAT
1 ATATTTTAATTATGTAAAA
* *
24466 TTATTTT-ATTATTTAAAA
1 ATATTTTAATTATGTAAAA
24484 ATATT
1 ATATT
24489 AAAATATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATTTTAATTATGTAAAA
Found at i:24524 original size:22 final size:22
Alignment explanation
Indices: 24496--24537 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
24486 ATTAAAATAT
24496 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
24518 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
24538 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:25510 original size:23 final size:25
Alignment explanation
Indices: 25482--25530 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
25472 AGTTTCTATT
*
25482 TTATTTTTA-AATTATAA-AAAAAA
1 TTATTTTTATAATTAAAACAAAAAA
25505 TTATTTTTATAATTAAAACAAAAAA
1 TTATTTTTATAATTAAAACAAAAAA
25530 T
1 T
25531 ATCAACTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
24 7 0.30
25 7 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATTTTTATAATTAAAACAAAAAA
Found at i:30203 original size:2 final size:2
Alignment explanation
Indices: 30196--30227 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30186 CTAATGCTAA
30196 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30228 GGCAGTAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31241 original size:2 final size:2
Alignment explanation
Indices: 31234--31282 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
31224 CCATTTCCTG
*
31234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31276 AT AT AT A
1 AT AT AT A
31283 GTCAGAAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:32404 original size:45 final size:49
Alignment explanation
Indices: 32349--32447 Score: 136
Period size: 47 Copynumber: 2.1 Consensus size: 49
32339 TATTTATATC
*
32349 ATATTTATAT-ATTTTATTATATT-ATAA-TTATATT-TA-AAATATTTT
1 ATATTTATATAATTTTAATATATTAATAATTTATATTATATAAAT-TTTT
32394 ATATTTATATAAATTTTAATATATTAATAATTTATATTATATAAATTTTT
1 ATATTTATAT-AATTTTAATATATTAATAATTTATATTATATAAATTTTT
32444 ATAT
1 ATAT
32448 CAAATTTGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
45 10 0.21
47 12 0.26
48 4 0.09
49 7 0.15
50 10 0.21
51 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (49 bp):
ATATTTATATAATTTTAATATATTAATAATTTATATTATATAAATTTTT
Found at i:32423 original size:18 final size:17
Alignment explanation
Indices: 32376--32447 Score: 66
Period size: 17 Copynumber: 4.4 Consensus size: 17
32366 TATATTATAA
32376 TTATATTTA-A-AATATT
1 TTATATTTATATAA-ATT
32392 TTATATTTATATAAATT
1 TTATATTTATATAAATT
32409 TTAATATATTA-AT-AA-T
1 TT-ATAT-TTATATAAATT
32425 TTATA-TTATATAAATTT
1 TTATATTTATATAAA-TT
32442 TTATAT
1 TTATAT
32448 CAAATTTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.06
14 2 0.04
15 5 0.11
16 12 0.26
17 14 0.30
18 8 0.17
19 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATATTTATATAAATT
Found at i:32437 original size:32 final size:33
Alignment explanation
Indices: 32386--32447 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
32376 TTATATTTAA
*
32386 AATATTTTATATTTATATAAATTTTAATATATT
1 AATAATTTATATTTATATAAATTTTAATATATT
*
32419 AATAATTTATA-TTATATAAATTTTTATAT
1 AATAATTTATATTTATATAAATTTTAATAT
32448 CAAATTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTTAATATATT
Found at i:32730 original size:10 final size:9
Alignment explanation
Indices: 32685--32753 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
32675 AATTTTAAGT
*
32685 ATAAGTATA
1 ATAAATATA
32694 ATAAATA-A
1 ATAAATATA
*
32702 GATATTATATA
1 -ATA-AATATA
32713 ATAAATATA
1 ATAAATATA
32722 ATAAAATATA
1 AT-AAATATA
*
32732 TTTAAATATA
1 -ATAAATATA
* *
32742 ATTAATACA
1 ATAAATATA
32751 ATA
1 ATA
32754 TTTTAAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 24 0.51
10 20 0.43
11 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
ATAAATATA
Found at i:32730 original size:19 final size:19
Alignment explanation
Indices: 32690--32743 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
32680 TAAGTATAAG
**
32690 TATAATAAATA-AGATATTA
1 TATAATAAATATA-ATAAAA
32709 TATAATAAATATAATAAAA
1 TATAATAAATATAATAAAA
*
32728 TATATTTAAATATAAT
1 TATA-ATAAATATAAT
32744 TAATACAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TATAATAAATATAATAAAA
Found at i:32739 original size:20 final size:23
Alignment explanation
Indices: 32690--32765 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
32680 TAAGTATAAG
* *
32690 TATAATAAATA-AGATATTATATAA
1 TATAATTAATACA-ATATTTTA-AA
*
32714 TA-AATATAATAAAATATATTTAAA
1 TATAAT-TAATACAATAT-TTTAAA
32738 TATAATTAATACAATATTTTAAA
1 TATAATTAATACAATATTTTAAA
32761 TATAA
1 TATAA
32766 ATATTATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 14 0.31
24 24 0.53
25 7 0.16
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (23 bp):
TATAATTAATACAATATTTTAAA
Found at i:36749 original size:27 final size:25
Alignment explanation
Indices: 36717--36769 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
36707 ATCATATTTT
*
36717 TTATTATAATTATATATGTAATAAATA
1 TTATTATAATTA-AT-TATAATAAATA
36744 TTATTATAATTAATTATAATAAATA
1 TTATTATAATTAATTATAATAAATA
36769 T
1 T
36770 CAATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 11 0.44
26 2 0.08
27 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TTATTATAATTAATTATAATAAATA
Found at i:37529 original size:19 final size:18
Alignment explanation
Indices: 37505--37557 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
37495 GAATCTAAGC
37505 TATTTATCTATTTATGTTA
1 TATTTATCTATTTAT-TTA
*
37524 TATTTATATATTT-TTTA
1 TATTTATCTATTTATTTA
37541 TGATATTATCATATTTA
1 T-AT-TTATC-TATTTA
37558 AAATGATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 4 0.14
18 3 0.11
19 16 0.57
20 5 0.18
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (18 bp):
TATTTATCTATTTATTTA
Found at i:39028 original size:20 final size:18
Alignment explanation
Indices: 38983--39025 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
38973 CATTTAATTT
*
38983 TTTAAAGTTTTTTATATA
1 TTTAAAATTTTTTATATA
39001 TTTAAAATTTTTTATATA
1 TTTAAAATTTTTTATATA
39019 TTTAAAA
1 TTTAAAA
39026 AATATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTAAAATTTTTTATATA
Found at i:39033 original size:19 final size:18
Alignment explanation
Indices: 38993--39036 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
38983 TTTAAAGTTT
* *
38993 TTTATATATTTAAAATTT
1 TTTATATATTTAAAAATA
39011 TTTATATATTTAAAAAATA
1 TTTATATATTT-AAAAATA
39030 TTTATAT
1 TTTATAT
39037 TTAAATATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATATATTTAAAAATA
Found at i:43231 original size:24 final size:26
Alignment explanation
Indices: 43204--43254 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
43194 GCAGTACTGA
43204 TTTTCTATTTTTCAA-TT-TTGCTTT
1 TTTTCTATTTTTCAATTTATTGCTTT
* * *
43228 TTTTTTTTTTTTTAATTTATTGCTTT
1 TTTTCTATTTTTCAATTTATTGCTTT
43254 T
1 T
43255 GATAAATGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 12 0.55
25 2 0.09
26 8 0.36
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTTCTATTTTTCAATTTATTGCTTT
Found at i:43357 original size:23 final size:23
Alignment explanation
Indices: 43331--43405 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
43321 TAATTATTAT
*
43331 ATTATTTTAAATTTTATAAAATA
1 ATTAATTTAAATTTTATAAAATA
43354 ATTAATTT-AA---TATAAAATAA
1 ATTAATTTAAATTTTATAAAAT-A
43374 ATT--TTTAAATTTTATAAAAATA
1 ATTAATTTAAATTTTAT-AAAATA
43396 ATTAATTTAA
1 ATTAATTTAA
43406 TATAAAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
18 3 0.07
19 10 0.23
20 4 0.09
22 9 0.21
23 12 0.28
24 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTAATTTAAATTTTATAAAATA
Found at i:43369 original size:19 final size:19
Alignment explanation
Indices: 43345--43415 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 19
43335 TTTTAAATTT
43345 TATAAAATAATTAATTTAA
1 TATAAAATAATTAATTTAA
*
43364 TATAAAATAAATTTTTAAATTTTA
1 TATAAAAT-AA---TT-AATTTAA
43388 TA-AAAATAATTAATTTAA
1 TATAAAATAATTAATTTAA
43406 TATAAAATAA
1 TATAAAATAA
43416 ATTTTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
18 8 0.18
19 17 0.39
20 2 0.05
22 2 0.05
23 7 0.16
24 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAAATAATTAATTTAA
Found at i:43382 original size:41 final size:42
Alignment explanation
Indices: 43335--43421 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
43325 TATTATATTA
43335 TTTTAAATTTTAT-AAAATAATTAATTTAATATAAAATAAAT
1 TTTTAAATTTTATAAAAATAATTAATTTAATATAAAATAAAT
43376 TTTTAAATTTTATAAAAATAATTAATTTAATATAAAATAAAT
1 TTTTAAATTTTATAAAAATAATTAATTTAATATAAAATAAAT
43418 TTTT
1 TTTT
43422 TTAAAATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 13 0.29
42 32 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (42 bp):
TTTTAAATTTTATAAAAATAATTAATTTAATATAAAATAAAT
Found at i:43417 original size:23 final size:23
Alignment explanation
Indices: 43349--43417 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
43339 AAATTTTATA
43349 AAATAATTAATTTAATATAAAAT
1 AAATAATTAATTTAATATAAAAT
**
43372 AAATTTTTAAATTT--TAT--AA-
1 AAATAATT-AATTTAATATAAAAT
43391 AAATAATTAATTTAATATAAAAT
1 AAATAATTAATTTAATATAAAAT
43414 AAAT
1 AAAT
43418 TTTTTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
18 5 0.14
19 6 0.17
20 5 0.14
22 5 0.14
23 10 0.28
24 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATAATTAATTTAATATAAAAT
Found at i:43598 original size:14 final size:14
Alignment explanation
Indices: 43579--43622 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
43569 AATTAAGTGA
43579 TTTAAAAATATTTT
1 TTTAAAAATATTTT
* *
43593 TTTAAAATTATTATA
1 TTTAAAAATATT-TT
*
43608 TTTAATAATATTTT
1 TTTAAAAATATTTT
43622 T
1 T
43623 ATTTAATTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAAAAATATTTT
Found at i:43747 original size:13 final size:13
Alignment explanation
Indices: 43731--43755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43721 TATATACATG
43731 TATTATTTGAATA
1 TATTATTTGAATA
43744 TATTATTTGAAT
1 TATTATTTGAAT
43756 TAGAATTTTA
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TATTATTTGAATA
Found at i:43823 original size:18 final size:18
Alignment explanation
Indices: 43790--43824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43780 TTTGTCATAT
*
43790 ATTTTAATTTGCTAAATG
1 ATTTTAATTTACTAAATG
*
43808 ATTTTAATTTATTAAAT
1 ATTTTAATTTACTAAAT
43825 TAATTTAAAA
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:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (18 bp):
ATTTTAATTTACTAAATG
Found at i:43843 original size:19 final size:17
Alignment explanation
Indices: 43830--43886 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 17
43820 TAAATTAATT
43830 TAAAAATATAAAATTAAA
1 TAAAAAT-TAAAATTAAA
*
43848 TAAAAATTAAATACATAAA
1 TAAAAATTAAA-A-TTAAA
** *
43867 TAAATTTTAAATTTAAA
1 TAAAAATTAAAATTAAA
43884 TAA
1 TAA
43887 CCGAAACTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.34
18 8 0.25
19 13 0.41
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAATTAAAATTAAA
Found at i:45049 original size:23 final size:22
Alignment explanation
Indices: 45018--45122 Score: 104
Period size: 22 Copynumber: 4.5 Consensus size: 22
45008 TTGGCTGAAG
* *
45018 AAATTAATTTTTAAATTTTTAT
1 AAATAAATTTTTAATTTTTTAT
45040 AAATAAAATTTTATTAATTTTTTTAT
1 AAAT-AAA-TTT-TTAA-TTTTTTAT
*
45066 AAATAATTTTATTAATTTTTTAT
1 AAATAAATTT-TTAATTTTTTAT
*
45089 AAAT-AATTTTATTATTTTTTAT
1 AAATAAATTTT-TAATTTTTTAT
*
45111 AAATTAATTTTT
1 AAATAAATTTTT
45123 TATAAATAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.01
22 23 0.32
23 20 0.28
24 11 0.15
25 6 0.08
26 11 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATAAATTTTTAATTTTTTAT
Found at i:45122 original size:24 final size:24
Alignment explanation
Indices: 45018--45121 Score: 137
Period size: 23 Copynumber: 4.5 Consensus size: 24
45008 TTGGCTGAAG
*
45018 AAATTAA-TTT-TTAAATTTTTAT
1 AAATTAATTTTATTAATTTTTTAT
*
45040 AAATAAAATTTTATTAATTTTTTTAT
1 AAAT-TAATTTTATTAA-TTTTTTAT
45066 AAA-TAATTTTATTAATTTTTTAT
1 AAATTAATTTTATTAATTTTTTAT
45089 AAA-TAATTTTATT-ATTTTTTAT
1 AAATTAATTTTATTAATTTTTTAT
45111 AAATTAATTTT
1 AAATTAATTTT
45122 TTATAAATAA
Statistics
Matches: 74, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
22 16 0.22
23 30 0.41
24 14 0.19
25 4 0.05
26 10 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AAATTAATTTTATTAATTTTTTAT
Found at i:48413 original size:18 final size:18
Alignment explanation
Indices: 48390--48435 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
48380 TTATCAACCC
48390 CAAATGTATCCTCTACCA
1 CAAATGTATCCTCTACCA
* *
48408 CAAATGTATCCTCTATCT
1 CAAATGTATCCTCTACCA
48426 CAAATGTATC
1 CAAATGTATC
48436 ATCCTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (18 bp):
CAAATGTATCCTCTACCA
Found at i:50304 original size:21 final size:20
Alignment explanation
Indices: 50275--50313 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50265 TGTAAAAATT
*
50275 AATTACTCTTTCAATATTTTC
1 AATTACTC-TTAAATATTTTC
*
50296 AATTTCTCTTAAATATTT
1 AATTACTCTTAAATATTT
50314 CTAATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTACTCTTAAATATTTTC
Found at i:51910 original size:17 final size:17
Alignment explanation
Indices: 51888--51920 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51878 AATGAGATTG
51888 AAAAAAGATTTATGTGA
1 AAAAAAGATTTATGTGA
*
51905 AAAAAATATTTATGTG
1 AAAAAAGATTTATGTG
51921 TCTTAGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (17 bp):
AAAAAAGATTTATGTGA
Found at i:59580 original size:13 final size:13
Alignment explanation
Indices: 59562--59586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59552 CAATTTTTTG
59562 TGTATCGATACAT
1 TGTATCGATACAT
59575 TGTATCGATACA
1 TGTATCGATACA
59587 AACTTTGGTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:59584 original size:33 final size:33
Alignment explanation
Indices: 59542--59606 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
59532 TACAAGCTAA
** *
59542 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAAACTTTGGTGTATCGATACAT
59575 TGTATCGATACAAACTTTGGTGTATCGATACA
1 TGTATCGATACAAACTTTGGTGTATCGATACA
59607 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAAACTTTGGTGTATCGATACAT
Found at i:59711 original size:20 final size:20
Alignment explanation
Indices: 59659--59713 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
59649 CATATTTTTG
*
59659 ATGTATCGATACATTGCAAC
1 ATGTATCGATACTTTGCAAC
*
59679 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-C
59699 ATGTATCGATACTTT
1 ATGTATCGATACTTT
59714 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAC
Found at i:61717 original size:21 final size:20
Alignment explanation
Indices: 61688--61730 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
61678 GGCTAGTATG
* *
61688 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCAACCT
*
61709 GGGAGTGCCGGTCGCAACCT
1 GGGACTGCCGGTCGCAACCT
61729 GG
1 GG
61731 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCAACCT
Found at i:62190 original size:13 final size:13
Alignment explanation
Indices: 62172--62210 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
62162 ATAATCCCCC
*
62172 TGTATCGATACAG
1 TGTATCGATACAA
*
62185 TGTATCGATATAA
1 TGTATCGATACAA
62198 TGTATCGATACAA
1 TGTATCGATACAA
62211 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:68507 original size:79 final size:79
Alignment explanation
Indices: 68376--68685 Score: 514
Period size: 79 Copynumber: 3.9 Consensus size: 79
68366 TTTTGGAGAT
* * *
68376 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
*
68441 AGTATCCCCTCGGA
66 AGTATCCCCTCGAA
** *
68455 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
68520 AGTATCCCCTCGAA
66 AGTATCCCCTCGAA
* * *
68534 AATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
68599 AGTATCCCCTCGAA
66 AGTATCCCCTCGAA
*
68613 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
68677 AGTATCCCC
66 AGTATCCCC
68686 GATTGTGAAA
Statistics
Matches: 220, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
78 22 0.10
79 198 0.90
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
AGTATCCCCTCGAA
Found at i:68664 original size:158 final size:158
Alignment explanation
Indices: 68376--69174 Score: 625
Period size: 158 Copynumber: 4.7 Consensus size: 158
68366 TTTTGGAGAT
* * * *
68376 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
* * * *
68441 AGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAAT
66 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAAT
68506 AAAACCGGGGTTGGAGTATCCCCTCGAA
131 AAAACCGGGGTTGGAGTATCCCCTCGAA
* *
68534 AATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
*
68599 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT
66 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAAT
*
68664 -AAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGA
131 AAAACCGGGGTTGGAGTATCCCC---T-CG---------------A-A
* * * **** *
68711 AATAAACCGGGGTTGGAGTATCCCC--TCG-AAAATAACGGGGTTGGAGTATCCCCGATTATGAA
1 AAT-AA-CGGGGTTGGAGTATCCCCGATTGTGAAA-AA-----TT--AATATTTTAGA-AAT-AA
* * * * * *
68773 AA-----ATTGGTGT-T---TTAGAAATAAAACCGGGGTTGGAGTATCCCTTCAGAAATAACGGG
54 AACCGGGGTTGGAGTATCCCCTCGAAA-ATAA-CGGGGTTGGAGTATCCC--C-G--AT----TG
* ** * *
68829 ATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
108 --TGAAAAAT---TGA-TAT---T----------TTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
68894 TCGGA
154 TCGAA
68899 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
* *
68964 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAAT
66 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAAT
* *
69029 AAAGCCGGGGTTGGAGTATCCCCTCGGA
131 AAAACCGGGGTTGGAGTATCCCCTCGAA
69057 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
69122 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
66 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
69175 GAAACTTAAC
Statistics
Matches: 507, Mismatches: 59, Indels: 150
0.71 0.08 0.21
Matches are distributed among these distances:
157 22 0.04
158 271 0.53
160 1 0.00
161 1 0.00
171 2 0.00
172 2 0.00
175 5 0.01
176 4 0.01
177 13 0.03
178 5 0.01
179 38 0.07
180 3 0.01
181 15 0.03
182 3 0.01
183 3 0.01
184 14 0.03
185 3 0.01
186 39 0.08
187 5 0.01
188 14 0.03
189 3 0.01
190 5 0.01
193 1 0.00
194 3 0.01
204 1 0.00
205 1 0.00
207 8 0.02
208 22 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (158 bp):
AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAAT
AAAACCGGGGTTGGAGTATCCCCTCGAA
Found at i:68685 original size:50 final size:50
Alignment explanation
Indices: 68618--68735 Score: 236
Period size: 50 Copynumber: 2.4 Consensus size: 50
68608 TCGAAAATAA
68618 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAC
68668 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAC
68718 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
68736 TCGAAAATAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAC
Found at i:68758 original size:207 final size:208
Alignment explanation
Indices: 68453--68893 Score: 701
Period size: 207 Copynumber: 2.1 Consensus size: 208
68443 TATCCCCTCG
** *
68453 GAAAT-AA-CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGG
1 GAAATAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGG
*
68516 TTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAA
66 TTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAA
* *
68581 AAATAAAACCGGGGTTGGAGTATCCCCTC-GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAA
131 AAATAAAACCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGATTGGAGTATCCCCGATTATGAA
68645 AAATTAATATTTTA
195 AAATTAATATTTTA
*
68659 GAAATAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGGGG
1 GAAATAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGG
* ** * *
68723 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAG
66 TTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAA
*
68788 AAATAAAACCGGGGTTGGAGTATCCCTTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAA
131 AAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAA
* *
68853 AATTGATGTTTTA
196 AATTAATATTTTA
68866 GAAATAAAACCGGGGTTGGAGTATCCCC
1 GAAAT-AAACCGGGGTTGGAGTATCCCC
68894 TCGGAAATAA
Statistics
Matches: 216, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
206 5 0.02
207 146 0.68
208 65 0.30
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (208 bp):
GAAATAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGG
TTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAA
AAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAA
AATTAATATTTTA
Found at i:68773 original size:128 final size:130
Alignment explanation
Indices: 68539--68813 Score: 482
Period size: 128 Copynumber: 2.1 Consensus size: 130
68529 TCGAAAATAA
*
68539 CGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGGAGTAT
*
68604 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAAC
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
*
68668 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGGAGTAT
** *
68732 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
68797 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
68814 TTCAGAAATA
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
128 74 0.53
129 65 0.47
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
Found at i:68842 original size:79 final size:78
Alignment explanation
Indices: 68659--69174 Score: 836
Period size: 79 Copynumber: 6.5 Consensus size: 78
68649 TAATATTTTA
*
68659 GAAATAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGGGG
1 GAAAT-AA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGG
68723 TTGGAGTATCCCCTC
64 TTGGAGTATCCCCTC
* * *
68738 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGT
1 G-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGT
*
68803 TGGAGTATCCCTTC
65 TGGAGTATCCCCTC
* * *
68817 AGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGT
1 -GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGT
68882 TGGAGTATCCCCTC
65 TGGAGTATCCCCTC
*
68896 GGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGT
1 -GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGT
68961 TGGAGTATCCCCTC
65 TGGAGTATCCCCTC
* * *
68975 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGT
1 G-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGT
69040 TGGAGTATCCCCTC
65 TGGAGTATCCCCTC
*
69054 GGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGT
1 -GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGT
69119 TGGAGTATCCCCTC
65 TGGAGTATCCCCTC
69133 GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 G-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
69175 GAAACTTAAC
Statistics
Matches: 409, Mismatches: 22, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
78 44 0.11
79 359 0.88
80 6 0.01
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (78 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTT
GGAGTATCCCCTC
Found at i:69082 original size:237 final size:236
Alignment explanation
Indices: 68659--69172 Score: 920
Period size: 237 Copynumber: 2.2 Consensus size: 236
68649 TAATATTTTA
68659 GAAATAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAACCGGGGT
1 GAAAT-AA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAACCGGGGT
*
68724 TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGA
64 TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGA
*
68789 AATAAAACCGGGGTTGGAGTATCCCTTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAA
129 AATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAA
* *
68854 ATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCG
194 ATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCG
68897 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGGGGTT
68962 GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAA
65 GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAA
* * * *
69027 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
130 ATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAA
69092 TTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCG
195 TTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCG
*
69134 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT
69173 GAGAAACTTA
Statistics
Matches: 266, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
236 46 0.17
237 215 0.81
238 5 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (236 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAACCGGGGTTG
GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAA
TAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAAT
TAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCG
Found at i:70175 original size:18 final size:18
Alignment explanation
Indices: 70101--70175 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
70091 AATTGCTACC
* *
70101 TGCTGAAGTTGCTGCTCT
1 TGCTGGAGTTGCTGCTGT
* * * *
70119 CGCTGGAGCTGCTGTTGCG
1 TGCTGGAGTTGCTGCTG-T
*
70138 TGCTGGAGTTGCAG-TCGT
1 TGCTGGAGTTGCTGCT-GT
70156 TGCTGGAGTTGCTGCTGT
1 TGCTGGAGTTGCTGCTGT
70174 TG
1 TG
70176 TTGCGTGCTG
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 30 0.70
19 13 0.30
ACGTcount: A:0.08, C:0.20, G:0.37, T:0.35
Consensus pattern (18 bp):
TGCTGGAGTTGCTGCTGT
Found at i:70232 original size:47 final size:43
Alignment explanation
Indices: 70126--70224 Score: 135
Period size: 43 Copynumber: 2.2 Consensus size: 43
70116 TCTCGCTGGA
* *
70126 GCTGCTGTTGCGTGCTGGAGTTGCAGTCGTTGCTGGAGTTGCT
1 GCTGTTGTTGCGTGCTGGAGTTGCAGTCGTTGCTGGAGCTGCT
*
70169 GCTGTTGTTGCGTGCTGGAGTTGCAGTCGTTGGCTACTGGAGCTGTT
1 GCTGTTGTTGCGTGCTGGAGTTGCAGTCGTT-G---CTGGAGCTGCT
70216 GCTGTTGTT
1 GCTGTTGTT
70225 TTTTGCTGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 30 0.61
44 1 0.02
47 18 0.37
ACGTcount: A:0.07, C:0.17, G:0.38, T:0.37
Consensus pattern (43 bp):
GCTGTTGTTGCGTGCTGGAGTTGCAGTCGTTGCTGGAGCTGCT
Found at i:70787 original size:50 final size:50
Alignment explanation
Indices: 70727--70889 Score: 274
Period size: 50 Copynumber: 3.3 Consensus size: 50
70717 GCTTTTTTCA
*
70727 TTTCCCATGCATGTCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
* * *
70777 TTTCCCATGCATGCCTCCGCATGTTTTGTCTCCAATTGCAA-TTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
*
70826 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATCTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
70876 TTTCCCATGCATGC
1 TTTCCCATGCATGC
70890 ATTTTCTATT
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 46 0.44
50 58 0.56
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.43
Consensus pattern (50 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
Found at i:71052 original size:6 final size:6
Alignment explanation
Indices: 71018--71044 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
71008 ATTATTATTT
71018 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
71045 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:71979 original size:60 final size:60
Alignment explanation
Indices: 71741--72428 Score: 878
Period size: 60 Copynumber: 11.3 Consensus size: 60
71731 ATAAAGTGTA
* *
71741 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTCGTGTGGGCTTTTTGAAAA-GAAAAGGCG
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGC--TTT-AAAAGGAAAAGGCG
* * * *
71804 TCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGCGTGGACTTTGAAAA-GAAAAGGCG
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * *
71866 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAA-GCG
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGG-AAAAGGCG
*
71928 TCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
** *
71988 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCGAAGGTG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
72048 TCCTGCTTTTTGAGGACTGAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * *
72110 TCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAA-GCG
1 TCCTGCTCTTTGAGGA-C-TAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGG-AAAAGGCG
*
72172 TCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
72232 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAAAA-GCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGG-AAAAGGCG
* *
72292 TCCTGCTCTTTGAAGACTAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
** *
72352 TCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
72408 TCCTGCTCTTTGAGGACTAAA
1 TCCTGCTCTTTGAGGACTAAA
72429 AGGGTGAAAG
Statistics
Matches: 570, Mismatches: 41, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
54 3 0.01
56 26 0.05
59 10 0.02
60 265 0.46
61 8 0.01
62 210 0.37
63 30 0.05
64 18 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:72078 original size:244 final size:244
Alignment explanation
Indices: 71741--72407 Score: 1069
Period size: 244 Copynumber: 2.7 Consensus size: 244
71731 ATAAAGTGTA
* * *
71741 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTCGTGTGGGCTTTTTGAAAA-GAAAAGGCG
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGC--TTT-AAAAGGCAAAGGCG
* * *
71804 TCCTGCTCTTTGAGGACTGGAAAA-GTGCCACCAACTTGCGTGGACTTTGAAAAGAAAAGGCGTC
61 TCCTGCTCTTTGAGGACT-GAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAGGCGTC
71868 CTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTG
125 CTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTG
71933 CTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
190 CTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
71988 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCGAAGGTGTCCTG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAAAGGCGTCCTG
* *
72053 CTTTTTGAGGACTGAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTC
66 CTCTTTGAGGACTGAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTC
* *
72118 TTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTGCTCTTT
131 TTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTGCTCTTT
72183 GAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
196 GAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
72232 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAAAAGCGTCCTG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAAAGGCGTCCTG
* *
72297 CTCTTTGAAGACT--AAAGGTGCCACTAGCTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCT
66 CTCTTTGAGGACTGAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAA-GAAAAGGCGTCCTGCT
*
72359 CTTTGAGGACTAGAAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCG
130 CTTTGAGGACT-GAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
72408 TCCTGCTCTT
Statistics
Matches: 393, Mismatches: 22, Indels: 15
0.91 0.05 0.03
Matches are distributed among these distances:
241 3 0.01
242 83 0.21
243 14 0.04
244 253 0.64
245 3 0.01
246 19 0.05
247 18 0.05
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (244 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAAAGGCGTCCTG
CTCTTTGAGGACTGAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTC
TTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTGCTCTTT
GAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:85942 original size:79 final size:79
Alignment explanation
Indices: 85811--86042 Score: 383
Period size: 79 Copynumber: 2.9 Consensus size: 79
85801 TTTTGGAGAT
*
85811 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
*
85876 AGTATCCCCTCGGA
66 AGTATCCCCTCGAA
*
85890 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
85955 AGTATCCCCTCGAA
66 AGTATCCCCTCGAA
* * * * * *
85969 AATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAACCGGGGTTGT
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
86034 AGTATCCCC
66 AGTATCCCC
86043 GATTGTGAAA
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 143 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
AGTATCCCCTCGAA
Found at i:86041 original size:51 final size:50
Alignment explanation
Indices: 85967--86092 Score: 193
Period size: 51 Copynumber: 2.5 Consensus size: 50
85957 TATCCCCTCG
*
85967 AAAAT-AA-CGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
1 AAAATAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
*
86015 AAAATAAAACCGGGGTTGTAGTATCCCCGATTGTGAAAAATTAATATTTTA
1 AAAAT-AAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
* *
86066 GAAATAAACCGAGGTTGGAGTATCCCC
1 AAAATAAACCGGGGTTGGAGTATCCCC
86093 TCGAAAATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
48 5 0.07
50 22 0.31
51 43 0.61
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (50 bp):
AAAATAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTA
Found at i:86130 original size:129 final size:130
Alignment explanation
Indices: 85895--86171 Score: 439
Period size: 129 Copynumber: 2.1 Consensus size: 130
85885 TCGGAAATAA
** * *
85895 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
*
85960 CCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAAC
66 CCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAAC
* *
86025 CGGGGTTGTAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
* ** * *
86089 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
66 CCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAAC
86154 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
86172 TCAGAAATAA
Statistics
Matches: 134, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
129 93 0.69
130 41 0.31
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
CCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAAC
Found at i:86154 original size:208 final size:208
Alignment explanation
Indices: 85816--86250 Score: 721
Period size: 208 Copynumber: 2.1 Consensus size: 208
85806 GAGATAATAA
* * *
85816 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTT-GAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
*
85881 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
65 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
* *
85946 CGGGGTTGGAGTATCCCCTC-GAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAATA
130 CGGGGTTGGAGTATCCCCTCAG-AAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTAATA
86010 TTTTAAAAATAAAAC
194 TTTTAAAAATAAAAC
*
86025 CGGGGTTGTAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGAGGTTGGAGTAT
1 CGGGGTTG-AGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
86089 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
65 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
* *
86154 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGT
130 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTAATAT
* *
86219 TTTAGAAATAAAGC
195 TTTAAAAATAAAAC
86233 CGGGGTTGGAGTATCCCC
1 CGGGGTT-GAGTATCCCC
86251 TCGGAAATAA
Statistics
Matches: 212, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
208 169 0.80
209 43 0.20
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (208 bp):
CGGGGTTGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATC
CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACC
GGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTAATATT
TTAAAAATAAAAC
Found at i:86191 original size:79 final size:79
Alignment explanation
Indices: 86025--86531 Score: 820
Period size: 79 Copynumber: 6.4 Consensus size: 79
86015 AAAATAAAAC
* * *
86025 CGGGGTTGTAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT-AAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
86089 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * *
86103 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
86168 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
* * * * *
86182 CGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
86247 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
*
86261 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
86326 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * *
86340 CGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
86405 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
*
86419 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
86484 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
86498 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
86532 GAAACTTAAC
Statistics
Matches: 395, Mismatches: 31, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
78 42 0.11
79 353 0.89
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:86327 original size:287 final size:287
Alignment explanation
Indices: 85811--86329 Score: 939
Period size: 287 Copynumber: 1.8 Consensus size: 287
85801 TTTTGGAGAT
85811 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
* * * *
85876 AGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAAT
66 AGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAAT
85941 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATT
131 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATT
*
86006 AATATTTTAAAAATAAAACCGGGGTTGTAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT
196 AATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT
86071 AAACCGAGGTTGGAGTATCCCCTCGAA
261 AAACCGAGGTTGGAGTATCCCCTCGAA
* *
86098 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGG
1 AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
86163 AGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAAT
66 AGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAAT
* * *
86228 AAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT
131 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATT
*
86293 AATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
196 AATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
86330 TCGAAAATAA
Statistics
Matches: 221, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
287 221 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (287 bp):
AATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGG
AGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCAGATTATGAAAAATTGATGTTTTAGAAAT
AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATT
AATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAAT
AAACCGAGGTTGGAGTATCCCCTCGAA
Found at i:87519 original size:18 final size:18
Alignment explanation
Indices: 87445--87519 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
87435 AATTGCTACC
* *
87445 TGCTGAAGTTGCTGCTCT
1 TGCTGGAGTTGCTGCTGT
* * * *
87463 CGCTGGAGCTGCTGTTGCG
1 TGCTGGAGTTGCTGCTG-T
*
87482 TGCTGGAGTTGCAG-TCGT
1 TGCTGGAGTTGCTGCT-GT
87500 TGCTGGAGTTGCTGCTGT
1 TGCTGGAGTTGCTGCTGT
87518 TG
1 TG
87520 TTGCGTGCTG
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 30 0.70
19 13 0.30
ACGTcount: A:0.08, C:0.20, G:0.37, T:0.35
Consensus pattern (18 bp):
TGCTGGAGTTGCTGCTGT
Found at i:87576 original size:47 final size:43
Alignment explanation
Indices: 87470--87568 Score: 135
Period size: 43 Copynumber: 2.2 Consensus size: 43
87460 TCTCGCTGGA
* *
87470 GCTGCTGTTGCGTGCTGGAGTTGCAGTCGTTGCTGGAGTTGCT
1 GCTGTTGTTGCGTGCTGGAGTTGCAGTCGTTGCTGGAGCTGCT
*
87513 GCTGTTGTTGCGTGCTGGAGTTGCAGTCGTTGGCTACTGGAGCTGTT
1 GCTGTTGTTGCGTGCTGGAGTTGCAGTCGTT-G---CTGGAGCTGCT
87560 GCTGTTGTT
1 GCTGTTGTT
87569 TTTTGCTGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 30 0.61
44 1 0.02
47 18 0.37
ACGTcount: A:0.07, C:0.17, G:0.38, T:0.37
Consensus pattern (43 bp):
GCTGTTGTTGCGTGCTGGAGTTGCAGTCGTTGCTGGAGCTGCT
Found at i:88194 original size:49 final size:49
Alignment explanation
Indices: 88075--88235 Score: 245
Period size: 49 Copynumber: 3.3 Consensus size: 49
88065 GCTTTTTTAA
* *
88075 TTTCCCATGCATGTCTCTGCATG--TTGTCTCCAATTACAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAA-TTTTATGC
* * *
88123 TTTCCCATGCATGCCTCCGCATGTTTTGTCTCCAATTGCAATTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTATGC
88172 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATCTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAAT-TTTATGC
88222 TTTCCCATGCATGC
1 TTTCCCATGCATGC
88236 ATTTTCTATT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
48 21 0.21
49 47 0.46
50 34 0.33
ACGTcount: A:0.16, C:0.27, G:0.14, T:0.42
Consensus pattern (49 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTATGC
Found at i:88400 original size:6 final size:6
Alignment explanation
Indices: 88366--88392 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
88356 ATTATTATTT
88366 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
88393 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:89366 original size:13 final size:13
Alignment explanation
Indices: 89348--89373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89338 ACAAAGATCC
89348 ATGTATCGATACA
1 ATGTATCGATACA
89361 ATGTATCGATACA
1 ATGTATCGATACA
89374 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:89369 original size:33 final size:33
Alignment explanation
Indices: 89327--89393 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
89317 AAAATTTCCA
***
89327 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
89360 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
89393 A
1 A
89394 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:89437 original size:19 final size:19
Alignment explanation
Indices: 89413--89467 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
89403 CAGTAGCTAA
*
89413 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
89432 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
89451 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
89468 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:89547 original size:21 final size:21
Alignment explanation
Indices: 89523--89578 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
89513 CATTTGTAGG
89523 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
89544 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
89565 ATGTATCGATACAT
1 ATGTATCGATACAT
89579 AAATATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:100523 original size:13 final size:13
Alignment explanation
Indices: 100505--100529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100495 CAAAGATCAG
100505 TGTATCGATACAA
1 TGTATCGATACAA
100518 TGTATCGATACA
1 TGTATCGATACA
100530 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:100607 original size:33 final size:33
Alignment explanation
Indices: 100570--100636 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
100560 AGTAGCTTAA
100570 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
100603 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
100636 A
1 A
100637 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:100610 original size:13 final size:13
Alignment explanation
Indices: 100592--100616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100582 CAAAAAAATA
100592 TGTATCGATACAT
1 TGTATCGATACAT
100605 TGTATCGATACA
1 TGTATCGATACA
100617 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:104250 original size:22 final size:19
Alignment explanation
Indices: 104210--104251 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
104200 TTTTCTTAGT
104210 TTAAAATTTTTAAAATTCA
1 TTAAAATTTTTAAAATTCA
104229 TTAAATATTTTTATTAAATTCA
1 TTAAA-ATTTTTA--AAATTCA
104251 T
1 T
104252 ATTAAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
22 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAAATTTTTAAAATTCA
Found at i:104787 original size:9 final size:10
Alignment explanation
Indices: 104763--104788 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
104753 AGAAAGCAAG
104763 CAAAAACCAA
1 CAAAAACCAA
104773 CAAAAACCAA
1 CAAAAACCAA
104783 CAAAAA
1 CAAAAA
104789 ACAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACCAA
Found at i:107678 original size:26 final size:26
Alignment explanation
Indices: 107625--107679 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
107615 CAGAGATAGA
* *
107625 ATTGATAAAGTTCAATTTTATCTGAG
1 ATTGATAAAGTTCAACTTTATCTAAG
* *
107651 ATTGATAAAGTTTAACTTTATTTAAG
1 ATTGATAAAGTTCAACTTTATCTAAG
107677 ATT
1 ATT
107680 TTAGATAGTT
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:0.36, C:0.05, G:0.13, T:0.45
Consensus pattern (26 bp):
ATTGATAAAGTTCAACTTTATCTAAG
Found at i:111010 original size:22 final size:22
Alignment explanation
Indices: 110985--111026 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
110975 AAATACATTT
*
110985 ATTAAAT-TTTTATTATTAATAA
1 ATTAAATCATTTA-TATTAATAA
111007 ATTAAATCATTTATATTAAT
1 ATTAAATCATTTATATTAAT
111027 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTAAATCATTTATATTAATAA
Found at i:111133 original size:18 final size:18
Alignment explanation
Indices: 111103--111145 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
111093 ATATTATAAA
*
111103 ATATAAAATATAAGTTAT
1 ATATAAAATATAAGTCAT
111121 ATATACAAA-ATAAGTCAT
1 ATATA-AAATATAAGTCAT
111139 ATATAAA
1 ATATAAA
111146 GAACTTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
ATATAAAATATAAGTCAT
Found at i:111246 original size:14 final size:14
Alignment explanation
Indices: 111224--111253 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
111214 AGATGTATTA
*
111224 TATATATGAAAACT
1 TATACATGAAAACT
111238 TATACATGAAAACT
1 TATACATGAAAACT
111252 TA
1 TA
111254 ATTTCTGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (14 bp):
TATACATGAAAACT
Found at i:111618 original size:155 final size:152
Alignment explanation
Indices: 111330--111646 Score: 374
Period size: 155 Copynumber: 2.1 Consensus size: 152
111320 GTCTTTAATA
* * * *
111330 TATATATGT--TTGAAGGGTAAAGAGGAATAATTGTGTTAATTATGATCTAATCTTAACGAAGGC
1 TATATATGTAGTTGAAGGGTAAAGAGGAATAATTGTCTTAATTATGATCTAACCTTAACCAAGAC
* *
111393 CAAGGCTTTAAATGGAGACATTTACAGCACCATCTTCCTCTATAATTTTTCTTTGTGCTTTAGCA
66 CAAGACTTTAAATGGAGACATTTA-AGCACCATCTTCCTCTATAATTTTTCTTTGGGCTTTAGCA
*
111458 CTTCTTCTTTCCACTTTGAT-TATTT
130 CTTCTT-TTT--AATTTGATGTATTT
* * * * **
111483 TATATATGTAGTTGACGGGTAAAGAGGAATAATTGTCTTAATTATTATTTGACCTTGGCCAAGAC
1 TATATATGTAGTTGAAGGGTAAAGAGGAATAATTGTCTTAATTATGATCTAACCTTAACCAAGAC
* * *
111548 CAAGACTTTAATTGTAGACATTT-A-CACCATCTTCCTCTATAATTTTTTTTTGGGCTTTAGCCC
66 CAAGACTTTAAATGGAGACATTTAAGCACCATCTTCCTCTATAATTTTTCTTTGGGCTTTAG--C
*
111611 ATTTTCTTTTTAATTTGATGTATTT
129 A-CTTCTTTTTAATTTGATGTATTT
*
111636 TATAAATGTAG
1 TATATATGTAG
111647 AGTTTTTAAT
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
152 41 0.29
153 25 0.18
154 5 0.04
155 69 0.49
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (152 bp):
TATATATGTAGTTGAAGGGTAAAGAGGAATAATTGTCTTAATTATGATCTAACCTTAACCAAGAC
CAAGACTTTAAATGGAGACATTTAAGCACCATCTTCCTCTATAATTTTTCTTTGGGCTTTAGCAC
TTCTTTTTAATTTGATGTATTT
Found at i:112514 original size:22 final size:22
Alignment explanation
Indices: 112489--112553 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
112479 TATTATTTGT
112489 TTTAATAAAATTAAAAA-TAATA
1 TTTAATAAAATTAAAAATTAA-A
**
112511 TTTAATTAAGTTTAAAAATTAAA
1 TTTAA-TAAAATTAAAAATTAAA
112534 -TTAAT-AAATTAAAATATTAA
1 TTTAATAAAATTAAAA-ATTAA
112554 TTATTATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 7 0.19
21 6 0.17
22 9 0.25
23 11 0.31
24 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAATAAAATTAAAAATTAAA
Found at i:112588 original size:31 final size:30
Alignment explanation
Indices: 112534--112609 Score: 75
Period size: 32 Copynumber: 2.5 Consensus size: 30
112524 AAAAATTAAA
* * *
112534 TTAAT-AAATTAAAATATTAATTATTATGTT
1 TTAATAAAATAAAAAAATTAATTATAAT-TT
*
112564 TTTATAAAAATAAAAAAATT-ATTATAATTT
1 TTAAT-AAAATAAAAAAATTAATTATAATTT
*
112594 TTAATCAAATAAAAAA
1 TTAATAAAATAAAAAA
112610 TAATATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 10 0.26
30 10 0.26
31 7 0.18
32 11 0.29
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (30 bp):
TTAATAAAATAAAAAAATTAATTATAATTT
Found at i:112594 original size:28 final size:28
Alignment explanation
Indices: 112552--112609 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
112542 TTAAAATATT
* *
112552 AATTATTAT-GTTTTTATAAAAATAAAAA
1 AATTATTATAATTTTTA-ACAAATAAAAA
112580 AATTATTATAATTTTTAATCAAATAAAAA
1 AATTATTATAATTTTTAA-CAAATAAAAA
112609 A
1 A
112610 TAATATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
AATTATTATAATTTTTAACAAATAAAAA
Found at i:112709 original size:104 final size:101
Alignment explanation
Indices: 112368--112719 Score: 347
Period size: 106 Copynumber: 3.3 Consensus size: 101
112358 AATGTATTAA
* * *
112368 TTATTATTTTTTTCAT-AAAAATAATATTTAATTAAGTTTAAAAAAATTTATATTAATAAATTGA
1 TTATTATTTTTTTAATAAAAAATAATATTTAATTAAGTTT-AAAAAATTTAAATTAATAAATTAA
*
112432 AATATTAATTATT-TTTTTCAAATAAAAAATAAAAAAGGTTTTTTT
65 AATATTAATTATTATTTTT----TAAAAAATAAAAAA-----TATT
112477 ATTATTATTTGTTTTAATAAAATTAAAAATAATATTTAATTAAGTTT-AAAAA-TTAAATTAATA
1 -TTATTATTT-TTTTAAT---A--AAAAATAATATTTAATTAAGTTTAAAAAATTTAAATTAATA
112540 AATTAAAATATTAATTATTATGTTTTTATAAAAATAAAAAA-ATT
59 AATTAAAATATTAATTATTAT-TTTTTA-AAAAATAAAAAATATT
* * * *
112584 ATTATAATTTTTAATCAAATAAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAAT
1 -TTATTATTTTT--T-TAATAAAAAATAATATTTAATTAAGTTTAAAAAATTTAAATTAATAAAT
112649 TAAAATATTAATTATTATATTTTTAAAAAATAAAAAATATT
62 TAAAATATTAATTATTAT-TTTTTAAAAAATAAAAAATATT
112690 TTCATTATTATTTTTAATAAAATAA-AATAT
1 TT-ATTATT-TTTTTAATAAAA-AATAATAT
112720 AACATTTAAT
Statistics
Matches: 212, Mismatches: 11, Indels: 44
0.79 0.04 0.16
Matches are distributed among these distances:
104 35 0.17
105 22 0.10
106 47 0.22
107 14 0.07
108 1 0.00
109 3 0.01
110 9 0.04
111 6 0.03
112 2 0.01
113 12 0.06
114 28 0.13
115 6 0.03
116 4 0.02
117 23 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (101 bp):
TTATTATTTTTTTAATAAAAAATAATATTTAATTAAGTTTAAAAAATTTAAATTAATAAATTAAA
ATATTAATTATTATTTTTTAAAAAATAAAAAATATT
Found at i:112717 original size:31 final size:29
Alignment explanation
Indices: 112640--112719 Score: 81
Period size: 32 Copynumber: 2.6 Consensus size: 29
112630 AAAATTTACA
*
112640 TTAACAAATTAAAATATTAATTATTATATTT
1 TTAA-AAAATAAAATATT-ATTATTATATTT
112671 TTAAAAAATAAAAAATATT-TTCATTATTATTT
1 TTAAAAAAT--AAAATATTATT-ATTA-TATTT
112703 TTAATAAAATAAAATAT
1 TTAA-AAAATAAAATAT
112720 AACATTTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
30 6 0.14
31 15 0.35
32 17 0.40
33 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAAAAAATAAAATATTATTATTATATTT
Found at i:113836 original size:10 final size:10
Alignment explanation
Indices: 113821--113845 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
113811 TCCATCTATG
113821 TTTCTCTTCT
1 TTTCTCTTCT
113831 TTTCTCTTCT
1 TTTCTCTTCT
113841 TTTCT
1 TTTCT
113846 TTTCATAGCT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTCTCTTCT
Found at i:114996 original size:34 final size:34
Alignment explanation
Indices: 114958--115037 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
114948 TTTGATAACA
114958 TTTAATGAT-ATATTTAATAGTATATTAAACA-TAT
1 TTTAA-GATAATATTTAATAGTATATTAAA-ATTAT
*
114992 TTTAAGATAATATTTAATAGTGTATTAAAATTAT
1 TTTAAGATAATATTTAATAGTATATTAAAATTAT
115026 TTTAA-A-AATATT
1 TTTAAGATAATATT
115038 AGTTAATCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
32 6 0.14
33 5 0.12
34 32 0.74
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.47
Consensus pattern (34 bp):
TTTAAGATAATATTTAATAGTATATTAAAATTAT
Found at i:115071 original size:21 final size:22
Alignment explanation
Indices: 115014--115088 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
115004 TTTAATAGTG
* *
115014 TATTAA-AATTATTTTAAA-AA
1 TATTAATAATCATATTAAATAA
*
115034 TATTAGTTAATCATATTAAATAA
1 TATTA-ATAATCATATTAAATAA
115057 TATTAATAA-CATATTAAATAA
1 TATTAATAATCATATTAAATAA
*
115078 CATTTAATAAT
1 TA-TTAATAAT
115089 ATAATGATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.11
21 13 0.29
22 20 0.44
23 7 0.16
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (22 bp):
TATTAATAATCATATTAAATAA
Found at i:115078 original size:12 final size:12
Alignment explanation
Indices: 115045--115084 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
115035 ATTAGTTAAT
115045 CATATTAAAT-A
1 CATATTAAATAA
115056 -ATATT-AATAA
1 CATATTAAATAA
115066 CATATTAAATAA
1 CATATTAAATAA
115078 CAT-TTAA
1 CATATTAA
115085 TAATATAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.12
10 6 0.23
11 9 0.35
12 8 0.31
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (12 bp):
CATATTAAATAA
Found at i:115567 original size:2 final size:2
Alignment explanation
Indices: 115560--115597 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
115550 CAAGTCTTTC
115560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115598 TATTTTAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119536 original size:42 final size:39
Alignment explanation
Indices: 119440--119553 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 39
119430 ATCTATAACT
119440 TAAATACCACTAAATATTTAAATTTAGTGGCATTTTCCATA
1 TAAA-ACCACTAAATA-TTAAATTTAGTGGCATTTTCCATA
* ***
119481 TAAAACGCTACTAAATACATAAATTTAGTGGCATTTTTGGGTA
1 TAAAAC-C-ACTAAATA-TTAAATTTAGTGGCA-TTTTCCATA
119524 TAAACACCACTAAATATTCAAATTTAGTGG
1 TAAA-ACCACTAAATATT-AAATTTAGTGG
119554 TGTTTTACTA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
40 2 0.03
41 6 0.10
42 41 0.66
43 11 0.18
44 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.35
Consensus pattern (39 bp):
TAAAACCACTAAATATTAAATTTAGTGGCATTTTCCATA
Found at i:120564 original size:20 final size:20
Alignment explanation
Indices: 120532--120606 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
120522 TTTTACCCAG
120532 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
120552 ATATATTGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
120572 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
120592 ATGTATCGATACATT
1 ATGTATCGATACATT
120607 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:120592 original size:40 final size:39
Alignment explanation
Indices: 120532--120609 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
120522 TTTTACCCAG
* *
120532 ATGTATCGATACATTTTTCAATATATTGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
120572 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
120610 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Done.