Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1877
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: 187756
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 2
Found at i:2099 original size:1 final size:1
Alignment explanation
Indices: 2093--2151 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
2083 AAATCTTCAC
* * ** * * *
2093 TTTTTTTTTGTTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2152 CCAATTGCCA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:2133 original size:29 final size:31
Alignment explanation
Indices: 2094--2153 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
2084 AATCTTCACT
2094 TTTTTTTTG-TTT-TTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTCTTTTTCC
2123 TTTTTTTTGTTTTGTTTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTGTTTTTTTTTCTTTTTCC
2154 AATTGCCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 9 0.31
30 3 0.10
31 17 0.59
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (31 bp):
TTTTTTTTGTTTTGTTTTTTTTTCTTTTTCC
Found at i:12852 original size:158 final size:158
Alignment explanation
Indices: 12556--12875 Score: 543
Period size: 159 Copynumber: 2.0 Consensus size: 158
12546 CATGCTAAAT
*
12556 AAGGTTTCACGAATGAAATAAGATTAGATCAGAATTAGAGTTTTATAAAAGAATTTAGTTATCTA
1 AAGGTTTCACGAATGAAATAAGATTAGATCAGAATTAGAGTTTTATAAAAGAATTTACTTATCTA
**
12621 AACTTGAACCAAATTTGAAATTTTATTTTATTATTTAAATTTTATTTTAAAATATTATATTAATA
66 AACTTGAACCAAATCCGAAATTTTATTTTATTATTTAAATTTTATTTTAAAATATTATATTAATA
12686 TTTATATATTTTTATAATATTATATGTG
131 TTTATATATTTTTATAATATTATATGTG
* *
12714 AAGGTTTCATGAATGAAATGAGATTAGATC-GAAATTAGAGTTTTATAAAAGAATTTTACTTATC
1 AAGGTTTCACGAATGAAATAAGATTAGATCAG-AATTAGAGTTTTATAAAAGAA-TTTACTTATC
* *
12778 TAAACTTGAACTAGATCCGAAATTTTATTTTATTATTTAAATTTTATTTTAAAAGTATTATATTA
64 TAAACTTGAACCAAATCCGAAATTTTATTTTATTATTTAAATTTTATTTTAAAA-TATTATATTA
12843 ATATTTATATATTTTTATAATATTATATGTG
128 ATATTTATATATTTTTATAATATTATATGTG
12874 AA
1 AA
12876 CTTTAAATTT
Statistics
Matches: 152, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
157 1 0.01
158 49 0.32
159 59 0.39
160 43 0.28
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (158 bp):
AAGGTTTCACGAATGAAATAAGATTAGATCAGAATTAGAGTTTTATAAAAGAATTTACTTATCTA
AACTTGAACCAAATCCGAAATTTTATTTTATTATTTAAATTTTATTTTAAAATATTATATTAATA
TTTATATATTTTTATAATATTATATGTG
Found at i:14483 original size:2 final size:2
Alignment explanation
Indices: 14476--14515 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14466 GGGTCATAAA
14476 AG AG AG AG 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 AG AG AG AG
14516 GGCTCTATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15013 original size:12 final size:11
Alignment explanation
Indices: 14974--15005 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
14964 TCATATCATT
14974 ATATTAACAAAA
1 ATATTAA-AAAA
14986 ATATTAAAAAA
1 ATATTAAAAAA
14997 ATATTAAAA
1 ATATTAAAA
15006 TACATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATTAAAAAA
Found at i:16599 original size:2 final size:2
Alignment explanation
Indices: 16592--16616 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16582 AATTTTAATT
16592 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 T
16617 CTTATGCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20503 original size:21 final size:21
Alignment explanation
Indices: 20478--20519 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20468 TATATGATTA
20478 ATTAAATATGTAAACATGATG
1 ATTAAATATGTAAACATGATG
20499 ATTAAATATGTAAACATGATG
1 ATTAAATATGTAAACATGATG
20520 TGATCAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
ATTAAATATGTAAACATGATG
Found at i:28067 original size:2 final size:2
Alignment explanation
Indices: 28060--28107 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
28050 TCCAAATTCC
28060 AT AT 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 AT AT
28102 AT AT AT
1 AT AT AT
28108 CAGATTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28483 original size:14 final size:15
Alignment explanation
Indices: 28464--28507 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
28454 ATGTAATTAT
28464 TATTTTTA-TAAATA
1 TATTTTTATTAAATA
*
28478 TATTTTTATTTAATA
1 TATTTTTATTAAATA
28493 TATTTTTTATTAAAT
1 TA-TTTTTATTAAAT
28508 TAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 8 0.31
15 7 0.27
16 11 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTTATTAAATA
Found at i:28505 original size:15 final size:14
Alignment explanation
Indices: 28464--28505 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
28454 ATGTAATTAT
*
28464 TATTTTTATAAATA
1 TATTTTTATTAATA
28478 TATTTTTATTTAATA
1 TATTTTTA-TTAATA
28493 TATTTTTTATTAA
1 TA-TTTTTATTAA
28506 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 11 0.44
16 6 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTTTTATTAATA
Found at i:30338 original size:15 final size:14
Alignment explanation
Indices: 30307--30354 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
30297 TATAATTATT
30307 TTTAAAAATTAATA
1 TTTAAAAATTAATA
30321 TTTAATAAATTTAA-A
1 TTTAA-AAA-TTAATA
*
30336 TTTTAAATATTAATA
1 -TTTAAAAATTAATA
30351 TTTA
1 TTTA
30355 TAACTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 13 0.45
15 7 0.24
16 9 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAAAATTAATA
Found at i:30340 original size:30 final size:29
Alignment explanation
Indices: 30306--30362 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
30296 ATATAATTAT
30306 TTTTAAAAATTAATATTTAATAAATTTAAA
1 TTTTAAAAATTAATATTT-ATAAATTTAAA
* *
30336 TTTTAAATATTAATATTTATAACTTTA
1 TTTTAAAAATTAATATTTATAAATTTA
30363 TTTTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTTAAAAATTAATATTTATAAATTTAAA
Found at i:30756 original size:19 final size:18
Alignment explanation
Indices: 30706--30777 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
30696 AATTATATCG
* *
30706 AAAATATTATTTATTTATA
1 AAAATTTTATATA-TTATA
*
30725 TAAAATTTAATATATTATA
1 -AAAATTTTATATATTATA
*
30744 AAAATTTTGATATA--ATC
1 AAAATTTT-ATATATTATA
*
30761 ATAATTTTATATATTAT
1 AAAATTTTATATATTAT
30778 GTTCTAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.12
17 9 0.21
18 9 0.21
19 10 0.23
20 10 0.23
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (18 bp):
AAAATTTTATATATTATA
Found at i:32602 original size:23 final size:23
Alignment explanation
Indices: 32576--32621 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
32566 ATGAAAATGC
*
32576 TATGTAACATATAATTTTATATT
1 TATGTAACATAGAATTTTATATT
32599 TATGTAACATAGAATTTTATATT
1 TATGTAACATAGAATTTTATATT
32622 ATAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (23 bp):
TATGTAACATAGAATTTTATATT
Found at i:32836 original size:19 final size:20
Alignment explanation
Indices: 32798--32836 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32788 TTTATTATTT
32798 AAATATTTTAATATATTAAA
1 AAATATTTTAATATATTAAA
*
32818 AAATATTTTTATA-ATTAAA
1 AAATATTTTAATATATTAAA
32837 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATTTTAATATATTAAA
Found at i:33313 original size:10 final size:11
Alignment explanation
Indices: 33295--33328 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
33285 GTAGTAATTA
33295 AATAAATATTT
1 AATAAATATTT
33306 AA-AAATA-TT
1 AATAAATATTT
33315 AATAAATATTT
1 AATAAATATTT
33326 AAT
1 AAT
33329 GATAATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 4 0.19
10 10 0.48
11 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATAAATATTT
Found at i:38497 original size:20 final size:20
Alignment explanation
Indices: 38472--38515 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38462 TTTTTTTTAA
38472 AATTTAAATAAATTT-AATTT
1 AATTTAAAT-AATTTAAATTT
*
38492 AATTTAAATTATTTAAATTT
1 AATTTAAATAATTTAAATTT
38512 AATT
1 AATT
38516 ATTAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTAAATAATTTAAATTT
Found at i:38533 original size:20 final size:19
Alignment explanation
Indices: 38509--38559 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
38499 ATTATTTAAA
38509 TTTAATTATTAAAAT-ATAT
1 TTTAA-TATTAAAATAATAT
*
38528 TATTAATATAAAAATAATAT
1 T-TTAATATTAAAATAATAT
38548 TTTAATATTAAA
1 TTTAATATTAAA
38560 TAAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTAATATTAAAATAATAT
Found at i:38735 original size:16 final size:17
Alignment explanation
Indices: 38711--38788 Score: 67
Period size: 16 Copynumber: 4.9 Consensus size: 17
38701 AATTTTAAAA
* *
38711 ATAATATAATA-ATTAT
1 ATAAAATAATATATAAT
38727 ATAAAATAA-ATATAAT
1 ATAAAATAATATATAAT
*
38743 ATAAAATAAT-TAAAAT
1 ATAAAATAATATATAAT
* *
38759 ATAATATAAAATA-AAT
1 ATAAAATAATATATAAT
*
38775 ATTAAATAA-ATATA
1 ATAAAATAATATATA
38789 TCAAACTCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
15 4 0.08
16 45 0.88
17 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAAATAATATATAAT
Found at i:38766 original size:37 final size:37
Alignment explanation
Indices: 38708--38784 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
38698 TAAAATTTTA
38708 AAAATAATATAATAATTATATAAAATAAATA-TAATAT
1 AAAATAATATAATAATTATATAAAATAAATATTAA-AT
38745 AAAATAAT-TAA-AATATAATATAAAATAAATATTAAAT
1 AAAATAATATAATAAT-T-ATATAAAATAAATATTAAAT
38782 AAA
1 AAA
38785 TATATCAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
35 3 0.08
36 4 0.11
37 27 0.73
38 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (37 bp):
AAAATAATATAATAATTATATAAAATAAATATTAAAT
Found at i:38775 original size:11 final size:11
Alignment explanation
Indices: 38708--38788 Score: 76
Period size: 11 Copynumber: 7.1 Consensus size: 11
38698 TAAAATTTTA
38708 AAAAT-AATAT
1 AAAATAAATAT
*
38718 AATAAT-TATAT
1 AA-AATAAATAT
38729 AAAATAAATAT
1 AAAATAAATAT
*
38740 AATATAAAATAATT
1 AAAAT-AAAT-A-T
38754 AAAATATAATAT
1 AAAATA-AATAT
38766 AAAATAAATAT
1 AAAATAAATAT
*
38777 TAAATAAATAT
1 AAAATAAATAT
38788 A
1 A
38789 TCAAACTCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
10 5 0.08
11 32 0.54
12 11 0.19
13 3 0.05
14 8 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATAAATAT
Found at i:38944 original size:21 final size:20
Alignment explanation
Indices: 38911--38963 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
38901 ACTTTGAACA
38911 ATTTATATAAATTAATAAAT
1 ATTTATATAAATTAATAAAT
* *
38931 ATTTTTATGAAATTAATTAAT
1 ATTTATAT-AAATTAATAAAT
* *
38952 AATTAAATAAAT
1 ATTTATATAAAT
38964 AAGTACAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTATATAAATTAATAAAT
Found at i:39152 original size:16 final size:17
Alignment explanation
Indices: 39126--39158 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39116 TTCCTTTTGT
*
39126 AAATAATAAAATCTATA
1 AAATAATAAAATATATA
39143 AAATAA-AAAATATATA
1 AAATAATAAAATATATA
39159 TAAAAAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAATAAAATATATA
Found at i:40087 original size:10 final size:10
Alignment explanation
Indices: 40069--40109 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
40059 TATAAAAAAA
*
40069 TTATATATTT
1 TTATTTATTT
40079 TTATTTA-TT
1 TTATTTATTT
40088 TTATTT-TATT
1 TTATTTAT-TT
40098 TTATTTATTT
1 TTATTTATTT
40108 TT
1 TT
40110 GACGTAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 8 0.30
10 18 0.67
11 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTATTTATTT
Found at i:40091 original size:9 final size:9
Alignment explanation
Indices: 40077--40108 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
40067 AATTATATAT
40077 TTTTATTTA
1 TTTTATTTA
40086 TTTTATTTTA
1 TTTTA-TTTA
40096 TTTTATTTA
1 TTTTATTTA
40105 TTTT
1 TTTT
40109 TGACGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTATTTA
Found at i:40092 original size:5 final size:5
Alignment explanation
Indices: 40077--40108 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
40067 AATTATATAT
40077 TTTTA -TTTA TTTTA TTTTA TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
40109 TGACGTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.32
5 17 0.68
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:40094 original size:15 final size:15
Alignment explanation
Indices: 40069--40109 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
40059 TATAAAAAAA
*
40069 TTATATATTTTTA-T
1 TTATTTATTTTTATT
40083 TTATTT-TATTTTATT
1 TTATTTAT-TTTTATT
40098 TTATTTATTTTT
1 TTATTTATTTTT
40110 GACGTAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 1 0.04
14 10 0.43
15 11 0.48
16 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTATTTTTATT
Found at i:42210 original size:6 final size:6
Alignment explanation
Indices: 42171--42206 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
42161 GCCTCAGCCC
* *
42171 TTGCCA TCGCCA TTGCCA TTGCCA TTGCCA ATGCCA
1 TTGCCA TTGCCA TTGCCA TTGCCA TTGCCA TTGCCA
42207 ATGCATGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (6 bp):
TTGCCA
Found at i:45312 original size:27 final size:27
Alignment explanation
Indices: 45279--45335 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
45269 ACAGGCCCAC
*
45279 ACAAAATCTGATATACATTGTGCACAA
1 ACAAAATCTGATATACATTGCGCACAA
* *
45306 ACAAAATCTGATATGCATTGCGCGCAA
1 ACAAAATCTGATATACATTGCGCACAA
45333 ACA
1 ACA
45336 CCAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (27 bp):
ACAAAATCTGATATACATTGCGCACAA
Found at i:47798 original size:24 final size:25
Alignment explanation
Indices: 47744--47798 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
47734 CTACAAAAGC
* *
47744 ATATCACAGTCAATGAAACTAAACA
1 ATATCCCAGTAAATGAAACTAAACA
* * *
47769 AAATCCCAGTAAAT-AAACTCAGCA
1 ATATCCCAGTAAATGAAACTAAACA
47793 ATATCC
1 ATATCC
47799 TTAGACCAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (25 bp):
ATATCCCAGTAAATGAAACTAAACA
Found at i:48715 original size:5 final size:5
Alignment explanation
Indices: 48707--48740 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
48697 TCGTGCAACA
48707 TATTT TATTT TATTT TA-TT T-TTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
48741 CAAACAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 6 0.22
5 21 0.78
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TATTT
Found at i:48732 original size:13 final size:13
Alignment explanation
Indices: 48714--48740 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48704 ACATATTTTA
48714 TTTTATTTTATTT
1 TTTTATTTTATTT
48727 TTTTATTTTATTT
1 TTTTATTTTATTT
48740 T
1 T
48741 CAAACAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:51174 original size:24 final size:24
Alignment explanation
Indices: 51147--51207 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
51137 TAATTTTATT
51147 TAAAATATTATATATATATATATA
1 TAAAATATTATATATATATATATA
* * *
51171 T-AAATTTTA-AAATATATATTTA
1 TAAAATATTATATATATATATATA
**
51193 TATCATATTATATAT
1 TAAAATATTATATAT
51208 TTATTATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
22 12 0.43
23 12 0.43
24 4 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TAAAATATTATATATATATATATA
Found at i:51204 original size:18 final size:17
Alignment explanation
Indices: 51119--51230 Score: 69
Period size: 18 Copynumber: 6.8 Consensus size: 17
51109 TCTCGACAAG
51119 TTATATATTT-TA-ATA
1 TTATATATTTATATATA
*
51134 TTATA-ATTT-TATTTA
1 TTATATATTTATATATA
** *
51149 AAATATTATATATATATA
1 TTATA-TATTTATATATA
*
51167 TATATAAATTT-TA-A-A
1 T-TATATATTTATATATA
*
51182 ATATATATTTATATCATA
1 TTATATATTTATAT-ATA
*
51200 TTATATATTTAT-TATT
1 TTATATATTTATATATA
51216 TTATATATATTATAT
1 TTATATAT-TTATAT
51231 TTAAAATTAT
Statistics
Matches: 73, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
14 14 0.19
15 13 0.18
16 11 0.15
17 11 0.15
18 21 0.29
19 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATATTTATATATA
Found at i:51215 original size:7 final size:8
Alignment explanation
Indices: 51183--51230 Score: 53
Period size: 8 Copynumber: 5.6 Consensus size: 8
51173 AATTTTAAAA
51183 TATATATT
1 TATATATT
51191 TATATCATAT
1 TATAT-AT-T
51201 TATATATT
1 TATATATT
51209 TAT-TATTT
1 TATATA-TT
51217 TATATATAT
1 TATATAT-T
51226 TATAT
1 TATAT
51231 TTAAAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 2 0.06
8 15 0.43
9 12 0.34
10 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATATT
Found at i:51527 original size:21 final size:20
Alignment explanation
Indices: 51498--51539 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
51488 ATGTCCAAAC
51498 TTTTTATTTTTTCTAAA-ATA
1 TTTTTATTTTTT-TAAATATA
51518 TTTTTAATTTTTTTAAATATA
1 TTTTT-ATTTTTTTAAATATA
51539 T
1 T
51540 AAAAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATTTTTTTAAATATA
Found at i:56076 original size:24 final size:24
Alignment explanation
Indices: 56018--56069 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
56008 AGAGGACAAC
*
56018 CAAACCCAATAGGGAGCATGCCAA
1 CAAACCCAATAGGGAACATGCCAA
56042 CAAACCCAATAGGGAACATGCCAA
1 CAAACCCAATAGGGAACATGCCAA
56066 CAAA
1 CAAA
56070 GTGAATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.08
Consensus pattern (24 bp):
CAAACCCAATAGGGAACATGCCAA
Found at i:59896 original size:6 final size:6
Alignment explanation
Indices: 59887--59912 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59877 TCACTATGGA
59887 TTTGTC TTTGTC TTTGTC TTTGTC TT
1 TTTGTC TTTGTC TTTGTC TTTGTC TT
59913 GTAACGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTGTC
Found at i:63439 original size:31 final size:31
Alignment explanation
Indices: 63397--63542 Score: 142
Period size: 31 Copynumber: 4.8 Consensus size: 31
63387 CTTAAGAAGC
* *
63397 TTAAGAAAATAAGGATATTTTTTACT-AAACT
1 TTAAAAAAATAAAGATATTTTTTA-TAAAACT
* *
63428 TTAAAAGAATAATTAGATA-TTTTT-T-AAACA
1 TTAAAAAAATAA--AGATATTTTTTATAAAACT
* *
63458 TTAAAAAAATAAATATATTTTTTATAAAATT
1 TTAAAAAAATAAAGATATTTTTTATAAAACT
* *
63489 TTAAAAAAATAAATATATTTTTTATAAAATT
1 TTAAAAAAATAAAGATATTTTTTATAAAACT
*
63520 TTTAAAAAAT-AA-ATATTTTTTAT
1 TTAAAAAAATAAAGATATTTTTTAT
63543 CCTATACATA
Statistics
Matches: 101, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.04
29 16 0.16
30 19 0.19
31 53 0.52
32 5 0.05
33 4 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (31 bp):
TTAAAAAAATAAAGATATTTTTTATAAAACT
Found at i:63469 original size:61 final size:59
Alignment explanation
Indices: 63397--63542 Score: 145
Period size: 61 Copynumber: 2.4 Consensus size: 59
63387 CTTAAGAAGC
* * *
63397 TTAAGAAAATAAGGATATTTTTTACT-AAACTTTAAAAGAATAATTAGATATTTTTTAAACA
1 TTAAAAAAATAAAGATATTTTTTA-TAAAACTTTAAAAAAATAA--AGATATTTTTTAAACA
* * * *
63458 TTAAAAAAATAAATATATTTTTTATAAAATTTTAAAAAAATAAATATATTTTTTATAAAA
1 TTAAAAAAATAAAGATATTTTTTATAAAACTTTAAAAAAATAAAGATATTTTTTA-AACA
*
63518 TTTTTAAAAAAT-AA-ATATTTTTTAT
1 --TTAAAAAAATAAAGATATTTTTTAT
63543 CCTATACATA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
59 11 0.15
60 15 0.21
61 38 0.52
62 9 0.12
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (59 bp):
TTAAAAAAATAAAGATATTTTTTATAAAACTTTAAAAAAATAAAGATATTTTTTAAACA
Found at i:63738 original size:2 final size:2
Alignment explanation
Indices: 63731--63757 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63721 AATCAATGTA
63731 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
63758 ACAAAAGACT
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:64020 original size:2 final size:2
Alignment explanation
Indices: 64013--64073 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
64003 CAATTCCATC
* * * *
64013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT TT TT 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
* *
64054 GT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
64074 GCCCATCAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (2 bp):
AT
Found at i:64550 original size:14 final size:14
Alignment explanation
Indices: 64533--64584 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
64523 TTATTTAAAA
64533 TATATTAATTTTTT
1 TATATTAATTTTTT
64547 TATAATTACATTTTTT
1 TAT-ATTA-ATTTTTT
* *
64563 TAAATAAATTTTTAT
1 TATATTAATTTTT-T
64578 TAT-TTAA
1 TATATTAA
64585 ATGATTATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 12 0.39
15 10 0.32
16 9 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
TATATTAATTTTTT
Found at i:64554 original size:15 final size:15
Alignment explanation
Indices: 64536--64580 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
64526 TTTAAAATAT
64536 ATTAATTTTTTTATA
1 ATTAATTTTTTTATA
64551 ATTACATTTTTTTA-A
1 ATTA-ATTTTTTTATA
*
64566 ATAAATTTTTATTAT
1 ATTAATTTTT-TTAT
64581 TTAAATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.23
15 11 0.42
16 9 0.35
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTAATTTTTTTATA
Found at i:64650 original size:16 final size:16
Alignment explanation
Indices: 64610--64653 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
64600 GAGATTGAAT
64610 TAATTTAATTTATTAA
1 TAATTTAATTTATTAA
* *
64626 AAATATAATTTA-TATA
1 TAATTTAATTTATTA-A
64642 TAATTTAATTTA
1 TAATTTAATTTA
64654 AATCGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTTAATTTATTAA
Found at i:65540 original size:128 final size:130
Alignment explanation
Indices: 65400--65665 Score: 466
Period size: 128 Copynumber: 2.1 Consensus size: 130
65390 ATGAAATTTT
65400 ATAGAATTAAAAGATTATTGATTATTTTTTTAATTTTTTAACGTATTGATGTTATCTTATGAATC
1 ATAGAATTAAAAGATTATTGATTATTTTTTTAATTTTTTAACGTATTGATGTTATCTTATGAATC
65465 TATCTATAAATTTTAAAAATTTTATTAATTATTTATAA-AATAA-TTTCTTTATAAATT-TTATA
66 TATCTATAAATTTTAAAAATTTTATTAATTATTTATAAGAATAATTTTCTTTATAAATTATTA-A
65527 C
130 C
* *
65528 ATAGAATTAAAAGATTATTGATTGTTTTTTTAATTTTTTAACGTATTGATGTTATCTTATTAATC
1 ATAGAATTAAAAGATTATTGATTATTTTTTTAATTTTTTAACGTATTGATGTTATCTTATGAATC
*
65593 TGTCTATAAATTTTAAAAATTTTATTAATTATTTATAAGAATAATTTTCTTTATAAATTATTAAC
66 TATCTATAAATTTTAAAAATTTTATTAATTATTTATAAGAATAATTTTCTTTATAAATTATTAAC
*
65658 ATAAAATT
1 ATAGAATT
65666 CAAGATATAA
Statistics
Matches: 131, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
128 100 0.76
129 5 0.04
130 23 0.18
131 3 0.02
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (130 bp):
ATAGAATTAAAAGATTATTGATTATTTTTTTAATTTTTTAACGTATTGATGTTATCTTATGAATC
TATCTATAAATTTTAAAAATTTTATTAATTATTTATAAGAATAATTTTCTTTATAAATTATTAAC
Found at i:66734 original size:15 final size:15
Alignment explanation
Indices: 66710--66752 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
66700 ATAATACACT
*
66710 AATATAAAAATTATA
1 AATATTAAAATTATA
66725 AATATTAAAATT-TA
1 AATATTAAAATTATA
66739 AA-ATTTAAAATTAT
1 AATA-TTAAAATTAT
66753 TAGTTATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATTAAAATTATA
Found at i:67218 original size:22 final size:21
Alignment explanation
Indices: 67177--67220 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
67167 ATATATATAA
*
67177 TTTATTCTTTTATCTTTAAAT
1 TTTATTCTTTTATCTGTAAAT
67198 TTTATCTCTTTT-TCTCGTAAAT
1 TTTAT-TCTTTTATCT-GTAAAT
67220 T
1 T
67221 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.20, C:0.14, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTATTCTTTTATCTGTAAAT
Found at i:67597 original size:16 final size:16
Alignment explanation
Indices: 67576--67606 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67566 AAAATTTAAA
67576 TTTAATAAATATTATT
1 TTTAATAAATATTATT
*
67592 TTTAATAATTATTAT
1 TTTAATAAATATTAT
67607 ATAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAATAAATATTATT
Found at i:68016 original size:27 final size:28
Alignment explanation
Indices: 67964--68017 Score: 60
Period size: 27 Copynumber: 2.0 Consensus size: 28
67954 TATAAAAATT
* *
67964 TATATTATA-TAACATA-ATTTATTAATA
1 TATATTAAATTAACATATAATTA-TAATA
67991 TATATTAAATTAA-ATATAATTATAATA
1 TATATTAAATTAACATATAATTATAATA
68018 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TATATTAAATTAACATATAATTATAATA
Found at i:68701 original size:15 final size:15
Alignment explanation
Indices: 68656--68701 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
68646 TATCAAAATT
*
68656 TATATAAATATATTA
1 TATATAAATATAATA
68671 TA-ATAAA-A-AATA
1 TATATAAATATAATA
68683 -ATATAAATATAATA
1 TATATAAATATAATA
68697 TATAT
1 TATAT
68702 TTTTATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
11 1 0.04
12 8 0.31
13 2 0.08
14 9 0.35
15 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATATAAATATAATA
Found at i:70392 original size:30 final size:29
Alignment explanation
Indices: 70354--70415 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
70344 CTTTTTAAAT
70354 TATTCTTTTAT-TCTTTAAAATATTAGATA
1 TATTCTTTTATAT-TTTAAAATATTAGATA
* *
70383 TATTCCTTTTATATTTTAATATATTATATA
1 TATT-CTTTTATATTTTAAAATATTAGATA
70413 TAT
1 TAT
70416 AATAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 24 0.83
31 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (29 bp):
TATTCTTTTATATTTTAAAATATTAGATA
Found at i:70530 original size:25 final size:25
Alignment explanation
Indices: 70459--70531 Score: 60
Period size: 26 Copynumber: 2.8 Consensus size: 25
70449 TTTATACTTG
* *
70459 TATATTATATATATTAAAATTATTTT
1 TATAATAT-TATATTAAAAATATTTT
* *
70485 CATGAATAAATTATA--ATAAATATTTT
1 TAT-AAT--ATTATATTAAAAATATTTT
70511 TATAATATTATATTAAAAATA
1 TATAATATTATATTAAAAATA
70532 ATTAAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
23 6 0.17
25 9 0.25
26 13 0.36
27 2 0.06
28 4 0.11
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (25 bp):
TATAATATTATATTAAAAATATTTT
Found at i:70734 original size:2 final size:2
Alignment explanation
Indices: 70727--70753 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
70717 TGAATAAGAT
70727 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 T
70754 GAATATAATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71786 original size:16 final size:17
Alignment explanation
Indices: 71757--71788 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
71747 ATATGGAATA
71757 ATTTAAATTTTAAAATG
1 ATTTAAATTTTAAAATG
71774 ATTTAAA-TTTAAAAT
1 ATTTAAATTTTAAAAT
71789 AACTTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTAAATTTTAAAATG
Found at i:72189 original size:19 final size:18
Alignment explanation
Indices: 72138--72190 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
72128 AATATAAATC
*
72138 AAATATAATAGAT-TAGT
1 AAATATAATAGATATAAT
72155 AAATATGTAATA-ATATAAT
1 AAATA--TAATAGATATAAT
72174 AAATATAATATGATATA
1 AAATATAATA-GATATA
72191 TTTAAATACG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 18 0.60
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
AAATATAATAGATATAAT
Found at i:72442 original size:23 final size:25
Alignment explanation
Indices: 72401--72447 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
72391 AGATCGAGCA
* *
72401 TGAATCAAATTTTATTTA-TAATTT
1 TGAATCAAATTTAAATTATTAATTT
72425 TGAATC-AATTTAAATTATTAATT
1 TGAATCAAATTTAAATTATTAATT
72448 ATAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (25 bp):
TGAATCAAATTTAAATTATTAATTT
Found at i:73117 original size:30 final size:28
Alignment explanation
Indices: 73083--73148 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 28
73073 TCTTGATCTA
73083 TTATAATTATATTTAA-ATTATTATATTATT
1 TTATAATTATATTTAATA-TATTA-ATTA-T
73113 TTATAA--A-ATTTAATATATTAATTAT
1 TTATAATTATATTTAATATATTAATTAT
73138 TTAT-ATTATAT
1 TTATAATTATAT
73149 AAATTTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
24 1 0.03
25 5 0.16
26 5 0.16
27 13 0.41
28 2 0.06
30 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATAATTATATTTAATATATTAATTAT
Found at i:73157 original size:32 final size:32
Alignment explanation
Indices: 73098--73171 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 32
73088 ATTATATTTA
* *
73098 AATTATTATATTATTTTATAAAATTTAATATATT
1 AATTATT-TATTATTATATAAAATTTAA-AAATT
*
73132 AATTATTTA-TATTATATAAATTTTAAAAATT
1 AATTATTTATTATTATATAAAATTTAAAAATT
73163 AATATATTT
1 AAT-TATTT
73172 TCGTATGTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 7 0.19
32 20 0.56
33 2 0.06
34 7 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
AATTATTTATTATTATATAAAATTTAAAAATT
Found at i:73392 original size:19 final size:19
Alignment explanation
Indices: 73356--73402 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
73346 AATTATGATA
*
73356 AAAATTAATAATAAAAAATT
1 AAAATT-ATAATAAAAAAAT
73376 AAAATTATAA-AATAAAAAT
1 AAAATTATAATAA-AAAAAT
*
73395 AATATTAT
1 AAAATTAT
73403 TATATTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.67
20 6 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTATAATAAAAAAAT
Found at i:76488 original size:25 final size:25
Alignment explanation
Indices: 76449--76496 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
76439 TCTATCGAGA
76449 TAAATTTTATATTTAAATAAAATTT
1 TAAATTTTATATTTAAATAAAATTT
*
76474 TAAATTTT-TATTTTACATAAAAT
1 TAAATTTTATA-TTTAAATAAAAT
76497 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TAAATTTTATATTTAAATAAAATTT
Found at i:76594 original size:22 final size:22
Alignment explanation
Indices: 76566--76610 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
76556 AAAAATAAAA
*
76566 ATTTTAATAAATATAAA-AATTT
1 ATTTTAAAAAATA-AAATAATTT
76588 ATTTTAAAAAATAAAATAATTT
1 ATTTTAAAAAATAAAATAATTT
76610 A
1 A
76611 ACTACTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTTAAAAAATAAAATAATTT
Found at i:77851 original size:12 final size:12
Alignment explanation
Indices: 77834--77858 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77824 AATCCACTAT
77834 ATATAATTTTTA
1 ATATAATTTTTA
77846 ATATAATTTTTA
1 ATATAATTTTTA
77858 A
1 A
77859 AAATTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATAATTTTTA
Found at i:80906 original size:13 final size:13
Alignment explanation
Indices: 80868--80908 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
80858 TATGATTTAA
80868 AATTTAA-AATTT
1 AATTTAATAATTT
*
80880 AATTTACTTAATTT
1 AATTTA-ATAATTT
80894 AATTTAATAATTT
1 AATTTAATAATTT
80907 AA
1 AA
80909 ATAATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.24
13 8 0.32
14 11 0.44
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTTAATAATTT
Found at i:80957 original size:21 final size:20
Alignment explanation
Indices: 80931--80983 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
80921 AATATATTAA
80931 AATATTAAACTATTTTAT-ATT
1 AATATTAAA--ATTTTATAATT
80952 AATATTTATAAATTTTATAATT
1 AATA-TTA-AAATTTTATAATT
80974 AA-ATTAAAAT
1 AATATTAAAAT
80984 AAAAATTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.14
20 3 0.10
21 12 0.41
22 8 0.28
23 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATTAAAATTTTATAATT
Found at i:84855 original size:2 final size:2
Alignment explanation
Indices: 84848--84878 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
84838 TGGAATGGAA
84848 AT AT 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 AT AT A
84879 CAAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87852 original size:13 final size:13
Alignment explanation
Indices: 87815--87851 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
87805 GAAATGAATT
*
87815 TTAATAAAAAATA
1 TTAATTAAAAATA
87828 TTAATTAAAAATA
1 TTAATTAAAAATA
87841 TTAAATTAAAA
1 TT-AATTAAAA
87852 TGTATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAATTAAAAATA
Found at i:88077 original size:23 final size:26
Alignment explanation
Indices: 88017--88077 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
88007 TAATATAATA
*
88017 ATAAATATAAGTTTATTAATTTATCAT
1 ATAAAT-TAAATTTATTAATTTATCAT
*
88044 ATAACAATAAATTTATTAA-TTAT-AT
1 ATAA-ATTAAATTTATTAATTTATCAT
88069 -TAAATTAAA
1 ATAAATTAAA
88078 AATTATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 5 0.17
24 3 0.10
25 2 0.07
26 4 0.13
27 15 0.50
28 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (26 bp):
ATAAATTAAATTTATTAATTTATCAT
Found at i:88376 original size:35 final size:34
Alignment explanation
Indices: 88337--88474 Score: 95
Period size: 38 Copynumber: 3.9 Consensus size: 34
88327 TGTTTATCGA
88337 TTAAATTAATTATTTAATTAATAAATTTAATTTAT
1 TTAAATTAATTATTTAA-TAATAAATTTAATTTAT
* * *
88372 TTAAATTAA--ATTTTA-AATAAATTTTTTATTAATT
1 TTAAATTAATTATTTAATAATAAA--TTTAATTTA-T
* *
88406 TTAAATT-ATAATTTAATAATTAAAATTTATTTTTAT
1 TTAAATTAATTATTTAATAA-T-AAATTTA-ATTTAT
**
88442 TTAAATTTAATTATAAAATATATAAATATTAAT
1 TTAAA-TTAATTATTTAATA-ATAAAT-TTAAT
88475 ATAAAAATAA
Statistics
Matches: 79, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
31 6 0.08
33 13 0.16
34 8 0.10
35 14 0.18
36 11 0.14
37 11 0.14
38 15 0.19
39 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (34 bp):
TTAAATTAATTATTTAATAATAAATTTAATTTAT
Found at i:88388 original size:12 final size:12
Alignment explanation
Indices: 88371--88434 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 12
88361 ATTTAATTTA
88371 TTTAAATTAAAT
1 TTTAAATTAAAT
88383 TTTAAA-TAAAT
1 TTTAAATTAAAT
**
88394 TTTTTATT-AAT
1 TTTAAATTAAAT
88405 TTTAAATTATAAT
1 TTTAAATTA-AAT
* *
88418 TTAATAATTAAAA
1 TTTA-AATTAAAT
88431 TTTA
1 TTTA
88435 TTTTTATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
11 18 0.44
12 7 0.17
13 11 0.27
14 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTAAATTAAAT
Found at i:89446 original size:2 final size:2
Alignment explanation
Indices: 89439--89470 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
89429 ATTCTCTGAT
*
89439 TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
89471 GGGGGTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:93035 original size:5 final size:5
Alignment explanation
Indices: 93025--93089 Score: 55
Period size: 5 Copynumber: 13.2 Consensus size: 5
93015 AAAAATTTAA
* * * *
93025 AATAT AATAT AAATAA AATAT AAT-T AATA- AATAT AAAAAT TATGT AATA-
1 AATAT AATAT -AATAT AATAT AATAT AATAT AATAT -AATAT AATAT AATAT
93074 AATAT AATAT AATAT A
1 AATAT AATAT AATAT A
93090 TTTAAATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
4 12 0.26
5 27 0.57
6 8 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:93038 original size:18 final size:19
Alignment explanation
Indices: 93021--93086 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
93011 ATTTAAAAAT
93021 TTAAAATATAA-T-ATAAA
1 TTAAAATATAATTAATAAA
93038 -TAAAATATAATTAATAAA
1 TTAAAATATAATTAATAAA
*
93056 TATAAAA-ATTATGTAATAAA
1 T-TAAAATATAAT-TAATAAA
*
93076 -TATAATATAAT
1 TTAAAATATAAT
93087 ATATTTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 10 0.25
17 1 0.03
18 9 0.22
19 8 0.20
20 12 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TTAAAATATAATTAATAAA
Found at i:93086 original size:14 final size:14
Alignment explanation
Indices: 93033--93087 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
93023 AAAATATAAT
*
93033 ATAAATAAAATATA
1 ATAAATATAATATA
*
93047 ATTAATA-AATATA
1 ATAAATATAATATA
*
93060 A-AAAT-T-ATGTA
1 ATAAATATAATATA
93071 ATAAATATAATATA
1 ATAAATATAATATA
93085 ATA
1 ATA
93088 TATTTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 5 0.15
12 7 0.21
13 8 0.24
14 13 0.39
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATAAATATAATATA
Found at i:93134 original size:20 final size:21
Alignment explanation
Indices: 93093--93136 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
93083 TAATATATTT
**
93093 AAATAATTTTTAAAAATTTAA
1 AAATAATTTTTAAAAAAATAA
93114 AAATAA-TTTTAAAAAAATAA
1 AAATAATTTTTAAAAAAATAA
93134 AAA
1 AAA
93137 AAAATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATAATTTTTAAAAAAATAA
Found at i:93136 original size:21 final size:21
Alignment explanation
Indices: 93093--93142 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
93083 TAATATATTT
* * *
93093 AAATAATTTTTAAAAATTTAA
1 AAATAATTTTAAAAAAATAAA
93114 AAATAATTTTAAAAAAATAAA
1 AAATAATTTTAAAAAAATAAA
*
93135 AAAAAATT
1 AAATAATT
93143 AAATCACGAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATAATTTTAAAAAAATAAA
Found at i:93974 original size:25 final size:25
Alignment explanation
Indices: 93910--93975 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
93900 TAAAAATACG
* * *
93910 TATTTAATTTTTTATTTTATGTATT
1 TATTTAAATATTTATTTTATGAATT
* * *
93935 TTTTTAAAAAATTATTTTAT-AATT
1 TATTTAAATATTTATTTTATGAATT
93959 ATATTTAAATATTTATT
1 -TATTTAAATATTTATT
93976 AAATTTAAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TATTTAAATATTTATTTTATGAATT
Found at i:94076 original size:2 final size:2
Alignment explanation
Indices: 94069--94116 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
94059 AATCATGCAC
94069 AT AT 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 AT AT
94111 AT AT AT
1 AT AT AT
94117 GAATAAAGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94899 original size:22 final size:22
Alignment explanation
Indices: 94874--94930 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
94864 TATAAAAATA
94874 TTTAATTTTTATTAAAA-AATTT
1 TTTAATTTTTA-TAAAATAATTT
*
94896 TTTATATATTTTA-AAAATTATTT
1 TTTA-AT-TTTTATAAAATAATTT
*
94919 TTTAATATTTAT
1 TTTAATTTTTAT
94931 GTTTGAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 4 0.14
22 10 0.34
23 10 0.34
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAATTTTTATAAAATAATTT
Found at i:94929 original size:21 final size:21
Alignment explanation
Indices: 94885--94928 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
94875 TTAATTTTTA
94885 TTAAAAAATTTTTTATATATT
1 TTAAAAAATTTTTTATATATT
94906 TTAAAAATTATTTTTTA-ATATT
1 TTAAAAA--ATTTTTTATATATT
94928 T
1 T
94929 ATGTTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 6 0.29
23 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTAAAAAATTTTTTATATATT
Found at i:94962 original size:13 final size:13
Alignment explanation
Indices: 94941--94970 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
94931 GTTTGAATAT
*
94941 ATATTAAATATAA
1 ATATCAAATATAA
94954 ATATCAAATATAA
1 ATATCAAATATAA
94967 ATAT
1 ATAT
94971 TTATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATCAAATATAA
Found at i:96875 original size:28 final size:28
Alignment explanation
Indices: 96844--96898 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
96834 CAAAAATTAA
96844 TTTAAAAATAAAT-AAATAAAATAATTTT
1 TTTAAAAA-AAATAAAATAAAATAATTTT
** *
96872 TTTACCAAAAATAAAATAAAATTATTT
1 TTTAAAAAAAATAAAATAAAATAATTT
96899 AAATCTTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
TTTAAAAAAAATAAAATAAAATAATTTT
Found at i:97033 original size:19 final size:20
Alignment explanation
Indices: 96991--97046 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 20
96981 TTTATTAGCG
96991 CATTAATTTTGTAAAAAATA
1 CATTAATTTTGTAAAAAATA
**
97011 -ATTAATTTT-TTTAAAATA
1 CATTAATTTTGTAAAAAATA
**
97029 CATT-ATTTAATAAAAAAT
1 CATTAATTTTGTAAAAAAT
97047 TTTAAAAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
CATTAATTTTGTAAAAAATA
Found at i:103492 original size:2 final size:2
Alignment explanation
Indices: 103479--103512 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
103469 TTGAAGAAAT
*
103479 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103513 ACACACATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:105559 original size:2 final size:2
Alignment explanation
Indices: 105552--105587 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
105542 TCACTATGCC
105552 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
105588 TATCCACTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107135 original size:15 final size:14
Alignment explanation
Indices: 107112--107160 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
107102 AAAAATTTTA
*
107112 AATATAATATAACAT
1 AATAAAATATAA-AT
*
107127 AATAAAATATATA-
1 AATAAAATATAAAT
107140 AATAAAATATAAAT
1 AATAAAATATAAAT
107154 ATATAAA
1 A-ATAAA
107161 TTAATCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 12 0.41
14 2 0.07
15 15 0.52
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAAAATATAAAT
Found at i:108255 original size:21 final size:21
Alignment explanation
Indices: 108231--108271 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
108221 ATTTTGAAAG
108231 ATATTTTAT-ATTAATATTTAT
1 ATATTTTATAATTAA-ATTTAT
108252 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
108272 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:109608 original size:12 final size:13
Alignment explanation
Indices: 109591--109619 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
109581 ACAACGCAAT
109591 AAAAAGAAA-AAA
1 AAAAAGAAAGAAA
109603 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
109616 AAAA
1 AAAA
109620 CCAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAA
Found at i:110411 original size:17 final size:17
Alignment explanation
Indices: 110389--110422 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
110379 GATTAGTCTC
110389 TTTCTTTCTTTTGTTTG
1 TTTCTTTCTTTTGTTTG
* *
110406 TTTCTTTTTTTTTTTTG
1 TTTCTTTCTTTTGTTTG
110423 ATATATTGTA
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:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTCTTTCTTTTGTTTG
Found at i:119672 original size:22 final size:24
Alignment explanation
Indices: 119621--119673 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
119611 TATATATATG
*
119621 ATATAAAAAATAAAAAAATATGAA
1 ATATAAAAAATAAAAAAATACGAA
* *
119645 ATATAATAAA-AATAAAATACG-A
1 ATATAAAAAATAAAAAAATACGAA
119667 ATATAAA
1 ATATAAA
119674 TATATAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 7 0.28
23 9 0.36
24 9 0.36
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (24 bp):
ATATAAAAAATAAAAAAATACGAA
Found at i:120492 original size:41 final size:41
Alignment explanation
Indices: 120409--120489 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
120399 ATTTTTATAT
120409 TAATATTTATAATTAAATCAAAATAAATTTTATTATATAAA
1 TAATATTTATAATTAAATCAAAATAAATTTTATTATATAAA
* *
120450 TAATAATTTA-AATTGAATCAAAAT-GATTTGTATTAT-TAAA
1 TAAT-ATTTATAATTAAATCAAAATAAATTT-TATTATATAAA
120490 ATACTTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
40 8 0.22
41 23 0.64
42 5 0.14
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (41 bp):
TAATATTTATAATTAAATCAAAATAAATTTTATTATATAAA
Found at i:120503 original size:41 final size:41
Alignment explanation
Indices: 120419--120504 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
120409 TAATATTTAT
*
120419 AATTAAATCAAAATAAATTTTATTATATAAATAATAATTTA
1 AATTAAATCAAAATAAATTTTATTATATAAATAATAATATA
* * * *
120460 AATTGAATCAAAAT-GATTTGTATTAT-TAAAATACTTATATA
1 AATTAAATCAAAATAAATTT-TATTATAT-AAATAATAATATA
120501 AATT
1 AATT
120505 TAACTCGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
40 5 0.13
41 33 0.87
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (41 bp):
AATTAAATCAAAATAAATTTTATTATATAAATAATAATATA
Found at i:120749 original size:19 final size:18
Alignment explanation
Indices: 120724--120760 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
120714 TGAAATTTCA
120724 ATTTTTTT-ATTAATATTT
1 ATTTTTTTAATTAA-ATTT
120742 ATTTTTTTAATTAAATTT
1 ATTTTTTTAATTAAATTT
120760 A
1 A
120761 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTTTAATTAAATTT
Found at i:121158 original size:22 final size:21
Alignment explanation
Indices: 121133--121207 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 21
121123 TATTATTTTT
*
121133 ATATTTTATAATTATATTTAAA
1 ATATTTTAT-ATTATATATAAA
* *
121155 ATATTATATATTTTATATAAA
1 ATATTTTATATTATATATAAA
*
121176 A-A-TTTA-A--ATATAT-TA
1 ATATTTTATATTATATATAAA
*
121191 ATAATTTATATTATATA
1 ATATTTTATATTATATA
121208 AATTTTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
15 2 0.05
16 6 0.14
17 4 0.10
18 2 0.05
19 3 0.07
20 6 0.14
21 11 0.26
22 8 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTTTATATTATATATAAA
Found at i:121169 original size:29 final size:29
Alignment explanation
Indices: 121110--121235 Score: 97
Period size: 29 Copynumber: 4.4 Consensus size: 29
121100 AGTCCGAAAA
* * *
121110 TTTATATTATGTTT-ATTAT-TTTTATAT
1 TTTATATTATATTTAAATATATTATATAT
121137 TTTATAATTATATTTAAA-ATATTATATAT
1 TTTAT-ATTATATTTAAATATATTATATAT
* * *
121166 TTTATATAAAAATTTAAATATATTA-ATAA
1 TTTATAT-TATATTTAAATATATTATATAT
121195 TTTATATTATA--TAAAT-T-TTGATATAT
1 TTTATATTATATTTAAATATATT-ATATAT
121221 TTATATATCTATATT
1 TT-TATAT-TATATT
121236 ATATTATATT
Statistics
Matches: 79, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
24 2 0.03
25 2 0.03
26 10 0.13
27 10 0.13
28 18 0.23
29 31 0.39
30 6 0.08
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTATATTATATTTAAATATATTATATAT
Found at i:121267 original size:33 final size:32
Alignment explanation
Indices: 121131--121268 Score: 93
Period size: 32 Copynumber: 4.2 Consensus size: 32
121121 TTTATTATTT
* * *
121131 TTATATTTTATAATTATATTTAAAATA-TTATATA
1 TTATATTATATAA--AT-TTTAATATATTTATAAA
* * * * *
121165 TTTTA-TATAAAAATTTAAATATATTAATAAT
1 TTATATTATATAAATTTTAATATATTTATAAA
* *
121196 TTATATTATATAAATTTTGATATATTTATATA
1 TTATATTATATAAATTTTAATATATTTATAAA
* *
121228 TCTATATTATATTATATTTTAAT-TAATTTTTAAA
1 T-TATATTATA-TAAATTTTAATAT-ATTTATAAA
121262 TTATATT
1 TTATATT
121269 TATCATGTAT
Statistics
Matches: 80, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
30 7 0.09
31 10 0.12
32 21 0.26
33 21 0.26
34 21 0.26
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
TTATATTATATAAATTTTAATATATTTATAAA
Found at i:121975 original size:11 final size:11
Alignment explanation
Indices: 121959--122111 Score: 50
Period size: 11 Copynumber: 13.5 Consensus size: 11
121949 ATTTTAATAT
121959 TATTATTTTTA
1 TATTATTTTTA
*
121970 TATTATATTTA
1 TATTATTTTTA
121981 TA-TA--TTTA
1 TATTATTTTTA
* *
121989 TATTACTTATA
1 TATTATTTTTA
***
122000 -ATTTACTTAAAA
1 TA-TTA-TTTTTA
122012 TATTATATATTTA
1 TATTAT-T-TTTA
122025 TCA-TATTTTT-
1 T-ATTATTTTTA
* *
122035 TAATATATTTA
1 TATTATTTTTA
*
122046 TATTATATTTA
1 TATTATTTTTA
*
122057 TATTTTTTTATGATA
1 TA-TTATTT-T--TA
122072 TATTATATTTTA
1 TATTAT-TTTTA
* *
122084 TATAATATTTA
1 TATTATTTTTA
122095 -ATTATTTTTTA
1 TATTA-TTTTTA
122106 TATTAT
1 TATTAT
122112 ATTTGTTTTA
Statistics
Matches: 107, Mismatches: 17, Indels: 36
0.67 0.11 0.22
Matches are distributed among these distances:
8 6 0.06
9 3 0.03
10 13 0.12
11 44 0.41
12 23 0.21
13 7 0.07
14 5 0.05
15 6 0.06
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:121987 original size:21 final size:21
Alignment explanation
Indices: 121958--122093 Score: 54
Period size: 21 Copynumber: 6.5 Consensus size: 21
121948 AATTTTAATA
121958 TTAT-TATTTTTATATTATAT
1 TTATATATTTTTATATTATAT
*
121978 TTATATATTTATATTACTTATAAT
1 TTATATATTTTTA-TA-TTAT-AT
***
122002 TTACT-TA-AAATAT-TATATAT
1 TTA-TATATTTTTATAT-TATAT
*
122022 TTATCATATTTTT-TAATATAT
1 TTAT-ATATTTTTATATTATAT
* *
122043 TTATATTATATTTATATT-TTT
1 TTATA-TATTTTTATATTATAT
* *
122064 TTATGATA-TATTATATTTTAT
1 TTAT-ATATTTTTATATTATAT
*
122085 ATA-ATATTT
1 TTATATATTT
122094 AATTATTTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 30
0.66 0.11 0.23
Matches are distributed among these distances:
19 4 0.05
20 19 0.22
21 40 0.47
22 8 0.09
23 7 0.08
24 7 0.08
25 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (21 bp):
TTATATATTTTTATATTATAT
Found at i:122060 original size:17 final size:17
Alignment explanation
Indices: 122038--122115 Score: 54
Period size: 19 Copynumber: 4.4 Consensus size: 17
122028 TATTTTTTAA
122038 TATATTTATATTATATT
1 TATATTTATATTATATT
* *
122055 TATATTTTTTTATGATATAT
1 TATA--TTTATATTATAT-T
*
122075 TATATTTTATATAATATT
1 TATA-TTTATATTATATT
122093 TAATTATTT-T-TTATA-T
1 T-A-TATTTATATTATATT
122109 TATATTT
1 TATATTT
122116 GTTTTATGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.10
15 1 0.02
16 2 0.04
17 8 0.16
18 3 0.06
19 25 0.49
20 7 0.14
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (17 bp):
TATATTTATATTATATT
Found at i:122073 original size:32 final size:33
Alignment explanation
Indices: 122017--122086 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
122007 TAAAATATTA
122017 TATATTTATCATATTTTTTAATATATT-TATAT
1 TATATTTATCATATTTTTTAATATATTATATAT
*
122049 TATATTTAT-AT-TTTTTTATGATATATTATATTT
1 TATATTTATCATATTTTTTA--ATATATTATATAT
122082 TATAT
1 TATAT
122087 AATATTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 7 0.21
31 2 0.06
32 16 0.47
33 9 0.26
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (33 bp):
TATATTTATCATATTTTTTAATATATTATATAT
Found at i:122092 original size:32 final size:31
Alignment explanation
Indices: 122011--122093 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 31
122001 TTTACTTAAA
* *
122011 ATATTATATATT-TATCATATTTTTTAATAT
1 ATATTATATTTTATATAATATTTTTTAATAT
* * *
122041 AT-TTATATTATAT-TTATATTTTTTTATGAT
1 ATATTATATTTTATATAATATTTTTTAAT-AT
122071 ATATTATATTTTATATAATATTT
1 ATATTATATTTTATATAATATTT
122094 AATTATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 19 0.44
30 7 0.16
31 10 0.23
32 7 0.16
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (31 bp):
ATATTATATTTTATATAATATTTTTTAATAT
Found at i:122122 original size:38 final size:37
Alignment explanation
Indices: 121950--122115 Score: 107
Period size: 39 Copynumber: 4.5 Consensus size: 37
121940 CGTATTTAAA
* *
121950 TTTTAATAT-TATTAT-TTTTATATTATATTTATA--
1 TTTTTATATATATTATATTTTATATAATATTTATATT
* * *
121983 TATTTATAT-TACTTATAATTTACT-TAAAATATTATATAT
1 TTTTTATATATA-TTATATTTTA-TATAATAT-TTATAT-T
* * * * *
122022 TTATCATATTTTTTAATATATTTATATTATATTTATATT
1 TTTTTATATATATT-ATAT-TTTATATAATATTTATATT
122061 TTTTTATGATATATTATATTTTATATAATATTTA-ATT
1 TTTTTAT-ATATATTATATTTTATATAATATTTATATT
*
122098 ATTTT-T-TATATTATATTT
1 TTTTTATATATATTATATTT
122116 GTTTTATGCC
Statistics
Matches: 103, Mismatches: 18, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
33 9 0.09
34 16 0.16
35 8 0.08
36 7 0.07
37 7 0.07
38 14 0.14
39 18 0.17
40 16 0.16
41 8 0.08
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (37 bp):
TTTTTATATATATTATATTTTATATAATATTTATATT
Found at i:125711 original size:2 final size:2
Alignment explanation
Indices: 125704--125736 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
125694 AATTTCTTTC
125704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125737 TCCATTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:129087 original size:27 final size:28
Alignment explanation
Indices: 129052--129118 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
129042 AGTTAGTAAA
129052 TTATATTATA-TAAATTTTAAGTTATTTT
1 TTATATTATATTAAATTTTAA-TTATTTT
*
129080 TTAT-TTATATTATATTTTAATTATTTT
1 TTATATTATATTAAATTTTAATTATTTT
*
129107 TTATATCATATT
1 TTATATTATATT
129119 CATATAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.46
28 19 0.54
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
TTATATTATATTAAATTTTAATTATTTT
Found at i:129429 original size:16 final size:17
Alignment explanation
Indices: 129408--129442 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
129398 AAGTAATCGA
*
129408 AAAAGATCTTT-TATTT
1 AAAAGATATTTATATTT
129424 AAAAGATATTTATATTT
1 AAAAGATATTTATATTT
129441 AA
1 AA
129443 TAAGTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (17 bp):
AAAAGATATTTATATTT
Found at i:129586 original size:2 final size:2
Alignment explanation
Indices: 129579--129608 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
129569 ATGATTTTTC
129579 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
129609 TTCATTATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130429 original size:19 final size:18
Alignment explanation
Indices: 130396--130450 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
130386 CAAAATTTAA
* *
130396 AAAAAAAAATGATTTTTG
1 AAAAAAGAATTATTTTTG
*
130414 AAAAATAGAATTATTTTTT
1 AAAAA-AGAATTATTTTTG
* *
130433 AAAAAATAATTTTTTTTG
1 AAAAAAGAATTATTTTTG
130451 GTTATTGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (18 bp):
AAAAAAGAATTATTTTTG
Found at i:131939 original size:18 final size:17
Alignment explanation
Indices: 131898--131965 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 17
131888 AAATACGAGT
131898 TAAAATTTATATAAA-A
1 TAAAATTTATATAAATA
131914 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
131929 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
131947 TAAAATATT-T-TAAATA
1 TAAAAT-TTATATAAATA
131963 TAA
1 TAA
131966 TTATTAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.07
14 5 0.11
15 4 0.09
16 11 0.24
17 10 0.22
18 9 0.20
19 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:131958 original size:20 final size:19
Alignment explanation
Indices: 131905--131956 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
131895 AGTTAAAATT
*
131905 TATATAAAATAAATTATTAA
1 TATATAAAAT-ATTTATTAA
*
131925 TATATTAAA-ATTTATATAA
1 TATATAAAATATTTAT-TAA
131944 -ATATAAAATATTT
1 TATATAAAATATTT
131957 TAAATATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 12 0.44
19 7 0.26
20 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATAAAATATTTATTAA
Found at i:135357 original size:2 final size:2
Alignment explanation
Indices: 135352--135380 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
135342 GTGTGTCTAC
135352 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
135381 GCACCAACCT
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:139398 original size:19 final size:20
Alignment explanation
Indices: 139362--139401 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
139352 TTGTAAAATT
* *
139362 AATAAAAATCATTAATAATA
1 AATAAAAATAACTAATAATA
139382 AATAAAAATAACT-ATAATA
1 AATAAAAATAACTAATAATA
139401 A
1 A
139402 TTTATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAAAATAACTAATAATA
Found at i:140101 original size:33 final size:34
Alignment explanation
Indices: 140059--140123 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
140049 AACTAATGCG
140059 ATTGATTGAAACATATATATATATATA-TATATA
1 ATTGATTGAAACATATATATATATATACTATATA
140092 ATTGATTGAAACATATATATATATATACTATA
1 ATTGATTGAAACATATATATATATATACTATA
140124 ATTTTAGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.42
Consensus pattern (34 bp):
ATTGATTGAAACATATATATATATATACTATATA
Found at i:141076 original size:21 final size:23
Alignment explanation
Indices: 141035--141076 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
141025 AATTTTTATA
*
141035 TTTAATAAATATATTTATTAAAT
1 TTTAATAAATATATATATTAAAT
141058 TTTAA-AAATA-ATATATTAA
1 TTTAATAAATATATATATTAA
141077 TTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAATAAATATATATATTAAAT
Found at i:149388 original size:2 final size:2
Alignment explanation
Indices: 149381--149412 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
149371 TATGGGGTAA
149381 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
149413 GCAGCAAAGA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:149945 original size:60 final size:60
Alignment explanation
Indices: 149881--150017 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 60
149871 AAATAATTAT
*
149881 TTAATTTAAATTAAATTAAATTTAAGT-GTAAA-ATTTAATATGAATATGACTTTCTTACTG
1 TTAATTTAAATTAAATTAAATTTAA-TAGTAAATATTAAATATGAA-ATGACTTTCTTACTG
** * * * *
149941 TTAATACATACTAAATTAAATTTAATATTAAATATTAAATATTAAATGACTTTCTTACTG
1 TTAATTTAAATTAAATTAAATTTAATAGTAAATATTAAATATGAAATGACTTTCTTACTG
150001 TTAAATTTAAATATAAA
1 TT-AATTTAAAT-TAAA
150018 ATTTAATATT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
59 1 0.02
60 42 0.68
61 15 0.24
62 4 0.06
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (60 bp):
TTAATTTAAATTAAATTAAATTTAATAGTAAATATTAAATATGAAATGACTTTCTTACTG
Found at i:149976 original size:7 final size:7
Alignment explanation
Indices: 149955--149987 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
149945 TACATACTAA
149955 ATTAAAT
1 ATTAAAT
149962 -TT-AAT
1 ATTAAAT
149967 ATTAAAT
1 ATTAAAT
149974 ATTAAAT
1 ATTAAAT
149981 ATTAAAT
1 ATTAAAT
149988 GACTTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 3 0.12
6 4 0.17
7 17 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTAAAT
Found at i:150025 original size:12 final size:12
Alignment explanation
Indices: 150003--150036 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
149993 TCTTACTGTT
150003 AAATTTAAATATA
1 AAATTT-AATATA
*
150016 AAATTTAATATT
1 AAATTTAATATA
150028 AAATTTAAT
1 AAATTTAAT
150037 GAAATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATTTAATATA
Found at i:166259 original size:18 final size:19
Alignment explanation
Indices: 166236--166271 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
166226 TTACATACAA
166236 ATAACAACCTT-AATAAAG
1 ATAACAACCTTAAATAAAG
166254 ATAACAACCTTAAATAAA
1 ATAACAACCTTAAATAAA
166272 ATTGAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.58, C:0.17, G:0.03, T:0.22
Consensus pattern (19 bp):
ATAACAACCTTAAATAAAG
Found at i:172617 original size:3 final size:3
Alignment explanation
Indices: 172605--172639 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
172595 TAACAACAAC
*
172605 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
172640 TATTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:172797 original size:12 final size:12
Alignment explanation
Indices: 172752--172817 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
172742 TAATTATTAT
*
172752 ATATGATATAAA
1 ATATAATATAAA
172764 A-A-AATA-AAA
1 ATATAATATAAA
*
172773 AT-TAATTTAAAA
1 ATATAATAT-AAA
*
172785 ATATATTATAAA
1 ATATAATATAAA
*
172797 ATATAATATAAC
1 ATATAATATAAA
172809 ATA-AATATA
1 ATATAATATA
172818 TAACTATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
9 4 0.09
10 6 0.14
11 7 0.16
12 22 0.51
13 4 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (12 bp):
ATATAATATAAA
Done.