Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold221
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: 2539808
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 19
Found at i:3706 original size:2 final size:2
Alignment explanation
Indices: 3699--3729 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3689 GTAGATGGGC
3699 TA 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 TA T
3730 TGATGCCTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4555 original size:2 final size:2
Alignment explanation
Indices: 4548--4575 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4538 TATTATAATC
4548 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4576 TTTCTATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4593 original size:2 final size:2
Alignment explanation
Indices: 4588--4617 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4578 TCTATATCTC
4588 TA 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
4618 GGGTTTTTAG
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):
TA
Found at i:5021 original size:31 final size:33
Alignment explanation
Indices: 4950--5022 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
4940 CAATAAATAT
*
4950 TAAAATAATATCTATTTTAGCATGGAAGCAGGAAC
1 TAAAA-AATATCTATTTTAGCAT-GAAGCAAGAAC
*
4985 T-AAAAATATCTCTTTTAGCAT-AAGCAAGAA-
1 TAAAAAATATCTATTTTAGCATGAAGCAAGAAC
5015 TAAAAAAT
1 TAAAAAAT
5023 TAAACCATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 1 0.03
31 14 0.40
33 16 0.46
34 3 0.09
35 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (33 bp):
TAAAAAATATCTATTTTAGCATGAAGCAAGAAC
Found at i:5840 original size:35 final size:37
Alignment explanation
Indices: 5773--5853 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
5763 GTTTGGTTAG
* ** *
5773 CTATTTGTCTAAGGTCATGCCTTCTCATTGTTTT-TT
1 CTATTTGTCAAAGGAAATACCTTCTCATTGTTTTATT
5809 CTATTTGTCAAAGGAAATACCTT-TCATTGTTTTATT
1 CTATTTGTCAAAGGAAATACCTTCTCATTGTTTTATT
5845 CTATGTTGT
1 CTAT-TTGT
5854 ATCAACGGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
35 10 0.26
36 25 0.64
37 4 0.10
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.51
Consensus pattern (37 bp):
CTATTTGTCAAAGGAAATACCTTCTCATTGTTTTATT
Found at i:8350 original size:16 final size:16
Alignment explanation
Indices: 8321--8355 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8311 TGAAATTTGC
8321 TTTGTAAATAATGTGA
1 TTTGTAAATAATGTGA
8337 TTTGTGAAAT-ATGTGA
1 TTTGT-AAATAATGTGA
8353 TTT
1 TTT
8356 TTGTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTGTAAATAATGTGA
Found at i:8555 original size:38 final size:39
Alignment explanation
Indices: 8507--8688 Score: 171
Period size: 38 Copynumber: 4.8 Consensus size: 39
8497 GTGCCACCGG
8507 TTAAGAATAGTGATTTTTGTTTCGAACTATGTCACTGGT
1 TTAAGAATAGTGATTTTTGTTTCGAACTATGTCACTGGT
* *
8546 TTAA-AATAGTGATTTTTGTTTCG-ACTCGTGTCAC-CG-
1 TTAAGAATAGTGATTTTTGTTTCGAACT-ATGTCACTGGT
* * * **
8582 TTAAGAATAGTGATTTTTGTTTTGACCTGTGTCACT-AA
1 TTAAGAATAGTGATTTTTGTTTCGAACTATGTCACTGGT
* * * *
8620 TTAAGAATAGTGGTTTTTGTTTCGAACCATGCCGCTGG-
1 TTAAGAATAGTGATTTTTGTTTCGAACTATGTCACTGGT
* * *
8658 TTGAGAATAGT-AGTTTTTGTTTTGATCTATG
1 TTAAGAATAGTGA-TTTTTGTTTCGAACTATG
8689 GCACAGGGGT
Statistics
Matches: 118, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
36 4 0.03
37 29 0.25
38 81 0.69
39 4 0.03
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (39 bp):
TTAAGAATAGTGATTTTTGTTTCGAACTATGTCACTGGT
Found at i:8585 original size:75 final size:75
Alignment explanation
Indices: 8488--8688 Score: 219
Period size: 75 Copynumber: 2.7 Consensus size: 75
8478 TTAGAAACCG
* **
8488 GTTTCAACCGTGCCACCGGTTAAGAATAGTGATTTTTGTTTCGAACTATGTCACTGGTTTAA-AA
1 GTTTCGACCGTGCCACCGGTTAAGAATAGTGATTTTTGTTTCGAACTATGTCACT-AATTAAGAA
8552 TAGTGATTTTT
65 TAGTGATTTTT
* * * *
8563 GTTTCGACTCGTGTCACC-GTTAAGAATAGTGATTTTTGTTTTGACCTGTGTCACTAATTAAGAA
1 GTTTCGAC-CGTGCCACCGGTTAAGAATAGTGATTTTTGTTTCGAACTATGTCACTAATTAAGAA
*
8627 TAGTGGTTTTT
65 TAGTGATTTTT
* * * * * *
8638 GTTTCGAACCATGCCGCTGGTTGAGAATAGT-AGTTTTTGTTTTGATCTATG
1 GTTTCG-ACCGTGCCACCGGTTAAGAATAGTGA-TTTTTGTTTCGAACTATG
8689 GCACAGGGGT
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
74 4 0.04
75 65 0.61
76 37 0.35
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (75 bp):
GTTTCGACCGTGCCACCGGTTAAGAATAGTGATTTTTGTTTCGAACTATGTCACTAATTAAGAAT
AGTGATTTTT
Found at i:10832 original size:41 final size:42
Alignment explanation
Indices: 10769--10849 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 42
10759 TTAGATTATA
10769 CTAAAGTCCTAGATAACAAAGGAAACTAAAAATTCAAAAAAT
1 CTAAAGTCCTAGATAACAAAGGAAACTAAAAATTCAAAAAAT
** * * *
10811 CTAAA-TCCTAGATAATTAAGGAAATTAAATATTTAAAAA
1 CTAAAGTCCTAGATAACAAAGGAAACTAAAAATTCAAAAA
10850 TAACAAATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 29 0.85
42 5 0.15
ACGTcount: A:0.56, C:0.11, G:0.09, T:0.25
Consensus pattern (42 bp):
CTAAAGTCCTAGATAACAAAGGAAACTAAAAATTCAAAAAAT
Found at i:10858 original size:41 final size:41
Alignment explanation
Indices: 10768--10859 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
10758 TTTAGATTAT
10768 ACTAAAGTCCTAGATAACAAAGGAAACTAAAAATTCAAAAAA
1 ACTAAA-TCCTAGATAACAAAGGAAACTAAAAATTCAAAAAA
* ** * * *
10810 TCTAAATCCTAGATAATTAAGGAAATTAAATATTTAAAAATA
1 ACTAAATCCTAGATAACAAAGGAAACTAAAAATTCAAAAA-A
10852 AC-AAATCC
1 ACTAAATCC
10860 CTTAACTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 35 0.83
42 7 0.17
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.24
Consensus pattern (41 bp):
ACTAAATCCTAGATAACAAAGGAAACTAAAAATTCAAAAAA
Found at i:19113 original size:13 final size:13
Alignment explanation
Indices: 19091--19136 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
19081 TTTACGTTAA
*
19091 TTATAAAAATTAT
1 TTATATAAATTAT
19104 TTATATAAATTAT
1 TTATATAAATTAT
*
19117 ATAATATAAATATAT
1 -TTATATAAAT-TAT
19132 TTATA
1 TTATA
19137 AGTCTTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.43
14 13 0.46
15 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTATATAAATTAT
Found at i:19333 original size:38 final size:38
Alignment explanation
Indices: 19282--19357 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
19272 ATATGTATAA
19282 CTTATAAATATAAAACTAGTTTGATCATTTCATCAATT
1 CTTATAAATATAAAACTAGTTTGATCATTTCATCAATT
*
19320 CTTATAAATATAAAACTAGTTTGATCATTTTATCAATT
1 CTTATAAATATAAAACTAGTTTGATCATTTCATCAATT
19358 AACATGATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.43
Consensus pattern (38 bp):
CTTATAAATATAAAACTAGTTTGATCATTTCATCAATT
Found at i:20210 original size:37 final size:37
Alignment explanation
Indices: 20168--20241 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
20158 GGCCTAACCT
20168 TTCCATAGATTTAGGATGTCAAACTAATTGTCATGTG
1 TTCCATAGATTTAGGATGTCAAACTAATTGTCATGTG
* *
20205 TTCCATAGATTTGGGATGTCAAACTGATTGTCATGTG
1 TTCCATAGATTTAGGATGTCAAACTAATTGTCATGTG
20242 ACTACGACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (37 bp):
TTCCATAGATTTAGGATGTCAAACTAATTGTCATGTG
Found at i:20927 original size:14 final size:15
Alignment explanation
Indices: 20902--20930 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20892 TAAACCTTAA
20902 ACTAACCCCATAAAC
1 ACTAACCCCATAAAC
20917 ACTAA-CCCATAAAC
1 ACTAACCCCATAAAC
20931 CATATATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (15 bp):
ACTAACCCCATAAAC
Found at i:23143 original size:17 final size:18
Alignment explanation
Indices: 23115--23151 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
23105 ATAACCATTA
*
23115 AACCATAACCCTAACCAT
1 AACCATAACCCTAAACAT
23133 AACCA-AACCCTAAACAT
1 AACCATAACCCTAAACAT
23150 AA
1 AA
23152 TTTCATAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (18 bp):
AACCATAACCCTAAACAT
Found at i:25981 original size:15 final size:15
Alignment explanation
Indices: 25961--25991 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25951 CAATATACTT
25961 TATTATATTAAAAAA
1 TATTATATTAAAAAA
*
25976 TATTATATTATAAAA
1 TATTATATTAAAAAA
25991 T
1 T
25992 TAAAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTATATTAAAAAA
Found at i:28392 original size:17 final size:17
Alignment explanation
Indices: 28370--28403 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
28360 GGCCGAGCGT
28370 TGGACACGTG-TCCGACA
1 TGGACACG-GCTCCGACA
28387 TGGACACGGCTCCGACA
1 TGGACACGGCTCCGACA
28404 CAGTTGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (17 bp):
TGGACACGGCTCCGACA
Found at i:38035 original size:18 final size:19
Alignment explanation
Indices: 37996--38036 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
37986 ATTATTATAA
*
37996 AAAATTTTATTTTATTTTT
1 AAAATTTTATTTTATTTGT
38015 AAAA-TTTA-TTTAGTTTGT
1 AAAATTTTATTTTA-TTTGT
38033 AAAA
1 AAAA
38037 AAGAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
AAAATTTTATTTTATTTGT
Found at i:40575 original size:11 final size:11
Alignment explanation
Indices: 40556--40588 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
40546 TATATAGTCT
*
40556 TAAAGGATATA
1 TAAAAGATATA
40567 TAAAAGATATA
1 TAAAAGATATA
40578 TAAAA-ATATA
1 TAAAAGATATA
40588 T
1 T
40589 TTATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (11 bp):
TAAAAGATATA
Found at i:40772 original size:2 final size:2
Alignment explanation
Indices: 40765--40792 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
40755 AATCATCGAA
40765 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
40793 GTAGCGCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41702 original size:2 final size:2
Alignment explanation
Indices: 41690--41723 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
41680 AATGCCCAGA
41690 AT AT A- 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 AT AT A
41724 ATTAATACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:41878 original size:21 final size:21
Alignment explanation
Indices: 41839--41878 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
41829 TTCTTTTAGT
* *
41839 ACTATATATTTATTTAATATA
1 ACTATATATTTAATGAATATA
41860 ACTATATATTTAATGAATA
1 ACTATATATTTAATGAATA
41879 AAATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
ACTATATATTTAATGAATATA
Found at i:44734 original size:18 final size:18
Alignment explanation
Indices: 44677--44734 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
44667 ATATGTTGTA
*
44677 TTTTTAATAT-TTTTAAAT
1 TTTTTAAT-TCTTTCAAAT
* *
44695 TTTTTAATCCTTTC-ATT
1 TTTTTAATTCTTTCAAAT
44712 CTTTTTAATTCTTTCAAAT
1 -TTTTTAATTCTTTCAAAT
44731 TTTT
1 TTTT
44735 GTGAGAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAATTCTTTCAAAT
Found at i:50565 original size:15 final size:15
Alignment explanation
Indices: 50536--50564 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50526 TTATTTATAT
50536 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
50551 TTTT-AAATAAAAAA
1 TTTTAAAATAAAAAA
50565 AGGGTTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:50776 original size:124 final size:123
Alignment explanation
Indices: 50471--50830 Score: 500
Period size: 124 Copynumber: 2.9 Consensus size: 123
50461 TCACCACTTC
* * *
50471 AAATAAAAAATAATATTTAATTAACTTTAAAAAATTATATTAACAAATTTAAATATT-A-T-TTA
1 AAATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTA
* * * ** *
50533 TATTTTTA-AAATA-AAAAATTTTAAATAAAAAAAGGGTTCATTATTATTATTTTTTAATA
66 TGTTTTTATAAAAATAAAAATTTTAAA-ATAAAAA-GGTTTTTTATTA-TAATTTTTAATA
*
50592 AAATTAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTA
1 AAATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTA
*
50657 TGTTTTTATAAAAATAAAAATTTTAAAATAAAAAGGTTTTTTATCATAATTTTTAATA
66 TGTTTTTATAAAAATAAAAATTTTAAAATAAAAAGGTTTTTTATTATAATTTTTAATA
50715 AAATAAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATT
1 AAATAAAAAATAATATTTAATTAAGTTTAAAAAA-TTACATTAACAAATTAAAATATTAATTATT
* *
50780 ATGTTTTT-T-AAAATAAAAAATTTTAAATTAAAAAAGGCTTTTTATTATAAT
65 ATGTTTTTATAAAAAT-AAAAATTTTAAAAT-AAAAAGGTTTTTTATTATAAT
50831 AATATTTTTT
Statistics
Matches: 216, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
121 53 0.25
122 6 0.03
123 59 0.27
124 76 0.35
125 10 0.05
126 12 0.06
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (123 bp):
AAATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTA
TGTTTTTATAAAAATAAAAATTTTAAAATAAAAAGGTTTTTTATTATAATTTTTAATA
Found at i:50812 original size:14 final size:15
Alignment explanation
Indices: 50785--50814 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50775 TTATTATGTT
50785 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
*
50800 TTTTAAATTAAAAAA
1 TTTTAAAATAAAAAA
50815 GGCTTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:50865 original size:14 final size:13
Alignment explanation
Indices: 50841--50875 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
50831 AATATTTTTT
*
50841 TATTTTTTAAATA
1 TATTTTTTAAAAA
50854 TATTTTTGTAAAAA
1 TATTTTT-TAAAAA
50868 TATTTTTT
1 TATTTTTT
50876 TCGTTGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:51238 original size:33 final size:29
Alignment explanation
Indices: 51197--51261 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
51187 AATATCATTT
51197 TTTATTTTATTAAAAAATAATAATAATAAATA
1 TTTATTTTA-T-AAAAAT-ATAATAATAAATA
* *
51229 TTTATTTTTATAAAAATGTAATAATTAATA
1 TTTA-TTTTATAAAAATATAATAATAAATA
51259 TTT
1 TTT
51262 TAATTTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 14 0.47
31 6 0.20
32 5 0.17
33 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TTTATTTTATAAAAATATAATAATAAATA
Found at i:51299 original size:108 final size:109
Alignment explanation
Indices: 51150--51420 Score: 365
Period size: 108 Copynumber: 2.4 Consensus size: 109
51140 AATATTATTT
* *
51150 TTTTAATTTGTTAATGTAAATTTTTAAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAAATTTTTTAAATTTAATTAAATAT-ATTTTTAATTTTATTAAAAAAT
51215 AATAATAATAAA-TATTT-A-TTTTTA-TAAAAATGTAATAATTAATA
65 AATAATAATAAACTATTTAATTTTTTATTAAAAA---AATAATTAATA
51259 TTTTAATTTGTTAATGT-AATTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAAATTTTTTAAATTTAATTAAATA-TATTTTTAATTTTATTAAAAAAT
*
51323 AATAATAATAAACCCTTTATTTAATTTTTTATTTAAAAAATAATTAATA
65 AATAATAATAAA--C--TATTTAATTTTTTATTAAAAAAATAATTAATA
* *
51372 TTTTAATTTATTAATGTAAATTTTTT-AAGTTAATTAAATAATATTTTTA
1 TTTTAATTTGTTAATGTAAATTTTTTAAATTTAATTAAAT-ATATTTTTA
51421 TTAAAAATAA
Statistics
Matches: 146, Mismatches: 5, Indels: 18
0.86 0.03 0.11
Matches are distributed among these distances:
108 55 0.38
109 18 0.12
113 52 0.36
114 10 0.07
115 6 0.04
116 5 0.03
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (109 bp):
TTTTAATTTGTTAATGTAAATTTTTTAAATTTAATTAAATATATTTTTAATTTTATTAAAAAATA
ATAATAATAAACTATTTAATTTTTTATTAAAAAAATAATTAATA
Found at i:51386 original size:39 final size:39
Alignment explanation
Indices: 51248--51386 Score: 91
Period size: 39 Copynumber: 3.7 Consensus size: 39
51238 ATAAAAATGT
* * *
51248 AATAATTAATATTTTAATTTGTTAATGTAATTT-TTT-AAA
1 AATAATTAATATATTAATTTATTAAT-T-TTTTATTTAAAA
**
51287 TTTAATTAA-ATATT-ATTT-TTAA--TTTTA-TTAAAA
1 AATAATTAATATATTAATTTATTAATTTTTTATTTAAAA
*
51320 AATAA-TAATA-ATAAACCCTTTATTTAATTTTTTATTTAAAA
1 AATAATTAATATATTAA---TTTA-TTAATTTTTTATTTAAAA
*
51361 AATAATTAATATTTTAATTTATTAAT
1 AATAATTAATATATTAATTTATTAAT
51387 GTAAATTTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 28
0.68 0.08 0.25
Matches are distributed among these distances:
32 10 0.13
33 8 0.10
36 7 0.09
37 4 0.05
38 8 0.10
39 12 0.16
40 9 0.12
41 11 0.14
42 5 0.06
43 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (39 bp):
AATAATTAATATATTAATTTATTAATTTTTTATTTAAAA
Found at i:51396 original size:113 final size:106
Alignment explanation
Indices: 51150--51420 Score: 364
Period size: 113 Copynumber: 2.5 Consensus size: 106
51140 AATATTATTT
* *
51150 TTTTAATTTGTTAATGTAAATTTTTAAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAAATTTTT-AAATTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
51215 AATAATAATAAATATTTATTTTTATAAAAATGTAATAATTAATA
65 AATAATAATAAATATTTATTTTTATAAAAA--TAATAATTAATA
*
51259 TTTTAATTTGTTAATGTAATTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAATA
1 TTTTAATTTGTTAATGTAAATTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAATA
*
51324 ATAATAATAAACCCTTTATTTAATTTTTTATTTAAAA-AATAATTAATA
66 ATAATAATAAA-----TATTT-A-TTTTTA-TAAAAATAATAATTAATA
* * * *
51372 TTTTAATTTATTAATGTAAATTTTTTAAGTTAATTAAATAATATTTTTA
1 TTTTAATTTGTTAATGTAAATTTTTAAATTTAATTAAATATTATTTTTA
51421 TTAAAAATAA
Statistics
Matches: 145, Mismatches: 9, Indels: 12
0.87 0.05 0.07
Matches are distributed among these distances:
108 49 0.34
109 24 0.17
113 60 0.41
114 1 0.01
115 6 0.04
116 5 0.03
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (106 bp):
TTTTAATTTGTTAATGTAAATTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAATA
ATAATAATAAATATTTATTTTTATAAAAATAATAATTAATA
Found at i:51433 original size:68 final size:62
Alignment explanation
Indices: 51344--51479 Score: 173
Period size: 64 Copynumber: 2.1 Consensus size: 62
51334 ACCCTTTATT
* *
51344 TAATTTTTTATTTAAAAAATAATTAATATTTTAATTTATTAATGTAAATTTTTTAAGTTAATTAA
1 TAATTTTTTATTAAAAAAATAATTAATATATT-A-TTATTAAT-TAAA-TTTTTAAGTTAATTAA
51409 A
62 A
* * *
51410 TAATATTTTTATTAAAAATAATAATTAATATATTATTATTTATTAAATTTTTAATTTAATTAAT
1 TAAT-TTTTTATTAAAAA-AATAATTAATATATTATTATTAATTAAATTTTTAAGTTAATTAAA
51474 TAATTT
1 TAATTT
51480 AAAAAATTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
63 2 0.03
64 19 0.30
65 4 0.06
66 11 0.17
67 13 0.21
68 14 0.22
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (62 bp):
TAATTTTTTATTAAAAAAATAATTAATATATTATTATTAATTAAATTTTTAAGTTAATTAAA
Found at i:55504 original size:3 final size:3
Alignment explanation
Indices: 55496--55530 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
55486 AGGGTTTGGT
55496 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
55531 TATTACTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:59576 original size:50 final size:49
Alignment explanation
Indices: 59521--59644 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 49
59511 TGGTTAATTA
*
59521 ATTTTAAATTAAATTTTATTAATAAA-AT-TTAAATTCTTATCAATATTTT
1 ATTTTTAATTAAATTTT-TTAA-AAATATATTAAATTCTTATCAATATTTT
* * * * *
59570 ATTTTTATTTAAAATTTTTAAAAATTATATTATATTTTTATTAATATTTT
1 ATTTTTAATTAAATTTTTTAAAAA-TATATTAAATTCTTATCAATATTTT
59620 ATTTTTAATTATAA-TTTTTAAAAAT
1 ATTTTTAATTA-AATTTTTTAAAAAT
59645 TAATTAACTC
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
47 3 0.05
48 4 0.06
49 17 0.27
50 38 0.59
51 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (49 bp):
ATTTTTAATTAAATTTTTTAAAAATATATTAAATTCTTATCAATATTTT
Found at i:66243 original size:13 final size:14
Alignment explanation
Indices: 66225--66259 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
66215 GTATTTATTT
66225 ATAAAAATAAA-AA
1 ATAAAAATAAAGAA
66238 ATAAAAATAAAGAA
1 ATAAAAATAAAGAA
66252 A-AAAAATA
1 ATAAAAATA
66260 CATGCGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (14 bp):
ATAAAAATAAAGAA
Found at i:66524 original size:3 final size:3
Alignment explanation
Indices: 66516--66542 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
66506 CTCCCAGCTA
66516 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
66543 CTCCTCGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:66557 original size:6 final size:6
Alignment explanation
Indices: 66548--66575 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
66538 TCTTCCTCCT
66548 CGTCAA CGTCAA CGTCAA CGTCAA CGTC
1 CGTCAA CGTCAA CGTCAA CGTCAA CGTC
66576 TCAGGTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (6 bp):
CGTCAA
Found at i:73082 original size:111 final size:111
Alignment explanation
Indices: 72888--73101 Score: 428
Period size: 111 Copynumber: 1.9 Consensus size: 111
72878 CATCTTTCAG
72888 GTTGTTAAATTTTAGCCTTGGAGGACCTACATATGCTTTGTTTTGATTCTCTAGAACTAAAGAAG
1 GTTGTTAAATTTTAGCCTTGGAGGACCTACATATGCTTTGTTTTGATTCTCTAGAACTAAAGAAG
72953 TAATATCAAACGATTGTTTTTCAAATCTGAACTAGAGCTGATTCGA
66 TAATATCAAACGATTGTTTTTCAAATCTGAACTAGAGCTGATTCGA
72999 GTTGTTAAATTTTAGCCTTGGAGGACCTACATATGCTTTGTTTTGATTCTCTAGAACTAAAGAAG
1 GTTGTTAAATTTTAGCCTTGGAGGACCTACATATGCTTTGTTTTGATTCTCTAGAACTAAAGAAG
73064 TAATATCAAACGATTGTTTTTCAAATCTGAACTAGAGC
66 TAATATCAAACGATTGTTTTTCAAATCTGAACTAGAGC
73102 AAGCTTGAGA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 103 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (111 bp):
GTTGTTAAATTTTAGCCTTGGAGGACCTACATATGCTTTGTTTTGATTCTCTAGAACTAAAGAAG
TAATATCAAACGATTGTTTTTCAAATCTGAACTAGAGCTGATTCGA
Found at i:74774 original size:20 final size:19
Alignment explanation
Indices: 74727--74769 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
74717 ATCAATTAAT
74727 TTTACTTTTAAAAATAACTA
1 TTTA-TTTTAAAAATAACTA
*
74747 TTTATTTTAAAAA-AATTA
1 TTTATTTTAAAAATAACTA
74765 TTTAT
1 TTTAT
74770 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTATTTTAAAAATAACTA
Found at i:74897 original size:31 final size:31
Alignment explanation
Indices: 74859--74918 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
74849 CTATAATCTA
74859 TCTATAAATTAATCTAAAATGAACTACAAAG
1 TCTATAAATTAATCTAAAATGAACTACAAAG
74890 TCTATAAATTAATCTAAAATGAACTACAA
1 TCTATAAATTAATCTAAAATGAACTACAA
74919 GCATGCCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (31 bp):
TCTATAAATTAATCTAAAATGAACTACAAAG
Found at i:75006 original size:8 final size:8
Alignment explanation
Indices: 74993--75054 Score: 63
Period size: 8 Copynumber: 7.6 Consensus size: 8
74983 GAATGAATGA
74993 AAAAAAAG
1 AAAAAAAG
75001 AAAAAAAG
1 AAAAAAAG
* *
75009 AAAGAATG
1 AAAAAAAG
*
75017 AAAAAAAT
1 AAAAAAAG
75025 AAAAAAAG
1 AAAAAAAG
*
75033 AAAGAAGAG
1 AAA-AAAAG
75042 AAAACAAA-
1 AAAA-AAAG
75050 AAAAA
1 AAAAA
75055 TTATAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
7 1 0.02
8 34 0.77
9 9 0.20
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:75016 original size:25 final size:24
Alignment explanation
Indices: 74982--75054 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 24
74972 GGAAGGAGAG
*
74982 AGAATGAATGAAAAAAAAGAAAAAA
1 AGAAAGAATGAAAAAAAA-AAAAAA
*
75007 AGAAAGAATGAAAAAAATAAAAAA
1 AGAAAGAATGAAAAAAAAAAAAAA
* *
75031 AGAAAGAA-GAGAAAACAAAAAAA
1 AGAAAGAATGAAAAAAAAAAAAAA
75054 A
1 A
75055 TTATAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 13 0.30
24 14 0.33
25 16 0.37
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.05
Consensus pattern (24 bp):
AGAAAGAATGAAAAAAAAAAAAAA
Found at i:75028 original size:24 final size:23
Alignment explanation
Indices: 74982--75054 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 23
74972 GGAAGGAGAG
*
74982 AGAATGAATGAAAAAAAAGAAAAAA
1 AGAAAGAATG-AAAAAAA-AAAAAA
75007 AGAAAGAATGAAAAAAATAAAAAA
1 AGAAAGAATGAAAAAAA-AAAAAA
*
75031 AGAAAGAA-GAGAAAACAAAAAAA
1 AGAAAGAATGA-AAAAAAAAAAAA
75054 A
1 A
75055 TTATAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 9 0.20
24 26 0.59
25 9 0.20
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.05
Consensus pattern (23 bp):
AGAAAGAATGAAAAAAAAAAAAA
Found at i:75104 original size:29 final size:31
Alignment explanation
Indices: 75071--75128 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
75061 AAAATTAAAC
*
75071 TTTAAATGTT-TATATT-TATATTTTTTATA
1 TTTAAATATTATATATTATATATTTTTTATA
*
75100 TTTAAATATTATATTTTATATATTTTTTA
1 TTTAAATATTATATATTATATATTTTTTA
75129 CATATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
30 5 0.20
31 11 0.44
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (31 bp):
TTTAAATATTATATATTATATATTTTTTATA
Found at i:75270 original size:19 final size:19
Alignment explanation
Indices: 75246--75304 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
75236 TTAAAGTCTA
75246 ATAAATTTATGTAATATTT
1 ATAAATTTATGTAATATTT
* *
75265 ATAAATATT-TTTTATATTT
1 ATAAAT-TTATGTAATATTT
* * *
75284 ATATATTCATGTCATATTT
1 ATAAATTTATGTAATATTT
75303 AT
1 AT
75305 TTTTTTGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.03
19 29 0.91
20 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATAAATTTATGTAATATTT
Found at i:75404 original size:14 final size:14
Alignment explanation
Indices: 75381--75414 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
75371 ATTAAAAATT
*
75381 TATATAAATTTTTA
1 TATATAAATTATTA
*
75395 TATATTAATTATTA
1 TATATAAATTATTA
75409 TATATA
1 TATATA
75415 TATATATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATATAAATTATTA
Found at i:75456 original size:11 final size:11
Alignment explanation
Indices: 75440--75491 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
75430 ACACATTCAA
75440 ATATTTTTATT
1 ATATTTTTATT
*
75451 ATATTTATA-T
1 ATATTTTTATT
75461 -TATTTTTATT
1 ATATTTTTATT
* *
75471 ATGTTTTAATT
1 ATATTTTTATT
75482 AT-TTTTTATT
1 ATATTTTTATT
75492 TATGTTATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 7 0.21
10 9 0.26
11 18 0.53
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
ATATTTTTATT
Found at i:75494 original size:22 final size:21
Alignment explanation
Indices: 75441--75497 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
75431 CACATTCAAA
*
75441 TATTTTTATTAT-ATTTATAT
1 TATTTTTATTATGTTTTATAT
75461 TATTTTTATTATGTTTTA-AT
1 TATTTTTATTATGTTTTATAT
75481 TATTTTTTATTTATGTT
1 TA-TTTTTA-TTATGTT
75498 ATGTTCATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
21 10 0.30
22 7 0.21
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (21 bp):
TATTTTTATTATGTTTTATAT
Found at i:76251 original size:15 final size:16
Alignment explanation
Indices: 76225--76254 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
76215 TATAAATTTT
76225 TAATTAAATAAAATTA
1 TAATTAAATAAAATTA
76241 TAATT-AATAAAATT
1 TAATTAAATAAAATT
76255 TATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATTAAATAAAATTA
Found at i:76257 original size:16 final size:17
Alignment explanation
Indices: 76218--76257 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
76208 TAATATTTAT
*
76218 AAATTTTTAATTAAATA
1 AAATTTATAATTAAATA
76235 AAA-TTATAATT-AATA
1 AAATTTATAATTAAATA
76250 AAATTTAT
1 AAATTTAT
76258 TTTAAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.33
16 11 0.52
17 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTTATAATTAAATA
Found at i:77120 original size:17 final size:17
Alignment explanation
Indices: 77094--77175 Score: 53
Period size: 17 Copynumber: 4.7 Consensus size: 17
77084 ACTTATAAAA
*
77094 TAATTAAAATTTATTTT
1 TAATTTAAATTTATTTT
*
77111 TAATTTAAATATATAATTT
1 TAATTTAAAT-T-TATTTT
* *
77130 AAATATATAA-TTATTATT
1 TAATTTA-AATTTATT-TT
*
77148 TAA-TAAAATTTATTTT
1 TAATTTAAATTTATTTT
77164 ATAA-TTAAATTT
1 -TAATTTAAATTT
77176 TATTAATAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
16 4 0.08
17 28 0.56
18 6 0.12
19 10 0.20
20 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTTAAATTTATTTT
Found at i:77135 original size:11 final size:13
Alignment explanation
Indices: 77111--77141 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
77101 AATTTATTTT
77111 TAATTTAAATATA
1 TAATTTAAATATA
77124 TAATTTAAATATA
1 TAATTTAAATATA
77137 TAATT
1 TAATT
77142 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTTAAATATA
Found at i:77203 original size:17 final size:20
Alignment explanation
Indices: 77151--77204 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
77141 TATTATTTAA
*
77151 TAAAATTTATT--TTATAAT
1 TAAAATTTATTAATAATAAT
*
77169 TAAATTTTATTAATAATAAT
1 TAAAATTTATTAATAATAAT
*
77189 TAAAATTTATAAATAA
1 TAAAATTTATTAATAA
77205 AAAATAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 10 0.33
20 20 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAAATTTATTAATAATAAT
Found at i:77212 original size:20 final size:20
Alignment explanation
Indices: 77169--77213 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
77159 ATTTTATAAT
* * * *
77169 TAAATTTTATTAATAATAAT
1 TAAAATTTATAAATAAAAAA
77189 TAAAATTTATAAATAAAAAA
1 TAAAATTTATAAATAAAAAA
77209 TAAAA
1 TAAAA
77214 AGCTCATAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATTTATAAATAAAAAA
Found at i:77480 original size:2 final size:2
Alignment explanation
Indices: 77473--77501 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
77463 TATTAAAATA
77473 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 A
77502 CACACACGTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78035 original size:2 final size:2
Alignment explanation
Indices: 78028--78054 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
78018 TTAAATGTAC
78028 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
78055 TTACCCAGAA
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:78426 original size:5 final size:5
Alignment explanation
Indices: 78416--78445 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
78406 TATCCTCTTG
*
78416 TTATA TTATA TTATC TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA
78446 GACAACGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:78436 original size:15 final size:15
Alignment explanation
Indices: 78416--78444 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78406 TATCCTCTTG
78416 TTATATTATATTATC
1 TTATATTATATTATC
78431 TTATATTATATTAT
1 TTATATTATATTAT
78445 AGACAACGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTATATTATC
Found at i:83618 original size:28 final size:28
Alignment explanation
Indices: 83569--83635 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
83559 GTTTAAAATG
* *
83569 AAAATTAGTCTAAAATAGGTTTGAGA-TC
1 AAAATTGGTTTAAAATAGGTTTGA-ATTC
** *
83597 AAAATTGGTTTAAAATTTGTTTGAATTT
1 AAAATTGGTTTAAAATAGGTTTGAATTC
83625 AAAATTGGTTT
1 AAAATTGGTTT
83636 GGTTAATTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (28 bp):
AAAATTGGTTTAAAATAGGTTTGAATTC
Found at i:88656 original size:2 final size:2
Alignment explanation
Indices: 88649--88694 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
88639 TGGAACGCGG
88649 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
88691 AT AT
1 AT AT
88695 TTACCCTCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91212 original size:33 final size:33
Alignment explanation
Indices: 91170--91240 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
91160 CTTCATGACA
91170 ATATAATCCCCAAAGAGCAAAGCAGATATATAC
1 ATATAATCCCCAAAGAGCAAAGCAGATATATAC
91203 ATATAATCCCCAAAGAGCAAAGCAGATATATAC
1 ATATAATCCCCAAAGAGCAAAGCAGATATATAC
91236 ATATA
1 ATATA
91241 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (33 bp):
ATATAATCCCCAAAGAGCAAAGCAGATATATAC
Found at i:91241 original size:2 final size:2
Alignment explanation
Indices: 91228--91263 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
91218 AGCAAAGCAG
* *
91228 AT AT AT AC AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91264 GTACAGGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:92554 original size:2 final size:2
Alignment explanation
Indices: 92547--92601 Score: 51
Period size: 2 Copynumber: 28.0 Consensus size: 2
92537 ATTCATGTTT
* *
92547 TA TA TA TA TA TA TA TA TA TA -A TC TCC T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* *
92588 TT TA TA TT TA TA TA
1 TA TA TA TA TA TA TA
92602 AGTGATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
1 2 0.04
2 41 0.91
3 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:99483 original size:2 final size:2
Alignment explanation
Indices: 99476--99512 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
99466 CAATTAAACA
* *
99476 AG AG AG AG AG GG AG AG GG 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 A
99513 CCAAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
AG
Found at i:99914 original size:25 final size:27
Alignment explanation
Indices: 99861--99914 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
99851 ATTCATTATA
* *
99861 TTATTATTTATCATCATTATGCTTGTT
1 TTATTATTTATCATAATTATGATTGTT
*
99888 TTATTATTT-T-ATAATTATGATTTTT
1 TTATTATTTATCATAATTATGATTGTT
99913 TT
1 TT
99915 TTGTGTGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 1 0.04
27 9 0.38
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (27 bp):
TTATTATTTATCATAATTATGATTGTT
Found at i:100283 original size:2 final size:2
Alignment explanation
Indices: 100276--100300 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100266 TTCTTCAGTA
100276 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 A
100301 ACATCATTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100701 original size:20 final size:20
Alignment explanation
Indices: 100678--100751 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
100668 ACAATTCAAA
100678 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
100698 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
100719 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
100739 GTATCGATACATG
1 GTATCGATACATG
100752 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:100722 original size:21 final size:21
Alignment explanation
Indices: 100696--100771 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
100686 ACATGTTGCA
100696 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
100717 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
100737 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
100758 ATGTATCGATACAT
1 ATGTATCGATACAT
100772 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:100729 original size:41 final size:41
Alignment explanation
Indices: 100678--100771 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
100668 ACAATTCAAA
100678 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
100719 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
100760 GTATCGATACAT
1 GTATCGATACAT
100772 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:100828 original size:13 final size:13
Alignment explanation
Indices: 100810--100835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100800 TACAGCAAGT
100810 ATGTATCGATACA
1 ATGTATCGATACA
100823 ATGTATCGATACA
1 ATGTATCGATACA
100836 CAAAAAATTG
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:103077 original size:21 final size:21
Alignment explanation
Indices: 103044--103088 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
103034 TTGCAAGTTG
*
103044 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
103066 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
103086 AAA
1 AAA
103089 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:108651 original size:13 final size:13
Alignment explanation
Indices: 108633--108658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108623 TACAGCAAGT
108633 ATGTATCGATACA
1 ATGTATCGATACA
108646 ATGTATCGATACA
1 ATGTATCGATACA
108659 CAAAAAATTG
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:109454 original size:15 final size:17
Alignment explanation
Indices: 109436--109475 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
109426 ATTTTAAAAA
109436 ATTAAATATAT-T-TAT
1 ATTAAATATATATCTAT
109451 ATTAAATATATATCTAT
1 ATTAAATATATATCTAT
109468 ATCTAAAT
1 AT-TAAAT
109476 TACAAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 5 0.23
18 5 0.23
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAATATATATCTAT
Found at i:111073 original size:3 final size:3
Alignment explanation
Indices: 111065--111094 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
111055 TCTAGTATAA
111065 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
111095 TCTGGTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:111555 original size:6 final size:6
Alignment explanation
Indices: 111546--111575 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
111536 AGATTCAACT
111546 TCAGGC TCAGGC TCAGGC TCAGGC TCAGGC
1 TCAGGC TCAGGC TCAGGC TCAGGC TCAGGC
111576 AGCTAAGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (6 bp):
TCAGGC
Found at i:112544 original size:3 final size:3
Alignment explanation
Indices: 112536--112577 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
112526 GCCAGTAACA
*
112536 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
112578 TCCCGAGGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:113390 original size:30 final size:31
Alignment explanation
Indices: 113347--113410 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
113337 TATTTTATGT
* * *
113347 AAATTAGTTTTTGTA-GAAAAAAATTTAGAC
1 AAATTAATCTTTGTATGAAAAAAATTGAGAC
**
113377 AAATTAATCTTTGTATGATTAAAATTGAGAC
1 AAATTAATCTTTGTATGAAAAAAATTGAGAC
113408 AAA
1 AAA
113411 ATGATAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 13 0.46
31 15 0.54
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (31 bp):
AAATTAATCTTTGTATGAAAAAAATTGAGAC
Found at i:123569 original size:4 final size:4
Alignment explanation
Indices: 123560--123590 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
123550 CTCTGAAATT
123560 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
123591 TAACTTGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:125203 original size:2 final size:2
Alignment explanation
Indices: 125196--125230 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
125186 AGGATTTGAT
125196 TA TA TA 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 TA TA TA T
125231 TCAATTTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:125706 original size:1 final size:1
Alignment explanation
Indices: 125700--125730 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
125690 GACTGACTAA
*
125700 CCCCCCCTCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
125731 AACCCAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:127776 original size:2 final size:2
Alignment explanation
Indices: 127769--127796 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
127759 TTGGGAGCGC
127769 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
127797 GGGAGGGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:128280 original size:17 final size:17
Alignment explanation
Indices: 128258--128320 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
128248 ACTTTGTAAG
128258 TAAAAAATATATATTTT
1 TAAAAAATATATATTTT
*
128275 TAAAAAAT-TATTATATT
1 TAAAAAATATA-TATTTT
* *
128292 TAAAAATAAATTAAATTTTT
1 TAAAAA-ATA-TATA-TTTT
128312 TAAAAAATA
1 TAAAAAATA
128321 AATAAGTAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 2 0.06
17 19 0.53
18 1 0.03
19 3 0.08
20 11 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAAAATATATATTTT
Found at i:129511 original size:2 final size:2
Alignment explanation
Indices: 129504--129528 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
129494 TTAATACATA
129504 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 A
129529 CATTTATATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:133961 original size:2 final size:2
Alignment explanation
Indices: 133954--133990 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
133944 TGTCTGTCTA
133954 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
133991 TTTTGCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:136993 original size:20 final size:20
Alignment explanation
Indices: 136970--137013 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
136960 ACAATATATA
136970 AATATAAATATAAATATTAT
1 AATATAAATATAAATATTAT
136990 AATATAAATATAAATATTAT
1 AATATAAATATAAATATTAT
137010 AATA
1 AATA
137014 CAAAATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATATAAATATAAATATTAT
Found at i:137013 original size:8 final size:6
Alignment explanation
Indices: 136965--137006 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
136955 CTAACACAAT
136965 ATATAA ATATAA ATATAA ATATTATA ATATAA ATATAA ATAT
1 ATATAA ATATAA ATATAA ATA-TA-A ATATAA ATATAA ATAT
137007 TATAATACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 26 0.76
7 4 0.12
8 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
ATATAA
Found at i:137151 original size:2 final size:2
Alignment explanation
Indices: 137144--137208 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
137134 TACTTCCTTA
137144 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
*
137186 AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
137209 AGATGCAGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:142976 original size:16 final size:18
Alignment explanation
Indices: 142942--142976 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
142932 TTGTATCTTT
142942 AAAATATTTATTATTTTA
1 AAAATATTTATTATTTTA
142960 AAAATATTT-TT-TTTTA
1 AAAATATTTATTATTTTA
142976 A
1 A
142977 CATTTCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAAATATTTATTATTTTA
Found at i:146256 original size:26 final size:25
Alignment explanation
Indices: 146227--146288 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
146217 AATTTAACTT
*
146227 AATATATATTATTA-TTTAATAATAAA
1 AATA-ATATTAATATTTTAATAAT-AA
*
146253 AATAATTTTTAATATTTTAATAATAA
1 AATAA-TATTAATATTTTAATAATAA
146279 AATAAATATT
1 AAT-AATATT
146289 TAAAATAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.03
26 18 0.60
27 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATAATATTAATATTTTAATAATAA
Found at i:146676 original size:14 final size:15
Alignment explanation
Indices: 146657--146767 Score: 63
Period size: 14 Copynumber: 7.3 Consensus size: 15
146647 ACAATATTGT
146657 ATATAAT-TATATAA
1 ATATAATATATATAA
146671 ATATAATATATATAAA
1 ATATAATATATAT-AA
146687 ATAATAAAAATATATATAA
1 AT-AT---AATATATATAA
* *
146706 ATAT-ATTTTTA-AA
1 ATATAATATATATAA
* *
146719 AT-TTATATAATAAAA
1 ATATAATAT-ATATAA
*
146734 ATTATTAATATATAAAA
1 A-TA-TAATATATATAA
146751 ATATAA-ATATA-AA
1 ATATAATATATATAA
146764 ATAT
1 ATAT
146768 TTTTAATATA
Statistics
Matches: 80, Mismatches: 5, Indels: 25
0.73 0.05 0.23
Matches are distributed among these distances:
12 1 0.01
13 13 0.16
14 19 0.24
15 11 0.14
16 7 0.09
17 9 0.11
18 7 0.09
19 4 0.05
20 9 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATAATATATATAA
Found at i:146764 original size:45 final size:43
Alignment explanation
Indices: 146656--146796 Score: 105
Period size: 45 Copynumber: 3.3 Consensus size: 43
146646 AACAATATTG
** * * *
146656 TATATAATTATATAAATAT--AATATATATAA-AATAATAAAAA
1 TATATAAAAATATAAATATAAAATATTTATAATAA-AATTATAA
* ** *
146697 TATATATAAATATATTTTTAAAAT-TTATATAATAAAAATTATTAA
1 TATATAAAAATATAAATATAAAATATT-TATAAT-AAAATTA-TAA
* *
146742 TATATAAAAATATAAATATAAAATATTTTTAATATAATTATAA
1 TATATAAAAATATAAATATAAAATATTTATAATAAAATTATAA
146785 -A-ATAAAAATATA
1 TATATAAAAATATA
146797 TATGAATTGA
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
41 24 0.31
42 2 0.03
43 11 0.14
44 10 0.13
45 29 0.37
46 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (43 bp):
TATATAAAAATATAAATATAAAATATTTATAATAAAATTATAA
Found at i:146993 original size:15 final size:15
Alignment explanation
Indices: 146965--147003 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
146955 AAATATATAA
*
146965 ATTTATTAAATTTAT
1 ATTTAATAAATTTAT
*
146980 ATTTAATAATTTTAT
1 ATTTAATAAATTTAT
146995 ATATTAATA
1 AT-TTAATA
147004 TCATATTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTAATAAATTTAT
Found at i:146999 original size:28 final size:28
Alignment explanation
Indices: 146968--147062 Score: 72
Period size: 27 Copynumber: 3.4 Consensus size: 28
146958 TATATAAATT
146968 TATTAAATTTATATTTAATAATTTTATA
1 TATTAAATTTATATTTAATAATTTTATA
* *
146996 TATT-AATATCATATTCACAT-A-TTTAT-
1 TATTAAAT-TTATATTTA-ATAATTTTATA
* *
147022 TATATAATTTTATATTTAAAATATTTTATA
1 TAT-TAAATTTATATTTAATA-ATTTTATA
*
147052 TTATTTAATTT
1 -TATTAAATTT
147063 TAAATATTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
26 4 0.08
27 16 0.32
28 15 0.30
29 7 0.14
30 5 0.10
31 3 0.06
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TATTAAATTTATATTTAATAATTTTATA
Found at i:147051 original size:24 final size:24
Alignment explanation
Indices: 147019--147072 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
147009 TTCACATATT
147019 TATTATATAAT-TTTATATTTAAAA
1 TATTATATAATATTTA-ATTTAAAA
* * *
147043 TATTTTATATTATTTAATTTTAAA
1 TATTATATAATATTTAATTTAAAA
147067 TATTAT
1 TATTAT
147073 CACATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTATATAATATTTAATTTAAAA
Found at i:150946 original size:12 final size:12
Alignment explanation
Indices: 150929--150953 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
150919 TTGATTTATT
150929 AAAATAAAATAA
1 AAAATAAAATAA
150941 AAAATAAAATAA
1 AAAATAAAATAA
150953 A
1 A
150954 TATTTGATAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:151170 original size:15 final size:13
Alignment explanation
Indices: 151144--151178 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
151134 TTTAATAACA
151144 TTAAAATAATATAT
1 TTAAAATAATAT-T
151158 TTAAAAGTAATATT
1 TTAAAA-TAATATT
151172 TTAAAAT
1 TTAAAAT
151179 CTATTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 13 0.65
15 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TTAAAATAATATT
Found at i:151185 original size:65 final size:58
Alignment explanation
Indices: 151114--151263 Score: 158
Period size: 65 Copynumber: 2.4 Consensus size: 58
151104 TTTTAATGTT
* *
151114 ATATTTAAATTTTAATAATATTTAATAACATTAAAATAATATATTTAAAAGTAATATTTTAAA
1 ATATTTAAATTTTAATAATATTTAATAAC-TT--AATAAAATATTTAAAAATAATATTTT--A
* * *
151177 ATCTATTTAAATGTTAGTAATATACGTTAATATCTTAATAAAATATTTAAAAATAATATTTTA
1 A--TATTTAAATTTTAATAATAT---TTAATAACTTAATAAAATATTTAAAAATAATATTTTA
151240 ATATTTAAA-TTTAATAATATTTAA
1 ATATTTAAATTTTAATAATATTTAA
151264 AAATTTTAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
57 4 0.05
60 9 0.12
61 8 0.11
63 3 0.04
65 42 0.56
67 2 0.03
68 7 0.09
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (58 bp):
ATATTTAAATTTTAATAATATTTAATAACTTAATAAAATATTTAAAAATAATATTTTA
Found at i:151221 original size:13 final size:13
Alignment explanation
Indices: 151204--151535 Score: 57
Period size: 13 Copynumber: 26.6 Consensus size: 13
151194 TAATATACGT
151204 TAATATCTTAATAA
1 TAATAT-TTAATAA
*
151218 -AATATTTAAAAA
1 TAATATTTAATAA
151230 TAATATTT--TAA
1 TAATATTTAATAA
*
151241 T-AT-TTAAATTTAA
1 TAATATTTAA--TAA
*
151254 TAATATTTAAAAA
1 TAATATTTAATAA
** ** *
151267 TTTTAAATATTAA
1 TAATATTTAATAA
151280 TAATATATTAATAA
1 TAATAT-TTAATAA
*
151294 T--TA-ATAATATA
1 TAATATTTAATA-A
151305 TAA-ATTTAATAA
1 TAATATTTAATAA
*
151317 T--T-TTTATTAA
1 TAATATTTAATAA
*
151327 TTTAATA--AAATAA
1 --TAATATTTAATAA
151340 TAATATTTAATAA
1 TAATATTTAATAA
*
151353 T-ATA-TT-AGAA
1 TAATATTTAATAA
*
151363 T-AT-TTTAATAT
1 TAATATTTAATAA
*
151374 TAATATTTCATAA
1 TAATATTTAATAA
151387 T-ATA-TTAA-AA
1 TAATATTTAATAA
151397 T-A-ATTTAATAA
1 TAATATTTAATAA
*
151408 T-ATA-AT-ATAA
1 TAATATTTAATAA
*
151418 -ATTATGTTAATAA
1 TAATAT-TTAATAA
*
151431 TTATATTT-ATAA
1 TAATATTTAATAA
* *
151443 TATTTAATGATAATTACA
1 TA-AT-AT-TTAA-TA-A
*
151461 TAACATTTAATAA
1 TAATATTTAATAA
151474 T-ATATATTAA-AA
1 TAATAT-TTAATAA
151486 -AGAT-TTTAATAA
1 TA-ATATTTAATAA
*
151498 TAGTATTTTAATAA
1 TAATA-TTTAATAA
151512 TTTAAATATTTTAATAA
1 --T-AATA-TTTAATAA
151529 T-ATATTT
1 TAATATTT
151536 TTAGTATTTA
Statistics
Matches: 228, Mismatches: 42, Indels: 98
0.62 0.11 0.27
Matches are distributed among these distances:
9 3 0.01
10 36 0.16
11 27 0.12
12 39 0.17
13 69 0.30
14 24 0.11
15 9 0.04
16 4 0.02
17 14 0.06
18 3 0.01
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (13 bp):
TAATATTTAATAA
Found at i:151260 original size:24 final size:25
Alignment explanation
Indices: 151228--151297 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
151218 AATATTTAAA
151228 AATAATATTTTAATATTTAAAT-TT
1 AATAATATTTTAATATTTAAATATT
* *
151252 AATAATATTTAAAAATTTTAAATATT
1 AATAATATTTTAATA-TTTAAATATT
* *
151278 AATAATATATTAATAATTAA
1 AATAATATTTTAATATTTAA
151298 TAATATATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 13 0.34
25 11 0.29
26 14 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATAATATTTTAATATTTAAATATT
Found at i:151269 original size:18 final size:18
Alignment explanation
Indices: 151238--151410 Score: 60
Period size: 18 Copynumber: 9.3 Consensus size: 18
151228 AATAATATTT
151238 TAATATTT--AAATTTAA
1 TAATATTTAAAAATTTAA
*
151254 TAATATTTAAAAATTTTA
1 TAATATTTAAAAATTTAA
151272 -AATA-TTAATAATATATTAA
1 TAATATTTAA-AA-AT-TTAA
*
151291 TAATTAATAATATATAAATTTAA
1 TAA-T-AT--T-TAAAAATTTAA
* **
151314 TAATTTTTATTAATTTAA
1 TAATATTTAAAAATTTAA
*
151332 TAA-A-ATAATAATATTTAA
1 TAATATTTAA-AA-ATTTAA
*
151350 TAATATATTAGAATATTT--
1 TAATAT-TTA-AAAATTTAA
* *
151368 TAATA-TT-AATATTTCA
1 TAATATTTAAAAATTTAA
151384 TAATATATTAAAATAATTTAA
1 TAATAT-TT-AAA-AATTTAA
151405 TAATAT
1 TAATAT
151411 AATATAAATT
Statistics
Matches: 119, Mismatches: 13, Indels: 45
0.67 0.07 0.25
Matches are distributed among these distances:
14 7 0.06
16 21 0.18
17 7 0.06
18 38 0.32
19 5 0.04
20 8 0.07
21 16 0.13
22 3 0.03
23 7 0.06
24 2 0.02
25 3 0.03
26 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (18 bp):
TAATATTTAAAAATTTAA
Found at i:151309 original size:60 final size:58
Alignment explanation
Indices: 151238--151353 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 58
151228 AATAATATTT
*
151238 TAATATTTAAATTTAATAATATTTAAAAATTT-TAAATATTAATAATATATTAATAATTAA
1 TAATATATAAATTTAATAATATTTAAAAATTTATAAA-A-TAATAATAT-TTAATAATTAA
* **
151298 TAATATATAAATTTAATAATTTTTATTAATTTAATAAAATAATAATATTTAATAAT
1 TAATATATAAATTTAATAATATTTAAAAATTT-ATAAAATAATAATATTTAATAAT
151354 ATATTAGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 8 0.16
60 37 0.74
61 1 0.02
62 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (58 bp):
TAATATATAAATTTAATAATATTTAAAAATTTATAAAATAATAATATTTAATAATTAA
Found at i:151314 original size:34 final size:36
Alignment explanation
Indices: 151272--151411 Score: 143
Period size: 34 Copynumber: 4.0 Consensus size: 36
151262 AAAAATTTTA
151272 AATA-TTAATAATATATTAATAA-TTAATAATATAT
1 AATATTTAATAATATATTAATAATTTAATAATATAT
* * *
151306 AA-ATTTAATAAT-TTTTATTAATTTAATAAAATAAT
1 AATATTTAATAATATATTAATAATTTAATAATAT-AT
151341 AATATTTAATAATATATTAGA-ATATTT--TAATAT-T
1 AATATTTAATAATATATTA-ATA-ATTTAATAATATAT
*
151375 AATATTTCATAATATATTAAAATAATTTAATAATATA
1 AATATTTAATAATATATT--AATAATTTAATAATATA
151412 ATATAAATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
33 8 0.09
34 37 0.43
35 9 0.10
36 17 0.20
37 11 0.13
38 4 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (36 bp):
AATATTTAATAATATATTAATAATTTAATAATATAT
Found at i:151327 original size:26 final size:25
Alignment explanation
Indices: 151279--151357 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 25
151269 TTAAATATTA
* * *
151279 ATAATATATTAATAATTAATAATAT
1 ATAAAATAATAATATTTAATAATAT
* * * *
151304 ATAAATTTAATAATTTTTATTAATTT
1 ATAAA-ATAATAATATTTAATAATAT
151330 AATAAAATAATAATATTTAATAATAT
1 -ATAAAATAATAATATTTAATAATAT
151356 AT
1 AT
151358 TAGAATATTT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
25 6 0.15
26 30 0.73
27 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAAAATAATAATATTTAATAATAT
Found at i:151364 original size:26 final size:24
Alignment explanation
Indices: 151248--151357 Score: 68
Period size: 26 Copynumber: 4.6 Consensus size: 24
151238 TAATATTTAA
*
151248 ATTTAATAATATTTAAA-AAT--T
1 ATTTAATAATATATAAATAATAAT
* * *
151269 -TTAAATATTA-ATAATATATTAAT
1 ATTTAATAATATATAA-ATAATAAT
*
151292 AATTAATAATATATAAATTTAATAAT
1 ATTTAATAATATATAAA--TAATAAT
* * *
151318 TTTTATTAATTTAATAAAATAATAAT
1 ATTTAATAATAT-AT-AAATAATAAT
151344 ATTTAATAATATAT
1 ATTTAATAATATAT
151358 TAGAATATTT
Statistics
Matches: 64, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
19 3 0.05
20 9 0.14
21 2 0.03
23 1 0.02
24 8 0.12
25 6 0.09
26 30 0.47
27 2 0.03
28 3 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTAATAATATATAAATAATAAT
Found at i:151407 original size:21 final size:21
Alignment explanation
Indices: 151378--151660 Score: 88
Period size: 21 Copynumber: 13.1 Consensus size: 21
151368 TAATATTAAT
*
151378 ATTTCATAATATATTAAAATA
1 ATTTAATAATATATTAAAATA
* *
151399 ATTTAATAATATAATATAAATT
1 ATTTAATAATATATTA-AAATA
*
151421 ATGTTAATAATTATATTTATAAT-
1 AT-TTAATAA-TATA-TTAAAATA
* *
151444 ATTTAATGATA-ATTACATAA-C
1 ATTTAATAATATATTA-A-AATA
151465 ATTTAATAATATATATTAAAA-A
1 ATTTAAT-A-ATATATTAAAATA
**
151487 GATTTTAATAATAGTATTTTAATA
1 -A-TTTAATAATA-TATTAAAATA
*
151511 ATTT-A-AATATTTTAATAATA
1 ATTTAATAATATATTAA-AATA
* * *
151531 TATTT-TTAGTAT-TTAATGAT-
1 -ATTTAATAATATATTAA-AATA
* *
151551 ATTTCATAATATACTAAAA-A
1 ATTTAATAATATATTAAAATA
151571 TATTTGAATAATAT-TTAATAATA
1 -ATTT-AATAATATATTAA-AATA
* **
151594 TATTTCATAAT-TAAAAATTAATA
1 -ATTTAATAATATATTAA--AATA
* * *
151617 TTTTAATAGTATTTTAATAAT-
1 ATTTAATAATATATTAA-AATA
* *
151638 AGTTAATAATTTATTAAAATA
1 ATTTAATAATATATTAAAATA
151659 AT
1 AT
151661 ATTTTTAATA
Statistics
Matches: 196, Mismatches: 38, Indels: 56
0.68 0.13 0.19
Matches are distributed among these distances:
19 10 0.05
20 18 0.09
21 61 0.31
22 51 0.26
23 36 0.18
24 18 0.09
25 2 0.01
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (21 bp):
ATTTAATAATATATTAAAATA
Found at i:151417 original size:18 final size:18
Alignment explanation
Indices: 151276--151417 Score: 77
Period size: 18 Copynumber: 7.9 Consensus size: 18
151266 ATTTTAAATA
*
151276 TTAATAATATATTAATAA-
1 TTAATAATATAAT-ATAAT
151294 TTAATAATAT-ATA-AAT
1 TTAATAATATAATATAAT
**
151310 TTAATAAT-TTTTATTAAT
1 TTAATAATATAATA-TAAT
*
151328 TTAATAAAATAATA-ATAT
1 TTAATAATATAATATA-AT
* *
151346 TTAATAATATATTAGAAT
1 TTAATAATATAATATAAT
*
151364 ATT-TTAATATTAATAT--T
1 -TTAATAATA-TAATATAAT
*
151381 TCATAAT-ATATTAAAATAAT
1 T--TAATAATA-TAATATAAT
151401 TTAATAATATAATATAA
1 TTAATAATATAATATAA
151418 ATTATGTTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
15 3 0.03
16 12 0.12
17 3 0.03
18 62 0.65
19 14 0.15
20 2 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (18 bp):
TTAATAATATAATATAAT
Found at i:151442 original size:12 final size:12
Alignment explanation
Indices: 151273--151483 Score: 61
Period size: 10 Copynumber: 18.6 Consensus size: 12
151263 AAAATTTTAA
151273 ATATTAATAA-T
1 ATATTAATAATT
151284 ATATTAATAATT
1 ATATTAATAATT
151296 A-A-TAAT-ATAT
1 ATATTAATAAT-T
*
151306 AAATTTAATAATT
1 ATA-TTAATAATT
*
151319 -T-TTATTAATT
1 ATATTAATAATT
* *
151329 -TAATAAAATAATA
1 AT-AT-TAATAATT
151342 ATATTTAATAA-T
1 ATA-TTAATAATT
*
151354 ATATT-AGAA-T
1 ATATTAATAATT
*
151364 ATTTTAAT-ATT
1 ATATTAATAATT
*
151375 AATATTTCATAA-T
1 -ATA-TTAATAATT
*
151388 ATATTAA-AATA
1 ATATTAATAATT
151399 AT-TTAATAA-T
1 ATATTAATAATT
*
151409 ATAAT-ATAAATT
1 ATATTAAT-AATT
*
151421 ATGTTAATAATT
1 ATATTAATAATT
*
151433 ATATTTATAA-T
1 ATATTAATAATT
*
151444 AT-TTAATGA-T
1 ATATTAATAATT
*
151454 A-ATTACATAA-C
1 ATATTA-ATAATT
151465 AT-TTAATAATAT
1 ATATTAATAAT-T
151477 ATATTAA
1 ATATTAA
151484 AAAGATTTTA
Statistics
Matches: 147, Mismatches: 25, Indels: 54
0.65 0.11 0.24
Matches are distributed among these distances:
9 2 0.01
10 48 0.33
11 36 0.24
12 29 0.20
13 27 0.18
14 5 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (12 bp):
ATATTAATAATT
Found at i:151482 original size:24 final size:23
Alignment explanation
Indices: 151386--151511 Score: 68
Period size: 23 Copynumber: 5.5 Consensus size: 23
151376 ATATTTCATA
*
151386 ATATATTAA-AATAATTTAATAAT
1 ATATATTAATAA-CATTTAATAAT
**
151409 ATA-ATATAA-ATTATGTTAATAAT
1 ATATAT-TAATAACAT-TTAATAAT
* * *
151432 -TATATTTATAATATTTAAT--G
1 ATATATTAATAACATTTAATAAT
151452 ATA-ATTACATAACATTTAATAAT
1 ATATATTA-ATAACATTTAATAAT
* *
151475 ATATATTAAAAAGATTTTAATAAT
1 ATATATTAATAACA-TTTAATAAT
*
151499 AGTATTTTAATAA
1 A-TATATTAATAA
151512 TTTAAATATT
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
20 3 0.04
21 13 0.16
22 13 0.16
23 28 0.35
24 14 0.17
25 9 0.11
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (23 bp):
ATATATTAATAACATTTAATAAT
Found at i:151507 original size:14 final size:13
Alignment explanation
Indices: 151466--151536 Score: 65
Period size: 13 Copynumber: 5.2 Consensus size: 13
151456 TTACATAACA
151466 TTTAATAATATAT
1 TTTAATAATATAT
* *
151479 ATTAA-AA-AGAT
1 TTTAATAATATAT
151490 TTTAATAATAGTAT
1 TTTAATAATA-TAT
151504 TTTAATAATTTAAATAT
1 TTTAATAA--T--ATAT
151521 TTTAATAATATAT
1 TTTAATAATATAT
151534 TTT
1 TTT
151537 TAGTATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
11 7 0.15
12 4 0.09
13 12 0.26
14 10 0.21
15 1 0.02
16 1 0.02
17 11 0.23
18 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
TTTAATAATATAT
Found at i:151538 original size:31 final size:31
Alignment explanation
Indices: 151340--151598 Score: 102
Period size: 31 Copynumber: 8.0 Consensus size: 31
151330 AATAAAATAA
* *
151340 TAATATTTAATAATATATT-AGAATATTTTAATAT
1 TAATATTTAATAATAT-TTAATAATATATT--T-T
* *
151374 TAATATTTCATAATATATTAA-AATA-ATTTAA
1 TAATATTTAATAATAT-TTAATAATATATTT-T
* *
151405 TAATATAATATAA-ATTATGTTAATAATTATATTTA
1 TAATAT--T-TAATAATAT-TTAATAA-TATATTTT
* * * *
151440 TAATATTTAATGATAATTACATAACAT-TTAAT
1 TAATATTTAATAATATTTA-ATAATATATT-TT
* * *
151472 AATATATATTAAAAAGATTTTAATAATAGTA-TTT
1 TA-ATAT-TTAATAATA-TTTAATAATA-TATTTT
151506 TAATAATTT-A-AATATTTTAATAATATATTTT
1 TAAT-ATTTAATAATA-TTTAATAATATATTTT
* * * * **
151537 TAGTATTTAATGATATTTCATAATATACTAA
1 TAATATTTAATAATATTTAATAATATATTTT
*
151568 AAATATTTGAATAATATTTAATAATATATTT
1 TAATATTT-AATAATATTTAATAATATATTT
151599 CATAATTAAA
Statistics
Matches: 172, Mismatches: 33, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
30 6 0.03
31 49 0.28
32 31 0.18
33 26 0.15
34 41 0.24
35 15 0.09
36 4 0.02
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TAATATTTAATAATATTTAATAATATATTTT
Found at i:151617 original size:44 final size:45
Alignment explanation
Indices: 151544--151638 Score: 115
Period size: 44 Copynumber: 2.1 Consensus size: 45
151534 TTTTAGTATT
*
151544 TAATGATATTTCATAATATACTAAAAATATTTGAATAATA-TTTAA
1 TAAT-ATATTTCATAATATACAAAAAATATTTGAATAATATTTTAA
* *
151589 TAATATATTTCATAAT-TA-AAAATTAATATTTTAATAGTATTTTAA
1 TAATATATTTCATAATATACAAAA--AATATTTGAATAATATTTTAA
151634 TAATA
1 TAATA
151639 GTTAATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 3 0.07
43 2 0.05
44 25 0.57
45 14 0.32
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (45 bp):
TAATATATTTCATAATATACAAAAAATATTTGAATAATATTTTAA
Found at i:152234 original size:16 final size:18
Alignment explanation
Indices: 152215--152256 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
152205 CTCAATTACT
152215 ATTAAATTA-A-ATTTTA
1 ATTAAATTATATATTTTA
152231 ATTAAATTATATATTTTA
1 ATTAAATTATATATTTTA
152249 ATTTAAAT
1 A-TTAAAT
152257 ACATACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 1 0.04
18 7 0.30
19 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTAAATTATATATTTTA
Found at i:152927 original size:3 final size:3
Alignment explanation
Indices: 152921--152946 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
152911 AAAAAACTAA
152921 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
152947 AAGATGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:153232 original size:30 final size:31
Alignment explanation
Indices: 153162--153236 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
153152 TTATTCGAAT
* * * *
153162 TTAAAAATTTTAATTAATTTATTTGAAAGTA
1 TTAATAATTTAAATTAATTTATATAAAAGTA
153193 --AATATATTTAAATTAATTTA-ATAAAAGTA
1 TTAATA-ATTTAAATTAATTTATATAAAAGTA
153222 TTAATAATTTAAATT
1 TTAATAATTTAAATT
153237 TTAAATGATC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
29 10 0.27
30 23 0.62
31 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (31 bp):
TTAATAATTTAAATTAATTTATATAAAAGTA
Found at i:153854 original size:2 final size:2
Alignment explanation
Indices: 153847--153882 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
153837 CTATATCATT
153847 TA TA TA TA 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 TA
153883 CATACATGCA
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):
TA
Found at i:156866 original size:2 final size:2
Alignment explanation
Indices: 156859--156893 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
156849 GCAGTTAGAA
156859 AT AT 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 AT AT A
156894 ATGCTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:159175 original size:2 final size:2
Alignment explanation
Indices: 159168--159198 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
159158 ACAAGCTCAA
*
159168 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
159199 AATTTCTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:159393 original size:2 final size:2
Alignment explanation
Indices: 159388--159422 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
159378 TGCAGAGAAT
*
159388 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
159423 TGAATGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:159612 original size:2 final size:2
Alignment explanation
Indices: 159605--159633 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
159595 TACTTCCTAT
159605 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
159634 TTAACCATCC
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:160310 original size:18 final size:19
Alignment explanation
Indices: 160290--160339 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
160280 TATTTTTTAT
160290 AAAATTTTTATATAAATTA
1 AAAATTTTTATATAAATTA
* *
160309 AAAAATTTTA-AAAAATTA
1 AAAATTTTTATATAAATTA
*
160327 AAAATATTTATAT
1 AAAATTTTTATAT
160340 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTTTATATAAATTA
Done.