Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015072.1 Kokia drynarioides strain JFW-HI SEQ_130116, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 142393
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Warning! 33 characters in sequence are not A, C, G, or T
Found at i:3301 original size:61 final size:61
Alignment explanation
Indices: 3215--3359 Score: 164
Period size: 61 Copynumber: 2.4 Consensus size: 61
3205 ACACATTCTA
* * * * * *
3215 TCAATTTGATCTTAAATATAAAAAATTCAACAAATTTTGCCCTTAATGTTTACAAAATTTT
1 TCAATTTAATCCTAACTCTAAAAAATTCAACAAATTTTGCCCTTAATATTTACAAAAATTT
* * * * * * * *
3276 TCATTTTAGTTCTAATTCTAAAAAATTTAATAAATTTTGTCCTTAATATTTGCAAAAATTT
1 TCAATTTAATCCTAACTCTAAAAAATTCAACAAATTTTGCCCTTAATATTTACAAAAATTT
3337 TCAATTTAATCCTAACTCTAAAA
1 TCAATTTAATCCTAACTCTAAAA
3360 TTTTAAATAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (61 bp):
TCAATTTAATCCTAACTCTAAAAAATTCAACAAATTTTGCCCTTAATATTTACAAAAATTT
Found at i:7841 original size:10 final size:10
Alignment explanation
Indices: 7826--7850 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7816 AATGTATCGA
7826 ATATAAATAT
1 ATATAAATAT
7836 ATATAAATAT
1 ATATAAATAT
7846 ATATA
1 ATATA
7851 TATAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATAAATAT
Found at i:15211 original size:132 final size:131
Alignment explanation
Indices: 14962--15224 Score: 377
Period size: 132 Copynumber: 2.0 Consensus size: 131
14952 GTATTAAAAC
* *
14962 AGTAAATTATACTGGTAAGTTTCCAATAATAAACATTTGTAGAATCATGAAATAGAAATATAATA
1 AGTAAATTATACTGGTAAGCTTCCAATAATAAACATTTGTAGAATCATGAAATAGAAATATAAAA
* * * *
15027 CTACACGATAAAATAAACCATTGAAAGTTTTATTTAACTTATAGCTATTAAAATCAAAAGCAGAA
66 CTA-ACGATAAAATAAACCATCGAAAGCTTCATTTAACATATAGCTATTAAAATCAAAAGCAGAA
15092 AG
130 AG
** *
15094 AGTAAATTATACTGGTCGGCTTCCATTAATAAACATTTGTAGAATCATGAAAATATAGAAATATA
1 AGTAAATTATACTGGTAAGCTTCCAATAATAAACATTTGTAGAATCATG--AA-ATAGAAATATA
* *
15159 AAACT-ATGATAAAATAAACCATCGAAAGCTTCATTTAACATATAGTTA-TAAAATCAAAAGCAG
63 AAACTAACGATAAAATAAACCATCGAAAGCTTCATTTAACATATAGCTATTAAAATCAAAAGCAG
15222 AAA
128 AAA
15225 CTATGATCTG
Statistics
Matches: 117, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
132 63 0.54
133 37 0.32
134 2 0.02
135 15 0.13
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.29
Consensus pattern (131 bp):
AGTAAATTATACTGGTAAGCTTCCAATAATAAACATTTGTAGAATCATGAAATAGAAATATAAAA
CTAACGATAAAATAAACCATCGAAAGCTTCATTTAACATATAGCTATTAAAATCAAAAGCAGAAA
G
Found at i:18352 original size:4 final size:4
Alignment explanation
Indices: 18343--18379 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
18333 ATATTATTCC
18343 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
18380 AAAGGGTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:22455 original size:28 final size:29
Alignment explanation
Indices: 22393--22455 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
22383 AACTATTTGA
* *
22393 AAGTTTTCATTTAAGTTATTGAATTGTTC
1 AAGTTTTAATTTAAGTTACTGAATTGTTC
* *
22422 CA-TTTTAATTTAAGTTACTGAGTTGTT-
1 AAGTTTTAATTTAAGTTACTGAATTGTTC
22449 AAGTTTT
1 AAGTTTT
22456 TTTTTTTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.04
28 26 0.93
29 1 0.04
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.52
Consensus pattern (29 bp):
AAGTTTTAATTTAAGTTACTGAATTGTTC
Found at i:24481 original size:16 final size:16
Alignment explanation
Indices: 24439--24486 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
24429 ATATTTTTTA
*
24439 TTTATATTTTTAATAAT
1 TTTAAATTTTTAA-AAT
*
24456 TTT-AATTTTTAAATT
1 TTTAAATTTTTAAAAT
*
24471 TTTAAAATTTTAAAAT
1 TTTAAATTTTTAAAAT
24487 AATTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 5 0.19
16 18 0.69
17 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAATTTTTAAAAT
Found at i:25307 original size:27 final size:28
Alignment explanation
Indices: 25272--25325 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
25262 AATCGAGTTA
* *
25272 TTTGGTTATAAAATTAC-TAAATTTATT
1 TTTGATTATAAAATTACAAAAATTTATT
**
25299 TTTGATTATTTAATTACAAAAATTTAT
1 TTTGATTATAAAATTACAAAAATTTAT
25326 AAAATATCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (28 bp):
TTTGATTATAAAATTACAAAAATTTATT
Found at i:27991 original size:4 final size:4
Alignment explanation
Indices: 27975--28020 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
27965 ACATGTTAAA
* * * *
27975 ATAC ATGC ATAC ATAC ATAT ATAC ATAC ATTC ATAC ATAC GTAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
28021 GTTAGTGATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:32144 original size:24 final size:25
Alignment explanation
Indices: 32086--32146 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
32076 ATATGTTTAC
* * *
32086 TAAATTATTATAAAATTTAAAGTTA
1 TAAATTATTATAAAATTAAAAATAA
* *
32111 TATATT-TTATACAA-TAAAAATAA
1 TAAATTATTATAAAATTAAAAATAA
32134 TAAATTATTATAA
1 TAAATTATTATAA
32147 CATTTGTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 11 0.39
24 12 0.43
25 5 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TAAATTATTATAAAATTAAAAATAA
Found at i:35727 original size:19 final size:19
Alignment explanation
Indices: 35703--35752 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
35693 TTAAAAAACT
35703 AAATTATAT-AAACTTATTA
1 AAATTATATAAAACTTA-TA
35722 AAATTAT-TAAAACTTATA
1 AAATTATATAAAACTTATA
35740 AATATTATA-AAAA
1 AA-ATTATATAAAA
35753 TATAAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTATATAAAACTTATA
Found at i:35835 original size:23 final size:23
Alignment explanation
Indices: 35808--35902 Score: 68
Period size: 23 Copynumber: 3.9 Consensus size: 23
35798 CTTATTTAAG
*
35808 ATATTTAAAATTTTAAAAAATAT
1 ATATTTAAAATTTTAAAAAATAA
*
35831 ATA-TTAAATTCTTTAAAAAATAA
1 ATATTTAAAAT-TTTAAAAAATAA
* *
35854 AAATTGTAAAATTTATTAAAAATTAA
1 ATATT-TAAAA-TT-TTAAAAAATAA
*
35880 A-ATTAATAAAAACTTTAAAAAAT
1 ATATT--T-AAAATTTTAAAAAAT
35903 CATAAAAACT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
22 6 0.11
23 16 0.28
24 1 0.02
25 16 0.28
26 14 0.25
27 4 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (23 bp):
ATATTTAAAATTTTAAAAAATAA
Found at i:35891 original size:17 final size:18
Alignment explanation
Indices: 35849--35891 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
35839 TTCTTTAAAA
*
35849 AATAAAAATTGTAAAATT
1 AATAAAAAATGTAAAATT
* *
35867 TATTAAAAAT-TAAAATT
1 AATAAAAAATGTAAAATT
35884 AATAAAAA
1 AATAAAAA
35892 CTTTAAAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AATAAAAAATGTAAAATT
Found at i:36032 original size:29 final size:30
Alignment explanation
Indices: 35996--36060 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
35986 ATTTCGCTGC
* *
35996 TTAATTAAATTTAT-TTATTTATTTCCTTA
1 TTAATTAAATTAATATTATTTATTTACTTA
36025 TTAATT-AATTAATATTATTTATTTACTTA
1 TTAATTAAATTAATATTATTTATTTACTTA
*
36054 TTTATTA
1 TTAATTA
36061 GCATTGTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (30 bp):
TTAATTAAATTAATATTATTTATTTACTTA
Found at i:36059 original size:33 final size:33
Alignment explanation
Indices: 35996--36060 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
35986 ATTTCGCTGC
* *
35996 TTAATTAAATTTATTTATTTATTTCCTTATTAA
1 TTAATTAAATTTATTTATTTACTTACTTATTAA
*
36029 TTAATT-AATATTATTTATTTACTTATTTATTA
1 TTAATTAAAT-TTATTTATTTACTTACTTATTA
36061 GCATTGTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (33 bp):
TTAATTAAATTTATTTATTTACTTACTTATTAA
Found at i:41650 original size:23 final size:23
Alignment explanation
Indices: 41606--41652 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
41596 TGAATTAAGT
**
41606 TTTTTAATATTTTATTTTTTGAA
1 TTTTTAATATTTTATTAATTGAA
41629 TTTTTAATAATTTT-TTAATTGAA
1 TTTTTAAT-ATTTTATTAATTGAA
41652 T
1 T
41653 CAGGGGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTTTAATATTTTATTAATTGAA
Found at i:51472 original size:21 final size:22
Alignment explanation
Indices: 51442--51482 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
51432 AAATTTTTTG
51442 AAGTTATTTAGTAA-AATTTCA
1 AAGTTATTTAGTAATAATTTCA
* *
51463 AAGTTTTTTATTAATAATTT
1 AAGTTATTTAGTAATAATTT
51483 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
AAGTTATTTAGTAATAATTTCA
Found at i:63005 original size:16 final size:17
Alignment explanation
Indices: 62955--63007 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
62945 TATATATTAT
*
62955 AAATTATATAATATATA
1 AAATTATATAATATAAA
62972 AAATTAATATAATATAAA
1 AAATT-ATATAATATAAA
*
62990 AAATTATA-AATTTAAA
1 AAATTATATAATATAAA
63006 AA
1 AA
63008 TAAATCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 9 0.27
17 8 0.24
18 16 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTATATAATATAAA
Found at i:67002 original size:31 final size:31
Alignment explanation
Indices: 66964--67027 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
66954 GAGGGTTGAA
66964 TTTTTTAAAATCAAGACTGAATTTATTTAAT
1 TTTTTTAAAATCAAGACTGAATTTATTTAAT
66995 TTTTTTAAAATCAAGACTGAATTTATTTAAT
1 TTTTTTAAAATCAAGACTGAATTTATTTAAT
67026 TT
1 TT
67028 ATAAATGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (31 bp):
TTTTTTAAAATCAAGACTGAATTTATTTAAT
Found at i:71102 original size:24 final size:24
Alignment explanation
Indices: 71070--71117 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
71060 AGCGACATTA
71070 TAGTGGACTTTTAACTGAAAAACT
1 TAGTGGACTTTTAACTGAAAAACT
71094 TAGTGGACTTTTAACTGAAAAACT
1 TAGTGGACTTTTAACTGAAAAACT
71118 GACTTCAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (24 bp):
TAGTGGACTTTTAACTGAAAAACT
Found at i:75616 original size:29 final size:30
Alignment explanation
Indices: 75582--75640 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
75572 TTAACAGCTC
**
75582 AGTGACTTAA-AAAAACTTTTGAATAGTTT
1 AGTGACTTAACAAAAACTTTCAAATAGTTT
75611 AGTGACTTAACTAAAAACTTTCAAATAGTT
1 AGTGACTTAAC-AAAAACTTTCAAATAGTT
75641 CAATGATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.38
31 16 0.62
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (30 bp):
AGTGACTTAACAAAAACTTTCAAATAGTTT
Found at i:82751 original size:43 final size:43
Alignment explanation
Indices: 82690--82775 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
82680 TTAAGTTAGA
82690 TTTGCTCTCGATCTATCTACTTGTTCAAATTTAAAGGTTTCTC
1 TTTGCTCTCGATCTATCTACTTGTTCAAATTTAAAGGTTTCTC
82733 TTTGCTCTCGATCTATCTACTTGTTCAAATTTAAAGGTTTCTC
1 TTTGCTCTCGATCTATCTACTTGTTCAAATTTAAAGGTTTCTC
82776 CGAATTCGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (43 bp):
TTTGCTCTCGATCTATCTACTTGTTCAAATTTAAAGGTTTCTC
Found at i:83961 original size:3 final size:3
Alignment explanation
Indices: 83953--83979 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
83943 ATTTCCTCAG
83953 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
83980 TAACTGTAAT
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):
CTT
Found at i:88841 original size:3 final size:3
Alignment explanation
Indices: 88833--88858 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88823 GCCCATCCTT
88833 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
88859 TCCAAACCCA
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:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:91786 original size:14 final size:15
Alignment explanation
Indices: 91745--91789 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
91735 TAATATATAA
91745 TATTAAATTTAGTTT
1 TATTAAATTTAGTTT
*
91760 T-TTGAATTT--TTT
1 TATTAAATTTAGTTT
91772 TATT-AATTTAGTTT
1 TATTAAATTTAGTTT
91786 TATT
1 TATT
91790 TTGATTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 14 0.54
15 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TATTAAATTTAGTTT
Found at i:93825 original size:24 final size:22
Alignment explanation
Indices: 93793--93838 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
93783 CTCGATCTTA
93793 ATTTCTAATAATGATTTTATTTTT
1 ATTTCTAATAAT-ATTTT-TTTTT
* *
93817 ATTTTTAATACTATTTTTTTTT
1 ATTTCTAATAATATTTTTTTTT
93839 GCTTGTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 5 0.25
24 10 0.50
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTCTAATAATATTTTTTTTT
Found at i:95831 original size:50 final size:50
Alignment explanation
Indices: 95753--95849 Score: 176
Period size: 50 Copynumber: 1.9 Consensus size: 50
95743 GCTAACAAAG
* *
95753 GAAAACACTTTCTTTTGTTTCTTTGCTCAATTTCCTATAAAAAAAAAAAT
1 GAAAACACTTTCTTTTGTTTCTTCGCTCAATTTCCTAGAAAAAAAAAAAT
95803 GAAAACACTTTCTTTTGTTTCTTCGCTCAATTTCCTAGAAAAAAAAA
1 GAAAACACTTTCTTTTGTTTCTTCGCTCAATTTCCTAGAAAAAAAAA
95850 TGTTTCCCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (50 bp):
GAAAACACTTTCTTTTGTTTCTTCGCTCAATTTCCTAGAAAAAAAAAAAT
Found at i:98264 original size:30 final size:29
Alignment explanation
Indices: 98230--98287 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
98220 AAATTATTTA
*
98230 TAAATTTTGATTTTATGTGTAATATTATAT
1 TAAATTTTGATTTT-TGTATAATATTATAT
* *
98260 TAAATTTTTATTTTTGTATAATTTTATA
1 TAAATTTTGATTTTTGTATAATATTATA
98288 CATTAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (29 bp):
TAAATTTTGATTTTTGTATAATATTATAT
Found at i:101758 original size:6 final size:6
Alignment explanation
Indices: 101747--101783 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
101737 TACACACCAC
* *
101747 TCATCT TCATCT TCATCT CCATCT TCATCT TCTTCT T
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT T
101784 TTTGATTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.14, C:0.35, G:0.00, T:0.51
Consensus pattern (6 bp):
TCATCT
Found at i:102989 original size:32 final size:32
Alignment explanation
Indices: 102952--103035 Score: 105
Period size: 34 Copynumber: 2.6 Consensus size: 32
102942 ATTATATTGT
102952 TGTTTTGGTGCTCTTTTTACTATTTTGGTTGC
1 TGTTTTGGTGCTCTTTTTACTATTTTGGTTGC
* * *
102984 TGTTTTGGTGTTATTTTTTTACTATTTTGGTTGT
1 TGTTTTGGTG--CTCTTTTTACTATTTTGGTTGC
* *
103018 TATTTTGGTGCTGTTTTT
1 TGTTTTGGTGCTCTTTTT
103036 GTTGTTATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
32 16 0.36
34 28 0.64
ACGTcount: A:0.07, C:0.07, G:0.21, T:0.64
Consensus pattern (32 bp):
TGTTTTGGTGCTCTTTTTACTATTTTGGTTGC
Found at i:102991 original size:12 final size:12
Alignment explanation
Indices: 102972--103100 Score: 95
Period size: 12 Copynumber: 11.1 Consensus size: 12
102962 CTCTTTTTAC
*
102972 TATTTTGGTTGC
1 TATTTTGGTTGT
*
102984 TGTTTTGG-TGT
1 TATTTTGGTTGT
* **
102995 TATTTT-TTTAC
1 TATTTTGGTTGT
103006 TATTTTGGTTGT
1 TATTTTGGTTGT
*
103018 TATTTTGG-TGC
1 TATTTTGGTTGT
* *
103029 TGTTTTTGTTGT
1 TATTTTGGTTGT
*
103041 TATTTTTGTTGT
1 TATTTTGGTTGT
* **
103053 TGTTTT-GCAGT
1 TATTTTGGTTGT
* *
103064 TATTTTTGTTGC
1 TATTTTGGTTGT
*
103076 TGTTTTGGTTGT
1 TATTTTGGTTGT
103088 TATTTTGGTTGT
1 TATTTTGGTTGT
103100 T
1 T
103101 TGGATATTAT
Statistics
Matches: 88, Mismatches: 25, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
11 30 0.34
12 58 0.66
ACGTcount: A:0.07, C:0.04, G:0.23, T:0.66
Consensus pattern (12 bp):
TATTTTGGTTGT
Found at i:103018 original size:23 final size:24
Alignment explanation
Indices: 102972--103098 Score: 145
Period size: 23 Copynumber: 5.5 Consensus size: 24
102962 CTCTTTTTAC
*
102972 TATTTTGGTTGCTGTTTTGG-TGT
1 TATTTTTGTTGCTGTTTTGGTTGT
* *
102995 TATTTTT-TTACTATTTTGGTTGT
1 TATTTTTGTTGCTGTTTTGGTTGT
* *
103018 TA-TTTTGGTGCTGTTTTTGTTGT
1 TATTTTTGTTGCTGTTTTGGTTGT
* **
103041 TATTTTTGTTGTTGTTTT-GCAGT
1 TATTTTTGTTGCTGTTTTGGTTGT
103064 TATTTTTGTTGCTGTTTTGGTTGT
1 TATTTTTGTTGCTGTTTTGGTTGT
*
103088 TATTTTGGTTG
1 TATTTTTGTTG
103099 TTTGGATATT
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
22 14 0.16
23 45 0.53
24 26 0.31
ACGTcount: A:0.07, C:0.04, G:0.24, T:0.65
Consensus pattern (24 bp):
TATTTTTGTTGCTGTTTTGGTTGT
Found at i:103052 original size:35 final size:35
Alignment explanation
Indices: 102971--103096 Score: 137
Period size: 35 Copynumber: 3.6 Consensus size: 35
102961 GCTCTTTTTA
* * * *
102971 CTATTTTGGTTGCTGTTTTGGTGTTATTTTT-TTA
1 CTATTTTGGTTGTTATTTTGGTGCTATTTTTGTTG
*
103005 CTATTTTGGTTGTTATTTTGGTGCTGTTTTTGTTG
1 CTATTTTGGTTGTTATTTTGGTGCTATTTTTGTTG
* * * ** *
103040 TTATTTTTGTTGTTGTTTTGCAGTTATTTTTGTTG
1 CTATTTTGGTTGTTATTTTGGTGCTATTTTTGTTG
*
103075 CTGTTTTGGTTGTTATTTTGGT
1 CTATTTTGGTTGTTATTTTGGT
103097 TGTTTGGATA
Statistics
Matches: 73, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
34 27 0.37
35 46 0.63
ACGTcount: A:0.07, C:0.05, G:0.23, T:0.65
Consensus pattern (35 bp):
CTATTTTGGTTGTTATTTTGGTGCTATTTTTGTTG
Found at i:104957 original size:19 final size:20
Alignment explanation
Indices: 104913--104959 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
104903 AATTACAAAA
*
104913 AAAAATCCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
*
104933 ATAAATTCAAAAT-ATTTAT-
1 AAAAATTCAAAATAATTT-TC
104952 AAAAATTC
1 AAAAATTC
104960 TAATATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:110192 original size:29 final size:30
Alignment explanation
Indices: 110127--110202 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
110117 ATCTCAAAAC
* *
110127 TATACATGAACTATGATTTAATATGCAATTG
1 TATACATGAATTTTGATTT-ATATGCAATTG
* *
110158 TATACATGAATTTTGATTT-TGTGCAATTT
1 TATACATGAATTTTGATTTATATGCAATTG
*
110187 TATACATAAAATTTTG
1 TATACAT-GAATTTTG
110203 GTTTGATCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.38
30 7 0.18
31 17 0.44
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.45
Consensus pattern (30 bp):
TATACATGAATTTTGATTTATATGCAATTG
Found at i:110207 original size:29 final size:29
Alignment explanation
Indices: 110150--110207 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
110140 TGATTTAATA
* *
110150 TGCAATTGTATACATGAATTTTGATTTTG
1 TGCAATTGTATACATAAATTTTGAGTTTG
*
110179 TGCAATTTTATACATAAAATTTTG-GTTTG
1 TGCAATTGTATACAT-AAATTTTGAGTTTG
110208 ATCCAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (29 bp):
TGCAATTGTATACATAAATTTTGAGTTTG
Found at i:121386 original size:23 final size:24
Alignment explanation
Indices: 121331--121392 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
121321 CAACGCAAAT
121331 ATTATTTAAAAATTACAAAATGAA
1 ATTATTTAAAAATTACAAAATGAA
121355 ATTATTTAAAAATTACAAAATGAA
1 ATTATTTAAAAATTACAAAATGAA
121379 ATTA-TTAAAAATTA
1 ATTATTTAAAAATTA
121393 AAATTTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 10 0.26
24 28 0.74
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (24 bp):
ATTATTTAAAAATTACAAAATGAA
Found at i:121668 original size:20 final size:20
Alignment explanation
Indices: 121567--121668 Score: 59
Period size: 20 Copynumber: 5.2 Consensus size: 20
121557 TTTTTTACCT
* *
121567 TGAACCTCGAATCCAAAACC
1 TGAACCTCAAATCCAAACCC
*
121587 TGATCCT-AAATCTCAAACCC
1 TGAACCTCAAATC-CAAACCC
* * * **
121607 -GAACTTGAACTCTGAA-CC
1 TGAACCTCAAATCCAAACCC
* *
121625 TGAACCTCAAATCCAAATCT
1 TGAACCTCAAATCCAAACCC
*
121645 TGAACC-CTAAATTCAAACCC
1 TGAACCTC-AAATCCAAACCC
121665 TGAA
1 TGAA
121669 TCTAAACCCC
Statistics
Matches: 60, Mismatches: 17, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
18 2 0.03
19 22 0.37
20 36 0.60
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (20 bp):
TGAACCTCAAATCCAAACCC
Found at i:129098 original size:64 final size:62
Alignment explanation
Indices: 128815--129416 Score: 567
Period size: 63 Copynumber: 9.2 Consensus size: 62
128805 TGAATTGAAA
* * * ** *
128815 AAAAAAAGGGTTTTCTTTTG-TTTTCTCATATATTTGTTTTGAAATTCATGACTG-TTTTCTT
1 AAAAAAAGGGTTTTCTCTTGTTTTTTTCATATATTTG-TTTGAAATTCATGAATGAAATTATT
* *
128876 --AAAAAGGGTTTTCTCTCTCTTTTTTTTCTTCATATATTTGCTTTGAGATTCATGAATGAAATT
1 AAAAAAAGGG--TT-T-TCTCTTGTTTTT-TTCATATATTTG-TTTGAAATTCATGAATGAAATT
128939 ATTTTTT
60 A----TT
* * **
128946 AAAAAAAAGGGTTTTCTCTTCTTTTTTTTTCATAT-TTTGTTTTGAAATTCACGAATTTAATTAT
1 -AAAAAAAGGGTTTTCTC-T-TGTTTTTTTCATATATTTG-TTTGAAATTCATGAATGAAATTAT
129010 T
62 T
* * *
129011 AAAAAAA-GATTTTCTCTTGTTTTTGTTCATATATTTGTTCTGAAATTCATGAATAAAATTACT
1 AAAAAAAGGGTTTTCTCTTGTTTTT-TTCATATATTTGTT-TGAAATTCATGAATGAAATTATT
* *
129074 AAAAAGAA-GGTTTTCTCTTG-TTTTTCCATATATTTGCTATGAAATTCATGAATGAAATTATT
1 AAAAA-AAGGGTTTTCTCTTGTTTTTTTCATATATTTG-TTTGAAATTCATGAATGAAATTATT
* * * *
129136 CTAAAAAAGGGTTTTCTCTTG-TTCTTTCATAT-TTTTTTTGAAATCCATGAATGAAATTATGTT
1 -AAAAAAAGGGTTTTCTCTTGTTTTTTTCATATATTTGTTTGAAATTCATGAATGAAATTA---T
129199 T
62 T
129200 AAAAAAAGGGTTTTCTCTTGTTTTTTTTTTTCATATATTTGTTTAGAAATTCATGAATGAAATTA
1 AAAAAAAGGGTTTTCTCTTG----TTTTTTTCATATATTTGTTT-GAAATTCATGAATGAAATTA
129265 TT
61 TT
129267 AAAAAAAGGGTTTTCTCTTGTTTTTTTTCATATATTTGTTTAGAAATTCATGAATGAAATTATT
1 AAAAAAAGGGTTTTCTCTTG-TTTTTTTCATATATTTGTTT-GAAATTCATGAATGAAATTATT
* *
129331 AGAAAAAAAAAAAAGGTTTTTCTGTTGTTTATTTTGCATATATTTGTTTAGAAATTCATGAATGA
1 -------AAAAAAAGGGTTTTCTCTTGTTT-TTTT-CATATATTTGTTT-GAAATTCATGAATGA
129396 AATTATT
56 AATTATT
129403 AAAAAAAGGGTTTT
1 AAAAAAAGGGTTTT
129417 TTCCCATTTT
Statistics
Matches: 461, Mismatches: 38, Indels: 80
0.80 0.07 0.14
Matches are distributed among these distances:
59 8 0.02
61 29 0.06
62 48 0.10
63 90 0.20
64 70 0.15
65 41 0.09
66 2 0.00
67 22 0.05
68 10 0.02
69 33 0.07
70 33 0.07
71 31 0.07
72 36 0.08
73 8 0.02
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (62 bp):
AAAAAAAGGGTTTTCTCTTGTTTTTTTCATATATTTGTTTGAAATTCATGAATGAAATTATT
Found at i:129381 original size:72 final size:70
Alignment explanation
Indices: 128876--129409 Score: 383
Period size: 64 Copynumber: 8.0 Consensus size: 70
128866 CTGTTTTCTT
* * *
128876 AAAAAGGGTTTTCTCTCTCTTTTTTTTCTTCATATATTTGCTTT-GAGATTCATGAATGAAATTA
1 AAAAAGGG-TTT-TCTCT-TGTTTTTT-TGCATATATTTG-TTTAGAAATTCATGAATGAAATTA
****
128940 TT-TTTTAAA
61 TTAAAAAAAA
* * * * **
128949 AAAAAGGGTTTTCTCTTCTTTTTTTTTCATAT-TTTGTTTTGAAATTCACGAATTTAATTATT--
1 AAAAAGGGTTTTCTCTT-GTTTTTTTGCATATATTTGTTTAGAAATTCATGAATGAAATTATTAA
129011 ----AA
65 AAAAAA
*
129013 AAAAA-GATTTTCTCTTGTTTTTGTT-CATATATTTGTTCT-GAAATTCATGAAT-AAA--ATT-
1 AAAAAGGGTTTTCTCTTGTTTTT-TTGCATATATTTGTT-TAGAAATTCATGAATGAAATTATTA
**
129071 -ACTAAA
64 AAAAAAA
* * *
129077 AAGAA-GGTTTTCTCTTG--TTTTTCCATATATTTG-CTATGAAATTCATGAATGAAATTATT--
1 AAAAAGGGTTTTCTCTTGTTTTTTTGCATATATTTGTTTA-GAAATTCATGAATGAAATTATTAA
**
129136 ---CTA
65 AAAAAA
* * *
129139 AAAAAGGGTTTTCTCTTG-TTCTTT-CATAT-TTT-TTTTGAAATCCATGAATGAAATTATGT--
1 AAAAAGGGTTTTCTCTTGTTTTTTTGCATATATTTGTTTAGAAATTCATGAATGAAATTAT-TAA
**
129198 --TTAA
65 AAAAAA
*
129202 AAAAAGGGTTTTCTCTTGTTTTTTTTTTTCATATATTTGTTTAGAAATTCATGAATGAAATTATT
1 AAAAAGGGTTTTCTCTTG---TTTTTTTGCATATATTTGTTTAGAAATTCATGAATGAAATTATT
129267 ------AA
63 AAAAAAAA
*
129269 AAAAAGGGTTTTCTCTTGTTTTTTTTCATATATTTGTTTAGAAATTCATGAATGAAATTATTAGA
1 AAAAAGGGTTTTCTCTTGTTTTTTTGCATATATTTGTTTAGAAATTCATGAATGAAATTATTA-A
129334 AAAAAA
65 AAAAAA
* *
129340 AAAAAGGTTTTTCTGTTGTTTATTTTGCATATATTTGTTTAGAAATTCATGAATGAAATTATTAA
1 AAAAAGGGTTTTCTCTTGTTT-TTTTGCATATATTTGTTTAGAAATTCATGAATGAAATTATTAA
129405 AAAAA
65 AAAAA
129410 GGGTTTTTTC
Statistics
Matches: 400, Mismatches: 26, Indels: 72
0.80 0.05 0.14
Matches are distributed among these distances:
60 4 0.01
61 22 0.05
62 48 0.12
63 69 0.17
64 73 0.18
65 3 0.01
67 25 0.06
68 8 0.02
69 26 0.06
70 31 0.08
71 39 0.10
72 44 0.11
73 8 0.02
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (70 bp):
AAAAAGGGTTTTCTCTTGTTTTTTTGCATATATTTGTTTAGAAATTCATGAATGAAATTATTAAA
AAAAA
Found at i:129391 original size:136 final size:130
Alignment explanation
Indices: 128946--129416 Score: 472
Period size: 136 Copynumber: 3.6 Consensus size: 130
128936 ATTATTTTTT
* * * * **
128946 AAAAAAAAGGGTTTTCTCTTCTTTTT-TTTT-CATAT-TTTGTTTTGAAATTCACGAATTTAATT
1 AAAAAAAAAGGTTTTCTCTTGTTTTTATTTTCCATATATTTGTTTAGAAATTCATGAATGAAATT
* * * *
129008 ATTAAAAAAA-GATTTTCTCTTGTTTTTGTTCATATATTTGTTCT-GAAATTCATGAATAAAATT
66 ATTAAAAAAAGGGTTTTCTCTTG-TTCT-TTCATAT-TTT-TT-TAGAAATCCATGAATGAAATT
129071 ACT---
126 A-TGAA
* *
129074 -AAAAAGAAGGTTTTCTCTTG----T-TTTTCCATATATTTG-CTATGAAATTCATGAATGAAAT
1 AAAAAAAAAGGTTTTCTCTTGTTTTTATTTTCCATATATTTGTTTA-GAAATTCATGAATGAAAT
* *
129132 TATTCTAAAAAAGGGTTTTCTCTTGTTCTTTCATATTTTTTTTGAAATCCATGAATGAAATTATG
65 TATT-AAAAAAAGGGTTTTCTCTTGTTCTTTCATATTTTTTTAGAAATCCATGAATGAAATTATG
**
129197 TT
129 AA
* * * *
129199 TAAAAAAAGGGTTTTCTCTTGTTTTTTTTTTTCATATATTTGTTTAGAAATTCATGAATGAAATT
1 AAAAAAAAAGGTTTTCTCTTGTTTTTATTTTCCATATATTTGTTTAGAAATTCATGAATGAAATT
* *
129264 ATTAAAAAAAGGGTTTTCTCTTGTTTTTTTTCATATATTTGTTTAGAAATTCATGAATGAAATTA
66 ATTAAAAAAAGGGTTTTCTCTTG--TTCTTTCATAT-TTT-TTTAGAAATCCATGAATGAAATTA
129329 TTAGAAA
127 -T-G-AA
*
129336 AAAAAAAAAGGTTTT-TC-TGTTGTTTATTTTGCATATATTTGTTTAGAAATTCATGAATGAAAT
1 AAAAAAAAAGGTTTTCTCTTGTT-TTTATTTTCCATATATTTGTTTAGAAATTCATGAATGAAAT
129399 TATTAAAAAAAGGGTTTT
65 TATTAAAAAAAGGGTTTT
129417 TTCCCATTTT
Statistics
Matches: 292, Mismatches: 27, Indels: 40
0.81 0.08 0.11
Matches are distributed among these distances:
122 2 0.01
123 25 0.09
124 9 0.03
125 30 0.10
126 27 0.09
127 28 0.10
130 20 0.07
131 36 0.12
132 12 0.04
133 3 0.01
134 22 0.08
135 5 0.02
136 60 0.21
137 13 0.04
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (130 bp):
AAAAAAAAAGGTTTTCTCTTGTTTTTATTTTCCATATATTTGTTTAGAAATTCATGAATGAAATT
ATTAAAAAAAGGGTTTTCTCTTGTTCTTTCATATTTTTTTAGAAATCCATGAATGAAATTATGAA
Found at i:129427 original size:136 final size:131
Alignment explanation
Indices: 128830--129430 Score: 449
Period size: 136 Copynumber: 4.6 Consensus size: 131
128820 AAGGGTTTTC
* * * ** *
128830 TTTTGTTTTCTCATATATTTGTTTTGAAATTCATGACTG-TTTTCTT--AAAAAGGGTTTTCTCT
1 TTTTATTTTC-CATATATTTGTTTAGAAATTCATGAATGAAATTATTAAAAAAAGGGTTTT-T-T
* * *** *
128892 CTCTTTTTTTTCTTCATATATTTGCTTT-GAGATTCATGAATGAAATTATTTTTTAAAAAAAAGG
63 CTC--TTTTTT-TTCATAT-TTT--TTTAGAAATCCATGAATGAAATTA--TGAAAAAAAAAAAG
*
128956 GTTTTCTCTTCT
120 GTTTTCTCTTGT
* * ** * *
128968 TTTT-TTTT-CATAT-TTTGTTTTGAAATTCACGAATTTAATTATTAAAAAAA-GATTTTCTCT-
1 TTTTATTTTCCATATATTTGTTTAGAAATTCATGAATGAAATTATTAAAAAAAGGGTTTTTTCTC
* * *
129028 TGTTTTTGTTCATATATTTGTTCT-GAAATTCATGAATAAAATTACT----AAAAAGAAGGTTTT
66 T-TTTTT-TTCATAT-TTT-TT-TAGAAATCCATGAATGAAATTA-TGAAAAAAAAAAAGGTTTT
129088 CTCTTG-
125 CTCTTGT
* *
129094 ---T-TTTTCCATATATTTG-CTATGAAATTCATGAATGAAATTATTCTAAAAAAGGG--TTTTC
1 TTTTATTTTCCATATATTTGTTTA-GAAATTCATGAATGAAATTATT-AAAAAAAGGGTTTTTTC
* * *** *
129152 TCTTGTTCTTTCATATTTTTTTTGAAATCCATGAATGAAATTATGTTTAAAAAAAGGGTTTTCTC
64 TCTT-TTTTTTCATATTTTTTTAGAAATCCATGAATGAAATTATGAAAAAAAAAAAGGTTTTCTC
129217 TTGT
128 TTGT
* * *
129221 TTTTTTTTTTCATATATTTGTTTAGAAATTCATGAATGAAATTATTAAAAAAAGGGTTTTCTCTT
1 TTTTATTTTCCATATATTTGTTTAGAAATTCATGAATGAAATTATTAAAAAAAGGGTTTTTTC-T
* *
129286 GTTTTTTTTCATATATTTGTTTAGAAATTCATGAATGAAATTATTAGAAAAAAAAAAAAGGTTTT
65 CTTTTTTTTCATAT-TTT-TTTAGAAATCCATGAATGAAATTA-T-G-AAAAAAAAAAAGGTTTT
129351 -TC-TGT
125 CTCTTGT
* *
129356 TGTTTATTTTGCATATATTTGTTTAGAAATTCATGAATGAAATTATTAAAAAAAGGGTTTTTTCC
1 T-TTTATTTTCCATATATTTGTTTAGAAATTCATGAATGAAATTATTAAAAAAAGGGTTTTTTCT
129421 CATTTTTTTT
65 C-TTTTTTTT
129431 TTTACTTTTT
Statistics
Matches: 384, Mismatches: 46, Indels: 68
0.77 0.09 0.14
Matches are distributed among these distances:
122 2 0.01
123 25 0.07
124 9 0.02
125 36 0.09
126 28 0.07
127 18 0.05
130 10 0.03
131 40 0.10
132 51 0.13
133 6 0.02
134 44 0.11
135 14 0.04
136 75 0.20
137 22 0.06
138 4 0.01
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (131 bp):
TTTTATTTTCCATATATTTGTTTAGAAATTCATGAATGAAATTATTAAAAAAAGGGTTTTTTCTC
TTTTTTTTCATATTTTTTTAGAAATCCATGAATGAAATTATGAAAAAAAAAAAGGTTTTCTCTTG
T
Found at i:133816 original size:18 final size:19
Alignment explanation
Indices: 133790--133827 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
133780 TATTTTTTAT
*
133790 AATTTTAAAA-ATCTAAAA
1 AATTATAAAATATCTAAAA
*
133808 AATTATAAAATATTTAAAA
1 AATTATAAAATATCTAAAA
133827 A
1 A
133828 TAATTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTATAAAATATCTAAAA
Done.