Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012093.1 Corchorus capsularis cultivar CVL-1 contig12114, 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: 58751
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:478 original size:33 final size:34
Alignment explanation
Indices: 436--505 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 34
426 GTGGAGGTAG
436 GAGTTTTTACCATGACAATT-AGGCTATATTTTA
1 GAGTTTTTACCATGACAATTAAGGCTATATTTTA
*
469 GAGTTTTTACCATGACGATTAGAGGCTATATTTTA
1 GAGTTTTTACCATGACAATTA-AGGCTATATTTTA
504 GA
1 GA
506 AGTTGGGTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 19 0.56
35 15 0.44
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (34 bp):
GAGTTTTTACCATGACAATTAAGGCTATATTTTA
Found at i:5705 original size:10 final size:10
Alignment explanation
Indices: 5690--5722 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
5680 CATTCATCAT
5690 TAAAACACAC
1 TAAAACACAC
*
5700 TAAAACACAT
1 TAAAACACAC
5710 TAAAACACAC
1 TAAAACACAC
5720 TAA
1 TAA
5723 TTGACAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.15
Consensus pattern (10 bp):
TAAAACACAC
Found at i:8888 original size:31 final size:31
Alignment explanation
Indices: 8825--8897 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
8815 CATTTTCTCT
* *
8825 TTTCTCCTTTCTCTCTCTTCCTCTCGATTTC
1 TTTCTCCTCTCTCTCTCTACCTCTCGATTTC
8856 TTTCTCCTCTCTCTCTCTACCAGT-TCGA-TTC
1 TTTCTCCTCTCTCTCTCTACC--TCTCGATTTC
*
8887 TTTCTCTTCTC
1 TTTCTCCTCTC
8898 CCTTTTCTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 32 0.86
32 4 0.11
33 1 0.03
ACGTcount: A:0.05, C:0.38, G:0.04, T:0.52
Consensus pattern (31 bp):
TTTCTCCTCTCTCTCTCTACCTCTCGATTTC
Found at i:15095 original size:19 final size:18
Alignment explanation
Indices: 15071--15106 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
15061 TGAAGATTTC
15071 TTGAAGATAATTTGAAGAT
1 TTGAAGATAA-TTGAAGAT
*
15090 TTGAAGATCATTGAAGA
1 TTGAAGATAATTGAAGA
15107 AATATTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (18 bp):
TTGAAGATAATTGAAGAT
Found at i:16408 original size:15 final size:16
Alignment explanation
Indices: 16388--16421 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16378 GATTGCTCTC
*
16388 TTAGTTA-ATTTACTT
1 TTAGTTATATTTAATT
16403 TTAGTTATATTTAATT
1 TTAGTTATATTTAATT
16419 TTA
1 TTA
16422 ATTCTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (16 bp):
TTAGTTATATTTAATT
Found at i:18409 original size:50 final size:49
Alignment explanation
Indices: 18336--18479 Score: 218
Period size: 50 Copynumber: 2.9 Consensus size: 49
18326 ATCTGTTTGA
18336 TTGTAATCAGTGCGGGGAGCACTTGTTTTAAGCTTGGGGAAAGCTTAGGT
1 TTGTAATCAGTGC-GGGAGCACTTGTTTTAAGCTTGGGGAAAGCTTAGGT
*
18386 TTGTAATCAGTGCGTGGAGCACTTGTTCTAAGCTTGGGGAAAGCTTAGGT
1 TTGTAATCAGTGCG-GGAGCACTTGTTTTAAGCTTGGGGAAAGCTTAGGT
* * *
18436 TTGTGATTAGTGCAGGGAGCACTTG-TTTGAGCTTGGGGAAAGCT
1 TTGTAATCAGTGC-GGGAGCACTTGTTTTAAGCTTGGGGAAAGCT
18480 CGGTGTTGTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
49 18 0.21
50 68 0.78
51 1 0.01
ACGTcount: A:0.22, C:0.12, G:0.34, T:0.32
Consensus pattern (49 bp):
TTGTAATCAGTGCGGGAGCACTTGTTTTAAGCTTGGGGAAAGCTTAGGT
Found at i:19895 original size:21 final size:21
Alignment explanation
Indices: 19869--19908 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19859 ACTATGGATG
19869 AGACAGATACAGAAATGAAAA
1 AGACAGATACAGAAATGAAAA
*
19890 AGACAGATTCAGAAATGAA
1 AGACAGATACAGAAATGAA
19909 GAAGTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.20, T:0.12
Consensus pattern (21 bp):
AGACAGATACAGAAATGAAAA
Found at i:24605 original size:21 final size:21
Alignment explanation
Indices: 24579--24629 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
24569 CCCTGATGAA
* *
24579 GAAGAAGAAAGTGAGAACGAG
1 GAAGAAGAAAGTGAAAAAGAG
*
24600 GAAGAATG-GAGTGAAAAAGAG
1 GAAGAA-GAAAGTGAAAAAGAG
24621 GAAGAAGAA
1 GAAGAAGAA
24630 GGAGCTGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.37, T:0.06
Consensus pattern (21 bp):
GAAGAAGAAAGTGAAAAAGAG
Found at i:26935 original size:50 final size:50
Alignment explanation
Indices: 26862--27005 Score: 236
Period size: 50 Copynumber: 2.9 Consensus size: 50
26852 ATCTGTTTGA
*
26862 TTGTAATCAGTGCGGGGAGCACTTATTCTAAGCTTGGGGAAAGCTTAGGT
1 TTGTAATCAGTGCGGGGAGCACTTGTTCTAAGCTTGGGGAAAGCTTAGGT
**
26912 TTGTAATCAGTGCATGGAGCACTTGTTCTAAGCTTGGGGAAAGCTTAGGT
1 TTGTAATCAGTGCGGGGAGCACTTGTTCTAAGCTTGGGGAAAGCTTAGGT
* *
26962 TTGTGATCAGTGCGGGGAGCACTTGTT-TGAGCTTGGGGAAAGCT
1 TTGTAATCAGTGCGGGGAGCACTTGTTCTAAGCTTGGGGAAAGCT
27006 CGGTGTTGTC
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 16 0.18
50 71 0.82
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (50 bp):
TTGTAATCAGTGCGGGGAGCACTTGTTCTAAGCTTGGGGAAAGCTTAGGT
Found at i:36221 original size:43 final size:44
Alignment explanation
Indices: 36143--36228 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 44
36133 GATATAAAAA
*
36143 AAAAGATATCATTAAAAAGTTAAATCTTGCAATTGTTGTCTTTAG
1 AAAAGATATCATT-AAAAGTTAAATCTTGCAATTGTTCTCTTTAG
* * *
36188 AAAAGATATCATT-AGAGTTAAATTTTGTAATTGTTCTCTTT
1 AAAAGATATCATTAAAAGTTAAATCTTGCAATTGTTCTCTTT
36229 TAGATCTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 24 0.65
45 13 0.35
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (44 bp):
AAAAGATATCATTAAAAGTTAAATCTTGCAATTGTTCTCTTTAG
Found at i:36609 original size:67 final size:67
Alignment explanation
Indices: 36511--36787 Score: 214
Period size: 67 Copynumber: 3.9 Consensus size: 67
36501 AATTTTAACT
* * * *
36511 AGGTTACGATTATGTTAAGGTAATTCATAAAAATTTGATTAGGTGTGATAGGGTGTAAATTTGGA
1 AGGTTATGATTATATTAAGGTAATTAATAAAAATTTAATTAGGTGTGATAGGGTGTAAATTTGGA
36576 TA
66 TA
* ** * * ***
36578 AGGTTATGATTATATTAAGGTAATTAATAAAAATTAAATTTTAATTTATTAATAAAAT-TATTCA
1 AGGTTATGATTATATTAAGGTAATTAATAAAAATTTAA--TT-AGGT-GTGATAGGGTGTA---A
**
36642 ATTTTAACTA
59 ATTTGGA-TA
** * *
36652 ATTTTAACTAGGTTATGATTATGTTAAGGTAATTCATAAAAATTTAATTAGGTGTGATAGGGTGT
1 AGGTT-A-T-GATTAT-ATT-----AAGGTAATTAATAAAAATTTAATTAGGTGTGATAGGGTGT
36717 AAATTTGGATA
57 AAATTTGGATA
* *
36728 AGGTTATGATTATGTTAAGGTAATTAATAAAAATTTAATTAGGTGCGATAGGGTGTAAAT
1 AGGTTATGATTATATTAAGGTAATTAATAAAAATTTAATTAGGTGTGATAGGGTGTAAAT
36788 AAGAATATTT
Statistics
Matches: 158, Mismatches: 34, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
67 75 0.47
69 2 0.01
70 4 0.03
71 5 0.03
72 2 0.01
73 11 0.07
74 6 0.04
75 2 0.01
76 6 0.04
77 11 0.07
78 3 0.02
79 5 0.03
80 4 0.03
81 2 0.01
83 20 0.13
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.40
Consensus pattern (67 bp):
AGGTTATGATTATATTAAGGTAATTAATAAAAATTTAATTAGGTGTGATAGGGTGTAAATTTGGA
TA
Found at i:36886 original size:47 final size:47
Alignment explanation
Indices: 36817--36910 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
36807 CCCTAATAGC
36817 TTTTTTTTTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTA
1 TTTTTTTTTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTA
36864 TTTTTTTTTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTA
1 TTTTTTTTTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTA
36911 ACCTTGATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (47 bp):
TTTTTTTTTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTA
Found at i:36922 original size:47 final size:47
Alignment explanation
Indices: 36824--36922 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
36814 AGCTTTTTTT
*** **
36824 TTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTATTTTTTT
1 TTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTAACCTTGA
36871 TTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTAACCTTGA
1 TTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTAACCTTGA
36918 TTTTT
1 TTTTT
36923 TTTTAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (47 bp):
TTTTTACTTTAGGATTATCCTAATAGAATTTAAAGATGTAACCTTGA
Found at i:39771 original size:14 final size:14
Alignment explanation
Indices: 39752--39791 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
39742 ACAATCACAA
39752 TATCTATATCTATC
1 TATCTATATCTATC
39766 TATCTATATCTATC
1 TATCTATATCTATC
39780 TATCTATA-CTAT
1 TATCTATATCTAT
39792 ATATAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.15
14 22 0.85
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (14 bp):
TATCTATATCTATC
Found at i:40084 original size:109 final size:109
Alignment explanation
Indices: 39888--40162 Score: 437
Period size: 109 Copynumber: 2.5 Consensus size: 109
39878 ACTAGTATAG
* * *
39888 TTTTATTCTAGTAGAAACTCTATTTTTATTCAATTAAATTAAATCTAATATCTTTATAATTACTT
1 TTTTATTCTACTAAAAACTCTA---TT-TTC-ATTTAATTAAATCTAATATCTTTATAATTACTT
*
39953 TATTTTTACCAAAAAATTTGGATATACTAAATTTTTTTCTAATATACAA
61 TATTTTTACCAAAAAATTTGGATATACTAAAATTTTTTCTAATATACAA
40002 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCTTTATAATTACTTTATTT
1 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCTTTATAATTACTTTATTT
*
40067 TTACCAAAAAATTTGGATATATTAAAATTTTTTCTAATATACAA
66 TTACCAAAAAATTTGGATATACTAAAATTTTTTCTAATATACAA
40111 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAAT-TCAATAT-TTTATA
1 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATCT-AATATCTTTATA
40163 TATATATTTT
Statistics
Matches: 155, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
108 7 0.05
109 123 0.79
110 3 0.02
111 2 0.01
114 20 0.13
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (109 bp):
TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCTTTATAATTACTTTATTT
TTACCAAAAAATTTGGATATACTAAAATTTTTTCTAATATACAA
Found at i:43990 original size:165 final size:164
Alignment explanation
Indices: 43515--43993 Score: 579
Period size: 167 Copynumber: 2.9 Consensus size: 164
43505 AACATATAAA
* ** * *
43515 AATTACTAAAAGATCCCCACCCCGGATTAATGAGGAGTGAGAGAACTAATTTTTTTTCGTCTTTT
1 AATTAATAAAAGATCCCCACCAAGGATTGATGATGAGT-AGAGAACTAA--TTTTTTCGTCTTTT
* * * * *
43580 CAC-ACTTGACTGATTACTTAAATGCCCTAACTTTTGATTCTTGAGGTGATTAAATAACTAGACT
63 C-CTACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAACTAAACT
*
43644 TTTTGGTCATTTCTCAATTGACTTTAATAGAGTAGTGG
127 TTTTGGTCATTTCTCAATGGACTTTAATAGAGTAGTGG
* * * ** * *
43682 AATTATTAAAAGATCCCTACCAA-GACTTGCTTTTGGAGTTAGTGAACTTATTTTTTTCGTCTTT
1 AATTAATAAAAGATCCCCACCAAGGA-TTGATGAT-GAG-TAGAGAAC-TAATTTTTTCGTCTTT
* * *
43746 TCCTACTTGGCAGATTACTTAAATGTCCTAATTTTTGATTCTTGAGGGAATTAAATAAGTAATA-
62 TCCTACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAACTAA-AC
43810 TTTTTGGTCATTTCTCAATGGA-TTTGAATAGAGTAGTGG
126 TTTTTGGTCATTTCTCAATGGACTTT-AATAGAGTAGTGG
* * * *
43849 AATTAATAAAAGATCCCCATCAAGGATTGATGATGAGCTAGAGAACTAATCTTTTCATCTTTACC
1 AATTAATAAAAGATCCCCACCAAGGATTGATGATGAG-TAGAGAACTAATTTTTTCGTCTTTTCC
* *
43914 TACTTGGCAGATTACTTAAATGTCCTAACTTTTAATTCTTAAGGGGATTAAATAACTAAACTTTT
65 TACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAACTAAACTTTT
*
43979 TGATCATTTCTCAAT
130 TGGTCATTTCTCAAT
43994 TGACAAATGA
Statistics
Matches: 265, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
164 1 0.00
165 87 0.33
166 16 0.06
167 146 0.55
168 12 0.05
169 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (164 bp):
AATTAATAAAAGATCCCCACCAAGGATTGATGATGAGTAGAGAACTAATTTTTTCGTCTTTTCCT
ACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAACTAAACTTTTT
GGTCATTTCTCAATGGACTTTAATAGAGTAGTGG
Found at i:44175 original size:17 final size:17
Alignment explanation
Indices: 44155--44187 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44145 TTCCCGTCGG
44155 TTATTTTTTGAAAAATA
1 TTATTTTTTGAAAAATA
44172 TTATTTTTTGAAAAAT
1 TTATTTTTTGAAAAAT
44188 CTGTACCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTATTTTTTGAAAAATA
Found at i:48899 original size:2 final size:2
Alignment explanation
Indices: 48892--48925 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48882 ACAAATCCTC
48892 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
48926 TATATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:55269 original size:15 final size:16
Alignment explanation
Indices: 55244--55273 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55234 AATTGTATAA
55244 GCCATTTTCTTTCCTT
1 GCCATTTTCTTTCCTT
55260 GCCA-TTTCTTTCCT
1 GCCATTTTCTTTCCT
55274 CTTTACTCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.33, G:0.07, T:0.53
Consensus pattern (16 bp):
GCCATTTTCTTTCCTT
Found at i:56233 original size:4 final size:4
Alignment explanation
Indices: 56226--56254 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
56216 CTCTCCCTTA
56226 TTCT TTCT TTCT TTCT TTCT TT-T TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
56255 TTTGCTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTCT
Found at i:56253 original size:7 final size:7
Alignment explanation
Indices: 56226--56289 Score: 58
Period size: 7 Copynumber: 8.4 Consensus size: 7
56216 CTCTCCCTTA
56226 TTCTTTCT
1 TTCTTT-T
56234 TTCTTTCT
1 TTCTTT-T
56242 TTCTTTT
1 TTCTTTT
56249 TTCTTTT
1 TTCTTTT
56256 TTGCTACTTAT
1 TT-CT--TT-T
*
56267 TTCTCTT
1 TTCTTTT
56274 TTC-TTT
1 TTCTTTT
56280 TTCTTTT
1 TTCTTTT
56287 TTC
1 TTC
56290 CTATTTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
6 5 0.10
7 20 0.41
8 17 0.35
10 4 0.08
11 3 0.06
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (7 bp):
TTCTTTT
Found at i:56956 original size:23 final size:24
Alignment explanation
Indices: 56908--56957 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
56898 TCACCGTTTT
*
56908 TAATTTCTTTTTCTTTCTTCTCCAA
1 TAATTTCTTTTTCCTTC-TCTCCAA
56933 TAATTTCTTTCTTCCTTC-CT-CAA
1 TAATTTCTTT-TTCCTTCTCTCCAA
56956 TA
1 TA
56958 TCCTCATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.22
24 2 0.09
25 10 0.43
26 6 0.26
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (24 bp):
TAATTTCTTTTTCCTTCTCTCCAA
Found at i:58738 original size:19 final size:20
Alignment explanation
Indices: 58710--58750 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
58700 TTGAAGGGTG
*
58710 TTTGTGATTTT-TATTTAAT
1 TTTGTAATTTTATATTTAAT
*
58729 TTTGTAATTTTATTTTTAAT
1 TTTGTAATTTTATATTTAAT
58749 TT
1 TT
58751 C
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTGTAATTTTATATTTAAT
Done.