Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015850.1 Corchorus olitorius cultivar O-4 contig15883, 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: 16966
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Found at i:5483 original size:99 final size:99
Alignment explanation
Indices: 5312--5509 Score: 387
Period size: 99 Copynumber: 2.0 Consensus size: 99
5302 GGCGAAGGCT
5312 CTCTGTGATGCTTTCAGCAGCAGATGTCATTCCAGCCTTGGTCCTGAAAATCATTATGAATTATA
1 CTCTGTGATGCTTTCAGCAGCAGATGTCATTCCAGCCTTGGTCCTGAAAATCATTATGAATTATA
*
5377 CACGACATAAAACAGCGCAAAATGAAGAACATAG
66 CACGACATAAAACAGAGCAAAATGAAGAACATAG
5411 CTCTGTGATGCTTTCAGCAGCAGATGTCATTCCAGCCTTGGTCCTGAAAATCATTATGAATTATA
1 CTCTGTGATGCTTTCAGCAGCAGATGTCATTCCAGCCTTGGTCCTGAAAATCATTATGAATTATA
5476 CACGACATAAAACAGAGCAAAATGAAGAACATAG
66 CACGACATAAAACAGAGCAAAATGAAGAACATAG
5510 ATCTATTGAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (99 bp):
CTCTGTGATGCTTTCAGCAGCAGATGTCATTCCAGCCTTGGTCCTGAAAATCATTATGAATTATA
CACGACATAAAACAGAGCAAAATGAAGAACATAG
Found at i:16889 original size:13 final size:13
Alignment explanation
Indices: 16871--16898 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16861 TTTAAATATA
16871 ATAAATATGATTT
1 ATAAATATGATTT
16884 ATAAATATGATTT
1 ATAAATATGATTT
16897 AT
1 AT
16899 GAGGCTATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAATATGATTT
Done.