Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014832.1 Corchorus olitorius cultivar O-4 contig14865, 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: 11033
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Found at i:8643 original size:17 final size:17
Alignment explanation
Indices: 8587--8650 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 17
8577 ACAAAACTCA
8587 GTTTATTTTTATTTGAT
1 GTTTATTTTTATTTGAT
*
8604 G-TTATTTTT-TTTGTTCAAG
1 GTTTATTTTTATTTG----AT
8623 GTTTATTTTTATTTGAT
1 GTTTATTTTTATTTGAT
8640 GTTTGATTTTT
1 GTTT-ATTTTT
8651 GATCTCAACC
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
15 4 0.11
16 8 0.21
17 6 0.16
18 6 0.16
19 2 0.05
20 8 0.21
21 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.69
Consensus pattern (17 bp):
GTTTATTTTTATTTGAT
Found at i:10134 original size:30 final size:30
Alignment explanation
Indices: 10093--10149 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
10083 AAACCATCTT
*
10093 GAGGGTCAGAGACCAAGCCTGAGGGATTTC
1 GAGGGTCAGAGACCAAGCCAGAGGGATTTC
*
10123 GAGGGTGAGAGACCAAGCCAGAGGGAT
1 GAGGGTCAGAGACCAAGCCAGAGGGAT
10150 CGAGAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.40, T:0.12
Consensus pattern (30 bp):
GAGGGTCAGAGACCAAGCCAGAGGGATTTC
Done.