Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01002082.1 Corchorus olitorius cultivar O-4 contig02082, 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, 682
Length: 1137
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Found at i:897 original size:57 final size:56
Alignment explanation
Indices: 807--921 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 56
797 TATCTGTTTC
* *
807 CTTTCACACAATAAATATTATAATAAATTCTATCCCCTCTATCTCTACTTAATTATT
1 CTTTCACACAATAAATATTATAATAAATCCTATCCCC-CTATCTCTACATAATTATT
864 CTTTCACACAATAAATATTATAATAAATCCTATCCCCCTATCTCTACATAATTATT
1 CTTTCACACAATAAATATTATAATAAATCCTATCCCCCTATCTCTACATAATTATT
920 CT
1 CT
922 ACAAAATAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 20 0.36
57 36 0.64
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (56 bp):
CTTTCACACAATAAATATTATAATAAATCCTATCCCCCTATCTCTACATAATTATT
Found at i:1046 original size:42 final size:42
Alignment explanation
Indices: 987--1067 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
977 TGAGGATCAA
* *
987 GATTTGAGTTGAGTATTTCTTAGTTTACAAATAATTTTCTAT
1 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTAT
1029 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTC
1 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTC
1068 AAGACTTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (42 bp):
GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTAT
Done.