Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013950.1 Corchorus olitorius cultivar O-4 contig13983, 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: 3886
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Found at i:2080 original size:169 final size:170
Alignment explanation
Indices: 1797--2137 Score: 503
Period size: 169 Copynumber: 2.0 Consensus size: 170
1787 AGACTACGGC
*
1797 ACTTCTTTATTAATTTTTACTTTTAAAATAAATTAATTATACTTTTTTTTCTCTCTATATATTCA
1 ACTTCTTTATTAATTTTTACTTTTAAAAGAAATTAATTATACTTTTTTTTCTCTCTATATATTCA
1862 TGTTTCTTGCAAATATTAAGTTAACAAGAACAATAAAAGCAAAACTTTATGCCAAAGACACCCCA
66 TGTTTCTTGC-AATA-TAAGTTAACAAGAACAATAAAAGCAAAACTTTATGCCAAAGACACCCCA
* * *
1927 TTTGGATAAGTCATAACATATACATCATTTATCTATCCATCT
129 TTTGAATAAGTCATAACATATACAACATCTATCTATCCATCT
*
1969 ACTTCTTTATTAA-TTTTACTTTTTTTAAAGAAATTAATTATACTTTTCTTTT-TCTCTATATAT
1 ACTTCTTTATTAATTTTTAC--TTTTAAAAGAAATTAATTATACTTTT-TTTTCTCTCTATATAT
* * *
2032 TCGTGTTTTTTTGC-ATA-CA-TTAACAAGAACAATAAAAGCAAAACTTTATGCCAAAGACACCC
63 TCATG-TTTCTTGCAATATAAGTTAACAAGAACAATAAAAGCAAAACTTTATGCCAAAGACACCC
* *
2094 CATTTGAATAAGTCATAACATATACAACATCTATTTATCTATCT
127 CATTTGAATAAGTCATAACATATACAACATCTATCTATCCATCT
2138 CTCTCTCCAT
Statistics
Matches: 155, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
169 82 0.53
170 1 0.01
171 6 0.04
172 16 0.10
173 39 0.25
174 11 0.07
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (170 bp):
ACTTCTTTATTAATTTTTACTTTTAAAAGAAATTAATTATACTTTTTTTTCTCTCTATATATTCA
TGTTTCTTGCAATATAAGTTAACAAGAACAATAAAAGCAAAACTTTATGCCAAAGACACCCCATT
TGAATAAGTCATAACATATACAACATCTATCTATCCATCT
Done.