Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01005673.1 Corchorus capsularis cultivar CVL-1 contig05691, 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: 8888
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Found at i:1656 original size:43 final size:43
Alignment explanation
Indices: 1595--1683 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
1585 TCTCTGCATC
1595 CTTCGACTCCTTCGTCCTAACCTATTCTTTGTATCTTCTCAAT
1 CTTCGACTCCTTCGTCCTAACCTATTCTTTGTATCTTCTCAAT
1638 CTTCGACTCCTTCGTCCTAACCTATTCTTTGTATCTTCTCAAT
1 CTTCGACTCCTTCGTCCTAACCTATTCTTTGTATCTTCTCAAT
1681 CTT
1 CTT
1684 TTCATTGTCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.16, C:0.33, G:0.07, T:0.45
Consensus pattern (43 bp):
CTTCGACTCCTTCGTCCTAACCTATTCTTTGTATCTTCTCAAT
Found at i:3311 original size:42 final size:42
Alignment explanation
Indices: 3252--3338 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
3242 TCAGATTTTC
3252 AACTTCTAGATTATGAATCTCAAGATAGTAAAGTAGGTGCAT
1 AACTTCTAGATTATGAATCTCAAGATAGTAAAGTAGGTGCAT
3294 AACTTCTAGATTATGAATCTCAAGATAGTAAAGTAGGTGCAT
1 AACTTCTAGATTATGAATCTCAAGATAGTAAAGTAGGTGCAT
3336 AAC
1 AAC
3339 ATGTTTGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (42 bp):
AACTTCTAGATTATGAATCTCAAGATAGTAAAGTAGGTGCAT
Done.