Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01001286.1 Corchorus capsularis cultivar CVL-1 contig01286, 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, 610
Length: 1018
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:493 original size:17 final size:17
Alignment explanation
Indices: 471--514 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
461 ATCATATATA
471 ATATATAATGTATTATC
1 ATATATAATGTATTATC
488 ATATATAATGTATTATC
1 ATATATAATGTATTATC
505 ATATATAATG
1 ATATATAATG
515 AACGGATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (17 bp):
ATATATAATGTATTATC
Found at i:757 original size:66 final size:64
Alignment explanation
Indices: 647--773 Score: 200
Period size: 66 Copynumber: 2.0 Consensus size: 64
637 AGTCAATTGA
*
647 TTTTTAATCCAATGACTATTCATCTATTGTACTTTCATGTAAATAAAGGTAAGAAAGCTCTTTT
1 TTTTTAATCCAATGACTATTCATCTATTGTACTTTCATGTAAATAAAGGTAAGAAAACTCTTTT
* **
711 TTTTTGAATCCAATGATTATTCATTCTATTGTACTTTTGTGTAAATAAAGGTAAGAAAACTCT
1 TTTTT-AATCCAATGACTATTCA-TCTATTGTACTTTCATGTAAATAAAGGTAAGAAAACTCT
774 ATGGAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
64 5 0.09
65 16 0.28
66 36 0.63
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (64 bp):
TTTTTAATCCAATGACTATTCATCTATTGTACTTTCATGTAAATAAAGGTAAGAAAACTCTTTT
Done.