Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009763.1 Corchorus olitorius cultivar O-4 contig09795, 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: 4040
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34


Found at i:737 original size:29 final size:30

Alignment explanation


    Indices: 690--749  Score: 86
    Period size: 29  Copynumber: 2.0  Consensus size: 30

        680 GAAGTTCATG

                               *      *    
        690 TTTGAAGACTCATTGAAGACTTATTTGAAGA
          1 TTTGAAGAC-CATTGAAGAATTATTTCAAGA

                                          
        721 TTTGAAGA-CATTGAAGAATTATTTCAAGA
          1 TTTGAAGACCATTGAAGAATTATTTCAAGA

        750 GCAAGAATTG


Statistics
Matches: 27,  Mismatches: 2, Indels: 2
        0.87            0.06        0.06

Matches are distributed among these distances:
  29   19  0.70
  31    8  0.30

ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35


Consensus pattern (30 bp):   
TTTGAAGACCATTGAAGAATTATTTCAAGA

Found at i:2439 original size:24 final size:26

Alignment explanation


    Indices: 2395--2445  Score: 88
    Period size: 24  Copynumber: 2.0  Consensus size: 26

       2385 TCTCTAAGTC

                                      
       2395 TCTGCGTTTCTGTTCTAAAAAAAAAT
          1 TCTGCGTTTCTGTTCTAAAAAAAAAT

                                      
       2421 TCTGCGTTT-T-TTCTAAAAAAAAAT
          1 TCTGCGTTTCTGTTCTAAAAAAAAAT

             
       2445 T
          1 T

       2446 GTTGTTTTTG


Statistics
Matches: 25,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
  24   15  0.60
  25    1  0.04
  26    9  0.36

ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41


Consensus pattern (26 bp):   
TCTGCGTTTCTGTTCTAAAAAAAAAT

Done.