Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020442.1 Corchorus olitorius cultivar O-4 contig20475, 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: 4935
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31


Found at i:697 original size:18 final size:19

Alignment explanation


    Indices: 657--696  Score: 55
    Period size: 19  Copynumber: 2.1  Consensus size: 19

        647 ATAGCTTAGC

                      *        
        657 AAAGCCCAATGAGAAATTA
          1 AAAGCCCAATCAGAAATTA

                                
        676 AAAGCCCAA-CAGAAAGTTA
          1 AAAGCCCAATCAGAAA-TTA

              
        695 AA
          1 AA

        697 GTCTACTCAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  18    5  0.26
  19   14  0.74

ACGTcount: A:0.55, C:0.17, G:0.15, T:0.12


Consensus pattern (19 bp):   
AAAGCCCAATCAGAAATTA

Found at i:3937 original size:15 final size:16

Alignment explanation


    Indices: 3917--3946  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       3907 TGTAAGTTTA

                            
       3917 TCAAAA-ATCAATTTT
          1 TCAAAAGATCAATTTT

                           
       3932 TCAAAAGATCAATTT
          1 TCAAAAGATCAATTT

       3947 GAACTCACAC


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    6  0.43
  16    8  0.57

ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37


Consensus pattern (16 bp):   
TCAAAAGATCAATTTT

Done.