Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020138.1 Corchorus olitorius cultivar O-4 contig20171, 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: 4798
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32


Found at i:2869 original size:30 final size:29

Alignment explanation


    Indices: 2826--2882  Score: 89
    Period size: 30  Copynumber: 1.9  Consensus size: 29

       2816 TTAGGATTAG

                                         
       2826 TTATTTATGCTTTAATTTTCAA-TTTCCT
          1 TTATTTATGCTTTAATTTTCAAGTTTCCT

                                         
       2854 TTATCTTATGTCTTTAATTTTCAAGTTTC
          1 TTAT-TTATG-CTTTAATTTTCAAGTTTC

       2883 ATTAATAAAC


Statistics
Matches: 26,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
  28    4  0.15
  29    5  0.19
  30   13  0.50
  31    4  0.15

ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60


Consensus pattern (29 bp):   
TTATTTATGCTTTAATTTTCAAGTTTCCT

Found at i:4421 original size:19 final size:18

Alignment explanation


    Indices: 4397--4432  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       4387 TGAAGACTTA

                               
       4397 TTGAAGACAATTTGAAGAT
          1 TTGAAGACAA-TTGAAGAT

                    *        
       4416 TTGAAGACCATTGAAGA
          1 TTGAAGACAATTGAAGA

       4433 ATTATTTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28


Consensus pattern (18 bp):   
TTGAAGACAATTGAAGAT
Done.