Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015084.1 Corchorus olitorius cultivar O-4 contig15117, 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: 5272
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36


Found at i:2524 original size:32 final size:32

Alignment explanation


    Indices: 2488--2552  Score: 96
    Period size: 32  Copynumber: 2.0  Consensus size: 32

       2478 TTTTCTTTAG

                       *                     
       2488 TTTTGTTTTTATTTTTTGTATTT-TGTTTTTGT
          1 TTTTGTTTTT-GTTTTTGTATTTGTGTTTTTGT

                              *             
       2520 TTTTGTTTTTGTTTTTGTTTTTGTGTTTTTGT
          1 TTTTGTTTTTGTTTTTGTATTTGTGTTTTTGT

             
       2552 T
          1 T

       2553 AATTTTGCAA


Statistics
Matches: 30,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  31   10  0.33
  32   20  0.67

ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82


Consensus pattern (32 bp):   
TTTTGTTTTTGTTTTTGTATTTGTGTTTTTGT

Found at i:2552 original size:6 final size:6

Alignment explanation


    Indices: 2488--2548  Score: 86
    Period size: 6  Copynumber: 9.7  Consensus size: 6

       2478 TTTTCTTTAG

                        *                                            
       2488 TTTTGT TTTTATT TTTTGT ATTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
          1 TTTTGT TTTT-GT TTTTGT -TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT

                        
       2538 TTTTGT GTTTT
          1 TTTTGT -TTTT

       2549 TGTTAATTTT


Statistics
Matches: 50,  Mismatches: 2, Indels: 5
        0.88            0.04        0.09

Matches are distributed among these distances:
   6   35  0.70
   7   15  0.30

ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82


Consensus pattern (6 bp):   
TTTTGT
Done.