Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016255.1 Corchorus capsularis cultivar CVL-1 contig16276, 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: 13362
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:4924 original size:9 final size:8

Alignment explanation


    Indices: 4890--4923  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

       4880 GAATCGGCTA

                    
       4890 TGAATTTT
          1 TGAATTTT

                    *
       4898 TGAAGTTTC
          1 TGAA-TTTT

                    
       4907 TGAATTTT
          1 TGAATTTT

                    
       4915 TGAATTTT
          1 TGAATTTT

             
       4923 T
          1 T

       4924 TCAAGAAGGT


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   8   16  0.70
   9    7  0.30

ACGTcount: A:0.24, C:0.03, G:0.15, T:0.59


Consensus pattern (8 bp):   
TGAATTTT

Found at i:8416 original size:30 final size:30

Alignment explanation


    Indices: 8347--8417  Score: 81
    Period size: 30  Copynumber: 2.4  Consensus size: 30

       8337 GATGCCATCG

                           *        **   *
       8347 CACAAGACCGGCCATTGCATGGAGGGATCG
          1 CACAAGACCGGCCATGGCATGGAGCAATCC

                *                          
       8377 CACATGACCGGCCATGGCATGG-GCCAATCC
          1 CACAAGACCGGCCATGGCATGGAG-CAATCC

                       
       8407 CACAAGACCGG
          1 CACAAGACCGG

       8418 GCACAACCCG


Statistics
Matches: 34,  Mismatches: 6, Indels: 2
        0.81            0.14        0.05

Matches are distributed among these distances:
  29    1  0.03
  30   33  0.97

ACGTcount: A:0.27, C:0.32, G:0.30, T:0.11


Consensus pattern (30 bp):   
CACAAGACCGGCCATGGCATGGAGCAATCC
Done.