Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000543.1 Corchorus capsularis cultivar CVL-1 contig00543, 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, 813

Length: 1356
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30


Found at i:633 original size:5 final size:5

Alignment explanation


    Indices: 623--657  Score: 54
    Period size: 5  Copynumber: 7.0  Consensus size: 5

        613 TCTGGTCGAA

                                                      
        623 ATTTT ATTTT ATTTT ATTTT ATTTT -TTTAT ATTTT
          1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT-T ATTTT

        658 TCGATATAAC


Statistics
Matches: 28,  Mismatches: 0, Indels: 4
        0.88            0.00        0.12

Matches are distributed among these distances:
   4    3  0.11
   5   22  0.79
   6    3  0.11

ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80


Consensus pattern (5 bp):   
ATTTT

Found at i:759 original size:8 final size:8

Alignment explanation


    Indices: 731--764  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

        721 GAATCGGCTA

                    
        731 TGAATTTT
          1 TGAATTTT

                    *
        739 TGAAGTTTC
          1 TGAA-TTTT

                    
        748 TGAATTTT
          1 TGAATTTT

                    
        756 TGAATTTT
          1 TGAATTTT

             
        764 T
          1 T

        765 CAAGAAGGTG


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
Done.