Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019178.1 Corchorus olitorius cultivar O-4 contig19211, 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: 2077
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33


Found at i:550 original size:2 final size:2

Alignment explanation


    Indices: 543--579  Score: 65
    Period size: 2  Copynumber: 18.5  Consensus size: 2

        533 CCAAGAATAC

                                  *                                
        543 AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

        580 ACTTTCATGT


Statistics
Matches: 33,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   2   33  1.00

ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46


Consensus pattern (2 bp):   
AT

Found at i:1728 original size:19 final size:18

Alignment explanation


    Indices: 1704--1739  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       1694 TGAAGACTTA

                               
       1704 TTGAAGACAATTTGAAGAT
          1 TTGAAGACAA-TTGAAGAT

                    *        
       1723 TTGAAGACCATTGAAGA
          1 TTGAAGACAATTGAAGA

       1740 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.