Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023545.1 Corchorus olitorius cultivar O-4 contig23578, 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: 14123
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32


Found at i:1656 original size:45 final size:45

Alignment explanation


    Indices: 1602--1698  Score: 142
    Period size: 45  Copynumber: 2.2  Consensus size: 45

       1592 AATGCATTAC

                       *              *        *         
       1602 CTAA-ATTCTAGTACTCCATCTCTAGGTAATTCATTAAAATAAAG
          1 CTAATATTCTACTACTCCATCTCTAGATAATTCATCAAAATAAAG

                         *              *                
       1646 CTAATATTCTACTGCTCCATCTCTAGATGATTCATCAAAATAAAG
          1 CTAATATTCTACTACTCCATCTCTAGATAATTCATCAAAATAAAG

                    
       1691 CTAATATT
          1 CTAATATT

       1699 AATTGTTGCT


Statistics
Matches: 47,  Mismatches: 5, Indels: 1
        0.89            0.09        0.02

Matches are distributed among these distances:
  44    4  0.09
  45   43  0.91

ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35


Consensus pattern (45 bp):   
CTAATATTCTACTACTCCATCTCTAGATAATTCATCAAAATAAAG

Found at i:12445 original size:17 final size:17

Alignment explanation


    Indices: 12423--12455  Score: 57
    Period size: 17  Copynumber: 1.9  Consensus size: 17

      12413 ATACATAGAG

                             
      12423 CTATCTAGTGTAACAAA
          1 CTATCTAGTGTAACAAA

                  *         
      12440 CTATCTGGTGTAACAA
          1 CTATCTAGTGTAACAA

      12456 CTTTACAAAT


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30


Consensus pattern (17 bp):   
CTATCTAGTGTAACAAA
Done.