Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022186.1 Corchorus olitorius cultivar O-4 contig22219, 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: 10557
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30


Found at i:5105 original size:21 final size:21

Alignment explanation


    Indices: 5079--5149  Score: 117
    Period size: 21  Copynumber: 3.4  Consensus size: 21

       5069 TGCTAGGAGA

                                  
       5079 TCATTGGAGCAA-GTTCCAAGC
          1 TCATTGGAG-AAGGTTCCAAGC

                                 
       5100 TCATTGGAGAAGGTTCCAAGC
          1 TCATTGGAGAAGGTTCCAAGC

                           *     
       5121 TCATTGGAGAAGGTTTCAAGC
          1 TCATTGGAGAAGGTTCCAAGC

                    
       5142 TCATTGGA
          1 TCATTGGA

       5150 ATTGCCTAAG


Statistics
Matches: 48,  Mismatches: 1, Indels: 2
        0.94            0.02        0.04

Matches are distributed among these distances:
  20    2  0.04
  21   46  0.96

ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27


Consensus pattern (21 bp):   
TCATTGGAGAAGGTTCCAAGC

Found at i:9631 original size:21 final size:21

Alignment explanation


    Indices: 9607--9647  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       9597 TTCGACAGGC

                *                
       9607 CAACTTCTGGGCAGAAGTTGA
          1 CAACATCTGGGCAGAAGTTGA

                        *       
       9628 CAACATCTGGGCCGAAGTTG
          1 CAACATCTGGGCAGAAGTTG

       9648 TCCTGTATTT


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22


Consensus pattern (21 bp):   
CAACATCTGGGCAGAAGTTGA
Done.