Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022265.1 Corchorus olitorius cultivar O-4 contig22298, 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: 3553
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33


Found at i:763 original size:21 final size:21

Alignment explanation


    Indices: 737--828  Score: 141
    Period size: 21  Copynumber: 4.4  Consensus size: 21

        727 TGCTAGAAGT

                                  
        737 TCATTGGAGCAA-GTTCCAAGC
          1 TCATTGGAG-AAGGTTCCAAGC

                                *
        758 TCATTGGAGAAGGTTCCAAGT
          1 TCATTGGAGAAGGTTCCAAGC

                                *
        779 TCATTGGAGAAGGTTCCAAGA
          1 TCATTGGAGAAGGTTCCAAGC

                           *     
        800 TCATTGGAGAAGGTTTCAAGC
          1 TCATTGGAGAAGGTTCCAAGC

                    
        821 TCATTGGA
          1 TCATTGGA

        829 ATTGCCTAAG


Statistics
Matches: 66,  Mismatches: 4, Indels: 2
        0.92            0.06        0.03

Matches are distributed among these distances:
  20    2  0.03
  21   64  0.97

ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27


Consensus pattern (21 bp):   
TCATTGGAGAAGGTTCCAAGC

Found at i:966 original size:20 final size:21

Alignment explanation


    Indices: 943--985  Score: 61
    Period size: 21  Copynumber: 2.1  Consensus size: 21

        933 ATCTTGAAGA

                                 
        943 ATTTAAAG-CCATCGGAGATC
          1 ATTTAAAGCCCATCGGAGATC

                *        *       
        963 ATTTGAAGCCCATTGGAGATC
          1 ATTTAAAGCCCATCGGAGATC

              
        984 AT
          1 AT

        986 CAACAAAGGA


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  20    7  0.35
  21   13  0.65

ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28


Consensus pattern (21 bp):   
ATTTAAAGCCCATCGGAGATC

Done.