Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022876.1 Corchorus olitorius cultivar O-4 contig22909, 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: 3293
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24


Found at i:205 original size:44 final size:44

Alignment explanation


    Indices: 139--224  Score: 145
    Period size: 44  Copynumber: 2.0  Consensus size: 44

        129 CTAAACCTAC

                   *                                    
        139 TGACCAACGTATCAAGGCTCAATTACTAATTGAGATCATGTAAA
          1 TGACCAAAGTATCAAGGCTCAATTACTAATTGAGATCATGTAAA

                         *   *                        
        183 TGACCAAAGTATCGAGGTTCAATTACTAATTGAGATCATGTA
          1 TGACCAAAGTATCAAGGCTCAATTACTAATTGAGATCATGTA

        225 GATGCAAATG


Statistics
Matches: 39,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  44   39  1.00

ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29


Consensus pattern (44 bp):   
TGACCAAAGTATCAAGGCTCAATTACTAATTGAGATCATGTAAA

Found at i:1488 original size:21 final size:21

Alignment explanation


    Indices: 1460--1511  Score: 61
    Period size: 21  Copynumber: 2.5  Consensus size: 21

       1450 TTCAGCAATT

                           **    
       1460 AAGA-GAGGAAATCAGGCGCA
          1 AAGATGAGGAAATCAAACGCA

                       *         
       1480 AAGATGAGGAACTCAAACGCA
          1 AAGATGAGGAAATCAAACGCA

            *          
       1501 GAGATGAGGAA
          1 AAGATGAGGAA

       1512 GCACGACGCC


Statistics
Matches: 27,  Mismatches: 4, Indels: 1
        0.84            0.12        0.03

Matches are distributed among these distances:
  20    4  0.15
  21   23  0.85

ACGTcount: A:0.46, C:0.13, G:0.33, T:0.08


Consensus pattern (21 bp):   
AAGATGAGGAAATCAAACGCA
Done.