Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000926.1 Corchorus olitorius cultivar O-4 contig00926, 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, 659

Length: 1099
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39


Found at i:902 original size:60 final size:58

Alignment explanation


    Indices: 782--906  Score: 171
    Period size: 60  Copynumber: 2.1  Consensus size: 58

        772 CCTTTCACAC

                                                                   *    
        782 AATAAATGTTATAATAAATCCTATCCCCCTATCTCTACTTAATTATTCTTTTACACAATA
          1 AATAAATGTTATAATAAATCCTATCCCCCTATCTCTACTTAATTATTC--TTACAAAATA

                                *              *                         
        842 AATAAATGTTATAATAAATCTTATTCCCCCCCTATTTCTACTTAATTATTC-TACAAAATA
          1 AATAAATGTTATAATAAATCCTA-T--CCCCCTATCTCTACTTAATTATTCTTACAAAATA

                 
        902 AATAA
          1 AATAA

        907 TATTTTCTTT


Statistics
Matches: 59,  Mismatches: 3, Indels: 6
        0.87            0.04        0.09

Matches are distributed among these distances:
  60   35  0.59
  61    1  0.02
  63   23  0.39

ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39


Consensus pattern (58 bp):   
AATAAATGTTATAATAAATCCTATCCCCCTATCTCTACTTAATTATTCTTACAAAATA

Found at i:1006 original size:42 final size:42

Alignment explanation


    Indices: 959--1039  Score: 146
    Period size: 42  Copynumber: 1.9  Consensus size: 42

        949 TAAGGGTCAG

                                                       
        959 GATTTGAGTTGAGTATTTCTTAATTTACTA-AGAATTTTCTAT
          1 GATTTGAGTTGAGTATTTCTTAATTTAC-AGAGAATTTTCTAT

                                                   
       1001 GATTTGAGTTGAGTATTTCTTAATTTACAGAGAATTTTC
          1 GATTTGAGTTGAGTATTTCTTAATTTACAGAGAATTTTC

       1040 AAGACTTAGC


Statistics
Matches: 38,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
  41    1  0.03
  42   37  0.97

ACGTcount: A:0.28, C:0.07, G:0.16, T:0.48


Consensus pattern (42 bp):   
GATTTGAGTTGAGTATTTCTTAATTTACAGAGAATTTTCTAT
Done.