Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013483.1 Corchorus olitorius cultivar O-4 contig13516, 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: 4918
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32


Found at i:1034 original size:56 final size:55

Alignment explanation


    Indices: 967--1076  Score: 193
    Period size: 56  Copynumber: 2.0  Consensus size: 55

        957 TGTGTTTCCT

                                *                                   
        967 TTTCACACAATAAATGTTATGATAAATCCTATCCCCCTATCTCTACTTAATTATTC
          1 TTTCACACAATAAATGTTATAATAAATCCTAT-CCCCTATCTCTACTTAATTATTC

                                                   *              
       1023 TTTCACACAATAAATGTTATAATAAATCCTATCCCCTATTTCTACTTAATTATT
          1 TTTCACACAATAAATGTTATAATAAATCCTATCCCCTATCTCTACTTAATTATT

       1077 TTACAAAATA


Statistics
Matches: 52,  Mismatches: 2, Indels: 1
        0.95            0.04        0.02

Matches are distributed among these distances:
  55   21  0.40
  56   31  0.60

ACGTcount: A:0.34, C:0.23, G:0.03, T:0.41


Consensus pattern (55 bp):   
TTTCACACAATAAATGTTATAATAAATCCTATCCCCTATCTCTACTTAATTATTC

Found at i:1221 original size:43 final size:42

Alignment explanation


    Indices: 1143--1224  Score: 137
    Period size: 43  Copynumber: 1.9  Consensus size: 42

       1133 TAAGGATCAG

                                                      
       1143 GATTTGAGTTGAGTATTGCTTAATTTACAAAGAATTTTCTAT
          1 GATTTGAGTTGAGTATTGCTTAATTTACAAAGAATTTTCTAT

                              **                    
       1185 GATTTGAGTTGAGTATTTTTTTAATTTACAAAGAATTTTC
          1 GATTTGAGTTGAGTA-TTGCTTAATTTACAAAGAATTTTC

       1225 AAGACTTAGC


Statistics
Matches: 37,  Mismatches: 2, Indels: 1
        0.93            0.05        0.03

Matches are distributed among these distances:
  42   15  0.41
  43   22  0.59

ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48


Consensus pattern (42 bp):   
GATTTGAGTTGAGTATTGCTTAATTTACAAAGAATTTTCTAT
Done.