Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008216.1 Corchorus olitorius cultivar O-4 contig08243, 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: 4368
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33


Found at i:4348 original size:19 final size:18

Alignment explanation


    Indices: 4324--4368  Score: 81
    Period size: 19  Copynumber: 2.4  Consensus size: 18

       4314 TGTAATTAGT

                              
       4324 TAATTAGTTTATTAATTG
          1 TAATTAGTTTATTAATTG

                               
       4342 ATAATTAGTTTATTAATTG
          1 -TAATTAGTTTATTAATTG

                    
       4361 TAATTAGT
          1 TAATTAGT


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  18    8  0.31
  19   18  0.69

ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53


Consensus pattern (18 bp):   
TAATTAGTTTATTAATTG

Found at i:4350 original size:27 final size:26

Alignment explanation


    Indices: 4303--4356  Score: 72
    Period size: 27  Copynumber: 2.0  Consensus size: 26

       4293 AAAATAAATG

                    **                
       4303 AGTTTATTTTTTGTAATTAGTTAATT
          1 AGTTTATTAATTGTAATTAGTTAATT

                                   *   
       4329 AGTTTATTAATTGATAATTAGTTTATT
          1 AGTTTATTAATTG-TAATTAGTTAATT

             
       4356 A
          1 A

       4357 ATTGTAATTA


Statistics
Matches: 24,  Mismatches: 3, Indels: 1
        0.86            0.11        0.04

Matches are distributed among these distances:
  26   11  0.46
  27   13  0.54

ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57


Consensus pattern (26 bp):   
AGTTTATTAATTGTAATTAGTTAATT
Done.