Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018982.1 Corchorus olitorius cultivar O-4 contig19015, 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: 2453
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28


Found at i:448 original size:22 final size:23

Alignment explanation


    Indices: 410--454  Score: 74
    Period size: 22  Copynumber: 2.0  Consensus size: 23

        400 GTAACTAAAG

                                   
        410 AAAGAAATAAAACAAAAAAATAA
          1 AAAGAAATAAAACAAAAAAATAA

                        *          
        433 AAAGAAA-AAAAGAAAAAAATAA
          1 AAAGAAATAAAACAAAAAAATAA

        455 CGAAAATAAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  22   14  0.67
  23    7  0.33

ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07


Consensus pattern (23 bp):   
AAAGAAATAAAACAAAAAAATAA

Found at i:465 original size:22 final size:21

Alignment explanation


    Indices: 414--465  Score: 59
    Period size: 22  Copynumber: 2.4  Consensus size: 21

        404 CTAAAGAAAG

                                 
        414 AAATAAAACAAAAAAATAAAA
          1 AAATAAAACAAAAAAATAAAA

                *    *           * 
        435 AGAAAAAAAGAAAAAAATAACGA
          1 A-AATAAAACAAAAAAATAA-AA

                    
        458 AAATAAAA
          1 AAATAAAA

        466 AGATAAGGGT


Statistics
Matches: 25,  Mismatches: 4, Indels: 3
        0.78            0.12        0.09

Matches are distributed among these distances:
  21    1  0.04
  22   22  0.88
  23    2  0.08

ACGTcount: A:0.83, C:0.04, G:0.06, T:0.08


Consensus pattern (21 bp):   
AAATAAAACAAAAAAATAAAA
Done.