Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017677.1 Corchorus olitorius cultivar O-4 contig17710, 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, 609

Length: 1016
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27


Found at i:215 original size:29 final size:31

Alignment explanation


    Indices: 150--207  Score: 84
    Period size: 29  Copynumber: 1.9  Consensus size: 31

        140 TTTTTTTTTC

                                    *      
        150 AAAAACGCAACAACAAAAAATTAAGAACGCA
          1 AAAAACGCAACAACAAAAAATTAAAAACGCA

                           *             
        181 AAAAACGC-A-AACACAAAATTAAAAACG
          1 AAAAACGCAACAACAAAAAATTAAAAACG

        208 GACAAAACAA


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  29   16  0.64
  30    1  0.04
  31    8  0.32

ACGTcount: A:0.66, C:0.19, G:0.09, T:0.07


Consensus pattern (31 bp):   
AAAAACGCAACAACAAAAAATTAAAAACGCA

Found at i:594 original size:16 final size:15

Alignment explanation


    Indices: 556--597  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        546 ACAGAGATTG

                   *       
        556 ACAGAAAGCAATTAA
          1 ACAGAAAACAATTAA

                           
        571 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
        586 ACTAGAAAACAA
          1 AC-AGAAAACAA

        598 AGCAAAGCAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.64, C:0.14, G:0.10, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA
Done.