Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021351.1 Corchorus olitorius cultivar O-4 contig21384, 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: 20320
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31


Found at i:9800 original size:24 final size:23

Alignment explanation


    Indices: 9718--9800  Score: 66
    Period size: 24  Copynumber: 3.6  Consensus size: 23

       9708 GTTTATCATA

                                      
       9718 ATTATATATTTCAAATAATATAACAT
          1 ATTATATATTT-AAAT-ATAT-ACAT

                                *  
       9744 A--ATATATTT-AATATA-AAAT
          1 ATTATATATTTAAATATATACAT

                *   **             
       9763 ATTAAATAAATAAATATATACAT
          1 ATTATATATTTAAATATATACAT

                           
       9786 ATTATAATATTTAAA
          1 ATTAT-ATATTTAAA

       9801 ATCATCATGT


Statistics
Matches: 44,  Mismatches: 8, Indels: 12
        0.69            0.12        0.19

Matches are distributed among these distances:
  19    4  0.09
  21    8  0.18
  22    9  0.20
  23    7  0.16
  24   15  0.34
  26    1  0.02

ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41


Consensus pattern (23 bp):   
ATTATATATTTAAATATATACAT

Found at i:10620 original size:13 final size:13

Alignment explanation


    Indices: 10602--10626  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

      10592 TGGGCATTCT

                         
      10602 TTATTATTATTTA
          1 TTATTATTATTTA

                        
      10615 TTATTATTATTT
          1 TTATTATTATTT

      10627 GAAAAAAATA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72


Consensus pattern (13 bp):   
TTATTATTATTTA
Done.