Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012694.1 Corchorus olitorius cultivar O-4 contig12727, 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: 17961
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29


Found at i:21 original size:2 final size:2

Alignment explanation


    Indices: 16--51  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

          6 ACACACACAC

                                                                 
         16 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

         52 TAAAGAAAAG


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:13431 original size:12 final size:12

Alignment explanation


    Indices: 13414--13442  Score: 58
    Period size: 12  Copynumber: 2.4  Consensus size: 12

      13404 TTGATATCAA

                        
      13414 GGTTTACAACTT
          1 GGTTTACAACTT

                        
      13426 GGTTTACAACTT
          1 GGTTTACAACTT

                 
      13438 GGTTT
          1 GGTTT

      13443 CAGGTATTTG


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   17  1.00

ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45


Consensus pattern (12 bp):   
GGTTTACAACTT

Found at i:17869 original size:23 final size:23

Alignment explanation


    Indices: 17831--17874  Score: 61
    Period size: 23  Copynumber: 1.9  Consensus size: 23

      17821 TCATCCTCCC

                   *   *           
      17831 TTTCATCTTTCTTTTTCTTTTCA
          1 TTTCATCATTCATTTTCTTTTCA

                            *    
      17854 TTTCATCATTCATTTTTTTTT
          1 TTTCATCATTCATTTTCTTTT

      17875 TGGGCCTAAG


Statistics
Matches: 18,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  23   18  1.00

ACGTcount: A:0.11, C:0.18, G:0.00, T:0.70


Consensus pattern (23 bp):   
TTTCATCATTCATTTTCTTTTCA
Done.