Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009539.1 Corchorus olitorius cultivar O-4 contig09571, 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: 3290
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34


Found at i:55 original size:33 final size:33

Alignment explanation


    Indices: 13--81  Score: 138
    Period size: 33  Copynumber: 2.1  Consensus size: 33

          3 CCTGACTCTT

                                             
         13 TTGTTCTTCAATTTATGGGAAGAGAGAATTGGA
          1 TTGTTCTTCAATTTATGGGAAGAGAGAATTGGA

                                             
         46 TTGTTCTTCAATTTATGGGAAGAGAGAATTGGA
          1 TTGTTCTTCAATTTATGGGAAGAGAGAATTGGA

               
         79 TTG
          1 TTG

         82 GTTAATTAGT


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  33   36  1.00

ACGTcount: A:0.29, C:0.06, G:0.28, T:0.38


Consensus pattern (33 bp):   
TTGTTCTTCAATTTATGGGAAGAGAGAATTGGA

Found at i:465 original size:18 final size:20

Alignment explanation


    Indices: 431--472  Score: 61
    Period size: 18  Copynumber: 2.2  Consensus size: 20

        421 TGAACAAAGG

                             *  
        431 AATAATATATAATACAAGAT
          1 AATAATATATAATACAAAAT

                                
        451 AATAA-ATAT-ATACAAAAT
          1 AATAATATATAATACAAAAT

                
        469 AATA
          1 AATA

        473 GGACAGAAAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  18   12  0.57
  19    4  0.19
  20    5  0.24

ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29


Consensus pattern (20 bp):   
AATAATATATAATACAAAAT
Done.