Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002216.1 Corchorus olitorius cultivar O-4 contig02216, 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, 628

Length: 1048
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35


Found at i:700 original size:11 final size:13

Alignment explanation


    Indices: 673--716  Score: 56
    Period size: 13  Copynumber: 3.5  Consensus size: 13

        663 ATTTTATTAC

                         
        673 TGTTTTATTAAAT
          1 TGTTTTATTAAAT

                         
        686 TGTTTTA-TAAA-
          1 TGTTTTATTAAAT

                    *     
        697 TGTTTTAACTAAAT
          1 TGTTTT-ATTAAAT

                  
        711 TGTTTT
          1 TGTTTT

        717 GGGTGCATGA


Statistics
Matches: 28,  Mismatches: 0, Indels: 5
        0.85            0.00        0.15

Matches are distributed among these distances:
  11    6  0.21
  12    5  0.18
  13   11  0.39
  14    6  0.21

ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59


Consensus pattern (13 bp):   
TGTTTTATTAAAT

Found at i:715 original size:25 final size:24

Alignment explanation


    Indices: 664--716  Score: 70
    Period size: 24  Copynumber: 2.2  Consensus size: 24

        654 TGAGGAACTA

                  * *       *       
        664 TTTTATTACTGTTTTATTAAATTG
          1 TTTTATAAATGTTTTACTAAATTG

                                     
        688 TTTTATAAATGTTTTAACTAAATTG
          1 TTTTATAAATGTTTT-ACTAAATTG

                
        713 TTTT
          1 TTTT

        717 GGGTGCATGA


Statistics
Matches: 25,  Mismatches: 3, Indels: 1
        0.86            0.10        0.03

Matches are distributed among these distances:
  24   13  0.52
  25   12  0.48

ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60


Consensus pattern (24 bp):   
TTTTATAAATGTTTTACTAAATTG
Done.