Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005372.1 Corchorus olitorius cultivar O-4 contig05396, 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, 669

Length: 1116
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37


Found at i:767 original size:19 final size:19

Alignment explanation


    Indices: 743--781  Score: 53
    Period size: 19  Copynumber: 2.1  Consensus size: 19

        733 GAATAAGAAC

                            *   
        743 AATTTCTTCCC-TTCTTCAT
          1 AATTTC-TCCCATTCTCCAT

                               
        762 AATTTCTCCCATTCTCCAT
          1 AATTTCTCCCATTCTCCAT

             
        781 A
          1 A

        782 TTCTATTGTC


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  18    4  0.22
  19   14  0.78

ACGTcount: A:0.21, C:0.33, G:0.00, T:0.46


Consensus pattern (19 bp):   
AATTTCTCCCATTCTCCAT

Found at i:933 original size:50 final size:50

Alignment explanation


    Indices: 858--953  Score: 174
    Period size: 50  Copynumber: 1.9  Consensus size: 50

        848 CAAAATTTCA

                            **                                
        858 TTTCTTAACTGAATTTTTTTAAAATAATTTATAAAATAAAACAGCCGCGC
          1 TTTCTTAACTGAATTTACTTAAAATAATTTATAAAATAAAACAGCCGCGC

                                                          
        908 TTTCTTAACTGAATTTACTTAAAATAATTTATAAAATAAAACAGCC
          1 TTTCTTAACTGAATTTACTTAAAATAATTTATAAAATAAAACAGCC

        954 ACACGCGAAG


Statistics
Matches: 44,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  50   44  1.00

ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38


Consensus pattern (50 bp):   
TTTCTTAACTGAATTTACTTAAAATAATTTATAAAATAAAACAGCCGCGC
Done.