Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010192.1 Corchorus olitorius cultivar O-4 contig10224, 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: 3942
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31


Found at i:152 original size:11 final size:11

Alignment explanation


    Indices: 109--146  Score: 51
    Period size: 11  Copynumber: 3.5  Consensus size: 11

         99 CTCCTATATA

                *      
        109 AAATAAATTAT
          1 AAATTAATTAT

                        
        120 CAAA-TAATTAT
          1 -AAATTAATTAT

                       
        131 AAATTAATTAT
          1 AAATTAATTAT

                 
        142 AAATT
          1 AAATT

        147 TGTTATGCAT


Statistics
Matches: 24,  Mismatches: 1, Indels: 3
        0.86            0.04        0.11

Matches are distributed among these distances:
  10    3  0.12
  11   18  0.75
  12    3  0.12

ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39


Consensus pattern (11 bp):   
AAATTAATTAT

Found at i:173 original size:38 final size:38

Alignment explanation


    Indices: 130--206  Score: 145
    Period size: 38  Copynumber: 2.0  Consensus size: 38

        120 CAAATAATTA

                                    *             
        130 TAAATTAATTATAAATTTGTTATGCATATACATGTATG
          1 TAAATTAATTATAAATTTGTTATGAATATACATGTATG

                                                  
        168 TAAATTAATTATAAATTTGTTATGAATATACATGTATG
          1 TAAATTAATTATAAATTTGTTATGAATATACATGTATG

             
        206 T
          1 T

        207 TGTGGATGTC


Statistics
Matches: 38,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  38   38  1.00

ACGTcount: A:0.40, C:0.04, G:0.10, T:0.45


Consensus pattern (38 bp):   
TAAATTAATTATAAATTTGTTATGAATATACATGTATG

Done.