Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000366.1 Corchorus olitorius cultivar O-4 contig00366, 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, 668

Length: 1114
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38


Found at i:290 original size:69 final size:68

Alignment explanation


    Indices: 171--308  Score: 231
    Period size: 69  Copynumber: 2.0  Consensus size: 68

        161 TGTTATGAGA

                                                  *      *           *       
        171 TTTCAATTGTATTTGTTGAGGAAGGGGTTTGTTTGTTGGCTCATAGATTAGCGTTTCGGTAATGT
          1 TTTCAATTGTATTTGTTGAGGAAGGGGTTTGTTTGTTGCCTCATAAATTAGCGTTTCAGTAATGT

               
        236 AGC
         66 AGC

                              *                                              
        239 TTTCAATTGTATTTGTTGGGGAAGGGGGTTTGTTTGTTGCCTCATAAATTAGCGTTTCAGTAATG
          1 TTTCAATTGTATTTGTTGAGGAA-GGGGTTTGTTTGTTGCCTCATAAATTAGCGTTTCAGTAATG

                
        304 TAGC
         65 TAGC

             
        308 T
          1 T

        309 AATTATGTAG


Statistics
Matches: 65,  Mismatches: 4, Indels: 1
        0.93            0.06        0.01

Matches are distributed among these distances:
  68   22  0.34
  69   43  0.66

ACGTcount: A:0.20, C:0.09, G:0.28, T:0.43


Consensus pattern (68 bp):   
TTTCAATTGTATTTGTTGAGGAAGGGGTTTGTTTGTTGCCTCATAAATTAGCGTTTCAGTAATGT
AGC
Done.