Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006401.1 Corchorus olitorius cultivar O-4 contig06426, 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, 933

Length: 1556
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35


Found at i:907 original size:19 final size:18

Alignment explanation


    Indices: 878--913  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

        868 ATCTAACTTA

                              
        878 TTTTTATTTTTATTTTAG
          1 TTTTTATTTTTATTTTAG

                        *     
        896 TTTTTATGTTTTCTTTTA
          1 TTTTTAT-TTTTATTTTA

        914 ATTTAATTCT


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.14, C:0.03, G:0.06, T:0.78


Consensus pattern (18 bp):   
TTTTTATTTTTATTTTAG

Found at i:1225 original size:26 final size:26

Alignment explanation


    Indices: 1182--1239  Score: 73
    Period size: 26  Copynumber: 2.2  Consensus size: 26

       1172 AAAAAAAAAA

                              *       
       1182 TTGCATTTTTGCATTTTTGTTTATGT
          1 TTGCATTTTTGCATTTTTCTTTATGT

                       *           *   
       1208 TTGCATATTTTTCA-TTTTCTTTTTGT
          1 TTGCAT-TTTTGCATTTTTCTTTATGT

                  
       1234 TTGCAT
          1 TTGCAT

       1240 GCATTGCATT


Statistics
Matches: 28,  Mismatches: 3, Indels: 2
        0.85            0.09        0.06

Matches are distributed among these distances:
  26   22  0.79
  27    6  0.21

ACGTcount: A:0.12, C:0.10, G:0.12, T:0.66


Consensus pattern (26 bp):   
TTGCATTTTTGCATTTTTCTTTATGT
Done.