Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005882.1 Corchorus olitorius cultivar O-4 contig05907, 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, 743

Length: 1239
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28


Found at i:701 original size:25 final size:26

Alignment explanation


    Indices: 665--716  Score: 79
    Period size: 25  Copynumber: 2.0  Consensus size: 26

        655 CAGAAGTACC

                             * *      
        665 GAAAAAGAAAAGAAAAAGGGAAAAAG
          1 GAAAAAGAAAAGAAAAACGCAAAAAG

                                      
        691 GAAAAAG-AAAGAAAAACGCAAAAAG
          1 GAAAAAGAAAAGAAAAACGCAAAAAG

             
        716 G
          1 G

        717 CAATAATGTT


Statistics
Matches: 24,  Mismatches: 2, Indels: 1
        0.89            0.07        0.04

Matches are distributed among these distances:
  25   17  0.71
  26    7  0.29

ACGTcount: A:0.71, C:0.04, G:0.25, T:0.00


Consensus pattern (26 bp):   
GAAAAAGAAAAGAAAAACGCAAAAAG

Found at i:714 original size:26 final size:26

Alignment explanation


    Indices: 665--714  Score: 66
    Period size: 26  Copynumber: 1.9  Consensus size: 26

        655 CAGAAGTACC

                              **      
        665 GAAAAAGAAAAGAAAAAGGGAAAAAG
          1 GAAAAAGAAAAGAAAAAGCAAAAAAG

                                     
        691 GAAAAAG-AAAGAAAAACGCAAAAA
          1 GAAAAAGAAAAGAAAAA-GCAAAAA

        715 GGCAATAATG


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  25    9  0.43
  26   12  0.57

ACGTcount: A:0.74, C:0.04, G:0.22, T:0.00


Consensus pattern (26 bp):   
GAAAAAGAAAAGAAAAAGCAAAAAAG
Done.