Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018090.1 Corchorus olitorius cultivar O-4 contig18123, 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: 13221
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32


Found at i:2997 original size:20 final size:20

Alignment explanation


    Indices: 2972--3012  Score: 66
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       2962 ACTCTTTTAA

                                 
       2972 ATTAATTAT-TATTATTATTT
          1 ATTAATT-TCTATTATTATTT

                                
       2992 ATTAATTTCTATTATTATTT
          1 ATTAATTTCTATTATTATTT

             
       3012 A
          1 A

       3013 CATGAAAGCT


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  19    1  0.05
  20   19  0.95

ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63


Consensus pattern (20 bp):   
ATTAATTTCTATTATTATTT

Found at i:8853 original size:27 final size:27

Alignment explanation


    Indices: 8815--8879  Score: 94
    Period size: 27  Copynumber: 2.4  Consensus size: 27

       8805 ACAAAATGTC

                        *         *    
       8815 ATCTAAATCAATTACAAAATATGACCA
          1 ATCTAAATCAATCACAAAATATAACCA

                                       
       8842 ATCTAAATCAATCACAAAATATAACCA
          1 ATCTAAATCAATCACAAAATATAACCA

             **        
       8869 AAATAAATCAA
          1 ATCTAAATCAA

       8880 GCAGATTTCT


Statistics
Matches: 34,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  27   34  1.00

ACGTcount: A:0.57, C:0.18, G:0.02, T:0.23


Consensus pattern (27 bp):   
ATCTAAATCAATCACAAAATATAACCA
Done.