Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018405.1 Corchorus olitorius cultivar O-4 contig18438, 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: 6697
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31


Found at i:5246 original size:13 final size:13

Alignment explanation


    Indices: 5228--5252  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       5218 GAAACAGGGT

                         
       5228 ATTAAAATTAACA
          1 ATTAAAATTAACA

                        
       5241 ATTAAAATTAAC
          1 ATTAAAATTAAC

       5253 TAAGAAAACA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32


Consensus pattern (13 bp):   
ATTAAAATTAACA

Found at i:5263 original size:22 final size:22

Alignment explanation


    Indices: 5237--5287  Score: 59
    Period size: 22  Copynumber: 2.3  Consensus size: 22

       5227 TATTAAAATT

                        *          
       5237 AACAATTAAAATTAACT-AAGAA
          1 AACAATTAAAA-AAACTAAAGAA

                  *       *       
       5259 AACAATCAAAAAAATTAAAGAA
          1 AACAATTAAAAAAACTAAAGAA

                   
       5281 AACAATT
          1 AACAATT

       5288 GATAAGATAG


Statistics
Matches: 24,  Mismatches: 4, Indels: 2
        0.80            0.13        0.07

Matches are distributed among these distances:
  21    3  0.12
  22   21  0.88

ACGTcount: A:0.67, C:0.10, G:0.04, T:0.20


Consensus pattern (22 bp):   
AACAATTAAAAAAACTAAAGAA
Done.