Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01003195.1 Corchorus olitorius cultivar O-4 contig03201, 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: 1782
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29


Found at i:129 original size:32 final size:32

Alignment explanation


    Indices: 88--152  Score: 130
    Period size: 32  Copynumber: 2.0  Consensus size: 32

         78 TCAGAGTCCA

                                            
         88 TATCGGAACTTACAGGAGAGGGGACGAAGTAG
          1 TATCGGAACTTACAGGAGAGGGGACGAAGTAG

                                            
        120 TATCGGAACTTACAGGAGAGGGGACGAAGTAG
          1 TATCGGAACTTACAGGAGAGGGGACGAAGTAG

             
        152 T
          1 T

        153 GCTGAGACGT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  32   33  1.00

ACGTcount: A:0.34, C:0.12, G:0.37, T:0.17


Consensus pattern (32 bp):   
TATCGGAACTTACAGGAGAGGGGACGAAGTAG

Found at i:322 original size:25 final size:25

Alignment explanation


    Indices: 288--342  Score: 110
    Period size: 25  Copynumber: 2.2  Consensus size: 25

        278 AAGGCGAAGA

                                     
        288 AGCAAAAGAAAGCACATGAAACTGG
          1 AGCAAAAGAAAGCACATGAAACTGG

                                     
        313 AGCAAAAGAAAGCACATGAAACTGG
          1 AGCAAAAGAAAGCACATGAAACTGG

                 
        338 AGCAA
          1 AGCAA

        343 CGGGTTGGTT


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   30  1.00

ACGTcount: A:0.53, C:0.16, G:0.24, T:0.07


Consensus pattern (25 bp):   
AGCAAAAGAAAGCACATGAAACTGG
Done.