Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013104.1 Corchorus olitorius cultivar O-4 contig13137, 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, 835

Length: 1393
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25


Found at i:89 original size:14 final size:16

Alignment explanation


    Indices: 70--103  Score: 54
    Period size: 14  Copynumber: 2.2  Consensus size: 16

         60 GACCCAAAAG

                            
         70 AAAAGAAA-AA-GAAA
          1 AAAAGAAAGAAGGAAA

                            
         84 AAAAGAAAGAAGGAAA
          1 AAAAGAAAGAAGGAAA

                
        100 AAAA
          1 AAAA

        104 AAGGGAGAAG


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  14    8  0.44
  15    2  0.11
  16    8  0.44

ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00


Consensus pattern (16 bp):   
AAAAGAAAGAAGGAAA

Found at i:439 original size:17 final size:16

Alignment explanation


    Indices: 393--435  Score: 59
    Period size: 17  Copynumber: 2.6  Consensus size: 16

        383 GATCACCACT

                             
        393 AGTGATCTAAGATCACC
          1 AGTGATC-AAGATCACC

                             
        410 AGTGATGCAAGATCACC
          1 AGTGAT-CAAGATCACC

            *        
        427 GGTGATCAA
          1 AGTGATCAA

        436 AGATTACATG


Statistics
Matches: 24,  Mismatches: 1, Indels: 3
        0.86            0.04        0.11

Matches are distributed among these distances:
  16    3  0.12
  17   20  0.83
  18    1  0.04

ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21


Consensus pattern (16 bp):   
AGTGATCAAGATCACC
Done.