Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008429.1 Corchorus olitorius cultivar O-4 contig08456, 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: 2206
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33


Found at i:836 original size:29 final size:29

Alignment explanation


    Indices: 775--846  Score: 87
    Period size: 29  Copynumber: 2.6  Consensus size: 29

        765 TCGTGTATTC

                    *                    
        775 ACAAAGGCAGAGAA--TATTTTGGTGAAA
          1 ACAAAGGCTGAGAATTTATTTTGGTGAAA

             *               *           
        802 ATAAAGGCTGAGAATTTTTTTTGGTGAAA
          1 ACAAAGGCTGAGAATTTATTTTGGTGAAA

                             
        831 ACAAAGG-TAGAGAATT
          1 ACAAAGGCT-GAGAATT

        847 AGAGTGAGGT


Statistics
Matches: 38,  Mismatches: 4, Indels: 4
        0.83            0.09        0.09

Matches are distributed among these distances:
  27   12  0.32
  28    1  0.03
  29   25  0.66

ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28


Consensus pattern (29 bp):   
ACAAAGGCTGAGAATTTATTTTGGTGAAA

Found at i:1262 original size:2 final size:2

Alignment explanation


    Indices: 1255--1283  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

       1245 GGAAACATAA

                                                       
       1255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       1284 ATACGGTAGT


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Done.