Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001104.1 Corchorus olitorius cultivar O-4 contig01104, 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: 5423
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36


Found at i:4034 original size:39 final size:39

Alignment explanation


    Indices: 3980--4091  Score: 188
    Period size: 39  Copynumber: 2.9  Consensus size: 39

       3970 AATAATGATG

                  *                                
       3980 AGAAAAATAGCAATTCCCAAATATCAAACTCTAATTAAA
          1 AGAAAATTAGCAATTCCCAAATATCAAACTCTAATTAAA

                                                   
       4019 AGAAAATTAGCAATTCCCAAATATCAAACTCTAATTAAA
          1 AGAAAATTAGCAATTCCCAAATATCAAACTCTAATTAAA

                   *   *             *        
       4058 AGAAAATAAGCTATTCCCAAATATCGAACTCTAA
          1 AGAAAATTAGCAATTCCCAAATATCAAACTCTAA

       4092 CTTAGACCAG


Statistics
Matches: 69,  Mismatches: 4, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  39   69  1.00

ACGTcount: A:0.51, C:0.19, G:0.06, T:0.24


Consensus pattern (39 bp):   
AGAAAATTAGCAATTCCCAAATATCAAACTCTAATTAAA

Found at i:4360 original size:13 final size:13

Alignment explanation


    Indices: 4342--4370  Score: 58
    Period size: 13  Copynumber: 2.2  Consensus size: 13

       4332 AAGCCATGCA

                         
       4342 TCTTTTCTTTTTT
          1 TCTTTTCTTTTTT

                         
       4355 TCTTTTCTTTTTT
          1 TCTTTTCTTTTTT

               
       4368 TCT
          1 TCT

       4371 AGAGCTGGTT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   16  1.00

ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83


Consensus pattern (13 bp):   
TCTTTTCTTTTTT
Done.