Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009529.1 Corchorus olitorius cultivar O-4 contig09561, 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: 5945
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:2365 original size:32 final size:30

Alignment explanation


    Indices: 2325--2388  Score: 85
    Period size: 31  Copynumber: 2.1  Consensus size: 30

       2315 AATCAGCCAG

                                   *        
       2325 TTTTATTTT-CAAGCAAAGGGAAGGTTCCCAT
          1 TTTTATTTTACAAG--AAGGGAAAGTTCCCAT

                                           
       2356 TTTTAATTTTACAAGAAGGGAAAGTTCCCAT
          1 TTTT-ATTTTACAAGAAGGGAAAGTTCCCAT

              
       2387 TT
          1 TT

       2389 CAGTTTCTTT


Statistics
Matches: 30,  Mismatches: 1, Indels: 4
        0.86            0.03        0.11

Matches are distributed among these distances:
  31   21  0.70
  32    5  0.17
  33    4  0.13

ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38


Consensus pattern (30 bp):   
TTTTATTTTACAAGAAGGGAAAGTTCCCAT

Found at i:5399 original size:19 final size:19

Alignment explanation


    Indices: 5389--5445  Score: 105
    Period size: 19  Copynumber: 3.0  Consensus size: 19

       5379 TTAGGATCAC

                               
       5389 CTAGGGGCATTTTGGTCAT
          1 CTAGGGGCATTTTGGTCAT

                               
       5408 CTAGGGGCATTTTGGTCAT
          1 CTAGGGGCATTTTGGTCAT

                         *     
       5427 CTAGGGGCATTTTAGTCAT
          1 CTAGGGGCATTTTGGTCAT

       5446 TTGCATATTC


Statistics
Matches: 37,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  19   37  1.00

ACGTcount: A:0.18, C:0.16, G:0.30, T:0.37


Consensus pattern (19 bp):   
CTAGGGGCATTTTGGTCAT
Done.