Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016798.1 Corchorus olitorius cultivar O-4 contig16831, 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: 4770
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36


Found at i:457 original size:15 final size:15

Alignment explanation


    Indices: 437--468  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

        427 AACCAAGAAA

                           
        437 AGGAGAATGAGGAAG
          1 AGGAGAATGAGGAAG

                           
        452 AGGAGAATGAGGAAG
          1 AGGAGAATGAGGAAG

              
        467 AG
          1 AG

        469 CTTCATCCTT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.47, C:0.00, G:0.47, T:0.06


Consensus pattern (15 bp):   
AGGAGAATGAGGAAG

Found at i:4716 original size:22 final size:21

Alignment explanation


    Indices: 4688--4741  Score: 60
    Period size: 19  Copynumber: 2.6  Consensus size: 21

       4678 GAAATTCGTG

                                  
       4688 TTTGAAGACTTATTGAAGATAA
          1 TTTGAAGA-TTATTGAAGATAA

                               * 
       4710 TTTGAAGA-T-TTGAAGATCA
          1 TTTGAAGATTATTGAAGATAA

                          
       4729 -TTGAAGAATTATT
          1 TTTGAAG-ATTATT

       4742 TCCAAGAAGC


Statistics
Matches: 28,  Mismatches: 1, Indels: 7
        0.78            0.03        0.19

Matches are distributed among these distances:
  18    6  0.21
  19   10  0.36
  20    2  0.07
  21    2  0.07
  22    8  0.29

ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39


Consensus pattern (21 bp):   
TTTGAAGATTATTGAAGATAA

Done.