Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014739.1 Corchorus olitorius cultivar O-4 contig14772, 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: 21055
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31


Found at i:13445 original size:45 final size:44

Alignment explanation


    Indices: 13394--13484  Score: 155
    Period size: 45  Copynumber: 2.0  Consensus size: 44

      13384 TGATAAAGGA

                                         *               
      13394 AATAAAACAAACAGATTATGACCAATCCCTATTCATTCAAGAATC
          1 AATAAAACAAACAGATTATGACCAAT-CCAATTCATTCAAGAATC

                                *                       
      13439 AATAAAACAAACAGATTATGGCCAATCCAATTCATTCAAGAATC
          1 AATAAAACAAACAGATTATGACCAATCCAATTCATTCAAGAATC

              
      13483 AA
          1 AA

      13485 AAAGATTGAT


Statistics
Matches: 44,  Mismatches: 2, Indels: 1
        0.94            0.04        0.02

Matches are distributed among these distances:
  44   19  0.43
  45   25  0.57

ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23


Consensus pattern (44 bp):   
AATAAAACAAACAGATTATGACCAATCCAATTCATTCAAGAATC

Found at i:20734 original size:2 final size:2

Alignment explanation


    Indices: 20727--20753  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

      20717 AGTAAGCCTT

                                                    
      20727 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

      20754 GGGGTAATTA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

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


Consensus pattern (2 bp):   
TA

Done.