Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018166.1 Corchorus olitorius cultivar O-4 contig18199, 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: 21494
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32


Found at i:17014 original size:34 final size:34

Alignment explanation


    Indices: 16971--17036  Score: 123
    Period size: 34  Copynumber: 1.9  Consensus size: 34

      16961 AATTTAGTAC

                           *                  
      16971 CACCAGGTTTAGCCCTTAGTTTCACCAGATGAAG
          1 CACCAGGTTTAGCCCCTAGTTTCACCAGATGAAG

                                            
      17005 CACCAGGTTTAGCCCCTAGTTTCACCAGATGA
          1 CACCAGGTTTAGCCCCTAGTTTCACCAGATGA

      17037 GATTTACAGG


Statistics
Matches: 31,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  34   31  1.00

ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26


Consensus pattern (34 bp):   
CACCAGGTTTAGCCCCTAGTTTCACCAGATGAAG

Found at i:20012 original size:12 final size:12

Alignment explanation


    Indices: 19997--20037  Score: 50
    Period size: 12  Copynumber: 3.5  Consensus size: 12

      19987 AATGACCAAA

                        
      19997 AATAAATATAAT
          1 AATAAATATAAT

                 *      
      20009 AATAAGTATAAT
          1 AATAAATATAAT

                         
      20021 AAT-AATAATAAT
          1 AATAAAT-ATAAT

                  
      20033 -ATAAA
          1 AATAAA

      20038 AGGAAATTAA


Statistics
Matches: 25,  Mismatches: 2, Indels: 4
        0.81            0.06        0.13

Matches are distributed among these distances:
  11    4  0.16
  12   21  0.84

ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32


Consensus pattern (12 bp):   
AATAAATATAAT
Done.