Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006437.1 Corchorus olitorius cultivar O-4 contig06462, 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, 714

Length: 1191
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34


Found at i:821 original size:22 final size:22

Alignment explanation


    Indices: 796--862  Score: 61
    Period size: 22  Copynumber: 3.2  Consensus size: 22

        786 TTAGACATTT

                                  
        796 ATTTCCCTTTTCGGACCTAATC
          1 ATTTCCCTTTTCGGACCTAATC

                * *             * *
        818 ATTTTCATTATT-GGA---AGTT
          1 ATTTCCCTT-TTCGGACCTAATC

                                  
        837 ATTTCCCTTTTCGGACCTAATC
          1 ATTTCCCTTTTCGGACCTAATC

                
        859 ATTT
          1 ATTT

        863 TCATTATTGG


Statistics
Matches: 32,  Mismatches: 8, Indels: 10
        0.64            0.16        0.20

Matches are distributed among these distances:
  18    2  0.06
  19   12  0.38
  22   16  0.50
  23    2  0.06

ACGTcount: A:0.21, C:0.22, G:0.10, T:0.46


Consensus pattern (22 bp):   
ATTTCCCTTTTCGGACCTAATC

Found at i:839 original size:41 final size:41

Alignment explanation


    Indices: 794--878  Score: 170
    Period size: 41  Copynumber: 2.1  Consensus size: 41

        784 CATTAGACAT

                                                     
        794 TTATTTCCCTTTTCGGACCTAATCATTTTCATTATTGGAAG
          1 TTATTTCCCTTTTCGGACCTAATCATTTTCATTATTGGAAG

                                                     
        835 TTATTTCCCTTTTCGGACCTAATCATTTTCATTATTGGAAG
          1 TTATTTCCCTTTTCGGACCTAATCATTTTCATTATTGGAAG

               
        876 TTA
          1 TTA

        879 CATTTGCTTT


Statistics
Matches: 44,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  41   44  1.00

ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47


Consensus pattern (41 bp):   
TTATTTCCCTTTTCGGACCTAATCATTTTCATTATTGGAAG
Done.