Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011786.1 Corchorus capsularis cultivar CVL-1 contig11807, 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: 19582
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35


Found at i:750 original size:41 final size:41

Alignment explanation


    Indices: 693--782  Score: 180
    Period size: 41  Copynumber: 2.2  Consensus size: 41

        683 CCTTCAATTT

                                                     
        693 TGTAAAGTACTCATGAATTGACAAAGATCCTTGTGTACTAG
          1 TGTAAAGTACTCATGAATTGACAAAGATCCTTGTGTACTAG

                                                     
        734 TGTAAAGTACTCATGAATTGACAAAGATCCTTGTGTACTAG
          1 TGTAAAGTACTCATGAATTGACAAAGATCCTTGTGTACTAG

                    
        775 TGTAAAGT
          1 TGTAAAGT

        783 TCAGAGTAAA


Statistics
Matches: 49,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  41   49  1.00

ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32


Consensus pattern (41 bp):   
TGTAAAGTACTCATGAATTGACAAAGATCCTTGTGTACTAG

Found at i:5810 original size:31 final size:30

Alignment explanation


    Indices: 5772--5834  Score: 99
    Period size: 30  Copynumber: 2.1  Consensus size: 30

       5762 GAAATATTTT

                              **           
       5772 AACAAATTTATTTAATTTTTAACCAAAAAAA
          1 AACAAATTTATTTAA-TTAAAACCAAAAAAA

                                          
       5803 AACAAATTTATTTAATTAAAACCAAAAAAA
          1 AACAAATTTATTTAATTAAAACCAAAAAAA

              
       5833 AA
          1 AA

       5835 GACTTGGTCC


Statistics
Matches: 30,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
  30   15  0.50
  31   15  0.50

ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30


Consensus pattern (30 bp):   
AACAAATTTATTTAATTAAAACCAAAAAAA
Done.