Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001052.1 Corchorus capsularis cultivar CVL-1 contig01052, 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: 5975
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:448 original size:16 final size:16

Alignment explanation


    Indices: 427--486  Score: 59
    Period size: 16  Copynumber: 3.8  Consensus size: 16

        417 GTCAGGTTGA

                   *    *   
        427 TCGGGTTTGGGTCATT
          1 TCGGGTTCGGGTAATT

                   *    **  
        443 TCGGGTTTGGGTTGTT
          1 TCGGGTTCGGGTAATT

                *           
        459 T-GGATTCGGGTAATT
          1 TCGGGTTCGGGTAATT

                         
        474 TCGGGTTCGGGTA
          1 TCGGGTTCGGGTA

        487 CCCCAAAAAT


Statistics
Matches: 36,  Mismatches: 7, Indels: 2
        0.80            0.16        0.04

Matches are distributed among these distances:
  15   11  0.31
  16   25  0.69

ACGTcount: A:0.08, C:0.10, G:0.40, T:0.42


Consensus pattern (16 bp):   
TCGGGTTCGGGTAATT

Found at i:666 original size:21 final size:21

Alignment explanation


    Indices: 640--679  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        630 TTTTGCCAGC

                  *       *      
        640 TCTAAATAAAACAAGTTCGTG
          1 TCTAAAAAAAACAAATTCGTG

                               
        661 TCTAAAAAAAACAAATTCG
          1 TCTAAAAAAAACAAATTCG

        680 ATTCATTTAT


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25


Consensus pattern (21 bp):   
TCTAAAAAAAACAAATTCGTG
Done.