Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006674.1 Corchorus olitorius cultivar O-4 contig06699, 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, 711

Length: 1186
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35


Found at i:340 original size:16 final size:16

Alignment explanation


    Indices: 318--390  Score: 94
    Period size: 16  Copynumber: 4.6  Consensus size: 16

        308 GGCAATTGGG

                            
        318 CGGGTTCGGGTATTTT
          1 CGGGTTCGGGTATTTT

            *               
        334 TGGGTTCGGGTATTTT
          1 CGGGTTCGGGTATTTT

                *          * 
        350 CGGGCTCGGGT-TATGT
          1 CGGGTTCGGGTAT-TTT

                            
        366 CGGGTTCGGGTATTTT
          1 CGGGTTCGGGTATTTT

               *     
        382 CGGATTCGG
          1 CGGGTTCGG

        391 TCTCGGGTAG


Statistics
Matches: 48,  Mismatches: 7, Indels: 4
        0.81            0.12        0.07

Matches are distributed among these distances:
  15    1  0.02
  16   46  0.96
  17    1  0.02

ACGTcount: A:0.07, C:0.14, G:0.40, T:0.40


Consensus pattern (16 bp):   
CGGGTTCGGGTATTTT

Found at i:430 original size:17 final size:17

Alignment explanation


    Indices: 392--432  Score: 55
    Period size: 17  Copynumber: 2.4  Consensus size: 17

        382 CGGATTCGGT

                           * 
        392 CTCGGGTAGGGTTCGGG
          1 CTCGGGTAGGGTTCGAG

            *      *         
        409 TTCGGGTCGGGTTCGAG
          1 CTCGGGTAGGGTTCGAG

                   
        426 CTCGGGT
          1 CTCGGGT

        433 TTGATTTCGA


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  17   20  1.00

ACGTcount: A:0.05, C:0.20, G:0.49, T:0.27


Consensus pattern (17 bp):   
CTCGGGTAGGGTTCGAG
Done.