Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4479

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, 316

Length: 527
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32


Found at i:193 original size:9 final size:9

Alignment explanation


    Indices: 179--209  Score: 53
    Period size: 9  Copynumber: 3.4  Consensus size: 9

        169 GTTAAACGAA

                     
        179 TCGAGTTAT
          1 TCGAGTTAT

                    *
        188 TCGAGTTAA
          1 TCGAGTTAT

                     
        197 TCGAGTTAT
          1 TCGAGTTAT

                
        206 TCGA
          1 TCGA

        210 ATCAACTCGA


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
   9   20  1.00

ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39


Consensus pattern (9 bp):   
TCGAGTTAT

Found at i:280 original size:9 final size:9

Alignment explanation


    Indices: 263--299  Score: 56
    Period size: 9  Copynumber: 4.1  Consensus size: 9

        253 TGAGTTTTCG

                     
        263 AATTCGAAT
          1 AATTCGAAT

              *      
        272 AACTCGAAT
          1 AATTCGAAT

                 *   
        281 AATTCAAAT
          1 AATTCGAAT

                     
        290 AATTCGAAT
          1 AATTCGAAT

             
        299 A
          1 A

        300 TCAAACTATA


Statistics
Matches: 24,  Mismatches: 4, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
   9   24  1.00

ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30


Consensus pattern (9 bp):   
AATTCGAAT

Done.