Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3221

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, 468

Length: 781
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28


Found at i:315 original size:69 final size:69

Alignment explanation


    Indices: 214--376  Score: 290
    Period size: 69  Copynumber: 2.4  Consensus size: 69

        204 TCCACGGCTT

                      *  *     *                                             
        214 GCGAATCTTCAGTATCTGTCGCTGCCCCAACTAACAACGATCATAGTGCAGAGAGCTATTCCACC
          1 GCGAATCTTCGGTTTCTGTTGCTGCCCCAACTAACAACGATCATAGTGCAGAGAGCTATTCCACC

                
        279 ACCA
         66 ACCA

                                                                             
        283 GCGAATCTTCGGTTTCTGTTGCTGCCCCAACTAACAACGATCATAGTGCAGAGAGCTATTCCACC
          1 GCGAATCTTCGGTTTCTGTTGCTGCCCCAACTAACAACGATCATAGTGCAGAGAGCTATTCCACC

              * 
        348 ACTA
         66 ACCA

                                     
        352 GCGAATCTTCGGTTTCTGTTGCTGC
          1 GCGAATCTTCGGTTTCTGTTGCTGC

        377 TCCATCTGAC


Statistics
Matches: 90,  Mismatches: 4, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  69   90  1.00

ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26


Consensus pattern (69 bp):   
GCGAATCTTCGGTTTCTGTTGCTGCCCCAACTAACAACGATCATAGTGCAGAGAGCTATTCCACC
ACCA

Found at i:652 original size:38 final size:38

Alignment explanation


    Indices: 600--715  Score: 187
    Period size: 38  Copynumber: 3.1  Consensus size: 38

        590 GAAGCGTTCT

                     *                            
        600 TGATGATTCTTTTGACAGAGTAGTACATTTCAGTATTA
          1 TGATGATTCATTTGACAGAGTAGTACATTTCAGTATTA

                              * *                 
        638 TGATGATTCATTTGACAGTGAAGTACATTTCAGTATTA
          1 TGATGATTCATTTGACAGAGTAGTACATTTCAGTATTA

                *   *                             
        676 TGATTATTTATTTGACAGAGTAGTACATTTCAGTATTA
          1 TGATGATTCATTTGACAGAGTAGTACATTTCAGTATTA

              
        714 TG
          1 TG

        716 TGAGAGTATT


Statistics
Matches: 71,  Mismatches: 7, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  38   71  1.00

ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42


Consensus pattern (38 bp):   
TGATGATTCATTTGACAGAGTAGTACATTTCAGTATTA
Done.