Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4609

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, 305

Length: 509
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28


Found at i:486 original size:126 final size:125

Alignment explanation


    Indices: 278--504  Score: 357
    Period size: 126  Copynumber: 1.8  Consensus size: 125

        268 CTGAAGTTAC

                                *               *                            
        278 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCAC
          1 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC

                               *  *                                      
        343 CAAGCCTTGTCTCCCTGAGTAGTAG-AGGAGAAGGTTATAGATCTTATCTCCCTAAGCAGT
         66 CAAGCCTTGTCTCCCTGAGCAGCAGCA-GAGAAGGTTATAGATCTTATCTCCCTAAGCAGT

                   *                  *                                 *    
        403 AGTGGAGTAGATCGAAGACGACGAATTTTATCTTTCCAAGATAGTGGGGAAGCAGATTTAGGCCA
          1 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGT-GGGAAGCAGATTTAAGCCA

            *                                    
        468 TCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTT
         65 CCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTT

        505 GAAGA


Statistics
Matches: 92,  Mismatches: 8, Indels: 3
        0.89            0.08        0.03

Matches are distributed among these distances:
 125   41  0.45
 126   50  0.54
 127    1  0.01

ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25


Consensus pattern (125 bp):   
AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTATAGATCTTATCTCCCTAAGCAGT
Done.