Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2330

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: 5849
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31


Found at i:3202 original size:40 final size:40

Alignment explanation


    Indices: 3150--3379  Score: 336
    Period size: 40  Copynumber: 5.8  Consensus size: 40

       3140 ATAACCACAA

                  *               *     *    *      
       3150 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
          1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC

                *                               *   
       3190 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
          1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC

                                                   *
       3230 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
          1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC

                                                   *
       3270 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
          1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC

                                            *       *
       3310 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
          1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC

               *             *            
       3350 GCATAAATGCCTTCGGGACTTAGCCCGGAT
          1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT

       3380 GTATTCAAAT


Statistics
Matches: 176,  Mismatches: 13, Indels: 2
        0.92            0.07        0.01

Matches are distributed among these distances:
  40  172  0.98
  41    4  0.02

ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26


Consensus pattern (40 bp):   
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC

Done.