Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold3306

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: 10972
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31


Found at i:1529 original size:63 final size:64

Alignment explanation


    Indices: 1449--1631  Score: 203
    Period size: 66  Copynumber: 2.8  Consensus size: 64

       1439 AGACATTATG

                                  *                                        *
       1449 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
          1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA

                              *     * *      * *                             
       1512 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
          1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT

              
       1577 AA
         63 AA

                *        *                    *                     
       1579 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
          1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC

       1632 CGAACTATAT


Statistics
Matches: 99,  Mismatches: 15, Indels: 12
        0.79            0.12        0.10

Matches are distributed among these distances:
  62    1  0.01
  63   43  0.43
  64    1  0.01
  65    2  0.02
  66   45  0.45
  67    7  0.07

ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23


Consensus pattern (64 bp):   
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Done.