Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g02135.N1

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: 2801
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26


Found at i:887 original size:21 final size:20

Alignment explanation


    Indices: 845--887  Score: 50
    Period size: 21  Copynumber: 2.1  Consensus size: 20

        835 TCATTTGCAG

                          *  *  
        845 CATCAATCATGCGTTAATGC
          1 CATCAATCATGCGTCAAAGC

                   *             
        865 CATCAATTATTGCGTCAAAGC
          1 CATCAATCA-TGCGTCAAAGC

              
        886 CA
          1 CA

        888 GCAAACAATT


Statistics
Matches: 19,  Mismatches: 3, Indels: 1
        0.83            0.13        0.04

Matches are distributed among these distances:
  20    8  0.42
  21   11  0.58

ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28


Consensus pattern (20 bp):   
CATCAATCATGCGTCAAAGC

Found at i:1679 original size:75 final size:75

Alignment explanation


    Indices: 1556--1946  Score: 479
    Period size: 75  Copynumber: 5.3  Consensus size: 75

       1546 TCAGCAAGAC

                                *               *  *                         
       1556 CAAGCTTCTCAAAATGGAGCAAATGGTGCCTCTTTTCCCTACAATTGGTTTCAAGAAGATCATAG
          1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG

                      
       1621 AAATGATCAG
         66 AAATGATCAG

                      *                                *                     
       1631 CAAGCTTCTCGAAATGGAGCCAATGGTGCCTCTTTTACCAACAGTTGGTTTCAAGAAGATCATCA
          1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCAT-A

                      *
       1696 -AAATGATCAC
         65 GAAATGATCAG

                  *       *           *           *                      *   
       1706 CAAGCTGCTCAAAAAGGAGCCAATGGAGCCTCTTTTACAAACAATTGGTTTCAAGAAGATCTTAG
          1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG

                *     
       1771 AAATCATCAG
         66 AAATGATCAG

                                  *     *       *       *   *             *  
       1781 CAAGCTTCTCAAAATGGAGCCATTGGTGTCTCTTTTCCCAACAACTGGCTTCAAGAAGATCAAAG
          1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG

                    * 
       1846 AAATGA-CCG
         66 AAATGATCAG

                                         *               **   * *          * 
       1855 ACAAGCTTCTCAAAATGGAGCCAATGGTGTCTGC-TTTACCAACAGCTGGCTCCAAGAAGATCTT
          1 -CAAGCTTCTCAAAATGGAGCCAATGGTGCCT-CTTTTACCAACAATTGGTTTCAAGAAGATCAT

                        
       1919 AG-AA--ATCAG
         64 AGAAATGATCAG

                 *             
       1928 CAAGCGTCTCAAAATGGAG
          1 CAAGCTTCTCAAAATGGAG

       1947 TCATGGTTCA


Statistics
Matches: 275,  Mismatches: 36, Indels: 13
        0.85            0.11        0.04

Matches are distributed among these distances:
  72   19  0.07
  73    2  0.01
  74    5  0.02
  75  247  0.90
  76    2  0.01

ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25


Consensus pattern (75 bp):   
CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
AAATGATCAG

Done.