Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03271.N2

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: 5273
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29


Found at i:4853 original size:46 final size:46

Alignment explanation


    Indices: 4658--4976  Score: 208
    Period size: 46  Copynumber: 6.7  Consensus size: 46

       4648 GGTAGAGAGT

                              *                 *        *    
       4658 CGATGCCATGTCCCAGACCTGGTCTTACACT-GACTATCATCATCGAGGC
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATC-TCAAGGC

            *  *        *          *    *                  *    
       4707 TGACGCCATGTCTCAGACATGGTATTACTCTAGCTCTCGCATAC-C-CGTGC
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CAT-CTCAAG-GC

                                              * *      **   *
       4757 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTTGTA-GT
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATC-TCAAGGC

                        *      *                      *    
       4803 CGATGCATGTCCTAGACATATCTTACACTAGCT-TACATCTCGAGGC
          1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGC

                                                *      *  
       4849 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
          1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGC

                                                               
       4895 CGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AATGTGAC
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAA-G-G-C

            *             *                   
       4943 TGATGCATGTCCCAAACATGTCTTACACTAGCTC
          1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC

       4977 ACAATAACCC


Statistics
Matches: 218,  Mismatches: 34, Indels: 39
        0.75            0.12        0.13

Matches are distributed among these distances:
  44    9  0.04
  45   19  0.09
  46   74  0.34
  47   29  0.13
  48   23  0.11
  49   30  0.14
  50   30  0.14
  51    3  0.01
  52    1  0.00

ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28


Consensus pattern (46 bp):   
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGC

Found at i:4925 original size:94 final size:92

Alignment explanation


    Indices: 4803--4976  Score: 235
    Period size: 94  Copynumber: 1.9  Consensus size: 92

       4793 ATCTTGTAGT

                        *                           *     *               *  
       4803 CGATGCATGTCCTAGACATATCTTACACTAGCT-TACAT-CTCGAGGCCGATGCATGTCCCAGAC
          1 CGATGCATGTCCCAGACATATCTTACACTAGCTCT-CATAAT-GAGACCGATGCATGTCCCAAAC

                                         
       4866 ATGTCTTACACTAGCTCTCGTCTCAATGC
         64 ATGTCTTACACTAGCTCTCGTCTCAATGC

                                 *                      *   *                
       4895 CGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGACTGATGCATGTCCCAAAC
          1 CGATG-CATGTCCCAGACAT-ATCTTACACTAGCTCTCATAATGAGACCGATGCATGTCCCAAAC

                             
       4960 ATGTCTTACACTAGCTC
         64 ATGTCTTACACTAGCTC

       4977 ACAATAACCC


Statistics
Matches: 71,  Mismatches: 7, Indels: 6
        0.85            0.08        0.07

Matches are distributed among these distances:
  92    5  0.07
  93   13  0.18
  94   51  0.72
  95    2  0.03

ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29


Consensus pattern (92 bp):   
CGATGCATGTCCCAGACATATCTTACACTAGCTCTCATAATGAGACCGATGCATGTCCCAAACAT
GTCTTACACTAGCTCTCGTCTCAATGC
Done.