Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01005.P3

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: 15416
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35


Found at i:1793 original size:15 final size:15

Alignment explanation


    Indices: 1760--1793  Score: 50
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       1750 TAATTAAAAG

                          *
       1760 AATAATAATGAGAAT
          1 AATAATAATGAGAAC

                       *   
       1775 AATAATAATGATAAC
          1 AATAATAATGAGAAC

                
       1790 AATA
          1 AATA

       1794 TCTCAAAGTT


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26


Consensus pattern (15 bp):   
AATAATAATGAGAAC

Found at i:2130 original size:16 final size:16

Alignment explanation


    Indices: 2109--2139  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       2099 TTATTAAAAT

                   *        
       2109 TAATTAATTAATTTTA
          1 TAATTAAATAATTTTA

                           
       2125 TAATTAAATAATTTT
          1 TAATTAAATAATTTT

       2140 CTAAACTTAA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55


Consensus pattern (16 bp):   
TAATTAAATAATTTTA

Found at i:6977 original size:96 final size:96

Alignment explanation


    Indices: 6807--6984  Score: 261
    Period size: 96  Copynumber: 1.9  Consensus size: 96

       6797 TTATTTTTGC

                *                             *                              
       6807 TCCTTTTTGCTCTATTGGTTTCGGCTTTTCCCTTTCTCGAACTAAGCTTCTTGGGCTCATTGTCT
          1 TCCTCTTTGCTCTATTGGTTTCGGCTTTTCCCTTACTCGAACTAAGCTTCTTGGGCTCATTGTCT

             *                             
       6872 GTTCCATCGTTCCCTTCGATGACAGACTTGT
         66 GCTCCATCGTTCCCTTCGATGACAGACTTGT

                         *                                                   
       6903 TCCTCTTTGCTCTCTTGGTTTCGGCTTTTCCCTTACTCGAA-TCAAGCTTCTTGGGCCTC-TTGT
          1 TCCTCTTTGCTCTATTGGTTTCGGCTTTTCCCTTACTCGAACT-AAGCTTCTTGGG-CTCATTGT

            *     *       *    
       6966 TTGCTCTATCGTTCTCTTC
         64 CTGCTCCATCGTTCCCTTC

       6985 AATAAAAACT


Statistics
Matches: 73,  Mismatches: 7, Indels: 4
        0.87            0.08        0.05

Matches are distributed among these distances:
  95    1  0.01
  96   69  0.95
  97    3  0.04

ACGTcount: A:0.10, C:0.29, G:0.17, T:0.45


Consensus pattern (96 bp):   
TCCTCTTTGCTCTATTGGTTTCGGCTTTTCCCTTACTCGAACTAAGCTTCTTGGGCTCATTGTCT
GCTCCATCGTTCCCTTCGATGACAGACTTGT
Done.