Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01149.C1

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: 5380
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37


Found at i:70 original size:14 final size:14

Alignment explanation


    Indices: 51--78  Score: 56
    Period size: 14  Copynumber: 2.0  Consensus size: 14

         41 ATCTAATTTC

                          
         51 CCCCAAATCGAAAT
          1 CCCCAAATCGAAAT

                          
         65 CCCCAAATCGAAAT
          1 CCCCAAATCGAAAT

         79 TCTTCCACCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   14  1.00

ACGTcount: A:0.43, C:0.36, G:0.07, T:0.14


Consensus pattern (14 bp):   
CCCCAAATCGAAAT

Found at i:167 original size:14 final size:14

Alignment explanation


    Indices: 148--191  Score: 79
    Period size: 14  Copynumber: 3.1  Consensus size: 14

        138 ATTTCCTGCT

                          
        148 TCTCTAAATCTCCA
          1 TCTCTAAATCTCCA

                         *
        162 TCTCTAAATCTCCT
          1 TCTCTAAATCTCCA

                          
        176 TCTCTAAATCTCCA
          1 TCTCTAAATCTCCA

              
        190 TC
          1 TC

        192 CCTTTGATTT


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  14   28  1.00

ACGTcount: A:0.25, C:0.36, G:0.00, T:0.39


Consensus pattern (14 bp):   
TCTCTAAATCTCCA

Found at i:2059 original size:99 final size:101

Alignment explanation


    Indices: 1871--2064  Score: 250
    Period size: 99  Copynumber: 1.9  Consensus size: 101

       1861 AAGGTTGCAG

                                             **           *    *             
       1871 AGTTCTCGCCCACCGCCGTCTCCGCTGATTTTTTTCGGATCTGACCTGTATTCCGTGTCGGATCG
          1 AGTTCTCGCCCACCGCCGTCT-CGCTGATTTTTGCCGGATCTGACCCGTATACCGTGTCGGATCG

               *    * *   *                      
       1936 TGTTGACATAGGTATTGCACCCCAAATTGCCGAGTCA
         65 TGTCGACACAAGTACTGCACCCCAAATTGCCGAGTCA

                         *                                                 * 
       1973 AGTTCTCGCCCACTGCC-TCT-GCT-AGTTTTTGCCGGATCTGACCCGTATACCGTGTCGGATGG
          1 AGTTCTCGCCCACCGCCGTCTCGCTGA-TTTTTGCCGGATCTGACCCGTATACCGTGTCGGATCG

                               *          
       2035 TGTCGACACAAGTACTGCATCCCAAATTGC
         65 TGTCGACACAAGTACTGCACCCCAAATTGC

       2065 TCCGAGCCCG


Statistics
Matches: 80,  Mismatches: 11, Indels: 5
        0.83            0.11        0.05

Matches are distributed among these distances:
  98    1  0.01
  99   60  0.75
 101    3  0.04
 102   16  0.20

ACGTcount: A:0.18, C:0.30, G:0.23, T:0.30


Consensus pattern (101 bp):   
AGTTCTCGCCCACCGCCGTCTCGCTGATTTTTGCCGGATCTGACCCGTATACCGTGTCGGATCGT
GTCGACACAAGTACTGCACCCCAAATTGCCGAGTCA
Done.