Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g01357.F3

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: 2016
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33


Found at i:465 original size:6 final size:6

Alignment explanation


    Indices: 454--478  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

        444 CCAATACCAG

                                         
        454 CTCCAA CTCCAA CTCCAA CTCCAA C
          1 CTCCAA CTCCAA CTCCAA CTCCAA C

        479 GTCGGTCCCA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16


Consensus pattern (6 bp):   
CTCCAA

Found at i:593 original size:54 final size:51

Alignment explanation


    Indices: 534--651  Score: 193
    Period size: 51  Copynumber: 2.3  Consensus size: 51

        524 TCCAGTTCCA

                                                                
        534 GCACCACCACCCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCT-TCT
          1 GCACCACCACCCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCTCT-T

                                        *                      
        585 GCACCACCACCCAAGGGTCCCACTCCTCTGTATAAGCCCCCAAGTTCTCTT
          1 GCACCACCACCCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCTCTT

              *        *    
        636 GCTCCACCACCTAAGG
          1 GCACCACCACCCAAGG

        652 CAGCCACTCC


Statistics
Matches: 63,  Mismatches: 3, Indels: 2
        0.93            0.04        0.03

Matches are distributed among these distances:
  51   62  0.98
  52    1  0.02

ACGTcount: A:0.23, C:0.43, G:0.14, T:0.19


Consensus pattern (51 bp):   
GCACCACCACCCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCTCTT

Found at i:670 original size:51 final size:51

Alignment explanation


    Indices: 534--677  Score: 157
    Period size: 51  Copynumber: 2.8  Consensus size: 51

        524 TCCAGTTCCA

                            **        * *                      
        534 GCACCACCACCCAAGGGTCCCACTCCTCAGTATAAGCCCCCAAGTTCTTCT
          1 GCACCACCACCCAAGGCACCCACTCCCCTGTATAAGCCCCCAAGTTCTTCT

                            **        *                         
        585 GCACCACCACCCAAGGGTCCCACTCCTCTGTATAAGCCCCCAAGTTC-TCTT
          1 GCACCACCACCCAAGGCACCCACTCCCCTGTATAAGCCCCCAAGTTCTTC-T

              *        *      *                 *      
        636 GCTCCACCACCTAAGGCAGCCACTCCCCCT-TATAAACCCCCA
          1 GCACCACCACCCAAGGCACCCACT-CCCCTGTATAAGCCCCCA

        678 GCTCCTGCAC


Statistics
Matches: 83,  Mismatches: 8, Indels: 4
        0.87            0.08        0.04

Matches are distributed among these distances:
  50    2  0.02
  51   77  0.93
  52    4  0.05

ACGTcount: A:0.24, C:0.45, G:0.12, T:0.19


Consensus pattern (51 bp):   
GCACCACCACCCAAGGCACCCACTCCCCTGTATAAGCCCCCAAGTTCTTCT
Done.