Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00489.F1

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, 939

Length: 1565
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Found at i:321 original size:9 final size:9

Alignment explanation


    Indices: 307--333  Score: 54
    Period size: 9  Copynumber: 3.0  Consensus size: 9

        297 GTCTCATCAT

                     
        307 TCTTCTCCA
          1 TCTTCTCCA

                     
        316 TCTTCTCCA
          1 TCTTCTCCA

                     
        325 TCTTCTCCA
          1 TCTTCTCCA

        334 CCAGATCTTT


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   18  1.00

ACGTcount: A:0.11, C:0.44, G:0.00, T:0.44


Consensus pattern (9 bp):   
TCTTCTCCA

Found at i:830 original size:60 final size:60

Alignment explanation


    Indices: 679--865  Score: 281
    Period size: 60  Copynumber: 3.2  Consensus size: 60

        669 GAGTACCAGC

                                                                        
        679 TCTGATGAATTTCAAGAAGCAAGAGAAGAACAGAGTCCAATGAAGTCTCCACTAAAA-C-
          1 TCTGATGAATTTCAAGAAGCAAGAGAAGAACAGAGTCCAATGAAGTCTCCACTAAAACCT

                          *  *     *                                    
        737 -CTGATGAATTTCATGACGCAAGGGAAGAACAGAGTCCAATGAAGTCTCCACTAAAACCT
          1 TCTGATGAATTTCAAGAAGCAAGAGAAGAACAGAGTCCAATGAAGTCTCCACTAAAACCT

                                                  *  *   *      *     * 
        796 TCTGATGAATTTCAAGAAGCAAGAGAAGAACAGAGTCCGATTAAGGCTCCACCAAAACTT
          1 TCTGATGAATTTCAAGAAGCAAGAGAAGAACAGAGTCCAATGAAGTCTCCACTAAAACCT

                      
        856 TCTGATGAAT
          1 TCTGATGAAT

        866 CTGTATTCAT


Statistics
Matches: 115,  Mismatches: 11, Indels: 4
        0.88            0.08        0.03

Matches are distributed among these distances:
  57   53  0.46
  58    1  0.01
  60   61  0.53

ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21


Consensus pattern (60 bp):   
TCTGATGAATTTCAAGAAGCAAGAGAAGAACAGAGTCCAATGAAGTCTCCACTAAAACCT
Done.