Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00949.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, 946

Length: 1578
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32


Found at i:130 original size:17 final size:19

Alignment explanation


    Indices: 89--134  Score: 62
    Period size: 17  Copynumber: 2.6  Consensus size: 19

         79 TCCCTTCGGC

                               
         89 TTTTATTT-TTCCTCTTCT
          1 TTTTATTTCTTCCTCTTCT

            *                  
        107 ATTTATTTCTT-CTC-TCT
          1 TTTTATTTCTTCCTCTTCT

                       
        124 TTTTATTTCTT
          1 TTTTATTTCTT

        135 TCTATACGTC


Statistics
Matches: 25,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  17   13  0.52
  18   10  0.40
  19    2  0.08

ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72


Consensus pattern (19 bp):   
TTTTATTTCTTCCTCTTCT

Found at i:137 original size:18 final size:19

Alignment explanation


    Indices: 57--137  Score: 62
    Period size: 18  Copynumber: 4.4  Consensus size: 19

         47 CCCAACTTCC

                           *   
         57 TCTTTCTC-TCTTTTCATT
          1 TCTTTCTCTTCTTTTTATT

             *    *      *       
         75 TTTTTCCCTTCGGCTTTTATT
          1 TCTTTCTCTTC--TTTTTATT

                *       *      
         96 T-TTCCTCTTCTATTTATT
          1 TCTTTCTCTTCTTTTTATT

                               
        114 TC-TTCTC-TCTTTTTATT
          1 TCTTTCTCTTCTTTTTATT

                   
        131 TCTTTCT
          1 TCTTTCT

        138 ATACGTCCGT


Statistics
Matches: 48,  Mismatches: 10, Indels: 10
        0.71            0.15        0.15

Matches are distributed among these distances:
  17   11  0.23
  18   21  0.44
  19    2  0.04
  20    7  0.15
  21    7  0.15

ACGTcount: A:0.06, C:0.25, G:0.02, T:0.67


Consensus pattern (19 bp):   
TCTTTCTCTTCTTTTTATT
Done.