Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00678.F5

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, 834

Length: 1390
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28


Found at i:1328 original size:27 final size:26

Alignment explanation


    Indices: 1294--1379  Score: 63
    Period size: 26  Copynumber: 3.3  Consensus size: 26

       1284 TGTTATATGA

                                      
       1294 CATTAGCAAGTGGACCTTATGAAATC
          1 CATTAGCAAGTGGACCTTATGAAATC

                      * *   *       *   *
       1320 CATTCAGC-ATTAGA-ATGT-T-ATATGA
          1 CATT-AGCAAGTGGACCT-TATGAAAT-C

                                      
       1345 CATTAGCAAGTGGACCTTATGAAATC
          1 CATTAGCAAGTGGACCTTATGAAATC

                     
       1371 CATTCAGCA
          1 CATT-AGCA

       1380 TGATTGGTGG


Statistics
Matches: 42,  Mismatches: 10, Indels: 15
        0.63            0.15        0.22

Matches are distributed among these distances:
  24    6  0.14
  25   11  0.26
  26   15  0.36
  27   10  0.24

ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29


Consensus pattern (26 bp):   
CATTAGCAAGTGGACCTTATGAAATC

Found at i:1354 original size:51 final size:51

Alignment explanation


    Indices: 1278--1380  Score: 206
    Period size: 51  Copynumber: 2.0  Consensus size: 51

       1268 TGTGATAAAC

                                                               
       1278 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
          1 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA

                                                               
       1329 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
          1 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA

             
       1380 T
          1 T

       1381 GATTGGTGGT


Statistics
Matches: 52,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  51   52  1.00

ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32


Consensus pattern (51 bp):   
TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
Done.