Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g01251.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, 824

Length: 1374
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28


Found at i:388 original size:27 final size:26

Alignment explanation


    Indices: 354--441  Score: 115
    Period size: 26  Copynumber: 3.3  Consensus size: 26

        344 TGTCTCTTCT

                                       
        354 CCTCCACCTTCATCACCACCCCCCTCC
          1 CCTCCACCTTCATCACCA-CCCCCTCC

                                      
        381 CCTCCACCTTCATCACCACCCCCTCC
          1 CCTCCACCTTCATCACCACCCCCTCC

                           *     *  *  
        407 CCTCCACC-TCAATCCCCACCACCACC
          1 CCTCCACCTTC-ATCACCACCCCCTCC

                     
        433 ACCTCCACC
          1 -CCTCCACC

        442 ATTAGTGCCT


Statistics
Matches: 56,  Mismatches: 3, Indels: 4
        0.89            0.05        0.06

Matches are distributed among these distances:
  25    2  0.04
  26   28  0.50
  27   26  0.46

ACGTcount: A:0.18, C:0.66, G:0.00, T:0.16


Consensus pattern (26 bp):   
CCTCCACCTTCATCACCACCCCCTCC

Found at i:480 original size:24 final size:24

Alignment explanation


    Indices: 425--483  Score: 64
    Period size: 24  Copynumber: 2.5  Consensus size: 24

        415 TCAATCCCCA

                       *       * * *
        425 CCACCACCACCTCCACCATTAGTG
          1 CCACCACCACCACCACCATCAATC

              **                    
        449 CCTTCACCACCACCACCATCAATC
          1 CCACCACCACCACCACCATCAATC

                       
        473 CCACCACCACC
          1 CCACCACCACC

        484 GCTAGTTCTT


Statistics
Matches: 27,  Mismatches: 8, Indels: 0
        0.77            0.23        0.00

Matches are distributed among these distances:
  24   27  1.00

ACGTcount: A:0.27, C:0.56, G:0.03, T:0.14


Consensus pattern (24 bp):   
CCACCACCACCACCACCATCAATC
Done.