Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g01612.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: 1874
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34


Found at i:1732 original size:25 final size:25

Alignment explanation


    Indices: 1704--1791  Score: 79
    Period size: 25  Copynumber: 3.5  Consensus size: 25

       1694 CCCCAAAAAT

                                     
       1704 AATTAAACTCATTTACCAAGATCTC
          1 AATTAAACTCATTTACCAAGATCTC

                 *       *  *****     
       1729 AATTATACTCACTGTAATTTCATCTC
          1 AATTAAACTCA-TTTACCAAGATCTC

               *                     
       1755 -ATCAAACTCATTTACCAAGATCTC
          1 AATTAAACTCATTTACCAAGATCTC

                 *       
       1779 AATTATACTCATT
          1 AATTAAACTCATT

       1792 GTAATTTCAT


Statistics
Matches: 44,  Mismatches: 17, Indels: 4
        0.68            0.26        0.06

Matches are distributed among these distances:
  24    8  0.18
  25   28  0.64
  26    8  0.18

ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36


Consensus pattern (25 bp):   
AATTAAACTCATTTACCAAGATCTC

Found at i:1768 original size:50 final size:50

Alignment explanation


    Indices: 1708--1808  Score: 193
    Period size: 50  Copynumber: 2.0  Consensus size: 50

       1698 AAAAATAATT

                                                              
       1708 AAACTCATTTACCAAGATCTCAATTATACTCACTGTAATTTCATCTCATC
          1 AAACTCATTTACCAAGATCTCAATTATACTCACTGTAATTTCATCTCATC

                                            *                 
       1758 AAACTCATTTACCAAGATCTCAATTATACTCATTGTAATTTCATCTCATC
          1 AAACTCATTTACCAAGATCTCAATTATACTCACTGTAATTTCATCTCATC

             
       1808 A
          1 A

       1809 TCTGTCAATG


Statistics
Matches: 50,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  50   50  1.00

ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37


Consensus pattern (50 bp):   
AAACTCATTTACCAAGATCTCAATTATACTCACTGTAATTTCATCTCATC
Done.