Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g02248.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, 807

Length: 1345
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29


Found at i:1260 original size:8 final size:8

Alignment explanation


    Indices: 1237--1276  Score: 55
    Period size: 8  Copynumber: 5.1  Consensus size: 8

       1227 TCCATACATA

                   *
       1237 TATATATA
          1 TATATATG

                    
       1245 TATATATG
          1 TATATATG

                    
       1253 TATATATG
          1 TATATATG

               *    
       1261 TATGTATG
          1 TATATATG

                    
       1269 TATA-ATG
          1 TATATATG

             
       1276 T
          1 T

       1277 CTTTTCTTTG


Statistics
Matches: 29,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
   7    4  0.14
   8   25  0.86

ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50


Consensus pattern (8 bp):   
TATATATG

Found at i:1264 original size:12 final size:12

Alignment explanation


    Indices: 1234--1276  Score: 52
    Period size: 12  Copynumber: 3.7  Consensus size: 12

       1224 TTTTCCATAC

                  *     
       1234 ATATATATATAT
          1 ATATATGTATAT

                        
       1246 ATATATGTATAT
          1 ATATATGTATAT

              *       * 
       1258 ATGTATGTATGT
          1 ATATATGTATAT

                    
       1270 ATA-ATGT
          1 ATATATGT

       1277 CTTTTCTTTG


Statistics
Matches: 27,  Mismatches: 4, Indels: 1
        0.84            0.12        0.03

Matches are distributed among these distances:
  11    4  0.15
  12   23  0.85

ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49


Consensus pattern (12 bp):   
ATATATGTATAT
Done.