Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g00995.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, 1000

Length: 5844
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28


Found at i:1525 original size:42 final size:42

Alignment explanation


    Indices: 1466--1552  Score: 174
    Period size: 42  Copynumber: 2.1  Consensus size: 42

       1456 CCAAAAAGTG

                                                      
       1466 CATTGATGGAGTCTCATGGGAGGCAAGAAGAACATCCTGGTC
          1 CATTGATGGAGTCTCATGGGAGGCAAGAAGAACATCCTGGTC

                                                      
       1508 CATTGATGGAGTCTCATGGGAGGCAAGAAGAACATCCTGGTC
          1 CATTGATGGAGTCTCATGGGAGGCAAGAAGAACATCCTGGTC

               
       1550 CAT
          1 CAT

       1553 CAGAAACATC


Statistics
Matches: 45,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  42   45  1.00

ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22


Consensus pattern (42 bp):   
CATTGATGGAGTCTCATGGGAGGCAAGAAGAACATCCTGGTC

Found at i:5332 original size:21 final size:21

Alignment explanation


    Indices: 5308--5355  Score: 78
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       5298 CATCTTAAAG

                                 
       5308 GCTGCAGAACAGTTTGTCATC
          1 GCTGCAGAACAGTTTGTCATC

                 *               
       5329 GCTGCGGAACAGTTTGTCATC
          1 GCTGCAGAACAGTTTGTCATC

            *     
       5350 ACTGCA
          1 GCTGCA

       5356 AAGAAGCTGG


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   24  1.00

ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27


Consensus pattern (21 bp):   
GCTGCAGAACAGTTTGTCATC
Done.