Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00366.N1

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: 1717
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33


Found at i:396 original size:165 final size:166

Alignment explanation


    Indices: 123--450  Score: 552
    Period size: 165  Copynumber: 2.0  Consensus size: 166

        113 TCGCCATTAA

                                                      *  *                   
        123 TATCCTCCGCTCCCTACAACGCCGAGAATCTAGAGCCTAACGGCTTTTTTTTTTTGTTTTTCCAT
          1 TATCCTCCGCTCCCTACAACGCCGAGAATCTAGAGCCTAACGACTATTTTTTTTTGTTTTTCCAT

                  **                                           *             
        188 ATTTTCTTCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACGAGCATCCATGGCC
         66 ATTTTCCGCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACCAGCATCCATGGCC

                                       *         
        253 CAAACACCT-ATTCATTCTCCCTGCTTTTGAAACTAG
        131 CAAACA-CTGATTCATTCTCCCTGCTTCTGAAACTAG

                    *                                                        
        289 TATCCTCCTCTCCCTACAACGCCGAGAAT-TAGAGCCTAACGACTATTTTTTTTTGTTTTTCCAT
          1 TATCCTCCGCTCCCTACAACGCCGAGAATCTAGAGCCTAACGACTATTTTTTTTTGTTTTTCCAT

                                                                     *       
        353 ATTTTCCGCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACCAGCATTCATGGCC
         66 ATTTTCCGCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACCAGCATCCATGGCC

                  *                          
        418 CAAACATTGATTCATTCTCCCTGCTTCTGAAAC
        131 CAAACACTGATTCATTCTCCCTGCTTCTGAAAC

        451 CTGTTGAATC


Statistics
Matches: 152,  Mismatches: 9, Indels: 3
        0.93            0.05        0.02

Matches are distributed among these distances:
 164    1  0.01
 165  123  0.81
 166   28  0.18

ACGTcount: A:0.23, C:0.31, G:0.11, T:0.35


Consensus pattern (166 bp):   
TATCCTCCGCTCCCTACAACGCCGAGAATCTAGAGCCTAACGACTATTTTTTTTTGTTTTTCCAT
ATTTTCCGCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACCAGCATCCATGGCC
CAAACACTGATTCATTCTCCCTGCTTCTGAAACTAG
Done.