Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g01192.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: 3336
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31


Found at i:612 original size:5 final size:5

Alignment explanation


    Indices: 602--631  Score: 60
    Period size: 5  Copynumber: 6.0  Consensus size: 5

        592 TGTTTATTCC

                                               
        602 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
          1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA

        632 GGTATTGTTT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   5   25  1.00

ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60


Consensus pattern (5 bp):   
TTTAA

Found at i:2103 original size:21 final size:21

Alignment explanation


    Indices: 2040--2105  Score: 64
    Period size: 21  Copynumber: 3.1  Consensus size: 21

       2030 TTAACTTCGT

                                 
       2040 CAACTAAGCCCACAGTTTCTG
          1 CAACTAAGCCCACAGTTTCTG

              * *     *        *   
       2061 CAGCCAAGGCTC-CA-TCTCCTG
          1 CAACTAA-GCCCACAGT-TTCTG

                                 
       2082 CAACTAAGCCCACAGTTTCTG
          1 CAACTAAGCCCACAGTTTCTG

               
       2103 CAA
          1 CAA

       2106 GATCCTCCAC


Statistics
Matches: 33,  Mismatches: 8, Indels: 8
        0.67            0.16        0.16

Matches are distributed among these distances:
  20    4  0.12
  21   25  0.76
  22    4  0.12

ACGTcount: A:0.27, C:0.36, G:0.15, T:0.21


Consensus pattern (21 bp):   
CAACTAAGCCCACAGTTTCTG

Found at i:2807 original size:15 final size:15

Alignment explanation


    Indices: 2787--2816  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       2777 AAATCACTGG

                  *        
       2787 ATATGGCTATAAGGC
          1 ATATGGATATAAGGC

                           
       2802 ATATGGATATAAGGC
          1 ATATGGATATAAGGC

       2817 GAAGCATTCC


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27


Consensus pattern (15 bp):   
ATATGGATATAAGGC
Done.