Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g01297.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: 2682
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41


Found at i:742 original size:3 final size:3

Alignment explanation


    Indices: 728--770  Score: 59
    Period size: 3  Copynumber: 14.3  Consensus size: 3

        718 TCGTCCCATG

                     *                       *   *                   
        728 TCA TCA TTA TCA TCA TCA TCA TCA TTA TTA TCA TCA TCA TCA T
          1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T

        771 AAGTCCCTAA


Statistics
Matches: 36,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
   3   36  1.00

ACGTcount: A:0.33, C:0.26, G:0.00, T:0.42


Consensus pattern (3 bp):   
TCA

Found at i:751 original size:18 final size:18

Alignment explanation


    Indices: 728--770  Score: 77
    Period size: 18  Copynumber: 2.4  Consensus size: 18

        718 TCGTCCCATG

                              
        728 TCATCATTATCATCATCA
          1 TCATCATTATCATCATCA

                      *       
        746 TCATCATTATTATCATCA
          1 TCATCATTATCATCATCA

                   
        764 TCATCAT
          1 TCATCAT

        771 AAGTCCCTAA


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  18   24  1.00

ACGTcount: A:0.33, C:0.26, G:0.00, T:0.42


Consensus pattern (18 bp):   
TCATCATTATCATCATCA

Found at i:1849 original size:3 final size:3

Alignment explanation


    Indices: 1843--1902  Score: 102
    Period size: 3  Copynumber: 20.0  Consensus size: 3

       1833 GGTTTTGGCG

                             *        *                                    
       1843 CTT CTT CTT CTT CAT CTT CTA CTT CTT CTT CTT CTT CTT CTT CTT CTT
          1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT

                           
       1891 CTT CTT CTT CTT
          1 CTT CTT CTT CTT

       1903 GTTGCTGTTG


Statistics
Matches: 53,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   3   53  1.00

ACGTcount: A:0.03, C:0.33, G:0.00, T:0.63


Consensus pattern (3 bp):   
CTT

Done.