Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g02178.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: 2948
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33


Found at i:2020 original size:136 final size:137

Alignment explanation


    Indices: 1753--2036  Score: 493
    Period size: 136  Copynumber: 2.1  Consensus size: 137

       1743 GAGTAGTCTC

                                                                             
       1753 CCCAAAT--GCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                *          * 
       1816 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1881 ACTGTTA
        131 ACTGTTA

                                    *                                        
       1888 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                      *                                      
       1952 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       2017 ACTGTTA
        131 ACTGTTA

              **         
       2024 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       2037 AGGCCCAATG


Statistics
Matches: 141,  Mismatches: 6, Indels: 3
        0.94            0.04        0.02

Matches are distributed among these distances:
 135    7  0.05
 136  123  0.87
 137   11  0.08

ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33


Consensus pattern (137 bp):   
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA

Found at i:2892 original size:21 final size:21

Alignment explanation


    Indices: 2852--2893  Score: 66
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       2842 AATTATTTGT

                           *     
       2852 AAATTATGTTATACCGACGTA
          1 AAATTATGTTATACCAACGTA

                          *      
       2873 AAATTATGTTATACTAACGTA
          1 AAATTATGTTATACCAACGTA

       2894 TTAAGTGATG


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36


Consensus pattern (21 bp):   
AAATTATGTTATACCAACGTA
Done.