Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g01866.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, 777

Length: 1296
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26


Found at i:1008 original size:21 final size:21

Alignment explanation


    Indices: 978--1066  Score: 90
    Period size: 21  Copynumber: 4.1  Consensus size: 21

        968 CTCACAAAGA

                        * *      
        978 AAAAAG-GAAGTGAGTTAGAC
          1 AAAAAGAGAAGTAACTTAGAC

                       *     *   
        998 AAAAAGAGAAGCAACTTGGAC
          1 AAAAAGAGAAGTAACTTAGAC

                             *   
       1019 AAAAAGAGAAGTAACTTGGAC
          1 AAAAAGAGAAGTAACTTAGAC

                           *        
       1040 AAAAAGAAACGAAGTGACTTAGAC
          1 AAAAAG--A-GAAGTAACTTAGAC

               
       1064 AAA
          1 AAA

       1067 TCTTTTTTGT


Statistics
Matches: 58,  Mismatches: 7, Indels: 4
        0.84            0.10        0.06

Matches are distributed among these distances:
  20    6  0.10
  21   36  0.62
  23    1  0.02
  24   15  0.26

ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12


Consensus pattern (21 bp):   
AAAAAGAGAAGTAACTTAGAC

Found at i:1059 original size:24 final size:21

Alignment explanation


    Indices: 978--1046  Score: 95
    Period size: 21  Copynumber: 3.3  Consensus size: 21

        968 CTCACAAAGA

                        * *  *   
        978 AAAAAG-GAAGTGAGTTAGAC
          1 AAAAAGAGAAGTAACTTGGAC

                       *         
        998 AAAAAGAGAAGCAACTTGGAC
          1 AAAAAGAGAAGTAACTTGGAC

                                 
       1019 AAAAAGAGAAGTAACTTGGAC
          1 AAAAAGAGAAGTAACTTGGAC

                   
       1040 AAAAAGA
          1 AAAAAGA

       1047 AACGAAGTGA


Statistics
Matches: 43,  Mismatches: 5, Indels: 1
        0.88            0.10        0.02

Matches are distributed among these distances:
  20    6  0.14
  21   37  0.86

ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12


Consensus pattern (21 bp):   
AAAAAGAGAAGTAACTTGGAC
Done.