Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Gohir.A06G149000.1.v1.1

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, 723

Length: 1206
ACGTcount: A:0.20, C:0.08, G:0.47, T:0.25


Found at i:211 original size:18 final size:18

Alignment explanation


    Indices: 190--224  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

        180 TGGTGGTGCT

                 *     *      
        190 GGAGGTGGAGGTGGAGGG
          1 GGAGGCGGAGGAGGAGGG

                             
        208 GGAGGCGGAGGAGGAGG
          1 GGAGGCGGAGGAGGAGG

        225 TGCCTCTGGT


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   15  1.00

ACGTcount: A:0.20, C:0.03, G:0.71, T:0.06


Consensus pattern (18 bp):   
GGAGGCGGAGGAGGAGGG

Found at i:425 original size:9 final size:9

Alignment explanation


    Indices: 411--449  Score: 51
    Period size: 9  Copynumber: 4.3  Consensus size: 9

        401 TGCAAGGTAT

                  *  
        411 TGGTGGTGG
          1 TGGTGGAGG

                     
        420 TGGTGGAGG
          1 TGGTGGAGG

               * *   
        429 TGGAGAAGG
          1 TGGTGGAGG

                     
        438 TGGTGGAGG
          1 TGGTGGAGG

               
        447 TGG
          1 TGG

        450 CAGTAGTTAT


Statistics
Matches: 25,  Mismatches: 5, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
   9   25  1.00

ACGTcount: A:0.13, C:0.00, G:0.64, T:0.23


Consensus pattern (9 bp):   
TGGTGGAGG

Found at i:537 original size:6 final size:6

Alignment explanation


    Indices: 523--566  Score: 61
    Period size: 6  Copynumber: 7.3  Consensus size: 6

        513 CGAAGGGGTG

                     *      *         *                        
        523 GGAGGT GGTGGT GGTGGT GGAGGG GGAGGT GGAGGT GGAGGT GG
          1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GG

        567 TAAAGGTTCT


Statistics
Matches: 34,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
   6   34  1.00

ACGTcount: A:0.11, C:0.00, G:0.70, T:0.18


Consensus pattern (6 bp):   
GGAGGT

Found at i:879 original size:3 final size:3

Alignment explanation


    Indices: 865--905  Score: 64
    Period size: 3  Copynumber: 13.7  Consensus size: 3

        855 AGAGGTGGGA

                  *                                   *           
        865 GGT GGA GGT GGT GGT GGT GGT GGT GGT GGT GGG GGT GGT GG
          1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG

        906 AGGTTCTAGT


Statistics
Matches: 34,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
   3   34  1.00

ACGTcount: A:0.02, C:0.00, G:0.71, T:0.27


Consensus pattern (3 bp):   
GGT

Found at i:1043 original size:18 final size:18

Alignment explanation


    Indices: 1022--1057  Score: 54
    Period size: 18  Copynumber: 2.0  Consensus size: 18

       1012 GGTGGTTCGA

                 *       *    
       1022 GTGGAGGTGGAGGCGGAG
          1 GTGGAAGTGGAGGAGGAG

                              
       1040 GTGGAAGTGGAGGAGGAG
          1 GTGGAAGTGGAGGAGGAG

       1058 AAGGGATGGG


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.22, C:0.03, G:0.64, T:0.11


Consensus pattern (18 bp):   
GTGGAAGTGGAGGAGGAG
Done.