Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03184.F5

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: 2668
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32


Found at i:1180 original size:22 final size:22

Alignment explanation


    Indices: 1152--1197  Score: 92
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       1142 TTCCTATCGA

                                  
       1152 AACATATAATTTCTACTCGTGC
          1 AACATATAATTTCTACTCGTGC

                                  
       1174 AACATATAATTTCTACTCGTGC
          1 AACATATAATTTCTACTCGTGC

              
       1196 AA
          1 AA

       1198 GTATCCAGTT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   24  1.00

ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35


Consensus pattern (22 bp):   
AACATATAATTTCTACTCGTGC

Found at i:1395 original size:3 final size:3

Alignment explanation


    Indices: 1387--1452  Score: 69
    Period size: 3  Copynumber: 22.0  Consensus size: 3

       1377 CATGTTCAGG

                                                *   *   *   *       *      
       1387 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA CAA CAA CAA TAA CAA TAA
          1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA

            *       *              
       1435 CAA TAA CAA TAA TAA TAA
          1 TAA TAA TAA TAA TAA TAA

       1453 CCACCACCAT


Statistics
Matches: 55,  Mismatches: 8, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
   3   55  1.00

ACGTcount: A:0.67, C:0.11, G:0.00, T:0.23


Consensus pattern (3 bp):   
TAA

Found at i:1404 original size:12 final size:12

Alignment explanation


    Indices: 1387--1453  Score: 80
    Period size: 12  Copynumber: 5.6  Consensus size: 12

       1377 CATGTTCAGG

                  *     
       1387 TAATAATAATAA
          1 TAATAACAATAA

                  *     
       1399 TAATAATAATAA
          1 TAATAACAATAA

               *     *  
       1411 TAACAACAACAA
          1 TAATAACAATAA

            *           
       1423 CAATAACAATAA
          1 TAATAACAATAA

            *           
       1435 CAATAACAATAA
          1 TAATAACAATAA

                   
       1447 TAATAAC
          1 TAATAAC

       1454 CACCACCATG


Statistics
Matches: 48,  Mismatches: 7, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  12   48  1.00

ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22


Consensus pattern (12 bp):   
TAATAACAATAA
Done.