Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: LOC111288338

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, 895

Length: 1492
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28


Found at i:1409 original size:3 final size:3

Alignment explanation


    Indices: 1403--1431  Score: 58
    Period size: 3  Copynumber: 9.7  Consensus size: 3

       1393 TGAAGAAGAA

                                                  
       1403 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
          1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA

       1432 AAATGAAAAT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   26  1.00

ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31


Consensus pattern (3 bp):   
GAT

Found at i:1437 original size:12 final size:12

Alignment explanation


    Indices: 1410--1466  Score: 51
    Period size: 12  Copynumber: 4.8  Consensus size: 12

       1400 GAAGATGATG

                      **
       1410 ATGATGATGATG
          1 ATGATGATGAAA

                        
       1422 ATGATGATGAAA
          1 ATGATGATGAAA

                **      
       1434 ATGAAAATGAAA
          1 ATGATGATGAAA

                   *  * 
       1446 ATGATGAAGACA
          1 ATGATGATGAAA

                *    
       1458 ATGAAGATG
          1 ATGATGATG

       1467 GGAGTCATGG


Statistics
Matches: 35,  Mismatches: 10, Indels: 0
        0.78            0.22        0.00

Matches are distributed among these distances:
  12   35  1.00

ACGTcount: A:0.49, C:0.02, G:0.26, T:0.23


Consensus pattern (12 bp):   
ATGATGATGAAA
Done.