Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1306

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: 2080
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35


Found at i:1953 original size:16 final size:16

Alignment explanation


    Indices: 1934--1973  Score: 53
    Period size: 16  Copynumber: 2.5  Consensus size: 16

       1924 AAAGTTTGTG

                         *  
       1934 TAAAAAAATATATCTA
          1 TAAAAAAATATATATA

                  *         
       1950 TAAAAATATATATATA
          1 TAAAAAAATATATATA

            *       
       1966 GAAAAAAA
          1 TAAAAAAA

       1974 AGATTTTGAT


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  16   20  1.00

ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28


Consensus pattern (16 bp):   
TAAAAAAATATATATA

Found at i:1954 original size:14 final size:14

Alignment explanation


    Indices: 1937--1970  Score: 50
    Period size: 14  Copynumber: 2.4  Consensus size: 14

       1927 GTTTGTGTAA

                      *   
       1937 AAAAATATATCTAT
          1 AAAAATATATATAT

                          
       1951 AAAAATATATATAT
          1 AAAAATATATATAT

                  
       1965 AGAAAA
          1 A-AAAA

       1971 AAAAGATTTT


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  14   14  0.78
  15    4  0.22

ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29


Consensus pattern (14 bp):   
AAAAATATATATAT
Done.