Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1279

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: 2833
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28


Found at i:1324 original size:14 final size:14

Alignment explanation


    Indices: 1305--1335  Score: 62
    Period size: 14  Copynumber: 2.2  Consensus size: 14

       1295 TACAATATAT

                          
       1305 ATAAGAATTATACG
          1 ATAAGAATTATACG

                          
       1319 ATAAGAATTATACG
          1 ATAAGAATTATACG

               
       1333 ATA
          1 ATA

       1336 TATATCCATC


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   17  1.00

ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29


Consensus pattern (14 bp):   
ATAAGAATTATACG

Found at i:1965 original size:14 final size:14

Alignment explanation


    Indices: 1948--2000  Score: 70
    Period size: 14  Copynumber: 3.6  Consensus size: 14

       1938 ATATTTATAT

                          
       1948 TAAATATTATTAAA
          1 TAAATATTATTAAA

                          
       1962 TAAATATTATTAAA
          1 TAAATATTATTAAA

             * *           
       1976 TTATTATTATTAAAA
          1 TAAATATTATT-AAA

                      
       1991 TGAAATATTA
          1 T-AAATATTA

       2001 AAAAAAAAAA


Statistics
Matches: 33,  Mismatches: 4, Indels: 2
        0.85            0.10        0.05

Matches are distributed among these distances:
  14   23  0.70
  15    4  0.12
  16    6  0.18

ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45


Consensus pattern (14 bp):   
TAAATATTATTAAA
Done.