Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold589

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: 4407
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37


Found at i:1308 original size:12 final size:12

Alignment explanation


    Indices: 1291--1317  Score: 54
    Period size: 12  Copynumber: 2.2  Consensus size: 12

       1281 ACATATCCGT

                        
       1291 GTCGGACACATA
          1 GTCGGACACATA

                        
       1303 GTCGGACACATA
          1 GTCGGACACATA

               
       1315 GTC
          1 GTC

       1318 ATATCACATT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   15  1.00

ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19


Consensus pattern (12 bp):   
GTCGGACACATA

Found at i:3975 original size:16 final size:16

Alignment explanation


    Indices: 3946--3985  Score: 53
    Period size: 16  Copynumber: 2.5  Consensus size: 16

       3936 TTAAAAATAT

                 *   *     *
       3946 ATATATATATATATAG
          1 ATATAGATACATATAA

                            
       3962 ATATAGATACATATAA
          1 ATATAGATACATATAA

                    
       3978 ATATAGAT
          1 ATATAGAT

       3986 CTCGTTTAAA


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  16   21  1.00

ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38


Consensus pattern (16 bp):   
ATATAGATACATATAA
Done.