Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1840

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, 753

Length: 1256
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39


Found at i:74 original size:45 final size:45

Alignment explanation


    Indices: 4--142  Score: 145
    Period size: 45  Copynumber: 3.1  Consensus size: 45

          1 AAC

                         *            **                 *
          4 AGTAACAGTATTCAACACACAAAGTGTTGAACCTG-TAAAAGTAAC
          1 AGTAACAGTATTCGACACACAAAGTGCCGAACC-GATAAAAGTAAA

            *    *                        **      *      
         49 GGTAATAGTATTCGACACACAAAGTGCCGAGTCGATAACAGTAAA
          1 AGTAACAGTATTCGACACACAAAGTGCCGAACCGATAAAAGTAAA

                                           * *    *     *
         94 AGTAACAGTATTCGACACACAAAGTGCCGAATCAATAACAGTAAC
          1 AGTAACAGTATTCGACACACAAAGTGCCGAACCGATAAAAGTAAA

                
        139 AGTA
          1 AGTA

        143 GTCGGCACAT


Statistics
Matches: 79,  Mismatches: 14, Indels: 2
        0.83            0.15        0.02

Matches are distributed among these distances:
  44    1  0.01
  45   78  0.99

ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20


Consensus pattern (45 bp):   
AGTAACAGTATTCGACACACAAAGTGCCGAACCGATAAAAGTAAA

Done.