Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1054

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: 3117
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22


Found at i:87 original size:55 final size:55

Alignment explanation


    Indices: 3--106  Score: 199
    Period size: 55  Copynumber: 1.9  Consensus size: 55

          1 GT

                                                                   
          3 GTCACAGGGTTAGCAATCCTGCGGACCCCAGCTGGTAACCCCTGCCTCAAAGGGG
          1 GTCACAGGGTTAGCAATCCTGCGGACCCCAGCTGGTAACCCCTGCCTCAAAGGGG

                    *                                        
         58 GTCACAGGTTTAGCAATCCTGCGGACCCCAGCTGGTAACCCCTGCCTCA
          1 GTCACAGGGTTAGCAATCCTGCGGACCCCAGCTGGTAACCCCTGCCTCA

        107 TGGGGTAGTG


Statistics
Matches: 48,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  55   48  1.00

ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18


Consensus pattern (55 bp):   
GTCACAGGGTTAGCAATCCTGCGGACCCCAGCTGGTAACCCCTGCCTCAAAGGGG

Found at i:2103 original size:79 final size:79

Alignment explanation


    Indices: 2008--2164  Score: 296
    Period size: 79  Copynumber: 2.0  Consensus size: 79

       1998 AGGTACCCTA

                                                                             
       2008 AGCAAAGTGTATGGAAAAATCCTGAAAGCAAAAATCGAAGAGGAGTGGAAAGAACATGAAGCGGA
          1 AGCAAAGTGTATGGAAAAATCCTGAAAGCAAAAATCGAAGAGGAGTGGAAAGAACATGAAGCGGA

                          
       2073 AGAGCAAGCAGGTG
         66 AGAGCAAGCAGGTG

                                 *             *                             
       2087 AGCAAAGTGTATGGAAAAATCTTGAAAGCAAAAATTGAAGAGGAGTGGAAAGAACATGAAGCGGA
          1 AGCAAAGTGTATGGAAAAATCCTGAAAGCAAAAATCGAAGAGGAGTGGAAAGAACATGAAGCGGA

                         
       2152 AGAGCAAGCAGGT
         66 AGAGCAAGCAGGT

       2165 TTCAGAGCCG


Statistics
Matches: 76,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  79   76  1.00

ACGTcount: A:0.46, C:0.10, G:0.31, T:0.13


Consensus pattern (79 bp):   
AGCAAAGTGTATGGAAAAATCCTGAAAGCAAAAATCGAAGAGGAGTGGAAAGAACATGAAGCGGA
AGAGCAAGCAGGTG
Done.