Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold945

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: 3200
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34


Found at i:675 original size:23 final size:24

Alignment explanation


    Indices: 630--676  Score: 62
    Period size: 23  Copynumber: 2.0  Consensus size: 24

        620 CAAAGAATTG

                              *     
        630 AACACAAATTCAATTAAGCACAAA
          1 AACACAAATTCAATTAAGAACAAA

                                     
        654 AACACAAA-TCAATTGAA-AACAAA
          1 AACACAAATTCAATT-AAGAACAAA

        677 TTTTCAACAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 3
        0.84            0.04        0.12

Matches are distributed among these distances:
  23   11  0.52
  24   10  0.48

ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15


Consensus pattern (24 bp):   
AACACAAATTCAATTAAGAACAAA

Found at i:2037 original size:21 final size:22

Alignment explanation


    Indices: 2013--2055  Score: 61
    Period size: 21  Copynumber: 2.0  Consensus size: 22

       2003 AGCTATTTCT

                *                 
       2013 TCATTTTCATCAACC-TCTTGA
          1 TCATCTTCATCAACCATCTTGA

                        *         
       2034 TCATCTTCATCATCCATCTTGA
          1 TCATCTTCATCAACCATCTTGA

       2056 ATGGTTGATT


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  21   13  0.68
  22    6  0.32

ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42


Consensus pattern (22 bp):   
TCATCTTCATCAACCATCTTGA
Done.