Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold3449

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: 14083
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34


Found at i:402 original size:22 final size:22

Alignment explanation


    Indices: 368--409  Score: 68
    Period size: 22  Copynumber: 1.9  Consensus size: 22

        358 AATTTTTTAA

                                   
        368 ATTTTAAAAAAATAATAAAATTT
          1 ATTTTAAAAAAATAA-AAAATTT

                                
        391 ATTTT-AAAAAATAAAAAAT
          1 ATTTTAAAAAAATAAAAAAT

        410 CACTAAAGTT


Statistics
Matches: 19,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  21    5  0.26
  22    9  0.47
  23    5  0.26

ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36


Consensus pattern (22 bp):   
ATTTTAAAAAAATAAAAAATTT

Found at i:7134 original size:29 final size:29

Alignment explanation


    Indices: 7101--7160  Score: 120
    Period size: 29  Copynumber: 2.1  Consensus size: 29

       7091 GGTGAAAGTT

                                         
       7101 AGAAAGCTCACATCATTTGTTTTAATGAA
          1 AGAAAGCTCACATCATTTGTTTTAATGAA

                                         
       7130 AGAAAGCTCACATCATTTGTTTTAATGAA
          1 AGAAAGCTCACATCATTTGTTTTAATGAA

              
       7159 AG
          1 AG

       7161 TCTTACTCAA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  29   31  1.00

ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33


Consensus pattern (29 bp):   
AGAAAGCTCACATCATTTGTTTTAATGAA
Done.