Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1588

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: 68069
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28


Found at i:30118 original size:9 final size:9

Alignment explanation


    Indices: 30104--30128  Score: 50
    Period size: 9  Copynumber: 2.8  Consensus size: 9

      30094 TTCGATACAA

                     
      30104 TTTATTTAT
          1 TTTATTTAT

                     
      30113 TTTATTTAT
          1 TTTATTTAT

                   
      30122 TTTATTT
          1 TTTATTT

      30129 TAGTTCCCAT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   16  1.00

ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80


Consensus pattern (9 bp):   
TTTATTTAT

Found at i:44019 original size:24 final size:24

Alignment explanation


    Indices: 43977--44025  Score: 62
    Period size: 24  Copynumber: 2.0  Consensus size: 24

      43967 ATTCGGATTC

                   *     *          
      43977 GTTACTTGGGGCTGATGAGGATGA
          1 GTTACTTCGGGCTCATGAGGATGA

                          *     *   
      44001 GTTACTTCGGGCTCCTGAGGGTGA
          1 GTTACTTCGGGCTCATGAGGATGA

             
      44025 G
          1 G

      44026 GAATCCGTTG


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  24   21  1.00

ACGTcount: A:0.16, C:0.14, G:0.41, T:0.29


Consensus pattern (24 bp):   
GTTACTTCGGGCTCATGAGGATGA
Done.