Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold956

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: 3888
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.21

Warning! 1088 characters in sequence are not A, C, G, or T


Found at i:1620 original size:98 final size:98

Alignment explanation


    Indices: 1451--1647  Score: 340
    Period size: 98  Copynumber: 2.0  Consensus size: 98

       1441 AAACAATAAA

                                                                         *   
       1451 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACGATC
          1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC

                                   *         
       1516 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
         66 CCTTTAGAATCCCAAACTCGGAAAATTTCCTTT

                                *                 *                         *
       1549 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
          1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC

                       *                     
       1614 CCTTTAGAATCTCAAACTCGGAAAATTTCCTTT
         66 CCTTTAGAATCCCAAACTCGGAAAATTTCCTTT

             
       1647 A
          1 A

       1648 TGATTTTTTT


Statistics
Matches: 93,  Mismatches: 6, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  98   93  1.00

ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27


Consensus pattern (98 bp):   
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAAAATTTCCTTT

Found at i:3613 original size:43 final size:43

Alignment explanation


    Indices: 3547--3634  Score: 158
    Period size: 43  Copynumber: 2.0  Consensus size: 43

       3537 ATTTCAAAAA

                              *                        
       3547 ACAATTATTAGAAATACTGATTTTAAGAAAAATATGTGAAAGG
          1 ACAATTATTAGAAATACTAATTTTAAGAAAAATATGTGAAAGG

                     *                                 
       3590 ACAATTATTTGAAATACTAATTTTAAGAAAAATATGTGAAAGG
          1 ACAATTATTAGAAATACTAATTTTAAGAAAAATATGTGAAAGG

              
       3633 AC
          1 AC

       3635 TAAATTGGAA


Statistics
Matches: 43,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  43   43  1.00

ACGTcount: A:0.49, C:0.06, G:0.15, T:0.31


Consensus pattern (43 bp):   
ACAATTATTAGAAATACTAATTTTAAGAAAAATATGTGAAAGG
Done.