Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1511

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, 974

Length: 1624
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.32

Warning! 247 characters in sequence are not A, C, G, or T


Found at i:84 original size:29 final size:29

Alignment explanation


    Indices: 51--113  Score: 117
    Period size: 29  Copynumber: 2.2  Consensus size: 29

         41 AACTGTATAG

                  *                      
         51 TTCTTGTTGTCCTAGCCTCTACCTCAGCA
          1 TTCTTGCTGTCCTAGCCTCTACCTCAGCA

                                         
         80 TTCTTGCTGTCCTAGCCTCTACCTCAGCA
          1 TTCTTGCTGTCCTAGCCTCTACCTCAGCA

                 
        109 TTCTT
          1 TTCTT

        114 ACTCCTGTTG


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  29   33  1.00

ACGTcount: A:0.13, C:0.35, G:0.13, T:0.40


Consensus pattern (29 bp):   
TTCTTGCTGTCCTAGCCTCTACCTCAGCA

Found at i:794 original size:46 final size:46

Alignment explanation


    Indices: 671--819  Score: 211
    Period size: 46  Copynumber: 3.3  Consensus size: 46

        661 CTTGAATCAA

                                                ***        
        671 GTTTTTGCAATAAACAACAATACTTAAATAATCAAATTTATAATAAT
          1 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACACA-AATAAT

                                                          
        718 GTTTTTGCAATAAACAAC-A-A--T--ATAATCAAACACAAATAAT
          1 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACACAAATAAT

                                                  *       
        758 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACAGAAATAAT
          1 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACACAAATAAT

                            
        804 GTTTTTGCAATAAACA
          1 GTTTTTGCAATAAACA

        820 TTAAAGTATT


Statistics
Matches: 92,  Mismatches: 4, Indels: 13
        0.84            0.04        0.12

Matches are distributed among these distances:
  40   24  0.26
  41   11  0.12
  42    1  0.01
  43    1  0.01
  44    1  0.01
  45    1  0.01
  46   35  0.38
  47   18  0.20

ACGTcount: A:0.50, C:0.13, G:0.06, T:0.32


Consensus pattern (46 bp):   
GTTTTTGCAATAAACAACAATACTTAAATAATCAAACACAAATAAT
Done.