Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2469

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: 3751
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31


Found at i:48 original size:13 final size:13

Alignment explanation


    Indices: 30--54  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

         20 CAAAGATCAG

                         
         30 TGTATCGATACAA
          1 TGTATCGATACAA

                        
         43 TGTATCGATACA
          1 TGTATCGATACA

         55 TTTGAGTAAT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32


Consensus pattern (13 bp):   
TGTATCGATACAA

Found at i:132 original size:33 final size:33

Alignment explanation


    Indices: 95--161  Score: 98
    Period size: 33  Copynumber: 2.0  Consensus size: 33

         85 AGTAGCTTAA

                                             
         95 ATTGTATCGATACAAAAAAATATGTATCGATAC
          1 ATTGTATCGATACAAAAAAATATGTATCGATAC

                           * ***             
        128 ATTGTATCGATACAACATTTTATGTATCGATAC
          1 ATTGTATCGATACAAAAAAATATGTATCGATAC

             
        161 A
          1 A

        162 AATCGTTGAA


Statistics
Matches: 30,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  33   30  1.00

ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34


Consensus pattern (33 bp):   
ATTGTATCGATACAAAAAAATATGTATCGATAC

Found at i:135 original size:13 final size:13

Alignment explanation


    Indices: 117--141  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        107 CAAAAAAATA

                         
        117 TGTATCGATACAT
          1 TGTATCGATACAT

                        
        130 TGTATCGATACA
          1 TGTATCGATACA

        142 ACATTTTATG


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36


Consensus pattern (13 bp):   
TGTATCGATACAT
Done.