Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold66

Parameters: 2 7 7 80 10 50 500

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500

Length: 23368
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25


Found at i:21872 original size:18 final size:18

Alignment explanation


    Indices: 21849--21935  Score: 111
    Period size: 18  Copynumber: 4.8  Consensus size: 18

      21839 GCGGAGAGAA

                              
      21849 TGCTCCAGGTTGACAGGT
          1 TGCTCCAGGTTGACAGGT

             *      *       * 
      21867 TTCTCCAGATTGACAGAT
          1 TGCTCCAGGTTGACAGGT

                  *           
      21885 TGCTCCGGGTTGACAGGT
          1 TGCTCCAGGTTGACAGGT

                 *           *
      21903 TGCTCTAGGTTGACAGGA
          1 TGCTCCAGGTTGACAGGT

               *           
      21921 TGCCCCAGGTTGACA
          1 TGCTCCAGGTTGACA

      21936 TGCAGCTCCA


Statistics
Matches: 57,  Mismatches: 12, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  18   57  1.00

ACGTcount: A:0.20, C:0.23, G:0.30, T:0.28


Consensus pattern (18 bp):   
TGCTCCAGGTTGACAGGT

Left flanking sequence: Indices 21349 -- 21848
GCGTGGAAAGCAGCTGAGACTTAACCCGTTTGGTGGAATGGGCAAACAGCCGTGTTTTCGAAACT
TTCCCAAAACGTTGCGTGGACAACGGTCGTTTCTCAAAAGAGCTTTTTCTGTTTGAGAGAGAGTT
GGTATGATCCCCAGGAAAAACGCCAGGAGTTTTTCTTTGCACCCAGTCAGCCTTGGCTGTCAGCT
CAGACTCCTTTAAGTTGATCGCTTCATCACGCACATGAACCTTACGCTTCTTTCCCGACTGAAGG
CCCAGCTCAGGACCATGTCTTGTCTGAAGGCCCTGCTCGGAACCACGAACGTTTCGCATCAAATC
GGGGCCATTCTCCTTAAATCGCTCCGGACTGAAGTATTGAACCAGGCTGACATACGGCCCCAGTC
TAGCAAACAGCTCCGGGCTGACTGGCAGCCCCAGGCTGACGTACAGTGGCGGGCTCGCATACAAC
TTTTGGCTAGGATCCAGGCTGGTATACAACTCCAGGCGGAGAGAA


Right flanking sequence: Indices 21936 -- 22435
TGCAGCTCCAAAAAGGCAATTCGGTCTTTCAAAGGTAAGAGCTCTTGCTCGATACTTCTGGCAGC
GTGCGAAAAACCCAATTGAAAACAGGGGCAACAACTTTGAGGCTGGTTCTGAGCATGATAGGGCT
CTGTTTCCTGGTTAGCTTTTTTGGCTGCCGATTCCAGCGGCAAGGTAGCCTTCGAAACTAATGAT
TTCAATCTGGACTCATGGTCAAAGTTAGACAATAACTGGTTACTAATACGGGGAGCTGAGGGGGC
GTTAGTGGGGCGCTTCCGACTGCTCCGGTAGTATTCGCCGTTGTTGTGCGGTTTAAGAGAGGGCG
ATTGGGACATGGGTACTATGAGCGCTTTAATAATAGGTGGTGGCAAAAAAATGTGGACATGGAGA
GGACGCGTCGCAGGGATTGCGCTGGGGCCAGTCCCCTCCTCAGGAGGATGCGTGAGGACCTGGGT
GGTCCCACCCATAATTCAAGTTTTTGAATGCAGTCCGTTTTTGGC



Done.