Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold52

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: 25382
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26


Found at i:2865 original size:18 final size:18

Alignment explanation


    Indices: 2842--2929  Score: 106
    Period size: 18  Copynumber: 4.9  Consensus size: 18

       2832 TGGAGCTGCA

                       *      
       2842 TGTCAACCTGGGGCATCC
          1 TGTCAACCTGGAGCATCC

                     **    *  
       2860 TGTCAACCTAAAGCAACC
          1 TGTCAACCTGGAGCATCC

                    *          
       2878 TGTCAACCCGGAGCAAT-C
          1 TGTCAACCTGGAGC-ATCC

              *               
       2896 TGCCAACCTGGAGCATCC
          1 TGTCAACCTGGAGCATCC

                            
       2914 TGTCAACCTGGAGCAT
          1 TGTCAACCTGGAGCAT

       2930 TCTCTCCGCC


Statistics
Matches: 57,  Mismatches: 11, Indels: 4
        0.79            0.15        0.06

Matches are distributed among these distances:
  17    2  0.04
  18   54  0.95
  19    1  0.02

ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19


Consensus pattern (18 bp):   
TGTCAACCTGGAGCATCC

Left flanking sequence: Indices 2342 -- 2841
GCCAAAAACGGACTGCAATCAAAAACTTGAAATATGGGTGGGACCACCCAGGTTCTCACGCCTCC
TCCTGAGGAGGGGACTGGCCCCAGCGCAATCCCTGCGACGCGTCCTCTCCATGTCCACATTTTTT
TGCCACCACCTATTATTAAAGCACTCATAGTACCCATGTCCCAATCGCCCTCTCTTAAACCGCAC
AACAACGGCGAATACTACCGGAGCAGTCGGAAGCGCCCCACTAACGCCCCCTCAGCTCCCCGTAT
TAGTAACCAGTTATTGTCTAACTTTGACCATGAGTCCAGATTGAAATCATTAGTTTCGAAGGCTA
CCTTGCAGCTGGAATCGGCAGCCAAAAAAGCTAACCAGGAAACAGAGCCCTATCATGCTCAGAAC
CAGCCTCAAAGTTGTTGCCCCTGTTTTCAATTGGGTGTTTCGCACGCTGCCAGTAGTATCGAGCA
AGAACTCTTACCTTTGAAAGACCGAATTGCCTTTTTGGAGCTGCA


Right flanking sequence: Indices 2930 -- 3429
TCTCTCCGCCTGGAATTGTATACCAGCCTGGATCCTAGCCAAAAGTTGTATGCGAGCCTGCCACT
GTACGTCAGCCTGGGGCTGCCAGTCAGCCCGGAGCTGTTTGCTAGGCTGGGGCCGTATGTCAGCC
TGGTGCAATACTTCAGTCCGGAGCGATTTAAGGAGAATGGCCCCGATTTGATGCGAAACGTTCGT
GGTTCCGAGCAGGGCCTTCAGACAAGTCATGGTTCTGAGCTGGGCCTACAGACGGGAAAGAAGCG
TAAGGTTCATGTGCGTGATGAAGCGATCAACTTAAAGGAGTCTGAGCTGACAGCCAAGGCTGAAT
GGGTGCAAAGAAAAACTCCTGGCGTTTTTCCTGGGGATCATACCAACTCTCTCTCAAACAGAAAA
AGCTCTTTTGAGAAACGACCGTTGTCCACGCAACGTGTTGGGAAAGTTTCGAAAACACGGCTGTT
TGCCCATTCCACCAAACGGGTTAAGTCTCAGCTGCTTTCCACGCA


Done.