Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2908

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, 496

Length: 827
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30


Found at i:242 original size:108 final size:109

Alignment explanation


    Indices: 5--400  Score: 573
    Period size: 109  Copynumber: 3.6  Consensus size: 109

          1 GTTA

                *                               **         *               * 
          5 AACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTTTCGAATTTCTAAACGCAAAACATTGTC
          1 AACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC

                          *                            *
         70 TTATTTTTGAAAAGCTTTTAAAAGGATATTTAGCTATTTGGTCA
         66 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG

                                *                                     *      
        114 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
          1 AACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC

               *                           *            * 
        179 TT-GTTTTGAAAA-TTTTTGAAAAGGATATTAAG-TCATTTGGTGG
         66 TTATTTTTGAAAAGTTTTT-AAAAGGATATTTAGCT-ATTTGGTCG

                                *                                            
        222 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
          1 AACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC

                                                        
        287 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG
         66 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG

                           *  *               *    *                         
        331 AACGAGAAAAATCGACACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATT
          1 AACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACGCAAAACATT

                 
        396 GCCTT
         63 GCCTT

        401 TATTATTTTT


Statistics
Matches: 258,  Mismatches: 21, Indels: 13
        0.88            0.07        0.04

Matches are distributed among these distances:
 107    5  0.02
 108   95  0.37
 109   96  0.37
 110    6  0.02
 111   24  0.09
 112   32  0.12

ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30


Consensus pattern (109 bp):   
AACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG
Done.