Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold12636.1

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: 2139
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28


Found at i:1628 original size:101 final size:101

Alignment explanation


    Indices: 1453--1656  Score: 345
    Period size: 101  Copynumber: 2.0  Consensus size: 101

       1443 TATGGGCAAT

                                              *                 *            
       1453 GCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAACCAGATCCGAAGCCCGTGCGCCTGCTAG
          1 GCTAGTGGTGGTCAGAGAGGATCTAGAGATGATACAACCAGATCCGAAGCCCATGCGCCTGCTAG

                                                
       1518 AGCTTATGCTATACGTGCCCACGAGGATGCTTCTTC
         66 AGCTTATGCTATACGTGCCCACGAGGATGCTTCTTC

                                           *   *           *  *              
       1554 GCTAGTGGTGGTCAGAGAGGATCTAGAGATGCTACGACCAGATCCGAGGCTCATGCGCCTGCTAG
          1 GCTAGTGGTGGTCAGAGAGGATCTAGAGATGATACAACCAGATCCGAAGCCCATGCGCCTGCTAG

                                *               
       1619 AGCTTATGCTATACGTGCCCGCGAGGATGCTTCTTC
         66 AGCTTATGCTATACGTGCCCACGAGGATGCTTCTTC

              
       1655 GC
          1 GC

       1657 CTGATGTTAT


Statistics
Matches: 96,  Mismatches: 7, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
 101   96  1.00

ACGTcount: A:0.22, C:0.25, G:0.30, T:0.24


Consensus pattern (101 bp):   
GCTAGTGGTGGTCAGAGAGGATCTAGAGATGATACAACCAGATCCGAAGCCCATGCGCCTGCTAG
AGCTTATGCTATACGTGCCCACGAGGATGCTTCTTC

Found at i:2056 original size:109 final size:109

Alignment explanation


    Indices: 1865--2081  Score: 425
    Period size: 109  Copynumber: 2.0  Consensus size: 109

       1855 CCCTGGAAAT

                                                                             
       1865 TCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATCCTTG
          1 TCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATCCTTG

                                                        
       1930 GTTTGGATTGGTTGACCGCGCATGATGCGGTTGTGAATTGCAAG
         66 GTTTGGATTGGTTGACCGCGCATGATGCGGTTGTGAATTGCAAG

                                                                        *    
       1974 TCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATTCTTG
          1 TCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATCCTTG

                                                       
       2039 GTTTGGATTGGTTGACCGCGCATGATGCGGTTGTGAATTGCAA
         66 GTTTGGATTGGTTGACCGCGCATGATGCGGTTGTGAATTGCAA

       2082 AAGCAAGACT


Statistics
Matches: 107,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
 109  107  1.00

ACGTcount: A:0.15, C:0.16, G:0.30, T:0.39


Consensus pattern (109 bp):   
TCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATCCTTG
GTTTGGATTGGTTGACCGCGCATGATGCGGTTGTGAATTGCAAG
Done.