Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3732

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, 405

Length: 675
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30


Found at i:119 original size:4 final size:4

Alignment explanation


    Indices: 90--142  Score: 79
    Period size: 4  Copynumber: 13.2  Consensus size: 4

         80 CAAATTCATG

                  *    *              *                                
         90 TGTA TATA TATA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA
          1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA

                  
        138 TGTA T
          1 TGTA T

        143 TTCCGCCTTT


Statistics
Matches: 45,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
   4   45  1.00

ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51


Consensus pattern (4 bp):   
TGTA

Found at i:584 original size:45 final size:45

Alignment explanation


    Indices: 512--661  Score: 180
    Period size: 45  Copynumber: 3.4  Consensus size: 45

        502 GGAGCAGGGC

                                                 *   *    
        512 CGCACAGTGGGTC-GGGGG-AGAAAGTTTTTGGACAAGCTGATCGT
          1 CGCACAGTGGGTCAGGGGGAAG-AAGTTTTTGGACAAACTGTTCGT

                                                   *     
        556 CGCACAGTGGGTCAGGGGGAAGAAGTTTTTGGACAAACTTTTCGT
          1 CGCACAGTGGGTCAGGGGGAAGAAGTTTTTGGACAAACTGTTCGT

                           *          * **    *   *       
        601 CGCACAGTGGGTCA-AGGGAAGGAAGATGCTGGATAAATTGTTCGT
          1 CGCACAGTGGGTCAGGGGGAA-GAAGTTTTTGGACAAACTGTTCGT

                            
        646 CGCACAGTGGGTCAGG
          1 CGCACAGTGGGTCAGG

        662 TTAAATGATC


Statistics
Matches: 91,  Mismatches: 11, Indels: 6
        0.84            0.10        0.06

Matches are distributed among these distances:
  44   18  0.20
  45   71  0.78
  46    2  0.02

ACGTcount: A:0.25, C:0.16, G:0.37, T:0.23


Consensus pattern (45 bp):   
CGCACAGTGGGTCAGGGGGAAGAAGTTTTTGGACAAACTGTTCGT
Done.