Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_303 ID=scaffold_303-JGI_221_v2.0

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: 8404
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35


Found at i:348 original size:32 final size:32

Alignment explanation


    Indices: 294--354  Score: 81
    Period size: 32  Copynumber: 1.9  Consensus size: 32

        284 AAATAAACAC

                                            
        294 ATAATTATTCATTTAATATTATAACTATTCAA
          1 ATAATTATTCATTTAATATTATAACTATTCAA

                                      *    
        326 ATAA-TATT-ATTTAAATAGTTATAATTATT
          1 ATAATTATTCATTT-AATA-TTATAACTATT

        355 TTTCAAAAAA


Statistics
Matches: 26,  Mismatches: 1, Indels: 4
        0.84            0.03        0.13

Matches are distributed among these distances:
  30    4  0.15
  31    8  0.31
  32   14  0.54

ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49


Consensus pattern (32 bp):   
ATAATTATTCATTTAATATTATAACTATTCAA

Found at i:4065 original size:3 final size:3

Alignment explanation


    Indices: 3975--4046  Score: 110
    Period size: 3  Copynumber: 24.3  Consensus size: 3

       3965 TAAATAAGTA

                                                                          *
       3975 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT

            *       *                        
       4023 GAT -AT GAT AAT AAT AAT AAT AAT A
          1 AAT AAT AAT AAT AAT AAT AAT AAT A

       4047 GCCTAATTAA


Statistics
Matches: 64,  Mismatches: 4, Indels: 2
        0.91            0.06        0.03

Matches are distributed among these distances:
   2    2  0.03
   3   62  0.97

ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32


Consensus pattern (3 bp):   
AAT
Done.