Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00501.N49

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, 542

Length: 904
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35


Found at i:287 original size:40 final size:40

Alignment explanation


    Indices: 238--313  Score: 143
    Period size: 40  Copynumber: 1.9  Consensus size: 40

        228 TCTTTCTGCA

                                                    
        238 AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAAGGCC
          1 AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAAGGCC

                         *                      
        278 AATCTCATTCCTCTCTTTCTCTCTTTCTCAGGCAAA
          1 AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAA

        314 TCTCATTCCT


Statistics
Matches: 35,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  40   35  1.00

ACGTcount: A:0.18, C:0.36, G:0.08, T:0.38


Consensus pattern (40 bp):   
AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAAGGCC

Found at i:316 original size:34 final size:34

Alignment explanation


    Indices: 218--325  Score: 123
    Period size: 40  Copynumber: 3.1  Consensus size: 34

        208 TCATCTTCTT

                 *                            
        218 TCTCTCTCTCTCTTTCT---GCAAATCTCATTCC
          1 TCTCTTTCTCTCTTTCTCAGGCAAATCTCATTCC

              *                                     
        249 TCCCTTTCTCTCTTTCTCAGGCAAAGGCCAATCTCATTCC
          1 TCTCTTTCTCTCTTTCTCAGGC--A----AATCTCATTCC

                                              
        289 TCTCTTTCTCTCTTTCTCAGGCAAATCTCATTCC
          1 TCTCTTTCTCTCTTTCTCAGGCAAATCTCATTCC

               
        323 TCT
          1 TCT

        326 TCGCAAGGTC


Statistics
Matches: 65,  Mismatches: 3, Indels: 15
        0.78            0.04        0.18

Matches are distributed among these distances:
  31   15  0.23
  34   16  0.25
  36    1  0.02
  38    1  0.02
  40   32  0.49

ACGTcount: A:0.15, C:0.37, G:0.06, T:0.42


Consensus pattern (34 bp):   
TCTCTTTCTCTCTTTCTCAGGCAAATCTCATTCC
Done.