Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01139.N7

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, 577

Length: 962
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36


Found at i:158 original size:40 final size:40

Alignment explanation


    Indices: 109--184  Score: 143
    Period size: 40  Copynumber: 1.9  Consensus size: 40

         99 TCTTTCTGCA

                                                    
        109 AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAAGGCC
          1 AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAAGGCC

                         *                      
        149 AATCTCATTCCTCTCTTTCTCTCTTTCTCAGGCAAA
          1 AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAA

        185 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:187 original size:34 final size:34

Alignment explanation


    Indices: 88--196  Score: 125
    Period size: 40  Copynumber: 3.1  Consensus size: 34

         78 CATCTTCTTT

                  *                           
         88 CTCTCTCTCTCTCTTTCT---GCAAATCTCATTC
          1 CTCTCTTTCTCTCTTTCTCAGGCAAATCTCATTC

               *                                    
        119 CTCCCTTTCTCTCTTTCTCAGGCAAAGGCCAATCTCATTC
          1 CTCTCTTTCTCTCTTTCTCAGGC--A----AATCTCATTC

                                              
        159 CTCTCTTTCTCTCTTTCTCAGGCAAATCTCATTC
          1 CTCTCTTTCTCTCTTTCTCAGGCAAATCTCATTC

                
        193 CTCT
          1 CTCT

        197 TCGCAAGGTC


Statistics
Matches: 66,  Mismatches: 3, Indels: 15
        0.79            0.04        0.18

Matches are distributed among these distances:
  31   16  0.24
  34   16  0.24
  36    1  0.02
  38    1  0.02
  40   32  0.48

ACGTcount: A:0.15, C:0.38, G:0.06, T:0.41


Consensus pattern (34 bp):   
CTCTCTTTCTCTCTTTCTCAGGCAAATCTCATTC
Done.