Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Gorai.005G081600.1-JGI_221_v2.1

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, 602

Length: 1004
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31


Found at i:323 original size:30 final size:30

Alignment explanation


    Indices: 261--331  Score: 79
    Period size: 30  Copynumber: 2.4  Consensus size: 30

        251 AACCTCACCA

                 *                  * **  
        261 CCACCTCCACCACCACACAATCCAGTTTCT
          1 CCACCACCACCACCACACAATCCAATCACT

                          *   *           
        291 CCACCACCACCACCCCACCATCCAATCACT
          1 CCACCACCACCACCACACAATCCAATCACT

                 *     
        321 CCACCGCCACC
          1 CCACCACCACC

        332 TCATGTACAT


Statistics
Matches: 34,  Mismatches: 7, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  30   34  1.00

ACGTcount: A:0.27, C:0.58, G:0.03, T:0.13


Consensus pattern (30 bp):   
CCACCACCACCACCACACAATCCAATCACT

Found at i:360 original size:24 final size:24

Alignment explanation


    Indices: 319--377  Score: 64
    Period size: 24  Copynumber: 2.5  Consensus size: 24

        309 CATCCAATCA

                   *     *          
        319 CTCCACCGCCACCTCATGTACATC
          1 CTCCACCACCACCCCATGTACATC

                      *        * *  
        343 CTCCACCACCTCCCCATGTGCGTC
          1 CTCCACCACCACCCCATGTACATC

             *         
        367 CACCACCACCA
          1 CTCCACCACCA

        378 GCACCACTTC


Statistics
Matches: 28,  Mismatches: 7, Indels: 0
        0.80            0.20        0.00

Matches are distributed among these distances:
  24   28  1.00

ACGTcount: A:0.20, C:0.54, G:0.08, T:0.17


Consensus pattern (24 bp):   
CTCCACCACCACCCCATGTACATC
Done.