Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01656.N1

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: 2338
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31


Found at i:1395 original size:6 final size:6

Alignment explanation


    Indices: 1384--1439  Score: 58
    Period size: 6  Copynumber: 9.3  Consensus size: 6

       1374 GTAACCAGTG

                                        **      *      *      *    
       1384 CACCAT CACCAT CACCAT CACCAT TTCCAT CTCCAT CTCCAT CTCCAT
          1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT

             *       
       1432 CTCCAT CA
          1 CACCAT CA

       1440 TCTTCAAGTG


Statistics
Matches: 46,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
   6   46  1.00

ACGTcount: A:0.25, C:0.48, G:0.00, T:0.27


Consensus pattern (6 bp):   
CACCAT

Found at i:1401 original size:12 final size:12

Alignment explanation


    Indices: 1386--1439  Score: 72
    Period size: 12  Copynumber: 4.5  Consensus size: 12

       1376 AACCAGTGCA

                       *
       1386 CCATCACCATCA
          1 CCATCACCATCT

                      * 
       1398 CCATCACCATTT
          1 CCATCACCATCT

                 *      
       1410 CCATCTCCATCT
          1 CCATCACCATCT

                 *      
       1422 CCATCTCCATCT
          1 CCATCACCATCT

                  
       1434 CCATCA
          1 CCATCA

       1440 TCTTCAAGTG


Statistics
Matches: 37,  Mismatches: 5, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  12   37  1.00

ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28


Consensus pattern (12 bp):   
CCATCACCATCT

Found at i:1407 original size:18 final size:18

Alignment explanation


    Indices: 1384--1439  Score: 76
    Period size: 18  Copynumber: 3.1  Consensus size: 18

       1374 GTAACCAGTG

                   *     *    
       1384 CACCATCACCATCACCAT
          1 CACCATCTCCATCTCCAT

                  *           
       1402 CACCATTTCCATCTCCAT
          1 CACCATCTCCATCTCCAT

             *                
       1420 CTCCATCTCCATCTCCAT
          1 CACCATCTCCATCTCCAT

              
       1438 CA
          1 CA

       1440 TCTTCAAGTG


Statistics
Matches: 32,  Mismatches: 6, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  18   32  1.00

ACGTcount: A:0.25, C:0.48, G:0.00, T:0.27


Consensus pattern (18 bp):   
CACCATCTCCATCTCCAT
Done.