Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01887.F4

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: 3060
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31


Found at i:1575 original size:9 final size:9

Alignment explanation


    Indices: 1561--1619  Score: 52
    Period size: 9  Copynumber: 6.9  Consensus size: 9

       1551 GATGGAGCCC

                     
       1561 CCTCCTCCA
          1 CCTCCTCCA

                    *
       1570 CCTCCTCCT
          1 CCTCCTCCA

              *     *
       1579 CCGCCTCCG
          1 CCTCCTCCA

                 *   
       1588 CCTCCCCCA
          1 CCTCCTCCA

                  *  
       1597 CCTCC-GC-
          1 CCTCCTCCA

                     
       1604 CC-CCTCCA
          1 CCTCCTCCA

                    
       1612 CCTCCTCC
          1 CCTCCTCC

       1620 GGCACTTGCT


Statistics
Matches: 39,  Mismatches: 8, Indels: 6
        0.74            0.15        0.11

Matches are distributed among these distances:
   6    2  0.05
   7    3  0.08
   8    3  0.08
   9   31  0.79

ACGTcount: A:0.05, C:0.71, G:0.05, T:0.19


Consensus pattern (9 bp):   
CCTCCTCCA

Found at i:1591 original size:15 final size:15

Alignment explanation


    Indices: 1561--1616  Score: 64
    Period size: 15  Copynumber: 3.9  Consensus size: 15

       1551 GATGGAGCCC

                           
       1561 CCTCCTCCACCT---
          1 CCTCCTCCACCTCCG

                    *      
       1573 CCTCCTCCGCCTCCG
          1 CCTCCTCCACCTCCG

                 *         
       1588 CCTCCCCCACCTCCG
          1 CCTCCTCCACCTCCG

              *           
       1603 CCCCCTCCACCTCC
          1 CCTCCTCCACCTCC

       1617 TCCGGCACTT


Statistics
Matches: 36,  Mismatches: 5, Indels: 3
        0.82            0.11        0.07

Matches are distributed among these distances:
  12   11  0.31
  15   25  0.69

ACGTcount: A:0.05, C:0.71, G:0.05, T:0.18


Consensus pattern (15 bp):   
CCTCCTCCACCTCCG
Done.