Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01103.F1

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: 3580
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30


Found at i:1579 original size:30 final size:30

Alignment explanation


    Indices: 1530--1609  Score: 117
    Period size: 30  Copynumber: 2.7  Consensus size: 30

       1520 CACCTGTTAG

                *    *   *                 
       1530 TTCACCGCCTCCATCATCACAACCTTCCCC-
          1 TTCAACGCCACCACCATCACAACC-TCCCCT

                                          
       1560 TTCAACGCCACCACCATCACAACCTCCCCT
          1 TTCAACGCCACCACCATCACAACCTCCCCT

                                
       1590 TTCAACGCCACCACCATCAC
          1 TTCAACGCCACCACCATCAC

       1610 GATCTCCACC


Statistics
Matches: 46,  Mismatches: 3, Indels: 2
        0.90            0.06        0.04

Matches are distributed among these distances:
  29    5  0.11
  30   41  0.89

ACGTcount: A:0.25, C:0.53, G:0.04, T:0.19


Consensus pattern (30 bp):   
TTCAACGCCACCACCATCACAACCTCCCCT

Found at i:1667 original size:36 final size:36

Alignment explanation


    Indices: 1595--1667  Score: 94
    Period size: 36  Copynumber: 2.0  Consensus size: 36

       1585 CCCCTTTCAA

                           * *        *         
       1595 CGCCACCACCATCACGATCTCCACCACCAAATCCAC
          1 CGCCACCACCATCACAAACTCCACCAACAAATCCAC

                                  *              
       1631 CGCCACCACCATCACAAACTCCGCCAACAGAA-CCAC
          1 CGCCACCACCATCACAAACTCCACCAACA-AATCCAC

             
       1667 C
          1 C

       1668 AAATTCCCGT


Statistics
Matches: 32,  Mismatches: 4, Indels: 2
        0.84            0.11        0.05

Matches are distributed among these distances:
  36   30  0.94
  37    2  0.06

ACGTcount: A:0.33, C:0.52, G:0.07, T:0.08


Consensus pattern (36 bp):   
CGCCACCACCATCACAAACTCCACCAACAAATCCAC
Done.