Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02528.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: 1881
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30


Found at i:1595 original size:3 final size:3

Alignment explanation


    Indices: 1570--1656  Score: 50
    Period size: 3  Copynumber: 29.0  Consensus size: 3

       1560 CATGATGTTT

                                 *   *                **  *             
       1570 ATG ATG AT- ATTG ATG CTG CTG ATG ATG ATG ACA ACG ATG ATG ATG
          1 ATG ATG ATG A-TG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG

                 **       *      *           *   *   *             
       1615 ATG ACA ATG ATA ATG AAG ATG ATG ACG ACG ACG ATG ATG ATG
          1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG

       1657 GCAGTGAAGA


Statistics
Matches: 66,  Mismatches: 16, Indels: 4
        0.77            0.19        0.05

Matches are distributed among these distances:
   2    1  0.02
   3   64  0.97
   4    1  0.02

ACGTcount: A:0.36, C:0.09, G:0.29, T:0.26


Consensus pattern (3 bp):   
ATG

Found at i:1610 original size:18 final size:18

Alignment explanation


    Indices: 1589--1656  Score: 73
    Period size: 18  Copynumber: 3.6  Consensus size: 18

       1579 TTGATGCTGC

                              
       1589 TGATGATGATGACAACGA
          1 TGATGATGATGACAACGA

                           *     
       1607 TGATGATGATGACAATGATAA
          1 TGATGATGATGACAACG---A

               *         *    
       1628 TGAAGATGATGACGACGA
          1 TGATGATGATGACAACGA

            *          
       1646 CGATGATGATG
          1 TGATGATGATG

       1657 GCAGTGAAGA


Statistics
Matches: 41,  Mismatches: 6, Indels: 6
        0.77            0.11        0.11

Matches are distributed among these distances:
  18   26  0.63
  21   15  0.37

ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24


Consensus pattern (18 bp):   
TGATGATGATGACAACGA
Done.