Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g01880.P2

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: 2525
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30


Found at i:1687 original size:18 final size:21

Alignment explanation


    Indices: 1652--1692  Score: 52
    Period size: 19  Copynumber: 2.1  Consensus size: 21

       1642 ATATAATTTT

                         *       
       1652 AAAATATATATAATACAT-AA
          1 AAAATATATATAAAACATCAA

                                 
       1672 AAAATA-ATA-AAAACATCAA
          1 AAAATATATATAAAACATCAA

              
       1691 AA
          1 AA

       1693 TAAATATTTC


Statistics
Matches: 19,  Mismatches: 1, Indels: 3
        0.83            0.04        0.13

Matches are distributed among these distances:
  18    6  0.32
  19    7  0.37
  20    6  0.32

ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22


Consensus pattern (21 bp):   
AAAATATATATAAAACATCAA

Found at i:1692 original size:19 final size:20

Alignment explanation


    Indices: 1652--1692  Score: 50
    Period size: 18  Copynumber: 2.1  Consensus size: 20

       1642 ATATAATTTT

                         *      
       1652 AAAATATATATAATACATAA
          1 AAAATATATATAAAACATAA

                              * 
       1672 AAAATA-ATA-AAAACATCA
          1 AAAATATATATAAAACATAA

               
       1690 AAA
          1 AAA

       1693 TAAATATTTC


Statistics
Matches: 19,  Mismatches: 2, Indels: 2
        0.83            0.09        0.09

Matches are distributed among these distances:
  18   10  0.53
  19    3  0.16
  20    6  0.32

ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22


Consensus pattern (20 bp):   
AAAATATATATAAAACATAA

Found at i:1810 original size:30 final size:30

Alignment explanation


    Indices: 1774--1836  Score: 117
    Period size: 30  Copynumber: 2.1  Consensus size: 30

       1764 ACTTAACAAG

                                          
       1774 CAAATGTCTCTAAAATAATAACAAAATTAA
          1 CAAATGTCTCTAAAATAATAACAAAATTAA

                     *                    
       1804 CAAATGTCTTTAAAATAATAACAAAATTAA
          1 CAAATGTCTCTAAAATAATAACAAAATTAA

               
       1834 CAA
          1 CAA

       1837 TAAAATAAGT


Statistics
Matches: 32,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  30   32  1.00

ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27


Consensus pattern (30 bp):   
CAAATGTCTCTAAAATAATAACAAAATTAA

Found at i:1891 original size:22 final size:22

Alignment explanation


    Indices: 1865--1913  Score: 62
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       1855 ATATCCAAAT

                                  
       1865 AATAACAACAAAATAGTAGCAA
          1 AATAACAACAAAATAGTAGCAA

            *    *  *     *       
       1887 TATAATAATAAAATGGTAGCAA
          1 AATAACAACAAAATAGTAGCAA

                 
       1909 AATAA
          1 AATAA

       1914 GGAGAAAATA


Statistics
Matches: 22,  Mismatches: 5, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20


Consensus pattern (22 bp):   
AATAACAACAAAATAGTAGCAA
Done.