Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01176.F3

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: 4242
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33


Found at i:2633 original size:16 final size:16

Alignment explanation


    Indices: 2614--2669  Score: 51
    Period size: 17  Copynumber: 3.3  Consensus size: 16

       2604 GACATGGGAA

                            
       2614 ACCAATGATCTTCGCT
          1 ACCAATGATCTTCGCT

                          *    *
       2630 ACCAAAATGAT-TTGGCCAA
          1 ACC--AATGATCTTCG-C-T

                            
       2649 ACCAATGATCTTCGCT
          1 ACCAATGATCTTCGCT

                 
       2665 ACCAA
          1 ACCAA

       2670 AATGATTTGG


Statistics
Matches: 31,  Mismatches: 4, Indels: 10
        0.69            0.09        0.22

Matches are distributed among these distances:
  16    8  0.26
  17   10  0.32
  18   10  0.32
  19    3  0.10

ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25


Consensus pattern (16 bp):   
ACCAATGATCTTCGCT

Found at i:2640 original size:18 final size:18

Alignment explanation


    Indices: 2617--2675  Score: 61
    Period size: 18  Copynumber: 3.3  Consensus size: 18

       2607 ATGGGAAACC

                              
       2617 AATGATCTTCGCTACCAA
          1 AATGATCTTCGCTACCAA

                     *     *  
       2635 AATGAT-TTGGC--CAAA
          1 AATGATCTTCGCTACCAA

                                
       2650 CCAATGATCTTCGCTACCAA
          1 --AATGATCTTCGCTACCAA

                  
       2670 AATGAT
          1 AATGAT

       2676 TTGGCCATAG


Statistics
Matches: 32,  Mismatches: 4, Indels: 10
        0.70            0.09        0.22

Matches are distributed among these distances:
  15    3  0.09
  17   10  0.31
  18   16  0.50
  20    3  0.09

ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27


Consensus pattern (18 bp):   
AATGATCTTCGCTACCAA

Found at i:2651 original size:35 final size:35

Alignment explanation


    Indices: 2612--2682  Score: 142
    Period size: 35  Copynumber: 2.0  Consensus size: 35

       2602 ATGACATGGG

                                               
       2612 AAACCAATGATCTTCGCTACCAAAATGATTTGGCC
          1 AAACCAATGATCTTCGCTACCAAAATGATTTGGCC

                                               
       2647 AAACCAATGATCTTCGCTACCAAAATGATTTGGCC
          1 AAACCAATGATCTTCGCTACCAAAATGATTTGGCC

             
       2682 A
          1 A

       2683 TAGTTTGCTT


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  35   36  1.00

ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25


Consensus pattern (35 bp):   
AAACCAATGATCTTCGCTACCAAAATGATTTGGCC
Done.