Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01757.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: 1891
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32


Found at i:1193 original size:16 final size:16

Alignment explanation


    Indices: 1172--1203  Score: 55
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       1162 TTTATAACTG

                    *       
       1172 CTATGTATTTATATAT
          1 CTATGTATGTATATAT

                            
       1188 CTATGTATGTATATAT
          1 CTATGTATGTATATAT

       1204 TTGGAATTTC


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  16   15  1.00

ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53


Consensus pattern (16 bp):   
CTATGTATGTATATAT

Found at i:1509 original size:3 final size:3

Alignment explanation


    Indices: 1501--1565  Score: 69
    Period size: 3  Copynumber: 21.7  Consensus size: 3

       1491 AGAGGGTAAA

                                              *       *              * *
       1501 GAT GAT GAT GAT GAT GAT GAT GAT GAG GA- GTCT GAT GAT GAT CAA
          1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G-AT GAT GAT GAT GAT

                  *                   
       1546 GAT GAG GAT GAT GAT GAT GA
          1 GAT GAT GAT GAT GAT GAT GA

       1566 CGGTGAGGAC


Statistics
Matches: 51,  Mismatches: 9, Indels: 4
        0.80            0.14        0.06

Matches are distributed among these distances:
   2    1  0.02
   3   49  0.96
   4    1  0.02

ACGTcount: A:0.34, C:0.03, G:0.35, T:0.28


Consensus pattern (3 bp):   
GAT

Found at i:1536 original size:24 final size:21

Alignment explanation


    Indices: 1499--1574  Score: 80
    Period size: 21  Copynumber: 3.5  Consensus size: 21

       1489 GAAGAGGGTA

                   *             
       1499 AAGATGATGATGATGATGATG
          1 AAGATGAGGATGATGATGATG

             *                     *
       1520 ATGATGAGGAGTCTGATGATGATC
          1 AAGATGAGGA---TGATGATGATG

                                 
       1544 AAGATGAGGATGATGATGATG
          1 AAGATGAGGATGATGATGATG

             * *      
       1565 ACGGTGAGGA
          1 AAGATGAGGA

       1575 CTAAATCACT


Statistics
Matches: 45,  Mismatches: 7, Indels: 6
        0.78            0.12        0.10

Matches are distributed among these distances:
  21   26  0.58
  24   19  0.42

ACGTcount: A:0.34, C:0.04, G:0.37, T:0.25


Consensus pattern (21 bp):   
AAGATGAGGATGATGATGATG
Done.