Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00003.P1

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: 10425
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34


Found at i:1743 original size:78 final size:78

Alignment explanation


    Indices: 1614--1764  Score: 214
    Period size: 78  Copynumber: 1.9  Consensus size: 78

       1604 CTCATATTCT

                       *                      *                         *    
       1614 ACCATTAAACCGTGATCCCTTGATCTCACCAACTGGGAGAGTCGGTGATCATGTTGATAATGATC
          1 ACCATTAAACCCTGATCCCTTGATCTCACCAACTAGGAGAGTCGGTGATCATGTTGATAACGATC

              *          
       1679 ACTATGGAGTTCG
         66 ACCATGGAGTTCG

                                         *  *          *                *    
       1692 ACCATTAAACCCTGATCCCTTGAT-TGCATCAGCTAGGAGAGTTGGTGATCATGTTGATAGCGAT
          1 ACCATTAAACCCTGATCCCTTGATCT-CACCAACTAGGAGAGTCGGTGATCATGTTGATAACGAT

                     
       1756 CACCATGGA
         65 CACCATGGA

       1765 CTTTGTGTAC


Statistics
Matches: 64,  Mismatches: 8, Indels: 2
        0.86            0.11        0.03

Matches are distributed among these distances:
  77    1  0.02
  78   63  0.98

ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28


Consensus pattern (78 bp):   
ACCATTAAACCCTGATCCCTTGATCTCACCAACTAGGAGAGTCGGTGATCATGTTGATAACGATC
ACCATGGAGTTCG

Found at i:7139 original size:16 final size:16

Alignment explanation


    Indices: 7118--7149  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       7108 GCGTGGAAGA

                            
       7118 AAGAGAATAGTTTCAG
          1 AAGAGAATAGTTTCAG

                            
       7134 AAGAGAATAGTTTCAG
          1 AAGAGAATAGTTTCAG

       7150 TTGAATATTA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25


Consensus pattern (16 bp):   
AAGAGAATAGTTTCAG
Done.