Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03035.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, 708

Length: 1181
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32


Found at i:1067 original size:22 final size:22

Alignment explanation


    Indices: 1040--1082  Score: 77
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       1030 ATATTGTTGT

                  *               
       1040 TATCATGTGGTGTAATATTAGC
          1 TATCATATGGTGTAATATTAGC

                                 
       1062 TATCATATGGTGTAATATTAG
          1 TATCATATGGTGTAATATTAG

       1083 TTATGCACTT


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  22   20  1.00

ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42


Consensus pattern (22 bp):   
TATCATATGGTGTAATATTAGC

Found at i:1099 original size:22 final size:22

Alignment explanation


    Indices: 1038--1086  Score: 62
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       1028 CAATATTGTT

                    *    *        
       1038 GTTATCATGTGGTGTAATATTA
          1 GTTATCATATGGTATAATATTA

             *           *        
       1060 GCTATCATATGGTGTAATATTA
          1 GTTATCATATGGTATAATATTA

                 
       1082 GTTAT
          1 GTTAT

       1087 GCACTTGGAT


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  22   24  1.00

ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45


Consensus pattern (22 bp):   
GTTATCATATGGTATAATATTA

Found at i:1149 original size:68 final size:68

Alignment explanation


    Indices: 1001--1128  Score: 202
    Period size: 68  Copynumber: 1.9  Consensus size: 68

        991 ACTTTTAATG

                *                                                   *  *     
       1001 TGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGCTATC
          1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAACTATC

               
       1066 ATA
         66 ATA

                *                      *   *                            
       1069 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAA
          1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAA

       1129 TTATGTATTT


Statistics
Matches: 56,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  68   56  1.00

ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43


Consensus pattern (68 bp):   
TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAACTATC
ATA
Done.