Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00297.N1

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, 981

Length: 1636
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33


Found at i:685 original size:26 final size:26

Alignment explanation


    Indices: 656--708  Score: 72
    Period size: 26  Copynumber: 2.0  Consensus size: 26

        646 TTTACAGTTT

                                       
        656 TACCCCTAGGAGATAAATT-ACCGAAA
          1 TACCCCTAGG-GATAAATTGACCGAAA

                       *          *   
        682 TACCCCTAGGGTTAAATTGACCTAAA
          1 TACCCCTAGGGATAAATTGACCGAAA

             
        708 T
          1 T

        709 GCATGTTTGA


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  25    7  0.29
  26   17  0.71

ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25


Consensus pattern (26 bp):   
TACCCCTAGGGATAAATTGACCGAAA

Found at i:944 original size:60 final size:60

Alignment explanation


    Indices: 878--1008  Score: 253
    Period size: 60  Copynumber: 2.2  Consensus size: 60

        868 TGTTGGGCTG

                                                        *               
        878 GGTGGGTTGAGCTATTCCCCACATGGAGTGTATGGCTGGTACGGGTGGAGTGTAGTGGTT
          1 GGTGGGTTGAGCTATTCCCCACATGGAGTGTATGGCTGGTACGGATGGAGTGTAGTGGTT

                                                                        
        938 GGTGGGTTGAGCTATTCCCCACATGGAGTGTATGGCTGGTACGGATGGAGTGTAGTGGTT
          1 GGTGGGTTGAGCTATTCCCCACATGGAGTGTATGGCTGGTACGGATGGAGTGTAGTGGTT

                       
        998 GGTGGGTTGAG
          1 GGTGGGTTGAG

       1009 TAGTCTCCCC


Statistics
Matches: 70,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  60   70  1.00

ACGTcount: A:0.15, C:0.12, G:0.43, T:0.30


Consensus pattern (60 bp):   
GGTGGGTTGAGCTATTCCCCACATGGAGTGTATGGCTGGTACGGATGGAGTGTAGTGGTT

Found at i:1262 original size:137 final size:137

Alignment explanation


    Indices: 1016--1302  Score: 547
    Period size: 137  Copynumber: 2.1  Consensus size: 137

       1006 GAGTAGTCTC

                                                                             
       1016 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                             
       1081 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1146 ACTGTTA
        131 ACTGTTA

                                    *                                        
       1153 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                             
       1218 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1283 ACTGTTA
        131 ACTGTTA

              **         
       1290 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       1303 AGGCCCAATA


Statistics
Matches: 147,  Mismatches: 3, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 137  147  1.00

ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32


Consensus pattern (137 bp):   
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Done.