Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01334.N5

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: 2284
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35


Found at i:195 original size:27 final size:27

Alignment explanation


    Indices: 154--266  Score: 111
    Period size: 27  Copynumber: 4.2  Consensus size: 27

        144 GAGGAAGCGT

                      *                
        154 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                              *       *
        181 TCTGGTGGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                         *   * *        
        208 TCTGGTGGCTCTGGCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

             *     *     *     *      *
        236 TTTGGTGACTCTGTCAC-ATTATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                 
        262 TCTGG
          1 TCTGG

        267 CAGCCATGCT


Statistics
Matches: 72,  Mismatches: 13, Indels: 3
        0.82            0.15        0.03

Matches are distributed among these distances:
  26    4  0.06
  27   54  0.75
  28   14  0.19

ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Found at i:259 original size:54 final size:54

Alignment explanation


    Indices: 152--266  Score: 151
    Period size: 54  Copynumber: 2.1  Consensus size: 54

        142 TGGAGGAAGC

                                                *                 
        152 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
          1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT

                        *  *   * *         *           *           
        206 GTTCTGGTGGCTCTGGCACGATTATCTGTATTTGGTGACTCTGTCACAT-TATCT
          1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT

                   
        260 GTTCTGG
          1 GTTCTGG

        267 CAGCCATGCT


Statistics
Matches: 53,  Mismatches: 7, Indels: 2
        0.85            0.11        0.03

Matches are distributed among these distances:
  54   36  0.68
  55   17  0.32

ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37


Consensus pattern (54 bp):   
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT

Found at i:1053 original size:27 final size:26

Alignment explanation


    Indices: 949--1063  Score: 131
    Period size: 27  Copynumber: 4.3  Consensus size: 26

        939 TGGAGGAAGC

                      * *        *     
        949 GTTCTGGTGGTTATGCCACAAATATCT
          1 GTTCTGGTGGCTCTGCCAC-ATTATCT

             *                         
        976 GATCTGGTGGCTCTGCCACATATATCT
          1 GTTCTGGTGGCTCTGCCACAT-TATCT

                      *                
       1003 GTTCTGGTGGTTCTGCCACGATTATCT
          1 GTTCTGGTGGCTCTGCCAC-ATTATCT

                      *     *          
       1030 GTATCTGGTGACTCTGTCACATTATCT
          1 GT-TCTGGTGGCTCTGCCACATTATCT

                   
       1057 GTTCTGG
          1 GTTCTGG

       1064 CAGCCATGCT


Statistics
Matches: 76,  Mismatches: 9, Indels: 7
        0.83            0.10        0.08

Matches are distributed among these distances:
  26    6  0.08
  27   54  0.71
  28   16  0.21

ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38


Consensus pattern (26 bp):   
GTTCTGGTGGCTCTGCCACATTATCT

Found at i:1056 original size:54 final size:54

Alignment explanation


    Indices: 949--1063  Score: 169
    Period size: 54  Copynumber: 2.1  Consensus size: 54

        939 TGGAGGAAGC

                                                *                 
        949 GTTCTGGTGGTTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
          1 GTTCTGGTGGTTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT

                        *      * *                     *           
       1003 GTTCTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
          1 GTTCTGGTGGTTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT

                   
       1057 GTTCTGG
          1 GTTCTGG

       1064 CAGCCATGCT


Statistics
Matches: 55,  Mismatches: 5, Indels: 2
        0.89            0.08        0.03

Matches are distributed among these distances:
  54   37  0.67
  55   18  0.33

ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38


Consensus pattern (54 bp):   
GTTCTGGTGGTTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Done.