Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03962.P4

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: 27346
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34


Found at i:4393 original size:32 final size:32

Alignment explanation


    Indices: 4357--4536  Score: 243
    Period size: 32  Copynumber: 5.6  Consensus size: 32

       4347 TAAAAGGGTG

                            *               
       4357 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

                            *           *   
       4389 ACACTTGAAAAGGAAACGTACACTTTGTATGT
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

                        * **                
       4421 ACACTTGAAAAGTATTTGTACACTTTGTGTGT
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

            *           *        *         *
       4453 GCACTTGAAAAGAAAATGTACCCTTTGTGTGC
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

                                            
       4485 ACACTTGAAAAGGAAATGTACACTTTGTGTGT
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

                *         *     
       4517 ACCATTTGAAAAGGGAATGT
          1 A-CACTTGAAAAGGAAATGT

       4537 GCACCTCGGG


Statistics
Matches: 129,  Mismatches: 18, Indels: 1
        0.87            0.12        0.01

Matches are distributed among these distances:
  32  113  0.88
  33   16  0.12

ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31


Consensus pattern (32 bp):   
ACACTTGAAAAGGAAATGTACACTTTGTGTGT

Found at i:13063 original size:32 final size:32

Alignment explanation


    Indices: 13027--13206  Score: 243
    Period size: 32  Copynumber: 5.6  Consensus size: 32

      13017 TAAAAGGGTG

                            *               
      13027 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

                            *           *   
      13059 ACACTTGAAAAGGAAACGTACACTTTGTATGT
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

                        * **                
      13091 ACACTTGAAAAGTATTTGTACACTTTGTGTGT
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

            *           *        *         *
      13123 GCACTTGAAAAGAAAATGTACCCTTTGTGTGC
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

                                            
      13155 ACACTTGAAAAGGAAATGTACACTTTGTGTGT
          1 ACACTTGAAAAGGAAATGTACACTTTGTGTGT

                *         *     
      13187 ACCATTTGAAAAGGGAATGT
          1 A-CACTTGAAAAGGAAATGT

      13207 GCACCTCGGG


Statistics
Matches: 129,  Mismatches: 18, Indels: 1
        0.87            0.12        0.01

Matches are distributed among these distances:
  32  113  0.88
  33   16  0.12

ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31


Consensus pattern (32 bp):   
ACACTTGAAAAGGAAATGTACACTTTGTGTGT

Found at i:21689 original size:32 final size:32

Alignment explanation


    Indices: 21644--21773  Score: 161
    Period size: 32  Copynumber: 4.0  Consensus size: 32

      21634 CTGTACACTT

                 *                          
      21644 GAAAAGGTACACTTTGTGTGTACACTTGAAAA
          1 GAAAATGTACACTTTGTGTGTACACTTGAAAA

             * **                *          
      21676 GTATTTGTACACTTTGTGTGTGCACTTGAAAA
          1 GAAAATGTACACTTTGTGTGTACACTTGAAAA

                      *         *           
      21708 GAAAATGTACCCTTTGTGTGCACACTTGAAAA
          1 GAAAATGTACACTTTGTGTGTACACTTGAAAA

             *    *                  *       
      21740 GGAAATATACACTTTGTGTGTACCATTTGAAAA
          1 GAAAATGTACACTTTGTGTGTA-CACTTGAAAA

             
      21773 G
          1 G

      21774 GGAATGTGCA


Statistics
Matches: 81,  Mismatches: 16, Indels: 1
        0.83            0.16        0.01

Matches are distributed among these distances:
  32   71  0.88
  33   10  0.12

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


Consensus pattern (32 bp):   
GAAAATGTACACTTTGTGTGTACACTTGAAAA
Done.