Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g02401.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, 860

Length: 1434
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32


Found at i:649 original size:210 final size:210

Alignment explanation


    Indices: 357--794  Score: 585
    Period size: 210  Copynumber: 2.1  Consensus size: 210

        347 TCTTCTTCGA

                                                        *   *           *    
        357 AATGAGAAAGCAAGGCATTAAGCCTAATGTCATCACATATACTATATTGATCGATGCATTTTGCA
          1 AATGAGAAAGCAAGGCATTAAGCCTAATGTCATCACATATACTACATTCATCGATGCATTCTGCA

                    *                                               *        
        422 AGAAGGGAGTGGTTTCTAAAGCCAAAGATATCCTTGGCACAATGAAAAAGCAAGGCGTTGAGCCT
         66 AGAAGGGAATGGTTTCTAAAGCCAAAGATATCCTTGGCACAATGAAAAAGCAAGGCATTGAGCCT

                            *  *               *                          *  
        487 AATGTTGTCACATATAGTATATTGATTGACCTGCTTTGCAA-GA-AGGGAATGGTTTCTAAAGCT
        131 AATGTTGTCACATATAATACATTGATTGACCTGCTCTGCAAGGACA-GG-ATGGTTTCTAAACCT

                         *   
        550 GAAGATATCGTTGGCAC
        194 GAAGATATCGTTGACAC

                 *                 * *    **         *                       
        567 AATGACAAAGCAAGGCATTAAGCTTGATGTTGTCACATATAGTACATTCATCGATGC-TCTCTGC
          1 AATGAGAAAGCAAGGCATTAAGCCTAATGTCATCACATATACTACATTCATCGATGCAT-TCTGC

                                    *   *   **      *     *                  
        631 AAGAAGGGAATGGTTTCTAAAGCCGAAGGTATTGTTGGCAGAATGACAAAGCAAGGCATTGAGCC
         65 AAGAAGGGAATGGTTTCTAAAGCCAAAGATATCCTTGGCACAATGAAAAAGCAAGGCATTGAGCC

                                          **                                 
        696 TAATGTTGTCACATATAATACATTGATTGATGTGCTCTGCAAGGACAGGATGGTTTCTAAACCTG
        130 TAATGTTGTCACATATAATACATTGATTGACCTGCTCTGCAAGGACAGGATGGTTTCTAAACCTG

               *   *        
        761 AAGTTATTGTTGACAC
        195 AAGATATCGTTGACAC

            *                 
        777 GATGAGAAAGCAAGGCAT
          1 AATGAGAAAGCAAGGCAT

        795 CGAGCCTCAC


Statistics
Matches: 197,  Mismatches: 28, Indels: 6
        0.85            0.12        0.03

Matches are distributed among these distances:
 209    1  0.01
 210  191  0.97
 211    4  0.02
 212    1  0.01

ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27


Consensus pattern (210 bp):   
AATGAGAAAGCAAGGCATTAAGCCTAATGTCATCACATATACTACATTCATCGATGCATTCTGCA
AGAAGGGAATGGTTTCTAAAGCCAAAGATATCCTTGGCACAATGAAAAAGCAAGGCATTGAGCCT
AATGTTGTCACATATAATACATTGATTGACCTGCTCTGCAAGGACAGGATGGTTTCTAAACCTGA
AGATATCGTTGACAC

Found at i:800 original size:105 final size:105

Alignment explanation


    Indices: 357--801  Score: 502
    Period size: 105  Copynumber: 4.2  Consensus size: 105

        347 TCTTCTTCGA

                 *             *          **         *  *           *** *    
        357 AATGAGAAAGCAAGGCATTAAGCCTAATGTCATCACATATACTATATTGATCGATGCATTTTGCA
          1 AATGACAAAGCAAGGCATTGAGCCTAATGTTGTCACATATAGTACATTGATCGATGTGCTCTGCA

                    *              *        *       
        422 AGAAGGGAGTGGTTTCTAAAGCCAAAGATATCCTTGGCAC
         66 AGAAGGGAATGGTTTCTAAAGCCGAAGATATCGTTGGCAC

                 *          *                           *      *  **    *    
        462 AATGAAAAAGCAAGGCGTTGAGCCTAATGTTGTCACATATAGTATATTGATTGACCTGCTTTGCA
          1 AATGACAAAGCAAGGCATTGAGCCTAATGTTGTCACATATAGTACATTGATCGATGTGCTCTGCA

                                  *                 
        527 AGAAGGGAATGGTTTCTAAAGCTGAAGATATCGTTGGCAC
         66 AGAAGGGAATGGTTTCTAAAGCCGAAGATATCGTTGGCAC

                               *   * *                      *                
        567 AATGACAAAGCAAGGCATTAAGCTTGATGTTGTCACATATAGTACATTCATCGATGCT-CTCTGC
          1 AATGACAAAGCAAGGCATTGAGCCTAATGTTGTCACATATAGTACATTGATCGATG-TGCTCTGC

                                        *   *       *
        631 AAGAAGGGAATGGTTTCTAAAGCCGAAGGTATTGTTGGCAG
         65 AAGAAGGGAATGGTTTCTAAAGCCGAAGATATCGTTGGCAC

                                                     *         *             
        672 AATGACAAAGCAAGGCATTGAGCCTAATGTTGTCACATATAATACATTGATTGATGTGCTCTGCA
          1 AATGACAAAGCAAGGCATTGAGCCTAATGTTGTCACATATAGTACATTGATCGATGTGCTCTGCA

                                          *   *    *   
        737 AGGACA-GG-ATGGTTTCTAAA-CCTGAAGTTATTGTTGACAC
         66 A-GA-AGGGAATGGTTTCTAAAGCC-GAAGATATCGTTGGCAC

            *    *            *      
        777 GATGAGAAAGCAAGGCATCGAGCCT
          1 AATGACAAAGCAAGGCATTGAGCCT

        802 CACGTATAAT


Statistics
Matches: 292,  Mismatches: 43, Indels: 10
        0.85            0.12        0.03

Matches are distributed among these distances:
 104    3  0.01
 105  283  0.97
 106    5  0.02
 107    1  0.00

ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27


Consensus pattern (105 bp):   
AATGACAAAGCAAGGCATTGAGCCTAATGTTGTCACATATAGTACATTGATCGATGTGCTCTGCA
AGAAGGGAATGGTTTCTAAAGCCGAAGATATCGTTGGCAC
Done.