Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g00007.F2

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: 4323
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33


Found at i:1026 original size:105 final size:104

Alignment explanation


    Indices: 897--1449  Score: 491
    Period size: 105  Copynumber: 5.3  Consensus size: 104

        887 ATGATAAAAA

                  *            *                    *     *                  
        897 AAGGCAGTAAGCCTAATGTCGTCACATATAGTATATTGATCGATGCGCTTTGCAAGCAGGGAATG
          1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAG-AGGGAATG

            * *  *                      *     *     
        962 ATATCCAAAGCCGAAGATATTGTTGGCATAATGACAAAGC
         65 GTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC

                                           *        *           *     *      
       1002 AAGGCATTAAGCCTAATGTTGTCACATATAGCATATTGATCGATGCTCTTTGTAAGAAAGGAATG
          1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAG-AGGGAATG

            *              *    *  *     *    *     
       1067 ATTTCTAAAGCCGAAAATATCGTCGGCACTATGACAAAGC
         65 GTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC

                        * *                      *      *                 *  
       1107 AAGGCATTAAGCTTGATGTTGTCACATATAGTATATTCATAGATACTCTTTGCAAGATGGGGGA-
          1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAGA--GGGAAT

                             * *      * * *          
       1171 GGTTTCTAAAGCCGAAGTTGTTGTTGACGCGATGAGAAAGC
         64 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC

                    *       *         *       *          * *           *  *  
       1212 AAGGCATCGAA-CCTACTGTTGTCACGTATAGTACATTGATAGATTCGCTTTGCAAGAATGGTAT
          1 AAGGCAT-TAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAG-AGGGAAT

                   *    *   **            *          
       1276 GGTTTCTGAAGCTGAATTTATTGTTGGCACGATGAGAAAGC
         64 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC

                **               *    *    *         *   *             ** *  
       1317 AAGGTGTTGAA-CCTAATGTTATCACGTATAATATATTGATGGATTCTCTTTGCAAGATTAGTAT
          1 AAGGCATT-AAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAGA-GGGAAT

                   *    *         *      *           
       1381 GGTTTCTGAAGCTGAAGATATTTTTGGCAGAATGAGAAAGC
         64 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC

                    *     *             
       1422 AAGGCATTGAGCCTGATGTTGTCACATA
          1 AAGGCATTAAGCCTAATGTTGTCACATA

       1450 CAACACTCTG


Statistics
Matches: 369,  Mismatches: 71, Indels: 16
        0.81            0.16        0.04

Matches are distributed among these distances:
 104    6  0.02
 105  357  0.97
 106    6  0.02

ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30


Consensus pattern (104 bp):   
AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAGAGGGAATGG
TTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC

Found at i:1184 original size:210 final size:210

Alignment explanation


    Indices: 897--1449  Score: 547
    Period size: 210  Copynumber: 2.6  Consensus size: 210

        887 ATGATAAAAA

                  *            *                    *   * *                  
        897 AAGGCAGTAAGCCTAATGTCGTCACATATAGTATATTGATCGATGCGCTTTGCAAGCA-GGGAAT
          1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATACTCTTTGCAAG-ATGGGAAT

             * *  *                      *     *                             
        961 GATATCCAAAGCCGAAGATATTGTTGGCATAATGACAAAGCAAGGCATTAAGCCTAATGTTGTCA
         65 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCA

                     *      *     *     *                                    
       1026 CATATAGCATATTGATCGATGCTCTTTGTAAGAAAGGAATGATTTCTAAAGCCGAAAATATCGTC
        130 CATATAGCACATTGATAGATGCGCTTTGCAAGAAAGGAATGATTTCTAAAGCCGAAAATATCGTC

                 *          
       1091 GGCACTATGACAAAGC
        195 GGCACGATGACAAAGC

                        * *                      *                        *  
       1107 AAGGCATTAAGCTTGATGTTGTCACATATAGTATATTCATAGATACTCTTTGCAAGATGGGGGA-
          1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATACTCTTTGCAAGAT-GGGAAT

                             * *      * * *                  *       *       
       1171 GGTTTCTAAAGCCGAAGTTGTTGTTGACGCGATGAGAAAGCAAGGCATCGAA-CCTACTGTTGTC
         65 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGCAAGGCAT-TAAGCCTAATGTTGTC

              *     *            *             *  *   *     *    *   **   *  
       1235 ACGTATAGTACATTGATAGATTCGCTTTGCAAGAATGGTATGGTTTCTGAAGCTGAATTTATTGT
        129 ACATATAGCACATTGATAGATGCGCTTTGCAAGAAAGGAATGATTTCTAAAGCCGAAAATATCGT

            *          *     
       1300 TGGCACGATGAGAAAGC
        194 CGGCACGATGACAAAGC

                **               *    *    *         *   *             ** *  
       1317 AAGGTGTTGAA-CCTAATGTTATCACGTATAATATATTGATGGATTCTCTTTGCAAGATTAGTAT
          1 AAGGCATT-AAGCCTAATGTTGTCACATATAGTATATTGATAGATACTCTTTGCAAGATGGGAAT

                   *    *         *      *                   *     *         
       1381 GGTTTCTGAAGCTGAAGATATTTTTGGCAGAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCA
         65 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCA

                
       1446 CATA
        130 CATA

       1450 CAACACTCTG


Statistics
Matches: 271,  Mismatches: 66, Indels: 12
        0.78            0.19        0.03

Matches are distributed among these distances:
 209    4  0.01
 210  259  0.96
 211    8  0.03

ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30


Consensus pattern (210 bp):   
AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATACTCTTTGCAAGATGGGAATG
GTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCAC
ATATAGCACATTGATAGATGCGCTTTGCAAGAAAGGAATGATTTCTAAAGCCGAAAATATCGTCG
GCACGATGACAAAGC

Done.