Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00450.F1

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, 501

Length: 836
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22


Found at i:237 original size:45 final size:44

Alignment explanation


    Indices: 158--464  Score: 292
    Period size: 45  Copynumber: 6.8  Consensus size: 44

        148 CGCCACCATA

                 *      *  *  *        *           *     
        158 TGAACATAAACCTCCGGTCTATGAACCACCAAAGAAGGAGAAGCC
          1 TGAACCTAAACCACCAGTTTAT-AACCTCCAAAGAAGGAAAAGCC

                     *                          *  *     
        203 TGAACCTAAGCCACCAGTTTATATACCTCCAAAGAAAGAGAAGCC
          1 TGAACCTAAACCACCAGTTTATA-ACCTCCAAAGAAGGAAAAGCC

                  *           *                          
        248 TGAACCGAAACCACCAGTATATGAACCTCCAAAGAAGGAAAAGCC
          1 TGAACCTAAACCACCAGTTTAT-AACCTCCAAAGAAGGAAAAGCC

               *                       *        *       *
        293 TGAGCCTAAACCACCAGTTTATACACCACCAAAGAAAGAAAAGCA
          1 TGAACCTAAACCACCAGTTTATA-ACCTCCAAAGAAGGAAAAGCC

                  *  *   *     *        *                 
        338 TGAACCCAAGCCAAC-GATGTATGAACCACCAAAGAAGGAAAAGCC
          1 TGAACCTAAACCACCAG-TTTAT-AACCTCCAAAGAAGGAAAAGCC

               **                  *            *     *  
        383 TGAGTCTAAACCACCAGTTTATGCACCTCCAAAGAAAGAAAAACC
          1 TGAACCTAAACCACCAGTTTAT-AACCTCCAAAGAAGGAAAAGCC

            *     *                              
        428 AGAACCCAAACCACCAGTTTATAAGCCTCCAAAGAAG
          1 TGAACCTAAACCACCAGTTTATAA-CCTCCAAAGAAG

        465 CCACCAGTGT


Statistics
Matches: 214,  Mismatches: 41, Indels: 14
        0.80            0.15        0.05

Matches are distributed among these distances:
  44    4  0.02
  45  207  0.97
  46    3  0.01

ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14


Consensus pattern (44 bp):   
TGAACCTAAACCACCAGTTTATAACCTCCAAAGAAGGAAAAGCC

Found at i:280 original size:90 final size:90

Alignment explanation


    Indices: 177--464  Score: 382
    Period size: 90  Copynumber: 3.2  Consensus size: 90

        167 ACCTCCGGTC

                                *        *     *             *               
        177 TATGAACCACCAAAGAAGGAGAAGCCTGAACCTAAGCCACCAGTTTATATACCTCCAAAGAAAGA
          1 TATGAACCACCAAAGAAGGAAAAGCCTGAGCCTAAACCACCAGTTTATACACCTCCAAAGAAAGA

            *           *            
        242 GAAGCCTGAACCGAAACCACCAGTA
         66 AAAGCCTGAACCCAAACCACCAGTA

                    *                                            *           
        267 TATGAACCTCCAAAGAAGGAAAAGCCTGAGCCTAAACCACCAGTTTATACACCACCAAAGAAAGA
          1 TATGAACCACCAAAGAAGGAAAAGCCTGAGCCTAAACCACCAGTTTATACACCTCCAAAGAAAGA

                 *         *   *     *
        332 AAAGCATGAACCCAAGCCAAC-GATG
         66 AAAGCCTGAACCCAAACCACCAG-TA

                                          *                 *                
        357 TATGAACCACCAAAGAAGGAAAAGCCTGAGTCTAAACCACCAGTTTATGCACCTCCAAAGAAAGA
          1 TATGAACCACCAAAGAAGGAAAAGCCTGAGCCTAAACCACCAGTTTATACACCTCCAAAGAAAGA

               *  *                 *
        422 AAAACCAGAACCCAAACCACCAGTT
         66 AAAGCCTGAACCCAAACCACCAGTA

                     *         
        447 TAT-AAGCCTCCAAAGAAG
          1 TATGAA-CCACCAAAGAAG

        465 CCACCAGTGT


Statistics
Matches: 172,  Mismatches: 23, Indels: 6
        0.86            0.11        0.03

Matches are distributed among these distances:
  89    3  0.02
  90  168  0.98
  91    1  0.01

ACGTcount: A:0.44, C:0.27, G:0.16, T:0.13


Consensus pattern (90 bp):   
TATGAACCACCAAAGAAGGAAAAGCCTGAGCCTAAACCACCAGTTTATACACCTCCAAAGAAAGA
AAAGCCTGAACCCAAACCACCAGTA

Found at i:370 original size:135 final size:134

Alignment explanation


    Indices: 181--463  Score: 336
    Period size: 135  Copynumber: 2.1  Consensus size: 134

        171 CCGGTCTATG

                         *  *    *      *           *        *           *   
        181 AACCACCAAAGAAGGAGAAGCCTGAACCTAAGCCACCAGTTTATATACCTCCAAAGAAAGAGAAG
          1 AACCACCAAAGAAAGAAAAGCATGAACCCAAGCCACCAGTGTATATACCACCAAAGAAAGAAAAG

                                                  *     *  *  *  *           
        246 CCTGAACCGAAACCACCAGTATATGAACCTCCAAAGAAGGAAAAGCCTGAGCCTAAACCACCAGT
         66 CCTGAACCGAAACCACCAGTATATGAACCTCCAAAGAAAGAAAAACCAGAACCCAAACCACCAGT

                
        311 TTAT
        131 TTAT

                                                *                        *   
        315 ACACCACCAAAGAAAGAAAAGCATGAACCCAAGCCAAC-GATGTATGA-ACCACCAAAGAAGGAA
          1 A-ACCACCAAAGAAAGAAAAGCATGAACCCAAGCCACCAG-TGTAT-ATACCACCAAAGAAAGAA

                    ** *           *    *                                    
        378 AAGCCTGAGTCTAAACCACCAGTTTATGCACCTCCAAAGAAAGAAAAACCAGAACCCAAACCACC
         63 AAGCCTGAACCGAAACCACCAGTATATGAACCTCCAAAGAAAGAAAAACCAGAACCCAAACCACC

                   
        443 AGTTTAT
        128 AGTTTAT

                 *        
        450 AAGCCTCCAAAGAA
          1 AA-CCACCAAAGAA

        464 GCCACCAGTG


Statistics
Matches: 125,  Mismatches: 20, Indels: 7
        0.82            0.13        0.05

Matches are distributed among these distances:
 134    3  0.02
 135  121  0.97
 136    1  0.01

ACGTcount: A:0.44, C:0.27, G:0.16, T:0.13


Consensus pattern (134 bp):   
AACCACCAAAGAAAGAAAAGCATGAACCCAAGCCACCAGTGTATATACCACCAAAGAAAGAAAAG
CCTGAACCGAAACCACCAGTATATGAACCTCCAAAGAAAGAAAAACCAGAACCCAAACCACCAGT
TTAT
Done.