Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007186.1 Kokia drynarioides strain JFW-HI SEQ_121799, whole genome shotgun sequence

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: 9549
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Found at i:2196 original size:249 final size:248

Alignment explanation


    Indices: 1512--2510  Score: 1338
    Period size: 249  Copynumber: 4.0  Consensus size: 248

       1502 GACGCTTGTA

                      *   * *   *  *     *                               *   
       1512 CAAAGGGTGGTGATGCGGAATCAGAAGCAGGGGAGGATCTGAAACTAGAAAAGAGGGAGGAGGCA
          1 CAAAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAG--AAGA-GGAGGATGCA

            *                          *                 *               * * 
       1577 GAAGAACATGATTCTGTTAGAACTTCTGCAAATGAAGGAGGTGTTAACCATGAAACTTCTACGGC
         63 AAAGAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCC

              *               *                       *          *          *
       1642 TTTAGAGAAACGTGAAGATCTGGTAGCAGAAGACAAAGTTGATAAGCAAGCTCTTTTGCTGACAG
        128 TTCAGAGAAACGTGAAGACCTGGTAGCAGAAGACAAAGTTGACAAGCAAGCTCCTTTGCTGACAA

               *                                     *               
       1707 TGGGCGCTGTTGCCAAAGTTGGATCTAAAGATCAAGAAAGAGGGCAAGAAGATGAAT
        193 TGGACGCTGTTGCCAAAGTTGGAT-TAAAGATCAAGAAAGAAGGCAAGAAGATGAAT

                                       *   *                                 
       1764 CAAAGGGTGGGGATACAGAACCAAAAGTAAGAGAGGATCTGAAACTAGAAGAAAAGGAGGATGCA
          1 CAAAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAGAAG---AGGAGGATGCA

                             *        *                           *          
       1829 AAAGAACAT-ATTCTGTCAGAACTTCGACAAATGAAGGAGGTGTTCACCATGAAGCTTCTAAGCC
         63 AAAGAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCC

                                        *             *               *     *
       1893 TTCAGAGAAACGTGAAGACCTGGTAGCAAAAGACAAAGTTGATAAGCAAGCTCCTTTGTTGACAG
        128 TTCAGAGAAACGTGAAGACCTGGTAGCAGAAGACAAAGTTGACAAGCAAGCTCCTTTGCTGACAA

                                                 *               *   
       1958 TGGACGCTGTTGCCAAAGTTGGATTGAAAGATCAAGAGAGAAGGCAAGAAGATTAAT
        193 TGGACGCTGTTGCCAAAGTTGGATT-AAAGATCAAGAAAGAAGGCAAGAAGATGAAT

                             *       *                                       
       2015 CAAAGGGTGGGGATACAAAACCAAATGCAAGGGAGGATCTGAAACTAGAAGAGGAGGATGCAAAA
          1 CAAAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAGAAGAGGAGGATGCAAAA

                  *                           *           * *                
       2080 GAACATTATTCTGTTAGAACTTCTACAAATGAAGAAGGTGTTCACCGTAAAACTTCTAAGCCTTC
         66 GAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCTTC

                                                                             
       2145 AGAGAAACGTGAAGACCTGGTAGCAGAAGACAAAGTTGACAAGCAAGCTCCTTTGCTGACAATGG
        131 AGAGAAACGTGAAGACCTGGTAGCAGAAGACAAAGTTGACAAGCAAGCTCCTTTGCTGACAATGG

                             *    *     *  *                       
       2210 ACGCTGTTGCCAAAGTTAGATCAAAAGACCAGGAAAGAGAGG-AAGAAGATGAAT
        196 ACGCTGTTGCCAAAGTTGGAT-TAAAGATCAAGAAAGA-AGGCAAGAAGATGAAT

                     *                    *                         *   *    
       2264 CAAAGGGTGAGGATACAGAACCAAAAGCAAAGGAGGATCTGAAACTAGAAGAGGAGAATGTAAAA
          1 CAAAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAGAAGAGGAGGATGCAAAA

                                                         *                   
       2329 GAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACTATGAAACTTCTAAGCCTTC
         66 GAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCTTC

                    *       *   *                 *            *             
       2394 -GTAGAAATGTGAAGATCTGATAGCAGAAGACAAAGTTAACAAGCAAGCTCTTTTGCTGACAATG
        131 AG-AGAAACGTGAAGACCTGGTAGCAGAAGACAAAGTTGACAAGCAAGCTCCTTTGCTGACAATG

              *   *   * *          *     *  *      *  *          
       2458 GATGCTATTGTCGAAGTTGGATCAAAAGACCAGGAAAGATGGGAAGAAGATGA
        195 GACGCTGTTGCCAAAGTTGGAT-TAAAGATCAAGAAAGAAGGCAAGAAGATGA

       2511 GCCTGACTGG


Statistics
Matches: 670,  Mismatches: 68, Indels: 21
        0.88            0.09        0.03

Matches are distributed among these distances:
 248   23  0.03
 249  376  0.56
 250    7  0.01
 251  206  0.31
 252   57  0.09
 253    1  0.00

ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20


Consensus pattern (248 bp):   
CAAAGGGTGGGGATACAGAACCAAAAGCAAGGGAGGATCTGAAACTAGAAGAGGAGGATGCAAAA
GAACATGATTCTGTTAGAACTTCTACAAATGAAGGAGGTGTTCACCATGAAACTTCTAAGCCTTC
AGAGAAACGTGAAGACCTGGTAGCAGAAGACAAAGTTGACAAGCAAGCTCCTTTGCTGACAATGG
ACGCTGTTGCCAAAGTTGGATTAAAGATCAAGAAAGAAGGCAAGAAGATGAAT

Found at i:7469 original size:249 final size:249

Alignment explanation


    Indices: 7031--8033  Score: 1389
    Period size: 252  Copynumber: 4.0  Consensus size: 249

       7021 CCAGTCAGGC

                        *        *  *     *                         *   *    
       7031 TCATCTTCTTCCTCTC-CTTCTTGGTCTTTTGATCCAACTTTGGCAACAACATCCATTGTAAGCA
          1 TCATCTTCTTCCCCTCTC-TCCTGATCTTTCGATCCAACTTTGGCAACAACATCCACTGTCAGCA

                         * *                      *       *                  
       7095 AAGGAGCTTGCTTGTTAACTTTGTCTTCTGCTAAC-AGATCTTCACATTTCTCTAAAGGCTTAGA
         65 AAGGAGCTTGCTTATCAACTTTGTCTTCTGCT-ACTAGGTCTTCACGTTTCTCTAAAGGCTTAGA

                                                                             
       7159 AGTTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTTTGCATCCT
        129 AGTTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTTTGCATCCT

                                                                    
       7224 CCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTATATCCCCACCCTTTGAT
        194 CCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTATATCCCCACCCTTTGAT

                             *     *     *                  *      *         
       7280 TCATCTTCTTCCCCTCTTTCCTGGTCTTTTGATCCAACTTTGGCAACAGCATCCATTGTCAGCAA
          1 TCATCTTCTTCCCCTCTCTCCTGATCTTTCGATCCAACTTTGGCAACAACATCCACTGTCAGCAA

                        *                                       *            
       7345 AGGAGCTTGCTTGTCAACTTTGTCTTCTGCTACTAGGTCTTCACGTTTCTCTGAAGGCTTAGAAG
         66 AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACTAGGTCTTCACGTTTCTCTAAAGGCTTAGAAG

                                    * *  *                                   
       7410 TTTCATGGTGAACACCTCCTTCATCTATAAAAGTTCTAACAGAATCATGTTCTTTTGCATCTTTC
        131 TTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTTTGCATC---C

                                                 * *                 
       7475 TCCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTTTGTATCCCCACCCTTTGAT
        193 TCCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTATATCCCCACCCTTTGAT

                      *  *                                    *        *  *  
       7532 TCATCTTCTTGCCTTCTCTCCTGATCTTTCGATCCAACTTTGGCAACAACGTCCACTGTTAGTAA
          1 TCATCTTCTTCCCCTCTCTCCTGATCTTTCGATCCAACTTTGGCAACAACATCCACTGTCAGCAA

                                                                         *   
       7597 AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACTAGGTCTTCACGTTTCTCTAAAGGCTTAAAAG
         66 AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACTAGGTCTTCACGTTTCTCTAAAGGCTTAGAAG

                                        *  *   * *             *             
       7662 TTTCATGGTGAACACCTCCTTCATTTGTCGATGTTTTGACAGAATCATGTTTTTTTGCATCCTCC
        131 TTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTTTGCATCCTCC

                                   *        *                        
       7727 TTTTCTTCTAGTTTCAGATCCTCTCTTGCTTTAGGTTCTATATCCCCACCCTTTGAT
        196 ---TCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTATATCCCCACCCTTTGAT

             *  *     *                              *      * *      *       
       7784 TTATGTTCTTGCCCTCTCTCCTGATCTTTCGATCCAACTTTAGCAACAGCGTCCACTATCAGCAA
          1 TCATCTTCTTCCCCTCTCTCCTGATCTTTCGATCCAACTTTGGCAACAACATCCACTGTCAGCAA

             *                               *                  *   *   *    
       7849 AAGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACGTTTCTCTGAAGCCTTGGAAG
         66 AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACTAGGTCTTCACGTTTCTCTAAAGGCTTAGAAG

                     *                      *                     *   *      
       7914 TTTCATGGTTAACACCTCCTTCATTTGTAGAATTTCTAACAGAATCATGTTCTTCTGCCTCCTCC
        131 TTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTTTGCATCCT-C

                                     *     *  *    *   *           
       7979 CTCTTTTCTAGTTTCAGATCCTCCCCTGCTTCTGATTCTGTATTCCCACCCTTTG
        195 CTC--TTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTATATCCCCACCCTTTG

       8034 TACAACCGTC


Statistics
Matches: 674,  Mismatches: 69, Indels: 19
        0.88            0.09        0.02

Matches are distributed among these distances:
 248    2  0.00
 249  179  0.27
 250    2  0.00
 252  489  0.73
 253    2  0.00

ACGTcount: A:0.19, C:0.27, G:0.14, T:0.39


Consensus pattern (249 bp):   
TCATCTTCTTCCCCTCTCTCCTGATCTTTCGATCCAACTTTGGCAACAACATCCACTGTCAGCAA
AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACTAGGTCTTCACGTTTCTCTAAAGGCTTAGAAG
TTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTTTGCATCCTCC
TCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTATATCCCCACCCTTTGAT

Done.