Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012650.1 Kokia drynarioides strain JFW-HI SEQ_127661, 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, 743

Length: 1239
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.31

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:627 original size:335 final size:335

Alignment explanation


    Indices: 1--1239  Score: 1465
    Period size: 335  Copynumber: 3.6  Consensus size: 335

                                                         *                   
          1 CTCGAAAATACGACTCCCCGAGCATTATTTGGGTATATTTACATTCAAATTCGAGGCACGAATGG
          1 CTCGAAAATACGACTCCCCGAGCATTATTTGGGTATATTTACATTAAAATTCGAGGCACGAATGG

                                                                             
         66 GATGAGACGTAGCCTTTATGTAAATAGATTGCGCATAGCTTAGTGGGTGCGATCATACCAGCACT
         66 GATGAGACGTAGCCTTTATGTAAATAGATTGCGCATAGCTTAGTGGGTGCGATCATACCAGCACT

                             *        *          *                           
        131 AAAGCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGG
        131 AAAGCACCGGATCCCATAAGAACTCCCCAGTTAAGCGCGCTTGGGCGAGAGTAGTACTAGGATGG

                      *          * *        *                                
        196 GTGACCTCCTGGGAAGTCCTCGTGTTGCACCCCACTTTTTTTTGTATTATTTTATTTATCGTAAA
        196 GTGACCTCCTAGGAAGTCCTCATTTTGCACCCAACTTTTTTTTGTATTATTTTATTTATCGTAAA

                                                  *                          
        261 TTTGCAGTTTTGCGAAATAGTAAAGCTTCATGGGATATGTGGATATTATTAGCGTATTTTTATTT
        261 TTTGCAGTTTTGCGAAATAGTAAAGCTTCATGGGATATATGGATATTATTAGCGTATTTTTATTT

                     *
        326 TATTTTTATC
        326 TATTTTTATT

             * *      *     *                   *                            
        336 CACAAAAATATGTA-TTCCCGAGCATTATTTGGGTAAATTTACATTAAAATTCGAGGCACGAATG
          1 CTCGAAAATACG-ACTCCCCGAGCATTATTTGGGTATATTTACATTAAAATTCGAGGCACGAATG

                          *                   * *   *                        
        400 GGATGAGACGTAGCATTTATGTAAATAGATTGCGTAGAGCATAGTGGGTGCGATCATACCAGCAC
         65 GGATGAGACGTAGCCTTTATGTAAATAGATTGCGCATAGCTTAGTGGGTGCGATCATACCAGCAC

                                                          *   **             
        465 TAAAGCACCGGATCCCATAAGAACTCCCCAGTTAAGCGCGCTTGGGGGAGTTTAGTACTAGGATG
        130 TAAAGCACCGGATCCCATAAGAACTCCCCAGTTAAGCGCGCTTGGGCGAGAGTAGTACTAGGATG

                                                                             
        530 GGTGACCTCCTAGGAAGTCCTCATTTTGCACCCAACTTTTTTTTGTATTATTTTATTTATCGTAA
        195 GGTGACCTCCTAGGAAGTCCTCATTTTGCACCCAACTTTTTTTTGTATTATTTTATTTATCGTAA

                                                                             
        595 ATTTGCAGTTTTGCGAAATAGTAAAGCTTCATGGGATATATGGATATTATTAGCGTATTTTTATT
        260 ATTTGCAGTTTTGCGAAATAGTAAAGCTTCATGGGATATATGGATATTATTAGCGTATTTTTATT

                       
        660 TTATTTTTATT
        325 TTATTTTTATT

                                                                             
        671 CTCGAAAATACGACTCCCCGAGCATTATTTGGGTATATTTACATTAAAATTCGAGGCACGAATGG
          1 CTCGAAAATACGACTCCCCGAGCATTATTTGGGTATATTTACATTAAAATTCGAGGCACGAATGG

                                                  ***************************
        736 GATGAGACGTAGCCTTTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
         66 GATGAGACGTAGCCTTTAT-------------------GTAAATAGATTGCGCATAGCTTAGTGG

            ****  *       ***          *                       *             
        801 NNNNGAGCATAGTGGGTGCGATCATACCAGCACTAAAGCACCGGATCCCATCAGAACTCCCCAGT
        112 GTGCGATCATA---CCAGC-A-C-TA-AAGCAC--------CGGATCCCATAAGAACTCCCCAGT

                          *   **      *                                      
        866 TAAGCGCGCTTGGGGGAGTTTAGTACAAGGATGGGTGACCTCCTAGGAAGTCCTCATTTTGCACC
        162 TAAGCGCGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTAGGAAGTCCTCATTTTGCACC

                         *             *                   *                 
        931 CAACTTTTTTTTGAATTATTTTATTTAACGTAAATTTGCAGTTTTGCAAAATAGTAAAGCTTCAT
        227 CAACTTTTTTTTGTATTATTTTATTTATCGTAAATTTGCAGTTTTGCGAAATAGTAAAGCTTCAT

                                                        
        996 GGGATATATGGATATTATTAGCGTATTTTTATTTTATTTTTATT
        292 GGGATATATGGATATTATTAGCGTATTTTTATTTTATTTTTATT

                                                                             
       1040 CTCGAAAATACGACTCCCCGAGCATTATTTGGGTATATTTACATTAAAATTCGAGGCACGAATGG
          1 CTCGAAAATACGACTCCCCGAGCATTATTTGGGTATATTTACATTAAAATTCGAGGCACGAATGG

                                                 *            *              
       1105 GATGAGACGTAGCCTTTATGTAAATAGATTGCGCATATCTTAGTGGGTGCAATCATACCAGCACT
         66 GATGAGACGTAGCCTTTATGTAAATAGATTGCGCATAGCTTAGTGGGTGCGATCATACCAGCACT

               *                       *       ** *                * *       
       1170 AAAACACCGGATCCCA-ACAGAACTCCGCAGTTAATAGTGCTTGGGCGAGAGTAGAAGTAGGATG
        131 AAAGCACCGGATCCCATA-AGAACTCCCCAGTTAAGCGCGCTTGGGCGAGAGTAGTACTAGGATG

                  
       1234 GGTGAC
        195 GGTGAC


Statistics
Matches: 749,  Mismatches: 118, Indels: 74
        0.80            0.13        0.08

Matches are distributed among these distances:
 334    1  0.00
 335  438  0.58
 336    1  0.00
 343    4  0.01
 344    2  0.00
 345    1  0.00
 346    1  0.00
 347    2  0.00
 350    5  0.01
 354    6  0.01
 357    2  0.00
 358    1  0.00
 359    1  0.00
 360    2  0.00
 361    5  0.01
 369  277  0.37

ACGTcount: A:0.27, C:0.17, G:0.21, T:0.31


Consensus pattern (335 bp):   
CTCGAAAATACGACTCCCCGAGCATTATTTGGGTATATTTACATTAAAATTCGAGGCACGAATGG
GATGAGACGTAGCCTTTATGTAAATAGATTGCGCATAGCTTAGTGGGTGCGATCATACCAGCACT
AAAGCACCGGATCCCATAAGAACTCCCCAGTTAAGCGCGCTTGGGCGAGAGTAGTACTAGGATGG
GTGACCTCCTAGGAAGTCCTCATTTTGCACCCAACTTTTTTTTGTATTATTTTATTTATCGTAAA
TTTGCAGTTTTGCGAAATAGTAAAGCTTCATGGGATATATGGATATTATTAGCGTATTTTTATTT
TATTTTTATT
Done.