Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001468.1 Kokia drynarioides strain JFW-HI SEQ_112992, 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, 828

Length: 1380
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32


Found at i:762 original size:283 final size:281

Alignment explanation


    Indices: 1--1326  Score: 1542
    Period size: 283  Copynumber: 4.7  Consensus size: 281

                                     *                                       
          1 TGTACTTGTTGATTTGTGCGGATTTCGTCCCACTATTTTTATTTACTCGTAGCATTCAAATTGGC
          1 TGTACTTGTTGATTTGTGCGGATTTGGTCCCACTATTTTTATTTACTCGTAGCATTCAAATTGGC

                                                                    *      * 
         66 GTCTTATCTTTGAGAAAAAAAATAGAAAATTGATGAAATCAACGAAGAATCTCCCTGCCAAATTC
         66 GTCTTATCTTTGAGAAAAAAAATAGAAAATTGATGAAATCAACGAAGAATCTCCCTACCAAATAC

                                   *              * *                        
        131 AAGCAGCTCAATCACATGCATTTGACTTGAAACCGCCGTGCAAGATGGCAGTTTTAAAATAAAAG
        131 AAGCAGCTCAATCACATGCATTTAACTTGAAACCGCCGCGTAAGATGGCAGTTTTAAAATAAAAG

                                                            *                
        196 AGAAAATATTTTTTATATCAAGAACGTCGCGTGTCAGAATCCAAAGAAGCAAATATTATTTTAGC
        196 AGAAAATATTTTTTATATCAAGAACGTCGCGTGTCAGAATCCAAAGAAACAAATATTATTTTAGC

                                 
        261 TTAAATTTTAAGAATAGTCCT
        261 TTAAATTTTAAGAATAGTCCT

                *     *                     *                         *      
        282 TGTATTTGTTTATTTGTGCGGACTTT-GTCCCTC-ATTTTTTATTTACTCGTAGCATTGAAATTG
          1 TGTACTTGTTGATTTGTGCGGA-TTTGGTCCCACTA-TTTTTATTTACTCGTAGCATTCAAATTG

              *      *       *        *     *           *                    
        345 GCCTCTTATGTTT--GACAAAAAA-ACAAAATAGATGAAATCAAAGAAGAATCTCCCTACCAAAT
         64 GCGTCTTATCTTTGAGAAAAAAAATAGAAAATTGATGAAATCAACGAAGAATCTCCCTACCAAAT

                *      *                       *                        *    
        407 ACAATCAGCTCCATCACATGCATTTAACTTGAAACTGCCGCGTAAGATGGCAGTTTTAAAGTAAA
        129 ACAAGCAGCTCAATCACATGCATTTAACTTGAAACCGCCGCGTAAGATGGCAGTTTTAAAATAAA

                                                   *      *           *  *   
        472 AGAGAAAATATTTTCTTATATCAAGAACGTCGCGTGTCAAAATCCAGAGAAACAAATAGTACTTT
        194 AGAGAAAATATTTT-TTATATCAAGAACGTCGCGTGTCAGAATCCAAAGAAACAAATATTATTTT

              *                     
        537 AGTTTAAATTTTAAGAATAGTCCT
        258 AGCTTAAATTTTAAGAATAGTCCT

                        *     *           *                    *             
        561 TGTACTTGTTGAATTGTGTGGATTTGGTCCTACTATTTTTATTTACTCGTACCATTCAAATTGGC
          1 TGTACTTGTTGATTTGTGCGGATTTGGTCCCACTATTTTTATTTACTCGTAGCATTCAAATTGGC

                                                                     *      *
        626 GTCTTATCTTTGAGAAAAAAAAATAGAAAATTGATGAAATCAACGAAGAATCTCCCTGCCAAATT
         66 GTCTTATCTTTGAG-AAAAAAAATAGAAAATTGATGAAATCAACGAAGAATCTCCCTACCAAATA

                  *                              *                           
        691 CAAGCAACTCAATCACATGCATTTAACTTGAAACCGCAGCGTAAGATGGCAGTTTTAAAATAAAA
        130 CAAGCAGCTCAATCACATGCATTTAACTTGAAACCGCCGCGTAAGATGGCAGTTTTAAAATAAAA

                                      *                                      
        756 GAGAAAATATTTTTTTATATCAAGAATG-CTGCGTGTCAGAATCCAAAGAAACAAATATTATTTT
        195 GAGAAAATA-TTTTTTATATCAAGAACGTC-GCGTGTCAGAATCCAAAGAAACAAATATTATTTT

                            *       
        820 AGCTTAAATTTTAAGATTAGTCCT
        258 AGCTTAAATTTTAAGAATAGTCCT

            *    *             *                                    *       *
        844 AGTACGTGTTGATTTGTGCAGATTTGGTCCCACTATTTTTATTTACTCGTAGCATTGAAATTGGG
          1 TGTACTTGTTGATTTGTGCGGATTTGGTCCCACTATTTTTATTTACTCGTAGCATTCAAATTGGC

                  **                *                   *                    
        909 GTCTTAAGTTTGAGCAAAAAAAAAAAGAAAATTGATGAAATCAATGAAGAATCTCCCTACCAAAT
         66 GTCTTATCTTTGAG--AAAAAAAATAGAAAATTGATGAAATCAACGAAGAATCTCCCTACCAAAT

                        *       * *            **       *               *    
        974 ACAAGCAGCTCAGTCACATGAAATTATA-TTGAAATGGCCGCGTTAGATGGCA-TGTTTAGAATA
        129 ACAAGCAGCTCAATCACATGCATTTA-ACTTGAAACCGCCGCGTAAGATGGCAGT-TTTAAAATA

               *      *              *  *  *    **   *   *  * **   *         
       1037 AAAAAGAATTTATCATTTTTTATATTAAAAATGTCGTATGTTAGAGTCGAGTGAAGCAAATATTA
        192 AAAGAGAA--AAT-ATTTTTTATATCAAGAACGTCGCGTGTCAGAATCCAAAGAAACAAATATTA

              *   *  *    *             
       1102 TTCTAGGTTTAATTCTAAGAATAGTCCT
        254 TTTTAGCTTAAATTTTAAGAATAGTCCT

            **     *                  **    **                *  *           
       1130 CATACTTATTGATTTCG-GCGGATTTACTCCCTTTATTTTTATTTACTCGAAGAATTCAAATTGG
          1 TGTACTTGTTGATTT-GTGCGGATTTGGTCCCACTATTTTTATTTACTCGTAGCATTCAAATTGG

                    **            *      *       *    *         * *  *       
       1194 C-TACTTAAGTTTGAG--AAAACATAGAATATTGATGCAATCGACGAAGAATTTGCCGACCAAAT
         65 CGT-CTTATCTTTGAGAAAAAAAATAGAAAATTGATGAAATCAACGAAGAATCTCCCTACCAAAT

                *  *   **         *   *   *         *  *    *     *          
       1256 ACAACCAACTCTGTCACATGCAATTATCTTAAAACCGCCGTGTCAGATAGCAGTCTTAAAATAAA
        129 ACAAGCAGCTCAATCACATGCATTTAACTTGAAACCGCCGCGTAAGATGGCAGTTTTAAAATAAA

             *    
       1321 AAAGAA
        194 AGAGAA

       1327 TTTATTATTT


Statistics
Matches: 893,  Mismatches: 130, Indels: 43
        0.84            0.12        0.04

Matches are distributed among these distances:
 278  110  0.12
 279  136  0.15
 280    2  0.00
 281   65  0.07
 282  104  0.12
 283  239  0.27
 284  107  0.12
 285    2  0.00
 286  125  0.14
 287    3  0.00

ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32


Consensus pattern (281 bp):   
TGTACTTGTTGATTTGTGCGGATTTGGTCCCACTATTTTTATTTACTCGTAGCATTCAAATTGGC
GTCTTATCTTTGAGAAAAAAAATAGAAAATTGATGAAATCAACGAAGAATCTCCCTACCAAATAC
AAGCAGCTCAATCACATGCATTTAACTTGAAACCGCCGCGTAAGATGGCAGTTTTAAAATAAAAG
AGAAAATATTTTTTATATCAAGAACGTCGCGTGTCAGAATCCAAAGAAACAAATATTATTTTAGC
TTAAATTTTAAGAATAGTCCT
Done.