Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002366.1 Kokia drynarioides strain JFW-HI SEQ_114443, 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: 2330
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38


Found at i:1830 original size:208 final size:209

Alignment explanation


    Indices: 1419--2144  Score: 893
    Period size: 208  Copynumber: 3.5  Consensus size: 209

       1409 TTCATCGCTC

                          *      *             **                *     ** *  
       1419 GGTCTACTTCTCTGTATCTCACCAGGAAGATGACCGCTTTATTGCTTCAACCTACTTCTTTGCAT
          1 GGTCTACTTCTCTGCATCTCATCAGGAAGATGACCATTTTATTGCTTCAACCTGCTTCTCAGTAT

                          *   *  *    *              *    *           * *    
       1484 CTCATCAGGAAGATAGGGGTTTAAAGCTTCACTCACATTGAACTTTTCTTCATTTGATCTAGTCT
         66 CTCATCAGGAAG-TTGGGATTCAAAGTTTCACTCACATTGAGCTTTGCTTCA-TTGATTTGGTCT

                                                                             
       1549 ACTTCTCTGTATCTCATTAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCCT-TATCTC
        129 ACTTCTCTGTATCTCATTAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCT-CTGTATCTC

                      *      
       1613 ATCAGGAAGATGGATTT
        193 ATCAGGAAGACGGATTT

                        * *              *   * *            *                
       1630 GGTCTACTTCTCAGTATCTCATCAGGAAGGTGATCGTTTTATTGCTTCGACCTGCTTCTCAGTAT
          1 GGTCTACTTCTCTGCATCTCATCAGGAAGATGACCATTTTATTGCTTCAACCTGCTTCTCAGTAT

                        *     *  *                                           
       1695 CTCATCAGGAAGCTGGGACTCGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTAC
         66 CTCATCAGGAAGTTGGGATTCAAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTAC

                 *         *           *                    *    *          *
       1760 TT-TCAGTATCTCATCAGGAAGATGACTGCATCACTTGTTTTAATCCAGTTCTTTGTATCTCATT
        131 TTCTCTGTATCTCATTAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTGTATCTCATC

                          
       1824 AGGAAGACGGATTT
        196 AGGAAGACGGATTT

             *                   *             * *                *     *    
       1838 GAT-TCACTTC-CTGCATCTCGTCAGGAAGATGACAAATTTATTGCTTCAACCTTCTTCTTAGTA
          1 GGTCT-ACTTCTCTGCATCTCATCAGGAAGATGACCATTTTATTGCTTCAACCTGCTTCTCAGTA

                              *   *                              *           
       1901 TCTCATCAGGAAGTTGGGGTTCGAAGTTTCACTCACATTGAGCTTTGCTTCATCGATTTGGTCTA
         65 TCTCATCAGGAAGTTGGGATTCAAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTA

                 *                         * * *                      *      
       1966 CTTCTTTGTATCTCATTAGGAAGATGACCGCTTTATTTGTTTTAATCCACTTCTCTGTTTCTCAT
        130 CTTCTCTGTATCTCATTAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTGTATCTCAT

                      *    
       2031 CAGGAAGACGAATTT
        195 CAGGAAGACGGATTT

                *          *    *                           *     **         
       2046 GGTCCACTTCTCTGCGTCTCGTCAGGAAGATGACCATTTTATTGCTTCGACCTGGATCTCAGTAT
          1 GGTCTACTTCTCTGCATCTCATCAGGAAGATGACCATTTTATTGCTTCAACCTGCTTCTCAGTAT

                 *                            
       2111 CTCATTAGGAAGTTGGGATTCAAAAGTTTCACTC
         66 CTCATCAGGAAGTTGGGATTC-AAAGTTTCACTC

       2145 TTCTATCTGA


Statistics
Matches: 440,  Mismatches: 69, Indels: 13
        0.84            0.13        0.02

Matches are distributed among these distances:
 207  108  0.25
 208  145  0.33
 209   79  0.18
 210   41  0.09
 211   67  0.15

ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37


Consensus pattern (209 bp):   
GGTCTACTTCTCTGCATCTCATCAGGAAGATGACCATTTTATTGCTTCAACCTGCTTCTCAGTAT
CTCATCAGGAAGTTGGGATTCAAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTAC
TTCTCTGTATCTCATTAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTGTATCTCATC
AGGAAGACGGATTT

Done.