Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003403.1 Kokia drynarioides strain JFW-HI SEQ_116148, 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: 2903
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33


Found at i:1168 original size:24 final size:24

Alignment explanation


    Indices: 1132--1451  Score: 246
    Period size: 24  Copynumber: 13.3  Consensus size: 24

       1122 CATCTCAAGT

                    *           ** *
       1132 ACGTTTACACTCGTCAGCTTGTAT
          1 ACGTTTACGCTCGTCAGCTTACAC

              *             *   *   
       1156 ACATTTACGCTCGTCAACTTGCAC
          1 ACGTTTACGCTCGTCAGCTTACAC

                                 * *
       1180 ACGTTTACGCTCGTCAGCTTATAT
          1 ACGTTTACGCTCGTCAGCTTACAC

                     *          *   
       1204 ACGTTTACGTTCGTCAGCTTGCAC
          1 ACGTTTACGCTCGTCAGCTTACAC

                                 * *
       1228 ACGTTTACGCTCGTCAGCTTATAT
          1 ACGTTTACGCTCGTCAGCTTACAC

             *     *            *   
       1252 ATGTTTATGCTCGTCAGCTTGCAC
          1 ACGTTTACGCTCGTCAGCTTACAC

             *          *   *    * *
       1276 ATGTTTACGCTCTTCAACTTATAT
          1 ACGTTTACGCTCGTCAGCTTACAC

             *          * *  *      
       1300 ATGTTTACGCTCATTAGTTTACAC
          1 ACGTTTACGCTCGTCAGCTTACAC

              *    *    * *  *   * *
       1324 ACATTTATGCTCATAAGATTAAAT
          1 ACGTTTACGCTCGTCAGCTTACAC

                   *        *   *   
       1348 ACGTTTATGCTCGTCAACTTGCAC
          1 ACGTTTACGCTCGTCAGCTTACAC

             *                    *  
       1372 AAGTTTACGCTCGTCAGCCTT-TAC
          1 ACGTTTACGCTCGTCAG-CTTACAC

                   *   *        *   
       1396 ACGTTTATGCTTGTCAGCTTGCAC
          1 ACGTTTACGCTCGTCAGCTTACAC

                                 * *
       1420 ACGTTTACGCTCGTCAGCTTATAT
          1 ACGTTTACGCTCGTCAGCTTACAC

                    
       1444 ACGTTTAC
          1 ACGTTTAC

       1452 ATAGTTCAAT


Statistics
Matches: 231,  Mismatches: 63, Indels: 4
        0.78            0.21        0.01

Matches are distributed among these distances:
  23    3  0.01
  24  225  0.97
  25    3  0.01

ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37


Consensus pattern (24 bp):   
ACGTTTACGCTCGTCAGCTTACAC

Found at i:1205 original size:48 final size:48

Alignment explanation


    Indices: 1132--1451  Score: 381
    Period size: 48  Copynumber: 6.7  Consensus size: 48

       1122 CATCTCAAGT

                    *           *     *             *       
       1132 ACGTTTACACTCGTCAGCTTGTATACATTTACGCTCGTCAACTTGCAC
          1 ACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCAC

                                             *              
       1180 ACGTTTACGCTCGTCAGCTTATATACGTTTACGTTCGTCAGCTTGCAC
          1 ACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCAC

                                     *     *                
       1228 ACGTTTACGCTCGTCAGCTTATATATGTTTATGCTCGTCAGCTTGCAC
          1 ACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCAC

             *          *   *        *          * *  *  *   
       1276 ATGTTTACGCTCTTCAACTTATATATGTTTACGCTCATTAGTTTACAC
          1 ACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCAC

              *    *    * *  *   *         *        *       
       1324 ACATTTATGCTCATAAGATTAAATACGTTTATGCTCGTCAACTTGCAC
          1 ACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCAC

             *                      *       *   *            
       1372 AAGTTTACGCTCGTCAGCCTT-TACACGTTTATGCTTGTCAGCTTGCAC
          1 ACGTTTACGCTCGTCAG-CTTATATACGTTTACGCTCGTCAGCTTGCAC

                                            
       1420 ACGTTTACGCTCGTCAGCTTATATACGTTTAC
          1 ACGTTTACGCTCGTCAGCTTATATACGTTTAC

       1452 ATAGTTCAAT


Statistics
Matches: 226,  Mismatches: 44, Indels: 4
        0.82            0.16        0.01

Matches are distributed among these distances:
  47    3  0.01
  48  221  0.98
  49    2  0.01

ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37


Consensus pattern (48 bp):   
ACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCAC

Done.