Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001131.1 Kokia drynarioides strain JFW-HI SEQ_112420, 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: 3410
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


Found at i:397 original size:90 final size:90

Alignment explanation


    Indices: 9--385  Score: 560
    Period size: 90  Copynumber: 4.2  Consensus size: 90

          1 GTTTGTCT

                        *    *           *  *           *        *         * 
          9 TTCTTTGGAGGTGCATAAACTGGTGGTTTAGGTTCAGGCTTCTCCTTCTTTGGCGGT-TCATACA
          1 TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCTTTCTTTGGTGGTGT-ATAAA

             *            *            
         73 CGGGTGGCTT-GGATTCAGGCTTCTCC
         65 CTGGTGGCTTAGG-CTCAGGCTTCTCC

                    *        * *                                             
         99 TTCTTTGGTGGTTCATACATTGGTGGTTTGGGCTCAGGCTTCTCTTTCTTTGGTGGTGTATAAAC
          1 TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCTTTCTTTGGTGGTGTATAAAC

                                 *   
        164 TGGTGGCTTAGGCTCAGGCTTTTCC
         66 TGGTGGCTTAGGCTCAGGCTTCTCC

                                                                             
        189 TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCTTTCTTTGGTGGTGTATAAAC
          1 TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCTTTCTTTGGTGGTGTATAAAC

                                 *   
        254 TGGTGGCTTAGGCTCAGGCTTTTCC
         66 TGGTGGCTTAGGCTCAGGCTTCTCC

                                                              *              
        279 TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCTTTCTTAGGTGGTGTATAAAC
          1 TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCTTTCTTTGGTGGTGTATAAAC

                        *            
        344 TGGTGGCTTAGGTTCAGGCTTCTCC
         66 TGGTGGCTTAGGCTCAGGCTTCTCC

                 *  *        
        369 TTCTTCGGTGGTTCATA
          1 TTCTTTGGAGGTTCATA

        386 GACAGGAGGT


Statistics
Matches: 265,  Mismatches: 20, Indels: 4
        0.92            0.07        0.01

Matches are distributed among these distances:
  90  262  0.99
  91    3  0.01

ACGTcount: A:0.12, C:0.19, G:0.29, T:0.40


Consensus pattern (90 bp):   
TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCTTTCTTTGGTGGTGTATAAAC
TGGTGGCTTAGGCTCAGGCTTCTCC

Found at i:404 original size:45 final size:45

Alignment explanation


    Indices: 9--385  Score: 438
    Period size: 45  Copynumber: 8.4  Consensus size: 45

          1 GTTTGTCT

                    *   *                   *            
          9 TTCTTTGGAGGTGCATAAACTGGTGGTTTAGGTTCAGGCTTCTCC
          1 TTCTTTGGTGGTTCATAAACTGGTGGTTTAGGCTCAGGCTTCTCC

                    *        *  *     *      *            
         54 TTCTTTGGCGGTTCATACACGGGTGGCTT-GGATTCAGGCTTCTCC
          1 TTCTTTGGTGGTTCATAAACTGGTGGTTTAGG-CTCAGGCTTCTCC

                             * *         *              *
         99 TTCTTTGGTGGTTCATACATTGGTGGTTTGGGCTCAGGCTTCTCT
          1 TTCTTTGGTGGTTCATAAACTGGTGGTTTAGGCTCAGGCTTCTCC

                                       *              *   
        144 TTCTTTGGTGGTGT-ATAAACTGGTGGCTTAGGCTCAGGCTTTTCC
          1 TTCTTTGGTGGT-TCATAAACTGGTGGTTTAGGCTCAGGCTTCTCC

                    *        *           *              *
        189 TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCT
          1 TTCTTTGGTGGTTCATAAACTGGTGGTTTAGGCTCAGGCTTCTCC

                                       *              *   
        234 TTCTTTGGTGGTGT-ATAAACTGGTGGCTTAGGCTCAGGCTTTTCC
          1 TTCTTTGGTGGT-TCATAAACTGGTGGTTTAGGCTCAGGCTTCTCC

                    *        *           *              *
        279 TTCTTTGGAGGTTCATATACTGGTGGTTTGGGCTCAGGCTTCTCT
          1 TTCTTTGGTGGTTCATAAACTGGTGGTTTAGGCTCAGGCTTCTCC

                 *                     *     *            
        324 TTCTTAGGTGGTGT-ATAAACTGGTGGCTTAGGTTCAGGCTTCTCC
          1 TTCTTTGGTGGT-TCATAAACTGGTGGTTTAGGCTCAGGCTTCTCC

                 *           
        369 TTCTTCGGTGGTTCATA
          1 TTCTTTGGTGGTTCATA

        386 GACAGGAGGT


Statistics
Matches: 281,  Mismatches: 43, Indels: 16
        0.83            0.13        0.05

Matches are distributed among these distances:
  44    5  0.02
  45  271  0.96
  46    5  0.02

ACGTcount: A:0.12, C:0.19, G:0.29, T:0.40


Consensus pattern (45 bp):   
TTCTTTGGTGGTTCATAAACTGGTGGTTTAGGCTCAGGCTTCTCC
Done.