Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000090.1 Kokia drynarioides strain JFW-HI SEQ_110716, 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: 35253
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30

Warning! 152 characters in sequence are not A, C, G, or T


Found at i:15238 original size:81 final size:81

Alignment explanation


    Indices: 15135--15360  Score: 256
    Period size: 82  Copynumber: 2.8  Consensus size: 81

      15125 GGTTCCCGTG

                                               *       *                 *   
      15135 GGTGGTTATACCCATTTGCATGTTTGTATATTCGTTTAATGAACATTGTGAGACAAAAGGATCCA
          1 GGTGGTTATACCCATTTGCATGTTTGTATATTCGTATAATGAATATTGTGAGACAAAAGGAGCCA

                            
      15200 ATGAAGGATCCTCACA
         66 ATGAAGGATCCTCACA

                         *   *               *                    *   *      
      15216 GGTGGTTATACCCTTTTCCATGTTTGTATATTCATATAATGAATATTGTGAGATGAAAGGGAGCC
          1 GGTGGTTATACCCATTTGCATGTTTGTATATTCGTATAATGAATATTGTGAGA-CAAAAGGAGCC

            **        *  **  
      15281 TGTGAAGGATTCTTGCA
         65 AATGAAGGATCCTCACA

            **           *                           *           *    *     
      15298 ACTGGTTATACCCCTTTGCATGTTTGTATA-TCTGTATAATAAATATTGTGAGGCAAAGGGAGC
          1 GGTGGTTATACCCATTTGCATGTTTGTATATTC-GTATAATGAATATTGTGAGACAAAAGGAGC

      15361 TCACGAAGGG


Statistics
Matches: 122,  Mismatches: 21, Indels: 4
        0.83            0.14        0.03

Matches are distributed among these distances:
  81   59  0.48
  82   63  0.52

ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35


Consensus pattern (81 bp):   
GGTGGTTATACCCATTTGCATGTTTGTATATTCGTATAATGAATATTGTGAGACAAAAGGAGCCA
ATGAAGGATCCTCACA

Found at i:15336 original size:82 final size:81

Alignment explanation


    Indices: 15136--15409  Score: 284
    Period size: 81  Copynumber: 3.4  Consensus size: 81

      15126 GTTCCCGTGG

                        *                     *       *         *   *   *  * 
      15136 GTGGTTATACCCATTTGCATGTTTGTATATTCGTTTAATGAACATTGTGAGACAAAAGGATCCAA
          1 GTGGTTATACCCCTTTGCATGTTTGTATATTCGTATAATGAATATTGTGAGAGAAAGGGAGCCTA

                    *  **  *
      15201 TGAAGGATCCTCACAG
         66 TGAAGGATTCTTGCAA

                        *   *               *                                
      15217 GTGGTTATACCCTTTTCCATGTTTGTATATTCATATAATGAATATTGTGAGATGAAAGGGAGCCT
          1 GTGGTTATACCCCTTTGCATGTTTGTATATTCGTATAATGAATATTGTGAGA-GAAAGGGAGCCT

            *                
      15282 GTGAAGGATTCTTGCAA
         65 ATGAAGGATTCTTGCAA

            *                                       *                        
      15299 CTGGTTATACCCCTTTGCATGTTTGTATA-TCTGTATAATAAATATTGTGAG-GCAAAGGGAG-C
          1 GTGGTTATACCCCTTTGCATGTTTGTATATTC-GTATAATGAATATTGTGAGAG-AAAGGGAGCC

               *     *  *   * *
      15361 TCACGAAGGGTTTTTGTAT
         64 T-ATGAAGGATTCTTGCAA

                            *             
      15380 GTGGTTATACCCCTTTACATGTTTGTATAT
          1 GTGGTTATACCCCTTTGCATGTTTGTATAT

      15410 CCTTAAAATG


Statistics
Matches: 161,  Mismatches: 27, Indels: 9
        0.82            0.14        0.05

Matches are distributed among these distances:
  80    3  0.02
  81   95  0.59
  82   63  0.39

ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36


Consensus pattern (81 bp):   
GTGGTTATACCCCTTTGCATGTTTGTATATTCGTATAATGAATATTGTGAGAGAAAGGGAGCCTA
TGAAGGATTCTTGCAA

Found at i:20147 original size:25 final size:25

Alignment explanation


    Indices: 20112--20170  Score: 73
    Period size: 25  Copynumber: 2.4  Consensus size: 25

      20102 TTCTAATGGT

                                    *
      20112 AACCATCCATGATACCCTCCCACGG
          1 AACCATCCATGATACCCTCCCACGA

                  *    *    *  *     
      20137 AACCATTCATGGTACCTTCGCACGA
          1 AACCATCCATGATACCCTCCCACGA

                     
      20162 AACCATCCA
          1 AACCATCCA

      20171 CGACCATTCA


Statistics
Matches: 28,  Mismatches: 6, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  25   28  1.00

ACGTcount: A:0.31, C:0.39, G:0.12, T:0.19


Consensus pattern (25 bp):   
AACCATCCATGATACCCTCCCACGA
Done.