Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014249.1 Kokia drynarioides strain JFW-HI SEQ_129282, 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: 8225
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32


Found at i:342 original size:59 final size:59

Alignment explanation


    Indices: 251--792  Score: 711
    Period size: 59  Copynumber: 9.2  Consensus size: 59

        241 GCACGGGGGC

                      *    *          *                                
        251 AAAATGGT-AGTTTTGGAAGGTTCGGAGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
          1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT

                           *                       * *     *      *     
        309 AAAATGGTAA-TTTTCGAAAGGTTCGGGGTCAAAAATGGAACTTTTGAAAGTTCAAGGGT
          1 AAAATGGTAATTTTTAG-AAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT

                                *                                        
        368 AAAATGGTAATTTTT-GAAAAGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTC-AGGGGT
          1 AAAATGGTAATTTTTAG-AAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGA-GGGT

                          * *        *           *                      
        427 AAAATGGTAATTTTAAAAAGGTTCGAGGTCAAAAATGAGATTTTTGGAAGTTC-AGGGGT
          1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGA-GGGT

                                     *    *                *      *    
        486 AAAATGGTAATTTTTAGAAGGTTCGAGGTCGAAAATGGGATTTTTGGGAGTTCGGGGGT
          1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT

                                    *             *        *         * 
        545 AAAATGGTAATTTTTAGAAGGTTCAGGGTCAAAAATGGTATTTTTGGGAGTTCGAGGTT
          1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT

                                              *                   *    
        604 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAGTGGGATTTTTGGAAGTTCGGGGGT
          1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT

                                      *    *      *        *      *    
        663 AAAATGGTAATTTTTAGAAGGTTCGGCGTC-GAAATGGTATTTTTGGGAGTTCGGGGGT
          1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT

                              *    *          *                   *    
        721 AAAATGGTAATTTTTAGATGGTTTGGGGTCAAAAGTGGGATTTTTGGAAGTTCGGGGGT
          1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT

                          
        780 AAAAT-GTAATTTT
          1 AAAATGGTAATTTT

        793 GGAAAGTTTA


Statistics
Matches: 432,  Mismatches: 45, Indels: 14
        0.88            0.09        0.03

Matches are distributed among these distances:
  58   73  0.17
  59  355  0.82
  60    4  0.01

ACGTcount: A:0.30, C:0.05, G:0.32, T:0.33


Consensus pattern (59 bp):   
AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT

Found at i:2117 original size:18 final size:19

Alignment explanation


    Indices: 2096--2137  Score: 68
    Period size: 18  Copynumber: 2.3  Consensus size: 19

       2086 ATTAGTATTA

                            *  
       2096 TTATTAATATTAA-AACAG
          1 TTATTAATATTAATAAAAG

                               
       2114 TTATTAATATTAATAAAAG
          1 TTATTAATATTAATAAAAG

                 
       2133 TTATT
          1 TTATT

       2138 GAAACGTTTT


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  18   13  0.59
  19    9  0.41

ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45


Consensus pattern (19 bp):   
TTATTAATATTAATAAAAG
Done.