Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003000.1 Kokia drynarioides strain JFW-HI SEQ_115493, 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, 807

Length: 1346
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37


Found at i:567 original size:42 final size:42

Alignment explanation


    Indices: 65--547  Score: 664
    Period size: 42  Copynumber: 11.5  Consensus size: 42

         55 AAGGAAAACA

                                 *      *             
         65 TTCATTGCATTTAGAGGCCCAGGTGTGGCGGTCCATTTACTT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

                               *    *                   
        107 TTCATTGCATTTAGAGGCCTAAGTATGGAGG-CTCATTTACTTT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTC-CATTTAC-TT

                              *  *                    
        150 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTCCATTTACTT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

                                      *               
        192 TTCATTGCATTTAGAGGCCCAAGTGTAGAGGTCCATTTACTT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

                 *     *                    *          
        234 TTCATCGCATTCAGAGGGCCCAAGTGTGGAGGCCCATTTACTT
          1 TTCATTGCATTTAGA-GGCCCAAGTGTGGAGGTCCATTTACTT

                  *              *                    
        277 TTCATTTCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

                  *              *    *               
        319 TTCATTACATTTAGAGGCCCATGTGTAGAGGTCCATTTACTT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

                                                      
        361 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

                         *       *    **              
        403 TTCATTGCATTTAAAGGCCCAGGTGTAAAGGTCCATTTACTT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

              *                  *         *        * 
        445 TTTATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACCT
          1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

               *                *         *  *         
        487 TTCGTTGCATTTA-AGGGCCTAAGTGTGGATGTTCATTTACTT
          1 TTCATTGCATTTAGA-GGCCCAAGTGTGGAGGTCCATTTACTT

                     *         
        529 TTCATTGCAATTAGAGGCC
          1 TTCATTGCATTTAGAGGCC

        548 TAAGCATAGA


Statistics
Matches: 389,  Mismatches: 46, Indels: 12
        0.87            0.10        0.03

Matches are distributed among these distances:
  41    2  0.01
  42  312  0.80
  43   74  0.19
  44    1  0.00

ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36


Consensus pattern (42 bp):   
TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT

Found at i:571 original size:4 final size:4

Alignment explanation


    Indices: 562--596  Score: 56
    Period size: 4  Copynumber: 9.2  Consensus size: 4

        552 CATAGAGGTC

                                                          
        562 TATT TATT TATT TATT TATT TA-T T-TT TATT TATT T
          1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T

        597 CATTGTATAT


Statistics
Matches: 29,  Mismatches: 0, Indels: 4
        0.88            0.00        0.12

Matches are distributed among these distances:
   3    4  0.14
   4   25  0.86

ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77


Consensus pattern (4 bp):   
TATT

Done.