Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009556.1 Kokia drynarioides strain JFW-HI SEQ_124268, 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: 5551
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33


Found at i:4415 original size:10 final size:10

Alignment explanation


    Indices: 4400--4429  Score: 51
    Period size: 10  Copynumber: 3.0  Consensus size: 10

       4390 TATTTTTAAT

                    * 
       4400 GTAATTTTTA
          1 GTAATTTTCA

                      
       4410 GTAATTTTCA
          1 GTAATTTTCA

                      
       4420 GTAATTTTCA
          1 GTAATTTTCA

       4430 TGTTAAAGGA


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  10   19  1.00

ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53


Consensus pattern (10 bp):   
GTAATTTTCA

Found at i:5330 original size:195 final size:195

Alignment explanation


    Indices: 4934--5381  Score: 514
    Period size: 195  Copynumber: 2.3  Consensus size: 195

       4924 GAAACCGACG

                                     *                        *      *   *   
       4934 CGATGGCTGAGGTACTGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGTAGCATCATGAGTCG
          1 CGATGGCTGAGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCG

                                                              *  *           
       4999 GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTTATATTTATGTATAAGT
         66 GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTTAGATCTATGTATAAGT

                 *           *       *                                 *    *
       5064 GCATATTCTCGACAGCTCGTGTGAGGAGCATCGTTAGGGAACAGTTATATGCACAGATATTATAT
        131 GCATACTCTCGACAGCTAGTGTGAGCAGCATCGTTAGGGAACAGTTATATGCACAGATACTATAC

                                      *            *      *                  
       5129 CGATGGCTGAGGTACTGCATATGTTGTGAGTCCTCGACAACTCGTGAGAGCAGCATCGTGACTCG
          1 CGATGGCTGAGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCG

                      * * *    *           *     *                         * 
       5194 GGAAA-GAGATATGGATCCTA-AATGGATTATAGGCCTTACGATGGC-TAGGA-CTATGCT-TTA
         66 GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTTA-GATCTATG-TATAA

                                    *        *                    *          
       5254 -TGCATACTCTCGACAGCTAGTGTTAGCAGCATTGTTAGGGAACAGTT-TATAGTACAGATAGGC
        129 GTGCATACTCTCGACAGCTAGTGTGAGCAGCATCGTTAGGGAACAGTTATAT-GCACAGAT----

               *   
       5317 ACTGTAC
        189 ACTATAC

                     *   *       *            *       *               
       5324 CGATGGCTGGGGTGCTGCATACGTTGCGAGTCCTTGACAGCTTGTGTGAGCAGCATCG
          1 CGATGGCTGAGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCG

       5382 AGTACTAGTA


Statistics
Matches: 213,  Mismatches: 33, Indels: 14
        0.82            0.13        0.05

Matches are distributed among these distances:
 190    3  0.01
 191   49  0.23
 192    8  0.04
 193   25  0.12
 194   11  0.05
 195  117  0.55

ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27


Consensus pattern (195 bp):   
CGATGGCTGAGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCG
GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTTAGATCTATGTATAAGT
GCATACTCTCGACAGCTAGTGTGAGCAGCATCGTTAGGGAACAGTTATATGCACAGATACTATAC
Done.