Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000782.1 Kokia drynarioides strain JFW-HI SEQ_111843, 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, 793

Length: 1323
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36


Found at i:168 original size:82 final size:82

Alignment explanation


    Indices: 31--250  Score: 341
    Period size: 82  Copynumber: 2.7  Consensus size: 82

         21 GATTCCTTCA

                         **                                                  
         31 ATGGCTGAGTCTTTACATATGTTGCAGATTCTCATCAGCTTGTGTGAGCAGCATCGAGAGTGAGA
          1 ATGGCTGAGTCTTCGCATATGTTGCAGATTCTCATCAGCTTGTGTGAGCAGCATCGAGAGTGAGA

                           * 
         96 AATTCTGGACCATATTG
         66 AATTCTGGACCATATCG

                 *                             *                             
        113 ATGGCCGAGTCTTCGCATATGTTGCAGATTCTCATTAGCTTGTGTGAGCAGCATCGAGAGTGAGA
          1 ATGGCTGAGTCTTCGCATATGTTGCAGATTCTCATCAGCTTGTGTGAGCAGCATCGAGAGTGAGA

                     * *     
        178 AATTCTGGATCGTATCG
         66 AATTCTGGACCATATCG

                *                  * *                   *          
        195 ATGGTTGAGTCTTCGCATATGTTACGGATTCTCATCAGCTTGTGTCAGCAGCATCG
          1 ATGGCTGAGTCTTCGCATATGTTGCAGATTCTCATCAGCTTGTGTGAGCAGCATCG

        251 TACACTGGTT


Statistics
Matches: 125,  Mismatches: 13, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  82  125  1.00

ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32


Consensus pattern (82 bp):   
ATGGCTGAGTCTTCGCATATGTTGCAGATTCTCATCAGCTTGTGTGAGCAGCATCGAGAGTGAGA
AATTCTGGACCATATCG

Found at i:288 original size:24 final size:24

Alignment explanation


    Indices: 260--373  Score: 156
    Period size: 24  Copynumber: 4.8  Consensus size: 24

        250 GTACACTGGT

                  *                 
        260 TAACCAATCTGGGCTCGTAAGAGC
          1 TAACCATTCTGGGCTCGTAAGAGC

                      *             
        284 TAACCATTCTAGGCTCGTAAGAGC
          1 TAACCATTCTGGGCTCGTAAGAGC

               *            *       
        308 TAATCATTCTGGGCTCTTAAGAGC
          1 TAACCATTCTGGGCTCGTAAGAGC

               *            *       
        332 TAAACATTCTGGGCTCATAAGAGC
          1 TAACCATTCTGGGCTCGTAAGAGC

               *    *         
        356 TAATCATTTTGGGCTCGT
          1 TAACCATTCTGGGCTCGT

        374 GTGGGCTAAA


Statistics
Matches: 80,  Mismatches: 10, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  24   80  1.00

ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29


Consensus pattern (24 bp):   
TAACCATTCTGGGCTCGTAAGAGC

Done.