Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006440.1 Kokia drynarioides strain JFW-HI SEQ_121022, 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: 2923
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36


Found at i:181 original size:26 final size:26

Alignment explanation


    Indices: 150--349  Score: 193
    Period size: 26  Copynumber: 7.7  Consensus size: 26

        140 TAACACAGTA

                       *     *        
        150 CCTGCTAAATATTCACCAGCTCGAAG
          1 CCTGCTAAATAATCACCGGCTCGAAG

             *        *    *     *  * 
        176 CTTGCTAAATGATCATCGGCTTGAGG
          1 CCTGCTAAATAATCACCGGCTCGAAG

             *              *  *  *   
        202 CTTGCTAAATAATCACTGGATCAAAG
          1 CCTGCTAAATAATCACCGGCTCGAAG

                            *     *   
        228 CCTGCTAAATAATCACTGGCTCAAAG
          1 CCTGCTAAATAATCACCGGCTCGAAG

             *              **        
        254 CTTGCTAAATAATCACTAGCTCGAAG
          1 CCTGCTAAATAATCACCGGCTCGAAG

               *        *             
        280 CCTACTAAATAACCACCGGCTCGAAG
          1 CCTGCTAAATAATCACCGGCTCGAAG

              *            *     *    
        306 CCAGCTAAATAATCATCGGCTTGAAG
          1 CCTGCTAAATAATCACCGGCTCGAAG

            *                 
        332 ACTGCTAAAATAATCACC
          1 CCTGCT-AAATAATCACC

        350 TCACATTTTC


Statistics
Matches: 141,  Mismatches: 32, Indels: 1
        0.81            0.18        0.01

Matches are distributed among these distances:
  26  131  0.93
  27   10  0.07

ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24


Consensus pattern (26 bp):   
CCTGCTAAATAATCACCGGCTCGAAG

Found at i:471 original size:3 final size:3

Alignment explanation


    Indices: 463--513  Score: 102
    Period size: 3  Copynumber: 17.0  Consensus size: 3

        453 ATAAACACAG

                                                                           
        463 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA

               
        511 ATA
          1 ATA

        514 TGAACTTACC


Statistics
Matches: 48,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   48  1.00

ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33


Consensus pattern (3 bp):   
ATA

Done.