Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013508.1 Kokia drynarioides strain JFW-HI SEQ_128534, 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, 610

Length: 1018
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34


Found at i:115 original size:23 final size:23

Alignment explanation


    Indices: 84--218  Score: 144
    Period size: 23  Copynumber: 5.8  Consensus size: 23

         74 AACAGAGAGC

                     *       *   * 
         84 AAGTGCTAAACAGAGAGTACACA
          1 AAGTGCTAATCAGAGAGCACAAA

                *                  
        107 AAGTACTAATCAGAGAGCACAAA
          1 AAGTGCTAATCAGAGAGCACAAA

                                   
        130 AAGTGCTAATCAGAGAGCACAAA
          1 AAGTGCTAATCAGAGAGCACAAA

            *                     * *
        153 CAGTGCTAATAACAGAGAGCACGAG
          1 AAGTGCTAAT--CAGAGAGCACAAA

             *       *           * 
        178 ACGTGCTAAACAGAGAGCACACA
          1 AAGTGCTAATCAGAGAGCACAAA

            **                
        201 CTGTGCTAATCAGAGAGC
          1 AAGTGCTAATCAGAGAGC

        219 GCGCTAGTGT


Statistics
Matches: 93,  Mismatches: 17, Indels: 4
        0.82            0.15        0.04

Matches are distributed among these distances:
  23   75  0.81
  25   18  0.19

ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13


Consensus pattern (23 bp):   
AAGTGCTAATCAGAGAGCACAAA

Found at i:184 original size:48 final size:46

Alignment explanation


    Indices: 84--218  Score: 164
    Period size: 48  Copynumber: 2.9  Consensus size: 46

         74 AACAGAGAGC

                             *          *                  
         84 AAGTGCTAAACAGAGAGTACACAA-AGTACTAATCAGAGAGCACAAA
          1 AAGTGCTAAACAGAGAGCACA-AACAGTGCTAATCAGAGAGCACAAA

                     *                                   * *
        130 AAGTGCTAATCAGAGAGCACAAACAGTGCTAATAACAGAGAGCACGAG
          1 AAGTGCTAAACAGAGAGCACAAACAGTGCTAAT--CAGAGAGCACAAA

             *                   *  *                
        178 ACGTGCTAAACAGAGAGCACACACTGTGCTAATCAGAGAGC
          1 AAGTGCTAAACAGAGAGCACAAACAGTGCTAATCAGAGAGC

        219 GCGCTAGTGT


Statistics
Matches: 77,  Mismatches: 9, Indels: 6
        0.84            0.10        0.07

Matches are distributed among these distances:
  45    2  0.03
  46   35  0.45
  48   40  0.52

ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13


Consensus pattern (46 bp):   
AAGTGCTAAACAGAGAGCACAAACAGTGCTAATCAGAGAGCACAAA
Done.