Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006627.1 Kokia drynarioides strain JFW-HI SEQ_121217, 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: 3907
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31


Found at i:2487 original size:37 final size:38

Alignment explanation


    Indices: 2446--2543  Score: 119
    Period size: 38  Copynumber: 2.6  Consensus size: 38

       2436 ATACATGTTC

                                                  
       2446 ATGCAGCGACATTCTTGGGTGCAA-TTGAAGAATACTT
          1 ATGCAGCGACATTCTTGGGTGCAATTTGAAGAATACTT

                 **  *         *                *  
       2483 ATGCAATGATAGTTC-TGGATGCAATTTGAAGAATATTT
          1 ATGCAGCGACA-TTCTTGGGTGCAATTTGAAGAATACTT

                       *           
       2521 ATGCAGCGACAGTCTTGGGTGCA
          1 ATGCAGCGACATTCTTGGGTGCA

       2544 TTCCGGAAAT


Statistics
Matches: 48,  Mismatches: 10, Indels: 5
        0.76            0.16        0.08

Matches are distributed among these distances:
  37   18  0.38
  38   30  0.62

ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31


Consensus pattern (38 bp):   
ATGCAGCGACATTCTTGGGTGCAATTTGAAGAATACTT

Found at i:2627 original size:37 final size:37

Alignment explanation


    Indices: 2561--2651  Score: 132
    Period size: 37  Copynumber: 2.5  Consensus size: 37

       2551 AATATTCCTA

                  *         *                    
       2561 CGGTGATAGTTTT-GGTGCAATCTAGAAGTGCTCATG
          1 CGGTGACAGTTTTGGGCGCAATCTAGAAGTGCTCATG

                                                 
       2597 CGGTGACAGTTTTGGGCGCAATCTAGAAGTGCTCATG
          1 CGGTGACAGTTTTGGGCGCAATCTAGAAGTGCTCATG

             *                 
       2634 CAGTGACA-TGTTTGGGCG
          1 CGGTGACAGT-TTTGGGCG

       2652 GAATTCTGGA


Statistics
Matches: 50,  Mismatches: 3, Indels: 3
        0.89            0.05        0.05

Matches are distributed among these distances:
  36   13  0.26
  37   37  0.74

ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30


Consensus pattern (37 bp):   
CGGTGACAGTTTTGGGCGCAATCTAGAAGTGCTCATG
Done.