Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006767.1 Kokia drynarioides strain JFW-HI SEQ_121365, 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: 11042
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30


Found at i:7026 original size:30 final size:30

Alignment explanation


    Indices: 6990--7048  Score: 77
    Period size: 30  Copynumber: 2.0  Consensus size: 30

       6980 CTTGAGGAGA

                                            
       6990 AGAAGGAA-AATGAGGAAG-AGAAGGAAGAAG
          1 AGAAGGAATAA-GA-GAAGAAGAAGGAAGAAG

                                  *      
       7020 AGAAGGAATAAGAGAAGAAGAATGAAGAA
          1 AGAAGGAATAAGAGAAGAAGAAGGAAGAA

       7049 AAGGAAGTGC


Statistics
Matches: 26,  Mismatches: 1, Indels: 4
        0.84            0.03        0.13

Matches are distributed among these distances:
  29    4  0.15
  30   20  0.77
  31    2  0.08

ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05


Consensus pattern (30 bp):   
AGAAGGAATAAGAGAAGAAGAAGGAAGAAG

Found at i:7047 original size:15 final size:13

Alignment explanation


    Indices: 7004--7054  Score: 61
    Period size: 12  Copynumber: 3.9  Consensus size: 13

       6994 GGAAAATGAG

                         
       7004 GAAGAGAAGGAA-
          1 GAAGAGAAGGAAT

                         
       7016 GAAGAGAAGGAAT
          1 GAAGAGAAGGAAT

                           
       7029 -AAGAGAAGAAGAAT
          1 GAAGAGAAG--GAAT

                 *      
       7043 GAAGAAAAGGAA
          1 GAAGAGAAGGAA

       7055 GTGCAATTAC


Statistics
Matches: 34,  Mismatches: 1, Indels: 7
        0.81            0.02        0.17

Matches are distributed among these distances:
  12   20  0.59
  13    3  0.09
  14    4  0.12
  15    7  0.21

ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04


Consensus pattern (13 bp):   
GAAGAGAAGGAAT
Done.