Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004020.1 Kokia drynarioides strain JFW-HI SEQ_117142, 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: 8442
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39


Found at i:5881 original size:3 final size:3

Alignment explanation


    Indices: 5873--5913  Score: 82
    Period size: 3  Copynumber: 13.7  Consensus size: 3

       5863 TCTTAAATAA

                                                                  
       5873 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
          1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT

       5914 AAAAAGGTGA


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   38  1.00

ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66


Consensus pattern (3 bp):   
ATT

Found at i:6030 original size:17 final size:18

Alignment explanation


    Indices: 5997--6030  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       5987 AATTAATAGA

                *             
       5997 TAAATAAAAATAGTTAGG
          1 TAAACAAAAATAGTTAGG

                             
       6015 TAAACAAAAATA-TTAG
          1 TAAACAAAAATAGTTAG

       6031 AGTTGGTGAT


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  17    4  0.27
  18   11  0.73

ACGTcount: A:0.59, C:0.03, G:0.12, T:0.26


Consensus pattern (18 bp):   
TAAACAAAAATAGTTAGG

Found at i:6770 original size:13 final size:13

Alignment explanation


    Indices: 6752--6777  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       6742 TAACAGAAAA

                         
       6752 CCAAGGTGTAAAT
          1 CCAAGGTGTAAAT

                         
       6765 CCAAGGTGTAAAT
          1 CCAAGGTGTAAAT

       6778 TTATCATTAT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23


Consensus pattern (13 bp):   
CCAAGGTGTAAAT
Done.