Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000108.1 Kokia drynarioides strain JFW-HI SEQ_110745, 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: 14466
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34


Found at i:6445 original size:6 final size:6

Alignment explanation


    Indices: 6434--6461  Score: 56
    Period size: 6  Copynumber: 4.7  Consensus size: 6

       6424 TCAAAAGCTA

                                            
       6434 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
          1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA

       6462 TCCAAATAGC


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14


Consensus pattern (6 bp):   
AAAAAT

Found at i:7305 original size:10 final size:9

Alignment explanation


    Indices: 7289--7314  Score: 52
    Period size: 9  Copynumber: 2.9  Consensus size: 9

       7279 TTAAGTTCAG

                     
       7289 GAAAAAAAA
          1 GAAAAAAAA

                     
       7298 GAAAAAAAA
          1 GAAAAAAAA

                    
       7307 GAAAAAAA
          1 GAAAAAAA

       7315 TAATTCCAGA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   17  1.00

ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00


Consensus pattern (9 bp):   
GAAAAAAAA

Found at i:10950 original size:10 final size:10

Alignment explanation


    Indices: 10935--10961  Score: 54
    Period size: 10  Copynumber: 2.7  Consensus size: 10

      10925 AAACCAAAAG

                      
      10935 TTTAAAAGCA
          1 TTTAAAAGCA

                      
      10945 TTTAAAAGCA
          1 TTTAAAAGCA

                   
      10955 TTTAAAA
          1 TTTAAAA

      10962 TTGGAGCCAT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   17  1.00

ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33


Consensus pattern (10 bp):   
TTTAAAAGCA

Found at i:11989 original size:29 final size:27

Alignment explanation


    Indices: 11947--12000  Score: 72
    Period size: 29  Copynumber: 1.9  Consensus size: 27

      11937 AAAATATTAT

                          *     *      
      11947 TTTTTATATTTAAATTTAAATAAAATA
          1 TTTTTATATTTAAAATTAAAAAAAATA

                                       
      11974 TTTTTATAGTATTAAAATTAAAAAAAA
          1 TTTTTATA-T-TTAAAATTAAAAAAAA

      12001 CCATAAAAAA


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  27    8  0.35
  28    1  0.04
  29   14  0.61

ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46


Consensus pattern (27 bp):   
TTTTTATATTTAAAATTAAAAAAAATA
Done.