Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001850.1 Kokia drynarioides strain JFW-HI SEQ_113606, 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: 18028
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34


Found at i:9367 original size:5 final size:6

Alignment explanation


    Indices: 9351--9379  Score: 51
    Period size: 6  Copynumber: 5.0  Consensus size: 6

       9341 TTGAATTTGG

                                              
       9351 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT
          1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT

       9380 TGAATTTTTA


Statistics
Matches: 22,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
   5    5  0.23
   6   17  0.77

ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83


Consensus pattern (6 bp):   
ATTTTT

Found at i:9380 original size:12 final size:12

Alignment explanation


    Indices: 9351--9379  Score: 51
    Period size: 11  Copynumber: 2.5  Consensus size: 12

       9341 TTGAATTTGG

                        
       9351 ATTTTTATTTTT
          1 ATTTTTATTTTT

                        
       9363 ATTTTTA-TTTT
          1 ATTTTTATTTTT

                  
       9374 ATTTTT
          1 ATTTTT

       9380 TGAATTTTTA


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  11   10  0.59
  12    7  0.41

ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83


Consensus pattern (12 bp):   
ATTTTTATTTTT

Found at i:10471 original size:23 final size:25

Alignment explanation


    Indices: 10444--10489  Score: 69
    Period size: 25  Copynumber: 1.9  Consensus size: 25

      10434 TCTAATTAGG

                                     
      10444 AATTAT-TGTTTAG-ATTTAATTCA
          1 AATTATCTGTTTAGAATTTAATTCA

                    *              
      10467 AATTATCTTTTTAGAATTTAATT
          1 AATTATCTGTTTAGAATTTAATT

      10490 TGAATCAAAC


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  23    6  0.30
  24    6  0.30
  25    8  0.40

ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54


Consensus pattern (25 bp):   
AATTATCTGTTTAGAATTTAATTCA

Found at i:10906 original size:15 final size:15

Alignment explanation


    Indices: 10869--10907  Score: 53
    Period size: 14  Copynumber: 2.7  Consensus size: 15

      10859 TTATGTGTGT

                        *  
      10869 TTAATTCTTGATTTA
          1 TTAATTCTTGATATA

            *              
      10884 GTAA-TCTTGATATA
          1 TTAATTCTTGATATA

                      
      10898 TTAATTCTTG
          1 TTAATTCTTG

      10908 TTTGATGTGC


Statistics
Matches: 20,  Mismatches: 3, Indels: 2
        0.80            0.12        0.08

Matches are distributed among these distances:
  14   12  0.60
  15    8  0.40

ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54


Consensus pattern (15 bp):   
TTAATTCTTGATATA
Done.