Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001776.1 Kokia drynarioides strain JFW-HI SEQ_113500, 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: 25077
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35


Found at i:4239 original size:30 final size:31

Alignment explanation


    Indices: 4202--4275  Score: 82
    Period size: 30  Copynumber: 2.4  Consensus size: 31

       4192 GTGAATATAA

                          *         *       
       4202 AGGATTAAATATGTTGAAT-TAATTAGAATTG
          1 AGGATTAAATATGTAGAATGT-ATAAGAATTG

                                       *    
       4233 -GGATTAAAT-TAGTAGAATGTATAAGTATTG
          1 AGGATTAAATAT-GTAGAATGTATAAGAATTG

                         
       4263 AGGATTAAATATG
          1 AGGATTAAATATG

       4276 AAATTATACC


Statistics
Matches: 36,  Mismatches: 3, Indels: 8
        0.77            0.06        0.17

Matches are distributed among these distances:
  29    1  0.03
  30   23  0.64
  31   11  0.31
  32    1  0.03

ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36


Consensus pattern (31 bp):   
AGGATTAAATATGTAGAATGTATAAGAATTG

Found at i:18621 original size:2 final size:2

Alignment explanation


    Indices: 18616--18642  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

      18606 TAAATTTCAT

                                                    
      18616 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

      18643 TATCATGTAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:24065 original size:26 final size:25

Alignment explanation


    Indices: 24010--24074  Score: 76
    Period size: 25  Copynumber: 2.6  Consensus size: 25

      24000 ACAGAAGTAG

                      *     *        
      24010 AAAACGGTGCGTTTTGTGTTTAAAT
          1 AAAACGGTGCATTTTGGGTTTAAAT

                                    * 
      24035 AAAACGGTGCATTTTGGGTCTTAAGT
          1 AAAACGGTGCATTTTGGGT-TTAAAT

            *      *      
      24061 TAAACGGAGCATTT
          1 AAAACGGTGCATTT

      24075 AGAGGAGTCT


Statistics
Matches: 34,  Mismatches: 5, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  25   17  0.50
  26   17  0.50

ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35


Consensus pattern (25 bp):   
AAAACGGTGCATTTTGGGTTTAAAT
Done.