Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008654.1 Kokia drynarioides strain JFW-HI SEQ_123335, 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: 18715
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34


Found at i:31 original size:2 final size:2

Alignment explanation


    Indices: 24--57  Score: 59
    Period size: 2  Copynumber: 17.0  Consensus size: 2

         14 ATAAAAGAAA

                         *                                    
         24 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

         58 CATAAAGGAA


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   2   30  1.00

ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47


Consensus pattern (2 bp):   
AT

Found at i:12586 original size:4 final size:4

Alignment explanation


    Indices: 12577--12602  Score: 52
    Period size: 4  Copynumber: 6.5  Consensus size: 4

      12567 ATCAAACCAT

                                            
      12577 GGGA GGGA GGGA GGGA GGGA GGGA GG
          1 GGGA GGGA GGGA GGGA GGGA GGGA GG

      12603 AAGGAATGGG


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

Matches are distributed among these distances:
   4   22  1.00

ACGTcount: A:0.23, C:0.00, G:0.77, T:0.00


Consensus pattern (4 bp):   
GGGA

Found at i:17240 original size:27 final size:25

Alignment explanation


    Indices: 17208--17257  Score: 64
    Period size: 25  Copynumber: 1.9  Consensus size: 25

      17198 TAAATCAATT

                                       
      17208 GAAAATATTAATTGATTTAATTTTTTC
          1 GAAAAT-TTAATTGA-TTAATTTTTTC

                    *   *          
      17235 GAAAATTTTATTTATTAATTTTT
          1 GAAAATTTAATTGATTAATTTTT

      17258 AGGTAAACTA


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  25    9  0.43
  26    6  0.29
  27    6  0.29

ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56


Consensus pattern (25 bp):   
GAAAATTTAATTGATTAATTTTTTC
Done.