Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013344.1 Kokia drynarioides strain JFW-HI SEQ_128367, 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: 4232
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34


Found at i:3326 original size:22 final size:21

Alignment explanation


    Indices: 3301--3367  Score: 64
    Period size: 22  Copynumber: 3.1  Consensus size: 21

       3291 AGCAATGGAG

                                  
       3301 AATGAATAATTTAAAATTTATC
          1 AATGAATAA-TTAAAATTTATC

                      **      *   
       3323 AATGTAATAAAAAAAATTAATC
          1 AATG-AATAATTAAAATTTATC

               *  *              
       3345 AATAAACAATTAAAATTT-TC
          1 AATGAATAATTAAAATTTATC

               
       3365 AAT
          1 AAT

       3368 TTAATAATGA


Statistics
Matches: 36,  Mismatches: 8, Indels: 4
        0.75            0.17        0.08

Matches are distributed among these distances:
  20    5  0.14
  21   10  0.28
  22   16  0.44
  23    5  0.14

ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34


Consensus pattern (21 bp):   
AATGAATAATTAAAATTTATC

Found at i:3562 original size:26 final size:27

Alignment explanation


    Indices: 3533--3596  Score: 80
    Period size: 26  Copynumber: 2.4  Consensus size: 27

       3523 CTTTTTTTGG

                         *              
       3533 TAATAAAAAGATTTAAT-ATTT-AATTT
          1 TAATAAAAA-ATTCAATAATTTAAATTT

                                        
       3559 TAATCAAAAAATTCAATAATTTAAATTT
          1 TAAT-AAAAAATTCAATAATTTAAATTT

                       
       3587 T-ATAAAAAAT
          1 TAATAAAAAAT

       3597 AATTTATTTT


Statistics
Matches: 34,  Mismatches: 1, Indels: 6
        0.83            0.02        0.15

Matches are distributed among these distances:
  26   17  0.50
  27   11  0.32
  28    6  0.18

ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41


Consensus pattern (27 bp):   
TAATAAAAAATTCAATAATTTAAATTT

Done.