Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007455.1 Kokia drynarioides strain JFW-HI SEQ_122076, 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: 13516
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33

Warning! 26 characters in sequence are not A, C, G, or T


Found at i:4404 original size:3 final size:3

Alignment explanation


    Indices: 4398--4448  Score: 79
    Period size: 3  Copynumber: 17.7  Consensus size: 3

       4388 TAAAAAAACT

                                                            *              
       4398 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- TTA ATA A-A ATA
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA

                  
       4444 ATA AT
          1 ATA AT

       4449 TAATCATTTC


Statistics
Matches: 44,  Mismatches: 2, Indels: 4
        0.88            0.04        0.08

Matches are distributed among these distances:
   2    3  0.07
   3   41  0.93

ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35


Consensus pattern (3 bp):   
ATA

Found at i:5083 original size:3 final size:3

Alignment explanation


    Indices: 5075--5110  Score: 63
    Period size: 3  Copynumber: 12.0  Consensus size: 3

       5065 ATACTAAGGC

                                        *                  
       5075 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT
          1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT

       5111 TTTTTTTTGA


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   3   31  1.00

ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67


Consensus pattern (3 bp):   
ATT

Found at i:8529 original size:2 final size:2

Alignment explanation


    Indices: 8522--8546  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

       8512 ATTTTGCTGC

                                                 
       8522 AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT A

       8547 AAGTTGATAA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

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


Consensus pattern (2 bp):   
AT

Done.