Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007469.1 Kokia drynarioides strain JFW-HI SEQ_122091, 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: 32933
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34


Found at i:7458 original size:21 final size:21

Alignment explanation


    Indices: 7421--7461  Score: 57
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       7411 TTCTACCAAT

                        *        
       7421 ACAAGTGATAGTTCTATTGAC
          1 ACAAGTGATAGTACTATTGAC

                                 
       7442 ACAAGTGACTA-TACTATTGA
          1 ACAAGTGA-TAGTACTATTGA

       7462 AATAAGTCTT


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  21   16  0.89
  22    2  0.11

ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32


Consensus pattern (21 bp):   
ACAAGTGATAGTACTATTGAC

Found at i:22806 original size:5 final size:5

Alignment explanation


    Indices: 22796--22820  Score: 50
    Period size: 5  Copynumber: 5.0  Consensus size: 5

      22786 CATAGTGTGT

                                         
      22796 ATGTC ATGTC ATGTC ATGTC ATGTC
          1 ATGTC ATGTC ATGTC ATGTC ATGTC

      22821 TAAATATAAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   5   20  1.00

ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40


Consensus pattern (5 bp):   
ATGTC

Found at i:29322 original size:33 final size:33

Alignment explanation


    Indices: 29283--29349  Score: 116
    Period size: 33  Copynumber: 2.0  Consensus size: 33

      29273 AATCAGACAC

                                      *      
      29283 GCTTGATTCCTTCCCGATTTGTTCGAGTCACTT
          1 GCTTGATTCCTTCCCGATTTGTTCGAATCACTT

                         *                   
      29316 GCTTGATTCCTTCTCGATTTGTTCGAATCACTT
          1 GCTTGATTCCTTCCCGATTTGTTCGAATCACTT

             
      29349 G
          1 G

      29350 GACATGAAAC


Statistics
Matches: 32,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  33   32  1.00

ACGTcount: A:0.13, C:0.25, G:0.18, T:0.43


Consensus pattern (33 bp):   
GCTTGATTCCTTCCCGATTTGTTCGAATCACTT

Found at i:32445 original size:23 final size:22

Alignment explanation


    Indices: 32419--32462  Score: 61
    Period size: 23  Copynumber: 2.0  Consensus size: 22

      32409 AAAATATTTC

                     *             
      32419 ATTAAATAATTTGGGTTGAATTA
          1 ATTAAATAAATTGGGTT-AATTA

                 *               
      32442 ATTAATTAAATTGGGTTAATT
          1 ATTAAATAAATTGGGTTAATT

      32463 TTATTTCTTT


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  22    4  0.21
  23   15  0.79

ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45


Consensus pattern (22 bp):   
ATTAAATAAATTGGGTTAATTA
Done.