Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006859.1 Kokia drynarioides strain JFW-HI SEQ_121458, 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: 34435
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33

Warning! 23 characters in sequence are not A, C, G, or T


Found at i:23517 original size:4 final size:4

Alignment explanation


    Indices: 23508--23533  Score: 52
    Period size: 4  Copynumber: 6.5  Consensus size: 4

      23498 ATTTGCTCTG

                                            
      23508 TGTA TGTA TGTA TGTA TGTA TGTA TG
          1 TGTA TGTA TGTA TGTA TGTA TGTA TG

      23534 GTCTTGGCGT


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:0.27, T:0.50


Consensus pattern (4 bp):   
TGTA

Found at i:24464 original size:30 final size:29

Alignment explanation


    Indices: 24424--24486  Score: 83
    Period size: 30  Copynumber: 2.1  Consensus size: 29

      24414 GAAGTCATAG

                        **                 
      24424 AAAATCAATAGGGGTATTTTAGGTAGTATAA
          1 AAAATCAATAGGAATATTTTAGGTA-T-TAA

                                         
      24455 AAAAT-AATAGGAATATTTTAGGTATTAA
          1 AAAATCAATAGGAATATTTTAGGTATTAA

                
      24483 AAAA
          1 AAAA

      24487 GAAATTTATG


Statistics
Matches: 30,  Mismatches: 2, Indels: 3
        0.86            0.06        0.09

Matches are distributed among these distances:
  28    7  0.23
  29    1  0.03
  30   17  0.57
  31    5  0.17

ACGTcount: A:0.49, C:0.02, G:0.17, T:0.32


Consensus pattern (29 bp):   
AAAATCAATAGGAATATTTTAGGTATTAA

Found at i:29651 original size:6 final size:6

Alignment explanation


    Indices: 29640--29683  Score: 61
    Period size: 6  Copynumber: 7.3  Consensus size: 6

      29630 AAATGCCTCC

                                           *      *      *     
      29640 CCAACT CCAACT CCAACT CCAACT CCAGCT CCAGCT CCAGCT CC
          1 CCAACT CCAACT CCAACT CCAACT CCAACT CCAACT CCAACT CC

      29684 CCCGTAATCG


Statistics
Matches: 37,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
   6   37  1.00

ACGTcount: A:0.25, C:0.52, G:0.07, T:0.16


Consensus pattern (6 bp):   
CCAACT

Done.