Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006209.1 Kokia drynarioides strain JFW-HI SEQ_120780, 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: 5893
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33


Found at i:306 original size:18 final size:18

Alignment explanation


    Indices: 283--321  Score: 51
    Period size: 18  Copynumber: 2.2  Consensus size: 18

        273 CTTCGACTCT

                           *  
        283 CGAGACATTCCCTCTGCC
          1 CGAGACATTCCCTCTACC

                  *  *        
        301 CGAGACGTTTCCTCTACC
          1 CGAGACATTCCCTCTACC

               
        319 CGA
          1 CGA

        322 AGCACCCTTC


Statistics
Matches: 18,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.18, C:0.41, G:0.18, T:0.23


Consensus pattern (18 bp):   
CGAGACATTCCCTCTACC

Found at i:733 original size:15 final size:14

Alignment explanation


    Indices: 709--738  Score: 51
    Period size: 15  Copynumber: 2.1  Consensus size: 14

        699 ATACATACTT

                          
        709 ATAAAATATAAAAA
          1 ATAAAATATAAAAA

                           
        723 ATAATAATATAAAAA
          1 ATAA-AATATAAAAA

             
        738 A
          1 A

        739 AAAGAACAAA


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14    4  0.27
  15   11  0.73

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


Consensus pattern (14 bp):   
ATAAAATATAAAAA

Found at i:2801 original size:29 final size:29

Alignment explanation


    Indices: 2764--2827  Score: 119
    Period size: 29  Copynumber: 2.2  Consensus size: 29

       2754 CTAATTTATA

                                         
       2764 TATGATCCTTTGCATTTTCTATGAAATAT
          1 TATGATCCTTTGCATTTTCTATGAAATAT

                                         
       2793 TATGATCCTTTGCATTTTCTATGAAATAT
          1 TATGATCCTTTGCATTTTCTATGAAATAT

            *     
       2822 CATGAT
          1 TATGAT

       2828 AATATTATTG


Statistics
Matches: 34,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  29   34  1.00

ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47


Consensus pattern (29 bp):   
TATGATCCTTTGCATTTTCTATGAAATAT
Done.