Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007942.1 Kokia drynarioides strain JFW-HI SEQ_122590, 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: 9366
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35


Found at i:418 original size:34 final size:36

Alignment explanation


    Indices: 327--421  Score: 104
    Period size: 34  Copynumber: 2.6  Consensus size: 36

        317 ATTTTCGGAA

                    *  *                         *
        327 TGCACCCAAGACTGTCGCTGCATAAATATTTTTCAAAT
          1 TGCACCCAGGAATGTCGCTGCATAAATA--TTTCAAAC

                *    *               *          
        365 TGCAACCAGAAATGTCGCTGCATAAGTA-TTC-AAC
          1 TGCACCCAGGAATGTCGCTGCATAAATATTTCAAAC

                                   
        399 TGCACCCAGGAATGTCGCTGCAT
          1 TGCACCCAGGAATGTCGCTGCAT

        422 GAACATGTAC


Statistics
Matches: 49,  Mismatches: 8, Indels: 4
        0.80            0.13        0.07

Matches are distributed among these distances:
  34   23  0.47
  35    3  0.06
  38   23  0.47

ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26


Consensus pattern (36 bp):   
TGCACCCAGGAATGTCGCTGCATAAATATTTCAAAC

Found at i:7904 original size:10 final size:10

Alignment explanation


    Indices: 7862--7904  Score: 59
    Period size: 10  Copynumber: 4.2  Consensus size: 10

       7852 ATTTGTAAAT

                       
       7862 AATAATAAAAA
          1 AATAA-AAAAA

              *    *  
       7873 AAGAAAAGAA
          1 AATAAAAAAA

                      
       7883 AATAAAAAAA
          1 AATAAAAAAA

                      
       7893 AATAAAAAAA
          1 AATAAAAAAA

              
       7903 AA
          1 AA

       7905 ATTTTGAGTA


Statistics
Matches: 28,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  10   24  0.86
  11    4  0.14

ACGTcount: A:0.86, C:0.00, G:0.05, T:0.09


Consensus pattern (10 bp):   
AATAAAAAAA

Found at i:7905 original size:21 final size:21

Alignment explanation


    Indices: 7862--7906  Score: 56
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       7852 ATTTGTAAAT

                         *    *  
       7862 AATAATAAAAAAAGAAAAGAA
          1 AATAATAAAAAAAAAAAAAAA

                                  
       7883 AATAA-AAAAAAATAAAAAAAA
          1 AATAATAAAAAAA-AAAAAAAA

               
       7904 AAT
          1 AAT

       7907 TTTGAGTACG


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  20    7  0.33
  21   14  0.67

ACGTcount: A:0.84, C:0.00, G:0.04, T:0.11


Consensus pattern (21 bp):   
AATAATAAAAAAAAAAAAAAA
Done.