Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007019.1 Kokia drynarioides strain JFW-HI SEQ_121625, 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: 19997
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35

Warning! 195 characters in sequence are not A, C, G, or T


Found at i:56 original size:29 final size:29

Alignment explanation


    Indices: 24--80  Score: 82
    Period size: 29  Copynumber: 2.0  Consensus size: 29

         14 TATACTTTTT

                                           
         24 AAATAA-TTTTAGTGTTTTTT-AATTTTTAA
          1 AAATAAGTTTTA-T-TTTTTTGAATTTTTAA

                                        
         53 AAATAAGTTTTATTTTTTTGAATTTTTA
          1 AAATAAGTTTTATTTTTTTGAATTTTTA

         81 GAATTTTAAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 4
        0.87            0.00        0.13

Matches are distributed among these distances:
  28    6  0.23
  29   15  0.58
  30    5  0.19

ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60


Consensus pattern (29 bp):   
AAATAAGTTTTATTTTTTTGAATTTTTAA

Found at i:428 original size:9 final size:9

Alignment explanation


    Indices: 416--447  Score: 55
    Period size: 9  Copynumber: 3.4  Consensus size: 9

        406 TAAAAGGAAT

                     
        416 AATTATTAA
          1 AATTATTAA

                     
        425 AATTATTAA
          1 AATTATTAA

                     
        434 AATTATTAA
          1 AATTATTAA

                 
        443 GAATT
          1 -AATT

        448 TTTTTTTTGT


Statistics
Matches: 22,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
   9   18  0.82
  10    4  0.18

ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44


Consensus pattern (9 bp):   
AATTATTAA

Found at i:2407 original size:50 final size:51

Alignment explanation


    Indices: 2301--2422  Score: 147
    Period size: 50  Copynumber: 2.4  Consensus size: 51

       2291 TATAATAAAA

                      **                             *        *
       2301 AAATTTAGCTTTCAAAATTTACACATTCTGTCAATTTGATCTTGATTTAAT
          1 AAATTTAGCTCACAAAATTTACACATTCTGTCAATTTGATCATGATTTAAC

                                  *      * *      *            
       2352 AAATTTAGCTCACAAAATTTACGCATT-TTTTAATTTGGTCATGATTTAAC
          1 AAATTTAGCTCACAAAATTTACACATTCTGTCAATTTGATCATGATTTAAC

                       *   *     
       2402 AAATTTAGCTCGCAACATTTA
          1 AAATTTAGCTCACAAAATTTA

       2423 TACAATATAT


Statistics
Matches: 61,  Mismatches: 10, Indels: 1
        0.85            0.14        0.01

Matches are distributed among these distances:
  50   37  0.61
  51   24  0.39

ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42


Consensus pattern (51 bp):   
AAATTTAGCTCACAAAATTTACACATTCTGTCAATTTGATCATGATTTAAC
Done.