Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013064.1 Kokia drynarioides strain JFW-HI SEQ_128082, 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: 9047
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:5653 original size:14 final size:14

Alignment explanation


    Indices: 5634--5679  Score: 51
    Period size: 13  Copynumber: 3.4  Consensus size: 14

       5624 ACAATGTTAT

                          
       5634 AATTTTTAAGATAA
          1 AATTTTTAAGATAA

                   *     *
       5648 AATTTTTGA-ATAT
          1 AATTTTTAAGATAA

             *            
       5661 ATTTTTTAAGAT-A
          1 AATTTTTAAGATAA

                  
       5674 AATTTT
          1 AATTTT

       5680 AATATGAAAA


Statistics
Matches: 25,  Mismatches: 6, Indels: 3
        0.74            0.18        0.09

Matches are distributed among these distances:
  13   15  0.60
  14   10  0.40

ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52


Consensus pattern (14 bp):   
AATTTTTAAGATAA

Found at i:8081 original size:16 final size:17

Alignment explanation


    Indices: 8065--8111  Score: 69
    Period size: 16  Copynumber: 2.8  Consensus size: 17

       8055 ATTCAATAAA

                             
       8065 TAAAAAATATATAAAAT
          1 TAAAAAATATATAAAAT

              **             
       8082 TATTAAATAT-TAAAAT
          1 TAAAAAATATATAAAAT

                          
       8098 TAAAAAATATATAA
          1 TAAAAAATATATAA

       8112 TTTTTTAAAA


Statistics
Matches: 25,  Mismatches: 4, Indels: 2
        0.81            0.13        0.06

Matches are distributed among these distances:
  16   14  0.56
  17   11  0.44

ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34


Consensus pattern (17 bp):   
TAAAAAATATATAAAAT

Found at i:8672 original size:43 final size:43

Alignment explanation


    Indices: 8619--8713  Score: 145
    Period size: 43  Copynumber: 2.2  Consensus size: 43

       8609 TGGTTATGCG

                *        *                             
       8619 TGTCATTAAACTATATATAAAAAACCAAATTGTTGGACTTAAC
          1 TGTCTTTAAACTACATATAAAAAACCAAATTGTTGGACTTAAC

                                   *             *     
       8662 TGTCTTTAAACTACATATAAAAACCCAAATTGTTGGATTTAAC
          1 TGTCTTTAAACTACATATAAAAAACCAAATTGTTGGACTTAAC

            *        
       8705 CGTCTTTAA
          1 TGTCTTTAA

       8714 CTTTCTATTG


Statistics
Matches: 47,  Mismatches: 5, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  43   47  1.00

ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35


Consensus pattern (43 bp):   
TGTCTTTAAACTACATATAAAAAACCAAATTGTTGGACTTAAC
Done.