Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012839.1 Kokia drynarioides strain JFW-HI SEQ_127852, 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: 14075
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31


Found at i:409 original size:17 final size:18

Alignment explanation


    Indices: 387--423  Score: 58
    Period size: 18  Copynumber: 2.1  Consensus size: 18

        377 TAAATGAGTT

                              
        387 AATTAGGAT-TAAATTGG
          1 AATTAGGATATAAATTGG

                   *          
        404 AATTAGGGTATAAATTGG
          1 AATTAGGATATAAATTGG

              
        422 AA
          1 AA

        424 AGAAATTAAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  17    8  0.44
  18   10  0.56

ACGTcount: A:0.43, C:0.00, G:0.24, T:0.32


Consensus pattern (18 bp):   
AATTAGGATATAAATTGG

Found at i:461 original size:25 final size:23

Alignment explanation


    Indices: 432--490  Score: 57
    Period size: 25  Copynumber: 2.5  Consensus size: 23

        422 AAAGAAATTA

                                  *  
        432 AATTATTATTATAAATTAGTGTTTT
          1 AATTATTATTATAAATTA-T-TATT

                 *  * *            
        457 AATTAATAGTGTAAATTATTATT
          1 AATTATTATTATAAATTATTATT

                        
        480 -ATTATTATTAT
          1 AATTATTATTAT

        491 TTTAGCTAGC


Statistics
Matches: 27,  Mismatches: 7, Indels: 3
        0.73            0.19        0.08

Matches are distributed among these distances:
  22    8  0.30
  23    3  0.11
  24    1  0.04
  25   15  0.56

ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54


Consensus pattern (23 bp):   
AATTATTATTATAAATTATTATT

Found at i:7509 original size:17 final size:18

Alignment explanation


    Indices: 7487--7522  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       7477 TAAATGAGTT

                              
       7487 AATTAGGAT-TAAATTGG
          1 AATTAGGATATAAATTGG

                   *          
       7504 AATTAGGGTATAAATTGG
          1 AATTAGGATATAAATTGG

             
       7522 A
          1 A

       7523 TAGAAATTCA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  17    8  0.47
  18    9  0.53

ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33


Consensus pattern (18 bp):   
AATTAGGATATAAATTGG

Done.