Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007911.1 Kokia drynarioides strain JFW-HI SEQ_122554, 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: 1934
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36


Found at i:176 original size:24 final size:26

Alignment explanation


    Indices: 141--192  Score: 72
    Period size: 24  Copynumber: 2.1  Consensus size: 26

        131 AAATATTAAA

                                      
        141 AAAATTAATAAATA-AAAAATA-TAT
          1 AAAATTAATAAATATAAAAATAGTAT

                   *       *          
        165 AAAATTATTAAATATTAAAATAGTAT
          1 AAAATTAATAAATATAAAAATAGTAT

              
        191 AA
          1 AA

        193 TATAAATATT


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  24   13  0.54
  25    6  0.25
  26    5  0.21

ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33


Consensus pattern (26 bp):   
AAAATTAATAAATATAAAAATAGTAT

Found at i:216 original size:24 final size:22

Alignment explanation


    Indices: 125--220  Score: 67
    Period size: 24  Copynumber: 4.3  Consensus size: 22

        115 AATATTATTC

                *                 
        125 TAATGTAAATATTAAAAAAAT-
          1 TAATATAAATATTAAAAAAATA

                                    
        146 T-A-ATAAATA--AAAAATATATA
          1 TAATATAAATATTAAAAA-A-ATA

            *                  * *  
        166 AAATTATTAAATATTAAAATAGTA
          1 TAA-TA-TAAATATTAAAAAAATA

                                    
        190 TAATATAAATATTTAAAAAAATAA
          1 TAATATAAATA-TTAAAAAAAT-A

                   
        214 TAATATA
          1 TAATATA

        221 GGTGAACTTA


Statistics
Matches: 57,  Mismatches: 7, Indels: 19
        0.69            0.08        0.23

Matches are distributed among these distances:
  17    5  0.09
  18    1  0.02
  19    8  0.14
  20    1  0.02
  21    2  0.04
  22    6  0.11
  23   11  0.19
  24   18  0.32
  25    1  0.02
  26    4  0.07

ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34


Consensus pattern (22 bp):   
TAATATAAATATTAAAAAAATA
Done.