Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003503.1 Kokia drynarioides strain JFW-HI SEQ_116335, 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: 3656
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36


Found at i:764 original size:23 final size:23

Alignment explanation


    Indices: 737--785  Score: 89
    Period size: 23  Copynumber: 2.1  Consensus size: 23

        727 ATTTAAATCA

                  *                
        737 AAACATTATGGTAGGAGAGTTAC
          1 AAACATAATGGTAGGAGAGTTAC

                                   
        760 AAACATAATGGTAGGAGAGTTAC
          1 AAACATAATGGTAGGAGAGTTAC

               
        783 AAA
          1 AAA

        786 AAATTAAAAG


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  23   25  1.00

ACGTcount: A:0.45, C:0.08, G:0.24, T:0.22


Consensus pattern (23 bp):   
AAACATAATGGTAGGAGAGTTAC

Found at i:1223 original size:33 final size:33

Alignment explanation


    Indices: 1185--1253  Score: 111
    Period size: 33  Copynumber: 2.1  Consensus size: 33

       1175 ATTTTCCAAC

                                             
       1185 ATTACCATCCTCATCCTCTAGCCCCACGATCCT
          1 ATTACCATCCTCATCCTCTAGCCCCACGATCCT

                                  ***        
       1218 ATTACCATCCTCATCCTCTAGCTTTACGATCCT
          1 ATTACCATCCTCATCCTCTAGCCCCACGATCCT

               
       1251 ATT
          1 ATT

       1254 CTTACTCCGT


Statistics
Matches: 33,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  33   33  1.00

ACGTcount: A:0.22, C:0.39, G:0.06, T:0.33


Consensus pattern (33 bp):   
ATTACCATCCTCATCCTCTAGCCCCACGATCCT

Found at i:2425 original size:21 final size:20

Alignment explanation


    Indices: 2373--2432  Score: 66
    Period size: 21  Copynumber: 2.9  Consensus size: 20

       2363 ACTACAAGCC

                *                 
       2373 AACCTAACCCAAACGCTTTTTG
          1 AACCAAACCCAAAC-C-TTTTG

              *                 
       2395 AATCAAACCCAAACCTTTTG
          1 AACCAAACCCAAACCTTTTG

             *                
       2415 ACCCAATACCCAAACCTT
          1 AACCAA-ACCCAAACCTT

       2433 AAAACCAAAT


Statistics
Matches: 33,  Mismatches: 4, Indels: 3
        0.82            0.10        0.08

Matches are distributed among these distances:
  20    9  0.27
  21   12  0.36
  22   12  0.36

ACGTcount: A:0.37, C:0.35, G:0.05, T:0.23


Consensus pattern (20 bp):   
AACCAAACCCAAACCTTTTG
Done.