Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005121.1 Kokia drynarioides strain JFW-HI SEQ_118950, 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: 5004
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34


Found at i:3917 original size:23 final size:22

Alignment explanation


    Indices: 3858--4042  Score: 96
    Period size: 23  Copynumber: 8.2  Consensus size: 22

       3848 GAGAGTACCG

                *                *
       3858 AAGTACTGAACAGAGAGCACAT
          1 AAGTGCTGAACAGAGAGCACAC

                                     
       3880 AAGTGCTGGGCAACAGAGAGCACAC
          1 AAGTGCT--G-AACAGAGAGCACAC

                              *    
       3905 ATAGTGCTGAACAGAGAGTACAC
          1 A-AGTGCTGAACAGAGAGCACAC

               *         *        
       3928 AA-AG-T--A-A-TGAGCACAC
          1 AAGTGCTGAACAGAGAGCACAC

                                  * 
       3944 AAAGTGCT-AATCAGAGAGCACGC
          1 -AAGTGCTGAA-CAGAGAGCACAC

                      *    *         *
       3967 GAAGTGCTAATAACAAAGAGCACGAG
          1 -AAGTGCT--GAACAGAGAGCAC-AC

             *     *              
       3993 ACGTGCTAAACAGAGAGCACAC
          1 AAGTGCTGAACAGAGAGCACAC

                    *          *   
       4015 ACAGTGCTAAACAGAGAGCGCAC
          1 A-AGTGCTGAACAGAGAGCACAC

            *    
       4038 TAGTG
          1 AAGTG

       4043 TTCCTTAATG


Statistics
Matches: 127,  Mismatches: 20, Indels: 32
        0.71            0.11        0.18

Matches are distributed among these distances:
  16    7  0.06
  17    3  0.02
  18    2  0.02
  19    1  0.01
  20    2  0.02
  21    1  0.01
  22   14  0.11
  23   58  0.46
  24    2  0.02
  25   29  0.23
  26    8  0.06

ACGTcount: A:0.41, C:0.21, G:0.26, T:0.12


Consensus pattern (22 bp):   
AAGTGCTGAACAGAGAGCACAC

Done.