Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008184.1 Kokia drynarioides strain JFW-HI SEQ_122843, 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: 6658
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37


Found at i:912 original size:17 final size:18

Alignment explanation


    Indices: 868--913  Score: 51
    Period size: 17  Copynumber: 2.7  Consensus size: 18

        858 CATATCCGCC

                   *          
        868 AGACAATTCTATTCATCA
          1 AGACAATACTATTCATCA

                  *          *
        886 AGA-AAAACTATTCA-CT
          1 AGACAATACTATTCATCA

                        
        902 AGACAATACTAT
          1 AGACAATACTAT

        914 CTGCCAAGCG


Statistics
Matches: 23,  Mismatches: 4, Indels: 3
        0.77            0.13        0.10

Matches are distributed among these distances:
  16    4  0.17
  17   16  0.70
  18    3  0.13

ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28


Consensus pattern (18 bp):   
AGACAATACTATTCATCA

Found at i:4194 original size:29 final size:28

Alignment explanation


    Indices: 4160--4218  Score: 82
    Period size: 28  Copynumber: 2.1  Consensus size: 28

       4150 CGAAGCACCG

                    *    *               
       4160 AAGTGCTATTACATAACAGAGAGCACACA
          1 AAGTGCTAAT-CAGAACAGAGAGCACACA

                       *                
       4189 AAGTGCTAATCGGAACAGAGAGCACACA
          1 AAGTGCTAATCAGAACAGAGAGCACACA

              
       4217 AA
          1 AA

       4219 ATACTAAATA


Statistics
Matches: 27,  Mismatches: 3, Indels: 1
        0.87            0.10        0.03

Matches are distributed among these distances:
  28   18  0.67
  29    9  0.33

ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14


Consensus pattern (28 bp):   
AAGTGCTAATCAGAACAGAGAGCACACA

Found at i:4705 original size:19 final size:19

Alignment explanation


    Indices: 4669--4706  Score: 51
    Period size: 19  Copynumber: 2.0  Consensus size: 19

       4659 GACTACAAAA

                               
       4669 TTCATATATCCTTGTATTT
          1 TTCATATATCCTTGTATTT

                      *         
       4688 TTCACTATATGCTT-TATTT
          1 TTCA-TATATCCTTGTATTT

       4707 ATCAATATTT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  19    9  0.53
  20    8  0.47

ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58


Consensus pattern (19 bp):   
TTCATATATCCTTGTATTT
Done.