Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009608.1 Kokia drynarioides strain JFW-HI SEQ_124324, 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, 859

Length: 1432
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.33


Found at i:1080 original size:24 final size:26

Alignment explanation


    Indices: 1053--1100  Score: 66
    Period size: 24  Copynumber: 1.9  Consensus size: 26

       1043 AGAGAAATGT

                                       
       1053 AAATG-TGATATATGA-A-ATTATGAG
          1 AAATGATGA-ATATGAGAGATTATGAG

                                    
       1077 AAATGATGAATATGAGAGATTATG
          1 AAATGATGAATATGAGAGATTATG

       1101 CCCATGTAGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 4
        0.84            0.00        0.16

Matches are distributed among these distances:
  24   11  0.52
  25    4  0.19
  26    6  0.29

ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31


Consensus pattern (26 bp):   
AAATGATGAATATGAGAGATTATGAG

Found at i:1189 original size:23 final size:23

Alignment explanation


    Indices: 1163--1235  Score: 137
    Period size: 23  Copynumber: 3.2  Consensus size: 23

       1153 ACACTAGCGC

                                   
       1163 GCTCTCTGATTAGCACTGTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                                   
       1186 GCTCTCTGATTAGCACTGTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                             *     
       1209 GCTCTCTGATTAGCACTTTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                
       1232 GCTC
          1 GCTC

       1236 AGTACTTTGT


Statistics
Matches: 49,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  23   49  1.00

ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40


Consensus pattern (23 bp):   
GCTCTCTGATTAGCACTGTGTGT

Found at i:1300 original size:22 final size:23

Alignment explanation


    Indices: 1236--1303  Score: 93
    Period size: 23  Copynumber: 3.0  Consensus size: 23

       1226 TTGTGTGCTC

                             *     
       1236 AGTACTTTGTGTACTCTTTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

              *         *          
       1259 AGCACTTTGTGTGCTCTCTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

                   *               
       1282 AGTACTTCG-GTACTCTCTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

       1304 GTTCCGTTTA


Statistics
Matches: 39,  Mismatches: 6, Indels: 1
        0.85            0.13        0.02

Matches are distributed among these distances:
  22   12  0.31
  23   27  0.69

ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50


Consensus pattern (23 bp):   
AGTACTTTGTGTACTCTCTGTTT
Done.