Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012961.1 Kokia drynarioides strain JFW-HI SEQ_127979, 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: 9276
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32

Warning! 91 characters in sequence are not A, C, G, or T


Found at i:1246 original size:18 final size:18

Alignment explanation


    Indices: 1223--1266  Score: 88
    Period size: 18  Copynumber: 2.4  Consensus size: 18

       1213 GGTTTTATTT

                              
       1223 TATTTTATTTTTTAAATA
          1 TATTTTATTTTTTAAATA

                              
       1241 TATTTTATTTTTTAAATA
          1 TATTTTATTTTTTAAATA

                    
       1259 TATTTTAT
          1 TATTTTAT

       1267 ATTAGGATTT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   26  1.00

ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68


Consensus pattern (18 bp):   
TATTTTATTTTTTAAATA

Found at i:1295 original size:19 final size:19

Alignment explanation


    Indices: 1273--1317  Score: 56
    Period size: 19  Copynumber: 2.4  Consensus size: 19

       1263 TTATATTAGG

                                
       1273 ATTTAATATTTAAGATAT-T
          1 ATTTAATATTTAA-ATATGT

                 *         *   
       1292 ATTTATTATTTAAATTTGT
          1 ATTTAATATTTAAATATGT

                   
       1311 ATTTAAT
          1 ATTTAAT

       1318 TTATGTTTAT


Statistics
Matches: 22,  Mismatches: 3, Indels: 2
        0.81            0.11        0.07

Matches are distributed among these distances:
  18    3  0.14
  19   19  0.86

ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58


Consensus pattern (19 bp):   
ATTTAATATTTAAATATGT

Found at i:6230 original size:20 final size:20

Alignment explanation


    Indices: 6200--6240  Score: 57
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       6190 TATTGCTTTA

                                 
       6200 AAAAATAAATTATATTATTTT
          1 AAAAATAAATTATATT-TTTT

                       *        
       6221 AAAAAT-AATTTTATTTTTT
          1 AAAAATAAATTATATTTTTT

             
       6240 A
          1 A

       6241 TATCTTTTAT


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  19    5  0.26
  20    8  0.42
  21    6  0.32

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (20 bp):   
AAAAATAAATTATATTTTTT
Done.