Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002251.1 Kokia drynarioides strain JFW-HI SEQ_114260, 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: 1686
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33


Found at i:1182 original size:3 final size:3

Alignment explanation


    Indices: 1174--1224  Score: 102
    Period size: 3  Copynumber: 17.0  Consensus size: 3

       1164 GGTAAGTTCA

                                                                           
       1174 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
          1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT

               
       1222 TAT
          1 TAT

       1225 CTGTGTTTAT


Statistics
Matches: 48,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   48  1.00

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (3 bp):   
TAT

Found at i:1385 original size:26 final size:27

Alignment explanation


    Indices: 1339--1537  Score: 187
    Period size: 26  Copynumber: 7.6  Consensus size: 27

       1329 AAAATGTGAG

                            *    *      
       1339 GTGATTATTTTAGCAGTCTTCAAGCCGA
          1 GTGATTA-TTTAGCAGGCTTCGAGCCGA

                         *             
       1367 -TGATTATTTAGCTGGCTTCGAGCCG-
          1 GTGATTATTTAGCAGGCTTCGAGCCGA

               *        *            * 
       1392 GTGGTTATTTAGTAGGCTTCGAG-CTA
          1 GTGATTATTTAGCAGGCTTCGAGCCGA

                          *    *       
       1418 GTGATTATTTAGCAAGCTTTGAGCC-A
          1 GTGATTATTTAGCAGGCTTCGAGCCGA

                               *  *    
       1444 GTGATTATTTAGCAGGCTTTGATCC-A
          1 GTGATTATTTAGCAGGCTTCGAGCCGA

                          *  *  *      
       1470 GTGATTATTTAGCAAGCCTCAAGCCGA
          1 GTGATTATTTAGCAGGCTTCGAGCCGA

                 *        *         *  
       1497 -TGATCATTTAGCAAGCTTCGAGCTG-
          1 GTGATTATTTAGCAGGCTTCGAGCCGA

                *           
       1522 GTGAATATTTAGCAGG
          1 GTGATTATTTAGCAGG

       1538 TACTGTGTTA


Statistics
Matches: 141,  Mismatches: 25, Indels: 12
        0.79            0.14        0.07

Matches are distributed among these distances:
  25    1  0.01
  26  132  0.94
  27    8  0.06

ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34


Consensus pattern (27 bp):   
GTGATTATTTAGCAGGCTTCGAGCCGA

Done.