Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009101.1 Kokia drynarioides strain JFW-HI SEQ_123802, 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: 4740
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34


Found at i:3170 original size:15 final size:16

Alignment explanation


    Indices: 3150--3189  Score: 55
    Period size: 16  Copynumber: 2.5  Consensus size: 16

       3140 TATAGTTTCA

                            
       3150 TATAGTTTCACA-ATC
          1 TATAGTTTCACATATC

                          *  
       3165 TATAGTTTTCACATTTC
          1 TATAG-TTTCACATATC

                    
       3182 TATAGTTT
          1 TATAGTTT

       3190 TAAAGTTAAT


Statistics
Matches: 22,  Mismatches: 1, Indels: 3
        0.85            0.04        0.12

Matches are distributed among these distances:
  15    5  0.23
  16   10  0.45
  17    7  0.32

ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50


Consensus pattern (16 bp):   
TATAGTTTCACATATC

Found at i:3185 original size:17 final size:17

Alignment explanation


    Indices: 3145--3190  Score: 60
    Period size: 17  Copynumber: 2.8  Consensus size: 17

       3135 TTAACTATAG

                              
       3145 TTTCATATAG-TTTCACA
          1 TTTC-TATAGTTTTCACA

             *               
       3162 -ATCTATAGTTTTCACA
          1 TTTCTATAGTTTTCACA

                         
       3178 TTTCTATAGTTTT
          1 TTTCTATAGTTTT

       3191 AAAGTTAATA


Statistics
Matches: 25,  Mismatches: 2, Indels: 4
        0.81            0.06        0.13

Matches are distributed among these distances:
  15    5  0.20
  16    9  0.36
  17   11  0.44

ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52


Consensus pattern (17 bp):   
TTTCTATAGTTTTCACA

Found at i:4254 original size:21 final size:21

Alignment explanation


    Indices: 4230--4269  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       4220 CACATAGCAC

                 *               
       4230 ATTGTGGAAAACGACCACAAA
          1 ATTGTCGAAAACGACCACAAA

                         *     
       4251 ATTGTCGAAAACGGCCACA
          1 ATTGTCGAAAACGACCACA

       4270 TAATCACAGT


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15


Consensus pattern (21 bp):   
ATTGTCGAAAACGACCACAAA
Done.