Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003213.1 Kokia drynarioides strain JFW-HI SEQ_115837, 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: 11231
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33

Warning! 74 characters in sequence are not A, C, G, or T


Found at i:1275 original size:13 final size:13

Alignment explanation


    Indices: 1257--1282  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       1247 TTGGGCTTGA

                         
       1257 TTTGTAATTGGAC
          1 TTTGTAATTGGAC

                         
       1270 TTTGTAATTGGAC
          1 TTTGTAATTGGAC

       1283 ATTATTTAAA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46


Consensus pattern (13 bp):   
TTTGTAATTGGAC

Found at i:1312 original size:17 final size:17

Alignment explanation


    Indices: 1286--1339  Score: 83
    Period size: 17  Copynumber: 3.2  Consensus size: 17

       1276 ATTGGACATT

                             
       1286 ATTT-AAATAAATTTAA
          1 ATTTAAAATAAATTTAA

                        *    
       1302 ATTTAAAATAAACTTAA
          1 ATTTAAAATAAATTTAA

            *                
       1319 TTTTAAAATAAATTTAA
          1 ATTTAAAATAAATTTAA

                
       1336 ATTT
          1 ATTT

       1340 TGTTGGGCCC


Statistics
Matches: 33,  Mismatches: 4, Indels: 1
        0.87            0.11        0.03

Matches are distributed among these distances:
  16    4  0.12
  17   29  0.88

ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44


Consensus pattern (17 bp):   
ATTTAAAATAAATTTAA

Found at i:1649 original size:30 final size:29

Alignment explanation


    Indices: 1607--1698  Score: 93
    Period size: 29  Copynumber: 3.2  Consensus size: 29

       1597 TTATTTTTTA

                                         
       1607 TTTTTT-ATTTTTAAGAGGCTCAAAATTT
          1 TTTTTTAATTTTTAAGAGGCTCAAAATTT

                                           
       1635 TTCTTTTAATTTTTAA-AGG-TCAAAAATTT
          1 TT-TTTTAATTTTTAAGAGGCTC-AAAATTT

                  *  *             *  *   
       1664 TTTTATCAACTTTTAAG-GGCTCCAATTTT
          1 TTTT-TTAATTTTTAAGAGGCTCAAAATTT

                  
       1693 TTTTTT
          1 TTTTTT

       1699 TTTNNNNNNN


Statistics
Matches: 53,  Mismatches: 5, Indels: 12
        0.76            0.07        0.17

Matches are distributed among these distances:
  28    7  0.13
  29   36  0.68
  30   10  0.19

ACGTcount: A:0.27, C:0.10, G:0.09, T:0.54


Consensus pattern (29 bp):   
TTTTTTAATTTTTAAGAGGCTCAAAATTT
Done.