Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008981.1 Kokia drynarioides strain JFW-HI SEQ_123678, 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: 12333
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37


Found at i:1623 original size:17 final size:17

Alignment explanation


    Indices: 1584--1623  Score: 53
    Period size: 17  Copynumber: 2.3  Consensus size: 17

       1574 ATTTTTATTT

                            * 
       1584 AATTATTTTTAATTTTTA
          1 AATT-TTTTTAATTTTAA

            *                
       1602 TATTTTTTTAATTTTAA
          1 AATTTTTTTAATTTTAA

                 
       1619 AATTT
          1 AATTT

       1624 CAATCTTAAT


Statistics
Matches: 19,  Mismatches: 3, Indels: 1
        0.83            0.13        0.04

Matches are distributed among these distances:
  17   16  0.84
  18    3  0.16

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68


Consensus pattern (17 bp):   
AATTTTTTTAATTTTAA

Found at i:9315 original size:32 final size:32

Alignment explanation


    Indices: 9248--9316  Score: 77
    Period size: 32  Copynumber: 2.2  Consensus size: 32

       9238 AGTTTTTTTT

                     *               * **   
       9248 TTTTATAAATGTGTTCAAATGAAGCTCCTCAC
          1 TTTTATAAAAGTGTTCAAATGAAGCGCAACAC

                                    *        
       9280 TTTTATAAAAGTGTTCAAATGAAGGGCAA-ACC
          1 TTTTATAAAAGTGTTCAAATGAAGCGCAACA-C

                 
       9312 TTTTA
          1 TTTTA

       9317 AGATGGTCGA


Statistics
Matches: 31,  Mismatches: 5, Indels: 2
        0.82            0.13        0.05

Matches are distributed among these distances:
  31    1  0.03
  32   30  0.97

ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36


Consensus pattern (32 bp):   
TTTTATAAAAGTGTTCAAATGAAGCGCAACAC

Found at i:12308 original size:21 final size:21

Alignment explanation


    Indices: 12284--12323  Score: 55
    Period size: 21  Copynumber: 1.9  Consensus size: 21

      12274 CAATTTGATA

                                  
      12284 ATTTATTA-TTTAAATATATTT
          1 ATTT-TTACTTTAAATATATTT

                        *      
      12305 ATTTTTACTTTATATATAT
          1 ATTTTTACTTTAAATATAT

      12324 ATATATATAT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20    3  0.18
  21   14  0.82

ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62


Consensus pattern (21 bp):   
ATTTTTACTTTAAATATATTT
Done.