Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007531.1 Kokia drynarioides strain JFW-HI SEQ_122156, 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: 4154
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36


Found at i:1379 original size:3 final size:3

Alignment explanation


    Indices: 1322--1367  Score: 83
    Period size: 3  Copynumber: 15.3  Consensus size: 3

       1312 CTACTACTAC

                                                    *                    
       1322 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT T
          1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T

       1368 TCAAATATTA


Statistics
Matches: 41,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   3   41  1.00

ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65


Consensus pattern (3 bp):   
TAT

Found at i:1732 original size:31 final size:31

Alignment explanation


    Indices: 1682--1740  Score: 91
    Period size: 31  Copynumber: 1.9  Consensus size: 31

       1672 ACCAGCTTAG

                    *     *                
       1682 GCCTCAATTTGGGAGCAATTGTCAAGTTCAA
          1 GCCTCAATGTGGGAACAATTGTCAAGTTCAA

                *                       
       1713 GCCTTAATGTGGGAACAATTGTCAAGTT
          1 GCCTCAATGTGGGAACAATTGTCAAGTT

       1741 TAAGGACTAA


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  31   25  1.00

ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31


Consensus pattern (31 bp):   
GCCTCAATGTGGGAACAATTGTCAAGTTCAA

Found at i:2698 original size:15 final size:16

Alignment explanation


    Indices: 2672--2701  Score: 53
    Period size: 15  Copynumber: 1.9  Consensus size: 16

       2662 TATGTTATTT

                            
       2672 ATTTTTATATATTTAC
          1 ATTTTTATATATTTAC

                           
       2688 ATTTTTA-ATATTTA
          1 ATTTTTATATATTTA

       2702 TTTATACTTT


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    7  0.50
  16    7  0.50

ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63


Consensus pattern (16 bp):   
ATTTTTATATATTTAC
Done.