Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003586.1 Kokia drynarioides strain JFW-HI SEQ_116460, 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: 14151
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34


Found at i:1338 original size:18 final size:18

Alignment explanation


    Indices: 1315--1350  Score: 54
    Period size: 18  Copynumber: 2.0  Consensus size: 18

       1305 TAGAACAAAA

                              
       1315 AAATTTAAAATATATTTT
          1 AAATTTAAAATATATTTT

                  *    *      
       1333 AAATTTTAAATTTATTTT
          1 AAATTTAAAATATATTTT

       1351 GGGTTATTGA


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56


Consensus pattern (18 bp):   
AAATTTAAAATATATTTT

Found at i:7779 original size:23 final size:21

Alignment explanation


    Indices: 7730--7780  Score: 57
    Period size: 23  Copynumber: 2.3  Consensus size: 21

       7720 TATTTTTAAT

                              * *
       7730 TAAATTTCATTTTAAAAATTT
          1 TAAATTTCATTTTAAAAAATA

             *                     
       7751 TCAATTTCAATTTTTAAAAAATA
          1 TAAATTTC-A-TTTTAAAAAATA

                   
       7774 TAAATTT
          1 TAAATTT

       7781 AAGTCAACTT


Statistics
Matches: 24,  Mismatches: 4, Indels: 2
        0.80            0.13        0.07

Matches are distributed among these distances:
  21    7  0.29
  22    1  0.04
  23   16  0.67

ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49


Consensus pattern (21 bp):   
TAAATTTCATTTTAAAAAATA

Found at i:8034 original size:14 final size:14

Alignment explanation


    Indices: 8000--8034  Score: 61
    Period size: 14  Copynumber: 2.5  Consensus size: 14

       7990 TTGTCATTTC

                  *       
       8000 ATTATTATGTTGTT
          1 ATTATTTTGTTGTT

                          
       8014 ATTATTTTGTTGTT
          1 ATTATTTTGTTGTT

                   
       8028 ATTATTT
          1 ATTATTT

       8035 GAATATTGTA


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  14   20  1.00

ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69


Consensus pattern (14 bp):   
ATTATTTTGTTGTT

Found at i:12149 original size:18 final size:18

Alignment explanation


    Indices: 12126--12161  Score: 54
    Period size: 18  Copynumber: 2.0  Consensus size: 18

      12116 TAGAACAAAA

                              
      12126 AAATTTAAAATATATTTT
          1 AAATTTAAAATATATTTT

                  *    *      
      12144 AAATTTTAAATTTATTTT
          1 AAATTTAAAATATATTTT

      12162 GGGTTATTGA


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56


Consensus pattern (18 bp):   
AAATTTAAAATATATTTT
Done.