Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001987.1 Kokia drynarioides strain JFW-HI SEQ_113840, 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: 5317
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36


Found at i:411 original size:2 final size:2

Alignment explanation


    Indices: 406--434  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

        396 TTGCTATAAT

                                                       
        406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

        435 GATTTGACAG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:3328 original size:18 final size:18

Alignment explanation


    Indices: 3307--3368  Score: 54
    Period size: 18  Copynumber: 3.4  Consensus size: 18

       3297 CATATTGGGT

                      *       
       3307 TGAGCTTGCATCTTTTGA
          1 TGAGCTTGCAGCTTTTGA

                  * *         
       3325 TGAGCTCGTAGCTTTTGA
          1 TGAGCTTGCAGCTTTTGA

             *      *         *
       3343 TAAGCTTGTAG-TTTTGTT
          1 TGAGCTTGCAGCTTTTG-A

                    
       3361 TGAGCTTG
          1 TGAGCTTG

       3369 TAGTAATGTT


Statistics
Matches: 36,  Mismatches: 7, Indels: 2
        0.80            0.16        0.04

Matches are distributed among these distances:
  17    5  0.14
  18   31  0.86

ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45


Consensus pattern (18 bp):   
TGAGCTTGCAGCTTTTGA

Found at i:3369 original size:18 final size:18

Alignment explanation


    Indices: 3343--3386  Score: 61
    Period size: 18  Copynumber: 2.4  Consensus size: 18

       3333 TAGCTTTTGA

                        **    
       3343 TAAGCTTGTAGTTTTGTT
          1 TAAGCTTGTAGTAATGTT

             *                
       3361 TGAGCTTGTAGTAATGTT
          1 TAAGCTTGTAGTAATGTT

                    
       3379 TAAGCTTG
          1 TAAGCTTG

       3387 CAACTTCAAA


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  18   22  1.00

ACGTcount: A:0.20, C:0.07, G:0.25, T:0.48


Consensus pattern (18 bp):   
TAAGCTTGTAGTAATGTT
Done.