Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014807.1 Kokia drynarioides strain JFW-HI SEQ_129849, 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: 9086
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.34

Warning! 300 characters in sequence are not A, C, G, or T


Found at i:7518 original size:57 final size:57

Alignment explanation


    Indices: 7430--7544  Score: 230
    Period size: 57  Copynumber: 2.0  Consensus size: 57

       7420 GTTTGATATG

                                                                     
       7430 TATAATAAGCGAGGTGAAAATAAAAATGTTTTGTAAAATCATATAAATACAAATCAA
          1 TATAATAAGCGAGGTGAAAATAAAAATGTTTTGTAAAATCATATAAATACAAATCAA

                                                                     
       7487 TATAATAAGCGAGGTGAAAATAAAAATGTTTTGTAAAATCATATAAATACAAATCAA
          1 TATAATAAGCGAGGTGAAAATAAAAATGTTTTGTAAAATCATATAAATACAAATCAA

             
       7544 T
          1 T

       7545 CTTAATTTCT


Statistics
Matches: 58,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  57   58  1.00

ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29


Consensus pattern (57 bp):   
TATAATAAGCGAGGTGAAAATAAAAATGTTTTGTAAAATCATATAAATACAAATCAA

Found at i:8560 original size:7 final size:7

Alignment explanation


    Indices: 8551--8588  Score: 60
    Period size: 7  Copynumber: 5.6  Consensus size: 7

       8541 AGAGTTTGGG

                  *
       8551 GTTTAAG
          1 GTTTAAA

                   
       8558 GTTTAAA
          1 GTTTAAA

                   
       8565 GTTTAAA
          1 GTTTAAA

                   
       8572 GTTT-AA
          1 GTTTAAA

                   
       8578 GTTTAAA
          1 GTTTAAA

                
       8585 GTTT
          1 GTTT

       8589 GGGGTTCTAG


Statistics
Matches: 29,  Mismatches: 1, Indels: 2
        0.91            0.03        0.06

Matches are distributed among these distances:
   6    6  0.21
   7   23  0.79

ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47


Consensus pattern (7 bp):   
GTTTAAA

Found at i:8581 original size:13 final size:14

Alignment explanation


    Indices: 8551--8588  Score: 60
    Period size: 13  Copynumber: 2.8  Consensus size: 14

       8541 AGAGTTTGGG

                  *       
       8551 GTTTAAGGTTTAAA
          1 GTTTAAAGTTTAAA

                          
       8565 GTTTAAAGTTT-AA
          1 GTTTAAAGTTTAAA

                       
       8578 GTTTAAAGTTT
          1 GTTTAAAGTTT

       8589 GGGGTTCTAG


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  13   13  0.57
  14   10  0.43

ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47


Consensus pattern (14 bp):   
GTTTAAAGTTTAAA
Done.