Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001175.1 Kokia drynarioides strain JFW-HI SEQ_112505, 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: 15172
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:4448 original size:58 final size:58

Alignment explanation


    Indices: 4358--4475  Score: 236
    Period size: 58  Copynumber: 2.0  Consensus size: 58

       4348 TTGAAGCAAA

                                                                      
       4358 GATGAATCGAGCATTTCCCGGCCATTGCTTCTTGTTTGCTATGTAATGGAATGGCAGT
          1 GATGAATCGAGCATTTCCCGGCCATTGCTTCTTGTTTGCTATGTAATGGAATGGCAGT

                                                                      
       4416 GATGAATCGAGCATTTCCCGGCCATTGCTTCTTGTTTGCTATGTAATGGAATGGCAGT
          1 GATGAATCGAGCATTTCCCGGCCATTGCTTCTTGTTTGCTATGTAATGGAATGGCAGT

              
       4474 GA
          1 GA

       4476 ATGACGCACT


Statistics
Matches: 60,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  58   60  1.00

ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34


Consensus pattern (58 bp):   
GATGAATCGAGCATTTCCCGGCCATTGCTTCTTGTTTGCTATGTAATGGAATGGCAGT

Found at i:6656 original size:20 final size:20

Alignment explanation


    Indices: 6617--6661  Score: 56
    Period size: 20  Copynumber: 2.2  Consensus size: 20

       6607 TTTTTTTCTA

                        *  *    
       6617 TTTTTTTTAATTGTTTAATT
          1 TTTTTTTTAATTATTCAATT

                                 
       6637 TCTTTTTTTAA-TATTCAATT
          1 T-TTTTTTTAATTATTCAATT

                 
       6657 TTTTT
          1 TTTTT

       6662 AAATTTTATC


Statistics
Matches: 22,  Mismatches: 2, Indels: 3
        0.81            0.07        0.11

Matches are distributed among these distances:
  19    4  0.18
  20    9  0.41
  21    9  0.41

ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73


Consensus pattern (20 bp):   
TTTTTTTTAATTATTCAATT

Found at i:7348 original size:15 final size:16

Alignment explanation


    Indices: 7330--7363  Score: 52
    Period size: 15  Copynumber: 2.2  Consensus size: 16

       7320 AAAAAAAAAA

                            
       7330 TTGAAGAAG-AAAATT
          1 TTGAAGAAGTAAAATT

                      *     
       7345 TTGAAGAAGTGAAATT
          1 TTGAAGAAGTAAAATT

               
       7361 TTG
          1 TTG

       7364 TTTAAACAAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  15    9  0.53
  16    8  0.47

ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32


Consensus pattern (16 bp):   
TTGAAGAAGTAAAATT

Done.