Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012337.1 Kokia drynarioides strain JFW-HI SEQ_127339, 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: 10834
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33


Found at i:6257 original size:39 final size:38

Alignment explanation


    Indices: 6195--6285  Score: 96
    Period size: 39  Copynumber: 2.4  Consensus size: 38

       6185 TGTTCTTTTA

                         **                         
       6195 TTTTTTCTTTTTCGCTCTCTTTTT-CTATTCCCTCATGCT
          1 TTTTTTCTTTTTCTATCTCTTTTTGC-ATTCCCTCATG-T

                               *           *       
       6234 CTTTTTTCTTTTTCTAT-TTTTTTTGCATTCTCTCATGT
          1 -TTTTTTCTTTTTCTATCTCTTTTTGCATTCCCTCATGT

                *         
       6272 TTTTCTCTTTTTCT
          1 TTTTTTCTTTTTCT

       6286 TTTGATGTTA


Statistics
Matches: 45,  Mismatches: 5, Indels: 5
        0.82            0.09        0.09

Matches are distributed among these distances:
  37   13  0.29
  38    1  0.02
  39   16  0.36
  40   15  0.33

ACGTcount: A:0.05, C:0.23, G:0.04, T:0.67


Consensus pattern (38 bp):   
TTTTTTCTTTTTCTATCTCTTTTTGCATTCCCTCATGT

Found at i:8532 original size:9 final size:10

Alignment explanation


    Indices: 8509--8534  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       8499 TACGGAAATT

                      
       8509 TTTTTTGAAG
          1 TTTTTTGAAG

                      
       8519 TTTTTTGAAG
          1 TTTTTTGAAG

                  
       8529 TTTTTT
          1 TTTTTT

       8535 TCAAATCGAG


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69


Consensus pattern (10 bp):   
TTTTTTGAAG

Found at i:9185 original size:80 final size:79

Alignment explanation


    Indices: 9046--9201  Score: 258
    Period size: 80  Copynumber: 2.0  Consensus size: 79

       9036 TAGAAACACT

                            *      *    *                                   *
       9046 AATTTCTTTTTAACTCTTGTAGGGAAGCTAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGT
          1 AATTTCTTTTTAACTCATGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGC

                          
       9111 TAAAAAGGCATTGC
         66 TAAAAAGGCATTGC

                                                                             
       9125 AATTTCGTTTTTAACTCATGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAG
          1 AATTTC-TTTTTAACTCATGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAG

              *         
       9190 CTGAAAAGGCAT
         65 CTAAAAAGGCAT

       9202 GACATTTCTC


Statistics
Matches: 71,  Mismatches: 5, Indels: 1
        0.92            0.06        0.01

Matches are distributed among these distances:
  79    6  0.08
  80   65  0.92

ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36


Consensus pattern (79 bp):   
AATTTCTTTTTAACTCATGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGC
TAAAAAGGCATTGC
Done.