Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010559.1 Kokia drynarioides strain JFW-HI SEQ_125480, 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: 5870
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32


Found at i:124 original size:30 final size:33

Alignment explanation


    Indices: 90--150  Score: 92
    Period size: 33  Copynumber: 1.9  Consensus size: 33

         80 TGTTTTTACT

                          *                  
         90 ATATT-AAAATTT-TAA-AAAAAATATTTTTGA
          1 ATATTAAAAATTTGAAATAAAAAATATTTTTGA

                                           
        120 ATATTAAAAATTTGAAATAAAAAATATTTTT
          1 ATATTAAAAATTTGAAATAAAAAATATTTTT

        151 AAAATTTTAA


Statistics
Matches: 27,  Mismatches: 1, Indels: 3
        0.87            0.03        0.10

Matches are distributed among these distances:
  30    5  0.19
  31    7  0.26
  32    2  0.07
  33   13  0.48

ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43


Consensus pattern (33 bp):   
ATATTAAAAATTTGAAATAAAAAATATTTTTGA

Found at i:163 original size:33 final size:31

Alignment explanation


    Indices: 73--163  Score: 85
    Period size: 33  Copynumber: 2.8  Consensus size: 31

         63 TAAATAAATG

                         * *             *   
         73 AAAAATATGTTTTTACTATATTAAAATTTTAAA
          1 AAAAATAT-TTTTAAATAT-TTAAAATTTAAAA

                        *      *             
        106 AAAAATATTTTTGAATATTAAAAATTTGAAATA
          1 AAAAATATTTTTAAATATTTAAAATTT-AAA-A

                                      
        139 AAAAATATTTTTAAA-ATTTTAAAAT
          1 AAAAATATTTTTAAATA-TTTAAAAT

        164 GACAAATTAA


Statistics
Matches: 49,  Mismatches: 6, Indels: 6
        0.80            0.10        0.10

Matches are distributed among these distances:
  31    8  0.16
  32   11  0.22
  33   30  0.61

ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43


Consensus pattern (31 bp):   
AAAAATATTTTTAAATATTTAAAATTTAAAA

Found at i:2136 original size:6 final size:6

Alignment explanation


    Indices: 2121--2150  Score: 51
    Period size: 6  Copynumber: 5.0  Consensus size: 6

       2111 TTCAGCCGTT

                        *                     
       2121 TGAGCC TGAGCT TGAGCC TGAGCC TGAGCC
          1 TGAGCC TGAGCC TGAGCC TGAGCC TGAGCC

       2151 GCAGTACTAT


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20


Consensus pattern (6 bp):   
TGAGCC

Done.