Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011847.1 Kokia drynarioides strain JFW-HI SEQ_126843, 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: 1680
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36


Found at i:262 original size:9 final size:9

Alignment explanation


    Indices: 250--275  Score: 52
    Period size: 9  Copynumber: 2.9  Consensus size: 9

        240 TTATTACTAT

                     
        250 AATAAAGAA
          1 AATAAAGAA

                     
        259 AATAAAGAA
          1 AATAAAGAA

                    
        268 AATAAAGA
          1 AATAAAGA

        276 CTTCTCTTTT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   17  1.00

ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12


Consensus pattern (9 bp):   
AATAAAGAA

Found at i:401 original size:3 final size:3

Alignment explanation


    Indices: 393--418  Score: 52
    Period size: 3  Copynumber: 8.7  Consensus size: 3

        383 ATGGTGCAGC

                                              
        393 TTA TTA TTA TTA TTA TTA TTA TTA TT
          1 TTA TTA TTA TTA TTA TTA TTA TTA TT

        419 GTAGTGCTGC


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   23  1.00

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (3 bp):   
TTA

Found at i:995 original size:29 final size:28

Alignment explanation


    Indices: 975--1038  Score: 76
    Period size: 29  Copynumber: 2.2  Consensus size: 28

        965 TTTTAAATTA

                       *                 
        975 AAAAATAGAAAGAATAAATTTATAATAGT
          1 AAAAATA-AAAAAATAAATTTATAATAGT

                                    *     
       1004 AAAAATAAAAAAATAAAATTTAATTATA-T
          1 AAAAATAAAAAAAT-AAATTT-ATAATAGT

                  
       1033 AAAAAT
          1 AAAAAT

       1039 GAGCTTATTT


Statistics
Matches: 31,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  28    6  0.19
  29   20  0.65
  30    5  0.16

ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28


Consensus pattern (28 bp):   
AAAAATAAAAAAATAAATTTATAATAGT
Done.