Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002084.1 Kokia drynarioides strain JFW-HI SEQ_113997, 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: 3283
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39


Found at i:610 original size:17 final size:15

Alignment explanation


    Indices: 588--621  Score: 50
    Period size: 17  Copynumber: 2.1  Consensus size: 15

        578 AGGTCGAATA

                             
        588 AAGAAGAAACAATAAAG
          1 AAGAAGAAA-AA-AAAG

                           
        605 AAGAAGAAAAAAAAG
          1 AAGAAGAAAAAAAAG

              
        620 AA
          1 AA

        622 CAGTGAAAAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  15    6  0.35
  16    2  0.12
  17    9  0.53

ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03


Consensus pattern (15 bp):   
AAGAAGAAAAAAAAG

Found at i:680 original size:9 final size:9

Alignment explanation


    Indices: 656--696  Score: 55
    Period size: 10  Copynumber: 4.2  Consensus size: 9

        646 AAAAGGTTCG

                     
        656 AAAAGAAAA
          1 AAAAGAAAA

                      
        665 GAAAAGAAAA
          1 -AAAAGAAAA

                      
        675 AAAAGAGAAA
          1 AAAAGA-AAA

                      
        685 AAGAAGAAAA
          1 AA-AAGAAAA

              
        695 AA
          1 AA

        697 TGGTTTCTTA


Statistics
Matches: 29,  Mismatches: 0, Indels: 4
        0.88            0.00        0.12

Matches are distributed among these distances:
   9    6  0.21
  10   19  0.66
  11    4  0.14

ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00


Consensus pattern (9 bp):   
AAAAGAAAA

Found at i:2312 original size:17 final size:17

Alignment explanation


    Indices: 2290--2323  Score: 50
    Period size: 17  Copynumber: 2.0  Consensus size: 17

       2280 AGGCTGATAC

                             
       2290 TTAAATTGAGTTTCTTT
          1 TTAAATTGAGTTTCTTT

                   * *       
       2307 TTAAATTTATTTTCTTT
          1 TTAAATTGAGTTTCTTT

       2324 AAATTCTTAG


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65


Consensus pattern (17 bp):   
TTAAATTGAGTTTCTTT
Done.