Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002684.1 Kokia drynarioides strain JFW-HI SEQ_114951, 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: 20731
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32


Found at i:97 original size:11 final size:11

Alignment explanation


    Indices: 81--105  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

         71 TCACTTATTA

                       
         81 AATAACAAATC
          1 AATAACAAATC

                       
         92 AATAACAAATC
          1 AATAACAAATC

               
        103 AAT
          1 AAT

        106 TTCATAAACA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20


Consensus pattern (11 bp):   
AATAACAAATC

Found at i:141 original size:20 final size:20

Alignment explanation


    Indices: 88--157  Score: 92
    Period size: 20  Copynumber: 3.6  Consensus size: 20

         78 TTAAATAACA

                                
         88 AATCAATAACAAATCAATTT
          1 AATCAATAACAAATCAATTT

            *           *       
        108 CAT--A-AACAACTCAATTT
          1 AATCAATAACAAATCAATTT

                                
        125 AATCAATAACAAATCAATTT
          1 AATCAATAACAAATCAATTT

                         
        145 AATCAAATAACAA
          1 AATC-AATAACAA

        158 CCAAATATCA


Statistics
Matches: 42,  Mismatches: 4, Indels: 7
        0.79            0.08        0.13

Matches are distributed among these distances:
  17   14  0.33
  18    1  0.02
  19    1  0.02
  20   18  0.43
  21    8  0.19

ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27


Consensus pattern (20 bp):   
AATCAATAACAAATCAATTT

Found at i:6557 original size:21 final size:21

Alignment explanation


    Indices: 6516--6569  Score: 65
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       6506 GAAGTTTTTG

                      **         
       6516 GTATCGGTAGTTGCATGACTT
          1 GTATCGGTAGAAGCATGACTT

                                  
       6537 GTATCGGTAGAAGTCAT-ACTT
          1 GTATCGGTAGAAG-CATGACTT

                 *      
       6558 GTATCAGTAGAA
          1 GTATCGGTAGAA

       6570 CTAGTACAGG


Statistics
Matches: 29,  Mismatches: 3, Indels: 2
        0.85            0.09        0.06

Matches are distributed among these distances:
  21   26  0.90
  22    3  0.10

ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33


Consensus pattern (21 bp):   
GTATCGGTAGAAGCATGACTT
Done.