Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003691.1 Kokia drynarioides strain JFW-HI SEQ_116621, 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: 9058
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:4143 original size:20 final size:20

Alignment explanation


    Indices: 4118--4176  Score: 91
    Period size: 20  Copynumber: 3.0  Consensus size: 20

       4108 TACATCACTC

                                
       4118 GATTATATGACATGTACTAG
          1 GATTATATGACATGTACTAG

                                
       4138 GATTATATGACATGTACTAG
          1 GATTATATGACATGTACTAG

               * *     *       
       4158 GATGAAATGACTTGTACTA
          1 GATTATATGACATGTACTA

       4177 CTTGTATGGA


Statistics
Matches: 36,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  20   36  1.00

ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34


Consensus pattern (20 bp):   
GATTATATGACATGTACTAG

Found at i:7860 original size:18 final size:18

Alignment explanation


    Indices: 7837--7873  Score: 58
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       7827 TGAAATAAGG

                               
       7837 AAATAAAA-ACAATATATA
          1 AAATAAAATA-AATATATA

                              
       7855 AAATAAAATAAATATATA
          1 AAATAAAATAAATATATA

             
       7873 A
          1 A

       7874 CTATATTACA


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  18   17  0.94
  19    1  0.06

ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24


Consensus pattern (18 bp):   
AAATAAAATAAATATATA

Found at i:8460 original size:22 final size:22

Alignment explanation


    Indices: 8435--8495  Score: 58
    Period size: 22  Copynumber: 3.0  Consensus size: 22

       8425 ACATTGACAT

                                  
       8435 TTTATGGATTTTAGTTTTATTA
          1 TTTATGGATTTTAGTTTTATTA

                 **              *
       8457 TTTATTTATTTT-GTTTT-TTC
          1 TTTATGGATTTTAGTTTTATTA

                   *             
       8477 TTT-TGGTTTTTA-TTTTATT
          1 TTTATGGATTTTAGTTTTATT

       8496 TTGTATTGGG


Statistics
Matches: 31,  Mismatches: 6, Indels: 6
        0.72            0.14        0.14

Matches are distributed among these distances:
  19    9  0.29
  20    7  0.23
  21    5  0.16
  22   10  0.32

ACGTcount: A:0.15, C:0.02, G:0.10, T:0.74


Consensus pattern (22 bp):   
TTTATGGATTTTAGTTTTATTA
Done.