Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004101.1 Kokia drynarioides strain JFW-HI SEQ_117273, 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: 4710
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34


Found at i:178 original size:14 final size:14

Alignment explanation


    Indices: 159--209  Score: 57
    Period size: 14  Copynumber: 3.6  Consensus size: 14

        149 GATTTGACCC

                    *     
        159 GACCGTTGTCCATT
          1 GACCGTTGACCATT

                      *   
        173 GACCGTTGACAATT
          1 GACCGTTGACCATT

               *         *
        187 GACTGTTGACCATC
          1 GACCGTTGACCATT

               *     
        201 GACAGTTGA
          1 GACCGTTGA

        210 TCGTTGACTT


Statistics
Matches: 31,  Mismatches: 6, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  14   31  1.00

ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29


Consensus pattern (14 bp):   
GACCGTTGACCATT

Found at i:204 original size:21 final size:21

Alignment explanation


    Indices: 171--217  Score: 51
    Period size: 21  Copynumber: 2.2  Consensus size: 21

        161 CCGTTGTCCA

                  * *             
        171 TTGACCGTTGACAATTGA-CTG
          1 TTGACCATCGACAATTGATC-G

                         *       
        192 TTGACCATCGACAGTTGATCG
          1 TTGACCATCGACAATTGATCG

                 
        213 TTGAC
          1 TTGAC

        218 TTTTTTTGAA


Statistics
Matches: 22,  Mismatches: 3, Indels: 2
        0.81            0.11        0.07

Matches are distributed among these distances:
  21   21  0.95
  22    1  0.05

ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32


Consensus pattern (21 bp):   
TTGACCATCGACAATTGATCG

Found at i:2566 original size:3 final size:3

Alignment explanation


    Indices: 2558--2582  Score: 50
    Period size: 3  Copynumber: 8.3  Consensus size: 3

       2548 TGGAAAAAAT

                                             
       2558 ATA ATA ATA ATA ATA ATA ATA ATA A
          1 ATA ATA ATA ATA ATA ATA ATA ATA A

       2583 AACTTGTGGG


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   22  1.00

ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32


Consensus pattern (3 bp):   
ATA

Done.