Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003465.1 Kokia drynarioides strain JFW-HI SEQ_116264, 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, 685

Length: 1142
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42


Found at i:183 original size:5 final size:5

Alignment explanation


    Indices: 173--210  Score: 55
    Period size: 5  Copynumber: 8.2  Consensus size: 5

        163 TTCTTTTATC

                                                             
        173 TATTT TATTT TA--T TATTT TATTT TATTT T-TTT TATTT T
          1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT T

        211 TTTAGTATGT


Statistics
Matches: 30,  Mismatches: 0, Indels: 6
        0.83            0.00        0.17

Matches are distributed among these distances:
   3    3  0.10
   4    4  0.13
   5   23  0.77

ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82


Consensus pattern (5 bp):   
TATTT

Found at i:186 original size:22 final size:22

Alignment explanation


    Indices: 147--214  Score: 66
    Period size: 22  Copynumber: 3.0  Consensus size: 22

        137 TAAGTCCTTC

                        **    *    
        147 ATTCTATATTTTGCTATTCTTTT
          1 ATTCTAT-TTTTTTTATTATTTT

                                   
        170 A-TCTATTTTATTTTATTATTTT
          1 ATTCTATTTT-TTTTATTATTTT

               *             *    
        192 ATTTTATTTTTTTTATTTTTTT
          1 ATTCTATTTTTTTTATTATTTT

             
        214 A
          1 A

        215 GTATGTTTTA


Statistics
Matches: 38,  Mismatches: 5, Indels: 5
        0.79            0.10        0.10

Matches are distributed among these distances:
  21    3  0.08
  22   27  0.71
  23    8  0.21

ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74


Consensus pattern (22 bp):   
ATTCTATTTTTTTTATTATTTT

Found at i:191 original size:13 final size:13

Alignment explanation


    Indices: 166--210  Score: 63
    Period size: 14  Copynumber: 3.3  Consensus size: 13

        156 TTTGCTATTC

                          
        166 TTTTATCTATTTTA
          1 TTTTAT-TATTTTA

                         
        180 TTTTATTATTTTA
          1 TTTTATTATTTTA

                    *     
        193 TTTTATTTTTTTTA
          1 TTTTA-TTATTTTA

                
        207 TTTT
          1 TTTT

        211 TTTAGTATGT


Statistics
Matches: 29,  Mismatches: 1, Indels: 2
        0.91            0.03        0.06

Matches are distributed among these distances:
  13   12  0.41
  14   17  0.59

ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80


Consensus pattern (13 bp):   
TTTTATTATTTTA

Found at i:223 original size:27 final size:27

Alignment explanation


    Indices: 166--224  Score: 64
    Period size: 27  Copynumber: 2.2  Consensus size: 27

        156 TTTGCTATTC

                                  * *  
        166 TTTTATCTATTTTATTTTATTATTTTA
          1 TTTTATCTATTTTATTTTATTAGTATA

                  * *         *       *
        193 TTTTATTTTTTTTATTTTTTTAGTATG
          1 TTTTATCTATTTTATTTTATTAGTATA

                 
        220 TTTTA
          1 TTTTA

        225 AATCTTTTAC


Statistics
Matches: 26,  Mismatches: 6, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  27   26  1.00

ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76


Consensus pattern (27 bp):   
TTTTATCTATTTTATTTTATTAGTATA
Done.