Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008710.1 Kokia drynarioides strain JFW-HI SEQ_123392, 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: 4305
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31


Found at i:1063 original size:17 final size:17

Alignment explanation


    Indices: 1041--1073  Score: 66
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       1031 ACTAACACTA

                             
       1041 AAATGCAATGACAATGG
          1 AAATGCAATGACAATGG

                            
       1058 AAATGCAATGACAATG
          1 AAATGCAATGACAATG

       1074 TGTACTAACA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.48, C:0.12, G:0.21, T:0.18


Consensus pattern (17 bp):   
AAATGCAATGACAATGG

Found at i:2650 original size:9 final size:9

Alignment explanation


    Indices: 2636--2660  Score: 50
    Period size: 9  Copynumber: 2.8  Consensus size: 9

       2626 TTAAAACAAG

                     
       2636 TATAAAACA
          1 TATAAAACA

                     
       2645 TATAAAACA
          1 TATAAAACA

                   
       2654 TATAAAA
          1 TATAAAA

       2661 AAACTTAACT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   16  1.00

ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24


Consensus pattern (9 bp):   
TATAAAACA

Found at i:4001 original size:17 final size:17

Alignment explanation


    Indices: 3958--4002  Score: 54
    Period size: 17  Copynumber: 2.6  Consensus size: 17

       3948 TCACAACTCT

                             
       3958 CATGTTGTTATAGCTCA
          1 CATGTTGTTATAGCTCA

               * *          *
       3975 CATATCGTTATAGCTCG
          1 CATGTTGTTATAGCTCA

             *         
       3992 CGTGTTGTTAT
          1 CATGTTGTTAT

       4003 TACTTGCTTA


Statistics
Matches: 22,  Mismatches: 6, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  17   22  1.00

ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42


Consensus pattern (17 bp):   
CATGTTGTTATAGCTCA
Done.