Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004534.1 Kokia drynarioides strain JFW-HI SEQ_117986, 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: 3950
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36


Found at i:1298 original size:8 final size:8

Alignment explanation


    Indices: 1262--1289  Score: 56
    Period size: 8  Copynumber: 3.5  Consensus size: 8

       1252 GGTTAAGATT

                    
       1262 AAAATTTA
          1 AAAATTTA

                    
       1270 AAAATTTA
          1 AAAATTTA

                    
       1278 AAAATTTA
          1 AAAATTTA

                
       1286 AAAA
          1 AAAA

       1290 ATATAAAAAC


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   8   20  1.00

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


Consensus pattern (8 bp):   
AAAATTTA

Found at i:2195 original size:11 final size:9

Alignment explanation


    Indices: 2144--2204  Score: 72
    Period size: 9  Copynumber: 6.7  Consensus size: 9

       2134 TTTTAATATT

                      
       2144 TAAAAATTCA
          1 TAAAAATT-A

                     
       2154 -AAAAATTA
          1 TAAAAATTA

                     
       2162 TAAAAATTA
          1 TAAAAATTA

                *    
       2171 T-AACATTA
          1 TAAAAATTA

                       
       2179 TTAAAAATATA
          1 -TAAAAAT-TA

                     
       2190 TAAAAATTA
          1 TAAAAATTA

                  
       2199 TAAAAA
          1 TAAAAA

       2205 AAACTGTTTT


Statistics
Matches: 45,  Mismatches: 2, Indels: 9
        0.80            0.04        0.16

Matches are distributed among these distances:
   8    7  0.16
   9   25  0.56
  10   11  0.24
  11    2  0.04

ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31


Consensus pattern (9 bp):   
TAAAAATTA

Found at i:2517 original size:20 final size:20

Alignment explanation


    Indices: 2494--2531  Score: 58
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       2484 TTTAAAACTA

                    *  *        
       2494 AATTAAAATCTCATTAATGG
          1 AATTAAAACCTAATTAATGG

                              
       2514 AATTAAAACCTAATTAAT
          1 AATTAAAACCTAATTAAT

       2532 TAGTAATGGT


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  20   16  1.00

ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34


Consensus pattern (20 bp):   
AATTAAAACCTAATTAATGG
Done.