Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012244.1 Kokia drynarioides strain JFW-HI SEQ_127245, 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: 11039
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.34

Warning! 253 characters in sequence are not A, C, G, or T


Found at i:3008 original size:64 final size:64

Alignment explanation


    Indices: 2930--3055  Score: 161
    Period size: 64  Copynumber: 2.0  Consensus size: 64

       2920 AAGAATTAAG

                                                                       *     
       2930 TGAATAATTCTGTTTCGA-GATTTATTC-CTACT-TTCAA-TAGATTTTATTCTATATTTGATTT
          1 TGAATAATTCTGTTTC-ATGATTTATTCTC-ACTATTCAACT-GATTTTATTCTAT-TTGGATTT

               
       2991 TGT
         62 TGT

                     *                   *                                
       2994 TGAATAATTTTGTTTCATGATTTATTCTCGCTATTCAACTGATTTTATTCTATTTGGATTTT
          1 TGAATAATTCTGTTTCATGATTTATTCTCACTATTCAACTGATTTTATTCTATTTGGATTTT

       3056 ATTTCCAAAC


Statistics
Matches: 55,  Mismatches: 3, Indels: 8
        0.83            0.05        0.12

Matches are distributed among these distances:
  63    1  0.02
  64   34  0.62
  65   19  0.35
  66    1  0.02

ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54


Consensus pattern (64 bp):   
TGAATAATTCTGTTTCATGATTTATTCTCACTATTCAACTGATTTTATTCTATTTGGATTTTGT

Found at i:3182 original size:150 final size:146

Alignment explanation


    Indices: 2899--3198  Score: 420
    Period size: 150  Copynumber: 2.0  Consensus size: 146

       2889 ATTTGATTTG

                *      *        *                                      *     
       2899 ATTTTGATTTTGTTTCCAAATAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTCCTACTTT
          1 ATTTGGATTTTATTTCCAAACAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTCCGACTTT

            *  *                                           *         * *     
       2964 CAATAGATTTTATTCTATATTTGATTTTGTTGAATAATTTTGTTTCATGATTTATTCTCGCTATT
         66 AAACAGATTTTATTCTATATTTGATTTTGTTGAATAATTTTGTTTCAGGATTTATTCCCACTATT

                *           
       3029 CAACTGATTTTATTCT
        131 CAACCGATTTTATTCT

                                         *      *                            
       3045 ATTTGGATTTTATTTCCAAACAAGAATTATGTGAATGATTCTGTTTCGAGATTTATTCCCGACGT
          1 ATTTGGATTTTATTTCCAAACAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATT-CCGAC-T

                                                 *            *             *
       3110 TTAAAAACAGATTTTATTCTATATTTGATTTTGTTGATTAATTTTGTTTCGGGATTTATTCCCAT
         64 TT--AAACAGATTTTATTCTATATTTGATTTTGTTGAATAATTTTGTTTCAGGATTTATTCCCAC

             *                  
       3175 TTTTCAACCGATTTTATTCT
        127 TATTCAACCGATTTTATTCT

                
       3195 ATTT
          1 ATTT

       3199 TGCAGATGTG


Statistics
Matches: 134,  Mismatches: 16, Indels: 4
        0.87            0.10        0.03

Matches are distributed among these distances:
 146   52  0.39
 147    4  0.03
 148    3  0.02
 150   75  0.56

ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50


Consensus pattern (146 bp):   
ATTTGGATTTTATTTCCAAACAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTCCGACTTT
AAACAGATTTTATTCTATATTTGATTTTGTTGAATAATTTTGTTTCAGGATTTATTCCCACTATT
CAACCGATTTTATTCT
Done.