Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013062.1 Kokia drynarioides strain JFW-HI SEQ_128080, 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: 2881
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35


Found at i:280 original size:72 final size:71

Alignment explanation


    Indices: 181--546  Score: 464
    Period size: 72  Copynumber: 5.1  Consensus size: 71

        171 AATGGGAACT

                             *                            *              *   
        181 TCTAATAAATCTGCGAAGGCTTTCTCTCGGGAATTTTCCCAATTTAGCATCGCTTCCGGAGAGGA
          1 TCTAATAAATCTGC-AAAGCTTTCTCTCGGGAATTTTCCCAATTTAACATCGCTTCCGGAGGGGA

                   
        246 TTCAACA
         65 TTCAACA

                      *                  *                *            * *   
        253 TCTAATAAATTTGCAAAGCCTTTCTCTCGAGAATTTTCCCAATTTAGCATCGCTTCCGGTGTGGA
          1 TCTAATAAATCTGCAAAG-CTTTCTCTCGGGAATTTTCCCAATTTAACATCGCTTCCGGAGGGGA

                   
        318 TTCAACA
         65 TTCAACA

                                   *      *    * *             *          *  
        325 TCTAATAAATCTGCAAAGGCTTTTTCTCGTTG-ATCTGCCCAATTTAACATTGCTTCCGGAGTGG
          1 TCTAATAAATCTGCAAA-GCTTTCTCTCG-GGAATTTTCCCAATTTAACATCGCTTCCGGAGGGG

                    
        389 ATTCAACA
         64 ATTCAACA

                                        *                   *  *   *         
        397 TCTAATAAATCTGCAAGAGCTTTCTCTCAGGAATTTTCCCAATTTAACGTCACTTTCGGAGGGGA
          1 TCTAATAAATCTGCAA-AGCTTTCTCTCGGGAATTTTCCCAATTTAACATCGCTTCCGGAGGGGA

                   
        462 TTCAACA
         65 TTCAACA

             *                          * *     *           *                
        469 TTTAATAAATCTGCAACAGCTTTCTCTCTGAAATTTGCCCAATTTAACGTCGCTTCCGGAGGGGA
          1 TCTAATAAATCTGCAA-AGCTTTCTCTCGGGAATTTTCCCAATTTAACATCGCTTCCGGAGGGGA

                   
        534 TTCAACA
         65 TTCAACA

                  
        541 TCTAAT
          1 TCTAAT

        547 CAATTTGAAA


Statistics
Matches: 258,  Mismatches: 31, Indels: 10
        0.86            0.10        0.03

Matches are distributed among these distances:
  71    4  0.02
  72  251  0.97
  73    3  0.01

ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33


Consensus pattern (71 bp):   
TCTAATAAATCTGCAAAGCTTTCTCTCGGGAATTTTCCCAATTTAACATCGCTTCCGGAGGGGAT
TCAACA

Found at i:692 original size:6 final size:6

Alignment explanation


    Indices: 681--714  Score: 59
    Period size: 6  Copynumber: 5.7  Consensus size: 6

        671 TATTGAAATA

                                        *          
        681 CTACTC CTACTC CTACTC CTACTC ATACTC CTAC
          1 CTACTC CTACTC CTACTC CTACTC CTACTC CTAC

        715 CAATTCTTTA


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   6   26  1.00

ACGTcount: A:0.21, C:0.47, G:0.00, T:0.32


Consensus pattern (6 bp):   
CTACTC

Done.