Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002035.1 Kokia drynarioides strain JFW-HI SEQ_113920, 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, 796

Length: 1327
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41


Found at i:355 original size:30 final size:30

Alignment explanation


    Indices: 303--493  Score: 146
    Period size: 30  Copynumber: 6.5  Consensus size: 30

        293 AAGGATCCTG

                   *      ** *            
        303 AATTTTCCAAAAATCCTGTTTTAACCCCTA
          1 AATTTTCTAAAAATTATATTTTAACCCCTA

                                            
        333 AATTTTCTAAAAATTATATTTTAACACTCC--
          1 AATTTTCTAAAAATTATATTTTAAC-C-CCTA

                  * *             *   *   
        363 AATTTTTTGAAAATTATATTTTGACCTCTA
          1 AATTTTCTAAAAATTATATTTTAACCCCTA

                  * *     *               
        393 AATTTTTTGAAAATCATATTTTAACCCCTA
          1 AATTTTCTAAAAATTATATTTTAACCCCTA

                             *             
        423 AACTTTTCT-AAAA-TACATTTTAA-CCCTA
          1 AA-TTTTCTAAAAATTATATTTTAACCCCTA

               *             *      *     *
        451 AA-CTTC-ACAAAATTACATTTT-GCCCCTT
          1 AATTTTCTA-AAAATTATATTTTAACCCCTA

                           
        479 AATTTTCTAAAAATT
          1 AATTTTCTAAAAATT

        494 GCATTTTTAC


Statistics
Matches: 132,  Mismatches: 18, Indels: 23
        0.76            0.10        0.13

Matches are distributed among these distances:
  26    3  0.02
  27    4  0.03
  28   22  0.17
  29   18  0.14
  30   77  0.58
  31    6  0.05
  32    2  0.02

ACGTcount: A:0.37, C:0.19, G:0.03, T:0.42


Consensus pattern (30 bp):   
AATTTTCTAAAAATTATATTTTAACCCCTA

Found at i:467 original size:28 final size:29

Alignment explanation


    Indices: 410--471  Score: 83
    Period size: 28  Copynumber: 2.2  Consensus size: 29

        400 TGAAAATCAT

                              **         
        410 ATTTTAACCCCTAAACTTTTCTAAAATAC
          1 ATTTTAACCCCTAAACTTCACTAAAATAC

                                          
        439 ATTTTAA-CCCTAAACTTCAC-AAAATTAC
          1 ATTTTAACCCCTAAACTTCACTAAAA-TAC

                 
        467 ATTTT
          1 ATTTT

        472 GCCCCTTAAT


Statistics
Matches: 30,  Mismatches: 2, Indels: 3
        0.86            0.06        0.09

Matches are distributed among these distances:
  27    4  0.13
  28   19  0.63
  29    7  0.23

ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39


Consensus pattern (29 bp):   
ATTTTAACCCCTAAACTTCACTAAAATAC

Done.