Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009261.1 Kokia drynarioides strain JFW-HI SEQ_123966, 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: 8465
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33


Found at i:761 original size:30 final size:28

Alignment explanation


    Indices: 725--781  Score: 78
    Period size: 30  Copynumber: 2.0  Consensus size: 28

        715 TATTTTAATA

                          *               
        725 AATTTAATACTTATTTTGATAGTATAAATT
          1 AATTTAATACTTATCTTG-TAG-ATAAATT

                     *                 
        755 AATTTAATATTTATCTTGTAGATAAAT
          1 AATTTAATACTTATCTTGTAGATAAAT

        782 ATTCTACTAA


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  28    6  0.24
  29    3  0.12
  30   16  0.64

ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49


Consensus pattern (28 bp):   
AATTTAATACTTATCTTGTAGATAAATT

Found at i:2218 original size:47 final size:46

Alignment explanation


    Indices: 2111--2226  Score: 146
    Period size: 47  Copynumber: 2.5  Consensus size: 46

       2101 TCAAGAAAAA

                            *                     *    *   
       2111 TGGGAGGATTTTGATTCTTGGGGTAAAGGGGGGAAATACAAAATTTT
          1 TGGGA-GATTTTGATTTTTGGGGTAAAGGGGGGAAATAAAAAAATTT

                    *                                        
       2158 TAGGG-GACTTTGATTTTTGGGGTAAAAGGGGTGG-AATAAAAAAATTT
          1 T-GGGAGATTTTGATTTTTGGGGT-AAAGGGG-GGAAATAAAAAAATTT

                                  
       2205 TGGGAGATTTTGATTTTTGGGG
          1 TGGGAGATTTTGATTTTTGGGG

       2227 GTGAATGAGG


Statistics
Matches: 60,  Mismatches: 5, Indels: 8
        0.82            0.07        0.11

Matches are distributed among these distances:
  46   19  0.32
  47   36  0.60
  48    5  0.08

ACGTcount: A:0.28, C:0.03, G:0.34, T:0.34


Consensus pattern (46 bp):   
TGGGAGATTTTGATTTTTGGGGTAAAGGGGGGAAATAAAAAAATTT
Done.