Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006788.1 Kokia drynarioides strain JFW-HI SEQ_121387, 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: 11614
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33


Found at i:4447 original size:21 final size:21

Alignment explanation


    Indices: 4423--4474  Score: 70
    Period size: 21  Copynumber: 2.5  Consensus size: 21

       4413 AGATTTGTAC

                                  
       4423 CGATACAAGTGA-TAGTTCTAT
          1 CGATACAAGTGACTAG-TCTAT

                          *      
       4444 CGATACAAGTGACTCGTCTAT
          1 CGATACAAGTGACTAGTCTAT

            *         
       4465 TGATACAAGT
          1 CGATACAAGT

       4475 CTTACCTCTA


Statistics
Matches: 28,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  21   26  0.93
  22    2  0.07

ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31


Consensus pattern (21 bp):   
CGATACAAGTGACTAGTCTAT

Found at i:8095 original size:45 final size:45

Alignment explanation


    Indices: 8030--8202  Score: 274
    Period size: 45  Copynumber: 3.8  Consensus size: 45

       8020 AGTGAAACAT

                           *                           * 
       8030 ATATCATGCATATCGAATAGCATAATCAATCAAATAATATTTACC
          1 ATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTATC

                                        *                
       8075 ATATCATGCATATCGTATAGCATAATCATTCAAATAATATTTATC
          1 ATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTATC

                         *            *                  
       8120 ATATCATGCATATAGTATAGCATAATTAATCAAATAATATTTATC
          1 ATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTATC

                 *             *      *           
       8165 ATATCGTGCATATCGTATATCATAATTAATCAAATAAT
          1 ATATCATGCATATCGTATAGCATAATCAATCAAATAAT

       8203 GTTACCCACC


Statistics
Matches: 119,  Mismatches: 9, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  45  119  1.00

ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36


Consensus pattern (45 bp):   
ATATCATGCATATCGTATAGCATAATCAATCAAATAATATTTATC

Done.